Citrus Sinensis ID: 013506

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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-
Protein Sequence
MESKGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFIFQLS
Secondary Structure (PSIPRED)
cccccccccccccccccccccccHHHHHHHHHHHHHHHcccHHHHHHcccccccEEEEEccccccHHHHHHHHHHHHccEEEEEcccccccccccHHHHHHHHHHHHHHHHccccccEEEEEcccccccccccccccccHHHHHHHHHHHHcccccccccccEEEEEEccccccccHHHcccccccEEEEEccccHHHHHHHHHHHHccccccccccHHHHHHHccccHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHcccccccccEEEcccccccccccHHHHHHHHHHHHHHHcccHHHHHHcccccccEEEEEccccccHHHHHHHHHHHccccEEEEcccccccccccHHHHHHHHHHHHHHHcccEEEEEEccccccccccccccccccHHHHHHHHHHHHHHcccccccEEEEEEEEEccc
Secondary Structure Prediction (SSPRO)
ccccccEEEEcccccccHHHcccHHHHHHHHHHHHccccccHHHHHHcccccccEEEEEccccccHHHHHHHHHHHcccEEEEEccHHHHHHHHcHcHHHHHHHHHHHHHHHHccccEEEEEccHHHHcccccccccHHHHHHHHHHHHHccccccHHccccEEEEEEccccccccHHHcccccccEEEEEccccHHHHHHHHHHHHccccccccccHHHHHHHHccccHHHHHHHHHHHHHHHHHHHccHccHHHHccccHHHHHHHHccccccccEEEEEEcccccHHHcccHHHHHHHHHHHHccccccHHHHHHcccccccEEEEEccccccHHHHHHHHHHHcccEEEEEccHHHHHHHHcHcHHHHHHHHHHHHHcccEEEEEEcHHHHcccccccccccccHHHHHHHHHHHHHccHHccccEEEEEEcccccc
Coil and Loop (DISEMBL)
meskgrimsehnEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLglkwprglllygppgtgktSLVRAVVRECGAhltvisphsvhkahvgeSEKALREAFSQASshalsgkpsvvFIDEidalcprrdhrreQDVRIASQLFTlmdsnkpsktsvpHVVVVAStnrvdaidpalrrsgrfdaevevtvPTAEERFEILKLYTkkvpldanvDLEAIATSCNGYVGADLEALCREATMSAVkrssdanecAGVLSVTMEDWRharsvvgpsitrgvtveipkvtwediggLRDLKKKLQQAVewpikhstafsrlgispvrgallhgppgcskTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARlaapsiiffdeadvvgakrggssstsITVGERLLSTLLTEMDGLEQAKVIIYPISFIFQLS
Flexible Loop (DISEMBL)
meskgrimsehnekwkaeeaigGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHltvisphsvhkAHVGESEKALREAFSQASshalsgkpsvvFIDEIDALcprrdhrreQDVRIASQLftlmdsnkpsktsvPHVVVVAstnrvdaidpalrrsgrfdaevevtvptaeeRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSavkrssdaneCAGVLSVTmedwrharsvvgpsitrgvtveipkvtwedigglRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGakrggssstsitvGERLLSTLLTEMDGLEQAKVIIYPISFIFQLS
Low Complexity Region (SEG)
MESKGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDaevevtvptaeeRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCskttlakaaahaaeasffslsGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFIFQLS
Disordered region (IsUnstruct)
********************IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV****************************SVVFIDEIDALCPR********VRIASQLFTL**********VPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVK***DANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKR*****TSITVGERLLSTLLTEMDGLEQAKVIIYPISFIFQ**
Disordered Region (DISOPRED)
****GRI*SEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA*****************QLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSA**************SVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADV******************LLSTLLTEMDGLEQAKVIIYPISFIFQLS
Disordered Region (DISEMBL)
*********EHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH**************************SGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREAT**********NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVG**********ITVGERLLSTLLTEMDGLEQAKVIIYPISFIFQLS
Disordered Region (DISPRO)
****GRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR*HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAK*********TVGERLLSTLLTEMDGLEQAKVIIYPISFI****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MESKGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFIFQLS
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	441	2.2.26 [Sep-21-2011]
Q9ZPR1	603	Cell division control pro	yes	no	0.936	0.684	0.783	0.0
Q58556	903	Cell division cycle prote	yes	no	0.913	0.446	0.460	1e-105
O28972	733	Cell division cycle prote	yes	no	0.913	0.549	0.475	1e-104
Q3UMC0	893	Spermatogenesis-associate	yes	no	0.941	0.464	0.448	1e-104
Q3ZBT1	806	Transitional endoplasmic	yes	no	0.918	0.502	0.449	1e-103
P46462	806	Transitional endoplasmic	no	no	0.918	0.502	0.449	1e-103
Q01853	806	Transitional endoplasmic	no	no	0.918	0.502	0.449	1e-103
P55072	806	Transitional endoplasmic	yes	no	0.918	0.502	0.449	1e-103
Q6GL04	805	Transitional endoplasmic	yes	no	0.918	0.503	0.446	1e-103
P03974	806	Transitional endoplasmic	yes	no	0.918	0.502	0.449	1e-103

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

 Score =  654 bits (1687), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 330/421 (78%), Positives = 370/421 (87%), Gaps = 8/421 (1%)

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-SSSTSITVGERLLSTLLTEMDGLEQAKVI 430
           LRNTFQRARLA+PSIIFFDEADVV  KRG  SSS S TVGERLLSTLLTEMDGLE+AK I
Sbjct: 368 LRNTFQRARLASPSIIFFDEADVVACKRGDESSSNSSTVGERLLSTLLTEMDGLEEAKGI 427

Query: 431 I 431
           +
Sbjct: 428 L 428

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|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 =  381 bits (979), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 195/423 (46%), Positives = 282/423 (66%), Gaps = 20/423 (4%)

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 VII 431
            ++
Sbjct: 589 DVV 591

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

>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 =  379 bits (972), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 201/423 (47%), Positives = 272/423 (64%), Gaps = 20/423 (4%)

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 VII 431
            ++
Sbjct: 592 DVV 594

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

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

 Score =  377 bits (968), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 193/430 (44%), Positives = 287/430 (66%), Gaps = 15/430 (3%)

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 MDGLEQAKVI 430
           MDG+EQ K +
Sbjct: 757 MDGIEQLKNV 766

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

Mus musculus (taxid: 10090)

>sp|Q3ZBT1|TERA_BOVIN Transitional endoplasmic reticulum ATPase OS=Bos taurus GN=VCP PE=2 SV=1

 Score =  377 bits (967), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 190/423 (44%), Positives = 274/423 (64%), Gaps = 18/423 (4%)

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 A 
Sbjct: 320 VERRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375

Query: 198 ERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD------- 250
            R EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D       
Sbjct: 376 GRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDE 435

Query: 251 --ANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEW 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 EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK 615

Query: 429 VII 431
            + 
Sbjct: 616 NVF 618

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation 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. The ternary complex containing UFD1L, VCP and NPLOC4 binds ubiquitinated proteins and is necessary for the export of misfolded proteins from the ER to the cytoplasm, where they are degraded by the proteasome. The NPLOC4-UFD1L-VCP complex regulates spindle disassembly at the end of mitosis and is necessary for the formation of a closed nuclear envelope. Regulates E3 ubiquitin-protein ligase activity of RNF19A (By similarity). Component of the VCP/p97-AMFR/gp78 complex that participates in the final step of the sterol-mediated ubiquitination and endoplasmic reticulum-associated degradation (ERAD) of HMGCR.

Bos taurus (taxid: 9913)

>sp|P46462|TERA_RAT Transitional endoplasmic reticulum ATPase OS=Rattus norvegicus GN=Vcp PE=1 SV=3

 Score =  377 bits (967), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 190/423 (44%), Positives = 274/423 (64%), Gaps = 18/423 (4%)

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 A 
Sbjct: 320 VERRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375

Query: 198 ERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD------- 250
            R EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D       
Sbjct: 376 GRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDE 435

Query: 251 --ANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEW 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 EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK 615

Query: 429 VII 431
            + 
Sbjct: 616 NVF 618

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation 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. The ternary complex containing UFD1L, VCP and NPLOC4 binds ubiquitinated proteins and is necessary for the export of misfolded proteins from the ER to the cytoplasm, where they are degraded by the proteasome. The NPLOC4-UFD1L-VCP complex regulates spindle disassembly at the end of mitosis and is necessary for the formation of a closed nuclear envelope. Regulates E3 ubiquitin-protein ligase activity of RNF19A (By similarity). Component of the VCP/p97-AMFR/gp78 complex that participates in the final step of the sterol-mediated ubiquitination and endoplasmic reticulum-associated degradation (ERAD) of HMGCR.

Rattus norvegicus (taxid: 10116)

>sp|Q01853|TERA_MOUSE Transitional endoplasmic reticulum ATPase OS=Mus musculus GN=Vcp PE=1 SV=4

 Score =  376 bits (966), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 190/423 (44%), Positives = 274/423 (64%), Gaps = 18/423 (4%)

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 A 
Sbjct: 320 VERRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375

Query: 198 ERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD------- 250
            R EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D       
Sbjct: 376 GRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDE 435

Query: 251 --ANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEW 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 EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK 615

Query: 429 VII 431
            + 
Sbjct: 616 NVF 618

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation 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. The ternary complex containing UFD1L, VCP and NPLOC4 binds ubiquitinated proteins and is necessary for the export of misfolded proteins from the ER to the cytoplasm, where they are degraded by the proteasome. The NPLOC4-UFD1L-VCP complex regulates spindle disassembly at the end of mitosis and is necessary for the formation of a closed nuclear envelope. Regulates E3 ubiquitin-protein ligase activity of RNF19A (By similarity). Component of the VCP/p97-AMFR/gp78 complex that participates in the final step of the sterol-mediated ubiquitination and endoplasmic reticulum-associated degradation (ERAD) of HMGCR.

Mus musculus (taxid: 10090)

>sp|P55072|TERA_HUMAN Transitional endoplasmic reticulum ATPase OS=Homo sapiens GN=VCP PE=1 SV=4

 Score =  376 bits (966), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 190/423 (44%), Positives = 274/423 (64%), Gaps = 18/423 (4%)

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 A 
Sbjct: 320 VERRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375

Query: 198 ERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD------- 250
            R EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D       
Sbjct: 376 GRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDE 435

Query: 251 --ANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEW 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 EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK 615

Query: 429 VII 431
            + 
Sbjct: 616 NVF 618

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation 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. The ternary complex containing UFD1L, VCP and NPLOC4 binds ubiquitinated proteins and is necessary for the export of misfolded proteins from the ER to the cytoplasm, where they are degraded by the proteasome. The NPLOC4-UFD1L-VCP complex regulates spindle disassembly at the end of mitosis and is necessary for the formation of a closed nuclear envelope. Regulates E3 ubiquitin-protein ligase activity of RNF19A (By similarity). Component of the VCP/p97-AMFR/gp78 complex that participates in the final step of the sterol-mediated ubiquitination and endoplasmic reticulum-associated degradation (ERAD) of HMGCR.

Homo sapiens (taxid: 9606)

>sp|Q6GL04|TERA_XENTR Transitional endoplasmic reticulum ATPase OS=Xenopus tropicalis GN=vcp PE=2 SV=1

 Score =  376 bits (965), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 189/423 (44%), Positives = 274/423 (64%), Gaps = 18/423 (4%)

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 ERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD------- 250
            R EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D       
Sbjct: 376 GRLEILQIHTKNMKLSDDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDE 435

Query: 251 --ANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEW 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 EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK 615

Query: 429 VII 431
            + 
Sbjct: 616 NVF 618

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 tropicalis (taxid: 8364)

>sp|P03974|TERA_PIG Transitional endoplasmic reticulum ATPase OS=Sus scrofa GN=VCP PE=1 SV=5

 Score =  375 bits (964), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 190/423 (44%), Positives = 273/423 (64%), Gaps = 18/423 (4%)

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 A 
Sbjct: 320 VERRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375

Query: 198 ERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD------- 250
            R EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D       
Sbjct: 376 GRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDE 435

Query: 251 --ANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEW 308
               E    L+VTM+D+R A S   PS  R   VE+P+VTWEDIGGL D+K++LQ  V++
Sbjct: 436 TIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQDLVQY 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 EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK 615

Query: 429 VII 431
            + 
Sbjct: 616 NVF 618

Necessary for the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis. Involved in the formation 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. The ternary complex containing UFD1L, VCP and NPLOC4 binds ubiquitinated proteins and is necessary for the export of misfolded proteins from the ER to the cytoplasm, where they are degraded by the proteasome. The NPLOC4-UFD1L-VCP complex regulates spindle disassembly at the end of mitosis and is necessary for the formation of a closed nuclear envelope. Regulates E3 ubiquitin-protein ligase activity of RNF19A (By similarity). Component of the VCP/p97-AMFR/gp78 complex that participates in the final step of the sterol-mediated ubiquitination and endoplasmic reticulum-associated degradation (ERAD) of HMGCR.

Sus scrofa (taxid: 9823)

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	441
255580390	1029	Transitional endoplasmic reticulum ATPas	0.943	0.404	0.832	0.0
224138416	571	predicted protein [Populus trichocarpa]	0.947	0.732	0.828	0.0
359484119	605	PREDICTED: cell division control protein	0.954	0.695	0.841	0.0
356502624	606	PREDICTED: cell division control protein	0.947	0.689	0.826	0.0
449435300	614	PREDICTED: cell division control protein	0.947	0.680	0.773	0.0
449478622	614	PREDICTED: LOW QUALITY PROTEIN: cell div	0.947	0.680	0.770	0.0
15227690	603	cell division control protein 48-B [Arab	0.936	0.684	0.783	0.0
297814680	601	CDC48B [Arabidopsis lyrata subsp. lyrata	0.936	0.687	0.774	0.0
297742735	3499	unnamed protein product [Vitis vinifera]	0.886	0.111	0.839	0.0
326506470	569	predicted protein [Hordeum vulgare subsp	0.947	0.734	0.716	1e-171

>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 =  705 bits (1819), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 347/417 (83%), Positives = 380/417 (91%), Gaps = 1/417 (0%)

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 TFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
           TFQRARLAAPSIIFFDE DV+ A+RGGSSS S TVGERLLSTLLTEMDGLEQ K I+
Sbjct: 399 TFQRARLAAPSIIFFDEVDVLAARRGGSSSNSTTVGERLLSTLLTEMDGLEQTKGIL 455

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  701 bits (1809), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 348/420 (82%), Positives = 383/420 (91%), Gaps = 2/420 (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 LRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
           LR+TFQRARLAAPSIIFFDEADVV AKRGG+SS S TVGERLLSTLLTEMDGLEQ+K I+
Sbjct: 391 LRHTFQRARLAAPSIIFFDEADVVAAKRGGTSSNSTTVGERLLSTLLTEMDGLEQSKGIL 450

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  694 bits (1792), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 356/423 (84%), Positives = 384/423 (90%), Gaps = 2/423 (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 VII 431
            I+
Sbjct: 424 GIL 426

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  693 bits (1788), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 347/420 (82%), Positives = 379/420 (90%), Gaps = 2/420 (0%)

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 LRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
           LR TFQRARLAAPSIIFFDEADVV AKRG SSS S TVGERLLSTLLTE+DGLE+AK I+
Sbjct: 365 LRKTFQRARLAAPSIIFFDEADVVAAKRGDSSSNSATVGERLLSTLLTEIDGLEEAKGIL 424

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  663 bits (1710), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 324/419 (77%), Positives = 373/419 (89%), Gaps = 1/419 (0%)

Query: 13  EKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRA 72
            KW AEEAI GN  A++ALRELI FPLL+S +A+K+GLKWPRGLLLYGPPGTGKTSLVRA
Sbjct: 17  NKWGAEEAIAGNSEALKALRELIVFPLLFSQEAKKIGLKWPRGLLLYGPPGTGKTSLVRA 76

Query: 73  VVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR 132
           +V+E GAHLT ISPHSVH+AH GESEK LREAF++ASS A+SG+PSV+FIDEIDALCP R
Sbjct: 77  IVQESGAHLTTISPHSVHRAHAGESEKVLREAFTKASSLAISGRPSVIFIDEIDALCPPR 136

Query: 133 DHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVT 192
           D RREQ+VRI +QL  LMDSNK S +  P VVVVASTNRVDA+DPALRRSGRFDAE+EVT
Sbjct: 137 DSRREQNVRITTQLSILMDSNKQSASGRPQVVVVASTNRVDAVDPALRRSGRFDAEIEVT 196

Query: 193 VPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN 252
            PT +ER++IL+LYT+KV L+  V+L AIA SCNG+VGADLEALCREA M+A++RSS  N
Sbjct: 197 APTEDERYQILRLYTRKVQLNPEVNLRAIAASCNGFVGADLEALCREAAMAALQRSSGTN 256

Query: 253 ECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKH 312
           E A +L +T EDW+HARS+VGPS+TRGVTVE+P VTW DIGGL+DLKKKLQQ+VEWPIKH
Sbjct: 257 ENA-ILCMTTEDWKHARSIVGPSMTRGVTVEVPNVTWNDIGGLKDLKKKLQQSVEWPIKH 315

Query: 313 STAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALL 372
           + +FS+LGISP RG LL+GPPGCSKTTLAKAAA+AA+ASFFSLSGAE+YSMYVGE EALL
Sbjct: 316 AASFSKLGISPARGILLYGPPGCSKTTLAKAAANAAQASFFSLSGAEMYSMYVGEGEALL 375

Query: 373 RNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
           RNTF+RARLAAPSIIFFDEADVV AKRGGSSS + TVGERLLSTLLTEMDGLE+AK I+
Sbjct: 376 RNTFRRARLAAPSIIFFDEADVVAAKRGGSSSGNTTVGERLLSTLLTEMDGLEEAKGIL 434

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 =  661 bits (1706), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 323/419 (77%), Positives = 373/419 (89%), Gaps = 1/419 (0%)

Query: 13  EKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRA 72
            KW+AEEAI GN  A++ALRELI FPLL+S +A+K+GLKWPRGLLLYGPPGTGKTSLVRA
Sbjct: 17  NKWRAEEAIAGNSEALKALRELIVFPLLFSQEAKKIGLKWPRGLLLYGPPGTGKTSLVRA 76

Query: 73  VVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR 132
           +V+E GAHLT ISPHSVH+AH GESEK LREAF++ASS A+SG+PSV+FIDEIDALCP R
Sbjct: 77  IVQESGAHLTTISPHSVHRAHAGESEKVLREAFTKASSLAISGRPSVIFIDEIDALCPPR 136

Query: 133 DHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVT 192
           D RREQ+VRI +QL  LMDSNK S +  P VVVVASTNRVDA+DPALRRSGRFDAE+EVT
Sbjct: 137 DSRREQNVRITTQLSILMDSNKQSASGRPQVVVVASTNRVDAVDPALRRSGRFDAEIEVT 196

Query: 193 VPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN 252
            PT +ER++IL+LYT+KV L+  V+L AIA SCNG+VGADLEALCREA M+A++RSS  N
Sbjct: 197 APTEDERYQILRLYTRKVQLNPEVNLRAIAASCNGFVGADLEALCREAAMAALQRSSGTN 256

Query: 253 ECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKH 312
           E A +L +T EDW+HARS+VGPS+TRGVTVE+P VTW DIGGL+DLKKKLQQ+VEWPIKH
Sbjct: 257 ENA-ILCMTTEDWKHARSIVGPSMTRGVTVEVPNVTWNDIGGLKDLKKKLQQSVEWPIKH 315

Query: 313 STAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALL 372
           + +FS+LGISP RG LL+GPPGCSKTTLAKAAA+AA+ASFFSLSGAE+YSMYVGE EALL
Sbjct: 316 AASFSKLGISPARGILLYGPPGCSKTTLAKAAANAAQASFFSLSGAEMYSMYVGEGEALL 375

Query: 373 RNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
           RNTF+RARLAAPSII FDEADVV AKRGGSSS + TVGERLLSTLLTEMDGLE+AK I+
Sbjct: 376 RNTFRRARLAAPSIIXFDEADVVAAKRGGSSSGNTTVGERLLSTLLTEMDGLEEAKGIL 434

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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 =  654 bits (1687), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 330/421 (78%), Positives = 370/421 (87%), Gaps = 8/421 (1%)

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-SSSTSITVGERLLSTLLTEMDGLEQAKVI 430
           LRNTFQRARLA+PSIIFFDEADVV  KRG  SSS S TVGERLLSTLLTEMDGLE+AK I
Sbjct: 368 LRNTFQRARLASPSIIFFDEADVVACKRGDESSSNSSTVGERLLSTLLTEMDGLEEAKGI 427

Query: 431 I 431
           +
Sbjct: 428 L 428

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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 =  647 bits (1670), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 326/421 (77%), Positives = 369/421 (87%), Gaps = 8/421 (1%)

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-SSSTSITVGERLLSTLLTEMDGLEQAKVI 430
           LRNTFQRARLA+PSIIFFDEADVV  KRG  SSS S TVGERLLSTLLTEMDGLE+AK I
Sbjct: 367 LRNTFQRARLASPSIIFFDEADVVACKRGDESSSNSSTVGERLLSTLLTEMDGLEEAKGI 426

Query: 431 I 431
           +
Sbjct: 427 L 427

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297742735|emb|CBI35369.3| unnamed protein product [Vitis vinifera]

 Score =  642 bits (1657), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 330/393 (83%), Positives = 356/393 (90%), Gaps = 2/393 (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 EALLRNTFQRARLAAPSIIFFDEADVVGAKRGG 401
           E LLRNTFQRARLAAPSIIFFDEADVV AKR G
Sbjct: 364 EVLLRNTFQRARLAAPSIIFFDEADVVAAKRLG 396

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326506470|dbj|BAJ86553.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  608 bits (1568), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 301/420 (71%), Positives = 352/420 (83%), Gaps = 2/420 (0%)

Query: 14  KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAV 73
           +W+AEEA+ GNR A++ALREL+ +P LY+ Q++ LGLKWPRGLLLYGPPGTGKTSLV+A+
Sbjct: 23  RWRAEEAVAGNRMALQALRELVIYPFLYARQSRLLGLKWPRGLLLYGPPGTGKTSLVQAM 82

Query: 74  VRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD 133
           VREC AHLT+I+P+SVHKAH GE EK LREAFS++ S A  G+P+++FIDE+DA+CPRR+
Sbjct: 83  VRECNAHLTMINPYSVHKAHAGEGEKFLREAFSESYSQASQGRPAIIFIDELDAICPRRN 142

Query: 134 HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTV 193
            RREQ+ RI  QL TLMD NK S   +PHVVVVASTNRVDAIDPALRR GRFD+E+EVTV
Sbjct: 143 SRREQESRIVGQLLTLMDGNKKSSKKLPHVVVVASTNRVDAIDPALRRPGRFDSEIEVTV 202

Query: 194 PTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE 253
           PT EER +ILKLY+K + LD +VDL+ IA  CNGYVGADLEALCREA   A +R S+++E
Sbjct: 203 PTLEERLQILKLYSKNLHLDESVDLQIIAGWCNGYVGADLEALCREAARLAYRRLSNSSE 262

Query: 254 CAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHS 313
              VL++ MEDW  ARS V  S+ RGVT E P V+W+DIGGL+DLKKKLQQAVEWPIKH+
Sbjct: 263 DGKVLTLLMEDWESARSQVKASMIRGVTKEAPTVSWDDIGGLKDLKKKLQQAVEWPIKHA 322

Query: 314 TAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLR 373
            AF+RLGISPVRG LLHGPPGCSKTTLAKAAAHAA+ASFFSLSGAELYS YVGE EALLR
Sbjct: 323 AAFARLGISPVRGVLLHGPPGCSKTTLAKAAAHAAQASFFSLSGAELYSKYVGEGEALLR 382

Query: 374 NTFQRARLAAPSIIFFDEADVVGAKRGGSS--STSITVGERLLSTLLTEMDGLEQAKVII 431
            TFQRARL++PSIIFFDEAD +  KR G S  + + TVGERLLSTLLTEMDGLE A  II
Sbjct: 383 RTFQRARLSSPSIIFFDEADAIAPKRTGPSGDTGNATVGERLLSTLLTEMDGLELATGII 442

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

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	441
TAIR|locus:2044209	603	CDC48B "cell division cycle 48	0.936	0.684	0.724	1.8e-156
RGD|1310478	838	Spata5 "spermatogenesis associ	0.934	0.491	0.428	2.4e-85
MGI|MGI:1927170	893	Spata5 "spermatogenesis associ	0.934	0.461	0.426	4.9e-85
UNIPROTKB|Q8NB90	893	SPATA5 "Spermatogenesis-associ	0.934	0.461	0.424	6.2e-85
UNIPROTKB|E2RC37	893	SPATA5 "Uncharacterized protei	0.934	0.461	0.426	1.3e-84
UNIPROTKB|Q6GL04	805	vcp "Transitional endoplasmic	0.907	0.496	0.421	5.6e-84
UNIPROTKB|G3X757	806	VCP "Transitional endoplasmic	0.907	0.496	0.421	9.1e-84
UNIPROTKB|Q3ZBT1	806	VCP "Transitional endoplasmic	0.907	0.496	0.421	9.1e-84
UNIPROTKB|E2RLQ9	822	VCP "Uncharacterized protein"	0.907	0.486	0.421	9.1e-84
UNIPROTKB|P55072	806	VCP "Transitional endoplasmic	0.907	0.496	0.421	9.1e-84

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

 Score = 1525 (541.9 bits), Expect = 1.8e-156, P = 1.8e-156
 Identities = 305/421 (72%), Positives = 341/421 (80%)

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-SSSTSITVGERLLSTLLTEMDGLEQAKVI 430
             LRNTFQRARLA+PSIIFFDEADVV  KRG  SSS S TVGERLLSTLLTEMDGLE+AK I
Sbjct:   368 LRNTFQRARLASPSIIFFDEADVVACKRGDESSSNSSTVGERLLSTLLTEMDGLEEAKGI 427

Query:   431 I 431
             +
Sbjct:   428 L 428

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

RGD|1310478 Spata5 "spermatogenesis associated 5" [Rattus norvegicus (taxid:10116)]

 Score = 854 (305.7 bits), Expect = 2.4e-85, P = 2.4e-85
 Identities = 184/429 (42%), Positives = 263/429 (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 KEIEIGIPNAQDRLDILQKLLRRVPHLLTKAELLRLANNAHGYVGADLKALCNEAGLYAL 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  +FSR+GI P +G LL+GPPGC                     G E
Sbjct:   637 LKLKQAVEWPLKHPKSFSRMGIQPPKGVLLYGPPGCSKTMIAKALANESGLNFLAIKGPE 696

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

Query:   420 EMDGLEQAK 428
             EMDG+EQ K
Sbjct:   756 EMDGIEQLK 764

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA;ISO

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

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

 Score = 851 (304.6 bits), Expect = 4.9e-85, P = 4.9e-85
 Identities = 183/429 (42%), Positives = 263/429 (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 EMDGLEQAK 428
             EMDG+EQ K
Sbjct:   756 EMDGIEQLK 764

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

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

 Score = 850 (304.3 bits), Expect = 6.2e-85, P = 6.2e-85
 Identities = 182/429 (42%), Positives = 262/429 (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 EMDGLEQAK 428
             EMDG+EQ K
Sbjct:   756 EMDGIEQLK 764

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

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

 Score = 847 (303.2 bits), Expect = 1.3e-84, P = 1.3e-84
 Identities = 183/429 (42%), Positives = 264/429 (61%)

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 EMDGLEQAK 428
             EMDG+EQ K
Sbjct:   756 EMDGIEQLK 764

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|Q6GL04 vcp "Transitional endoplasmic reticulum ATPase" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 841 (301.1 bits), Expect = 5.6e-84, P = 5.6e-84
 Identities = 176/418 (42%), Positives = 251/418 (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----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDSTGR 377

Query:   200 FEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA-------- 251
              EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D         
Sbjct:   378 LEILQIHTKNMKLSDDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETI 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 LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK 428
              +R  F +AR AAP ++FFDE D +   RGG+        +R+++ +LTEMDG+   K
Sbjct:   558 NVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK 615

GO:0000785 "chromatin" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0006200 "ATP catabolic process" evidence=ISS

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

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

GO:0016567 "protein ubiquitination" evidence=ISS

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0019985 "translesion synthesis" evidence=ISS

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

GO:0032403 "protein complex binding" evidence=ISS

GO:0034214 "protein hexamerization" evidence=ISS

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

GO:0035101 "FACT complex" evidence=ISS

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

 Score = 839 (300.4 bits), Expect = 9.1e-84, P = 9.1e-84
 Identities = 176/418 (42%), Positives = 251/418 (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 LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK 428
              +R  F +AR AAP ++FFDE D +   RGG+        +R+++ +LTEMDG+   K
Sbjct:   558 NVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK 615

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 = 839 (300.4 bits), Expect = 9.1e-84, P = 9.1e-84
 Identities = 176/418 (42%), Positives = 251/418 (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 LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK 428
              +R  F +AR AAP ++FFDE D +   RGG+        +R+++ +LTEMDG+   K
Sbjct:   558 NVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK 615

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

UNIPROTKB|E2RLQ9 VCP "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 839 (300.4 bits), Expect = 9.1e-84, P = 9.1e-84
 Identities = 176/418 (42%), Positives = 251/418 (60%)

Query:    21 IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
             IGG R  +  ++E++  PL + +  + +G+K PRG+LLYGPPGTGKT + RAV  E GA 
Sbjct:   222 IGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF 281

Query:    81 LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-EQD 139
               +I+   +     GESE  LR+AF +A  +A    P+++FIDE+DA+ P+R+    E +
Sbjct:   282 FFLINGPEIMSKLAGESESNLRKAFEEAEKNA----PAIIFIDELDAIAPKREKTHGEVE 337

Query:   140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXR 199
              RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD            R
Sbjct:   338 RRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGR 393

Query:   200 FEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA-------- 251
              EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D         
Sbjct:   394 LEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETI 453

Query:   252 -NECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPI 310
               E    L+VTM+D+R A S   PS  R   VE+P+VTWEDIGGL D+K++LQ+ V++P+
Sbjct:   454 DAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQYPV 513

Query:   311 KHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGESEA 370
             +H   F + G++P +G L +GPPGC                     G EL +M+ GESEA
Sbjct:   514 EHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEA 573

Query:   371 LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK 428
              +R  F +AR AAP ++FFDE D +   RGG+        +R+++ +LTEMDG+   K
Sbjct:   574 NVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK 631

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|P55072 VCP "Transitional endoplasmic reticulum ATPase" [Homo sapiens (taxid:9606)]

 Score = 839 (300.4 bits), Expect = 9.1e-84, P = 9.1e-84
 Identities = 176/418 (42%), Positives = 251/418 (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 LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK 428
              +R  F +AR AAP ++FFDE D +   RGG+        +R+++ +LTEMDG+   K
Sbjct:   558 NVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK 615

GO:0008289 "lipid binding" evidence=IEA

GO:0005102 "receptor binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IEA

GO:0032403 "protein complex binding" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0051260 "protein homooligomerization" evidence=IEA

GO:0070842 "aggresome assembly" evidence=IEA

GO:0043231 "intracellular membrane-bounded organelle" evidence=ISS

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

GO:0006281 "DNA repair" evidence=NAS

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

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA;TAS

GO:0005829 "cytosol" evidence=IDA

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

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

GO:0043161 "proteasomal ubiquitin-dependent protein catabolic process" evidence=NAS

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

GO:0030433 "ER-associated protein catabolic process" evidence=IMP;TAS

GO:0030968 "endoplasmic reticulum unfolded protein response" evidence=TAS

GO:0016887 "ATPase activity" evidence=TAS

GO:0005783 "endoplasmic reticulum" evidence=IDA

GO:0016567 "protein ubiquitination" evidence=IDA;NAS

GO:0042981 "regulation of apoptotic process" evidence=TAS

GO:0045184 "establishment of protein localization" evidence=TAS

GO:0019985 "translesion synthesis" evidence=IMP

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

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

GO:0032436 "positive regulation of proteasomal ubiquitin-dependent protein catabolic process" evidence=IDA

GO:0000502 "proteasome complex" evidence=IDA

GO:0019903 "protein phosphatase binding" evidence=IPI

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

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

GO:0031593 "polyubiquitin binding" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

---

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	0.7838	0.9365	0.6849	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: fgenesh4_pm.C_scaffold_29000155 hypothetical protein (571 aa) (Populus trichocarpa)

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	441
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	1e-130
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	1e-106
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	3e-63
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	3e-63
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	4e-59
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	2e-53
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	3e-52
TIGR01241	495	TIGR01241, FtsH_fam, ATP-dependent metalloprotease	4e-49
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	3e-44
COG0465	596	COG0465, HflB, ATP-dependent Zn proteases [Posttra	4e-43
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	6e-43
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	2e-41
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	1e-39
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	4e-39
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	5e-39
PTZ00361	438	PTZ00361, PTZ00361, 26 proteosome regulatory subun	2e-38
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	1e-37
PRK10733	644	PRK10733, hflB, ATP-dependent metalloprotease; Rev	4e-37
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	3e-36
COG1223	368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	4e-34
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	2e-33
PTZ00361	438	PTZ00361, PTZ00361, 26 proteosome regulatory subun	3e-30
TIGR03689	512	TIGR03689, pup_AAA, proteasome ATPase	5e-30
TIGR01241	495	TIGR01241, FtsH_fam, ATP-dependent metalloprotease	7e-30
TIGR03689	512	TIGR03689, pup_AAA, proteasome ATPase	1e-29
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	2e-27
PRK10733	644	PRK10733, hflB, ATP-dependent metalloprotease; Rev	1e-25
COG0465	596	COG0465, HflB, ATP-dependent Zn proteases [Posttra	2e-25
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	1e-19
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	1e-19
COG1223	368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	1e-18
CHL00195	489	CHL00195, ycf46, Ycf46; Provisional	8e-18
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	6e-15
smart00382	148	smart00382, AAA, ATPases associated with a variety	1e-12
CHL00195	489	CHL00195, ycf46, Ycf46; Provisional	7e-11
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	2e-10
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	5e-09
smart00382	148	smart00382, AAA, ATPases associated with a variety	2e-07
PHA02544	316	PHA02544, 44, clamp loader, small subunit; Provisi	3e-07
COG1474	366	COG1474, CDC6, Cdc6-related protein, AAA superfami	6e-07
PRK13341	725	PRK13341, PRK13341, recombination factor protein R	2e-06
TIGR00763	775	TIGR00763, lon, ATP-dependent protease La	4e-06
TIGR00635	305	TIGR00635, ruvB, Holliday junction DNA helicase, R	1e-05
COG1224	450	COG1224, TIP49, DNA helicase TIP49, TBP-interactin	2e-05
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	3e-05
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	3e-05
pfam06068	395	pfam06068, TIP49, TIP49 C-terminus	4e-05
TIGR03922	557	TIGR03922, T7SS_EccA, type VII secretion AAA-ATPas	4e-05
pfam07728	135	pfam07728, AAA_5, AAA domain (dynein-related subfa	5e-05
COG2255	332	COG2255, RuvB, Holliday junction resolvasome, heli	9e-05
COG1224	450	COG1224, TIP49, DNA helicase TIP49, TBP-interactin	1e-04
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	3e-04
pfam06068	395	pfam06068, TIP49, TIP49 C-terminus	3e-04
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	3e-04
pfam13671	143	pfam13671, AAA_33, AAA domain	3e-04
TIGR03420	226	TIGR03420, DnaA_homol_Hda, DnaA regulatory inactiv	4e-04
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	6e-04
COG1484	254	COG1484, DnaC, DNA replication protein [DNA replic	6e-04
pfam13401	124	pfam13401, AAA_22, AAA domain	7e-04
PRK00080	328	PRK00080, ruvB, Holliday junction DNA helicase Ruv	0.001
COG0802	149	COG0802, COG0802, Predicted ATPase or kinase [Gene	0.002
COG5265	497	COG5265, ATM1, ABC-type transport system involved	0.002
COG0593	408	COG0593, DnaA, ATPase involved in DNA replication	0.003
pfam00910	105	pfam00910, RNA_helicase, RNA helicase	0.003

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

 Score =  392 bits (1009), Expect = e-130
 Identities = 192/425 (45%), Positives = 273/425 (64%), Gaps = 22/425 (5%)

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 AKVII 431
              ++
Sbjct: 588 LSNVV 592

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 =  322 bits (828), Expect = e-106
 Identities = 172/392 (43%), Positives = 240/392 (61%), Gaps = 18/392 (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 AKRGGSSSTSITVGERLLSTLLTEMDGLEQAK 428
           + RG S   S   G R++  LLTE+DG+E+A+
Sbjct: 349 SGRGPSEDGS---GRRVVGQLLTELDGIEKAE 377

Length = 494

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

 Score =  216 bits (552), Expect = 3e-63
 Identities = 114/279 (40%), Positives = 159/279 (56%), Gaps = 23/279 (8%)

Query: 12  NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVR 71
           N +W     IGG     + LRE + +PL +    +K+G++ P+G+LL+GPPGTGKT L +
Sbjct: 449 NVRW---SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAK 505

Query: 72  AVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPR 131
           AV  E GA+   +    +    VGESEKA+RE F +A   A    P+++F DEIDA+ P 
Sbjct: 506 AVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAA----PAIIFFDEIDAIAPA 561

Query: 132 RDHRREQDV--RIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEV 189
           R  R +  V  RI +QL T MD  +       +VVV+A+TNR D +DPAL R GRFD  +
Sbjct: 562 RGARFDTSVTDRIVNQLLTEMDGIQELS----NVVVIAATNRPDILDPALLRPGRFDRLI 617

Query: 190 EVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRS- 248
            V  P  E R EI K++T+ +PL  +VDLE +A    GY GAD+EA+CREA M+A++ S 
Sbjct: 618 LVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAMAALRESI 677

Query: 249 ---------SDANECAGVLSVTMEDWRHARSVVGPSITR 278
                        E    L V M  +  A   V PS+++
Sbjct: 678 GSPAKEKLEVGEEEFLKDLKVEMRHFLEALKKVKPSVSK 716

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 =  211 bits (539), Expect = 3e-63
 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|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

 Score =  198 bits (506), Expect = 4e-59
 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|179699 PRK03992, PRK03992, proteasome-activating nucleotidase; Provisional

 Score =  183 bits (466), Expect = 2e-53
 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|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family

 Score =  179 bits (455), Expect = 3e-52
 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 (443), Expect = 4e-49
 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|224143 COG1222, RPT1, ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

 Score =  158 bits (403), Expect = 3e-44
 Identities = 68/151 (45%), Positives = 95/151 (62%), Gaps = 3/151 (1%)

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 SSTSITVGERLLSTLLTEMDGLEQA---KVI 430
            ++     +R +  LL ++DG +     KVI
Sbjct: 264 GTSGDREVQRTMLELLNQLDGFDPRGNVKVI 294

Length = 406

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

 Score =  159 bits (404), Expect = 4e-43
 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|215649 pfam00004, AAA, ATPase family associated with various cellular activities (AAA)

 Score =  147 bits (373), Expect = 6e-43
 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|179699 PRK03992, PRK03992, proteasome-activating nucleotidase; Provisional

 Score =  150 bits (382), Expect = 2e-41
 Identities = 69/148 (46%), Positives = 92/148 (62%), Gaps = 8/148 (5%)

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----RLLSTLLTEMDGLE 425
             + S T G+    R L  LL EMDG +
Sbjct: 241 --TDSGTSGDREVQRTLMQLLAEMDGFD 266

Length = 389

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

 Score =  146 bits (369), Expect = 1e-39
 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|130309 TIGR01242, 26Sp45, 26S proteasome subunit P45 family

 Score =  144 bits (364), Expect = 4e-39
 Identities = 66/143 (46%), Positives = 91/143 (63%)

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 SSTSITVGERLLSTLLTEMDGLE 425
            ++     +R L  LL E+DG +
Sbjct: 235 GTSGDREVQRTLMQLLAELDGFD 257

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

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

 Score =  149 bits (377), Expect = 5e-39
 Identities = 74/149 (49%), Positives = 99/149 (66%), Gaps = 4/149 (2%)

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 STSITVGERLLSTLLTEMDGL-EQAKVII 431
             +  V +R+++ LLT MDGL  + +VI+
Sbjct: 289 EVTGEVEKRVVAQLLTLMDGLKGRGRVIV 317

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

 Score =  144 bits (364), Expect = 2e-38
 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 (366), Expect = 1e-37
 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 =  143 bits (361), Expect = 4e-37
 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|240423 PTZ00454, PTZ00454, 26S protease regulatory subunit 6B-like protein; Provisional

 Score =  137 bits (346), Expect = 3e-36
 Identities = 72/176 (40%), Positives = 102/176 (57%), Gaps = 10/176 (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 ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQA---KVII 431
           AR  APSIIF DE D +  KR  + + +    +R+L  LL +MDG +Q    KVI+
Sbjct: 234 ARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIM 289

Length = 398

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

 Score =  130 bits (329), Expect = 4e-34
 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|215649 pfam00004, AAA, ATPase family associated with various cellular activities (AAA)

 Score =  121 bits (307), Expect = 2e-33
 Identities = 50/106 (47%), Positives = 64/106 (60%), Gaps = 5/106 (4%)

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 FFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--QAKVII 431
           F DE D +   RG       +   R+++ LLTE+DG     +KVI+
Sbjct: 62  FIDEIDALAGSRGSGGD---SESRRVVNQLLTELDGFTSSLSKVIV 104

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

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

 Score =  121 bits (305), Expect = 3e-30
 Identities = 58/150 (38%), Positives = 89/150 (59%), Gaps = 3/150 (2%)

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 TSITVGERLLSTLLTEMDGLEQ---AKVII 431
                 +R +  LL ++DG +     KVI+
Sbjct: 298 GGEKEIQRTMLELLNQLDGFDSRGDVKVIM 327

Length = 438

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

 Score =  121 bits (306), Expect = 5e-30
 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|233327 TIGR01241, FtsH_fam, ATP-dependent metalloprotease FtsH

 Score =  120 bits (304), Expect = 7e-30
 Identities = 63/160 (39%), Positives = 95/160 (59%), Gaps = 1/160 (0%)

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 ADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
            D VG +RG          E+ L+ LL EMDG      +I
Sbjct: 156 IDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVI 195

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|200312 TIGR03689, pup_AAA, proteasome ATPase

 Score =  120 bits (303), Expect = 1e-29
 Identities = 65/163 (39%), Positives = 92/163 (56%), Gaps = 16/163 (9%)

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 FDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
           FDE D +   RG  S  S  V   ++  LL E+DG+E    +I
Sbjct: 295 FDEMDSLFRTRG--SGVSSDVETTVVPQLLAEIDGVESLDNVI 335

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|214386 CHL00176, ftsH, cell division protein; Validated

 Score =  114 bits (288), Expect = 2e-27
 Identities = 61/149 (40%), Positives = 89/149 (59%), Gaps = 9/149 (6%)

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----ERLLSTLLTEMDGLEQAKVII 431
           I  G    E+ L+ LLTEMDG +  K +I
Sbjct: 295 IGGGNDEREQTLNQLLTEMDGFKGNKGVI 323

Length = 638

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

 Score =  109 bits (273), Expect = 1e-25
 Identities = 61/159 (38%), Positives = 94/159 (59%), Gaps = 1/159 (0%)

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 DVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
           D VG +RG          E+ L+ +L EMDG E  + II
Sbjct: 254 DAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGII 292

Length = 644

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

 Score =  108 bits (272), Expect = 2e-25
 Identities = 60/159 (37%), Positives = 89/159 (55%), Gaps = 1/159 (0%)

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 DVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
           D VG +RG          E+ L+ LL EMDG    + +I
Sbjct: 252 DAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVI 290

Length = 596

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

 Score = 91.0 bits (226), Expect = 1e-19
 Identities = 60/123 (48%), Positives = 76/123 (61%), Gaps = 4/123 (3%)

Query: 309 PIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGES 368
           P+K    F +LGI P +G LLHGPPG  KT LA+A A    A F S++G E+ S YVGES
Sbjct: 3   PLKEPELFKKLGIEPPKGVLLHGPPGTGKTLLARALA-NEGAEFLSINGPEILSKYVGES 61

Query: 369 EALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK 428
           E  LR  F+ A   APSIIF DE D +  KR   SS    V  R+++ LL  MDGL++ +
Sbjct: 62  ELRLRELFEEAEKLAPSIIFIDEIDALAPKR---SSDQGEVERRVVAQLLALMDGLKRGQ 118

Query: 429 VII 431
           VI+
Sbjct: 119 VIV 121

Length = 494

>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 = 85.3 bits (211), Expect = 1e-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|224144 COG1223, COG1223, Predicted ATPase (AAA+ superfamily) [General function prediction only]

 Score = 86.8 bits (215), Expect = 1e-18
 Identities = 45/146 (30%), Positives = 77/146 (52%), Gaps = 6/146 (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 GSSSTSITVGERLLSTLLTEMDGLEQ 426
                   V E +++ LLTE+DG+++
Sbjct: 228 YQELRG-DVSE-IVNALLTELDGIKE 251

Length = 368

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

 Score = 85.1 bits (211), Expect = 8e-18
 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|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 = 71.4 bits (175), Expect = 6e-15
 Identities = 37/152 (24%), Positives = 61/152 (40%), Gaps = 33/152 (21%)

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  APFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEID------------- 94

Query: 407 ITVGERLLSTLLTEMDGLEQAKVIIYPISFIF 438
            ++     + LL  ++ L   ++    +  I 
Sbjct: 95  -SLSRGAQNALLRVLETLNDLRIDRENVRVIG 125

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

 Score = 64.7 bits (157), Expect = 1e-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|177094 CHL00195, ycf46, Ycf46; Provisional

 Score = 63.5 bits (155), Expect = 7e-11
 Identities = 46/141 (32%), Positives = 67/141 (47%), Gaps = 17/141 (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 RGGSSSTSITVGERLLSTLLT 419
             G S T+     R+L+T +T
Sbjct: 336 SKGDSGTT----NRVLATFIT 352

Length = 489

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

 Score = 62.0 bits (152), Expect = 2e-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 = 57.6 bits (140), Expect = 5e-09
 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|214640 smart00382, AAA, ATPases associated with a variety of cellular activities

 Score = 50.1 bits (119), Expect = 2e-07
 Identities = 22/83 (26%), Positives = 29/83 (34%), Gaps = 17/83 (20%)

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

Query: 371 LLRNTFQRARLAAPSIIFFDEAD 393
            LR     AR   P ++  DE  
Sbjct: 66  RLRLALALARKLKPDVLILDEIT 88

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|222866 PHA02544, 44, clamp loader, small subunit; Provisional

 Score = 51.5 bits (124), Expect = 3e-07
 Identities = 46/174 (26%), Positives = 76/174 (43%), Gaps = 40/174 (22%)

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---------LYTKKVPLDANV 216
            + I   LR   R    ++  VPT EE+ E++K         L  + V +D  V
Sbjct: 141 KNGIIEPLR--SRCR-VIDFGVPTKEEQIEMMKQMIVRCKGILEAEGVEVDMKV 191

Length = 316

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

 Score = 50.8 bits (122), Expect = 6e-07
 Identities = 51/253 (20%), Positives = 94/253 (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 LTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKD-----GEV-----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|237354 PRK13341, PRK13341, recombination factor protein RarA/unknown domain fusion protein; Reviewed

 Score = 49.7 bits (119), Expect = 2e-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 = 48.8 bits (117), Expect = 4e-06
 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 = 1e-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 = 46.6 bits (111), Expect = 2e-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 = 3e-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|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 45.7 bits (109), Expect = 3e-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|147949 pfam06068, TIP49, TIP49 C-terminus

 Score = 45.4 bits (108), Expect = 4e-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|188437 TIGR03922, T7SS_EccA, type VII secretion AAA-ATPase EccA

 Score = 45.6 bits (108), Expect = 4e-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 = 42.7 bits (101), Expect = 5e-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|225164 COG2255, RuvB, Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

 Score = 43.7 bits (104), Expect = 9e-05
 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|224145 COG1224, TIP49, DNA helicase TIP49, TBP-interacting protein [Transcription]

 Score = 43.9 bits (104), Expect = 1e-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|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional

 Score = 42.6 bits (101), Expect = 3e-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|147949 pfam06068, TIP49, TIP49 C-terminus

 Score = 42.3 bits (100), Expect = 3e-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|221970 pfam13191, AAA_16, AAA ATPase domain

 Score = 41.0 bits (96), Expect = 3e-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|222307 pfam13671, AAA_33, AAA domain

 Score = 40.4 bits (95), Expect = 3e-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|234203 TIGR03420, DnaA_homol_Hda, DnaA regulatory inactivator Hda

 Score = 41.4 bits (98), Expect = 4e-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|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 = 6e-04
 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|224401 COG1484, DnaC, DNA replication protein [DNA replication, recombination, and repair]

 Score = 41.2 bits (97), Expect = 6e-04
 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|222104 pfam13401, AAA_22, AAA domain

 Score = 39.2 bits (92), Expect = 7e-04
 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|234619 PRK00080, ruvB, Holliday junction DNA helicase RuvB; Reviewed

 Score = 40.5 bits (96), Expect = 0.001
 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|223873 COG0802, COG0802, Predicted ATPase or kinase [General function prediction only]

 Score = 38.4 bits (90), 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 = 0.002
 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|223666 COG0593, DnaA, ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

 Score = 39.2 bits (92), Expect = 0.003
 Identities = 43/203 (21%), Positives = 76/203 (37%), Gaps = 33/203 (16%)

Query: 9   SEHNEKWKAEEAIGG--NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGK 66
           S  N K+  +  + G  NR A  A + +          A+  G  +   L +YG  G GK
Sbjct: 78  SGLNPKYTFDNFVVGPSNRLAYAAAKAV----------AENPGGAYNP-LFIYGGVGLGK 126

Query: 67  TSLVRAV---VRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFID 123
           T L++A+       G +  V+   S       +  KALR+   +      S    ++ ID
Sbjct: 127 THLLQAIGNEALANGPNARVVYLTSE--DFTNDFVKALRDNEMEKFKEKYSLD--LLLID 182

Query: 124 EIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSG 183
           +I  L  +   + E         F   ++   +   +  +        ++ ++  LR   
Sbjct: 183 DIQFLAGKERTQEE--------FFHTFNALLENGKQIV-LTSDRPPKELNGLEDRLRS-- 231

Query: 184 RFDA--EVEVTVPTAEERFEILK 204
           R +    VE+  P  E R  IL+
Sbjct: 232 RLEWGLVVEIEPPDDETRLAILR 254

Length = 408

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

 Score = 36.8 bits (86), Expect = 0.003
 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	441
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
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	100.0
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	100.0
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	100.0
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	100.0
KOG0736	953	consensus Peroxisome assembly factor 2 containing	100.0
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	100.0
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	100.0
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	100.0
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	100.0
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	100.0
KOG0727	408	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
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	100.0
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	100.0
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	100.0
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	100.0
PRK03992	389	proteasome-activating nucleotidase; Provisional	100.0
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	100.0
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	100.0
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	100.0
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	100.0
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	100.0
CHL00195	489	ycf46 Ycf46; Provisional	100.0
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	99.98
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.97
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.97
CHL00095	821	clpC Clp protease ATP binding subunit	99.97
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	99.97
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.97
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.97
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.97
CHL00195	489	ycf46 Ycf46; Provisional	99.97
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.97
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.96
CHL00176	638	ftsH cell division protein; Validated	99.96
PRK10865	857	protein disaggregation chaperone; Provisional	99.96
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.96
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.96
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	99.95
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.95
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.95
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	99.95
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	99.94
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	99.94
CHL00206	2281	ycf2 Ycf2; Provisional	99.94
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	99.93
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	99.93
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	99.93
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	99.93
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	99.92
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	99.92
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	99.92
PRK03992	389	proteasome-activating nucleotidase; Provisional	99.9
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	99.9
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.9
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.9
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	99.89
CHL00181	287	cbbX CbbX; Provisional	99.89
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	99.89
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	99.89
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.89
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.88
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	99.87
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	99.87
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	99.87
CHL00176	638	ftsH cell division protein; Validated	99.86
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	99.85
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	99.83
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.83
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	99.83
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.82
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	99.82
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.81
PF00004	132	AAA: ATPase family associated with various cellula	99.81
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	99.8
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	99.8
PF00004	132	AAA: ATPase family associated with various cellula	99.79
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	99.77
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	99.77
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.77
CHL00181	287	cbbX CbbX; Provisional	99.75
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.75
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.75
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.74
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.74
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.74
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.73
CHL00206	2281	ycf2 Ycf2; Provisional	99.73
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.73
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.73
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.72
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.71
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.7
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	99.7
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.7
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	99.7
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.69
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.69
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.68
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.67
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.67
PLN03025	319	replication factor C subunit; Provisional	99.67
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.67
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.67
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.67
PRK13342	413	recombination factor protein RarA; Reviewed	99.66
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.66
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.66
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.65
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	99.65
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.65
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	99.65
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	99.64
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	99.64
PRK04195	482	replication factor C large subunit; Provisional	99.63
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	99.63
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	99.62
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	99.62
KOG2028	554	consensus ATPase related to the helicase subunit o	99.62
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	99.62
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.61
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	99.61
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	99.61
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.6
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	99.6
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	99.6
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.59
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	99.59
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	99.59
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	99.58
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	99.58
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.57
PRK13341	725	recombination factor protein RarA/unknown domain f	99.57
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	99.57
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	99.57
PRK12402	337	replication factor C small subunit 2; Reviewed	99.57
PHA02544	316	44 clamp loader, small subunit; Provisional	99.57
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.57
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.56
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.56
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	99.56
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.56
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.55
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.55
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	99.55
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.53
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	99.53
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	99.53
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.53
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.52
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.52
PRK08084	235	DNA replication initiation factor; Provisional	99.52
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.51
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.51
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.51
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.5
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	99.5
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.5
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.5
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.49
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.49
PRK06893	229	DNA replication initiation factor; Validated	99.49
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.49
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.49
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.48
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.48
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.48
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.47
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.46
PRK08727	233	hypothetical protein; Validated	99.46
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.45
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.45
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.44
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.44
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.44
KOG3595	1395	consensus Dyneins, heavy chain [Cytoskeleton]	99.44
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.44
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.44
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.43
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.43
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.43
COG5245	3164	DYN1 Dynein, heavy chain [Cytoskeleton]	99.43
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	99.43
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.42
PRK05564	313	DNA polymerase III subunit delta'; Validated	99.41
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	99.41
PRK12422	445	chromosomal replication initiation protein; Provis	99.41
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.4
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.4
PRK06620	214	hypothetical protein; Validated	99.39
PRK07399	314	DNA polymerase III subunit delta'; Validated	99.38
PRK05642	234	DNA replication initiation factor; Validated	99.38
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.37
PHA02244	383	ATPase-like protein	99.37
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.37
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.37
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	99.36
CHL00095	821	clpC Clp protease ATP binding subunit	99.35
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	99.35
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.34
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.34
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.34
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	99.33
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	99.33
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.33
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.33
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.33
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.32
COG0593	408	DnaA ATPase involved in DNA replication initiation	99.32
KOG1969	877	consensus DNA replication checkpoint protein CHL12	99.32
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.32
PRK10865	857	protein disaggregation chaperone; Provisional	99.32
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.32
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.31
COG0714	329	MoxR-like ATPases [General function prediction onl	99.31
COG0488	530	Uup ATPase components of ABC transporters with dup	99.31
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	99.31
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	99.31
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.31
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.3
PRK09087	226	hypothetical protein; Validated	99.29
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.29
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	99.29
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	99.28
KOG0927	614	consensus Predicted transporter (ABC superfamily)	99.28
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	99.27
PRK08058	329	DNA polymerase III subunit delta'; Validated	99.27
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.27
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.27
PRK05707	328	DNA polymerase III subunit delta'; Validated	99.25
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	99.25
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.25
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	99.25
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.25
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	99.25
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.25
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	99.25
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.24
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	99.24
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	99.23
PLN03025	319	replication factor C subunit; Provisional	99.22
PRK13342	413	recombination factor protein RarA; Reviewed	99.22
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	99.22
PRK13531	498	regulatory ATPase RavA; Provisional	99.21
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	99.21
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	99.21
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.19
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	99.19
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	99.19
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	99.19
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.19
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	99.18
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	99.18
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	99.18
PRK04132	846	replication factor C small subunit; Provisional	99.18
PRK04195	482	replication factor C large subunit; Provisional	99.16
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	99.15
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.15
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.14
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	99.14
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	99.14
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	99.13
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	99.13
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.13
PF07726	131	AAA_3: ATPase family associated with various cellu	99.12
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	99.12
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	99.11
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	99.1
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.1
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	99.1
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	99.09
PRK06871	325	DNA polymerase III subunit delta'; Validated	99.09
smart00382	148	AAA ATPases associated with a variety of cellular	99.08
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	99.07
PRK08769	319	DNA polymerase III subunit delta'; Validated	99.07
KOG2028	554	consensus ATPase related to the helicase subunit o	99.07
COG1123	539	ATPase components of various ABC-type transport sy	99.06
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	99.06
KOG2680	454	consensus DNA helicase TIP49, TBP-interacting prot	99.06
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.06
PHA02544	316	44 clamp loader, small subunit; Provisional	99.06
PRK12402	337	replication factor C small subunit 2; Reviewed	99.06
smart00350	509	MCM minichromosome maintenance proteins.	99.06
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	99.05
PRK11608	326	pspF phage shock protein operon transcriptional ac	99.04
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	99.04
PRK06964	342	DNA polymerase III subunit delta'; Validated	99.04
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	99.03
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	99.03
smart00382	148	AAA ATPases associated with a variety of cellular	99.02
PRK15064	530	ABC transporter ATP-binding protein; Provisional	99.02
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	99.01
PRK13341	725	recombination factor protein RarA/unknown domain f	99.01
PRK11147	635	ABC transporter ATPase component; Reviewed	99.01
PRK06090	319	DNA polymerase III subunit delta'; Validated	99.0
COG1221	403	PspF Transcriptional regulators containing an AAA-	99.0
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.0
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	98.99
KOG1514	767	consensus Origin recognition complex, subunit 1, a	98.99
PRK07993	334	DNA polymerase III subunit delta'; Validated	98.98
COG0606	490	Predicted ATPase with chaperone activity [Posttran	98.98
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	98.98
PRK08699	325	DNA polymerase III subunit delta'; Validated	98.97
PRK15424	538	propionate catabolism operon regulatory protein Pr	98.96
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.96
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	98.96
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	98.95
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	98.95
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	98.95
PRK09862	506	putative ATP-dependent protease; Provisional	98.93
PF12780	268	AAA_8: P-loop containing dynein motor region D4; I	98.93
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	98.93
PRK05022	509	anaerobic nitric oxide reductase transcription reg	98.92
COG2204	464	AtoC Response regulator containing CheY-like recei	98.92
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	98.92
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.92
KOG0066	807	consensus eIF2-interacting protein ABC50 (ABC supe	98.91
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	98.91
KOG1969	877	consensus DNA replication checkpoint protein CHL12	98.9
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	98.89
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.89
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	98.88
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	98.88
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	98.87
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	98.87
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.86
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.86
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	98.86
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	98.86
PLN03073	718	ABC transporter F family; Provisional	98.86
PRK08116	268	hypothetical protein; Validated	98.85
PRK13409	590	putative ATPase RIL; Provisional	98.85
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.85
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	98.84
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	98.84
KOG0062	582	consensus ATPase component of ABC transporters wit	98.83
COG0714	329	MoxR-like ATPases [General function prediction onl	98.83
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.83
PRK09302	509	circadian clock protein KaiC; Reviewed	98.82
PRK05707	328	DNA polymerase III subunit delta'; Validated	98.82
PHA02244	383	ATPase-like protein	98.81
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.8
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.79
PF13173	128	AAA_14: AAA domain	98.79
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.79
PF07726	131	AAA_3: ATPase family associated with various cellu	98.78
PRK07952	244	DNA replication protein DnaC; Validated	98.76
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.76
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.75
PRK08181	269	transposase; Validated	98.75
PF13173	128	AAA_14: AAA domain	98.75
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	98.75
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	98.75
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	98.74
PRK08058	329	DNA polymerase III subunit delta'; Validated	98.74
PRK09183	259	transposase/IS protein; Provisional	98.74
PRK12377	248	putative replication protein; Provisional	98.74
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	98.73
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.73
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.72
PRK07399	314	DNA polymerase III subunit delta'; Validated	98.72
PRK06893	229	DNA replication initiation factor; Validated	98.71
PRK08181	269	transposase; Validated	98.71
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.71
PRK08116	268	hypothetical protein; Validated	98.7
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.7
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.7
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	98.7
PRK13531	498	regulatory ATPase RavA; Provisional	98.69
PRK06526	254	transposase; Provisional	98.69
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.69
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	98.68
PRK06526	254	transposase; Provisional	98.68
PRK10938	490	putative molybdenum transport ATP-binding protein	98.68
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	98.66
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.66
PRK06835	329	DNA replication protein DnaC; Validated	98.66
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	98.66
PRK09183	259	transposase/IS protein; Provisional	98.65
PRK12377	248	putative replication protein; Provisional	98.64
PRK12422	445	chromosomal replication initiation protein; Provis	98.63
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	98.63
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.63
PRK13765	637	ATP-dependent protease Lon; Provisional	98.63
COG4172	534	ABC-type uncharacterized transport system, duplica	98.62
PRK06921	266	hypothetical protein; Provisional	98.62
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	98.62
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	98.61
PRK06964	342	DNA polymerase III subunit delta'; Validated	98.61
KOG0478	804	consensus DNA replication licensing factor, MCM4 c	98.6
PRK07952	244	DNA replication protein DnaC; Validated	98.6
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	98.6
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	98.6
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	98.59
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	98.59
PRK05917	290	DNA polymerase III subunit delta'; Validated	98.58
PRK06871	325	DNA polymerase III subunit delta'; Validated	98.58
PRK06921	266	hypothetical protein; Provisional	98.58
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.58
PRK10982	491	galactose/methyl galaxtoside transporter ATP-bindi	98.58
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	98.57
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	98.56
TIGR02633	500	xylG D-xylose ABC transporter, ATP-binding protein	98.56
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	98.56
PRK05642	234	DNA replication initiation factor; Validated	98.56
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.55
PRK08084	235	DNA replication initiation factor; Provisional	98.55
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	98.54
PRK06851	367	hypothetical protein; Provisional	98.54
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.54
PRK07993	334	DNA polymerase III subunit delta'; Validated	98.54
PRK11288	501	araG L-arabinose transporter ATP-binding protein;	98.54
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.53
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.53
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.52
PRK07132	299	DNA polymerase III subunit delta'; Validated	98.51
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.51
PF05729	166	NACHT: NACHT domain	98.51
PRK08939	306	primosomal protein DnaI; Reviewed	98.5
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.49
KOG0480	764	consensus DNA replication licensing factor, MCM6 c	98.48
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	98.48
PRK06835	329	DNA replication protein DnaC; Validated	98.47
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	98.47
PRK06090	319	DNA polymerase III subunit delta'; Validated	98.47
TIGR03719	552	ABC_ABC_ChvD ATP-binding cassette protein, ChvD fa	98.46
COG2884	223	FtsE Predicted ATPase involved in cell division [C	98.46
PRK07276	290	DNA polymerase III subunit delta'; Validated	98.46
PRK05818	261	DNA polymerase III subunit delta'; Validated	98.45
PRK08769	319	DNA polymerase III subunit delta'; Validated	98.45
PRK08699	325	DNA polymerase III subunit delta'; Validated	98.44
PRK08727	233	hypothetical protein; Validated	98.44
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	98.43
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.43
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	98.42
PRK04132	846	replication factor C small subunit; Provisional	98.42
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	98.41
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	98.41
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.41
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	98.4
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.4
COG4619	223	ABC-type uncharacterized transport system, ATPase	98.4
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	98.39
COG1119	257	ModF ABC-type molybdenum transport system, ATPase	98.38
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	98.38
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	98.38
PRK08939	306	primosomal protein DnaI; Reviewed	98.37
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	98.37
cd03216	163	ABC_Carb_Monos_I This family represents the domain	98.37
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	98.36
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	98.36
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.36
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	98.35
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	98.35
PRK06620	214	hypothetical protein; Validated	98.35
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.34
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	98.33
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	98.33
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	98.33
PRK05917	290	DNA polymerase III subunit delta'; Validated	98.31
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	98.3
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	98.3
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	98.29
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	98.29
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	98.29
PRK08533	230	flagellar accessory protein FlaH; Reviewed	98.29
PHA00729	226	NTP-binding motif containing protein	98.27
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	98.27
PRK15115	444	response regulator GlrR; Provisional	98.26
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	98.26
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	98.26
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	98.26
cd03216	163	ABC_Carb_Monos_I This family represents the domain	98.26
COG1221	403	PspF Transcriptional regulators containing an AAA-	98.25
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	98.24
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	98.24
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	98.24
PRK11823	446	DNA repair protein RadA; Provisional	98.24
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	98.24
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	98.23
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	98.23
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	98.22
COG1241	682	MCM2 Predicted ATPase involved in replication cont	98.22
cd00983	325	recA RecA is a bacterial enzyme which has roles in	98.22
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	98.22
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	98.21
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	98.21
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	98.2
cd01128	249	rho_factor Transcription termination factor rho is	98.2
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	98.19
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	98.19
COG1245	591	Predicted ATPase, RNase L inhibitor (RLI) homolog	98.19

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

Probab=100.00  E-value=9.1e-77  Score=538.43  Aligned_cols=412  Identities=44%  Similarity=0.697  Sum_probs=379.1

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~   96 (441)
                      .|+++.|+++....|.+.+.. +.+|+.+.++|+.|++++||+||||||||++|+++|++++.+++.+++.++.+...|+
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            579999999999999999988 8999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCcc
Q 013506           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (441)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l  175 (441)
                      .+++++++|+++....    |||+||||||.+.|..+. +.+...+.+.+|+..|+...........++||++||+|+.+
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            9999999999998765    999999999999998874 34567789999999999987765555579999999999999


Q ss_pred             CHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhccccccc-
Q 013506          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANEC-  254 (441)
Q Consensus       176 ~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~-  254 (441)
                      ||+++|.|||+..|.+..|+..+|.+|++.++..+.+..++++..++..|.||.+.|+..++.+|...+++|..+.... 
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            9999999999999999999999999999999999999999999999999999999999999999999888877652110 


Q ss_pred             -----------------------------------------------------ccceeeeHhhHHhhhhhcccccccCcc
Q 013506          255 -----------------------------------------------------AGVLSVTMEDWRHARSVVGPSITRGVT  281 (441)
Q Consensus       255 -----------------------------------------------------~~~~~~~~e~~~~~~~~~~~~~~~~~~  281 (441)
                                                                           ...+.+..+||..+...++|+..+...
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                                                                 012335667777888888888888888


Q ss_pred             cccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhh
Q 013506          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (441)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~  361 (441)
                      ...|..+|++++++++++.++..++.+|+++...+.++|+.++.++||+||||||||-+||++|.+.+.+|+.+++.+++
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            88999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ++|+|++|..+|.+|++|+...|||+||||+|.+.|+|+.++   .+.+.|++|+||++|||++.+..|+|+|+|
T Consensus       583 NkYVGESErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~~~~---s~~s~RvvNqLLtElDGl~~R~gV~viaAT  654 (802)
T KOG0733|consen  583 NKYVGESERAVRQVFQRARASAPCVIFFDEIDALVPRRSDEG---SSVSSRVVNQLLTELDGLEERRGVYVIAAT  654 (802)
T ss_pred             HHHhhhHHHHHHHHHHHhhcCCCeEEEecchhhcCcccCCCC---chhHHHHHHHHHHHhcccccccceEEEeec
Confidence            999999999999999999999999999999999999998765   345789999999999999998888888876

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

Probab=100.00  E-value=1.2e-67  Score=486.00  Aligned_cols=394  Identities=53%  Similarity=0.879  Sum_probs=367.5

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccchH
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESE   98 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~~   98 (441)
                      .++.|+..+...+++.+..|+..+..+...++++++++|++||||||||.++++++++.+..++.+++.++...+.++.+
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            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHH
Q 013506           99 KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPA  178 (441)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~  178 (441)
                      +.++..|.++....   .|.++||||+|.++|..........+...+++.+++....    ..++++++++|.+..++++
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 SNLRKAFAEALKFQ---VPSIIFIDELDALCPKREGADDVESRVVSQLLTLLDGLKP----DAKVIVLAATNRPDSLDPA  336 (693)
T ss_pred             HHHHHHHHHHhccC---CCeeEeHHhHhhhCCcccccchHHHHHHHHHHHHHhhCcC----cCcEEEEEecCCccccChh
Confidence            99999999887542   2999999999999998876655677899999999998763    3368999999999999999


Q ss_pred             HhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccccccce
Q 013506          179 LRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVL  258 (441)
Q Consensus       179 l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~  258 (441)
                      ++| |||+..+.+..|+...|.+|++.+.+.+....+.++..++..++||.++|+..++.++...+.++           
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 99999999999999999999999999999887788999999999999999999999999888776           


Q ss_pred             eeeHhhHHhhhhhcccccccCcccccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHH
Q 013506          259 SVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKT  338 (441)
Q Consensus       259 ~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKT  338 (441)
                        +.+++..+.....|+..+....+.+...|++++|++++|+.+++.+.|+++|...+.++|+.|+.++||+||||||||
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              567888889999999888888999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcCCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHH
Q 013506          339 TLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (441)
Q Consensus       339 tla~~la~~~~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll  418 (441)
                      ++||++|..++++|+.+++.+++++|+|++|+.++++|++|+...|||+||||||++.++|++++   ++..+|++++||
T Consensus       483 ~lAkalAne~~~nFlsvkgpEL~sk~vGeSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~---~~v~~RVlsqLL  559 (693)
T KOG0730|consen  483 LLAKALANEAGMNFLSVKGPELFSKYVGESERAIREVFRKARQVAPCIIFFDEIDALAGSRGGSS---SGVTDRVLSQLL  559 (693)
T ss_pred             HHHHHHhhhhcCCeeeccCHHHHHHhcCchHHHHHHHHHHHhhcCCeEEehhhHHhHhhccCCCc---cchHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999998533   278999999999


Q ss_pred             HHhcCCCCCCeEEEEeee
Q 013506          419 TEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       419 ~~l~~~~~~~~v~~~~~~  436 (441)
                      ++|||++....|+|+|+|
T Consensus       560 tEmDG~e~~k~V~ViAAT  577 (693)
T KOG0730|consen  560 TEMDGLEALKNVLVIAAT  577 (693)
T ss_pred             HHcccccccCcEEEEecc
Confidence            999999998777776665

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=100.00  E-value=6.6e-57  Score=452.50  Aligned_cols=411  Identities=46%  Similarity=0.777  Sum_probs=357.7

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      -++++|+|++++++.|.+++..|+.+++.+.++++.++++++|+||||||||++++++++.++.+++.+++.++...+.+
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            35588999999999999999999999999999999999999999999999999999999999999999999888888888


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCc
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA  174 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~  174 (441)
                      .....+..+|+.+...    .|++|||||+|.+.+..+. ......+.+.+|+..++.....    ..+++|+++|.++.
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            8888888888877643    4899999999999876542 2334567788888888775432    35899999999999


Q ss_pred             cCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhccccc--
Q 013506          175 IDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN--  252 (441)
Q Consensus       175 l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~--  252 (441)
                      +++++.+++||+..+.++.|+.++|.+|++.+........+.++..++..+.||++.++..+++.+...+.++.....  
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            999999999999999999999999999999888888777777899999999999999999999999888877654311  


Q ss_pred             ---------ccccceeeeHhhHHhhhhhcccccccCcccccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCC
Q 013506          253 ---------ECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISP  323 (441)
Q Consensus       253 ---------~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~  323 (441)
                               .......++.+++..+.....|+.......+.+...|.+++|++.+++.+.+.+.+++.+...+.+++..+
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                     11123456778888888888777666656667788999999999999999999999999999999999999


Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCC
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSS  403 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~  403 (441)
                      +.++||+||||||||++|+++|..++.+++.++++++.++|+|++++.++.+|+.|+...||||||||+|++++.|+...
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            99999999999999999999999999999999999999999999999999999999999999999999999999887532


Q ss_pred             CCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          404 STSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       404 ~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                        ..+..++++++||++||++.....|+|+|||
T Consensus       567 --~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aT  597 (733)
T TIGR01243       567 --DTSVTDRIVNQLLTEMDGIQELSNVVVIAAT  597 (733)
T ss_pred             --CccHHHHHHHHHHHHhhcccCCCCEEEEEeC
Confidence              3346789999999999998776666666554

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=9.1e-57  Score=418.42  Aligned_cols=405  Identities=35%  Similarity=0.564  Sum_probs=330.4

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~   96 (441)
                      +.-...+.+.....+..++..+ ..   ....++.....+||+|+||||||++++.+|.+++.+++.+++.++.....+.
T Consensus       399 n~~~~~~~~~~~~~l~~vl~p~-~~---~s~~~~~~~~~vLLhG~~g~GK~t~V~~vas~lg~h~~evdc~el~~~s~~~  474 (953)
T KOG0736|consen  399 NSLSPPGLEAKVLELVAVLSPQ-KQ---PSGALLTLNPSVLLHGPPGSGKTTVVRAVASELGLHLLEVDCYELVAESASH  474 (953)
T ss_pred             ccCCCccchHHHHHHHHHhCcc-cC---cchhccccceEEEEeCCCCCChHHHHHHHHHHhCCceEeccHHHHhhcccch
Confidence            3445566666666555554321 11   2222333446799999999999999999999999999999999999888888


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccC
Q 013506           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAID  176 (441)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~  176 (441)
                      .+.+....|..+...    .|+|||+-++|.+.-+.++  ..+.+.+..+...+. ........++++++++++..+.++
T Consensus       475 ~etkl~~~f~~a~~~----~pavifl~~~dvl~id~dg--ged~rl~~~i~~~ls-~e~~~~~~~~~ivv~t~~s~~~lp  547 (953)
T KOG0736|consen  475 TETKLQAIFSRARRC----SPAVLFLRNLDVLGIDQDG--GEDARLLKVIRHLLS-NEDFKFSCPPVIVVATTSSIEDLP  547 (953)
T ss_pred             hHHHHHHHHHHHhhc----CceEEEEeccceeeecCCC--chhHHHHHHHHHHHh-cccccCCCCceEEEEeccccccCC
Confidence            888888888877654    5999999999988744443  334455544444444 222333556799999999999999


Q ss_pred             HHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccc-----
Q 013506          177 PALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA-----  251 (441)
Q Consensus       177 ~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~-----  251 (441)
                      +.+++  .|...+.++.|+.++|.+|++.+........+.....++.++.||+.+++..++......+..+....     
T Consensus       548 ~~i~~--~f~~ei~~~~lse~qRl~iLq~y~~~~~~n~~v~~k~~a~~t~gfs~~~L~~l~~~~s~~~~~~i~~~~l~g~  625 (953)
T KOG0736|consen  548 ADIQS--LFLHEIEVPALSEEQRLEILQWYLNHLPLNQDVNLKQLARKTSGFSFGDLEALVAHSSLAAKTRIKNKGLAGG  625 (953)
T ss_pred             HHHHH--hhhhhccCCCCCHHHHHHHHHHHHhccccchHHHHHHHHHhcCCCCHHHHHHHhcCchHHHHHHHHhhccccc
Confidence            99999  77778999999999999999999999998888889999999999999999988776533332222211     


Q ss_pred             -------cccccceeeeHhhHHhhhhhcccccccCcc-cccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCC
Q 013506          252 -------NECAGVLSVTMEDWRHARSVVGPSITRGVT-VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISP  323 (441)
Q Consensus       252 -------~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~-~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~  323 (441)
                             ........++.+|+..+..+.+........ ..+|...|++++|++++|..+.+.+..|++|...+.. ++++
T Consensus       626 ~~~~~~~~~~~~~~~l~~edf~kals~~~~~fs~aiGAPKIPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfss-glrk  704 (953)
T KOG0736|consen  626 LQEEDEGELCAAGFLLTEEDFDKALSRLQKEFSDAIGAPKIPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSS-GLRK  704 (953)
T ss_pred             chhccccccccccceecHHHHHHHHHHHHHhhhhhcCCCCCCccchhcccCHHHHHHHHHHHhcCcccChhhhhc-cccc
Confidence                   112234668889999998877776555443 3578899999999999999999999999999988876 8888


Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCC
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSS  403 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~  403 (441)
                      +.++|||||||||||-+||++|.++..+|+.+++.+++.+|+|++|+++|++|++|+...||||||||+|+++|+||.++
T Consensus       705 RSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPELLNMYVGqSE~NVR~VFerAR~A~PCVIFFDELDSlAP~RG~sG  784 (953)
T KOG0736|consen  705 RSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPELLNMYVGQSEENVREVFERARSAAPCVIFFDELDSLAPNRGRSG  784 (953)
T ss_pred             cceeEEECCCCCchHHHHHHHHhhceeeEEeecCHHHHHHHhcchHHHHHHHHHHhhccCCeEEEeccccccCccCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999876


Q ss_pred             CCCcchhhHHHHHHHHHhcCCCC--CCeEEEEeee
Q 013506          404 STSITVGERLLSTLLTEMDGLEQ--AKVIIYPISF  436 (441)
Q Consensus       404 ~~~~~~~~~~~~~ll~~l~~~~~--~~~v~~~~~~  436 (441)
                      + ++++++|++++||.+|||..+  ...|+|+|+|
T Consensus       785 D-SGGVMDRVVSQLLAELDgls~~~s~~VFViGAT  818 (953)
T KOG0736|consen  785 D-SGGVMDRVVSQLLAELDGLSDSSSQDVFVIGAT  818 (953)
T ss_pred             C-ccccHHHHHHHHHHHhhcccCCCCCceEEEecC
Confidence            5 679999999999999999985  4557777765

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

Probab=100.00  E-value=3.2e-52  Score=384.69  Aligned_cols=393  Identities=30%  Similarity=0.457  Sum_probs=316.1

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC----cEEEEccCccccccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA----HLTVISPHSVHKAHV   94 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~----~~~~v~~~~~~~~~~   94 (441)
                      .+++-....|+...+....|           +..+.+++|.||+|||||.|++.+++++..    .+..++|+.+.....
T Consensus       408 ~d~i~~~s~kke~~n~~~sp-----------v~~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~~  476 (952)
T KOG0735|consen  408 HDFIQVPSYKKENANQELSP-----------VFRHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSL  476 (952)
T ss_pred             Cceeecchhhhhhhhhhccc-----------ccccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchhH
Confidence            45555555555555433222           334678999999999999999999998754    355678887766555


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHH---HH-HHHhcCCCCCCCCCeEEEEEEcC
Q 013506           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQ---LF-TLMDSNKPSKTSVPHVVVVASTN  170 (441)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~---l~-~~~~~~~~~~~~~~~~~vi~~~~  170 (441)
                      ....+.+..+|..+..    ..|+|+++|++|.++...+..+.+.......   ++ ..+..+..   ....+.+|++.+
T Consensus       477 e~iQk~l~~vfse~~~----~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~---~~~~ia~Iat~q  549 (952)
T KOG0735|consen  477 EKIQKFLNNVFSEALW----YAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLK---RNRKIAVIATGQ  549 (952)
T ss_pred             HHHHHHHHHHHHHHHh----hCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHc---cCcEEEEEEech
Confidence            5555555566655554    4599999999999987443333322222222   22 22222211   122579999999


Q ss_pred             CCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCC-cccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcc
Q 013506          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEALCREATMSAVKRSS  249 (441)
Q Consensus       171 ~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~-~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~  249 (441)
                      ....+++.+.++.+|+.++.+++|...+|.+|+...+.+..... ..++..++..|.||.+.|+..+++++...+.....
T Consensus       550 e~qtl~~~L~s~~~Fq~~~~L~ap~~~~R~~IL~~~~s~~~~~~~~~dLd~ls~~TEGy~~~DL~ifVeRai~~a~leri  629 (952)
T KOG0735|consen  550 ELQTLNPLLVSPLLFQIVIALPAPAVTRRKEILTTIFSKNLSDITMDDLDFLSVKTEGYLATDLVIFVERAIHEAFLERI  629 (952)
T ss_pred             hhhhcChhhcCccceEEEEecCCcchhHHHHHHHHHHHhhhhhhhhHHHHHHHHhcCCccchhHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999877665432 23467799999999999999999999888773221


Q ss_pred             cccccccceeeeHhhHHhhhhhcccccccCcccccCc-cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEE
Q 013506          250 DANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPK-VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGAL  328 (441)
Q Consensus       250 ~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~l  328 (441)
                      .    .....++.+++...++.+.|...++.....+. ..|++++|+.++|+.+.+.++||.++...+...+++.+.++|
T Consensus       630 s----~~~klltke~f~ksL~~F~P~aLR~ik~~k~tgi~w~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giL  705 (952)
T KOG0735|consen  630 S----NGPKLLTKELFEKSLKDFVPLALRGIKLVKSTGIRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGIL  705 (952)
T ss_pred             c----cCcccchHHHHHHHHHhcChHHhhhccccccCCCCceecccHHHHHHHHHHHHhccccchHHHhhCCcccccceE
Confidence            1    12226788999999998888877777765554 789999999999999999999999999999999999999999


Q ss_pred             EECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcc
Q 013506          329 LHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSIT  408 (441)
Q Consensus       329 l~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~  408 (441)
                      |+||||||||-+|.++|..++..++.++++++.++|+|.+|+++|.+|.+|+...||||||||+|+++|+||-   ++.+
T Consensus       706 LyGppGcGKT~la~a~a~~~~~~fisvKGPElL~KyIGaSEq~vR~lF~rA~~a~PCiLFFDEfdSiAPkRGh---DsTG  782 (952)
T KOG0735|consen  706 LYGPPGCGKTLLASAIASNSNLRFISVKGPELLSKYIGASEQNVRDLFERAQSAKPCILFFDEFDSIAPKRGH---DSTG  782 (952)
T ss_pred             EECCCCCcHHHHHHHHHhhCCeeEEEecCHHHHHHHhcccHHHHHHHHHHhhccCCeEEEeccccccCcccCC---CCCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999986   4567


Q ss_pred             hhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          409 VGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       409 ~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ..+|++|+||++|||.++-..|+|+|+|
T Consensus       783 VTDRVVNQlLTelDG~Egl~GV~i~aaT  810 (952)
T KOG0735|consen  783 VTDRVVNQLLTELDGAEGLDGVYILAAT  810 (952)
T ss_pred             chHHHHHHHHHhhccccccceEEEEEec
Confidence            7899999999999999998888888887

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

Probab=100.00  E-value=1.5e-42  Score=335.71  Aligned_cols=382  Identities=45%  Similarity=0.691  Sum_probs=328.4

Q ss_pred             hccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCC
Q 013506           38 PLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKP  117 (441)
Q Consensus        38 ~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (441)
                      |...+..++.+++.++.+++++||||+|||.+++.++.. +.....++.......+.+.........+..+....    |
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            345667788889999999999999999999999999998 55557778888888888888888888888887654    6


Q ss_pred             eEEEEccccccccCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCH
Q 013506          118 SVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTA  196 (441)
Q Consensus       118 ~il~iDe~~~l~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~  196 (441)
                      +++++||++.+.+.... .......+..++...++...    ... +.+++.++.+..+++++.+++||...+.++.|+.
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            99999999999887765 33345577788888887766    333 7888899999999999999999999999999999


Q ss_pred             HHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhhccccc
Q 013506          197 EERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSI  276 (441)
Q Consensus       197 ~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~  276 (441)
                      ..+.+|+...........+.+...++..+.++.+.++..++..+......+..  .........+.+++...+....++ 
T Consensus       153 ~~~~ei~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~r~~--~~~~~~~~~~~~~~~~~l~~~~~~-  229 (494)
T COG0464         153 AGRLEILQIHTRLMFLGPPGTGKTLAARTVGKSGADLGALAKEAALRELRRAI--DLVGEYIGVTEDDFEEALKKVLPS-  229 (494)
T ss_pred             HHHHHHHHHHHhcCCCcccccHHHHHHhcCCccHHHHHHHHHHHHHHHHHhhh--ccCcccccccHHHHHHHHHhcCcc-
Confidence            99999999888888777788899999999999999999999888877777752  111123456777788777777665 


Q ss_pred             ccCcccccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          277 TRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       277 ~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                       ....+..+...|.+++|++.+++.+.+.+.+++.+...+...+++++.++||+||||||||++|+++|..++.+++.++
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             5556677788999999999999999999999999999988889999999999999999999999999999999999999


Q ss_pred             hhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          357 GAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       357 ~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .+++.++|+|+++++++.+|..|+...||||||||+|++++.|+.+.+++   .+|++++||++||+.+....|+|+|+|
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            99999999999999999999999999999999999999999998754332   379999999999999998877766654

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

Probab=100.00  E-value=9.3e-43  Score=299.53  Aligned_cols=241  Identities=40%  Similarity=0.656  Sum_probs=216.0

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~   96 (441)
                      +.++|.|++++++.|++.+..|+.+|+.|..+|+.||.+||||||||||||.+|+++|+..+..|+.+.++++...++|+
T Consensus       149 tY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSElVqKYiGE  228 (406)
T COG1222         149 TYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELVQKYIGE  228 (406)
T ss_pred             ChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHHHHHHHhcc
Confidence            34899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCC-CCCchhhHHHHHHHHH---HHhcCCCCCCCCCeEEEEEEcCCC
Q 013506           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-DHRREQDVRIASQLFT---LMDSNKPSKTSVPHVVVVASTNRV  172 (441)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~-~~~~~~~~~~~~~l~~---~~~~~~~~~~~~~~~~vi~~~~~~  172 (441)
                      ..+.++++|.-+....    |+|+||||+|.+.... +.+.+.+.+++..++.   .+|+..    ..+++-||++||++
T Consensus       229 GaRlVRelF~lAreka----PsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD----~~~nvKVI~ATNR~  300 (406)
T COG1222         229 GARLVRELFELAREKA----PSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFD----PRGNVKVIMATNRP  300 (406)
T ss_pred             chHHHHHHHHHHhhcC----CeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCC----CCCCeEEEEecCCc
Confidence            9999999999988765    9999999999997655 3333445555555554   455544    34489999999999


Q ss_pred             CccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhccccc
Q 013506          173 DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN  252 (441)
Q Consensus       173 ~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~  252 (441)
                      +.|||+++|+|||++.|+||.|+.+.|.+|++.+..++.+..+++++.++..+.|+++++++.+|.+|...+++...+  
T Consensus       301 D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~e~la~~~~g~sGAdlkaictEAGm~AiR~~R~--  378 (406)
T COG1222         301 DILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDLELLARLTEGFSGADLKAICTEAGMFAIRERRD--  378 (406)
T ss_pred             cccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCHHHHHHhcCCCchHHHHHHHHHHhHHHHHhccC--
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999987654  


Q ss_pred             ccccceeeeHhhHHhhhhhcc
Q 013506          253 ECAGVLSVTMEDWRHARSVVG  273 (441)
Q Consensus       253 ~~~~~~~~~~e~~~~~~~~~~  273 (441)
                            .++.+||..+..+..
T Consensus       379 ------~Vt~~DF~~Av~KV~  393 (406)
T COG1222         379 ------EVTMEDFLKAVEKVV  393 (406)
T ss_pred             ------eecHHHHHHHHHHHH
Confidence                  588889887776544

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.2e-41  Score=303.38  Aligned_cols=409  Identities=27%  Similarity=0.419  Sum_probs=309.8

Q ss_pred             cccccccc--ccchHHHHHHH-HHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC-cEEEEccCc
Q 013506           13 EKWKAEEA--IGGNRAAVEAL-RELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-HLTVISPHS   88 (441)
Q Consensus        13 ~~~~~~~~--i~G~~~~~~~l-~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~-~~~~v~~~~   88 (441)
                      +.|+ |++  |.|+++....+ +++.......|+...++|++.-+++|||||||||||.+||.+...++. +.-.|++.+
T Consensus       214 Pdf~-Fe~mGIGGLd~EFs~IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNGPe  292 (744)
T KOG0741|consen  214 PDFN-FESMGIGGLDKEFSDIFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNGPE  292 (744)
T ss_pred             CCCC-hhhcccccchHHHHHHHHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccCcHH
Confidence            4563 344  78998886655 456666677788999999999999999999999999999999999974 456789999


Q ss_pred             cccccccchHHHHHHHHHHHHhhhh----cCCCeEEEEccccccccCCCCC---chhhHHHHHHHHHHHhcCCCCCCCCC
Q 013506           89 VHKAHVGESEKALREAFSQASSHAL----SGKPSVVFIDEIDALCPRRDHR---REQDVRIASQLFTLMDSNKPSKTSVP  161 (441)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~il~iDe~~~l~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~~~~  161 (441)
                      +.+.++|++++.++.+|..+.....    ...--|+++||+|.++..++..   ......+..+|+.-+|....    ..
T Consensus       293 IL~KYVGeSE~NvR~LFaDAEeE~r~~g~~SgLHIIIFDEiDAICKqRGS~~g~TGVhD~VVNQLLsKmDGVeq----LN  368 (744)
T KOG0741|consen  293 ILNKYVGESEENVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKMDGVEQ----LN  368 (744)
T ss_pred             HHHHhhcccHHHHHHHHHhHHHHHHhhCccCCceEEEehhhHHHHHhcCCCCCCCCccHHHHHHHHHhcccHHh----hh
Confidence            9999999999999999988764322    2223599999999999776532   33456888999998887653    33


Q ss_pred             eEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCC----CCCcccHHHHHHHCCCCCHHHHHHHH
Q 013506          162 HVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVP----LDANVDLEAIATSCNGYVGADLEALC  237 (441)
Q Consensus       162 ~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~----~~~~~~~~~l~~~~~g~~~~~i~~l~  237 (441)
                      ++++|+.||+.+.+|++++|+|||...+++..|++.-|.+|++.+.+++.    ...++++.+++..+..|++++++.++
T Consensus       369 NILVIGMTNR~DlIDEALLRPGRlEVqmEIsLPDE~gRlQIl~IHT~rMre~~~l~~dVdl~elA~lTKNfSGAEleglV  448 (744)
T KOG0741|consen  369 NILVIGMTNRKDLIDEALLRPGRLEVQMEISLPDEKGRLQILKIHTKRMRENNKLSADVDLKELAALTKNFSGAELEGLV  448 (744)
T ss_pred             cEEEEeccCchhhHHHHhcCCCceEEEEEEeCCCccCceEEEEhhhhhhhhcCCCCCCcCHHHHHHHhcCCchhHHHHHH
Confidence            79999999999999999999999999999999999999999987766553    56788899999999999999999999


Q ss_pred             HHHHHHHHHhccccc-------ccccceeeeHhhHHhhhhhcccccccCcccccCccccccccCchhHHHHHHHHHhccc
Q 013506          238 REATMSAVKRSSDAN-------ECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPI  310 (441)
Q Consensus       238 ~~a~~~~~~~~~~~~-------~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~  310 (441)
                      +.|...++.|.....       .......++.+|+..++..++|........ ...  + ...|+-..-..+...++...
T Consensus       449 ksA~S~A~nR~vk~~~~~~~~~~~~e~lkV~r~DFl~aL~dVkPAFG~see~-l~~--~-~~~Gmi~~g~~v~~il~~G~  524 (744)
T KOG0741|consen  449 KSAQSFAMNRHVKAGGKVEVDPVAIENLKVTRGDFLNALEDVKPAFGISEED-LER--F-VMNGMINWGPPVTRILDDGK  524 (744)
T ss_pred             HHHHHHHHHhhhccCcceecCchhhhheeecHHHHHHHHHhcCcccCCCHHH-HHH--H-HhCCceeecccHHHHHhhHH
Confidence            999999998886543       112345677888888888777754322210 000  0 01222222223333333333


Q ss_pred             CCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechh-hhhhhccCchH--HHHHHHHHHHHhcCCeEE
Q 013506          311 KHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA-ELYSMYVGESE--ALLRNTFQRARLAAPSII  387 (441)
Q Consensus       311 ~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~-~~~~~~~g~~~--~~~~~~~~~a~~~~~~vl  387 (441)
                      ...+....-...+-..+||.||||||||+||.-+|.....|++.+-.+ ++++  ..++.  .-++++|+.|.+++-+|+
T Consensus       525 llv~qvk~s~~s~lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe~miG--~sEsaKc~~i~k~F~DAYkS~lsii  602 (744)
T KOG0741|consen  525 LLVQQVKNSERSPLVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPEDMIG--LSESAKCAHIKKIFEDAYKSPLSII  602 (744)
T ss_pred             HHHHHhhccccCcceEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChHHccC--ccHHHHHHHHHHHHHHhhcCcceEE
Confidence            333334444555667899999999999999999999999999976554 4545  33443  568999999999999999


Q ss_pred             EEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCC-eEEEEeee
Q 013506          388 FFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK-VIIYPISF  436 (441)
Q Consensus       388 ~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~-~v~~~~~~  436 (441)
                      ++|+++.+.-.-.    -...|+.-++-+|+-.|...+..+ +.+|+|||
T Consensus       603 vvDdiErLiD~vp----IGPRfSN~vlQaL~VllK~~ppkg~kLli~~TT  648 (744)
T KOG0741|consen  603 VVDDIERLLDYVP----IGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTT  648 (744)
T ss_pred             EEcchhhhhcccc----cCchhhHHHHHHHHHHhccCCCCCceEEEEecc
Confidence            9999999873211    123456778888888888877765 57777776

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

Probab=100.00  E-value=1.5e-41  Score=313.67  Aligned_cols=255  Identities=40%  Similarity=0.662  Sum_probs=234.5

Q ss_pred             cccccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc
Q 013506            6 RIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS   85 (441)
Q Consensus         6 ~~~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~   85 (441)
                      .++..+|+.|   ++|.|+|++|+.|++.+.+|..+++.|.++|+.++++||||||||||||++|+++|++.+.+|+.+.
T Consensus       424 ~~ve~p~v~W---~dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvk  500 (693)
T KOG0730|consen  424 ILVEMPNVSW---DDIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVK  500 (693)
T ss_pred             eeccCCCCCh---hhccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhhhcCCeeecc
Confidence            3477889999   8999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCCeEE
Q 013506           86 PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (441)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  164 (441)
                      +.++.+.|.|+.++.++.+|+.++...    |+|+|+||+|.+...++ ..+....+++.+|++.+++....+    +++
T Consensus       501 gpEL~sk~vGeSEr~ir~iF~kAR~~a----P~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k----~V~  572 (693)
T KOG0730|consen  501 GPELFSKYVGESERAIREVFRKARQVA----PCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALK----NVL  572 (693)
T ss_pred             CHHHHHHhcCchHHHHHHHHHHHhhcC----CeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccC----cEE
Confidence            999999999999999999999998765    89999999999988774 333457799999999999876543    799


Q ss_pred             EEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q 013506          165 VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSA  244 (441)
Q Consensus       165 vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~  244 (441)
                      ||++||+|+.+|+++.|+|||+..+++|+|+.+.|.+|++.++++++...+++++.++..|+||+++++..+|++|+..+
T Consensus       573 ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp~~~~vdl~~La~~T~g~SGAel~~lCq~A~~~a  652 (693)
T KOG0730|consen  573 VIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMPFSEDVDLEELAQATEGYSGAEIVAVCQEAALLA  652 (693)
T ss_pred             EEeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcCCCCccccHHHHHHHhccCChHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcccccccccceeeeHhhHHhhhhhcccccc
Q 013506          245 VKRSSDANECAGVLSVTMEDWRHARSVVGPSIT  277 (441)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~  277 (441)
                      +++..+      ...+..+|+..+++..+++..
T Consensus       653 ~~e~i~------a~~i~~~hf~~al~~~r~s~~  679 (693)
T KOG0730|consen  653 LRESIE------ATEITWQHFEEALKAVRPSLT  679 (693)
T ss_pred             HHHhcc------cccccHHHHHHHHHhhcccCC
Confidence            988765      345788888888887776544

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

Probab=100.00  E-value=5.3e-39  Score=292.87  Aligned_cols=260  Identities=40%  Similarity=0.606  Sum_probs=229.7

Q ss_pred             cccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccC
Q 013506            8 MSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH   87 (441)
Q Consensus         8 ~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~   87 (441)
                      ..-|++.|   ++|.|+++++.+|..++.+|+.++..++.+|+..+.+||||||||||||.+|+++|++.+.+|+.|.+.
T Consensus       503 ~tVPdVtW---~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lGi~~PsGvLL~GPPGCGKTLlAKAVANEag~NFisVKGP  579 (802)
T KOG0733|consen  503 ATVPDVTW---DDIGALEEVRLELNMAILAPIKRPDLFKALGIDAPSGVLLCGPPGCGKTLLAKAVANEAGANFISVKGP  579 (802)
T ss_pred             eecCCCCh---hhcccHHHHHHHHHHHHhhhccCHHHHHHhCCCCCCceEEeCCCCccHHHHHHHHhhhccCceEeecCH
Confidence            44578899   899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEE
Q 013506           88 SVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVV  166 (441)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi  166 (441)
                      ++...|+|+.++.++.+|+.++...    |||+|+||+|.|++..+ .......+++++|+..+++.....    ++.||
T Consensus       580 ELlNkYVGESErAVR~vFqRAR~sa----PCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~----gV~vi  651 (802)
T KOG0733|consen  580 ELLNKYVGESERAVRQVFQRARASA----PCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERR----GVYVI  651 (802)
T ss_pred             HHHHHHhhhHHHHHHHHHHHhhcCC----CeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhccccccc----ceEEE
Confidence            9999999999999999999998765    99999999999999875 445667799999999999876433    69999


Q ss_pred             EEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhc--cCCCCCcccHHHHHHHCC--CCCHHHHHHHHHHHHH
Q 013506          167 ASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTK--KVPLDANVDLEAIATSCN--GYVGADLEALCREATM  242 (441)
Q Consensus       167 ~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~--~~~~~~~~~~~~l~~~~~--g~~~~~i~~l~~~a~~  242 (441)
                      ++||+|+.+||+++|+|||+..++++.|+.++|..|++.+.+  +.++..+++++.++..+.  ||++.|+..+++++..
T Consensus       652 aATNRPDiIDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~~~c~gftGADLaaLvreAsi  731 (802)
T KOG0733|consen  652 AATNRPDIIDPAILRPGRLDKLLYVGLPNAEERVAILKTITKNTKPPLSSDVDLDEIARNTKCEGFTGADLAALVREASI  731 (802)
T ss_pred             eecCCCcccchhhcCCCccCceeeecCCCHHHHHHHHHHHhccCCCCCCcccCHHHHhhcccccCCchhhHHHHHHHHHH
Confidence            999999999999999999999999999999999999999998  677888999999998776  9999999999999988


Q ss_pred             HHHHhcccccc----ccc----ceeeeHhhHHhhhhhccccccc
Q 013506          243 SAVKRSSDANE----CAG----VLSVTMEDWRHARSVVGPSITR  278 (441)
Q Consensus       243 ~~~~~~~~~~~----~~~----~~~~~~e~~~~~~~~~~~~~~~  278 (441)
                      .+++.......    ...    ...++..||+.++..++|+...
T Consensus       732 ~AL~~~~~~~~~~~~~~~~~~~~~~~t~~hF~eA~~~i~pSv~~  775 (802)
T KOG0733|consen  732 LALRESLFEIDSSEDDVTVRSSTIIVTYKHFEEAFQRIRPSVSE  775 (802)
T ss_pred             HHHHHHHhhccccCcccceeeeeeeecHHHHHHHHHhcCCCccH
Confidence            87776543211    111    1235567899999988887553

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=3.2e-37  Score=267.23  Aligned_cols=261  Identities=37%  Similarity=0.578  Sum_probs=228.4

Q ss_pred             ccccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc
Q 013506            7 IMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP   86 (441)
Q Consensus         7 ~~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~   86 (441)
                      +.+.++++|   ++|.|+.++|+-|++++..|+..|+.|+.+- .|-++||++||||||||.||+++|.+++..|+.|+.
T Consensus       203 l~~np~ikW---~DIagl~~AK~lL~EAVvlPi~mPe~F~Gir-rPWkgvLm~GPPGTGKTlLAKAvATEc~tTFFNVSs  278 (491)
T KOG0738|consen  203 LQRNPNIKW---DDIAGLHEAKKLLKEAVVLPIWMPEFFKGIR-RPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSS  278 (491)
T ss_pred             hccCCCcCh---HhhcchHHHHHHHHHHHhhhhhhHHHHhhcc-cccceeeeeCCCCCcHHHHHHHHHHhhcCeEEEech
Confidence            467788999   8999999999999999999999999998753 456899999999999999999999999999999999


Q ss_pred             CccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC--CchhhHHHHHHHHHHHhcCCCCCCCCCeEE
Q 013506           87 HSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH--RREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (441)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  164 (441)
                      +.+.+.+-|+.++.++-+|+-++..+    |+++||||||.|+...+.  .++.+.++...|+.++++..........+.
T Consensus       279 stltSKwRGeSEKlvRlLFemARfyA----PStIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~~k~Vm  354 (491)
T KOG0738|consen  279 STLTSKWRGESEKLVRLLFEMARFYA----PSTIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQGTLENSKVVM  354 (491)
T ss_pred             hhhhhhhccchHHHHHHHHHHHHHhC----CceeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhhccccccccceeEE
Confidence            99999999999999999999988776    999999999999987764  345678899999999998765544444589


Q ss_pred             EEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q 013506          165 VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSA  244 (441)
Q Consensus       165 vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~  244 (441)
                      |+++||.||+||++++|  ||...|++|.|+.+.|..+++..+.......+.+++.++..++||++.+|.++|+.+...+
T Consensus       355 VLAATN~PWdiDEAlrR--RlEKRIyIPLP~~~~R~~Li~~~l~~~~~~~~~~~~~lae~~eGySGaDI~nvCreAsm~~  432 (491)
T KOG0738|consen  355 VLAATNFPWDIDEALRR--RLEKRIYIPLPDAEARSALIKILLRSVELDDPVNLEDLAERSEGYSGADITNVCREASMMA  432 (491)
T ss_pred             EEeccCCCcchHHHHHH--HHhhheeeeCCCHHHHHHHHHHhhccccCCCCccHHHHHHHhcCCChHHHHHHHHHHHHHH
Confidence            99999999999999999  9999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhccccccccc---------ceeeeHhhHHhhhhhcccccc
Q 013506          245 VKRSSDANECAG---------VLSVTMEDWRHARSVVGPSIT  277 (441)
Q Consensus       245 ~~~~~~~~~~~~---------~~~~~~e~~~~~~~~~~~~~~  277 (441)
                      ++|........+         ...+..+|++.++....++..
T Consensus       433 mRR~i~g~~~~ei~~lakE~~~~pv~~~Dfe~Al~~v~pSvs  474 (491)
T KOG0738|consen  433 MRRKIAGLTPREIRQLAKEEPKMPVTNEDFEEALRKVRPSVS  474 (491)
T ss_pred             HHHHHhcCCcHHhhhhhhhccccccchhhHHHHHHHcCcCCC
Confidence            987654321111         134667788888777776544

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

Probab=100.00  E-value=5.5e-36  Score=280.07  Aligned_cols=259  Identities=38%  Similarity=0.616  Sum_probs=227.8

Q ss_pred             cccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcc
Q 013506           10 EHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (441)
Q Consensus        10 ~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~   89 (441)
                      -||+.|   +||+|+|++|..|.+.+..|+.++++|.+ |+++..+||||||||||||-+|+++|.++...|+.|.+.++
T Consensus       666 IPnV~W---dDVGGLeevK~eIldTIqlPL~hpeLfss-glrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlSVKGPEL  741 (953)
T KOG0736|consen  666 IPNVSW---DDVGGLEEVKTEILDTIQLPLKHPELFSS-GLRKRSGILLYGPPGTGKTLLAKAVATECSLNFLSVKGPEL  741 (953)
T ss_pred             CCccch---hcccCHHHHHHHHHHHhcCcccChhhhhc-cccccceeEEECCCCCchHHHHHHHHhhceeeEEeecCHHH
Confidence            467889   89999999999999999999999999986 77778999999999999999999999999999999999999


Q ss_pred             ccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCch---hhHHHHHHHHHHHhcCCCCCCCCCeEEEE
Q 013506           90 HKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRRE---QDVRIASQLFTLMDSNKPSKTSVPHVVVV  166 (441)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~~~~~~~vi  166 (441)
                      ..+|+|+.++.++++|+.++...    |||+|+||+|+++|.++..+.   --.+++.+|+..+|.....  ....++||
T Consensus       742 LNMYVGqSE~NVR~VFerAR~A~----PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~--~s~~VFVi  815 (953)
T KOG0736|consen  742 LNMYVGQSEENVREVFERARSAA----PCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDS--SSQDVFVI  815 (953)
T ss_pred             HHHHhcchHHHHHHHHHHhhccC----CeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCC--CCCceEEE
Confidence            99999999999999999998764    999999999999998754332   3458999999999987653  23369999


Q ss_pred             EEcCCCCccCHHHhhCCccceEEEecCC-CHHHHHHHHHHHhccCCCCCcccHHHHHHHCC-CCCHHHHHHHHHHHHHHH
Q 013506          167 ASTNRVDAIDPALRRSGRFDAEVEVTVP-TAEERFEILKLYTKKVPLDANVDLEAIATSCN-GYVGADLEALCREATMSA  244 (441)
Q Consensus       167 ~~~~~~~~l~~~l~~~~r~~~~i~~~~p-~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~-g~~~~~i~~l~~~a~~~~  244 (441)
                      ++||+|+.+||++.|+|||+..+++.++ +.+.+..+++...+++.++.++++..+++.|. .|+++|+-.+|..|...+
T Consensus       816 GATNRPDLLDpALLRPGRFDKLvyvG~~~d~esk~~vL~AlTrkFkLdedVdL~eiAk~cp~~~TGADlYsLCSdA~l~A  895 (953)
T KOG0736|consen  816 GATNRPDLLDPALLRPGRFDKLVYVGPNEDAESKLRVLEALTRKFKLDEDVDLVEIAKKCPPNMTGADLYSLCSDAMLAA  895 (953)
T ss_pred             ecCCCccccChhhcCCCccceeEEecCCccHHHHHHHHHHHHHHccCCCCcCHHHHHhhCCcCCchhHHHHHHHHHHHHH
Confidence            9999999999999999999999998887 56677899999999999999999999999996 589999999999999999


Q ss_pred             HHhccccc---------ccccceeeeHhhHHhhhhhccccccc
Q 013506          245 VKRSSDAN---------ECAGVLSVTMEDWRHARSVVGPSITR  278 (441)
Q Consensus       245 ~~~~~~~~---------~~~~~~~~~~e~~~~~~~~~~~~~~~  278 (441)
                      +.|..+..         .......++.+|+..+.+++.|+.+.
T Consensus       896 ikR~i~~ie~g~~~~~e~~~~~v~V~~eDflks~~~l~PSvS~  938 (953)
T KOG0736|consen  896 IKRTIHDIESGTISEEEQESSSVRVTMEDFLKSAKRLQPSVSE  938 (953)
T ss_pred             HHHHHHHhhhccccccccCCceEEEEHHHHHHHHHhcCCcccH
Confidence            88876432         22345678899999999988887553

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=4.1e-36  Score=269.96  Aligned_cols=238  Identities=38%  Similarity=0.593  Sum_probs=213.2

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      ..|+++-|.|++|++|++++.+ +..|+.|.++|-+-|++|||+||||||||.|||++|++.+.+|++.++++|...++|
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            3469999999999999999987 788999999999999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCch-hhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCc
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRRE-QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA  174 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~  174 (441)
                      ...++++.+|..+++.+    |||+||||+|.+...+..... .....+++|+..+|..+...    .++||++||.|+.
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            99999999999998776    999999999999877654433 55678889999999877544    6999999999999


Q ss_pred             cCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhccccccc
Q 013506          175 IDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANEC  254 (441)
Q Consensus       175 l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~  254 (441)
                      ||+++.|+|||+..+.+|.||..-|.+|+..++.+.....+++...+++-+.||++.++.++++.|...+.....     
T Consensus       452 LD~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~ki~~~~~VD~~iiARGT~GFsGAdLaNlVNqAAlkAa~dga-----  526 (752)
T KOG0734|consen  452 LDKALTRPGRFDRHVTVPLPDVRGRTEILKLYLSKIPLDEDVDPKIIARGTPGFSGADLANLVNQAALKAAVDGA-----  526 (752)
T ss_pred             hhHHhcCCCccceeEecCCCCcccHHHHHHHHHhcCCcccCCCHhHhccCCCCCchHHHHHHHHHHHHHHHhcCc-----
Confidence            999999999999999999999999999999999999999999999999999999999999999999887765433     


Q ss_pred             ccceeeeHhhHHhhhh
Q 013506          255 AGVLSVTMEDWRHARS  270 (441)
Q Consensus       255 ~~~~~~~~e~~~~~~~  270 (441)
                         ..++..+++++..
T Consensus       527 ---~~VtM~~LE~akD  539 (752)
T KOG0734|consen  527 ---EMVTMKHLEFAKD  539 (752)
T ss_pred             ---ccccHHHHhhhhh
Confidence               2355555555544

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.7e-36  Score=252.53  Aligned_cols=236  Identities=33%  Similarity=0.561  Sum_probs=207.3

Q ss_pred             ccccccccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506            3 SKGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      +.+.++.+||++|   +++.|+|.+|++|++++..|+.+|++|.. +..|-+++||+|||||||+.||+++|.+.+..|+
T Consensus       120 ~sAIv~EKPNVkW---sDVAGLE~AKeALKEAVILPIKFPqlFtG-kR~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFF  195 (439)
T KOG0739|consen  120 NSAIVREKPNVKW---SDVAGLEGAKEALKEAVILPIKFPQLFTG-KRKPWRGILLYGPPGTGKSYLAKAVATEANSTFF  195 (439)
T ss_pred             hhhhhccCCCCch---hhhccchhHHHHHHhheeecccchhhhcC-CCCcceeEEEeCCCCCcHHHHHHHHHhhcCCceE
Confidence            3567899999999   89999999999999999999999999876 3456689999999999999999999999999999


Q ss_pred             EEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCC
Q 013506           83 VISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVP  161 (441)
Q Consensus        83 ~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~~  161 (441)
                      .|+.+++.+.+.++.++.+..+|.-++..    +|+|+||||+|.++..+. ..++...+....++-++.....   ...
T Consensus       196 SvSSSDLvSKWmGESEkLVknLFemARe~----kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~---d~~  268 (439)
T KOG0739|consen  196 SVSSSDLVSKWMGESEKLVKNLFEMAREN----KPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGN---DND  268 (439)
T ss_pred             EeehHHHHHHHhccHHHHHHHHHHHHHhc----CCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhcccc---CCC
Confidence            99999999999999999999999888755    599999999999987765 4445566667777777766432   344


Q ss_pred             eEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCC-CcccHHHHHHHCCCCCHHHHHHHHHHH
Q 013506          162 HVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREA  240 (441)
Q Consensus       162 ~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~l~~~a  240 (441)
                      .++|+++||.||.||.+++|  ||...|++|.|....|.++++.++...+.. ...+++.++..+.||++.+|..+++.+
T Consensus       269 gvLVLgATNiPw~LDsAIRR--RFekRIYIPLPe~~AR~~MF~lhlG~tp~~LT~~d~~eL~~kTeGySGsDisivVrDa  346 (439)
T KOG0739|consen  269 GVLVLGATNIPWVLDSAIRR--RFEKRIYIPLPEAHARARMFKLHLGDTPHVLTEQDFKELARKTEGYSGSDISIVVRDA  346 (439)
T ss_pred             ceEEEecCCCchhHHHHHHH--HhhcceeccCCcHHHhhhhheeccCCCccccchhhHHHHHhhcCCCCcCceEEEehhh
Confidence            79999999999999999999  999999999999999999999888876654 556799999999999999999999999


Q ss_pred             HHHHHHhcccc
Q 013506          241 TMSAVKRSSDA  251 (441)
Q Consensus       241 ~~~~~~~~~~~  251 (441)
                      .....+..++.
T Consensus       347 lmePvRkvqsA  357 (439)
T KOG0739|consen  347 LMEPVRKVQSA  357 (439)
T ss_pred             hhhhHHHhhhh
Confidence            99888876653

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=100.00  E-value=4.1e-33  Score=279.46  Aligned_cols=370  Identities=22%  Similarity=0.255  Sum_probs=245.9

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~v~   85 (441)
                      ..+++++|+++..+.+.+.+..             ..+.+++|+||||||||++++.++..+          +..++.++
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            6778999999999988877754             245789999999999999999999987          56678888


Q ss_pred             cCccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        86 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ...+.  ..+.++.++.+..+++.+...    .+.||||||+|.+.+.+..... ..+..+.|...+.+.        .+
T Consensus       246 ~~~l~a~~~~~g~~e~~l~~i~~~~~~~----~~~ILfiDEih~l~~~g~~~~~-~~~~~~~L~~~l~~g--------~i  312 (731)
T TIGR02639       246 MGSLLAGTKYRGDFEERLKAVVSEIEKE----PNAILFIDEIHTIVGAGATSGG-SMDASNLLKPALSSG--------KL  312 (731)
T ss_pred             HHHHhhhccccchHHHHHHHHHHHHhcc----CCeEEEEecHHHHhccCCCCCc-cHHHHHHHHHHHhCC--------Ce
Confidence            76665  456788888898888876532    3789999999999865432211 223444555555432        58


Q ss_pred             EEEEEcCCCC-----ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCC----CC-CcccHHHHHHHCCCCC----
Q 013506          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVP----LD-ANVDLEAIATSCNGYV----  229 (441)
Q Consensus       164 ~vi~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~----~~-~~~~~~~l~~~~~g~~----  229 (441)
                      .+|++|+..+     ..|+++.|  ||. .+.++.|+.+++.+|++.....+.    .. .+..+..++..+..|.    
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            8999988633     57899999  997 799999999999999997655432    11 2223555555554432    


Q ss_pred             -HHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhhcccccccCcc-------cccCccccccccCchhHHHH
Q 013506          230 -GADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVT-------VEIPKVTWEDIGGLRDLKKK  301 (441)
Q Consensus       230 -~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~i~g~~~~k~~  301 (441)
                       +...-.++++++.....+...    .....++.+++................       ......--..+.|++.+.+.
T Consensus       390 ~P~kai~lld~a~a~~~~~~~~----~~~~~v~~~~i~~~i~~~tgiP~~~~~~~~~~~l~~l~~~l~~~v~GQ~~ai~~  465 (731)
T TIGR02639       390 LPDKAIDVIDEAGASFRLRPKA----KKKANVSVKDIENVVAKMAHIPVKTVSVDDREKLKNLEKNLKAKIFGQDEAIDS  465 (731)
T ss_pred             CCHHHHHHHHHhhhhhhcCccc----ccccccCHHHHHHHHHHHhCCChhhhhhHHHHHHHHHHHHHhcceeCcHHHHHH
Confidence             222234445444322111100    012346677777666644321111100       01111123446677777777


Q ss_pred             HHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh------------ccCchH
Q 013506          302 LQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM------------YVGESE  369 (441)
Q Consensus       302 l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~------------~~g~~~  369 (441)
                      +...+......    ..-...|.++++|+||+|||||++|+++|+.++.+++.++++++.+.            |+|..+
T Consensus       466 l~~~i~~~~~g----~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~~~~~~~lig~~~gyvg~~~  541 (731)
T TIGR02639       466 LVSSIKRSRAG----LGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYMEKHTVSRLIGAPPGYVGFEQ  541 (731)
T ss_pred             HHHHHHHHhcC----CCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhhcccHHHHhcCCCCCcccch
Confidence            66665421100    01122455678999999999999999999999999999999886432            333322


Q ss_pred             HHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCC----------CCCCeEEEEeeeee
Q 013506          370 ALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL----------EQAKVIIYPISFIF  438 (441)
Q Consensus       370 ~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~----------~~~~~v~~~~~~~~  438 (441)
                        ...+.+.++..+.+|+||||+|++.+              .+.+.||+.||+-          ..+..+||++||+.
T Consensus       542 --~~~l~~~~~~~p~~VvllDEieka~~--------------~~~~~Ll~~ld~g~~~d~~g~~vd~~~~iii~Tsn~g  604 (731)
T TIGR02639       542 --GGLLTEAVRKHPHCVLLLDEIEKAHP--------------DIYNILLQVMDYATLTDNNGRKADFRNVILIMTSNAG  604 (731)
T ss_pred             --hhHHHHHHHhCCCeEEEEechhhcCH--------------HHHHHHHHhhccCeeecCCCcccCCCCCEEEECCCcc
Confidence              23455566677889999999999974              5789999999863          22456788899874

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=4e-34  Score=235.34  Aligned_cols=238  Identities=35%  Similarity=0.624  Sum_probs=207.3

Q ss_pred             cccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccch
Q 013506           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGES   97 (441)
Q Consensus        18 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~   97 (441)
                      .++|.|++++++.|.+++..|..+.+.|.++|+.+|.++|+|||||||||.+|++.|.+.+..|+.+-+.++...++|+.
T Consensus       170 YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQLVQMfIGdG  249 (424)
T KOG0652|consen  170 YSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQLVQMFIGDG  249 (424)
T ss_pred             ccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHHHhhhhcch
Confidence            38999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCeEEEEccccccccCC-CCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccC
Q 013506           98 EKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-DHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAID  176 (441)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~  176 (441)
                      .+.++..|.-+...+    |+|+||||+|.+.... +.....+.+++..++.++....+- .+...+-+|++||+.+.++
T Consensus       250 AkLVRDAFaLAKEka----P~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGF-ss~~~vKviAATNRvDiLD  324 (424)
T KOG0652|consen  250 AKLVRDAFALAKEKA----PTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGF-SSDDRVKVIAATNRVDILD  324 (424)
T ss_pred             HHHHHHHHHHhhccC----CeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCC-CCccceEEEeecccccccC
Confidence            999999998877654    9999999999886543 333334556666666555443321 2334799999999999999


Q ss_pred             HHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhccccccccc
Q 013506          177 PALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAG  256 (441)
Q Consensus       177 ~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~  256 (441)
                      |++.|+||+++.|+||.|+.+.|.+|++.+.+++....+++++.+++.+.+|++.+.+.+|-++...++++...      
T Consensus       325 PALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~~DvNfeELaRsTddFNGAQcKAVcVEAGMiALRr~at------  398 (424)
T KOG0652|consen  325 PALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVSDDVNFEELARSTDDFNGAQCKAVCVEAGMIALRRGAT------  398 (424)
T ss_pred             HHHhhcccccccccCCCCChHHHHHHHHHhhhhcCCCCCCCHHHHhhcccccCchhheeeehhhhHHHHhcccc------
Confidence            99999999999999999999999999999999999999999999999999999999999999999999887543      


Q ss_pred             ceeeeHhhHHhh
Q 013506          257 VLSVTMEDWRHA  268 (441)
Q Consensus       257 ~~~~~~e~~~~~  268 (441)
                        .++.+|+-..
T Consensus       399 --ev~heDfmeg  408 (424)
T KOG0652|consen  399 --EVTHEDFMEG  408 (424)
T ss_pred             --cccHHHHHHH
Confidence              4666666543

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=100.00  E-value=7.5e-34  Score=233.44  Aligned_cols=234  Identities=33%  Similarity=0.556  Sum_probs=201.1

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      -.|++++|+|++|+.-.-++.+ +.+|+.|..|   .|++|||+||||||||++|+++|++...+++.+.+.++...++|
T Consensus       118 it~ddViGqEeAK~kcrli~~y-LenPe~Fg~W---APknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGehVG  193 (368)
T COG1223         118 ITLDDVIGQEEAKRKCRLIMEY-LENPERFGDW---APKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGEHVG  193 (368)
T ss_pred             ccHhhhhchHHHHHHHHHHHHH-hhChHHhccc---CcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHHHhh
Confidence            5679999999999986665554 7788999887   47899999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC--CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCC
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH--RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD  173 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~  173 (441)
                      +..+.+.++|..+...+    |||+||||+|.+.-+...  ....-.+..+.|+..+++.....    .++.|++||.++
T Consensus       194 dgar~Ihely~rA~~~a----PcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~ene----GVvtIaaTN~p~  265 (368)
T COG1223         194 DGARRIHELYERARKAA----PCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENE----GVVTIAATNRPE  265 (368)
T ss_pred             hHHHHHHHHHHHHHhcC----CeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCC----ceEEEeecCChh
Confidence            99999999999998775    999999999988654432  12335578899999999876433    689999999999


Q ss_pred             ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHH-HHHHHHHHHHHhccccc
Q 013506          174 AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEA-LCREATMSAVKRSSDAN  252 (441)
Q Consensus       174 ~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~-l~~~a~~~~~~~~~~~~  252 (441)
                      .||+++++  ||...|+|..|+.++|.+|++.+.+.+++..+..++.++..+.|+++++|.. ++..+.+.++....+  
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  9999999999999999999999999999999999999999999999999864 556666666665433  


Q ss_pred             ccccceeeeHhhHHhhhhh
Q 013506          253 ECAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       253 ~~~~~~~~~~e~~~~~~~~  271 (441)
                            .++.+|+..+++.
T Consensus       342 ------~v~~edie~al~k  354 (368)
T COG1223         342 ------KVEREDIEKALKK  354 (368)
T ss_pred             ------hhhHHHHHHHHHh
Confidence                  3667888877775

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=3.2e-33  Score=228.93  Aligned_cols=239  Identities=35%  Similarity=0.594  Sum_probs=208.8

Q ss_pred             cccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccch
Q 013506           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGES   97 (441)
Q Consensus        18 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~   97 (441)
                      ..++.|++-+|+.+.+++..|+.+..+..+.|+.|++++|+|||||||||++++++|+.....|+.+.+++|...+.|+.
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---HHHHHHhcCCCCCCCCCeEEEEEEcCCCC
Q 013506           98 EKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-DHRREQDVRIAS---QLFTLMDSNKPSKTSVPHVVVVASTNRVD  173 (441)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~-~~~~~~~~~~~~---~l~~~~~~~~~~~~~~~~~~vi~~~~~~~  173 (441)
                      ...++.+|.-+....    |.|+||||+|.+.... +.....+.+++.   .|++.+++....    .++-+|++||+.+
T Consensus       234 prmvrdvfrlakena----psiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~----~nvkvimatnrad  305 (408)
T KOG0727|consen  234 PRMVRDVFRLAKENA----PSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQT----TNVKVIMATNRAD  305 (408)
T ss_pred             cHHHHHHHHHHhccC----CcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCcc----cceEEEEecCccc
Confidence            999999999887654    9999999999987543 333344444444   445555555443    2789999999999


Q ss_pred             ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccc
Q 013506          174 AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE  253 (441)
Q Consensus       174 ~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~  253 (441)
                      .+||+++|+||++..|+||.|+..++.-++.....++.+..+++++.+..+-...++.+|..+|+++...+.+...-   
T Consensus       306 tldpallrpgrldrkiefplpdrrqkrlvf~titskm~ls~~vdle~~v~rpdkis~adi~aicqeagm~avr~nry---  382 (408)
T KOG0727|consen  306 TLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSKMNLSDEVDLEDLVARPDKISGADINAICQEAGMLAVRENRY---  382 (408)
T ss_pred             ccCHhhcCCccccccccCCCCchhhhhhhHHhhhhcccCCcccCHHHHhcCccccchhhHHHHHHHHhHHHHHhcce---
Confidence            99999999999999999999999999999999999999999999999999999999999999999999988886543   


Q ss_pred             cccceeeeHhhHHhhhhhc
Q 013506          254 CAGVLSVTMEDWRHARSVV  272 (441)
Q Consensus       254 ~~~~~~~~~e~~~~~~~~~  272 (441)
                           .+...|++.+.+..
T Consensus       383 -----vvl~kd~e~ay~~~  396 (408)
T KOG0727|consen  383 -----VVLQKDFEKAYKTV  396 (408)
T ss_pred             -----eeeHHHHHHHHHhh
Confidence                 46667777766543

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.7e-33  Score=230.20  Aligned_cols=247  Identities=34%  Similarity=0.580  Sum_probs=212.0

Q ss_pred             cccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc
Q 013506           12 NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK   91 (441)
Q Consensus        12 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~   91 (441)
                      +++-...+-+.|++.+++.+.+.+..|..+|++|..+|+..|.++||+||||||||.++++++....+.|+.++++++..
T Consensus       140 KvPDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c~firvsgselvq  219 (404)
T KOG0728|consen  140 KVPDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSELVQ  219 (404)
T ss_pred             hCCccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcceEEEEechHHHHH
Confidence            34445557789999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcC
Q 013506           92 AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (441)
Q Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~  170 (441)
                      .+.++....++++|--++..+    |+|+|+||+|++..... +++..+.+++..++.++....+- ....++-+|.+||
T Consensus       220 k~igegsrmvrelfvmareha----psiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgf-eatknikvimatn  294 (404)
T KOG0728|consen  220 KYIGEGSRMVRELFVMAREHA----PSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGF-EATKNIKVIMATN  294 (404)
T ss_pred             HHhhhhHHHHHHHHHHHHhcC----CceEeeecccccccccccCCCCccHHHHHHHHHHHHhcccc-ccccceEEEEecc
Confidence            999999999999998887654    99999999999976553 22333445555555554433221 1223799999999


Q ss_pred             CCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhccc
Q 013506          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD  250 (441)
Q Consensus       171 ~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~  250 (441)
                      +.+.+||+++|+||.+..|+||+|+.+.|.+|++.+.+++.+....+++.++....|.++.+++.+|.++...+++.-. 
T Consensus       295 ridild~allrpgridrkiefp~p~e~ar~~ilkihsrkmnl~rgi~l~kiaekm~gasgaevk~vcteagm~alrerr-  373 (404)
T KOG0728|consen  295 RIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKMNLTRGINLRKIAEKMPGASGAEVKGVCTEAGMYALRERR-  373 (404)
T ss_pred             ccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhhchhcccCHHHHHHhCCCCccchhhhhhhhhhHHHHHHhh-
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999988877543 


Q ss_pred             ccccccceeeeHhhHHhhhhh
Q 013506          251 ANECAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       251 ~~~~~~~~~~~~e~~~~~~~~  271 (441)
                             .-++.+||+.+...
T Consensus       374 -------vhvtqedfemav~k  387 (404)
T KOG0728|consen  374 -------VHVTQEDFEMAVAK  387 (404)
T ss_pred             -------ccccHHHHHHHHHH
Confidence                   34778888866553

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=100.00  E-value=6.7e-33  Score=255.61  Aligned_cols=246  Identities=32%  Similarity=0.558  Sum_probs=208.3

Q ss_pred             ccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCc
Q 013506            9 SEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (441)
Q Consensus         9 ~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~   88 (441)
                      ..|++.|   ++|+|++.+|+.|.+.+..|+.+++.+.++|+.+++++||+||||||||++++++++.++.+++.+.+..
T Consensus       138 ~~p~v~~---~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~  214 (398)
T PTZ00454        138 EKPDVTY---SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSE  214 (398)
T ss_pred             CCCCCCH---HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHH
Confidence            4455556   8999999999999999999999999999999999999999999999999999999999999999999888


Q ss_pred             cccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC-Cc---hhhHHHHHHHHHHHhcCCCCCCCCCeEE
Q 013506           89 VHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RR---EQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (441)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~-~~---~~~~~~~~~l~~~~~~~~~~~~~~~~~~  164 (441)
                      +...+.++....+..+|..+...    .|+||||||+|.+...... ..   ....+.+..++..++....    ..++.
T Consensus       215 l~~k~~ge~~~~lr~lf~~A~~~----~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~----~~~v~  286 (398)
T PTZ00454        215 FVQKYLGEGPRMVRDVFRLAREN----APSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQ----TTNVK  286 (398)
T ss_pred             HHHHhcchhHHHHHHHHHHHHhc----CCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCC----CCCEE
Confidence            88888888888888888776543    5999999999998765421 11   1223455566666665332    22588


Q ss_pred             EEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q 013506          165 VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSA  244 (441)
Q Consensus       165 vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~  244 (441)
                      +|++||.++.+|+++.|++||+..++++.|+.++|..|++.++.+.....+.++..++..+.||++++|+.+|++|...+
T Consensus       287 VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dvd~~~la~~t~g~sgaDI~~l~~eA~~~A  366 (398)
T PTZ00454        287 VIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQEAGMQA  366 (398)
T ss_pred             EEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999888888889999999999999999999999999988


Q ss_pred             HHhcccccccccceeeeHhhHHhhhhhcc
Q 013506          245 VKRSSDANECAGVLSVTMEDWRHARSVVG  273 (441)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~e~~~~~~~~~~  273 (441)
                      .++..        ..++.+|+..++....
T Consensus       367 ~r~~~--------~~i~~~df~~A~~~v~  387 (398)
T PTZ00454        367 VRKNR--------YVILPKDFEKGYKTVV  387 (398)
T ss_pred             HHcCC--------CccCHHHHHHHHHHHH
Confidence            87643        3578888888776543

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

Probab=100.00  E-value=8.1e-33  Score=256.63  Aligned_cols=230  Identities=36%  Similarity=0.606  Sum_probs=211.6

Q ss_pred             ccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccc
Q 013506           11 HNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH   90 (441)
Q Consensus        11 ~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~   90 (441)
                      ++..|   +++.|+.++|+.|.+.+.+|..++..|.+.+++-+.+||||||||||||.+|.+++...+..++.|.+.++.
T Consensus       662 tgi~w---~digg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~~~~fisvKGPElL  738 (952)
T KOG0735|consen  662 TGIRW---EDIGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNSNLRFISVKGPELL  738 (952)
T ss_pred             CCCCc---eecccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhCCeeEEEecCHHHH
Confidence            34677   899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCc-hhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEc
Q 013506           91 KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-EQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST  169 (441)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~  169 (441)
                      +.++|..++.++.+|..+...    +|||||+||+|+++|.++..+ ....++.++++..+++..+    ...+.++++|
T Consensus       739 ~KyIGaSEq~vR~lF~rA~~a----~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Eg----l~GV~i~aaT  810 (952)
T KOG0735|consen  739 SKYIGASEQNVRDLFERAQSA----KPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEG----LDGVYILAAT  810 (952)
T ss_pred             HHHhcccHHHHHHHHHHhhcc----CCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccc----cceEEEEEec
Confidence            999999999999999988765    599999999999999887554 3467999999999998765    3368999999


Q ss_pred             CCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcc
Q 013506          170 NRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSS  249 (441)
Q Consensus       170 ~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~  249 (441)
                      .+|+.+||+++|+||++..++.+.|+..+|.+|++...+......+.+++.++..+.||+++|+..++..|...+..+..
T Consensus       811 sRpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~~~~~vdl~~~a~~T~g~tgADlq~ll~~A~l~avh~~l  890 (952)
T KOG0735|consen  811 SRPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSLLKDTDVDLECLAQKTDGFTGADLQSLLYNAQLAAVHEIL  890 (952)
T ss_pred             CCccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhccCCccccchHHHhhhcCCCchhhHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999988877766654


Q ss_pred             cc
Q 013506          250 DA  251 (441)
Q Consensus       250 ~~  251 (441)
                      ..
T Consensus       891 ~~  892 (952)
T KOG0735|consen  891 KR  892 (952)
T ss_pred             Hh
Confidence            43

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=100.00  E-value=3.5e-32  Score=268.36  Aligned_cols=369  Identities=19%  Similarity=0.226  Sum_probs=238.5

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~v~   85 (441)
                      ..++.++|.++..+.+.+++..             ..+.+++|+||||||||++++.++...          +..++.++
T Consensus       183 g~~~~liGR~~ei~~~i~iL~r-------------~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~  249 (758)
T PRK11034        183 GGIDPLIGREKELERAIQVLCR-------------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLD  249 (758)
T ss_pred             CCCCcCcCCCHHHHHHHHHHhc-------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEecc
Confidence            5678899999999998887755             245788999999999999999999764          33444444


Q ss_pred             cCccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        86 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ...+.  ..+.++.+..+..++.....    ..+.||||||+|.++..+..... ..+..+.|...+.+.        .+
T Consensus       250 ~~~llaG~~~~Ge~e~rl~~l~~~l~~----~~~~ILfIDEIh~L~g~g~~~~g-~~d~~nlLkp~L~~g--------~i  316 (758)
T PRK11034        250 IGSLLAGTKYRGDFEKRFKALLKQLEQ----DTNSILFIDEIHTIIGAGAASGG-QVDAANLIKPLLSSG--------KI  316 (758)
T ss_pred             HHHHhcccchhhhHHHHHHHHHHHHHh----cCCCEEEeccHHHHhccCCCCCc-HHHHHHHHHHHHhCC--------Ce
Confidence            44333  23456677777777776543    24789999999999876542211 223444444455432        58


Q ss_pred             EEEEEcCCCC-----ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-----HHHHHHHCC-----CC
Q 013506          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-----LEAIATSCN-----GY  228 (441)
Q Consensus       164 ~vi~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-----~~~l~~~~~-----g~  228 (441)
                      .+|++|+..+     ..|+++.|  ||. .+.++.|+.+++.+|++.....+....++.     +...+....     .+
T Consensus       317 ~vIgATt~~E~~~~~~~D~AL~r--RFq-~I~v~ePs~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~r~  393 (758)
T PRK11034        317 RVIGSTTYQEFSNIFEKDRALAR--RFQ-KIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRH  393 (758)
T ss_pred             EEEecCChHHHHHHhhccHHHHh--hCc-EEEeCCCCHHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccCcc
Confidence            9999998764     57999999  996 899999999999999998766555443333     233333232     23


Q ss_pred             CHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhhcccccccCccc-------ccCccccccccCchhHHHH
Q 013506          229 VGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTV-------EIPKVTWEDIGGLRDLKKK  301 (441)
Q Consensus       229 ~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~i~g~~~~k~~  301 (441)
                      .+...-.++++++.........    .....++.+++.................       .....--..+.|++++.+.
T Consensus       394 lPdKaidlldea~a~~~~~~~~----~~~~~v~~~~i~~v~~~~tgip~~~~~~~~~~~l~~l~~~L~~~ViGQ~~ai~~  469 (758)
T PRK11034        394 LPDKAIDVIDEAGARARLMPVS----KRKKTVNVADIESVVARIARIPEKSVSQSDRDTLKNLGDRLKMLVFGQDKAIEA  469 (758)
T ss_pred             ChHHHHHHHHHHHHhhccCccc----ccccccChhhHHHHHHHHhCCChhhhhhhHHHHHHHHHHHhcceEeCcHHHHHH
Confidence            4445556677666433111000    0112355566665554333211111100       0111112346788888888


Q ss_pred             HHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh-----h-------ccCchH
Q 013506          302 LQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-----M-------YVGESE  369 (441)
Q Consensus       302 l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~-----~-------~~g~~~  369 (441)
                      +...+.......    .....|.+++||+||||||||++|+++|..++.+++.++++++..     .       |+|...
T Consensus       470 l~~~i~~~~~gl----~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~~~~~~~LiG~~~gyvg~~~  545 (758)
T PRK11034        470 LTEAIKMSRAGL----GHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQ  545 (758)
T ss_pred             HHHHHHHHhccc----cCCCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcccccHHHHcCCCCCcccccc
Confidence            887775322111    112345678999999999999999999999999999999888643     1       233211


Q ss_pred             HHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCC----------CCCCeEEEEeeee
Q 013506          370 ALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL----------EQAKVIIYPISFI  437 (441)
Q Consensus       370 ~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~----------~~~~~v~~~~~~~  437 (441)
                        -..+....+..+.+|+||||+|++.+              .+.+.||+.||+-          .-++.+||++||+
T Consensus       546 --~g~L~~~v~~~p~sVlllDEieka~~--------------~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI~TsN~  607 (758)
T PRK11034        546 --GGLLTDAVIKHPHAVLLLDEIEKAHP--------------DVFNLLLQVMDNGTLTDNNGRKADFRNVVLVMTTNA  607 (758)
T ss_pred             --cchHHHHHHhCCCcEEEeccHhhhhH--------------HHHHHHHHHHhcCeeecCCCceecCCCcEEEEeCCc
Confidence              12344444556778999999999974              5789999999842          1245688888885

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

Probab=100.00  E-value=6.3e-32  Score=260.20  Aligned_cols=374  Identities=21%  Similarity=0.250  Sum_probs=249.0

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~v~   85 (441)
                      ..++-++|.++.++.+.+++++             ..+++-+|+|+||+|||+++..+|.+.          +..++.++
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            6678999999999999999876             356778899999999999999999876          33456666


Q ss_pred             cCccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        86 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ...+.  ..+-|+.++++..+.++....    .+.||||||+|.+...+...+. ..+..+.|...+.+.        .+
T Consensus       234 ~g~LvAGakyRGeFEeRlk~vl~ev~~~----~~vILFIDEiHtiVGAG~~~G~-a~DAaNiLKPaLARG--------eL  300 (786)
T COG0542         234 LGSLVAGAKYRGEFEERLKAVLKEVEKS----KNVILFIDEIHTIVGAGATEGG-AMDAANLLKPALARG--------EL  300 (786)
T ss_pred             HHHHhccccccCcHHHHHHHHHHHHhcC----CCeEEEEechhhhcCCCccccc-ccchhhhhHHHHhcC--------Ce
Confidence            65554  457788999999998887754    2789999999999887765443 345666677777664        36


Q ss_pred             EEEEEcCCCC-----ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-----HHHHHHHCCC-----C
Q 013506          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-----LEAIATSCNG-----Y  228 (441)
Q Consensus       164 ~vi~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-----~~~l~~~~~g-----~  228 (441)
                      .+|++|+..+     +-|+++.|  ||. .+.+..|+.++...|++.....+..+..+.     +...+.....     +
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            8888876543     45899999  997 899999999999999987666554433322     2222222211     1


Q ss_pred             CHHHHHHHHHHHHHHHHHhcccc--------------------------cc---ccc---ce-------------eeeHh
Q 013506          229 VGADLEALCREATMSAVKRSSDA--------------------------NE---CAG---VL-------------SVTME  263 (441)
Q Consensus       229 ~~~~i~~l~~~a~~~~~~~~~~~--------------------------~~---~~~---~~-------------~~~~e  263 (441)
                      -+.-.-.++.+++..........                          .+   ...   ..             .++.+
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            11111122333222211110000                          00   000   00             01222


Q ss_pred             hHHhhhhhccccc-ccCcc------cccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCc
Q 013506          264 DWRHARSVVGPSI-TRGVT------VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCS  336 (441)
Q Consensus       264 ~~~~~~~~~~~~~-~~~~~------~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtG  336 (441)
                      ++......+.... .+...      ......--..+.|+++....+.+.+..    .......+.+|.+.+||.||+|+|
T Consensus       458 ~Ia~vv~~~TgIPv~~l~~~e~~kll~le~~L~~rViGQd~AV~avs~aIrr----aRaGL~dp~rPigsFlF~GPTGVG  533 (786)
T COG0542         458 DIAEVVARWTGIPVAKLLEDEKEKLLNLERRLKKRVIGQDEAVEAVSDAIRR----ARAGLGDPNRPIGSFLFLGPTGVG  533 (786)
T ss_pred             HHHHHHHHHHCCChhhhchhhHHHHHHHHHHHhcceeChHHHHHHHHHHHHH----HhcCCCCCCCCceEEEeeCCCccc
Confidence            3333222221110 00000      001111123466777666666665543    222223355677899999999999


Q ss_pred             HHHHHHHHHHHcC---CceEEechhhhhhh------------ccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCC
Q 013506          337 KTTLAKAAAHAAE---ASFFSLSGAELYSM------------YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGG  401 (441)
Q Consensus       337 KTtla~~la~~~~---~~~~~i~~~~~~~~------------~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~  401 (441)
                      ||.+|++||..+.   ..++++++|++..+            |+|..+  -..+.+.++..+++|++||||||.+|    
T Consensus       534 KTELAkaLA~~Lfg~e~aliR~DMSEy~EkHsVSrLIGaPPGYVGyee--GG~LTEaVRr~PySViLlDEIEKAHp----  607 (786)
T COG0542         534 KTELAKALAEALFGDEQALIRIDMSEYMEKHSVSRLIGAPPGYVGYEE--GGQLTEAVRRKPYSVILLDEIEKAHP----  607 (786)
T ss_pred             HHHHHHHHHHHhcCCCccceeechHHHHHHHHHHHHhCCCCCCceecc--ccchhHhhhcCCCeEEEechhhhcCH----
Confidence            9999999999997   78999999998766            777766  34678888889999999999999996    


Q ss_pred             CCCCCcchhhHHHHHHHHHhcC----------CCCCCeEEEEeeeee
Q 013506          402 SSSTSITVGERLLSTLLTEMDG----------LEQAKVIIYPISFIF  438 (441)
Q Consensus       402 ~~~~~~~~~~~~~~~ll~~l~~----------~~~~~~v~~~~~~~~  438 (441)
                                .++|.||+.||+          +..++.|||++||+-
T Consensus       608 ----------dV~nilLQVlDdGrLTD~~Gr~VdFrNtiIImTSN~G  644 (786)
T COG0542         608 ----------DVFNLLLQVLDDGRLTDGQGRTVDFRNTIIIMTSNAG  644 (786)
T ss_pred             ----------HHHHHHHHHhcCCeeecCCCCEEecceeEEEEecccc
Confidence                      789999999997          444567999999973

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=2.3e-32  Score=261.05  Aligned_cols=238  Identities=38%  Similarity=0.595  Sum_probs=210.4

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      -.|+|+.|++++|+.|.+++.. +.+|+.+.++|.+.|+++||+||||||||.||+++|.+.+.||+.+++++|.....+
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            3569999999999999999987 889999999999999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCC-----CCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcC
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-----HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~  170 (441)
                      ....+++.+|..++..+    |+|+||||+|.+.....     ...+.....+++|+..+|.....    ..++++++||
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            98999999999988765    99999999999877662     23344556788888888887543    3699999999


Q ss_pred             CCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCC-CcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcc
Q 013506          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSAVKRSS  249 (441)
Q Consensus       171 ~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~  249 (441)
                      +++.+|++++|+|||+..+.++.|+...|.+|++.++...... .+.++..++..+.||++.+|.+++.++...+.++..
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 666788899999999999999999999998887654


Q ss_pred             cccccccceeeeHhhHHhhhh
Q 013506          250 DANECAGVLSVTMEDWRHARS  270 (441)
Q Consensus       250 ~~~~~~~~~~~~~e~~~~~~~  270 (441)
                      .        .+...++..+..
T Consensus       539 ~--------~i~~~~~~~a~~  551 (774)
T KOG0731|consen  539 R--------EIGTKDLEYAIE  551 (774)
T ss_pred             C--------ccchhhHHHHHH
Confidence            3        355566665554

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=100.00  E-value=1.1e-31  Score=249.57  Aligned_cols=250  Identities=39%  Similarity=0.628  Sum_probs=208.4

Q ss_pred             ccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCc
Q 013506            9 SEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (441)
Q Consensus         9 ~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~   88 (441)
                      ..++..|   ++++|++++++.|.+.+..|+.+++.+..+|+.++.++||+||||||||++|++++..++.+++.+++..
T Consensus       124 ~~p~~~~---~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~  200 (389)
T PRK03992        124 ESPNVTY---EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSE  200 (389)
T ss_pred             CCCCCCH---HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHH
Confidence            3445555   7999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCc-hhhHHH---HHHHHHHHhcCCCCCCCCCeEE
Q 013506           89 VHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR-EQDVRI---ASQLFTLMDSNKPSKTSVPHVV  164 (441)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~-~~~~~~---~~~l~~~~~~~~~~~~~~~~~~  164 (441)
                      +...+.++....++.+|..+...    .|+||||||+|.+........ ..+...   +..++..++...    ...++.
T Consensus       201 l~~~~~g~~~~~i~~~f~~a~~~----~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~----~~~~v~  272 (389)
T PRK03992        201 LVQKFIGEGARLVRELFELAREK----APSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFD----PRGNVK  272 (389)
T ss_pred             HhHhhccchHHHHHHHHHHHHhc----CCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccC----CCCCEE
Confidence            88888888888888888776543    489999999999976543221 112233   334444444322    223689


Q ss_pred             EEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q 013506          165 VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSA  244 (441)
Q Consensus       165 vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~  244 (441)
                      ||++||.++.+++++.+++||+..++++.|+.++|.+|++.++.......+.++..++..+.|+++++++.++++|...+
T Consensus       273 VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~~~~~la~~t~g~sgadl~~l~~eA~~~a  352 (389)
T PRK03992        273 IIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEAGMFA  352 (389)
T ss_pred             EEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcCCHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999888877788999999999999999999999999888


Q ss_pred             HHhcccccccccceeeeHhhHHhhhhhcccccc
Q 013506          245 VKRSSDANECAGVLSVTMEDWRHARSVVGPSIT  277 (441)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~  277 (441)
                      .+...        ..++.+|+..++....+...
T Consensus       353 ~~~~~--------~~i~~~d~~~A~~~~~~~~~  377 (389)
T PRK03992        353 IRDDR--------TEVTMEDFLKAIEKVMGKEE  377 (389)
T ss_pred             HHcCC--------CCcCHHHHHHHHHHHhcccc
Confidence            77632        24788999988887766443

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=4.9e-32  Score=235.03  Aligned_cols=228  Identities=36%  Similarity=0.588  Sum_probs=198.8

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcC-CCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLG-LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~   94 (441)
                      -++.+|.|++.+++++++.+..|+.+++.|..-+ +.++.+|||+||||||||.+|+++|++.+.+++.|+...+.+.+.
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            3458999999999999999999999999996433 568899999999999999999999999999999999999999999


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCC
Q 013506           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD  173 (441)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~  173 (441)
                      ++..+.+..+|..+...    +|+++||||+|+++.... ..++.....-.++..++++.....  ..+++|+++||+|.
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----QPSIIFIDEVDSFLGQRRSTDHEATAMMKNEFMALWDGLSSKD--SERVLVLGATNRPF  242 (386)
T ss_pred             HHHHHHHHHHHhhhhhc----CcceeehhhHHHHHhhcccchHHHHHHHHHHHHHHhccccCCC--CceEEEEeCCCCCc
Confidence            99999999999887754    599999999999886653 222333445566677777765433  23699999999999


Q ss_pred             ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccc
Q 013506          174 AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA  251 (441)
Q Consensus       174 ~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~  251 (441)
                      .+|.++.|  |+...++++.|+..+|.+|++.+++...+..++++..++..+.||++++|+.+|..|.....+.....
T Consensus       243 DlDeAiiR--R~p~rf~V~lP~~~qR~kILkviLk~e~~e~~vD~~~iA~~t~GySGSDLkelC~~Aa~~~ire~~~~  318 (386)
T KOG0737|consen  243 DLDEAIIR--RLPRRFHVGLPDAEQRRKILKVILKKEKLEDDVDLDEIAQMTEGYSGSDLKELCRLAALRPIRELLVS  318 (386)
T ss_pred             cHHHHHHH--hCcceeeeCCCchhhHHHHHHHHhcccccCcccCHHHHHHhcCCCcHHHHHHHHHHHhHhHHHHHHHh
Confidence            99999999  99999999999999999999999999999999999999999999999999999999998887766543

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=100.00  E-value=2.7e-31  Score=267.48  Aligned_cols=257  Identities=43%  Similarity=0.700  Sum_probs=220.2

Q ss_pred             cccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcc
Q 013506           10 EHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (441)
Q Consensus        10 ~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~   89 (441)
                      .+++.|   ++++|++.+|+.|.+.+.+|+.+++.+.++++.++.++||+||||||||++|+++|.+++.+++.+++.++
T Consensus       447 ~~~~~~---~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l  523 (733)
T TIGR01243       447 VPNVRW---SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEI  523 (733)
T ss_pred             ccccch---hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHH
Confidence            345556   89999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC--chhhHHHHHHHHHHHhcCCCCCCCCCeEEEEE
Q 013506           90 HKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR--REQDVRIASQLFTLMDSNKPSKTSVPHVVVVA  167 (441)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~  167 (441)
                      ...+.++.++.++.+|..+...    .|+||||||+|.+++.....  .....+.+.+|+..++....    ..+++||+
T Consensus       524 ~~~~vGese~~i~~~f~~A~~~----~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~----~~~v~vI~  595 (733)
T TIGR01243       524 LSKWVGESEKAIREIFRKARQA----APAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQE----LSNVVVIA  595 (733)
T ss_pred             hhcccCcHHHHHHHHHHHHHhc----CCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccC----CCCEEEEE
Confidence            9999999999999999988755    48999999999998766432  22345778888888886543    23689999


Q ss_pred             EcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHh
Q 013506          168 STNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKR  247 (441)
Q Consensus       168 ~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~  247 (441)
                      +||.++.+|+++.|++||+..++++.|+.++|.+||+.+..+.....+.++..++..+.||+++++..+++++...+.++
T Consensus       596 aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~~l~~la~~t~g~sgadi~~~~~~A~~~a~~~  675 (733)
T TIGR01243       596 ATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAMAALRE  675 (733)
T ss_pred             eCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999998888888889999999999999999999999999888776


Q ss_pred             cccccc----------cccceeeeHhhHHhhhhhcccccc
Q 013506          248 SSDANE----------CAGVLSVTMEDWRHARSVVGPSIT  277 (441)
Q Consensus       248 ~~~~~~----------~~~~~~~~~e~~~~~~~~~~~~~~  277 (441)
                      ......          ......++.+|+..++...+|+..
T Consensus       676 ~~~~~~~~~~~~~~~~~~~~~~i~~~~f~~al~~~~ps~~  715 (733)
T TIGR01243       676 SIGSPAKEKLEVGEEEFLKDLKVEMRHFLEALKKVKPSVS  715 (733)
T ss_pred             HhhhccchhhhcccccccccCcccHHHHHHHHHHcCCCCC
Confidence            432110          112235777888888877777643

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.

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=1.4e-32  Score=229.69  Aligned_cols=247  Identities=32%  Similarity=0.577  Sum_probs=212.9

Q ss_pred             cccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc
Q 013506           12 NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK   91 (441)
Q Consensus        12 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~   91 (441)
                      +.+-.+..++.|+|++++.|.+.+..|+.+|+....+|+++|.+|+|||+||||||.||+++|+.....|+.+-++++..
T Consensus       178 KaP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQ  257 (440)
T KOG0726|consen  178 KAPQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQ  257 (440)
T ss_pred             cCchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHH
Confidence            34456779999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcC
Q 013506           92 AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (441)
Q Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~  170 (441)
                      .+.++..+.++++|+-+...+    |+|+||||||.+..... ..+....++++.++.++....+- .+...+-+|.+||
T Consensus       258 kylGdGpklvRqlF~vA~e~a----pSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGF-dsrgDvKvimATn  332 (440)
T KOG0726|consen  258 KYLGDGPKLVRELFRVAEEHA----PSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGF-DSRGDVKVIMATN  332 (440)
T ss_pred             HHhccchHHHHHHHHHHHhcC----CceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccCc-cccCCeEEEEecc
Confidence            999999999999999887665    99999999999876553 22333445555555555443321 1344789999999


Q ss_pred             CCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhccc
Q 013506          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD  250 (441)
Q Consensus       171 ~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~  250 (441)
                      ..+.+||++.|+||.+..|.|+.|+...+.+||..+..++.+..+++++.+...-..+++.+|+.+|.+|...+++... 
T Consensus       333 rie~LDPaLiRPGrIDrKIef~~pDe~TkkkIf~IHTs~Mtl~~dVnle~li~~kddlSGAdIkAictEaGllAlRerR-  411 (440)
T KOG0726|consen  333 RIETLDPALIRPGRIDRKIEFPLPDEKTKKKIFQIHTSRMTLAEDVNLEELIMTKDDLSGADIKAICTEAGLLALRERR-  411 (440)
T ss_pred             cccccCHhhcCCCccccccccCCCchhhhceeEEEeecccchhccccHHHHhhcccccccccHHHHHHHHhHHHHHHHH-
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999988887654 


Q ss_pred             ccccccceeeeHhhHHhhhhh
Q 013506          251 ANECAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       251 ~~~~~~~~~~~~e~~~~~~~~  271 (441)
                             ..++.+||..+...
T Consensus       412 -------m~vt~~DF~ka~e~  425 (440)
T KOG0726|consen  412 -------MKVTMEDFKKAKEK  425 (440)
T ss_pred             -------hhccHHHHHHHHHH
Confidence                   34677888766553

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=100.00  E-value=4.7e-32  Score=223.83  Aligned_cols=233  Identities=33%  Similarity=0.584  Sum_probs=200.8

Q ss_pred             ccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCc
Q 013506            9 SEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (441)
Q Consensus         9 ~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~   88 (441)
                      .+|.+.+   .++.|..++++.|.+.+..|+++|+.|-++|+.|+.++|+|||||||||.+|+++|++.+..|+.|-+++
T Consensus       170 ekpdvty---~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdacfirvigse  246 (435)
T KOG0729|consen  170 EKPDVTY---SDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSE  246 (435)
T ss_pred             cCCCccc---ccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCceEEeehhHH
Confidence            4445555   8999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCC-CCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEE
Q 013506           89 VHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-DHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVA  167 (441)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~  167 (441)
                      +...++++....++++|+-++..    +-|++|+||+|.+.... +.+...+.+++..++.++.+..+ ....+++-++.
T Consensus       247 lvqkyvgegarmvrelf~martk----kaciiffdeidaiggarfddg~ggdnevqrtmleli~qldg-fdprgnikvlm  321 (435)
T KOG0729|consen  247 LVQKYVGEGARMVRELFEMARTK----KACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDG-FDPRGNIKVLM  321 (435)
T ss_pred             HHHHHhhhhHHHHHHHHHHhccc----ceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccC-CCCCCCeEEEe
Confidence            99999999999999999887754    47999999999886543 22222334555555554443322 11345899999


Q ss_pred             EcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHh
Q 013506          168 STNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKR  247 (441)
Q Consensus       168 ~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~  247 (441)
                      +||+|+.++|++.|+||++..++|..|+.+-|.+|++.+.+.+....+..++.++..|..-++.+++.+|.++...+++.
T Consensus       322 atnrpdtldpallrpgrldrkvef~lpdlegrt~i~kihaksmsverdir~ellarlcpnstgaeirsvcteagmfaira  401 (435)
T KOG0729|consen  322 ATNRPDTLDPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAKSMSVERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRA  401 (435)
T ss_pred             ecCCCCCcCHhhcCCcccccceeccCCcccccceeEEEeccccccccchhHHHHHhhCCCCcchHHHHHHHHhhHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999998887765


Q ss_pred             cc
Q 013506          248 SS  249 (441)
Q Consensus       248 ~~  249 (441)
                      -.
T Consensus       402 rr  403 (435)
T KOG0729|consen  402 RR  403 (435)
T ss_pred             Hh
Confidence            43

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=100.00  E-value=3.7e-31  Score=245.19  Aligned_cols=241  Identities=34%  Similarity=0.582  Sum_probs=204.0

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      .++++|.|++++++.|.+++..|+.++..+.++++.++.++||+||||||||+++++++++++.+++.+.+..+...+.+
T Consensus       180 ~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~~k~~G  259 (438)
T PTZ00361        180 ESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYLG  259 (438)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhhhhhcc
Confidence            34489999999999999999999999999999999999999999999999999999999999999999999888888888


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC-c---hhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCC
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-R---EQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~-~---~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~  171 (441)
                      +....+..+|..+..    ..|+|+||||+|.+....... .   ....+.+..++..++....    ..++.||++||.
T Consensus       260 e~~~~vr~lF~~A~~----~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~----~~~V~VI~ATNr  331 (438)
T PTZ00361        260 DGPKLVRELFRVAEE----NAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDS----RGDVKVIMATNR  331 (438)
T ss_pred             hHHHHHHHHHHHHHh----CCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcc----cCCeEEEEecCC
Confidence            888888888877654    358999999999997654321 1   1123344555555554322    225899999999


Q ss_pred             CCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccc
Q 013506          172 VDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA  251 (441)
Q Consensus       172 ~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~  251 (441)
                      ++.+++++.|++||+..|+|+.|+.++|.+|++.++.......+.++..++..+.|+++++++.+|.+|...+.++..  
T Consensus       332 ~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dvdl~~la~~t~g~sgAdI~~i~~eA~~~Alr~~r--  409 (438)
T PTZ00361        332 IESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALRERR--  409 (438)
T ss_pred             hHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCcCHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcC--
Confidence            999999999999999999999999999999999999888888888999999999999999999999999988887643  


Q ss_pred             cccccceeeeHhhHHhhhhhc
Q 013506          252 NECAGVLSVTMEDWRHARSVV  272 (441)
Q Consensus       252 ~~~~~~~~~~~e~~~~~~~~~  272 (441)
                            ..++.+|+..+....
T Consensus       410 ------~~Vt~~D~~~A~~~v  424 (438)
T PTZ00361        410 ------MKVTQADFRKAKEKV  424 (438)
T ss_pred             ------CccCHHHHHHHHHHH
Confidence                  347888888777654

>CHL00195 ycf46 Ycf46; Provisional

Probab=100.00  E-value=6e-31  Score=247.61  Aligned_cols=238  Identities=29%  Similarity=0.397  Sum_probs=199.4

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      ..+++|+|++.+|+.+.+....   +.....+.|+++++++||+||||||||++|+++|++++.+++.+++..+...+.+
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            3568999999999999875532   3445677899999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCC--CCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCC
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD--HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD  173 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~  173 (441)
                      +.+..++.+|..+...    .|+||||||+|.++....  ..+....+.+..++.+++...      ..+++|+|||.++
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            9999999999876654    499999999999876432  223345567777777776422      2589999999999


Q ss_pred             ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCC--CcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccc
Q 013506          174 AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD--ANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA  251 (441)
Q Consensus       174 ~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~--~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~  251 (441)
                      .+|+++.|+|||+..++++.|+.++|.+|++.++.+....  .+.++..++..+.||++++|+.++.++...+....   
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            9999999999999999999999999999999998886533  36779999999999999999999999988776542   


Q ss_pred             cccccceeeeHhhHHhhhhhcccc
Q 013506          252 NECAGVLSVTMEDWRHARSVVGPS  275 (441)
Q Consensus       252 ~~~~~~~~~~~e~~~~~~~~~~~~  275 (441)
                            ..++.+|+..+.....|.
T Consensus       449 ------~~lt~~dl~~a~~~~~Pl  466 (489)
T CHL00195        449 ------REFTTDDILLALKQFIPL  466 (489)
T ss_pred             ------CCcCHHHHHHHHHhcCCC
Confidence                  347888888888877764

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

Probab=99.98  E-value=5.5e-32  Score=233.27  Aligned_cols=156  Identities=42%  Similarity=0.685  Sum_probs=147.3

Q ss_pred             ccccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhh
Q 013506          281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (441)
Q Consensus       281 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~  360 (441)
                      ..+.|..+|.+++|++...+.+++.++.|+.+...+..+|+.||.++|||||||||||.+||++|...++.|+.+.+|++
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            34567889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeE-EEEeee
Q 013506          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVI-IYPISF  436 (441)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v-~~~~~~  436 (441)
                      ..+|+|+...-++++|+-|+...|||+||||||++..+|-+++++.+...+|.+=+||++||||...+.| ||+|||
T Consensus       222 VqKYiGEGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATN  298 (406)
T COG1222         222 VQKYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATN  298 (406)
T ss_pred             HHHHhccchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecC
Confidence            9999999999999999999999999999999999999999998888889999999999999999997765 455555

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.97  E-value=8.6e-30  Score=256.64  Aligned_cols=184  Identities=20%  Similarity=0.301  Sum_probs=131.4

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC----------CcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG----------AHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~----------~~~~~v~   85 (441)
                      ..++.++|+++..+.+.+++..             ....+++|+||||||||++++.++..+.          ..++.++
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            6788999999988887776644             3456899999999999999999998873          3355565


Q ss_pred             cCccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        86 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ...+.  ..+.++....+..+++.....   +.+.||||||+|.+...+...+..  +..+.|...+.+.        .+
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--DAANLLKPALARG--------EL  317 (852)
T ss_pred             hhhhhcccccchHHHHHHHHHHHHHHhc---CCCeEEEEeChHHhccCCCccccc--cHHHHhhHHhhCC--------Ce
Confidence            55544  346678888888888877542   357899999999998755432222  2333445555432        58


Q ss_pred             EEEEEcCCC-----CccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCC-----CcccHHHHHHHCCCC
Q 013506          164 VVVASTNRV-----DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-----ANVDLEAIATSCNGY  228 (441)
Q Consensus       164 ~vi~~~~~~-----~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~-----~~~~~~~l~~~~~g~  228 (441)
                      .+|++|+..     ...++++.|  ||. .+.+++|+.+++.+|++.....+...     .+..+..++..+.+|
T Consensus       318 ~~IgaTT~~e~~~~~~~d~AL~r--Rf~-~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ry  389 (852)
T TIGR03345       318 RTIAATTWAEYKKYFEKDPALTR--RFQ-VVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRY  389 (852)
T ss_pred             EEEEecCHHHHhhhhhccHHHHH--hCe-EEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccc
Confidence            899998864     358999999  996 89999999999999987665443321     222255555555544

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.

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

Probab=99.97  E-value=2.1e-30  Score=251.01  Aligned_cols=250  Identities=41%  Similarity=0.643  Sum_probs=221.6

Q ss_pred             ccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCc
Q 013506            9 SEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (441)
Q Consensus         9 ~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~   88 (441)
                      ..+++.|   ++++|++.+|+.+.+.+.+|+..++.+...++.++.++||+||||||||++|++++.+++.+++.+...+
T Consensus       235 ~~~~v~~---~diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~  311 (494)
T COG0464         235 EDEDVTL---DDIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSE  311 (494)
T ss_pred             CCCCcce---ehhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHH
Confidence            3455667   8999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhh-HHHHHHHHHHHhcCCCCCCCCCeEEEEE
Q 013506           89 VHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQD-VRIASQLFTLMDSNKPSKTSVPHVVVVA  167 (441)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~~~~~~vi~  167 (441)
                      +.+.++++.++.++.+|..+...    .|+|+||||+|.+++......... .++..+++..++......    ++++|+
T Consensus       312 l~sk~vGesek~ir~~F~~A~~~----~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~----~v~vi~  383 (494)
T COG0464         312 LLSKWVGESEKNIRELFEKARKL----APSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAE----GVLVIA  383 (494)
T ss_pred             HhccccchHHHHHHHHHHHHHcC----CCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccC----ceEEEe
Confidence            99999999999999999999854    499999999999998876544433 589999999998765433    589999


Q ss_pred             EcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCC--CCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Q 013506          168 STNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPL--DANVDLEAIATSCNGYVGADLEALCREATMSAV  245 (441)
Q Consensus       168 ~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~--~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~  245 (441)
                      +||.++.+|+++.|+|||+..+++++|+.++|.+|++.++.....  ..+.+++.++..+.|+++.++..+++++...+.
T Consensus       384 aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~~~sgadi~~i~~ea~~~~~  463 (494)
T COG0464         384 ATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAALEAL  463 (494)
T ss_pred             cCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcccCCcchhhhhHHHHHHHhcCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999985544  467789999999999999999999999999988


Q ss_pred             HhcccccccccceeeeHhhHHhhhhhccccc
Q 013506          246 KRSSDANECAGVLSVTMEDWRHARSVVGPSI  276 (441)
Q Consensus       246 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~  276 (441)
                      ....       ...++.+|+..+.+...|+.
T Consensus       464 ~~~~-------~~~~~~~~~~~a~~~~~p~~  487 (494)
T COG0464         464 REAR-------RREVTLDDFLDALKKIKPSV  487 (494)
T ss_pred             HHhc-------cCCccHHHHHHHHHhcCCCC
Confidence            8764       23578889988888766653

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.97  E-value=8.5e-30  Score=258.41  Aligned_cols=373  Identities=22%  Similarity=0.256  Sum_probs=232.4

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~v~   85 (441)
                      ..++.++|.++.++.+.+++..             ..+++++|+||||||||++++.+|..+          +..++.++
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            4568899999999999998765             355789999999999999999999876          35678888


Q ss_pred             cCccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        86 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ...+.  ..+.++.++.+..+++.+...    .+.||||||+|.+...+...+.  ....+.|...+.+.        .+
T Consensus       243 ~~~l~ag~~~~ge~e~rl~~i~~~~~~~----~~~ILfiDEih~l~~~g~~~g~--~~~a~lLkp~l~rg--------~l  308 (821)
T CHL00095        243 IGLLLAGTKYRGEFEERLKRIFDEIQEN----NNIILVIDEVHTLIGAGAAEGA--IDAANILKPALARG--------EL  308 (821)
T ss_pred             HHHHhccCCCccHHHHHHHHHHHHHHhc----CCeEEEEecHHHHhcCCCCCCc--ccHHHHhHHHHhCC--------Cc
Confidence            76654  456788888899888877532    4789999999999876543222  23344444555432        47


Q ss_pred             EEEEEcCCCC-----ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhcc----CCCC-CcccHHHHHHHCCCCC----
Q 013506          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK----VPLD-ANVDLEAIATSCNGYV----  229 (441)
Q Consensus       164 ~vi~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~----~~~~-~~~~~~~l~~~~~g~~----  229 (441)
                      .+|++|+..+     ..++++.+  ||. .+.++.|+.++...|++.....    .... .+..+..++..+.+|.    
T Consensus       309 ~~IgaTt~~ey~~~ie~D~aL~r--Rf~-~I~v~ep~~~e~~aILr~l~~~~e~~~~v~i~deal~~i~~ls~~yi~~r~  385 (821)
T CHL00095        309 QCIGATTLDEYRKHIEKDPALER--RFQ-PVYVGEPSVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLSDQYIADRF  385 (821)
T ss_pred             EEEEeCCHHHHHHHHhcCHHHHh--cce-EEecCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCcccc
Confidence            8888888754     46899998  996 6899999999998888754332    2222 2222455555554432    


Q ss_pred             -HHHHHHHHHHHHHHHHHhc-cccc------------------------------------------------------c
Q 013506          230 -GADLEALCREATMSAVKRS-SDAN------------------------------------------------------E  253 (441)
Q Consensus       230 -~~~i~~l~~~a~~~~~~~~-~~~~------------------------------------------------------~  253 (441)
                       +...-.+++.++....... ....                                                      .
T Consensus       386 lPdkaidlld~a~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (821)
T CHL00095        386 LPDKAIDLLDEAGSRVRLINSRLPPAARELDKELREILKDKDEAIREQDFETAKQLRDREMEVRAQIAAIIQSKKTEEEK  465 (821)
T ss_pred             CchHHHHHHHHHHHHHHhhccCCchhHHHHHHHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence             2222233333332211100 0000                                                      0


Q ss_pred             cccceeeeHhhHHhhhhhcccccccCccc-------ccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCce
Q 013506          254 CAGVLSVTMEDWRHARSVVGPSITRGVTV-------EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRG  326 (441)
Q Consensus       254 ~~~~~~~~~e~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~  326 (441)
                      ......++.+++.................       .....--..+.|++.+.+.+...+.......    .-+.+|.+.
T Consensus       466 ~~~~~~v~~~~i~~~~~~~tgip~~~~~~~~~~~l~~l~~~L~~~v~GQ~~ai~~l~~~i~~~~~gl----~~~~~p~~~  541 (821)
T CHL00095        466 RLEVPVVTEEDIAEIVSAWTGIPVNKLTKSESEKLLHMEETLHKRIIGQDEAVVAVSKAIRRARVGL----KNPNRPIAS  541 (821)
T ss_pred             cccCCccCHHHHHHHHHHHHCCCchhhchhHHHHHHHHHHHhcCcCcChHHHHHHHHHHHHHHhhcc----cCCCCCceE
Confidence            00001233333333322211110000000       0001112345677776666666554211110    112334557


Q ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhh------------ccCchHHHHHHHHHHHHhcCCeEEEEec
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM------------YVGESEALLRNTFQRARLAAPSIIFFDE  391 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~------------~~g~~~~~~~~~~~~a~~~~~~vl~iDE  391 (441)
                      ++|+||+|||||++|+++|+.+   +.+++.++++++...            |+|..+  ...+...++..+.+|++|||
T Consensus       542 ~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~~~~~~~l~g~~~gyvg~~~--~~~l~~~~~~~p~~VvllDe  619 (821)
T CHL00095        542 FLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYMEKHTVSKLIGSPPGYVGYNE--GGQLTEAVRKKPYTVVLFDE  619 (821)
T ss_pred             EEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhccccccHHHhcCCCCcccCcCc--cchHHHHHHhCCCeEEEECC
Confidence            8999999999999999999987   357889988876321            343332  23456666777789999999


Q ss_pred             ccccccccCCCCCCCcchhhHHHHHHHHHhcCC----------CCCCeEEEEeeeee
Q 013506          392 ADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL----------EQAKVIIYPISFIF  438 (441)
Q Consensus       392 ~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~----------~~~~~v~~~~~~~~  438 (441)
                      +|++.+              .+.+.||+.||.-          ..+..+||++||+.
T Consensus       620 ieka~~--------------~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Tsn~g  662 (821)
T CHL00095        620 IEKAHP--------------DIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTSNLG  662 (821)
T ss_pred             hhhCCH--------------HHHHHHHHHhccCceecCCCcEEecCceEEEEeCCcc
Confidence            999974              6789999999962          23567899999874

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]

Probab=99.97  E-value=3.2e-30  Score=252.85  Aligned_cols=373  Identities=32%  Similarity=0.468  Sum_probs=277.2

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC-----cEEEEccCccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HLTVISPHSVH   90 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~-----~~~~v~~~~~~   90 (441)
                      -+|++++|++.++..|++.+..|+..++.|.++++.+++++|++||||||||..+++++..+..     .++.-.+.+..
T Consensus       262 v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkgaD~l  341 (1080)
T KOG0732|consen  262 VGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGADCL  341 (1080)
T ss_pred             cCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCchhh
Confidence            5569999999999999999999999999999999999999999999999999999999988743     23444667788


Q ss_pred             cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEc
Q 013506           91 KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST  169 (441)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~  169 (441)
                      +.++++.++.++.+|.++...    +|.|+|+||||.|+|... ...+....+...|+.++++...    .+.+++|++|
T Consensus       342 skwvgEaERqlrllFeeA~k~----qPSIIffdeIdGlapvrSskqEqih~SIvSTLLaLmdGlds----RgqVvvigAT  413 (1080)
T KOG0732|consen  342 SKWVGEAERQLRLLFEEAQKT----QPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDS----RGQVVVIGAT  413 (1080)
T ss_pred             ccccCcHHHHHHHHHHHHhcc----CceEEeccccccccccccchHHHhhhhHHHHHHHhccCCCC----CCceEEEccc
Confidence            899999999999999998865    599999999999988763 3334455777888899888663    3469999999


Q ss_pred             CCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCC-cccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhc
Q 013506          170 NRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEALCREATMSAVKRS  248 (441)
Q Consensus       170 ~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~-~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~  248 (441)
                      |+++.++|+++|+|||+..++|+.|+.+.|++|+..+..+..... ......++..+.||.+++++.+|.+|...++++.
T Consensus       414 nRpda~dpaLRRPgrfdref~f~lp~~~ar~~Il~Ihtrkw~~~i~~~l~~~la~~t~gy~gaDlkaLCTeAal~~~~r~  493 (1080)
T KOG0732|consen  414 NRPDAIDPALRRPGRFDREFYFPLPDVDARAKILDIHTRKWEPPISRELLLWLAEETSGYGGADLKALCTEAALIALRRS  493 (1080)
T ss_pred             CCccccchhhcCCcccceeEeeeCCchHHHHHHHHHhccCCCCCCCHHHHHHHHHhccccchHHHHHHHHHHhhhhhccc
Confidence            999999999999999999999999999999999998877766432 3347888999999999999999999999888766


Q ss_pred             ccccc--------cccceeeeHhhHHhhhhhcccccccCc-ccccCccccccc-cCchhHHHHHHHHHh-----------
Q 013506          249 SDANE--------CAGVLSVTMEDWRHARSVVGPSITRGV-TVEIPKVTWEDI-GGLRDLKKKLQQAVE-----------  307 (441)
Q Consensus       249 ~~~~~--------~~~~~~~~~e~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i-~g~~~~k~~l~~~~~-----------  307 (441)
                      .....        ......+...+|..+.....++..+.. .+..|...+..+ .+.......++..+.           
T Consensus       494 ~Pq~y~s~~kl~~d~~~ikV~~~~f~~A~~~i~ps~~R~~~~~s~Pl~~~~~~ll~~~~~~~~iq~~~~va~~~~k~~e~  573 (1080)
T KOG0732|consen  494 FPQIYSSSDKLLIDVALIKVEVRDFVEAMSRITPSSRRSSVIFSRPLSTYLKPLLPFQDALEDIQGLMDVASSMAKIEEH  573 (1080)
T ss_pred             cCeeecccccccccchhhhhhhHhhhhhhhccCCCCCccccCCCCCCCcceecccchHHHHHHhhcchhHHhhhhhHHHH
Confidence            43211        112233566777777776666555432 222222111111 101111111111110           


Q ss_pred             --cccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc-CCceEEechhhhhhhc-cCchHHHHHHHHHHHHhcC
Q 013506          308 --WPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-EASFFSLSGAELYSMY-VGESEALLRNTFQRARLAA  383 (441)
Q Consensus       308 --~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~-~~~~~~i~~~~~~~~~-~g~~~~~~~~~~~~a~~~~  383 (441)
                        +.+......-.+.+--...+++.|..|.|-+-+..++-+.+ +.++.....+.+..-- ..+.+..+..+|..|+...
T Consensus       574 ~~~~v~~~e~~~~i~lic~~~lli~~~~~~g~~~lg~aIlh~~~~~~v~s~~issll~d~~~~~~~~~iv~i~~eaR~~~  653 (1080)
T KOG0732|consen  574 LKLLVRSFESNFAIRLICRPRLLINGGKGSGQDYLGPAILHRLEGLPVQSLDISSLLSDEGTEDLEEEIVHIFMEARKTT  653 (1080)
T ss_pred             hHHHHHhhhcccchhhhcCcHHhcCCCcccccCcccHHHHHHHhccchHHHHHHHHHhccccccHHHHHHHHHHHHhccC
Confidence              10000000000011112236788999999999999887766 6777778877776643 4556788999999999999


Q ss_pred             CeEEEEecccccc
Q 013506          384 PSIIFFDEADVVG  396 (441)
Q Consensus       384 ~~vl~iDE~d~~~  396 (441)
                      |||+||=.+|.-.
T Consensus       654 psi~~ip~~d~w~  666 (1080)
T KOG0732|consen  654 PSIVFIPNVDEWA  666 (1080)
T ss_pred             Cceeeccchhhhh
Confidence            9999999888654

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

Probab=99.97  E-value=1.9e-30  Score=243.93  Aligned_cols=238  Identities=40%  Similarity=0.598  Sum_probs=211.9

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      -.|+|+.|.+++|+.+.+.+.. +..|+.+..+|...|++++|+||||||||.||++++.+.+.|++.+++++|...+++
T Consensus       147 v~F~DVAG~dEakeel~EiVdf-Lk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FVemfVG  225 (596)
T COG0465         147 VTFADVAGVDEAKEELSELVDF-LKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVG  225 (596)
T ss_pred             cChhhhcCcHHHHHHHHHHHHH-HhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhhhhhcC
Confidence            5679999999999999999876 788999999999999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCC----CCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCC
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD----HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~  171 (441)
                      ....+++.+|.++...+    |||+||||+|.+...+.    +++..-...+.+++..+|.....    ..++++++||+
T Consensus       226 vGAsRVRdLF~qAkk~a----P~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~----~gviviaaTNR  297 (596)
T COG0465         226 VGASRVRDLFEQAKKNA----PCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGN----EGVIVIAATNR  297 (596)
T ss_pred             CCcHHHHHHHHHhhccC----CCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCC----CceEEEecCCC
Confidence            99999999999998765    99999999999877663    33344446788888888887632    26899999999


Q ss_pred             CCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccc
Q 013506          172 VDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA  251 (441)
Q Consensus       172 ~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~  251 (441)
                      ++-+|+++.|++||+..+.++.|+...|.+|++.+.+..+...++++..+++.+.|+++.++.+++.++...+.++... 
T Consensus       298 pdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~Vdl~~iAr~tpGfsGAdL~nl~NEAal~aar~n~~-  376 (596)
T COG0465         298 PDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDLKKIARGTPGFSGADLANLLNEAALLAARRNKK-  376 (596)
T ss_pred             cccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcCCHHHHhhhCCCcccchHhhhHHHHHHHHHHhcCe-
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999988887653 


Q ss_pred             cccccceeeeHhhHHhhhh
Q 013506          252 NECAGVLSVTMEDWRHARS  270 (441)
Q Consensus       252 ~~~~~~~~~~~e~~~~~~~  270 (441)
                             .++..++..+..
T Consensus       377 -------~i~~~~i~ea~d  388 (596)
T COG0465         377 -------EITMRDIEEAID  388 (596)
T ss_pred             -------eEeccchHHHHH
Confidence                   355555555544

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.97  E-value=1.6e-29  Score=243.67  Aligned_cols=241  Identities=39%  Similarity=0.574  Sum_probs=202.8

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      ..+++++|++++|+.+.+++.. +..++.+.+++..+++++||+||||||||+++++++++++.+++.+++.++...+.+
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            3569999999999999998876 678888899999999999999999999999999999999999999999888888888


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC----chhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCC
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~  171 (441)
                      ...+.++.+|..+...    .|+||||||+|.+.+.....    .......+.+++..++....    ..+++||++||.
T Consensus       131 ~~~~~l~~~f~~a~~~----~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~----~~~v~vI~aTn~  202 (495)
T TIGR01241       131 VGASRVRDLFEQAKKN----APCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGT----NTGVIVIAATNR  202 (495)
T ss_pred             ccHHHHHHHHHHHHhc----CCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccC----CCCeEEEEecCC
Confidence            8888888889887644    48999999999998655431    22334566777777776533    235899999999


Q ss_pred             CCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccc
Q 013506          172 VDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA  251 (441)
Q Consensus       172 ~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~  251 (441)
                      ++.+|+++.|++||+..++++.|+.++|.+|++.++.......+.++..++..+.|++++++..+++++...+.++..  
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            999999999999999999999999999999999999887776777899999999999999999999998776655432  


Q ss_pred             cccccceeeeHhhHHhhhhhcc
Q 013506          252 NECAGVLSVTMEDWRHARSVVG  273 (441)
Q Consensus       252 ~~~~~~~~~~~e~~~~~~~~~~  273 (441)
                            ..++.+++..+.....
T Consensus       281 ------~~i~~~~l~~a~~~~~  296 (495)
T TIGR01241       281 ------TEITMNDIEEAIDRVI  296 (495)
T ss_pred             ------CCCCHHHHHHHHHHHh
Confidence                  3578888888777543

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.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.97  E-value=3.8e-29  Score=232.29  Aligned_cols=238  Identities=42%  Similarity=0.645  Sum_probs=195.4

Q ss_pred             cccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccch
Q 013506           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGES   97 (441)
Q Consensus        18 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~   97 (441)
                      +++++|++++++.|.+++..|+.++..+..+|+.++.+++|+||||||||++++++++.++.+++.+.+..+...+.+..
T Consensus       121 ~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~~~~~g~~  200 (364)
T TIGR01242       121 YEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRKYIGEG  200 (364)
T ss_pred             HHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHHHHhhhHH
Confidence            37999999999999999999999999999999999999999999999999999999999999999988877777777777


Q ss_pred             HHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC-chhhH---HHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCC
Q 013506           98 EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-REQDV---RIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD  173 (441)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~-~~~~~---~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~  173 (441)
                      ...+..+|..+..    ..|+||||||+|.+....... ...+.   ..+..++..++...    ...++.+|+++|.++
T Consensus       201 ~~~i~~~f~~a~~----~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~----~~~~v~vI~ttn~~~  272 (364)
T TIGR01242       201 ARLVREIFELAKE----KAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFD----PRGNVKVIAATNRPD  272 (364)
T ss_pred             HHHHHHHHHHHHh----cCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCC----CCCCEEEEEecCChh
Confidence            7777777766543    348999999999987544221 11122   33334444444322    123689999999999


Q ss_pred             ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccc
Q 013506          174 AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE  253 (441)
Q Consensus       174 ~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~  253 (441)
                      .+++++.+++||+..++++.|+.++|.+|++.+........+.++..++..+.|++++++..+++.|...+.++..    
T Consensus       273 ~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~~~~la~~t~g~sg~dl~~l~~~A~~~a~~~~~----  348 (364)
T TIGR01242       273 ILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAKMTEGASGADLKAICTEAGMFAIREER----  348 (364)
T ss_pred             hCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhCC----
Confidence            9999999999999999999999999999999998888777777899999999999999999999999988877643    


Q ss_pred             cccceeeeHhhHHhhhhh
Q 013506          254 CAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       254 ~~~~~~~~~e~~~~~~~~  271 (441)
                          ..++.+|+..+...
T Consensus       349 ----~~i~~~d~~~a~~~  362 (364)
T TIGR01242       349 ----DYVTMDDFIKAVEK  362 (364)
T ss_pred             ----CccCHHHHHHHHHH
Confidence                24777887776553

Many proteins may score above the trusted cutoff because an internal

>CHL00195 ycf46 Ycf46; Provisional

Probab=99.97  E-value=5.6e-28  Score=227.60  Aligned_cols=284  Identities=21%  Similarity=0.279  Sum_probs=199.7

Q ss_pred             CeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCH
Q 013506          117 PSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTA  196 (441)
Q Consensus       117 ~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~  196 (441)
                      |.++++.|+|..+..     .   ...+.|.++....+.    .++.+|+.+.  ...+++.+.+   +..++.+|.|+.
T Consensus        82 ~~~~vl~d~h~~~~~-----~---~~~r~l~~l~~~~~~----~~~~~i~~~~--~~~~p~el~~---~~~~~~~~lP~~  144 (489)
T CHL00195         82 PALFLLKDFNRFLND-----I---SISRKLRNLSRILKT----QPKTIIIIAS--ELNIPKELKD---LITVLEFPLPTE  144 (489)
T ss_pred             CcEEEEecchhhhcc-----h---HHHHHHHHHHHHHHh----CCCEEEEEcC--CCCCCHHHHh---ceeEEeecCcCH
Confidence            689999999988631     1   233333333322221    1134444433  3567888874   445789999999


Q ss_pred             HHHHHHHHHHhccCCCC-CcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhhcccc
Q 013506          197 EERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPS  275 (441)
Q Consensus       197 ~~~~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~  275 (441)
                      +++.+++.......... .+..++.++..+.|++..+++.+++.+.....             .++.+++...++.....
T Consensus       145 ~ei~~~l~~~~~~~~~~~~~~~~~~l~~~~~gls~~~~~~~~~~~~~~~~-------------~~~~~~~~~i~~~k~q~  211 (489)
T CHL00195        145 SEIKKELTRLIKSLNIKIDSELLENLTRACQGLSLERIRRVLSKIIATYK-------------TIDENSIPLILEEKKQI  211 (489)
T ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCHHHHHHHHHHHHHHcC-------------CCChhhHHHHHHHHHHH
Confidence            99999998876544433 33457899999999999999998876443210             12222222111111111


Q ss_pred             c--ccCcccccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceE
Q 013506          276 I--TRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (441)
Q Consensus       276 ~--~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~  353 (441)
                      .  .....+..+...+.+++|++.+|+.+.+....   ......+.|+.++.++||+||||||||++|+++|..++.+++
T Consensus       212 ~~~~~~le~~~~~~~~~dvgGl~~lK~~l~~~~~~---~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~  288 (489)
T CHL00195        212 ISQTEILEFYSVNEKISDIGGLDNLKDWLKKRSTS---FSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLL  288 (489)
T ss_pred             HhhhccccccCCCCCHHHhcCHHHHHHHHHHHHHH---hhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEE
Confidence            1  12223333456789999999999988765432   223345668888999999999999999999999999999999


Q ss_pred             EechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEE
Q 013506          354 SLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYP  433 (441)
Q Consensus       354 ~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~  433 (441)
                      .++.++++++|+|+++.+++++|+.|+...||||||||+|++++.++..  +.++...+++++||++|++. ...+++|.
T Consensus       289 ~l~~~~l~~~~vGese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~--~d~~~~~rvl~~lL~~l~~~-~~~V~vIa  365 (489)
T CHL00195        289 RLDVGKLFGGIVGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESK--GDSGTTNRVLATFITWLSEK-KSPVFVVA  365 (489)
T ss_pred             EEEhHHhcccccChHHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCC--CCchHHHHHHHHHHHHHhcC-CCceEEEE
Confidence            9999999999999999999999999999999999999999999865432  23456789999999999853 23344444


Q ss_pred             eee
Q 013506          434 ISF  436 (441)
Q Consensus       434 ~~~  436 (441)
                      +||
T Consensus       366 TTN  368 (489)
T CHL00195        366 TAN  368 (489)
T ss_pred             ecC
Confidence            444

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.97  E-value=1.2e-28  Score=231.31  Aligned_cols=220  Identities=30%  Similarity=0.516  Sum_probs=181.2

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc----------EEEEcc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH----------LTVISP   86 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~----------~~~v~~   86 (441)
                      .+++|+|++++++.+.+.+..|+.++..+...++.+++++||+||||||||++++++++.++.+          ++.+..
T Consensus       180 ~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~  259 (512)
T TIGR03689       180 TYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKG  259 (512)
T ss_pred             CHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccc
Confidence            3489999999999999999999999999999999999999999999999999999999998644          445666


Q ss_pred             CccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC--chhhHHHHHHHHHHHhcCCCCCCCCCeEE
Q 013506           87 HSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR--REQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (441)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  164 (441)
                      .++...+.++....++.+|+.+......+.|+|+||||+|.++......  +......+.+|+..++....    .++++
T Consensus       260 ~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~----~~~Vi  335 (512)
T TIGR03689       260 PELLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVES----LDNVI  335 (512)
T ss_pred             hhhcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhccccc----CCceE
Confidence            6777788888888999999888776556679999999999998765432  23334566788888876543    23689


Q ss_pred             EEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q 013506          165 VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSA  244 (441)
Q Consensus       165 vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~  244 (441)
                      +|++||.++.+|+++.|+|||+..|+++.|+.+++.+|++.++......     ......+.|++..++..+++++....
T Consensus       336 VI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~~l~l-----~~~l~~~~g~~~a~~~al~~~av~~~  410 (512)
T TIGR03689       336 VIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTDSLPL-----DADLAEFDGDREATAAALIQRAVDHL  410 (512)
T ss_pred             EEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhccCCc-----hHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999987642111     12234468899999999999876544


Q ss_pred             H
Q 013506          245 V  245 (441)
Q Consensus       245 ~  245 (441)
                      .
T Consensus       411 ~  411 (512)
T TIGR03689       411 Y  411 (512)
T ss_pred             h
Confidence            3

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.96  E-value=1.6e-27  Score=242.42  Aligned_cols=168  Identities=20%  Similarity=0.324  Sum_probs=123.3

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~v~   85 (441)
                      ..++.++|.++..+.+.++++.             ....+++|+||||||||++++.++..+          +.+++.++
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            5678899999998888887755             345789999999999999999999876          44567776


Q ss_pred             cCccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        86 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ...+.  ..+.++....+..++......   ..+.||||||+|.+.+.+...+.  .+..+.|...+.+        +.+
T Consensus       237 ~~~l~a~~~~~g~~e~~l~~~l~~~~~~---~~~~ILfIDEih~l~~~g~~~~~--~d~~~~Lk~~l~~--------g~i  303 (852)
T TIGR03346       237 MGALIAGAKYRGEFEERLKAVLNEVTKS---EGQIILFIDELHTLVGAGKAEGA--MDAGNMLKPALAR--------GEL  303 (852)
T ss_pred             HHHHhhcchhhhhHHHHHHHHHHHHHhc---CCCeEEEeccHHHhhcCCCCcch--hHHHHHhchhhhc--------Cce
Confidence            65543  345567777788888766432   34789999999999764432221  2333444333322        258


Q ss_pred             EEEEEcCCCC-----ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCC
Q 013506          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPL  212 (441)
Q Consensus       164 ~vi~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~  212 (441)
                      .+|++|+..+     ..|+++.|  ||. .+.++.|+.+++..|++.....+..
T Consensus       304 ~~IgaTt~~e~r~~~~~d~al~r--Rf~-~i~v~~p~~~~~~~iL~~~~~~~e~  354 (852)
T TIGR03346       304 HCIGATTLDEYRKYIEKDAALER--RFQ-PVFVDEPTVEDTISILRGLKERYEV  354 (852)
T ss_pred             EEEEeCcHHHHHHHhhcCHHHHh--cCC-EEEeCCCCHHHHHHHHHHHHHHhcc
Confidence            8999888763     57999999  997 6899999999999999877665543

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.

>CHL00176 ftsH cell division protein; Validated

Probab=99.96  E-value=1.4e-28  Score=238.86  Aligned_cols=240  Identities=37%  Similarity=0.566  Sum_probs=198.1

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      ..|++++|++++|+.+.+.+.. +..++.+..++...+.++||+||||||||++|+++|++.+.+++.+++.++...+.+
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            4669999999999999998766 667788888999999999999999999999999999999999999999888777777


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCC
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~  171 (441)
                      .....++.+|..+..    ..|+||||||+|.+....+.    ........+.+++..++....    ..++++|++||.
T Consensus       259 ~~~~~vr~lF~~A~~----~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~----~~~ViVIaaTN~  330 (638)
T CHL00176        259 VGAARVRDLFKKAKE----NSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKG----NKGVIVIAATNR  330 (638)
T ss_pred             hhHHHHHHHHHHHhc----CCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccC----CCCeeEEEecCc
Confidence            666777888877654    35999999999999755421    222334556666666665432    236899999999


Q ss_pred             CCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccc
Q 013506          172 VDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA  251 (441)
Q Consensus       172 ~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~  251 (441)
                      ++.+|+++.|++||+..+.++.|+.++|.+|++.++.......+.++..++..+.||++++++.+++++...+.++..  
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            999999999999999999999999999999999999887777777899999999999999999999998877655432  


Q ss_pred             cccccceeeeHhhHHhhhhhc
Q 013506          252 NECAGVLSVTMEDWRHARSVV  272 (441)
Q Consensus       252 ~~~~~~~~~~~e~~~~~~~~~  272 (441)
                            ..++.+++..+....
T Consensus       409 ------~~It~~dl~~Ai~rv  423 (638)
T CHL00176        409 ------ATITMKEIDTAIDRV  423 (638)
T ss_pred             ------CCcCHHHHHHHHHHH
Confidence                  246777777766543

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.96  E-value=3.9e-27  Score=238.41  Aligned_cols=166  Identities=20%  Similarity=0.326  Sum_probs=125.8

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~v~   85 (441)
                      ..++.++|.++..+.+.++++.             ....+++|+||||||||++++.++..+          +.+++.++
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            6789999999998888887755             345789999999999999999999987          55677777


Q ss_pred             cCccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        86 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ...+.  ..+.++..+.+..++......   ..+.||||||+|.+...+...+.  .+..+.|...+.+        +.+
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            66654  345677778888888765432   35789999999999865533222  2334444444433        257


Q ss_pred             EEEEEcCCCC-----ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccC
Q 013506          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV  210 (441)
Q Consensus       164 ~vi~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~  210 (441)
                      .+|++|+..+     ..|+++.|  ||. .+.++.|+.+++..|++.....+
T Consensus       309 ~~IgaTt~~e~r~~~~~d~al~r--Rf~-~i~v~eP~~~~~~~iL~~l~~~~  357 (857)
T PRK10865        309 HCVGATTLDEYRQYIEKDAALER--RFQ-KVFVAEPSVEDTIAILRGLKERY  357 (857)
T ss_pred             eEEEcCCCHHHHHHhhhcHHHHh--hCC-EEEeCCCCHHHHHHHHHHHhhhh
Confidence            9999988865     57999999  997 68899999999999998766544

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=99.96  E-value=1.3e-28  Score=207.92  Aligned_cols=228  Identities=36%  Similarity=0.604  Sum_probs=197.8

Q ss_pred             ccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccc
Q 013506           13 EKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA   92 (441)
Q Consensus        13 ~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~   92 (441)
                      +.--+++++.|+-.+..++.+.+..|+.++.+|.+.++++|..++||||||+|||.++++++..++.+++.+.+..+.+.
T Consensus       126 ~~~~s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~k  205 (388)
T KOG0651|consen  126 PRNISFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDK  205 (388)
T ss_pred             ccccCHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhh
Confidence            33457899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCC
Q 013506           93 HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (441)
Q Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~  171 (441)
                      +.++..+.+++.|..+....    ||++|+||+|....... .....+.+++..|.+++++... .....++-+|+|+|.
T Consensus       206 yiGEsaRlIRemf~yA~~~~----pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdg-fd~l~rVk~ImatNr  280 (388)
T KOG0651|consen  206 YIGESARLIRDMFRYAREVI----PCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDG-FDTLHRVKTIMATNR  280 (388)
T ss_pred             hcccHHHHHHHHHHHHhhhC----ceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhcc-chhcccccEEEecCC
Confidence            99999999999999888654    89999999998876553 2233455677777776664332 223447899999999


Q ss_pred             CCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Q 013506          172 VDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAV  245 (441)
Q Consensus       172 ~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~  245 (441)
                      ++.|+|++.|+||++..+..|.|....|..|++.+..........+.+.+.+..+++++.++++.+.++...+.
T Consensus       281 pdtLdpaLlRpGRldrk~~iPlpne~~r~~I~Kih~~~i~~~Geid~eaivK~~d~f~gad~rn~~tEag~Fa~  354 (388)
T KOG0651|consen  281 PDTLDPALLRPGRLDRKVEIPLPNEQARLGILKIHVQPIDFHGEIDDEAILKLVDGFNGADLRNVCTEAGMFAI  354 (388)
T ss_pred             ccccchhhcCCccccceeccCCcchhhceeeEeeccccccccccccHHHHHHHHhccChHHHhhhccccccccc
Confidence            99999999999999999999999999999999888877777777789999999999999999988887764443

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.96  E-value=7e-28  Score=217.46  Aligned_cols=256  Identities=35%  Similarity=0.559  Sum_probs=207.0

Q ss_pred             cccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccC
Q 013506            8 MSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH   87 (441)
Q Consensus         8 ~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~   87 (441)
                      ...+++.|   +++.|++.+|+.+.+++.+|...+..|..+. .+.+.+||.||||+|||+|++++|.+.+..++.++++
T Consensus       145 ~~~~~v~~---~di~gl~~~k~~l~e~vi~p~lr~d~F~glr-~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSas  220 (428)
T KOG0740|consen  145 DTLRNVGW---DDIAGLEDAKQSLKEAVILPLLRPDLFLGLR-EPVRGLLLFGPPGTGKTMLAKAIATESGATFFNISAS  220 (428)
T ss_pred             ccCCcccc---cCCcchhhHHHHhhhhhhhcccchHhhhccc-cccchhheecCCCCchHHHHHHHHhhhcceEeeccHH
Confidence            44556778   8999999999999999999999998888653 3557999999999999999999999999999999999


Q ss_pred             ccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEE
Q 013506           88 SVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVV  166 (441)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi  166 (441)
                      .+.+.+.|+.++.++.+|+-+...    +|.|+||||+|.++.... ...+...+...+++-.++.....  ..++++++
T Consensus       221 sLtsK~~Ge~eK~vralf~vAr~~----qPsvifidEidslls~Rs~~e~e~srr~ktefLiq~~~~~s~--~~drvlvi  294 (428)
T KOG0740|consen  221 SLTSKYVGESEKLVRALFKVARSL----QPSVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFDGKNSA--PDDRVLVI  294 (428)
T ss_pred             HhhhhccChHHHHHHHHHHHHHhc----CCeEEEechhHHHHhhcCCcccccchhhhhHHHhhhccccCC--CCCeEEEE
Confidence            999999999999999999888754    599999999999987663 33344545666666555543332  33489999


Q ss_pred             EEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCC-CCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Q 013506          167 ASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPL-DANVDLEAIATSCNGYVGADLEALCREATMSAV  245 (441)
Q Consensus       167 ~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~-~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~  245 (441)
                      ++||.|+.+|++++|  ||...+++|.|+.+.|..+|...+...+. ..+.++..+++.++||++.++..+|.++.....
T Consensus       295 gaTN~P~e~Dea~~R--rf~kr~yiplPd~etr~~~~~~ll~~~~~~l~~~d~~~l~~~Tegysgsdi~~l~kea~~~p~  372 (428)
T KOG0740|consen  295 GATNRPWELDEAARR--RFVKRLYIPLPDYETRSLLWKQLLKEQPNGLSDLDISLLAKVTEGYSGSDITALCKEAAMGPL  372 (428)
T ss_pred             ecCCCchHHHHHHHH--HhhceeeecCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCcccccHHHHHHHhhcCch
Confidence            999999999999999  99999999999999999999999888733 345679999999999999999999999987665


Q ss_pred             Hhcccc--c---ccccceeeeHhhHHhhhhhcccc
Q 013506          246 KRSSDA--N---ECAGVLSVTMEDWRHARSVVGPS  275 (441)
Q Consensus       246 ~~~~~~--~---~~~~~~~~~~e~~~~~~~~~~~~  275 (441)
                      +.....  .   .....+.+...++..++..+.+.
T Consensus       373 r~~~~~~~~~~~~~~~~r~i~~~df~~a~~~i~~~  407 (428)
T KOG0740|consen  373 RELGGTTDLEFIDADKIRPITYPDFKNAFKNIKPS  407 (428)
T ss_pred             hhcccchhhhhcchhccCCCCcchHHHHHHhhccc
Confidence            554442  1   11233445555666665555554

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=99.95  E-value=4.5e-28  Score=198.78  Aligned_cols=154  Identities=40%  Similarity=0.673  Sum_probs=145.0

Q ss_pred             ccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh
Q 013506          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (441)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~  362 (441)
                      +.|..+|.+++|++-.|+.+++.++.++.|...+..+|+.|+.++|++||||||||+++++.|......|+++.++++..
T Consensus       148 ekpdvsy~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~firvvgsefvq  227 (408)
T KOG0727|consen  148 EKPDVSYADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEFVQ  227 (408)
T ss_pred             CCCCccccccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHHHHH
Confidence            45678899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCe-EEEEeee
Q 013506          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKV-IIYPISF  436 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~-v~~~~~~  436 (441)
                      +|.|+...-++.+|.-|+...|+++||||+|.++.+|-+..++.+...+|++-+||+.|||+..... -+|+|||
T Consensus       228 kylgegprmvrdvfrlakenapsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq~~nvkvimatn  302 (408)
T KOG0727|consen  228 KYLGEGPRMVRDVFRLAKENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQTTNVKVIMATN  302 (408)
T ss_pred             HHhccCcHHHHHHHHHHhccCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCcccceEEEEecC
Confidence            9999999999999999999999999999999999999888888888899999999999999998554 4666666

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=99.95  E-value=2.9e-26  Score=201.50  Aligned_cols=208  Identities=21%  Similarity=0.321  Sum_probs=159.8

Q ss_pred             cccccc-cchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccc
Q 013506           16 KAEEAI-GGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (441)
Q Consensus        16 ~~~~~i-~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~   94 (441)
                      .+|+++ .|.--.+.-+.+.+....  .......+++++..++|+||||||||.+|+++|++++.+++.+++.++.+.+.
T Consensus       112 ~~f~~~~g~~~~~p~f~dk~~~hi~--kn~l~~~~ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk~v  189 (413)
T PLN00020        112 RSFDNLVGGYYIAPAFMDKVAVHIA--KNFLALPNIKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENA  189 (413)
T ss_pred             cchhhhcCccccCHHHHHHHHHHHH--hhhhhccCCCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcCcC
Confidence            455666 444444555544443311  12233467899999999999999999999999999999999999999999999


Q ss_pred             cchHHHHHHHHHHHHhhh-hcCCCeEEEEccccccccCCCCCc-hh-hHHHHHHHHHHHhcCC-----C---CCCCCCeE
Q 013506           95 GESEKALREAFSQASSHA-LSGKPSVVFIDEIDALCPRRDHRR-EQ-DVRIASQLFTLMDSNK-----P---SKTSVPHV  163 (441)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~-~~~~~~il~iDe~~~l~~~~~~~~-~~-~~~~~~~l~~~~~~~~-----~---~~~~~~~~  163 (441)
                      |+.++.++++|..+.... ..++||||||||+|.+++..+... .. ...+..+|++.+|+..     +   ......++
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            999999999999887543 346799999999999998765322 22 2233468888887521     1   11234579


Q ss_pred             EEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCC
Q 013506          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGY  228 (441)
Q Consensus       164 ~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~  228 (441)
                      .||+|+|.++.|+++++|+|||+..  ++.|+.++|.+|++.+++...+. ..++..+++.+.|-
T Consensus       270 ~VIaTTNrpd~LDpALlRpGRfDk~--i~lPd~e~R~eIL~~~~r~~~l~-~~dv~~Lv~~f~gq  331 (413)
T PLN00020        270 PIIVTGNDFSTLYAPLIRDGRMEKF--YWAPTREDRIGVVHGIFRDDGVS-REDVVKLVDTFPGQ  331 (413)
T ss_pred             eEEEeCCCcccCCHhHcCCCCCCce--eCCCCHHHHHHHHHHHhccCCCC-HHHHHHHHHcCCCC
Confidence            9999999999999999999999964  46899999999999999887665 45677888877663

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.95  E-value=3.6e-26  Score=225.23  Aligned_cols=240  Identities=36%  Similarity=0.558  Sum_probs=199.1

Q ss_pred             ccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccc
Q 013506           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (441)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~   94 (441)
                      ...++++.|.+..++.+.+.+.. ...+..+..++...+.+++|+||||||||++++.++++++.+++.+++.++...+.
T Consensus       148 ~~~~~di~g~~~~~~~l~~i~~~-~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~~  226 (644)
T PRK10733        148 KTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFV  226 (644)
T ss_pred             hCcHHHHcCHHHHHHHHHHHHHH-hhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhhh
Confidence            45678999999999999998876 44556677777788889999999999999999999999999999999998888777


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcC
Q 013506           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (441)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~  170 (441)
                      +.....++..|..+...    .|+|+||||+|.+......    ........+.+++..++....    ...+++|++||
T Consensus       227 g~~~~~~~~~f~~a~~~----~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~----~~~vivIaaTN  298 (644)
T PRK10733        227 GVGASRVRDMFEQAKKA----APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG----NEGIIVIAATN  298 (644)
T ss_pred             cccHHHHHHHHHHHHhc----CCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccC----CCCeeEEEecC
Confidence            87778888888876543    5899999999999765432    222334566777777776543    23689999999


Q ss_pred             CCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhccc
Q 013506          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD  250 (441)
Q Consensus       171 ~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~  250 (441)
                      .++.+|+++.|++||+..+.++.|+.++|.+|++.++...+...+.++..++..+.||+++++.+++++|...+.+... 
T Consensus       299 ~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~~~~d~~~la~~t~G~sgadl~~l~~eAa~~a~r~~~-  377 (644)
T PRK10733        299 RPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGNK-  377 (644)
T ss_pred             ChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCCCCcCCHHHHHhhCCCCCHHHHHHHHHHHHHHHHHcCC-
Confidence            9999999999999999999999999999999999999998888888899999999999999999999999988776432 


Q ss_pred             ccccccceeeeHhhHHhhhhh
Q 013506          251 ANECAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       251 ~~~~~~~~~~~~e~~~~~~~~  271 (441)
                             ..++.+++..+...
T Consensus       378 -------~~i~~~d~~~a~~~  391 (644)
T PRK10733        378 -------RVVSMVEFEKAKDK  391 (644)
T ss_pred             -------CcccHHHHHHHHHH
Confidence                   24566666655543

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.95  E-value=1.7e-27  Score=207.02  Aligned_cols=153  Identities=42%  Similarity=0.653  Sum_probs=139.6

Q ss_pred             ccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh
Q 013506          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (441)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~  362 (441)
                      ..+...|+++.|+.+.|+.|.+.+..|+...+.+.. .+.|=.++|++||||||||.|||++|.+++-.||.++.+.+.+
T Consensus       205 ~np~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~G-irrPWkgvLm~GPPGTGKTlLAKAvATEc~tTFFNVSsstltS  283 (491)
T KOG0738|consen  205 RNPNIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKG-IRRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTS  283 (491)
T ss_pred             cCCCcChHhhcchHHHHHHHHHHHhhhhhhHHHHhh-cccccceeeeeCCCCCcHHHHHHHHHHhhcCeEEEechhhhhh
Confidence            345678999999999999999999999988887775 4567789999999999999999999999999999999999999


Q ss_pred             hccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCC----CCeEEEEeeeee
Q 013506          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ----AKVIIYPISFIF  438 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~----~~~v~~~~~~~~  438 (441)
                      +|-|++|+-++-+|+-|+.-.|++|||||||++..+||++  +.++.++|+.++||..|||+.+    ..+|+|+|+|-|
T Consensus       284 KwRGeSEKlvRlLFemARfyAPStIFiDEIDslcs~RG~s--~EHEaSRRvKsELLvQmDG~~~t~e~~k~VmVLAATN~  361 (491)
T KOG0738|consen  284 KWRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSQRGGS--SEHEASRRVKSELLVQMDGVQGTLENSKVVMVLAATNF  361 (491)
T ss_pred             hhccchHHHHHHHHHHHHHhCCceeehhhHHHHHhcCCCc--cchhHHHHHHHHHHHHhhccccccccceeEEEEeccCC
Confidence            9999999999999999999999999999999999999875  5778899999999999999766    456899988865

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.94  E-value=1.1e-26  Score=209.55  Aligned_cols=149  Identities=43%  Similarity=0.652  Sum_probs=136.6

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhcc
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYV  365 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~  365 (441)
                      ...++++.|+++.|+.+.+.++. ++....+.++|-..+.++||+||||||||.|||++|.+.+.+||...++++-.+|+
T Consensus       300 nv~F~dVkG~DEAK~ELeEiVef-LkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdEm~V  378 (752)
T KOG0734|consen  300 NVTFEDVKGVDEAKQELEEIVEF-LKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDEMFV  378 (752)
T ss_pred             ccccccccChHHHHHHHHHHHHH-hcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhhhhh
Confidence            45789999999999999999885 77888889999999999999999999999999999999999999999999999999


Q ss_pred             CchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeeee
Q 013506          366 GESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFIF  438 (441)
Q Consensus       366 g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~~  438 (441)
                      |...+.+|.+|+.|++..||||||||+|++.++|...   ..-+.+.-+|+||.+||||.+...|||+|+|-|
T Consensus       379 GvGArRVRdLF~aAk~~APcIIFIDEiDavG~kR~~~---~~~y~kqTlNQLLvEmDGF~qNeGiIvigATNf  448 (752)
T KOG0734|consen  379 GVGARRVRDLFAAAKARAPCIIFIDEIDAVGGKRNPS---DQHYAKQTLNQLLVEMDGFKQNEGIIVIGATNF  448 (752)
T ss_pred             cccHHHHHHHHHHHHhcCCeEEEEechhhhcccCCcc---HHHHHHHHHHHHHHHhcCcCcCCceEEEeccCC
Confidence            9999999999999999999999999999999888652   223788999999999999999888888888765

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.94  E-value=1.6e-26  Score=194.04  Aligned_cols=157  Identities=38%  Similarity=0.616  Sum_probs=136.6

Q ss_pred             ccCcccccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          277 TRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       277 ~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      ......+.|...|.++.|++..|+.|.+.+..++...+.+.. .+.|-+++||+|||||||+-||+++|...+-.||.++
T Consensus       120 ~sAIv~EKPNVkWsDVAGLE~AKeALKEAVILPIKFPqlFtG-kR~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFSvS  198 (439)
T KOG0739|consen  120 NSAIVREKPNVKWSDVAGLEGAKEALKEAVILPIKFPQLFTG-KRKPWRGILLYGPPGTGKSYLAKAVATEANSTFFSVS  198 (439)
T ss_pred             hhhhhccCCCCchhhhccchhHHHHHHhheeecccchhhhcC-CCCcceeEEEeCCCCCcHHHHHHHHHhhcCCceEEee
Confidence            334455678889999999999999999999999998877764 5566789999999999999999999999999999999


Q ss_pred             hhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCC-CCeEEEEe-
Q 013506          357 GAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ-AKVIIYPI-  434 (441)
Q Consensus       357 ~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~-~~~v~~~~-  434 (441)
                      .+|+.++|.|++++.++++|+-|+...|+|+||||||++.++|+..   .++.++|+-.+||..|.|+-. ...|+|+| 
T Consensus       199 SSDLvSKWmGESEkLVknLFemARe~kPSIIFiDEiDslcg~r~en---EseasRRIKTEfLVQMqGVG~d~~gvLVLgA  275 (439)
T KOG0739|consen  199 SSDLVSKWMGESEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSEN---ESEASRRIKTEFLVQMQGVGNDNDGVLVLGA  275 (439)
T ss_pred             hHHHHHHHhccHHHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCC---chHHHHHHHHHHHHhhhccccCCCceEEEec
Confidence            9999999999999999999999999999999999999999888763   445689999999999999765 33455555 


Q ss_pred             eee
Q 013506          435 SFI  437 (441)
Q Consensus       435 ~~~  437 (441)
                      |||
T Consensus       276 TNi  278 (439)
T KOG0739|consen  276 TNI  278 (439)
T ss_pred             CCC
Confidence            444

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.94  E-value=1.6e-25  Score=229.67  Aligned_cols=211  Identities=18%  Similarity=0.240  Sum_probs=164.0

Q ss_pred             HHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccc----------cc------------------
Q 013506           44 QAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAH----------VG------------------   95 (441)
Q Consensus        44 ~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~----------~~------------------   95 (441)
                      ...++|..++++|||+||||||||.+|+++|++.+.|++.+++.++...+          .+                  
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            45678899999999999999999999999999999999999998877432          01                  


Q ss_pred             -------------ch--HHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCC
Q 013506           96 -------------ES--EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSV  160 (441)
Q Consensus        96 -------------~~--~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  160 (441)
                                   ..  ...++.+|+.|...    .|||+||||||.+.....     ....+.+|+..+++.... ...
T Consensus      1701 ~~e~~n~~~~~m~~~e~~~rIr~lFelARk~----SPCIIFIDEIDaL~~~ds-----~~ltL~qLLneLDg~~~~-~s~ 1770 (2281)
T CHL00206       1701 LLTMMNALTMDMMPKIDRFYITLQFELAKAM----SPCIIWIPNIHDLNVNES-----NYLSLGLLVNSLSRDCER-CST 1770 (2281)
T ss_pred             hhhhcchhhhhhhhhhhHHHHHHHHHHHHHC----CCeEEEEEchhhcCCCcc-----ceehHHHHHHHhcccccc-CCC
Confidence                         11  12366677777765    499999999999976421     112367788888764321 123


Q ss_pred             CeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHh--ccCCCCC-cccHHHHHHHCCCCCHHHHHHHH
Q 013506          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYT--KKVPLDA-NVDLEAIATSCNGYVGADLEALC  237 (441)
Q Consensus       161 ~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~--~~~~~~~-~~~~~~l~~~~~g~~~~~i~~l~  237 (441)
                      .+++||||||.|+.+||++.|+|||+..|+++.|+..+|.+++....  +...... ..++..++..|.||+++|+.+++
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            46999999999999999999999999999999999999999887543  3333332 24689999999999999999999


Q ss_pred             HHHHHHHHHhcccccccccceeeeHhhHHhhhhhc
Q 013506          238 REATMSAVKRSSDANECAGVLSVTMEDWRHARSVV  272 (441)
Q Consensus       238 ~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~  272 (441)
                      ++|+..+..+...        .++..++..+..+.
T Consensus      1851 NEAaliAirq~ks--------~Id~~~I~~Al~Rq 1877 (2281)
T CHL00206       1851 NEALSISITQKKS--------IIDTNTIRSALHRQ 1877 (2281)
T ss_pred             HHHHHHHHHcCCC--------ccCHHHHHHHHHHH
Confidence            9999998887543        46666777666544

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.93  E-value=1.6e-25  Score=185.28  Aligned_cols=157  Identities=36%  Similarity=0.607  Sum_probs=146.1

Q ss_pred             cccccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhh
Q 013506          280 VTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAE  359 (441)
Q Consensus       280 ~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~  359 (441)
                      ...+.|..+|.+++|..+..+.+++.++.++.|..++.++|+.|+.++|++||||||||.+||+.|...+.-|+++-+|+
T Consensus       167 ~veekpdvty~dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrtdacfirvigse  246 (435)
T KOG0729|consen  167 QVEEKPDVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSE  246 (435)
T ss_pred             EeecCCCcccccccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhcccCceEEeehhHH
Confidence            34466788999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEE-EEeee
Q 013506          360 LYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVII-YPISF  436 (441)
Q Consensus       360 ~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~-~~~~~  436 (441)
                      +..+|+|+...-++++|+-|+....|++||||||.+.+.|-+++.+.+...+|-.-+|++.|||+..++.+= ++|||
T Consensus       247 lvqkyvgegarmvrelf~martkkaciiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdprgnikvlmatn  324 (435)
T KOG0729|consen  247 LVQKYVGEGARMVRELFEMARTKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIKVLMATN  324 (435)
T ss_pred             HHHHHhhhhHHHHHHHHHHhcccceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCCCCCeEEEeecC
Confidence            999999999999999999999999999999999999999988888888888999999999999999988654 44554

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.93  E-value=7e-26  Score=186.70  Aligned_cols=147  Identities=30%  Similarity=0.499  Sum_probs=123.0

Q ss_pred             cCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh
Q 013506          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (441)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~  363 (441)
                      .+...++++.|+++.|+..+-.++. +....   +++-+.+.++||+||||||||.+||++|.....+++.++.+++++.
T Consensus       115 ~~~it~ddViGqEeAK~kcrli~~y-LenPe---~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liGe  190 (368)
T COG1223         115 ISDITLDDVIGQEEAKRKCRLIMEY-LENPE---RFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIGE  190 (368)
T ss_pred             hccccHhhhhchHHHHHHHHHHHHH-hhChH---HhcccCcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHHH
Confidence            3456789999999999877654432 33333   4466778899999999999999999999999999999999999999


Q ss_pred             ccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCC-CCeEEEEeee
Q 013506          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ-AKVIIYPISF  436 (441)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~-~~~v~~~~~~  436 (441)
                      |+|+..+.++++|++|+...|||+||||+|.++-.|+.+.-.  +...+++|.||++|||+.. +++|.|.|||
T Consensus       191 hVGdgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelR--GDVsEiVNALLTelDgi~eneGVvtIaaTN  262 (368)
T COG1223         191 HVGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELR--GDVSEIVNALLTELDGIKENEGVVTIAATN  262 (368)
T ss_pred             HhhhHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhc--ccHHHHHHHHHHhccCcccCCceEEEeecC
Confidence            999999999999999999999999999999999988775422  2256899999999999876 5556666666

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=99.93  E-value=5.6e-25  Score=180.45  Aligned_cols=155  Identities=40%  Similarity=0.656  Sum_probs=144.8

Q ss_pred             ccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh
Q 013506          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (441)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~  362 (441)
                      ..|..+|+.++|++...+.+.+.++.+.+|...+..+|+..+.++||+||||||||-+|++.|+...+.|++++++++..
T Consensus       140 KvPDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht~c~firvsgselvq  219 (404)
T KOG0728|consen  140 KVPDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSELVQ  219 (404)
T ss_pred             hCCccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhcceEEEEechHHHHH
Confidence            45667899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCe-EEEEeeee
Q 013506          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKV-IIYPISFI  437 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~-v~~~~~~~  437 (441)
                      +|+|+...-++++|--|+...|+++|+||||++.+.|..++.+.++..+|-.-+||+.||||+.... -+|+|||-
T Consensus       220 k~igegsrmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnr  295 (404)
T KOG0728|consen  220 KYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNR  295 (404)
T ss_pred             HHhhhhHHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEEEeccc
Confidence            9999999999999999999999999999999999999988888888889999999999999998654 56667764

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=99.93  E-value=4.3e-25  Score=182.23  Aligned_cols=153  Identities=35%  Similarity=0.629  Sum_probs=142.5

Q ss_pred             cCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh
Q 013506          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (441)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~  363 (441)
                      .|...|.+++|++...+.+.+.+..++.|..++..+++.|+.++|+|||||||||.+||++|...+..|+.+.++.+..+
T Consensus       165 kPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQLVQM  244 (424)
T KOG0652|consen  165 KPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQLVQM  244 (424)
T ss_pred             CCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHHHhh
Confidence            45567999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      |+|+..+-++..|.-|....|+++||||+|.+..+|-++....+...+|-.-+||+.|||+.+...|=|+|+|
T Consensus       245 fIGdGAkLVRDAFaLAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vKviAAT  317 (424)
T KOG0652|consen  245 FIGDGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVKVIAAT  317 (424)
T ss_pred             hhcchHHHHHHHHHHhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCccceEEEeec
Confidence            9999999999999999999999999999999999998876666677788899999999999998888777765

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=99.92  E-value=1.6e-24  Score=200.16  Aligned_cols=154  Identities=41%  Similarity=0.671  Sum_probs=138.5

Q ss_pred             ccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh
Q 013506          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (441)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~  362 (441)
                      +.|...|.+++|++..++.+.+.+.+++.+...+.++++.++.++||+||||||||++|+++|..++.+++.+.++++..
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            35677899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCe-EEEEeee
Q 013506          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKV-IIYPISF  436 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~-v~~~~~~  436 (441)
                      +|+|+++..++.+|..|+...|+||||||+|.+++.|.+..++.+....+++.+||+.||++..... ++|++||
T Consensus       218 k~~ge~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN  292 (398)
T PTZ00454        218 KYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATN  292 (398)
T ss_pred             HhcchhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecC
Confidence            9999999999999999999999999999999999888665555555678899999999999877544 4555555

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]

Probab=99.92  E-value=1.3e-24  Score=182.13  Aligned_cols=154  Identities=36%  Similarity=0.607  Sum_probs=141.7

Q ss_pred             cCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh
Q 013506          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (441)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~  363 (441)
                      .|..+|.+++|++...+.+.+.++.++.|...+..+|+.|+.+++|+|+||||||-||++.|......|+++.+++++.+
T Consensus       179 aP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemGikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQk  258 (440)
T KOG0726|consen  179 APQETYADIGGLESQIQEIKESVELPLTHPEYYEEMGIKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQK  258 (440)
T ss_pred             CchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcCCCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHHH
Confidence            46678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCe-EEEEeeee
Q 013506          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKV-IIYPISFI  437 (441)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~-v~~~~~~~  437 (441)
                      |.|+..+-++++|+.|....|+++||||||.+...|=+.+++.....+|-.-+||+.||||..++- =+|+|||-
T Consensus       259 ylGdGpklvRqlF~vA~e~apSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGFdsrgDvKvimATnr  333 (440)
T KOG0726|consen  259 YLGDGPKLVRELFRVAEEHAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIMATNR  333 (440)
T ss_pred             HhccchHHHHHHHHHHHhcCCceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccCccccCCeEEEEeccc
Confidence            999999999999999999999999999999999999776666666677888899999999999664 46667764

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=99.92  E-value=1.8e-24  Score=207.24  Aligned_cols=150  Identities=42%  Similarity=0.668  Sum_probs=136.6

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhcc
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYV  365 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~  365 (441)
                      ...|.++.|++++|+.|.+++.. +++...+.++|...++++||+||||||||.|||++|.+.+.||+.++++++..+++
T Consensus       307 ~V~FkDVAG~deAK~El~E~V~f-LKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFvE~~~  385 (774)
T KOG0731|consen  307 GVKFKDVAGVDEAKEELMEFVKF-LKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFVEMFV  385 (774)
T ss_pred             CCccccccCcHHHHHHHHHHHHH-hcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHHHHhc
Confidence            46799999999999999999985 88999999999999999999999999999999999999999999999999999999


Q ss_pred             CchHHHHHHHHHHHHhcCCeEEEEecccccccccCC-CCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          366 GESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGG-SSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       366 g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~-~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      |.....++.+|..|+...||++|+||||.+...|++ ...+.++....-+|+||.+|||+...+.|||+|+|
T Consensus       386 g~~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~t  457 (774)
T KOG0731|consen  386 GVGASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAAT  457 (774)
T ss_pred             ccchHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEecc
Confidence            999999999999999999999999999999999953 22234444566799999999999999878888776

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=99.90  E-value=1.7e-23  Score=194.80  Aligned_cols=155  Identities=44%  Similarity=0.706  Sum_probs=137.6

Q ss_pred             ccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh
Q 013506          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (441)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~  362 (441)
                      ..+...|++++|++..++.+.+.+..++.+...+..++..++.++||+||||||||++|+++|..++.+++.+.++++..
T Consensus       124 ~~p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~~  203 (389)
T PRK03992        124 ESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQ  203 (389)
T ss_pred             CCCCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHhH
Confidence            34567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeE-EEEeeee
Q 013506          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVI-IYPISFI  437 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v-~~~~~~~  437 (441)
                      +|+|+++..++.+|+.|+...|+||||||+|.+++.|++.+.+.+....+.+..||.+++++...+.| ||++||-
T Consensus       204 ~~~g~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~  279 (389)
T PRK03992        204 KFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNR  279 (389)
T ss_pred             hhccchHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCC
Confidence            99999999999999999999999999999999999887655544455678889999999998775554 4455543

>TIGR03689 pup_AAA proteasome ATPase

Probab=99.90  E-value=1.2e-23  Score=197.77  Aligned_cols=152  Identities=41%  Similarity=0.696  Sum_probs=131.0

Q ss_pred             ccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc----------e
Q 013506          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS----------F  352 (441)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~----------~  352 (441)
                      ..|...|.+++|++..++.+.+.+..++.+...+...++.++.++||+||||||||++|+++|..++.+          +
T Consensus       175 ~~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~f  254 (512)
T TIGR03689       175 EVPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYF  254 (512)
T ss_pred             cCCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeE
Confidence            446678999999999999999999999999999999999999999999999999999999999998644          6


Q ss_pred             EEechhhhhhhccCchHHHHHHHHHHHHhc----CCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCC
Q 013506          353 FSLSGAELYSMYVGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK  428 (441)
Q Consensus       353 ~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~----~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  428 (441)
                      +.+..+++.++|+|++++.++.+|+.++..    .|+|+||||+|++++.|+.+.  +++...+++++||++||++...+
T Consensus       255 l~v~~~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~--s~d~e~~il~~LL~~LDgl~~~~  332 (512)
T TIGR03689       255 LNIKGPELLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGV--SSDVETTVVPQLLSELDGVESLD  332 (512)
T ss_pred             EeccchhhcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCc--cchHHHHHHHHHHHHhcccccCC
Confidence            678888999999999999999999998753    689999999999998886532  23445788999999999998865


Q ss_pred             eEEEEeee
Q 013506          429 VIIYPISF  436 (441)
Q Consensus       429 ~v~~~~~~  436 (441)
                      .|+|++||
T Consensus       333 ~ViVI~AT  340 (512)
T TIGR03689       333 NVIVIGAS  340 (512)
T ss_pred             ceEEEecc
Confidence            55555544

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.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.90  E-value=5.7e-22  Score=175.67  Aligned_cols=217  Identities=19%  Similarity=0.248  Sum_probs=155.2

Q ss_pred             ccccccccchHHHHHHHHHHHHhhccCchHHHhcCCC---CCcEEEEEcCCCCcHHHHHHHHHHHh-------CCcEEEE
Q 013506           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLK---WPRGLLLYGPPGTGKTSLVRAVVREC-------GAHLTVI   84 (441)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~---~~~~vll~Gp~GtGKT~l~~~l~~~l-------~~~~~~v   84 (441)
                      |..+++++|++++|+.|.+++.++... ......|..   ...+++|+||||||||++|+.+++.+       ..+++++
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            467899999999999999998775443 333445554   33689999999999999999999875       2357778


Q ss_pred             ccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEE
Q 013506           85 SPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (441)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  164 (441)
                      ++.++...+.++....+..++..+.       ++||||||+|.|....+  .....+.+..++..++....      +++
T Consensus        81 ~~~~l~~~~~g~~~~~~~~~~~~a~-------~~VL~IDE~~~L~~~~~--~~~~~~~i~~Ll~~~e~~~~------~~~  145 (261)
T TIGR02881        81 ERADLVGEYIGHTAQKTREVIKKAL-------GGVLFIDEAYSLARGGE--KDFGKEAIDTLVKGMEDNRN------EFV  145 (261)
T ss_pred             cHHHhhhhhccchHHHHHHHHHhcc-------CCEEEEechhhhccCCc--cchHHHHHHHHHHHHhccCC------CEE
Confidence            8888888788887777777776543       57999999999864221  22344667778888776432      355


Q ss_pred             EEEEcCCC-----CccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHH---------CCCCC
Q 013506          165 VVASTNRV-----DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATS---------CNGYV  229 (441)
Q Consensus       165 vi~~~~~~-----~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~---------~~g~~  229 (441)
                      +++++.+.     ..++|++.+  ||...+.|++++.+++.+|++.++.......+.+ +..+...         ....+
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            55554332     246789998  9988899999999999999999887765443322 2333221         12346


Q ss_pred             HHHHHHHHHHHHHHHHHhcc
Q 013506          230 GADLEALCREATMSAVKRSS  249 (441)
Q Consensus       230 ~~~i~~l~~~a~~~~~~~~~  249 (441)
                      ++.++++++.+......+..
T Consensus       224 ~R~~~n~~e~a~~~~~~r~~  243 (261)
T TIGR02881       224 ARYVRNIIEKAIRRQAVRLL  243 (261)
T ss_pred             HHHHHHHHHHHHHHHHHHHh
Confidence            78888888888777665543

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.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.90  E-value=4.8e-22  Score=177.01  Aligned_cols=219  Identities=21%  Similarity=0.269  Sum_probs=162.0

Q ss_pred             ccccc-cccchHHHHHHHHHHHHhhccCchHHHhcCCCC---CcEEEEEcCCCCcHHHHHHHHHHHhC-------CcEEE
Q 013506           15 WKAEE-AIGGNRAAVEALRELITFPLLYSSQAQKLGLKW---PRGLLLYGPPGTGKTSLVRAVVRECG-------AHLTV   83 (441)
Q Consensus        15 ~~~~~-~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---~~~vll~Gp~GtGKT~l~~~l~~~l~-------~~~~~   83 (441)
                      ...++ +++|++++|++|.+++.+ ...++.+.+.|+.+   +.+++|+||||||||++|+.++..+.       .+++.
T Consensus        17 ~~~l~~~l~Gl~~vk~~i~e~~~~-~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~   95 (284)
T TIGR02880        17 LDQLDRELIGLKPVKTRIREIAAL-LLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVS   95 (284)
T ss_pred             HHHHHHhccCHHHHHHHHHHHHHH-HHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEE
Confidence            35666 699999999999998877 55667777788764   45899999999999999999888762       26888


Q ss_pred             EccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           84 ISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        84 v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      +++.++...+.+.....+..+++.+.       +++|||||++.+.+... ......+.+..|+..++...      .++
T Consensus        96 v~~~~l~~~~~g~~~~~~~~~~~~a~-------~gvL~iDEi~~L~~~~~-~~~~~~~~~~~Ll~~le~~~------~~~  161 (284)
T TIGR02880        96 VTRDDLVGQYIGHTAPKTKEILKRAM-------GGVLFIDEAYYLYRPDN-ERDYGQEAIEILLQVMENQR------DDL  161 (284)
T ss_pred             ecHHHHhHhhcccchHHHHHHHHHcc-------CcEEEEechhhhccCCC-ccchHHHHHHHHHHHHhcCC------CCE
Confidence            88877776666766666666666543       67999999998864322 22334567788888887543      256


Q ss_pred             EEEEEcCCC--C---ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHH-------CCCCCH
Q 013506          164 VVVASTNRV--D---AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATS-------CNGYVG  230 (441)
Q Consensus       164 ~vi~~~~~~--~---~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~-------~~g~~~  230 (441)
                      ++|++++..  +   .++|++.+  ||...+.||+++.+++..|+..++.+.....+.+ ...+...       ...-+.
T Consensus       162 ~vI~a~~~~~~~~~~~~np~L~s--R~~~~i~fp~l~~edl~~I~~~~l~~~~~~l~~~a~~~L~~~l~~~~~~~~~GN~  239 (284)
T TIGR02880       162 VVILAGYKDRMDSFFESNPGFSS--RVAHHVDFPDYSEAELLVIAGLMLKEQQYRFSAEAEEAFADYIALRRTQPHFANA  239 (284)
T ss_pred             EEEEeCCcHHHHHHHhhCHHHHh--hCCcEEEeCCcCHHHHHHHHHHHHHHhccccCHHHHHHHHHHHHHhCCCCCCChH
Confidence            777776543  2   35899999  9998999999999999999999988765433322 3333332       223468


Q ss_pred             HHHHHHHHHHHHHHHHhccc
Q 013506          231 ADLEALCREATMSAVKRSSD  250 (441)
Q Consensus       231 ~~i~~l~~~a~~~~~~~~~~  250 (441)
                      +.++++++.+......|...
T Consensus       240 R~lrn~ve~~~~~~~~r~~~  259 (284)
T TIGR02880       240 RSIRNAIDRARLRQANRLFC  259 (284)
T ss_pred             HHHHHHHHHHHHHHHHHHhc
Confidence            99999999988877766643

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.

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=99.89  E-value=3.7e-23  Score=192.04  Aligned_cols=153  Identities=37%  Similarity=0.647  Sum_probs=136.0

Q ss_pred             cCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh
Q 013506          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (441)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~  363 (441)
                      .|..+|.+++|++..++.+.+.+..++.+...+..+++.++.++||+||||||||++|+++|..++.+++.+..+++.++
T Consensus       177 ~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~~k  256 (438)
T PTZ00361        177 APLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQK  256 (438)
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhhhh
Confidence            45678999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCC-CeEEEEeee
Q 013506          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQA-KVIIYPISF  436 (441)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~-~~v~~~~~~  436 (441)
                      |+|+++..++.+|..|....|+|+||||+|.++..|....++.+....+.+..||+.||++... +++||++||
T Consensus       257 ~~Ge~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATN  330 (438)
T PTZ00361        257 YLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATN  330 (438)
T ss_pred             hcchHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecC
Confidence            9999999999999999999999999999999998887554444444577889999999998654 455666665

>CHL00181 cbbX CbbX; Provisional

Probab=99.89  E-value=8.6e-22  Score=175.02  Aligned_cols=218  Identities=20%  Similarity=0.278  Sum_probs=157.6

Q ss_pred             cccc-cccchHHHHHHHHHHHHhhccCchHHHhcCCCC---CcEEEEEcCCCCcHHHHHHHHHHHhC-------CcEEEE
Q 013506           16 KAEE-AIGGNRAAVEALRELITFPLLYSSQAQKLGLKW---PRGLLLYGPPGTGKTSLVRAVVRECG-------AHLTVI   84 (441)
Q Consensus        16 ~~~~-~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---~~~vll~Gp~GtGKT~l~~~l~~~l~-------~~~~~v   84 (441)
                      ..|+ +++|++++|++|.+++.+ ....+.+.+.|+.+   +.+++|+||||||||++|++++..+.       .+++.+
T Consensus        19 ~~l~~~l~Gl~~vK~~i~e~~~~-~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v   97 (287)
T CHL00181         19 DILDEELVGLAPVKTRIREIAAL-LLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTV   97 (287)
T ss_pred             HHHHHhcCCcHHHHHHHHHHHHH-HHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEe
Confidence            4454 799999999999998876 34456667777654   45799999999999999999988752       357888


Q ss_pred             ccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEE
Q 013506           85 SPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (441)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  164 (441)
                      +..++...+.+........++..+.       ++||||||++.+..... ......+.+..|+..++...      .+++
T Consensus        98 ~~~~l~~~~~g~~~~~~~~~l~~a~-------ggVLfIDE~~~l~~~~~-~~~~~~e~~~~L~~~me~~~------~~~~  163 (287)
T CHL00181         98 TRDDLVGQYIGHTAPKTKEVLKKAM-------GGVLFIDEAYYLYKPDN-ERDYGSEAIEILLQVMENQR------DDLV  163 (287)
T ss_pred             cHHHHHHHHhccchHHHHHHHHHcc-------CCEEEEEccchhccCCC-ccchHHHHHHHHHHHHhcCC------CCEE
Confidence            8877777677766666666665542       67999999999864322 22345677888888887543      2467


Q ss_pred             EEEEcCCCC-----ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHH----HC--CC-CCHH
Q 013506          165 VVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIAT----SC--NG-YVGA  231 (441)
Q Consensus       165 vi~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~----~~--~g-~~~~  231 (441)
                      +|++++...     .++|.+.+  ||...+.|++|+.+++.+|+..++.+........ ...+..    ..  .. -+++
T Consensus       164 vI~ag~~~~~~~~~~~np~L~s--R~~~~i~F~~~t~~el~~I~~~~l~~~~~~l~~~~~~~L~~~i~~~~~~~~~GNaR  241 (287)
T CHL00181        164 VIFAGYKDRMDKFYESNPGLSS--RIANHVDFPDYTPEELLQIAKIMLEEQQYQLTPEAEKALLDYIKKRMEQPLFANAR  241 (287)
T ss_pred             EEEeCCcHHHHHHHhcCHHHHH--hCCceEEcCCcCHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHhCCCCCCccHH
Confidence            777765421     44699999  9999999999999999999999987765433222 222222    11  22 3489


Q ss_pred             HHHHHHHHHHHHHHHhccc
Q 013506          232 DLEALCREATMSAVKRSSD  250 (441)
Q Consensus       232 ~i~~l~~~a~~~~~~~~~~  250 (441)
                      .++++++.+......|...
T Consensus       242 ~vrn~ve~~~~~~~~r~~~  260 (287)
T CHL00181        242 SVRNALDRARMRQANRIFE  260 (287)
T ss_pred             HHHHHHHHHHHHHHHHHHc
Confidence            9999999988877776654

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

Probab=99.89  E-value=3.8e-23  Score=194.89  Aligned_cols=152  Identities=38%  Similarity=0.628  Sum_probs=134.6

Q ss_pred             cCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh
Q 013506          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (441)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~  363 (441)
                      .....+.++.|.++.|+.+.+.+.. ++...++..+|..-+.+++|+||||||||.+||++|.+.+-|++.+++|++..+
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            3456789999999999999999885 666677777788889999999999999999999999999999999999999999


Q ss_pred             ccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      |+|-....+|.+|.+|++..||++||||+|.+...|+.+-.+.....+..+|+||.+|||+.....|+++|+|
T Consensus       223 fVGvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~~~gviviaaT  295 (596)
T COG0465         223 FVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGGNEGVIVIAAT  295 (596)
T ss_pred             hcCCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCCCCceEEEecC
Confidence            9999999999999999999999999999999999997654455566677899999999999976666666554

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=99.89  E-value=8e-23  Score=197.30  Aligned_cols=153  Identities=40%  Similarity=0.672  Sum_probs=133.8

Q ss_pred             ccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh
Q 013506          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (441)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~  362 (441)
                      ..+..+|++++|++.+++.+.+.+.. +.+...+...+..++.++||+||||||||++|+++|..++.+++.++.+++.+
T Consensus        48 ~~~~~~~~di~g~~~~k~~l~~~~~~-l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~  126 (495)
T TIGR01241        48 EKPKVTFKDVAGIDEAKEELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVE  126 (495)
T ss_pred             CCCCCCHHHhCCHHHHHHHHHHHHHH-HHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHHHHH
Confidence            34567899999999999999988875 67777777778888899999999999999999999999999999999999999


Q ss_pred             hccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .|.|.+++.++.+|+.|....|+||||||+|.+++.|+....+.+....+++++||++||++.+...|+|++||
T Consensus       127 ~~~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aT  200 (495)
T TIGR01241       127 MFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAAT  200 (495)
T ss_pred             HHhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEec
Confidence            99999999999999999999999999999999999887643344455678999999999999876666665554

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.

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=99.89  E-value=1.8e-22  Score=177.82  Aligned_cols=103  Identities=22%  Similarity=0.221  Sum_probs=91.0

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCchHHHHHHHHHHHHh-----cCCeEEEEeccc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARL-----AAPSIIFFDEAD  393 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~-----~~~~vl~iDE~d  393 (441)
                      .++.++.+++|+||||||||.+|+++|..++.+++.++++++.++|+|++++.++++|..|..     ..||||||||||
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            467889999999999999999999999999999999999999999999999999999999975     469999999999


Q ss_pred             ccccccCCCCCCCcchhhHH-HHHHHHHhcCC
Q 013506          394 VVGAKRGGSSSTSITVGERL-LSTLLTEMDGL  424 (441)
Q Consensus       394 ~~~~~r~~~~~~~~~~~~~~-~~~ll~~l~~~  424 (441)
                      ++++.|+.   ++.+...++ ..+||+.||+.
T Consensus       223 A~~g~r~~---~~~tv~~qiV~~tLLnl~D~p  251 (413)
T PLN00020        223 AGAGRFGT---TQYTVNNQMVNGTLMNIADNP  251 (413)
T ss_pred             hcCCCCCC---CCcchHHHHHHHHHHHHhcCC
Confidence            99999873   233444455 48999999873

>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=99.88  E-value=1.1e-21  Score=161.72  Aligned_cols=192  Identities=25%  Similarity=0.364  Sum_probs=126.5

Q ss_pred             ccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccc
Q 013506           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (441)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~   94 (441)
                      +..|++++||+++++.+.-++......        -.+..+++||||||+||||+|+.+|++++.++..+++..+..   
T Consensus        20 P~~L~efiGQ~~l~~~l~i~i~aa~~r--------~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k---   88 (233)
T PF05496_consen   20 PKSLDEFIGQEHLKGNLKILIRAAKKR--------GEALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEK---   88 (233)
T ss_dssp             -SSCCCS-S-HHHHHHHHHHHHHHHCT--------TS---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--S---
T ss_pred             CCCHHHccCcHHHHhhhHHHHHHHHhc--------CCCcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhh---
Confidence            378899999999999988776432111        123468999999999999999999999999998887754322   


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----C-------CCCCe
Q 013506           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----K-------TSVPH  162 (441)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~-------~~~~~  162 (441)
                         ...+..++...      .++.||||||+|.+          +....+.|+..++.....     .       -..+.
T Consensus        89 ---~~dl~~il~~l------~~~~ILFIDEIHRl----------nk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~  149 (233)
T PF05496_consen   89 ---AGDLAAILTNL------KEGDILFIDEIHRL----------NKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPP  149 (233)
T ss_dssp             ---CHHHHHHHHT--------TT-EEEECTCCC------------HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE---
T ss_pred             ---HHHHHHHHHhc------CCCcEEEEechhhc----------cHHHHHHHHHHhccCeEEEEeccccccceeeccCCC
Confidence               12233333222      24689999999998          556788888988864321     1       12356


Q ss_pred             EEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHH
Q 013506          163 VVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVGADLEALCRE  239 (441)
Q Consensus       163 ~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~  239 (441)
                      +.+|++|+....+++.++.  ||.....+..|+.+++.+|+......+....+.+ ...++.++.| +++-..++++.
T Consensus       150 FTligATTr~g~ls~pLrd--RFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~i~~~~~~~Ia~rsrG-tPRiAnrll~r  224 (233)
T PF05496_consen  150 FTLIGATTRAGLLSSPLRD--RFGIVLRLEFYSEEELAKIVKRSARILNIEIDEDAAEEIARRSRG-TPRIANRLLRR  224 (233)
T ss_dssp             -EEEEEESSGCCTSHCCCT--TSSEEEE----THHHHHHHHHHCCHCTT-EE-HHHHHHHHHCTTT-SHHHHHHHHHH
T ss_pred             ceEeeeeccccccchhHHh--hcceecchhcCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHhcCC-ChHHHHHHHHH
Confidence            8999999999999999998  9998889999999999999998877777664444 6777777775 45655555443

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.

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.87  E-value=2.9e-22  Score=174.49  Aligned_cols=148  Identities=35%  Similarity=0.539  Sum_probs=134.7

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhc-CCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhc
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRL-GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~-~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~  364 (441)
                      ..+|.+++|++.+++++.+.+..++.+...+... ...|..++||+||||||||.+|+++|...++.++.+.++.+.++|
T Consensus        88 ~v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s~lt~KW  167 (386)
T KOG0737|consen   88 GVSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVSNLTSKW  167 (386)
T ss_pred             eeehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcceeeccccchhh
Confidence            4579999999999999999999999999888543 456788999999999999999999999999999999999999999


Q ss_pred             cCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCe--EEEEeee
Q 013506          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKV--IIYPISF  436 (441)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~--v~~~~~~  436 (441)
                      .|+.++.++.+|.-|..-.|+++||||+|+++..|+   ++.++....+-++|....||+.....  |+|+|||
T Consensus       168 fgE~eKlv~AvFslAsKl~P~iIFIDEvds~L~~R~---s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVlgAT  238 (386)
T KOG0737|consen  168 FGEAQKLVKAVFSLASKLQPSIIFIDEVDSFLGQRR---STDHEATAMMKNEFMALWDGLSSKDSERVLVLGAT  238 (386)
T ss_pred             HHHHHHHHHHHHhhhhhcCcceeehhhHHHHHhhcc---cchHHHHHHHHHHHHHHhccccCCCCceEEEEeCC
Confidence            999999999999999999999999999999999883   45677788889999999999988664  8998886

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=99.87  E-value=1.3e-21  Score=165.80  Aligned_cols=152  Identities=35%  Similarity=0.595  Sum_probs=140.9

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccC
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVG  366 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g  366 (441)
                      .+|+.++|....-..+.+.+..++.....+.++++.||.+++++||||+|||.+|+++|..++.+++.+..+.+.++|+|
T Consensus       129 ~s~~~~ggl~~qirelre~ielpl~np~lf~rvgIk~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~ss~lv~kyiG  208 (388)
T KOG0651|consen  129 ISFENVGGLFYQIRELREVIELPLTNPELFLRVGIKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVSSALVDKYIG  208 (388)
T ss_pred             cCHHHhCChHHHHHHHHhheEeeccCchhccccCCCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeHhhhhhhhcc
Confidence            46888999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeE-EEEeeeee
Q 013506          367 ESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVI-IYPISFIF  438 (441)
Q Consensus       367 ~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v-~~~~~~~~  438 (441)
                      ++.+-+++.|..|+.-.|||+|+||||.+.++|-.++++.+....|-+=.|+.+|||+..-++| +|.|+|-|
T Consensus       209 EsaRlIRemf~yA~~~~pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~l~rVk~ImatNrp  281 (388)
T KOG0651|consen  209 ESARLIRDMFRYAREVIPCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDTLHRVKTIMATNRP  281 (388)
T ss_pred             cHHHHHHHHHHHHhhhCceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchhcccccEEEecCCc
Confidence            9999999999999999999999999999999998888888888888899999999999886654 66777755

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=99.87  E-value=1.8e-21  Score=180.99  Aligned_cols=154  Identities=44%  Similarity=0.728  Sum_probs=135.4

Q ss_pred             ccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh
Q 013506          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (441)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~  362 (441)
                      ..+...|++++|++..++.+.+++..++.+...+..++..++.+++|+||||||||++|+++|..++.+++.+..+++..
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            34567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCC-CeEEEEeee
Q 013506          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQA-KVIIYPISF  436 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~-~~v~~~~~~  436 (441)
                      .|+|+....++.+|+.++...|+||||||+|.+...|.+...+.+....+.+..+|.+++++... +++||++||
T Consensus       195 ~~~g~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn  269 (364)
T TIGR01242       195 KYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATN  269 (364)
T ss_pred             HhhhHHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecC
Confidence            99999999999999999988999999999999998887654444455678889999999988654 445555555

Many proteins may score above the trusted cutoff because an internal

>CHL00176 ftsH cell division protein; Validated

Probab=99.86  E-value=3.3e-21  Score=187.69  Aligned_cols=150  Identities=39%  Similarity=0.661  Sum_probs=130.5

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhcc
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYV  365 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~  365 (441)
                      ...++++.|++.+++.+.+.+.. +.....+..++..++.++||+||||||||++|+++|..++.+++.++++++...|.
T Consensus       179 ~~~f~dv~G~~~~k~~l~eiv~~-lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~~~~~  257 (638)
T CHL00176        179 GITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFV  257 (638)
T ss_pred             CCCHHhccChHHHHHHHHHHHHH-HhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHHHHhh
Confidence            45789999999999999988765 56666777788888999999999999999999999999999999999999999999


Q ss_pred             CchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          366 GESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       366 g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      |.....++.+|..|....||||||||+|.+...|+.+.++.+......++.||.+||++.....|+|+++|
T Consensus       258 g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaT  328 (638)
T CHL00176        258 GVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAAT  328 (638)
T ss_pred             hhhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEec
Confidence            99999999999999999999999999999998887655455566678999999999998776555555544

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.85  E-value=4.9e-21  Score=173.31  Aligned_cols=148  Identities=41%  Similarity=0.620  Sum_probs=131.1

Q ss_pred             CccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhc
Q 013506          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (441)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~  364 (441)
                      +...|+++.|++.+++.+.+++.++......+.. ...|..++||.||||+|||.+++++|.+.+..++.++.+++.++|
T Consensus       148 ~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~g-lr~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassLtsK~  226 (428)
T KOG0740|consen  148 RNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLG-LREPVRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSLTSKY  226 (428)
T ss_pred             CcccccCCcchhhHHHHhhhhhhhcccchHhhhc-cccccchhheecCCCCchHHHHHHHHhhhcceEeeccHHHhhhhc
Confidence            4467999999999999999999999888777765 345567899999999999999999999999999999999999999


Q ss_pred             cCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCC--CCeEEEEeee
Q 013506          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ--AKVIIYPISF  436 (441)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~--~~~v~~~~~~  436 (441)
                      +|++++.++.+|+-|+...|.|+|+||+|+++..|.+   .....+.|+..++|-.+++...  +++|+|+|||
T Consensus       227 ~Ge~eK~vralf~vAr~~qPsvifidEidslls~Rs~---~e~e~srr~ktefLiq~~~~~s~~~drvlvigaT  297 (428)
T KOG0740|consen  227 VGESEKLVRALFKVARSLQPSVIFIDEIDSLLSKRSD---NEHESSRRLKTEFLLQFDGKNSAPDDRVLVIGAT  297 (428)
T ss_pred             cChHHHHHHHHHHHHHhcCCeEEEechhHHHHhhcCC---cccccchhhhhHHHhhhccccCCCCCeEEEEecC
Confidence            9999999999999999999999999999999999943   4556678999999999999776  4467777665

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.83  E-value=9.4e-21  Score=171.38  Aligned_cols=144  Identities=34%  Similarity=0.515  Sum_probs=119.7

Q ss_pred             ccCch-hHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC-ceEEechhhhhhhccCchH
Q 013506          292 IGGLR-DLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA-SFFSLSGAELYSMYVGESE  369 (441)
Q Consensus       292 i~g~~-~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~-~~~~i~~~~~~~~~~g~~~  369 (441)
                      ++|++ +.....+..+...+-......++|..+-.++||+||||||||-+||.++.+++. +.-.+++++++++|+|++|
T Consensus       223 IGGLd~EFs~IFRRAFAsRvFpp~vie~lGi~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNGPeIL~KYVGeSE  302 (744)
T KOG0741|consen  223 IGGLDKEFSDIFRRAFASRVFPPEVIEQLGIKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNGPEILNKYVGESE  302 (744)
T ss_pred             cccchHHHHHHHHHHHHhhcCCHHHHHHcCccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccCcHHHHHHhhcccH
Confidence            45654 333444555555555667778889999999999999999999999999999964 5678999999999999999


Q ss_pred             HHHHHHHHHHHh--------cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          370 ALLRNTFQRARL--------AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       370 ~~~~~~~~~a~~--------~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      +++|++|+.|..        +.--|++|||+|.++..||..+ ++++..+.++|+||.-|||++.-..|+|+|-|
T Consensus       303 ~NvR~LFaDAEeE~r~~g~~SgLHIIIFDEiDAICKqRGS~~-g~TGVhD~VVNQLLsKmDGVeqLNNILVIGMT  376 (744)
T KOG0741|consen  303 ENVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMA-GSTGVHDTVVNQLLSKMDGVEQLNNILVIGMT  376 (744)
T ss_pred             HHHHHHHHhHHHHHHhhCccCCceEEEehhhHHHHHhcCCCC-CCCCccHHHHHHHHHhcccHHhhhcEEEEecc
Confidence            999999999953        2234999999999999998755 45688999999999999999998888888854

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

Probab=99.83  E-value=2.4e-19  Score=158.16  Aligned_cols=174  Identities=25%  Similarity=0.395  Sum_probs=132.7

Q ss_pred             ccccccccchHHHH---HHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc
Q 013506           15 WKAEEAIGGNRAAV---EALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK   91 (441)
Q Consensus        15 ~~~~~~i~G~~~~~---~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~   91 (441)
                      ..++++++||+...   ..|.+.+..             ..-.+++|||||||||||+|+.++...+..|..+++..   
T Consensus        20 P~~lde~vGQ~HLlg~~~~lrr~v~~-------------~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~---   83 (436)
T COG2256          20 PKSLDEVVGQEHLLGEGKPLRRAVEA-------------GHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVT---   83 (436)
T ss_pred             CCCHHHhcChHhhhCCCchHHHHHhc-------------CCCceeEEECCCCCCHHHHHHHHHHhhCCceEEecccc---
Confidence            36789999999986   345555432             23468999999999999999999999999999998744   


Q ss_pred             ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEc--
Q 013506           92 AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST--  169 (441)
Q Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~--  169 (441)
                          ...+.++.+++++......++..||||||+|.+          +...++.|+..++..        .+++|++|  
T Consensus        84 ----~gvkdlr~i~e~a~~~~~~gr~tiLflDEIHRf----------nK~QQD~lLp~vE~G--------~iilIGATTE  141 (436)
T COG2256          84 ----SGVKDLREIIEEARKNRLLGRRTILFLDEIHRF----------NKAQQDALLPHVENG--------TIILIGATTE  141 (436)
T ss_pred             ----ccHHHHHHHHHHHHHHHhcCCceEEEEehhhhc----------ChhhhhhhhhhhcCC--------eEEEEeccCC
Confidence                345678888888877776788899999999988          445678888888764        47888876  


Q ss_pred             CCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhcc--CCCC-----C-cccHHHHHHHCCCCC
Q 013506          170 NRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK--VPLD-----A-NVDLEAIATSCNGYV  229 (441)
Q Consensus       170 ~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~--~~~~-----~-~~~~~~l~~~~~g~~  229 (441)
                      |+...+++++++  |.. ++.+.+.+.++..+++...+..  ....     . +.....++..+.|-.
T Consensus       142 NPsF~ln~ALlS--R~~-vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~  206 (436)
T COG2256         142 NPSFELNPALLS--RAR-VFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDA  206 (436)
T ss_pred             CCCeeecHHHhh--hhh-eeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchH
Confidence            566799999999  885 8999999999999999873322  2222     1 223566666666643

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]

Probab=99.83  E-value=2.1e-20  Score=184.39  Aligned_cols=149  Identities=38%  Similarity=0.599  Sum_probs=137.3

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcC-----CceEEechhhh
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE-----ASFFSLSGAEL  360 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~-----~~~~~i~~~~~  360 (441)
                      ...|++++|++.+...+.+.+..++.+.+.+.++++.|+.++||+||||||||..|+++|..+.     ..++.-++.+.
T Consensus       261 ~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkgaD~  340 (1080)
T KOG0732|consen  261 SVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFNITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGADC  340 (1080)
T ss_pred             ccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcccCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCchh
Confidence            4679999999999999999999999999999999999999999999999999999999999883     46888889999


Q ss_pred             hhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      +++|+|+.+.+++.+|+.|+...|.|+||||||-++|.|..-   .......++++||.-|||...++.|+|+|+|.
T Consensus       341 lskwvgEaERqlrllFeeA~k~qPSIIffdeIdGlapvrSsk---qEqih~SIvSTLLaLmdGldsRgqVvvigATn  414 (1080)
T KOG0732|consen  341 LSKWVGEAERQLRLLFEEAQKTQPSIIFFDEIDGLAPVRSSK---QEQIHASIVSTLLALMDGLDSRGQVVVIGATN  414 (1080)
T ss_pred             hccccCcHHHHHHHHHHHHhccCceEEeccccccccccccch---HHHhhhhHHHHHHHhccCCCCCCceEEEcccC
Confidence            999999999999999999999999999999999999998542   33445688999999999999999999999984

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

Probab=99.82  E-value=1.1e-18  Score=146.80  Aligned_cols=194  Identities=26%  Similarity=0.359  Sum_probs=144.4

Q ss_pred             ccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccc
Q 013506           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (441)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~   94 (441)
                      .+.|++.+|++++|+.|.-++......        -....|+||+||||.||||+|+.+|++++.++-..++..+..   
T Consensus        22 P~~l~efiGQ~~vk~~L~ifI~AAk~r--------~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~leK---   90 (332)
T COG2255          22 PKTLDEFIGQEKVKEQLQIFIKAAKKR--------GEALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEK---   90 (332)
T ss_pred             cccHHHhcChHHHHHHHHHHHHHHHhc--------CCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccccccC---
Confidence            477899999999999999888542221        134578999999999999999999999999888777765432   


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCC------------CCCCCCCe
Q 013506           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK------------PSKTSVPH  162 (441)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~------------~~~~~~~~  162 (441)
                         ...+..++...      ...+||||||||.+.+          .+-..|+..++...            ...-..+.
T Consensus        91 ---~gDlaaiLt~L------e~~DVLFIDEIHrl~~----------~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLpp  151 (332)
T COG2255          91 ---PGDLAAILTNL------EEGDVLFIDEIHRLSP----------AVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPP  151 (332)
T ss_pred             ---hhhHHHHHhcC------CcCCeEEEehhhhcCh----------hHHHHhhhhhhheeEEEEEccCCccceEeccCCC
Confidence               22333333322      2478999999999843          34455566665422            11234577


Q ss_pred             EEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHHHH
Q 013506          163 VVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVGADLEALCREAT  241 (441)
Q Consensus       163 ~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~a~  241 (441)
                      +++|++|.+...++..++.  ||..+..+..|+.+++.+|+......+....+.+ ...++.+..|. ++-...++++..
T Consensus       152 FTLIGATTr~G~lt~PLrd--RFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i~~~~a~eIA~rSRGT-PRIAnRLLrRVR  228 (332)
T COG2255         152 FTLIGATTRAGMLTNPLRD--RFGIIQRLEFYTVEELEEIVKRSAKILGIEIDEEAALEIARRSRGT-PRIANRLLRRVR  228 (332)
T ss_pred             eeEeeeccccccccchhHH--hcCCeeeeecCCHHHHHHHHHHHHHHhCCCCChHHHHHHHHhccCC-cHHHHHHHHHHH
Confidence            9999999999999999999  9999999999999999999998887777765544 67778877765 454445555443

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=99.82  E-value=1.1e-17  Score=164.50  Aligned_cols=163  Identities=24%  Similarity=0.356  Sum_probs=109.3

Q ss_pred             cccccch-HHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC----------CcEEEEcc
Q 013506           18 EEAIGGN-RAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG----------AHLTVISP   86 (441)
Q Consensus        18 ~~~i~G~-~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~----------~~~~~v~~   86 (441)
                      ++-++|. ++..+.+.+++..             +.+++-+|+|.||+|||.++.-++....          ..++.++.
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            5677787 6666666666644             3457889999999999999999998762          23445554


Q ss_pred             Cccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEE
Q 013506           87 HSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (441)
Q Consensus        87 ~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  164 (441)
                      ..+.  ..+-++.+.++..+.+.+..   .+.+-|||+||+|-+.......+  .......|...+.+.        .++
T Consensus       252 g~l~aGa~~rge~E~rlk~l~k~v~~---~~~gvILfigelh~lvg~g~~~~--~~d~~nlLkp~L~rg--------~l~  318 (898)
T KOG1051|consen  252 GSLVAGAKRRGEFEERLKELLKEVES---GGGGVILFLGELHWLVGSGSNYG--AIDAANLLKPLLARG--------GLW  318 (898)
T ss_pred             hhcccCcccchHHHHHHHHHHHHHhc---CCCcEEEEecceeeeecCCCcch--HHHHHHhhHHHHhcC--------CeE
Confidence            4322  33455667777777766553   34578999999999876654321  223344444444332        279


Q ss_pred             EEEEcCCCC-----ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhcc
Q 013506          165 VVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK  209 (441)
Q Consensus       165 vi~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~  209 (441)
                      +|++|....     .-+|++.+  ||+ .+.++.|+.+....|+......
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            999876322     34789998  997 6889999988777777655444

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.81  E-value=1.1e-18  Score=153.48  Aligned_cols=214  Identities=25%  Similarity=0.362  Sum_probs=149.4

Q ss_pred             cccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccc
Q 013506           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAH   93 (441)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~   93 (441)
                      +.+.|++++=.-..+..|.++... ..+.+    ..-.+-++|+||||||||||++++.++..-+..+..+.+.++.-. 
T Consensus       350 gk~pl~~ViL~psLe~Rie~lA~a-TaNTK----~h~apfRNilfyGPPGTGKTm~ArelAr~SGlDYA~mTGGDVAPl-  423 (630)
T KOG0742|consen  350 GKDPLEGVILHPSLEKRIEDLAIA-TANTK----KHQAPFRNILFYGPPGTGKTMFARELARHSGLDYAIMTGGDVAPL-  423 (630)
T ss_pred             CCCCcCCeecCHHHHHHHHHHHHH-hcccc----cccchhhheeeeCCCCCCchHHHHHHHhhcCCceehhcCCCcccc-
Confidence            345578888777777777775432 11111    112344789999999999999999999999988877776654322 


Q ss_pred             ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHH-HHHHHHhcCCCCCCCCCeEEEEEEcCCC
Q 013506           94 VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIAS-QLFTLMDSNKPSKTSVPHVVVVASTNRV  172 (441)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~~~~~~~vi~~~~~~  172 (441)
                      -.+....+.++|+++...   .++.+|||||+|..+-....... + +.+. .|..++-+...   ....++++.++|.|
T Consensus       424 G~qaVTkiH~lFDWakkS---~rGLllFIDEADAFLceRnktym-S-EaqRsaLNAlLfRTGd---qSrdivLvlAtNrp  495 (630)
T KOG0742|consen  424 GAQAVTKIHKLFDWAKKS---RRGLLLFIDEADAFLCERNKTYM-S-EAQRSALNALLFRTGD---QSRDIVLVLATNRP  495 (630)
T ss_pred             chHHHHHHHHHHHHHhhc---ccceEEEehhhHHHHHHhchhhh-c-HHHHHHHHHHHHHhcc---cccceEEEeccCCc
Confidence            224456788999988754   35789999999987654432211 1 2222 22222222211   11258999999999


Q ss_pred             CccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc---------------------------ccHHHHHHHC
Q 013506          173 DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN---------------------------VDLEAIATSC  225 (441)
Q Consensus       173 ~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~---------------------------~~~~~l~~~~  225 (441)
                      ..+|.++..  |++.+++||.|..++|.+++..+++++-...+                           ..+...+..+
T Consensus       496 gdlDsAV~D--Ride~veFpLPGeEERfkll~lYlnkyi~~~~~~~~~~~~~~lfkk~sQ~i~l~~~~t~~~~~EaAkkT  573 (630)
T KOG0742|consen  496 GDLDSAVND--RIDEVVEFPLPGEEERFKLLNLYLNKYILKPATSGKPGKWSHLFKKESQRIKLAGFDTGRKCSEAAKKT  573 (630)
T ss_pred             cchhHHHHh--hhhheeecCCCChHHHHHHHHHHHHHHhcCcCCCCCCchhhHHHhhhhheeeeccchHHHHHHHHHHhc
Confidence            999999998  99999999999999999999888776532111                           1166778899


Q ss_pred             CCCCHHHHHHHHHHHHHH
Q 013506          226 NGYVGADLEALCREATMS  243 (441)
Q Consensus       226 ~g~~~~~i~~l~~~a~~~  243 (441)
                      .||++++|..++..+...
T Consensus       574 eGfSGREiakLva~vQAa  591 (630)
T KOG0742|consen  574 EGFSGREIAKLVASVQAA  591 (630)
T ss_pred             cCCcHHHHHHHHHHHHHH
Confidence            999999999988765543

>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=99.81  E-value=8.6e-19  Score=139.42  Aligned_cols=131  Identities=41%  Similarity=0.677  Sum_probs=109.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCC-C
Q 013506           56 LLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-H  134 (441)
Q Consensus        56 vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~-~  134 (441)
                      |+|+||||||||++++.+++.++.+++.+++..+.....+...+.+...+..+....   +|+|+||||+|.+.+... .
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            689999999999999999999999999999999988888888889999998876542   489999999999987762 3


Q ss_pred             CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecC
Q 013506          135 RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTV  193 (441)
Q Consensus       135 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~  193 (441)
                      ........+..++..++.....   ..++++|+++|.++.+++.+.+ +||+..++++.
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            3344567788888888876543   2358999999999999999996 69998888863

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 ....

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.80  E-value=2.9e-18  Score=154.12  Aligned_cols=204  Identities=23%  Similarity=0.312  Sum_probs=152.2

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      .+|+.++=-.+.|+.|.+=+...........+.|.++.++.|||||||||||+++.++|+.++..++-++.......   
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            67888888888999999888887788888999999999999999999999999999999999998887766554322   


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCch--------hhHHHHHHHHHHHhcCCCCCCCCCeEEEEE
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRRE--------QDVRIASQLFTLMDSNKPSKTSVPHVVVVA  167 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~--------~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~  167 (441)
                        . .++.++-...      ..+||+|+|||.-+...+....        ...-.+..|++.+|+.....+.  --++|.
T Consensus       275 --~-dLr~LL~~t~------~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~--ERIivF  343 (457)
T KOG0743|consen  275 --S-DLRHLLLATP------NKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGD--ERIIVF  343 (457)
T ss_pred             --H-HHHHHHHhCC------CCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCC--ceEEEE
Confidence              1 2445444332      3689999999976442221111        1335678899999987655421  357888


Q ss_pred             EcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCC--CCHHHHHH
Q 013506          168 STNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNG--YVGADLEA  235 (441)
Q Consensus       168 ~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g--~~~~~i~~  235 (441)
                      |||..+.|||++.|+||++..+++...+.+....++..++....  ...-+.++.....+  .+++++..
T Consensus       344 TTNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~~~~--~h~L~~eie~l~~~~~~tPA~V~e  411 (457)
T KOG0743|consen  344 TTNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLGIEE--DHRLFDEIERLIEETEVTPAQVAE  411 (457)
T ss_pred             ecCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhcCCCC--CcchhHHHHHHhhcCccCHHHHHH
Confidence            99999999999999999999999999999999999988877533  11123333333322  46666643

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=99.80  E-value=5.1e-19  Score=174.78  Aligned_cols=149  Identities=38%  Similarity=0.643  Sum_probs=125.4

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccC
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVG  366 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g  366 (441)
                      ..+.++.+....++.+.+.+.. ..........+...+.+++|+||||||||++|+++|..++.+++.++++++...|.+
T Consensus       149 ~~~~di~g~~~~~~~l~~i~~~-~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~~~~~~~g  227 (644)
T PRK10733        149 TTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVG  227 (644)
T ss_pred             CcHHHHcCHHHHHHHHHHHHHH-hhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHHhHHhhhc
Confidence            4577888999999988888775 333344445566667789999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          367 ESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       367 ~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .....++.+|..|....||||||||+|.+.+.|+....+......++++.||.+||++.+...|+|++||
T Consensus       228 ~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaT  297 (644)
T PRK10733        228 VGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAAT  297 (644)
T ss_pred             ccHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEec
Confidence            9999999999999999999999999999999887654444556678999999999999876665555554

>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=99.79  E-value=1.9e-18  Score=137.49  Aligned_cols=108  Identities=39%  Similarity=0.624  Sum_probs=95.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCchHHHHHHHHHHHHhcC-CeEEEEecccccccccCCCCCC
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAA-PSIIFFDEADVVGAKRGGSSST  405 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~-~~vl~iDE~d~~~~~r~~~~~~  405 (441)
                      +||+||||||||++|+.+|+.++.+++.++++++.+.+.+++.+.+..+|+.+.... |+|+||||+|.+++..   ...
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            589999999999999999999999999999999998899999999999999998887 9999999999999877   223


Q ss_pred             CcchhhHHHHHHHHHhcCCCCC--CeEEEEeeee
Q 013506          406 SITVGERLLSTLLTEMDGLEQA--KVIIYPISFI  437 (441)
Q Consensus       406 ~~~~~~~~~~~ll~~l~~~~~~--~~v~~~~~~~  437 (441)
                      ......++++.|+..|+.....  ..++|++||-
T Consensus        78 ~~~~~~~~~~~L~~~l~~~~~~~~~~~vI~ttn~  111 (132)
T PF00004_consen   78 SSSFEQRLLNQLLSLLDNPSSKNSRVIVIATTNS  111 (132)
T ss_dssp             SSHHHHHHHHHHHHHHHTTTTTSSSEEEEEEESS
T ss_pred             cccccccccceeeecccccccccccceeEEeeCC
Confidence            5566789999999999998885  3455555553

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 ....

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.77  E-value=1.2e-18  Score=148.74  Aligned_cols=184  Identities=32%  Similarity=0.480  Sum_probs=141.8

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcC-CCCCcEEEEEcCCCCcHHHHHHHHHHHhC---------CcEEEEccCc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLG-LKWPRGLLLYGPPGTGKTSLVRAVVRECG---------AHLTVISPHS   88 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~~vll~Gp~GtGKT~l~~~l~~~l~---------~~~~~v~~~~   88 (441)
                      +.++=-...|+.|-.+....+.+.+..-+-. +...+-+||+||||||||+|++++|.++.         ...++++++.
T Consensus       142 EsLiyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinshs  221 (423)
T KOG0744|consen  142 ESLIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSHS  221 (423)
T ss_pred             HHHhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehhH
Confidence            3444445678888877655444333322211 34557899999999999999999999883         3568899999


Q ss_pred             cccccccchHHHHHHHHHHHHhhhhcCCC--eEEEEccccccccCCC-----CCchhhHHHHHHHHHHHhcCCCCCCCCC
Q 013506           89 VHKAHVGESEKALREAFSQASSHALSGKP--SVVFIDEIDALCPRRD-----HRREQDVRIASQLFTLMDSNKPSKTSVP  161 (441)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~il~iDe~~~l~~~~~-----~~~~~~~~~~~~l~~~~~~~~~~~~~~~  161 (441)
                      +.+.+.++..+.+..+|++....... ++  -.++|||++++...+.     .......++++.++.++|+.+    +.+
T Consensus       222 LFSKWFsESgKlV~kmF~kI~ELv~d-~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK----~~~  296 (423)
T KOG0744|consen  222 LFSKWFSESGKLVAKMFQKIQELVED-RGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLK----RYP  296 (423)
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHhC-CCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhc----cCC
Confidence            99999999999999999887654322 23  3567999999875442     222345588999999999876    456


Q ss_pred             eEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhcc
Q 013506          162 HVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK  209 (441)
Q Consensus       162 ~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~  209 (441)
                      ++++++|+|..+.+|.++..  |-+.+.++.+|+...+.+|++..+..
T Consensus       297 NvliL~TSNl~~siD~AfVD--RADi~~yVG~Pt~~ai~~IlkscieE  342 (423)
T KOG0744|consen  297 NVLILATSNLTDSIDVAFVD--RADIVFYVGPPTAEAIYEILKSCIEE  342 (423)
T ss_pred             CEEEEeccchHHHHHHHhhh--HhhheeecCCccHHHHHHHHHHHHHH
Confidence            89999999999999999998  99999999999999999999876554

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.77  E-value=6.5e-19  Score=150.28  Aligned_cols=151  Identities=27%  Similarity=0.364  Sum_probs=111.4

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhc-CCCCCceEEEECCCCCcHHHHHHHHHHHcC---------CceEEech
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRL-GISPVRGALLHGPPGCSKTTLAKAAAHAAE---------ASFFSLSG  357 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~-~~~~~~~~ll~Gp~GtGKTtla~~la~~~~---------~~~~~i~~  357 (441)
                      -|+.+.--..+|+.+..+....+...+....- .+.-.+-+|+.||||||||+++|++|+.+.         ..+++++.
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            35555555678888887776444433222211 112244579999999999999999999883         46899999


Q ss_pred             hhhhhhccCchHHHHHHHHHHHHh-----cCCeEEEEecccccccccC-CCCCCCcchhhHHHHHHHHHhcCCCCCCeEE
Q 013506          358 AELYSMYVGESEALLRNTFQRARL-----AAPSIIFFDEADVVGAKRG-GSSSTSITVGERLLSTLLTEMDGLEQAKVII  431 (441)
Q Consensus       358 ~~~~~~~~g~~~~~~~~~~~~a~~-----~~~~vl~iDE~d~~~~~r~-~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~  431 (441)
                      ..++++|.+++.+.+.++|++...     +.-..++|||+++++..|. ..+.+..+.+-|++|+||++||.+.....|+
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            999999999999999999999853     2334788999999999883 2333344446799999999999998866665


Q ss_pred             EEe-eeee
Q 013506          432 YPI-SFIF  438 (441)
Q Consensus       432 ~~~-~~~~  438 (441)
                      +++ |||-
T Consensus       300 iL~TSNl~  307 (423)
T KOG0744|consen  300 ILATSNLT  307 (423)
T ss_pred             EEeccchH
Confidence            555 5553

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.77  E-value=4.5e-17  Score=151.25  Aligned_cols=187  Identities=19%  Similarity=0.243  Sum_probs=134.7

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..|++++|++.+++.|..++...            ..++.+||+||+||||||+|+.+|+.++..               
T Consensus        15 ~~f~dvVGQe~iv~~L~~~i~~~------------ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC~   82 (484)
T PRK14956         15 QFFRDVIHQDLAIGALQNALKSG------------KIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSCL   82 (484)
T ss_pred             CCHHHHhChHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHHH
Confidence            68899999999999999987541            234569999999999999999999998653               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               ++++++..      ......++.+..........++..|+||||+|.|          +....+.|+..++
T Consensus        83 ~i~~g~~~dviEIdaas------~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~L----------s~~A~NALLKtLE  146 (484)
T PRK14956         83 EITKGISSDVLEIDAAS------NRGIENIRELRDNVKFAPMGGKYKVYIIDEVHML----------TDQSFNALLKTLE  146 (484)
T ss_pred             HHHccCCccceeechhh------cccHHHHHHHHHHHHhhhhcCCCEEEEEechhhc----------CHHHHHHHHHHhh
Confidence                     12222211      1112334444444443333456789999999988          4467888888887


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~  230 (441)
                      ...      .++++|.+|+.+..+.+.+++  |+. .+.|..++.++..+.++..+.......+. .+..++....|- .
T Consensus       147 EPp------~~viFILaTte~~kI~~TI~S--RCq-~~~f~~ls~~~i~~~L~~i~~~Egi~~e~eAL~~Ia~~S~Gd-~  216 (484)
T PRK14956        147 EPP------AHIVFILATTEFHKIPETILS--RCQ-DFIFKKVPLSVLQDYSEKLCKIENVQYDQEGLFWIAKKGDGS-V  216 (484)
T ss_pred             cCC------CceEEEeecCChhhccHHHHh--hhh-eeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCh-H
Confidence            632      368888889989999999999  885 79999999999999999888766554333 367777777754 5


Q ss_pred             HHHHHHHHHH
Q 013506          231 ADLEALCREA  240 (441)
Q Consensus       231 ~~i~~l~~~a  240 (441)
                      |+.-.+++.+
T Consensus       217 RdAL~lLeq~  226 (484)
T PRK14956        217 RDMLSFMEQA  226 (484)
T ss_pred             HHHHHHHHHH
Confidence            5555555543

>CHL00181 cbbX CbbX; Provisional

Probab=99.75  E-value=6.4e-18  Score=150.30  Aligned_cols=136  Identities=20%  Similarity=0.359  Sum_probs=103.8

Q ss_pred             ccccCchhHHHHHHHHHhcccCCchhhhhcCCC---CCceEEEECCCCCcHHHHHHHHHHHc-------CCceEEechhh
Q 013506          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGIS---PVRGALLHGPPGCSKTTLAKAAAHAA-------EASFFSLSGAE  359 (441)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~---~~~~~ll~Gp~GtGKTtla~~la~~~-------~~~~~~i~~~~  359 (441)
                      .+++|++.+|+++.+++.+.. ......+.+..   ++.|++|+||||||||++|+++|..+       ..+++.++.++
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~~~-~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~  101 (287)
T CHL00181         23 EELVGLAPVKTRIREIAALLL-IDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDD  101 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHHHH-HHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHH
Confidence            468999999999999887632 23333344443   34579999999999999999999976       23689999999


Q ss_pred             hhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEee
Q 013506          360 LYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPIS  435 (441)
Q Consensus       360 ~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~  435 (441)
                      +.+.|+|+++..++.+++.+.   ++||||||+|.+...++     ..+++.+++++|++.|++..+. .+||+++
T Consensus       102 l~~~~~g~~~~~~~~~l~~a~---ggVLfIDE~~~l~~~~~-----~~~~~~e~~~~L~~~me~~~~~-~~vI~ag  168 (287)
T CHL00181        102 LVGQYIGHTAPKTKEVLKKAM---GGVLFIDEAYYLYKPDN-----ERDYGSEAIEILLQVMENQRDD-LVVIFAG  168 (287)
T ss_pred             HHHHHhccchHHHHHHHHHcc---CCEEEEEccchhccCCC-----ccchHHHHHHHHHHHHhcCCCC-EEEEEeC
Confidence            999999999888888888864   35999999999875332     2345689999999999975433 3444443

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.75  E-value=2.1e-16  Score=144.33  Aligned_cols=192  Identities=26%  Similarity=0.368  Sum_probs=131.9

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~   96 (441)
                      +|++++|++++++.|..++......        -..+.+++|+||||||||++++.++..++..+..+.+.....     
T Consensus         2 ~~~~~iG~~~~~~~l~~~l~~~~~~--------~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~~-----   68 (305)
T TIGR00635         2 LLAEFIGQEKVKEQLQLFIEAAKMR--------QEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEK-----   68 (305)
T ss_pred             CHHHHcCHHHHHHHHHHHHHHHHhc--------CCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhcC-----
Confidence            5689999999999999887532111        123467999999999999999999999988766655432211     


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC------------CCCCCeEE
Q 013506           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS------------KTSVPHVV  164 (441)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~------------~~~~~~~~  164 (441)
                       ...+...+..      ...+.+|||||++.+.+          .....++..++.....            ....+.+.
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      12467999999998742          2334455555432210            11224478


Q ss_pred             EEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCHHHHHHHHHHHH
Q 013506          165 VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVGADLEALCREAT  241 (441)
Q Consensus       165 vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~~~i~~l~~~a~  241 (441)
                      ++++++.+..+++++.+  ||...+.+++|+.+++.++++..........+. .+..++..+.|.. +.+..+++.+.
T Consensus       132 li~~t~~~~~l~~~l~s--R~~~~~~l~~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~p-R~~~~ll~~~~  206 (305)
T TIGR00635       132 LVGATTRAGMLTSPLRD--RFGIILRLEFYTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTP-RIANRLLRRVR  206 (305)
T ss_pred             EEEecCCccccCHHHHh--hcceEEEeCCCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCc-chHHHHHHHHH
Confidence            88889999999999998  998788999999999999999887765544332 3677888888765 55556666543

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.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.75  E-value=1e-17  Score=149.30  Aligned_cols=126  Identities=23%  Similarity=0.386  Sum_probs=101.4

Q ss_pred             cccCchhHHHHHHHHHhcccCCchhhhhcCCC---CCceEEEECCCCCcHHHHHHHHHHHcC-------CceEEechhhh
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGIS---PVRGALLHGPPGCSKTTLAKAAAHAAE-------ASFFSLSGAEL  360 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~---~~~~~ll~Gp~GtGKTtla~~la~~~~-------~~~~~i~~~~~  360 (441)
                      .++|++.+|+++.+.+.+ +.......+.|+.   ++.|++|+||||||||++|+++|..+.       .+++.++.+++
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            589999999999998876 4444444455655   355899999999999999999988772       36899999999


Q ss_pred             hhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCC
Q 013506          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE  425 (441)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~  425 (441)
                      .+.|+|+++.+++.+|+.|..   +||||||++.+.+.++     ...++.++.+.|++.|+...
T Consensus       102 ~~~~~g~~~~~~~~~~~~a~~---gvL~iDEi~~L~~~~~-----~~~~~~~~~~~Ll~~le~~~  158 (284)
T TIGR02880       102 VGQYIGHTAPKTKEILKRAMG---GVLFIDEAYYLYRPDN-----ERDYGQEAIEILLQVMENQR  158 (284)
T ss_pred             hHhhcccchHHHHHHHHHccC---cEEEEechhhhccCCC-----ccchHHHHHHHHHHHHhcCC
Confidence            999999999889999998743   5999999999875432     23456789999999998654

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.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.74  E-value=2.7e-16  Score=144.32  Aligned_cols=195  Identities=25%  Similarity=0.350  Sum_probs=136.1

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      ..+++++|+++.++.+..++.....        .-.++.+++|+||||||||++++.+++.++..+..+++..+..    
T Consensus        22 ~~~~~~vG~~~~~~~l~~~l~~~~~--------~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~~----   89 (328)
T PRK00080         22 KSLDEFIGQEKVKENLKIFIEAAKK--------RGEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEK----   89 (328)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHHh--------cCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccccC----
Confidence            6789999999999999988753111        1134578999999999999999999999998877665543221    


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC------------CCCCCeE
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS------------KTSVPHV  163 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~------------~~~~~~~  163 (441)
                        ...+...+...      ..+++|||||+|.+.+          .....+...++.....            ....+.+
T Consensus        90 --~~~l~~~l~~l------~~~~vl~IDEi~~l~~----------~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~  151 (328)
T PRK00080         90 --PGDLAAILTNL------EEGDVLFIDEIHRLSP----------VVEEILYPAMEDFRLDIMIGKGPAARSIRLDLPPF  151 (328)
T ss_pred             --hHHHHHHHHhc------ccCCEEEEecHhhcch----------HHHHHHHHHHHhcceeeeeccCccccceeecCCCc
Confidence              12233333221      2478999999998732          1223344444432110            0122457


Q ss_pred             EEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCHHHHHHHHHHHHH
Q 013506          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       164 ~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                      .+|++++....+++++.+  ||...+.+++|+.+++.++++..........+. .+..++..+.|.. +.+..+++.+..
T Consensus       152 ~li~at~~~~~l~~~L~s--Rf~~~~~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~p-R~a~~~l~~~~~  228 (328)
T PRK00080        152 TLIGATTRAGLLTSPLRD--RFGIVQRLEFYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTP-RIANRLLRRVRD  228 (328)
T ss_pred             eEEeecCCcccCCHHHHH--hcCeeeecCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCCc-hHHHHHHHHHHH
Confidence            889999999999999988  998789999999999999999887776655443 3778888888754 666666665443


Q ss_pred             H
Q 013506          243 S  243 (441)
Q Consensus       243 ~  243 (441)
                      .
T Consensus       229 ~  229 (328)
T PRK00080        229 F  229 (328)
T ss_pred             H
Confidence            3

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.74  E-value=2.1e-16  Score=152.33  Aligned_cols=188  Identities=18%  Similarity=0.224  Sum_probs=135.9

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      .+|++++|++.+++.|+.++...            ...+.+||+||+||||||+++.+++.+++.               
T Consensus        13 qtFdEVIGQe~Vv~~L~~aL~~g------------RL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr   80 (830)
T PRK07003         13 KDFASLVGQEHVVRALTHALDGG------------RLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACR   80 (830)
T ss_pred             CcHHHHcCcHHHHHHHHHHHhcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHH
Confidence            67899999999999999987531            234567999999999999999999988642               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               +++++...      ......++.+++........++..|+||||+|.|          +....+.|++.++
T Consensus        81 ~I~~G~h~DviEIDAas------~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~L----------T~~A~NALLKtLE  144 (830)
T PRK07003         81 EIDEGRFVDYVEMDAAS------NRGVDEMAALLERAVYAPVDARFKVYMIDEVHML----------TNHAFNAMLKTLE  144 (830)
T ss_pred             HHhcCCCceEEEecccc------cccHHHHHHHHHHHHhccccCCceEEEEeChhhC----------CHHHHHHHHHHHH
Confidence                     22222211      1122345555555544444456789999999988          3356778888888


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~  230 (441)
                      ....      ++.||.+|+.+..+.+.+++  |+. .+.|..++.++..+.++..+.......+. .+..++..+.|- .
T Consensus       145 EPP~------~v~FILaTtd~~KIp~TIrS--RCq-~f~Fk~Ls~eeIv~~L~~Il~~EgI~id~eAL~lIA~~A~Gs-m  214 (830)
T PRK07003        145 EPPP------HVKFILATTDPQKIPVTVLS--RCL-QFNLKQMPAGHIVSHLERILGEERIAFEPQALRLLARAAQGS-M  214 (830)
T ss_pred             hcCC------CeEEEEEECChhhccchhhh--heE-EEecCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-H
Confidence            7432      57888889999999999998  885 89999999999999999888766554333 366777777764 4


Q ss_pred             HHHHHHHHHHH
Q 013506          231 ADLEALCREAT  241 (441)
Q Consensus       231 ~~i~~l~~~a~  241 (441)
                      ++..+++..+.
T Consensus       215 RdALsLLdQAi  225 (830)
T PRK07003        215 RDALSLTDQAI  225 (830)
T ss_pred             HHHHHHHHHHH
Confidence            55445544443

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.74  E-value=1.2e-17  Score=148.01  Aligned_cols=130  Identities=22%  Similarity=0.392  Sum_probs=101.6

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCC---CCceEEEECCCCCcHHHHHHHHHHHc-------CCceEEech
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGIS---PVRGALLHGPPGCSKTTLAKAAAHAA-------EASFFSLSG  357 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~---~~~~~ll~Gp~GtGKTtla~~la~~~-------~~~~~~i~~  357 (441)
                      .+.++.|++.+|+.+.+++.+..... .....|..   ...|++|+|||||||||+|+++|+.+       ...++.+++
T Consensus         4 ~l~~~~Gl~~vk~~i~~~~~~~~~~~-~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~   82 (261)
T TIGR02881         4 ELSRMVGLDEVKALIKEIYAWIQINE-KRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVER   82 (261)
T ss_pred             HHHHhcChHHHHHHHHHHHHHHHHHH-HHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecH
Confidence            35678999999999999887754432 22223333   34589999999999999999999875       347889999


Q ss_pred             hhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCC
Q 013506          358 AELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQA  427 (441)
Q Consensus       358 ~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~  427 (441)
                      +++.+.|+|++...++.+|+.+.   ++||||||+|.+..  +    +...+....+++|++.|+.....
T Consensus        83 ~~l~~~~~g~~~~~~~~~~~~a~---~~VL~IDE~~~L~~--~----~~~~~~~~~i~~Ll~~~e~~~~~  143 (261)
T TIGR02881        83 ADLVGEYIGHTAQKTREVIKKAL---GGVLFIDEAYSLAR--G----GEKDFGKEAIDTLVKGMEDNRNE  143 (261)
T ss_pred             HHhhhhhccchHHHHHHHHHhcc---CCEEEEechhhhcc--C----CccchHHHHHHHHHHHHhccCCC
Confidence            99999999999999999998874   35999999999863  1    12345678899999999976443

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.

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.73  E-value=1.6e-16  Score=151.21  Aligned_cols=188  Identities=18%  Similarity=0.239  Sum_probs=136.4

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      .+|++|+|++.+++.|.+++...            +.++.+||+||+|+|||++++.+++.+++.               
T Consensus        13 qtFddVIGQe~vv~~L~~al~~g------------RLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG~   80 (700)
T PRK12323         13 RDFTTLVGQEHVVRALTHALEQQ------------RLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCGQ   80 (700)
T ss_pred             CcHHHHcCcHHHHHHHHHHHHhC------------CCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCcc
Confidence            67899999999999999988542            234678999999999999999999998751               


Q ss_pred             --------------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHH
Q 013506           81 --------------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQL  146 (441)
Q Consensus        81 --------------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l  146 (441)
                                    +++++...      ......++++.+........++..|+||||+|.|          +....+.|
T Consensus        81 C~sC~~I~aG~hpDviEIdAas------~~gVDdIReLie~~~~~P~~gr~KViIIDEah~L----------s~~AaNAL  144 (700)
T PRK12323         81 CRACTEIDAGRFVDYIEMDAAS------NRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHML----------TNHAFNAM  144 (700)
T ss_pred             cHHHHHHHcCCCCcceEecccc------cCCHHHHHHHHHHHHhchhcCCceEEEEEChHhc----------CHHHHHHH
Confidence                          11222110      1123445666655554444556789999999988          33567888


Q ss_pred             HHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHC
Q 013506          147 FTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSC  225 (441)
Q Consensus       147 ~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~  225 (441)
                      ++.++...      .++.||.+|+.+..+.+.+++  |+. .+.|..++.++..+.++..+.......+.+ +..++..+
T Consensus       145 LKTLEEPP------~~v~FILaTtep~kLlpTIrS--RCq-~f~f~~ls~eei~~~L~~Il~~Egi~~d~eAL~~IA~~A  215 (700)
T PRK12323        145 LKTLEEPP------EHVKFILATTDPQKIPVTVLS--RCL-QFNLKQMPPGHIVSHLDAILGEEGIAHEVNALRLLAQAA  215 (700)
T ss_pred             HHhhccCC------CCceEEEEeCChHhhhhHHHH--HHH-hcccCCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Confidence            88887633      257888889999999999999  885 899999999999999988877655544433 56667776


Q ss_pred             CCCCHHHHHHHHHHHH
Q 013506          226 NGYVGADLEALCREAT  241 (441)
Q Consensus       226 ~g~~~~~i~~l~~~a~  241 (441)
                      .| +.++...++..+.
T Consensus       216 ~G-s~RdALsLLdQai  230 (700)
T PRK12323        216 QG-SMRDALSLTDQAI  230 (700)
T ss_pred             CC-CHHHHHHHHHHHH
Confidence            65 4555555555433

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.73  E-value=1.4e-17  Score=172.18  Aligned_cols=113  Identities=19%  Similarity=0.280  Sum_probs=89.8

Q ss_pred             hhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhc----------cC------------------
Q 013506          315 AFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY----------VG------------------  366 (441)
Q Consensus       315 ~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~----------~g------------------  366 (441)
                      ...++|..|+.|+||+||||||||.+||++|..++.+++.+.++++++.|          +|                  
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            33567888999999999999999999999999999999999999998754          12                  


Q ss_pred             -------------chHH--HHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhH-HHHHHHHHhcCCC----C
Q 013506          367 -------------ESEA--LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGER-LLSTLLTEMDGLE----Q  426 (441)
Q Consensus       367 -------------~~~~--~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~-~~~~ll~~l~~~~----~  426 (441)
                                   ..+.  .++.+|+.|++..||||||||||.+.+..          .++ .++.||++||+..    .
T Consensus      1701 ~~e~~n~~~~~m~~~e~~~rIr~lFelARk~SPCIIFIDEIDaL~~~d----------s~~ltL~qLLneLDg~~~~~s~ 1770 (2281)
T CHL00206       1701 LLTMMNALTMDMMPKIDRFYITLQFELAKAMSPCIIWIPNIHDLNVNE----------SNYLSLGLLVNSLSRDCERCST 1770 (2281)
T ss_pred             hhhhcchhhhhhhhhhhHHHHHHHHHHHHHCCCeEEEEEchhhcCCCc----------cceehHHHHHHHhccccccCCC
Confidence                         1222  37889999999999999999999998541          123 3899999999863    2


Q ss_pred             CCeEEEEeeee
Q 013506          427 AKVIIYPISFI  437 (441)
Q Consensus       427 ~~~v~~~~~~~  437 (441)
                      +++|||+|||.
T Consensus      1771 ~~VIVIAATNR 1781 (2281)
T CHL00206       1771 RNILVIASTHI 1781 (2281)
T ss_pred             CCEEEEEeCCC
Confidence            34555555554

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.73  E-value=4.8e-16  Score=147.15  Aligned_cols=187  Identities=19%  Similarity=0.266  Sum_probs=128.9

Q ss_pred             ccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC---------------
Q 013506           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA---------------   79 (441)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~---------------   79 (441)
                      +..|++++|++.+++.|...+...            ..++.++|+|||||||||+|+.+++.++.               
T Consensus        10 P~~~~divGq~~i~~~L~~~i~~~------------~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c   77 (472)
T PRK14962         10 PKTFSEVVGQDHVKKLIINALKKN------------SISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRAC   77 (472)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHH
Confidence            367899999999999998877542            23467999999999999999999998864               


Q ss_pred             ---------cEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHH
Q 013506           80 ---------HLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM  150 (441)
Q Consensus        80 ---------~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~  150 (441)
                               .++.+++..      ......++.+...+......++..++||||+|.+          ....+..|+..+
T Consensus        78 ~~i~~g~~~dv~el~aa~------~~gid~iR~i~~~~~~~p~~~~~kVvIIDE~h~L----------t~~a~~~LLk~L  141 (472)
T PRK14962         78 RSIDEGTFMDVIELDAAS------NRGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHML----------TKEAFNALLKTL  141 (472)
T ss_pred             HHHhcCCCCccEEEeCcc------cCCHHHHHHHHHHHhhChhcCCeEEEEEEChHHh----------HHHHHHHHHHHH
Confidence                     233333321      1112234444444433333455689999999987          334567778887


Q ss_pred             hcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCC
Q 013506          151 DSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYV  229 (441)
Q Consensus       151 ~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~  229 (441)
                      +....      ++++|.+++.+..+++++.+  |+. .+.|.+++.++...+++..+.......+ ..+..++..+.| .
T Consensus       142 E~p~~------~vv~Ilattn~~kl~~~L~S--R~~-vv~f~~l~~~el~~~L~~i~~~egi~i~~eal~~Ia~~s~G-d  211 (472)
T PRK14962        142 EEPPS------HVVFVLATTNLEKVPPTIIS--RCQ-VIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASG-G  211 (472)
T ss_pred             HhCCC------cEEEEEEeCChHhhhHHHhc--CcE-EEEECCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCC-C
Confidence            76322      46677667677789999998  885 8999999999999999988766554433 236777776665 3


Q ss_pred             HHHHHHHHHH
Q 013506          230 GADLEALCRE  239 (441)
Q Consensus       230 ~~~i~~l~~~  239 (441)
                      .+.+-+.++.
T Consensus       212 lR~aln~Le~  221 (472)
T PRK14962        212 LRDALTMLEQ  221 (472)
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.73  E-value=4.6e-16  Score=148.52  Aligned_cols=188  Identities=20%  Similarity=0.241  Sum_probs=136.3

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      .+|++++|++.+++.|..++...            ..++.+||+||+|+|||++|+.+|+.+++.               
T Consensus        12 ktFddVIGQe~vv~~L~~aI~~g------------rl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~   79 (702)
T PRK14960         12 RNFNELVGQNHVSRALSSALERG------------RLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCK   79 (702)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHH
Confidence            67899999999999999988541            234788999999999999999999998652               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               ++.+++..      ......++.+..........++..|+||||+|.|          +....+.|+..++
T Consensus        80 ~I~~g~hpDviEIDAAs------~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~L----------S~~A~NALLKtLE  143 (702)
T PRK14960         80 AVNEGRFIDLIEIDAAS------RTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHML----------STHSFNALLKTLE  143 (702)
T ss_pred             HHhcCCCCceEEecccc------cCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhc----------CHHHHHHHHHHHh
Confidence                     23333221      1123345566555544444456789999999988          3356778888887


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~  230 (441)
                      ...      +++.+|.+|+.+..+++.+++  |+. .+.|.+++.++..+.+...+.+.....+.. +..++..+.| +.
T Consensus       144 EPP------~~v~FILaTtd~~kIp~TIlS--RCq-~feFkpLs~eEI~k~L~~Il~kEgI~id~eAL~~IA~~S~G-dL  213 (702)
T PRK14960        144 EPP------EHVKFLFATTDPQKLPITVIS--RCL-QFTLRPLAVDEITKHLGAILEKEQIAADQDAIWQIAESAQG-SL  213 (702)
T ss_pred             cCC------CCcEEEEEECChHhhhHHHHH--hhh-eeeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Confidence            633      246777777888888888887  885 899999999999999998887766554433 6677777665 56


Q ss_pred             HHHHHHHHHHH
Q 013506          231 ADLEALCREAT  241 (441)
Q Consensus       231 ~~i~~l~~~a~  241 (441)
                      +++.+++..+.
T Consensus       214 RdALnLLDQaI  224 (702)
T PRK14960        214 RDALSLTDQAI  224 (702)
T ss_pred             HHHHHHHHHHH
Confidence            66666655544

>TIGR00763 lon ATP-dependent protease La

Probab=99.72  E-value=3e-16  Score=159.07  Aligned_cols=207  Identities=25%  Similarity=0.300  Sum_probs=135.5

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccc--------
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH--------   90 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~--------   90 (441)
                      +++.|++++|+.+.+++..+...       +-..+.+++|+||||||||++++++++.++.+++.++.....        
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            35899999999999987653221       112345799999999999999999999999999988764332        


Q ss_pred             -cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhc---------CCCCCCCC
Q 013506           91 -KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDS---------NKPSKTSV  160 (441)
Q Consensus        91 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~---------~~~~~~~~  160 (441)
                       ..+.+.....+...+..+..     ...|+||||+|.+.+...+      +....|+..++.         ........
T Consensus       393 ~~~~~g~~~g~i~~~l~~~~~-----~~~villDEidk~~~~~~~------~~~~aLl~~ld~~~~~~f~d~~~~~~~d~  461 (775)
T TIGR00763       393 RRTYVGAMPGRIIQGLKKAKT-----KNPLFLLDEIDKIGSSFRG------DPASALLEVLDPEQNNAFSDHYLDVPFDL  461 (775)
T ss_pred             CCceeCCCCchHHHHHHHhCc-----CCCEEEEechhhcCCccCC------CHHHHHHHhcCHHhcCccccccCCceecc
Confidence             12334444445555544322     2348999999999753321      113445555542         11111122


Q ss_pred             CeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhc-----cCCCC---Cccc---HHHHHH-HCCCC
Q 013506          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTK-----KVPLD---ANVD---LEAIAT-SCNGY  228 (441)
Q Consensus       161 ~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~-----~~~~~---~~~~---~~~l~~-~~~g~  228 (441)
                      .++++|+|+|..+.+++++++  ||. ++.|+.|+.+++.+|++.++.     .....   ...+   +..++. .+..+
T Consensus       462 s~v~~I~TtN~~~~i~~~L~~--R~~-vi~~~~~~~~e~~~I~~~~l~~~~~~~~~l~~~~~~~~~~~l~~i~~~~~~e~  538 (775)
T TIGR00763       462 SKVIFIATANSIDTIPRPLLD--RME-VIELSGYTEEEKLEIAKKYLIPKALEDHGLKPDELKITDEALLLLIKYYTREA  538 (775)
T ss_pred             CCEEEEEecCCchhCCHHHhC--Cee-EEecCCCCHHHHHHHHHHHHHHHHHHHcCCCcceEEECHHHHHHHHHhcChhc
Confidence            468999999999999999999  995 899999999999999987652     11211   1122   444444 33345


Q ss_pred             CHHHHHHHHHHHHHHHHH
Q 013506          229 VGADLEALCREATMSAVK  246 (441)
Q Consensus       229 ~~~~i~~l~~~a~~~~~~  246 (441)
                      ..+.++..++..+.....
T Consensus       539 g~R~l~r~i~~~~~~~~~  556 (775)
T TIGR00763       539 GVRNLERQIEKICRKAAV  556 (775)
T ss_pred             CChHHHHHHHHHHHHHHH
Confidence            567777766665554433

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.

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.71  E-value=1.2e-15  Score=150.01  Aligned_cols=188  Identities=21%  Similarity=0.236  Sum_probs=133.4

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcE--------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL--------------   81 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~--------------   81 (441)
                      ..|++|+|++.+++.|.+++...            +.++.+||+||+|||||++++.+++.+++..              
T Consensus        13 ~tFddIIGQe~Iv~~LknaI~~~------------rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~   80 (944)
T PRK14949         13 ATFEQMVGQSHVLHALTNALTQQ------------RLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCV   80 (944)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhC------------CCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHH
Confidence            67899999999999999887541            2345679999999999999999999987531              


Q ss_pred             ----------EEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           82 ----------TVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        82 ----------~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                                +++++..      ......++.+..........++..|+||||+|.|          ....++.|++.++
T Consensus        81 ~i~~g~~~DviEidAas------~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~L----------T~eAqNALLKtLE  144 (944)
T PRK14949         81 EIAQGRFVDLIEVDAAS------RTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHML----------SRSSFNALLKTLE  144 (944)
T ss_pred             HHhcCCCceEEEecccc------ccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhc----------CHHHHHHHHHHHh
Confidence                      1111100      1112335555554444333456789999999988          4577889999998


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~  230 (441)
                      ....      ++.+|.+|+.+..+.+.+++  |+. .+.|.+++.++....++..+.......+. .+..++..+.| ..
T Consensus       145 EPP~------~vrFILaTTe~~kLl~TIlS--RCq-~f~fkpLs~eEI~~~L~~il~~EgI~~edeAL~lIA~~S~G-d~  214 (944)
T PRK14949        145 EPPE------HVKFLLATTDPQKLPVTVLS--RCL-QFNLKSLTQDEIGTQLNHILTQEQLPFEAEALTLLAKAANG-SM  214 (944)
T ss_pred             ccCC------CeEEEEECCCchhchHHHHH--hhe-EEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Confidence            7432      56777778888889889988  884 89999999999999998887765444332 36667777665 45


Q ss_pred             HHHHHHHHHHH
Q 013506          231 ADLEALCREAT  241 (441)
Q Consensus       231 ~~i~~l~~~a~  241 (441)
                      |.+..++..+.
T Consensus       215 R~ALnLLdQal  225 (944)
T PRK14949        215 RDALSLTDQAI  225 (944)
T ss_pred             HHHHHHHHHHH
Confidence            55555554433

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.70  E-value=9.8e-16  Score=146.62  Aligned_cols=188  Identities=18%  Similarity=0.214  Sum_probs=135.6

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..|++++|++.+++.|..++...            ..++.+||+||+|+|||++|+.+++.++..               
T Consensus        13 ~~f~divGq~~v~~~L~~~~~~~------------~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~   80 (509)
T PRK14958         13 RCFQEVIGQAPVVRALSNALDQQ------------YLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCR   80 (509)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHhC------------CCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHH
Confidence            67899999999999999988541            234568999999999999999999988642               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               ++++++..      ......++.+.+........++..|+||||+|.|          +....+.|+..++
T Consensus        81 ~i~~g~~~d~~eidaas------~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~l----------s~~a~naLLk~LE  144 (509)
T PRK14958         81 EIDEGRFPDLFEVDAAS------RTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHML----------SGHSFNALLKTLE  144 (509)
T ss_pred             HHhcCCCceEEEEcccc------cCCHHHHHHHHHHHhhccccCCcEEEEEEChHhc----------CHHHHHHHHHHHh
Confidence                     33333321      1223345555555544444456789999999988          3356778888888


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~  230 (441)
                      ...      +++.+|.+|+.+..+.+.+.+  |+. .+.|.+++.++....+...+.......+. .+..++..+.| +.
T Consensus       145 epp------~~~~fIlattd~~kl~~tI~S--Rc~-~~~f~~l~~~~i~~~l~~il~~egi~~~~~al~~ia~~s~G-sl  214 (509)
T PRK14958        145 EPP------SHVKFILATTDHHKLPVTVLS--RCL-QFHLAQLPPLQIAAHCQHLLKEENVEFENAALDLLARAANG-SV  214 (509)
T ss_pred             ccC------CCeEEEEEECChHhchHHHHH--Hhh-hhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-cH
Confidence            743      256777777888888888888  884 78999999999999888887776654333 35666766654 56


Q ss_pred             HHHHHHHHHHH
Q 013506          231 ADLEALCREAT  241 (441)
Q Consensus       231 ~~i~~l~~~a~  241 (441)
                      +++.++++.+.
T Consensus       215 R~al~lLdq~i  225 (509)
T PRK14958        215 RDALSLLDQSI  225 (509)
T ss_pred             HHHHHHHHHHH
Confidence            67666665544

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=99.70  E-value=8.2e-16  Score=131.00  Aligned_cols=181  Identities=20%  Similarity=0.275  Sum_probs=131.2

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc------EEEEccCcc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH------LTVISPHSV   89 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~------~~~v~~~~~   89 (441)
                      ..+++++|++.+++.|...+..             ....++|||||||||||+.+++++++++.+      +...++++.
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            7899999999999999998754             234689999999999999999999998752      223333333


Q ss_pred             ccccccchHHHHHHHHHHHHhhh------hcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           90 HKAHVGESEKALREAFSQASSHA------LSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ....+.  ...+ ..|.......      ......|+++||+|.|          ..+++..|.+.++....      ++
T Consensus       100 rGisvv--r~Ki-k~fakl~~~~~~~~~~~~~~fKiiIlDEcdsm----------tsdaq~aLrr~mE~~s~------~t  160 (346)
T KOG0989|consen  100 RGISVV--REKI-KNFAKLTVLLKRSDGYPCPPFKIIILDECDSM----------TSDAQAALRRTMEDFSR------TT  160 (346)
T ss_pred             ccccch--hhhh-cCHHHHhhccccccCCCCCcceEEEEechhhh----------hHHHHHHHHHHHhcccc------ce
Confidence            222111  1111 1122221111      0112369999999988          55788999999998543      57


Q ss_pred             EEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCHH
Q 013506          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVGA  231 (441)
Q Consensus       164 ~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~~  231 (441)
                      .|+..||..+.+++.+.+  |+. .+.|+....+.....++.++.+.....+.+ +..++..+.|--.+
T Consensus       161 rFiLIcnylsrii~pi~S--RC~-KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~~al~~I~~~S~GdLR~  226 (346)
T KOG0989|consen  161 RFILICNYLSRIIRPLVS--RCQ-KFRFKKLKDEDIVDRLEKIASKEGVDIDDDALKLIAKISDGDLRR  226 (346)
T ss_pred             EEEEEcCChhhCChHHHh--hHH-HhcCCCcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCcHHH
Confidence            888899999999999998  986 789999999999999998888888776655 67777777664333

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.70  E-value=1.7e-15  Score=142.63  Aligned_cols=188  Identities=23%  Similarity=0.308  Sum_probs=137.9

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC----------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA----------------   79 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~----------------   79 (441)
                      .+|++++|++.+++.|..++...            ..++++||+||+|+||||+|+.+|+.+++                
T Consensus        10 ~~f~dliGQe~vv~~L~~a~~~~------------ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~   77 (491)
T PRK14964         10 SSFKDLVGQDVLVRILRNAFTLN------------KIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCI   77 (491)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC------------CCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHH
Confidence            67899999999999999877541            23578999999999999999999987642                


Q ss_pred             --------cEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           80 --------HLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        80 --------~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                              .++++++.+      ......++.+...+......++..|++|||+|.|          +....+.|+..++
T Consensus        78 ~i~~~~~~Dv~eidaas------~~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~L----------s~~A~NaLLK~LE  141 (491)
T PRK14964         78 SIKNSNHPDVIEIDAAS------NTSVDDIKVILENSCYLPISSKFKVYIIDEVHML----------SNSAFNALLKTLE  141 (491)
T ss_pred             HHhccCCCCEEEEeccc------CCCHHHHHHHHHHHHhccccCCceEEEEeChHhC----------CHHHHHHHHHHHh
Confidence                    234444422      1123456666666655555566789999999987          3356788888888


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~  230 (441)
                      ...      +++.+|.+++.+..+.+.+.+  |+. .+.|.+++.++....+...+.+.....+.+ +..++..+.| +.
T Consensus       142 ePp------~~v~fIlatte~~Kl~~tI~S--Rc~-~~~f~~l~~~el~~~L~~ia~~Egi~i~~eAL~lIa~~s~G-sl  211 (491)
T PRK14964        142 EPA------PHVKFILATTEVKKIPVTIIS--RCQ-RFDLQKIPTDKLVEHLVDIAKKENIEHDEESLKLIAENSSG-SM  211 (491)
T ss_pred             CCC------CCeEEEEEeCChHHHHHHHHH--hhe-eeecccccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Confidence            743      256777778888889899998  885 799999999999999998887766554433 6666776654 56


Q ss_pred             HHHHHHHHHHH
Q 013506          231 ADLEALCREAT  241 (441)
Q Consensus       231 ~~i~~l~~~a~  241 (441)
                      +++...++.+.
T Consensus       212 R~alslLdqli  222 (491)
T PRK14964        212 RNALFLLEQAA  222 (491)
T ss_pred             HHHHHHHHHHH
Confidence            66656555544

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=99.70  E-value=1.8e-15  Score=146.72  Aligned_cols=186  Identities=18%  Similarity=0.249  Sum_probs=133.3

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..|++|+|++.+++.|.+.+...            ..++.+||+||+|+|||++++.+++.+++.               
T Consensus        13 ~~f~divGQe~vv~~L~~~l~~~------------rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~   80 (647)
T PRK07994         13 QTFAEVVGQEHVLTALANALDLG------------RLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCR   80 (647)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHH
Confidence            67899999999999999887541            124568999999999999999999988653               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               ++++++..      ......++.+.+........++..|+||||+|.|          +....+.|++.++
T Consensus        81 ~i~~g~~~D~ieidaas------~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~L----------s~~a~NALLKtLE  144 (647)
T PRK07994         81 EIEQGRFVDLIEIDAAS------RTKVEDTRELLDNVQYAPARGRFKVYLIDEVHML----------SRHSFNALLKTLE  144 (647)
T ss_pred             HHHcCCCCCceeecccc------cCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhC----------CHHHHHHHHHHHH
Confidence                     12222211      1123345555555544444566789999999988          4467889999998


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~  230 (441)
                      ....      ++.||.+|+.+..+.+.+++  |+ ..+.|.+++.++....+...+.......+ ..+..++..+.|- .
T Consensus       145 EPp~------~v~FIL~Tt~~~kLl~TI~S--RC-~~~~f~~Ls~~ei~~~L~~il~~e~i~~e~~aL~~Ia~~s~Gs-~  214 (647)
T PRK07994        145 EPPE------HVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRQQLEHILQAEQIPFEPRALQLLARAADGS-M  214 (647)
T ss_pred             cCCC------CeEEEEecCCccccchHHHh--hh-eEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-H
Confidence            7432      56777778888899999998  87 48999999999999999888765554433 2356667666653 4


Q ss_pred             HHHHHHHHH
Q 013506          231 ADLEALCRE  239 (441)
Q Consensus       231 ~~i~~l~~~  239 (441)
                      ++...+++.
T Consensus       215 R~Al~lldq  223 (647)
T PRK07994        215 RDALSLTDQ  223 (647)
T ss_pred             HHHHHHHHH
Confidence            444444433

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.69  E-value=3e-15  Score=138.83  Aligned_cols=188  Identities=22%  Similarity=0.301  Sum_probs=130.1

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..|++++|++.+++.|...+...            ..++.++|+||+|+|||++|+.+++.+...               
T Consensus        13 ~~~~~iiGq~~~~~~l~~~~~~~------------~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~   80 (363)
T PRK14961         13 QYFRDIIGQKHIVTAISNGLSLG------------RIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICK   80 (363)
T ss_pred             CchhhccChHHHHHHHHHHHHcC------------CCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHH
Confidence            67899999999999999887541            234668999999999999999999988632               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               ++.+++..      ......++.+..........++..|++|||+|.+          +....+.++..++
T Consensus        81 ~~~~~~~~d~~~~~~~~------~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l----------~~~a~naLLk~lE  144 (363)
T PRK14961         81 EIEKGLCLDLIEIDAAS------RTKVEEMREILDNIYYSPSKSRFKVYLIDEVHML----------SRHSFNALLKTLE  144 (363)
T ss_pred             HHhcCCCCceEEecccc------cCCHHHHHHHHHHHhcCcccCCceEEEEEChhhc----------CHHHHHHHHHHHh
Confidence                     11111110      0122334555544433333345679999999987          2345667888877


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~  230 (441)
                      ....      ++.+|.+++.++.+.+.+.+  |+. .+.+++++.++..+++...+...+...+ ..+..++..+.| +.
T Consensus       145 e~~~------~~~fIl~t~~~~~l~~tI~S--Rc~-~~~~~~l~~~el~~~L~~~~~~~g~~i~~~al~~ia~~s~G-~~  214 (363)
T PRK14961        145 EPPQ------HIKFILATTDVEKIPKTILS--RCL-QFKLKIISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHG-SM  214 (363)
T ss_pred             cCCC------CeEEEEEcCChHhhhHHHHh--hce-EEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Confidence            6332      46667777778889889988  884 7999999999999999988777654333 336667777665 55


Q ss_pred             HHHHHHHHHHH
Q 013506          231 ADLEALCREAT  241 (441)
Q Consensus       231 ~~i~~l~~~a~  241 (441)
                      +.+.++++.+.
T Consensus       215 R~al~~l~~~~  225 (363)
T PRK14961        215 RDALNLLEHAI  225 (363)
T ss_pred             HHHHHHHHHHH
Confidence            66666665543

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.69  E-value=3.4e-15  Score=141.78  Aligned_cols=195  Identities=22%  Similarity=0.329  Sum_probs=138.1

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEE-----------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI-----------   84 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v-----------   84 (441)
                      ..|++++|++.+++.|...+...            ..++++||+||+||||||+|+.+++.++......           
T Consensus        18 ~~f~dliGq~~vv~~L~~ai~~~------------ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C   85 (507)
T PRK06645         18 SNFAELQGQEVLVKVLSYTILND------------RLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQC   85 (507)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC------------CCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCC
Confidence            78899999999999999876431            2357899999999999999999999986421100           


Q ss_pred             -ccC--------ccccc--cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcC
Q 013506           85 -SPH--------SVHKA--HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSN  153 (441)
Q Consensus        85 -~~~--------~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~  153 (441)
                       +|.        ++...  ........++.+...+......++..|++|||+|.+          +......|+..++..
T Consensus        86 ~~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~L----------s~~a~naLLk~LEep  155 (507)
T PRK06645         86 TNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHML----------SKGAFNALLKTLEEP  155 (507)
T ss_pred             hHHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhc----------CHHHHHHHHHHHhhc
Confidence             000        00000  011223456666666665555567789999999987          235567778887753


Q ss_pred             CCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCHHH
Q 013506          154 KPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVGAD  232 (441)
Q Consensus       154 ~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~~~  232 (441)
                            .+++++|.+|+.+..+++.+.+  |+. .+.|..++.++...+++..+.......+. .+..++..+.| +.++
T Consensus       156 ------p~~~vfI~aTte~~kI~~tI~S--Rc~-~~ef~~ls~~el~~~L~~i~~~egi~ie~eAL~~Ia~~s~G-slR~  225 (507)
T PRK06645        156 ------PPHIIFIFATTEVQKIPATIIS--RCQ-RYDLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEG-SARD  225 (507)
T ss_pred             ------CCCEEEEEEeCChHHhhHHHHh--cce-EEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHH
Confidence                  2356777778888889999988  884 79999999999999999988876655443 36677777765 6666


Q ss_pred             HHHHHHHHHH
Q 013506          233 LEALCREATM  242 (441)
Q Consensus       233 i~~l~~~a~~  242 (441)
                      +.+.++.+..
T Consensus       226 al~~Ldkai~  235 (507)
T PRK06645        226 AVSILDQAAS  235 (507)
T ss_pred             HHHHHHHHHH
Confidence            6666666543

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=99.68  E-value=2.4e-15  Score=142.24  Aligned_cols=169  Identities=25%  Similarity=0.326  Sum_probs=125.1

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccc--------
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH--------   90 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~--------   90 (441)
                      .+=-|++++|+.+.+++.-....       +-..+.-++|+||||+|||+|++.+|+.++..|+.++...+.        
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~-------~~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGH  395 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLT-------KKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGH  395 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHh-------ccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhccc
Confidence            45689999999999998653222       112346789999999999999999999999999998765433        


Q ss_pred             -cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHH---------hcCCCCCCCC
Q 013506           91 -KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM---------DSNKPSKTSV  160 (441)
Q Consensus        91 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~---------~~~~~~~~~~  160 (441)
                       ..|+|....++-+-+..+...     ..++++||+|.|..+..+.  +    ...|+..+         |.+-...-..
T Consensus       396 RRTYIGamPGrIiQ~mkka~~~-----NPv~LLDEIDKm~ss~rGD--P----aSALLEVLDPEQN~~F~DhYLev~yDL  464 (782)
T COG0466         396 RRTYIGAMPGKIIQGMKKAGVK-----NPVFLLDEIDKMGSSFRGD--P----ASALLEVLDPEQNNTFSDHYLEVPYDL  464 (782)
T ss_pred             cccccccCChHHHHHHHHhCCc-----CCeEEeechhhccCCCCCC--h----HHHHHhhcCHhhcCchhhccccCccch
Confidence             336677776666666555432     3499999999996554332  1    22333333         3333333345


Q ss_pred             CeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhc
Q 013506          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTK  208 (441)
Q Consensus       161 ~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~  208 (441)
                      .+++||+|+|..+.+|.+++.  |+. +|.++-|+.++..+|.+.++-
T Consensus       465 S~VmFiaTANsl~tIP~PLlD--RME-iI~lsgYt~~EKl~IAk~~Li  509 (782)
T COG0466         465 SKVMFIATANSLDTIPAPLLD--RME-VIRLSGYTEDEKLEIAKRHLI  509 (782)
T ss_pred             hheEEEeecCccccCChHHhc--cee-eeeecCCChHHHHHHHHHhcc
Confidence            679999999999999999999  996 899999999999999987653

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.67  E-value=4.5e-15  Score=143.15  Aligned_cols=189  Identities=19%  Similarity=0.212  Sum_probs=136.1

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcE--------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL--------------   81 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~--------------   81 (441)
                      ..|++|+|++.+++.|..++...            +.++.+||+||+|+|||++++.+++.++...              
T Consensus        13 ~tFddIIGQe~vv~~L~~ai~~~------------rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr   80 (709)
T PRK08691         13 KTFADLVGQEHVVKALQNALDEG------------RLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCT   80 (709)
T ss_pred             CCHHHHcCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHH
Confidence            67899999999999999987541            2356799999999999999999999876431              


Q ss_pred             ----------EEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           82 ----------TVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        82 ----------~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                                ++++..      .......++.++..+......++..|+||||+|.|          +....+.|++.++
T Consensus        81 ~i~~g~~~DvlEidaA------s~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~L----------s~~A~NALLKtLE  144 (709)
T PRK08691         81 QIDAGRYVDLLEIDAA------SNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHML----------SKSAFNAMLKTLE  144 (709)
T ss_pred             HHhccCccceEEEecc------ccCCHHHHHHHHHHHHhhhhhCCcEEEEEECcccc----------CHHHHHHHHHHHH
Confidence                      111111      11122345666655443333456789999999977          3356778888888


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~  230 (441)
                      ....      ++.+|.+++.+..+.+.+++  |+. .+.|..++.++...++...+.......+.. +..++..+. .+.
T Consensus       145 EPp~------~v~fILaTtd~~kL~~TIrS--RC~-~f~f~~Ls~eeI~~~L~~Il~kEgi~id~eAL~~Ia~~A~-Gsl  214 (709)
T PRK08691        145 EPPE------HVKFILATTDPHKVPVTVLS--RCL-QFVLRNMTAQQVADHLAHVLDSEKIAYEPPALQLLGRAAA-GSM  214 (709)
T ss_pred             hCCC------CcEEEEEeCCccccchHHHH--HHh-hhhcCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHhC-CCH
Confidence            6332      46777778888888888887  884 789999999999999999888776554433 667777665 456


Q ss_pred             HHHHHHHHHHHH
Q 013506          231 ADLEALCREATM  242 (441)
Q Consensus       231 ~~i~~l~~~a~~  242 (441)
                      +++..+++.+..
T Consensus       215 RdAlnLLDqaia  226 (709)
T PRK08691        215 RDALSLLDQAIA  226 (709)
T ss_pred             HHHHHHHHHHHH
Confidence            777777665543

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=99.67  E-value=7.3e-15  Score=136.52  Aligned_cols=232  Identities=19%  Similarity=0.245  Sum_probs=144.5

Q ss_pred             ccccc-ccchHHHHHHHHHHHHhhccCchHHHhc--CC-CCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc
Q 013506           16 KAEEA-IGGNRAAVEALRELITFPLLYSSQAQKL--GL-KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK   91 (441)
Q Consensus        16 ~~~~~-i~G~~~~~~~l~~~~~~~~~~~~~~~~~--~~-~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~   91 (441)
                      ..|++ |+|++.+|+.|..++..++.........  .. .+..++||+||||||||++|+.++..++.+++.+++..+..
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            55555 8999999999988775433221110000  11 24578999999999999999999999999999999877653


Q ss_pred             -ccccchHH-HHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC----chhhHHHHHHHHHHHhcCC-------CCCC
Q 013506           92 -AHVGESEK-ALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSNK-------PSKT  158 (441)
Q Consensus        92 -~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~----~~~~~~~~~~l~~~~~~~~-------~~~~  158 (441)
                       .+.+.... .+..++...........++|+||||+|.+.+..+..    ......+++.|+..++...       +...
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             34444332 233333322111122357899999999997653211    1112357888999987531       1122


Q ss_pred             CCCeEEEEEEcCCCC----------------------------------------------------ccCHHHhhCCccc
Q 013506          159 SVPHVVVVASTNRVD----------------------------------------------------AIDPALRRSGRFD  186 (441)
Q Consensus       159 ~~~~~~vi~~~~~~~----------------------------------------------------~l~~~l~~~~r~~  186 (441)
                      .....++|.|+|...                                                    .+.|.|..  |++
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            223445555544410                                                    02455655  888


Q ss_pred             eEEEecCCCHHHHHHHHHH----Hhc-------cCCCCCccc---HHHHHHHC--CCCCHHHHHHHHHHHHHHHHHhcc
Q 013506          187 AEVEVTVPTAEERFEILKL----YTK-------KVPLDANVD---LEAIATSC--NGYVGADLEALCREATMSAVKRSS  249 (441)
Q Consensus       187 ~~i~~~~p~~~~~~~il~~----~~~-------~~~~~~~~~---~~~l~~~~--~g~~~~~i~~l~~~a~~~~~~~~~  249 (441)
                      .++.|.+.+.+++.+|+..    .++       ........+   ++.+++..  ..+-.|.++.+++......+....
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            8999999999999999873    222       122222222   55666653  356678888888887777665544

>PLN03025 replication factor C subunit; Provisional

Probab=99.67  E-value=3.4e-15  Score=136.39  Aligned_cols=185  Identities=20%  Similarity=0.188  Sum_probs=123.9

Q ss_pred             ccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC-----cEEEEccCcc
Q 013506           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HLTVISPHSV   89 (441)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~-----~~~~v~~~~~   89 (441)
                      +.++++++|++++++.|..++..             ....+++|+||||||||++++++++.+..     .++.+++.+.
T Consensus         9 P~~l~~~~g~~~~~~~L~~~~~~-------------~~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~   75 (319)
T PLN03025          9 PTKLDDIVGNEDAVSRLQVIARD-------------GNMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDD   75 (319)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHhc-------------CCCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeeccccc
Confidence            36789999999999999887643             12347999999999999999999998732     2444554332


Q ss_pred             ccccccchHHHHHHHHHHHHhh---hhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEE
Q 013506           90 HKAHVGESEKALREAFSQASSH---ALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVV  166 (441)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi  166 (441)
                      ..      ...++.........   ...++..+++|||+|.+.          ...+..|+..++....      .+.++
T Consensus        76 ~~------~~~vr~~i~~~~~~~~~~~~~~~kviiiDE~d~lt----------~~aq~aL~~~lE~~~~------~t~~i  133 (319)
T PLN03025         76 RG------IDVVRNKIKMFAQKKVTLPPGRHKIVILDEADSMT----------SGAQQALRRTMEIYSN------TTRFA  133 (319)
T ss_pred             cc------HHHHHHHHHHHHhccccCCCCCeEEEEEechhhcC----------HHHHHHHHHHHhcccC------CceEE
Confidence            11      11222222221111   112346799999999883          2456667777765322      34567


Q ss_pred             EEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCHHHHHHHHH
Q 013506          167 ASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCR  238 (441)
Q Consensus       167 ~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~~~i~~l~~  238 (441)
                      .+||....+.+.+++  |+. .+.|++|+.++....+...+.+.....+ ..+..++..+.| ..+.+-+.++
T Consensus       134 l~~n~~~~i~~~L~S--Rc~-~i~f~~l~~~~l~~~L~~i~~~egi~i~~~~l~~i~~~~~g-DlR~aln~Lq  202 (319)
T PLN03025        134 LACNTSSKIIEPIQS--RCA-IVRFSRLSDQEILGRLMKVVEAEKVPYVPEGLEAIIFTADG-DMRQALNNLQ  202 (319)
T ss_pred             EEeCCccccchhHHH--hhh-cccCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHH
Confidence            778888888899998  874 7999999999999999988877655433 336777776664 3344434343

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.67  E-value=5e-15  Score=143.27  Aligned_cols=217  Identities=24%  Similarity=0.329  Sum_probs=141.6

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~v~   85 (441)
                      ..|++++|++..++.+...+..             +.+.+++|+||||||||++|+++....          +.+++.++
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            6788999999999998866432             245789999999999999999997642          35678888


Q ss_pred             cCcc--ccccccchHHHHHH----------HHHHH------HhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHH
Q 013506           86 PHSV--HKAHVGESEKALRE----------AFSQA------SSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLF  147 (441)
Q Consensus        86 ~~~~--~~~~~~~~~~~~~~----------~~~~~------~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~  147 (441)
                      +...  ......  ...+..          .+...      ..........+|||||++.|          +...+..|+
T Consensus       129 ~~~~~~~~~~~~--~~li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~L----------~~~~q~~LL  196 (531)
T TIGR02902       129 ATTARFDERGIA--DPLIGSVHDPIYQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGEL----------HPVQMNKLL  196 (531)
T ss_pred             cccccCCccccc--hhhcCCcccchhccccccccCCcccccCchhhccCCcEEEEechhhC----------CHHHHHHHH
Confidence            7532  111000  000000          00000      00011123579999999988          446677777


Q ss_pred             HHHhcCCCC-----------------------CCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHH
Q 013506          148 TLMDSNKPS-----------------------KTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILK  204 (441)
Q Consensus       148 ~~~~~~~~~-----------------------~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~  204 (441)
                      ..++.....                       .......++.+|++.++.+++++++  |+. .+.+++++.+++.+|++
T Consensus       197 ~~Le~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~rlI~ATt~~p~~L~paLrs--R~~-~I~f~pL~~eei~~Il~  273 (531)
T TIGR02902       197 KVLEDRKVFLDSAYYNSENPNIPSHIHDIFQNGLPADFRLIGATTRNPEEIPPALRS--RCV-EIFFRPLLDEEIKEIAK  273 (531)
T ss_pred             HHHHhCeeeeccccccccCcccccchhhhcccCcccceEEEEEecCCcccCChHHhh--hhh-eeeCCCCCHHHHHHHHH
Confidence            777542110                       0011224455667789999999998  885 78999999999999999


Q ss_pred             HHhccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhh
Q 013506          205 LYTKKVPLDANVD-LEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARS  270 (441)
Q Consensus       205 ~~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~  270 (441)
                      ..+.+.....+.+ ++.+...+  .+.+++.++++.+...+..+.        ...++.+|+.....
T Consensus       274 ~~a~k~~i~is~~al~~I~~y~--~n~Rel~nll~~Aa~~A~~~~--------~~~It~~dI~~vl~  330 (531)
T TIGR02902       274 NAAEKIGINLEKHALELIVKYA--SNGREAVNIVQLAAGIALGEG--------RKRILAEDIEWVAE  330 (531)
T ss_pred             HHHHHcCCCcCHHHHHHHHHhh--hhHHHHHHHHHHHHHHHhhCC--------CcEEcHHHHHHHhC
Confidence            9887766443322 45455443  378899999988876554432        23578888887765

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.

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=99.67  E-value=1.8e-14  Score=121.03  Aligned_cols=204  Identities=22%  Similarity=0.267  Sum_probs=138.5

Q ss_pred             ccccccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC---CcE
Q 013506            5 GRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---AHL   81 (441)
Q Consensus         5 ~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~---~~~   81 (441)
                      +.+.+-+....-.+++++|.|.+|+.|.+.....+.        | .+.+++||+|+.|||||++++++..++.   ..+
T Consensus        13 ~~l~~i~~~~~~~l~~L~Gie~Qk~~l~~Nt~~Fl~--------G-~pannvLL~G~rGtGKSSlVkall~~y~~~GLRl   83 (249)
T PF05673_consen   13 GYLEPIKHPDPIRLDDLIGIERQKEALIENTEQFLQ--------G-LPANNVLLWGARGTGKSSLVKALLNEYADQGLRL   83 (249)
T ss_pred             CcEEecCCCCCCCHHHhcCHHHHHHHHHHHHHHHHc--------C-CCCcceEEecCCCCCHHHHHHHHHHHHhhcCceE
Confidence            344555556667789999999999999998755322        1 4678999999999999999999998774   456


Q ss_pred             EEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCC
Q 013506           82 TVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVP  161 (441)
Q Consensus        82 ~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  161 (441)
                      +.|...++.         .+..++......   ..+-|||+||+.  +.       ........|...+++.-..  ...
T Consensus        84 Iev~k~~L~---------~l~~l~~~l~~~---~~kFIlf~DDLs--Fe-------~~d~~yk~LKs~LeGgle~--~P~  140 (249)
T PF05673_consen   84 IEVSKEDLG---------DLPELLDLLRDR---PYKFILFCDDLS--FE-------EGDTEYKALKSVLEGGLEA--RPD  140 (249)
T ss_pred             EEECHHHhc---------cHHHHHHHHhcC---CCCEEEEecCCC--CC-------CCcHHHHHHHHHhcCcccc--CCC
Confidence            666554432         133333333322   236799999964  11       1223456777778775443  345


Q ss_pred             eEEEEEEcCCCCccC---------------------HHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-c--
Q 013506          162 HVVVVASTNRVDAID---------------------PALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-D--  217 (441)
Q Consensus       162 ~~~vi~~~~~~~~l~---------------------~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~--  217 (441)
                      ++++.+|+|+...++                     +.+--..||...+.|.+|+.++-.+|++.++.......+. .  
T Consensus       141 NvliyATSNRRHLv~E~~~d~~~~~~~eih~~d~~eEklSLsDRFGL~l~F~~~~q~~YL~IV~~~~~~~g~~~~~e~l~  220 (249)
T PF05673_consen  141 NVLIYATSNRRHLVPESFSDREDIQDDEIHPSDTIEEKLSLSDRFGLWLSFYPPDQEEYLAIVRHYAERYGLELDEEELR  220 (249)
T ss_pred             cEEEEEecchhhccchhhhhccCCCccccCcchHHHHHHhHHHhCCcEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            899999998753221                     2222123999999999999999999999999887766552 2  


Q ss_pred             --HHHHHHHCCCCCHHHHHHHHHHH
Q 013506          218 --LEAIATSCNGYVGADLEALCREA  240 (441)
Q Consensus       218 --~~~l~~~~~g~~~~~i~~l~~~a  240 (441)
                        ....+..-.+.+++..++++...
T Consensus       221 ~~Al~wa~~rg~RSGRtA~QF~~~l  245 (249)
T PF05673_consen  221 QEALQWALRRGGRSGRTARQFIDDL  245 (249)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHH
Confidence              22334444667888777776543

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.67  E-value=8.9e-15  Score=135.32  Aligned_cols=188  Identities=22%  Similarity=0.324  Sum_probs=127.6

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcE---------------
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL---------------   81 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~---------------   81 (441)
                      .|++|+|++.+++.|.+++..+...   ....+.+.++.+||+||+|+|||++|+.+++.+....               
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 VWDDLVGQEAVVAELRAAARAARAD---VAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTV   79 (394)
T ss_pred             hhhhccChHHHHHHHHHHHHhcccc---ccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHH
Confidence            4689999999999999999764321   1122333567899999999999999999998875421               


Q ss_pred             --------EEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcC
Q 013506           82 --------TVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSN  153 (441)
Q Consensus        82 --------~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~  153 (441)
                              ..+....     .......++.+++........++..|+||||+|.|          +....+.|++.++..
T Consensus        80 ~~~~hpD~~~i~~~~-----~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m----------~~~aanaLLk~LEep  144 (394)
T PRK07940         80 LAGTHPDVRVVAPEG-----LSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRL----------TERAANALLKAVEEP  144 (394)
T ss_pred             hcCCCCCEEEecccc-----ccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhc----------CHHHHHHHHHHhhcC
Confidence                    1121111     11223446677766655554566789999999988          334567788888763


Q ss_pred             CCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHH
Q 013506          154 KPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADL  233 (441)
Q Consensus       154 ~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i  233 (441)
                      ..      +.++|.+++.++.+.|.+++  |+. .+.|++|+.++..+++....   ... ......++..+.|..+..+
T Consensus       145 ~~------~~~fIL~a~~~~~llpTIrS--Rc~-~i~f~~~~~~~i~~~L~~~~---~~~-~~~a~~la~~s~G~~~~A~  211 (394)
T PRK07940        145 PP------RTVWLLCAPSPEDVLPTIRS--RCR-HVALRTPSVEAVAEVLVRRD---GVD-PETARRAARASQGHIGRAR  211 (394)
T ss_pred             CC------CCeEEEEECChHHChHHHHh--hCe-EEECCCCCHHHHHHHHHHhc---CCC-HHHHHHHHHHcCCCHHHHH
Confidence            22      34455555558899999998  885 89999999999888776322   222 2335567777887766555


Q ss_pred             HH
Q 013506          234 EA  235 (441)
Q Consensus       234 ~~  235 (441)
                      .-
T Consensus       212 ~l  213 (394)
T PRK07940        212 RL  213 (394)
T ss_pred             HH
Confidence            43

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.66  E-value=7.1e-15  Score=138.95  Aligned_cols=184  Identities=26%  Similarity=0.390  Sum_probs=127.0

Q ss_pred             cccccccchHHHHHH---HHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccc
Q 013506           16 KAEEAIGGNRAAVEA---LRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA   92 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~---l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~   92 (441)
                      .++++++|++..++.   |.+++..             ....+++|+||||||||++++.+++.++..++.+++...   
T Consensus         9 ~~l~d~vGq~~~v~~~~~L~~~i~~-------------~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~---   72 (413)
T PRK13342          9 KTLDEVVGQEHLLGPGKPLRRMIEA-------------GRLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTS---   72 (413)
T ss_pred             CCHHHhcCcHHHhCcchHHHHHHHc-------------CCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEecccc---
Confidence            567999999999766   7777643             134589999999999999999999999999988876532   


Q ss_pred             cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEc--C
Q 013506           93 HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST--N  170 (441)
Q Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~--~  170 (441)
                          ....++.++.........++..+|||||+|.+.          ...++.|+..++..        .+++|+++  |
T Consensus        73 ----~~~~ir~ii~~~~~~~~~g~~~vL~IDEi~~l~----------~~~q~~LL~~le~~--------~iilI~att~n  130 (413)
T PRK13342         73 ----GVKDLREVIEEARQRRSAGRRTILFIDEIHRFN----------KAQQDALLPHVEDG--------TITLIGATTEN  130 (413)
T ss_pred             ----cHHHHHHHHHHHHHhhhcCCceEEEEechhhhC----------HHHHHHHHHHhhcC--------cEEEEEeCCCC
Confidence                123344455544333223467899999999872          24456667766642        35666554  3


Q ss_pred             CCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCC--C-CC-cccHHHHHHHCCCCCHHHHHHHHHHHH
Q 013506          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVP--L-DA-NVDLEAIATSCNGYVGADLEALCREAT  241 (441)
Q Consensus       171 ~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~--~-~~-~~~~~~l~~~~~g~~~~~i~~l~~~a~  241 (441)
                      +...+++++.+  |+ ..+.+++++.++...++...+....  . .. +..+..++..+.| ..+.+.++++.+.
T Consensus       131 ~~~~l~~aL~S--R~-~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~G-d~R~aln~Le~~~  201 (413)
T PRK13342        131 PSFEVNPALLS--RA-QVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANG-DARRALNLLELAA  201 (413)
T ss_pred             hhhhccHHHhc--cc-eeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            44578899998  88 5899999999999999988765421  1 11 2225666776644 5555556555543

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.66  E-value=1.2e-14  Score=138.82  Aligned_cols=187  Identities=20%  Similarity=0.252  Sum_probs=129.6

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..|++++|++.+++.|...+...            ..++.+||+||+|+|||++|+.+++.+...               
T Consensus        13 ~~f~diiGq~~~v~~L~~~i~~~------------rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~   80 (546)
T PRK14957         13 QSFAEVAGQQHALNSLVHALETQ------------KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCV   80 (546)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHH
Confidence            67899999999999999887541            234568999999999999999999987641               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               ++.+++..      ......++.+..........++..|+||||+|.+          +....+.|+..++
T Consensus        81 ~i~~~~~~dlieidaas------~~gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~l----------s~~a~naLLK~LE  144 (546)
T PRK14957         81 AINNNSFIDLIEIDAAS------RTGVEETKEILDNIQYMPSQGRYKVYLIDEVHML----------SKQSFNALLKTLE  144 (546)
T ss_pred             HHhcCCCCceEEeeccc------ccCHHHHHHHHHHHHhhhhcCCcEEEEEechhhc----------cHHHHHHHHHHHh
Confidence                     12222111      0112234455555444444456789999999987          3457788899988


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~  230 (441)
                      ....      .+.+|.+|+.+..+.+.+++  |+. .+.|.+++.++....+...+.......+.. +..++..+.| +.
T Consensus       145 epp~------~v~fIL~Ttd~~kil~tI~S--Rc~-~~~f~~Ls~~eI~~~L~~il~~egi~~e~~Al~~Ia~~s~G-dl  214 (546)
T PRK14957        145 EPPE------YVKFILATTDYHKIPVTILS--RCI-QLHLKHISQADIKDQLKIILAKENINSDEQSLEYIAYHAKG-SL  214 (546)
T ss_pred             cCCC------CceEEEEECChhhhhhhHHH--hee-eEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Confidence            7432      45666667778888888888  884 899999999999998888777665443322 5666666654 45


Q ss_pred             HHHHHHHHHH
Q 013506          231 ADLEALCREA  240 (441)
Q Consensus       231 ~~i~~l~~~a  240 (441)
                      +++.++++.+
T Consensus       215 R~alnlLek~  224 (546)
T PRK14957        215 RDALSLLDQA  224 (546)
T ss_pred             HHHHHHHHHH
Confidence            5555555443

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.66  E-value=1.3e-14  Score=138.52  Aligned_cols=187  Identities=20%  Similarity=0.260  Sum_probs=130.1

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..|++++|++.+++.|..++...            ..++.+||+|||||||||+++++++.+...               
T Consensus        11 ~~~~dvvGq~~v~~~L~~~i~~~------------~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~   78 (504)
T PRK14963         11 ITFDEVVGQEHVKEVLLAALRQG------------RLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLA   78 (504)
T ss_pred             CCHHHhcChHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHH
Confidence            56799999999999999988541            234667999999999999999999988531               


Q ss_pred             --------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhc
Q 013506           81 --------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDS  152 (441)
Q Consensus        81 --------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~  152 (441)
                              ++.+++..      ......++.+..........+.+.+++|||+|.+          ....++.|+..++.
T Consensus        79 i~~~~h~dv~el~~~~------~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~l----------s~~a~naLLk~LEe  142 (504)
T PRK14963         79 VRRGAHPDVLEIDAAS------NNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMM----------SKSAFNALLKTLEE  142 (504)
T ss_pred             HhcCCCCceEEecccc------cCCHHHHHHHHHHHhhccccCCCeEEEEECcccc----------CHHHHHHHHHHHHh
Confidence                    23333221      1112334444443333333456789999999876          33567778888776


Q ss_pred             CCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCHH
Q 013506          153 NKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVGA  231 (441)
Q Consensus       153 ~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~~  231 (441)
                      ...      ++++|.+++.+..+.+.+.+  |+. .+.|.+++.++....+...+.......+. .+..++..+.| ..+
T Consensus       143 p~~------~t~~Il~t~~~~kl~~~I~S--Rc~-~~~f~~ls~~el~~~L~~i~~~egi~i~~~Al~~ia~~s~G-dlR  212 (504)
T PRK14963        143 PPE------HVIFILATTEPEKMPPTILS--RTQ-HFRFRRLTEEEIAGKLRRLLEAEGREAEPEALQLVARLADG-AMR  212 (504)
T ss_pred             CCC------CEEEEEEcCChhhCChHHhc--ceE-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHH
Confidence            322      46777778888889999988  875 79999999999999999888776655433 35666776664 345


Q ss_pred             HHHHHHHHH
Q 013506          232 DLEALCREA  240 (441)
Q Consensus       232 ~i~~l~~~a  240 (441)
                      .+.+.++..
T Consensus       213 ~aln~Lekl  221 (504)
T PRK14963        213 DAESLLERL  221 (504)
T ss_pred             HHHHHHHHH
Confidence            554444443

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.65  E-value=1.2e-14  Score=140.79  Aligned_cols=187  Identities=19%  Similarity=0.253  Sum_probs=132.7

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      .+|++++|++.+++.|.+++...            ..++.+||+||+|+|||++++.+++.+++.               
T Consensus        13 ~~f~dviGQe~vv~~L~~~l~~~------------rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~   80 (618)
T PRK14951         13 RSFSEMVGQEHVVQALTNALTQQ------------RLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGV   80 (618)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCc
Confidence            67899999999999999987541            234668999999999999999999988642               


Q ss_pred             --------------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHH
Q 013506           81 --------------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQL  146 (441)
Q Consensus        81 --------------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l  146 (441)
                                    ++++++..      ......++++..........++..|++|||+|.|          +....+.|
T Consensus        81 C~~C~~i~~g~h~D~~eldaas------~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~L----------s~~a~NaL  144 (618)
T PRK14951         81 CQACRDIDSGRFVDYTELDAAS------NRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHML----------TNTAFNAM  144 (618)
T ss_pred             cHHHHHHHcCCCCceeecCccc------ccCHHHHHHHHHHHHhCcccCCceEEEEEChhhC----------CHHHHHHH
Confidence                          11121111      1122345666665554444456789999999988          33557778


Q ss_pred             HHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHC
Q 013506          147 FTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSC  225 (441)
Q Consensus       147 ~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~  225 (441)
                      +..++...      +++.+|.+|+.+..+.+.+++  |+. .+.|..++.++..+.++..+.......+.. +..++..+
T Consensus       145 LKtLEEPP------~~~~fIL~Ttd~~kil~TIlS--Rc~-~~~f~~Ls~eei~~~L~~i~~~egi~ie~~AL~~La~~s  215 (618)
T PRK14951        145 LKTLEEPP------EYLKFVLATTDPQKVPVTVLS--RCL-QFNLRPMAPETVLEHLTQVLAAENVPAEPQALRLLARAA  215 (618)
T ss_pred             HHhcccCC------CCeEEEEEECCchhhhHHHHH--hce-eeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Confidence            88877632      246777777778888888888  874 899999999999999998877766554433 66777766


Q ss_pred             CCCCHHHHHHHHHHH
Q 013506          226 NGYVGADLEALCREA  240 (441)
Q Consensus       226 ~g~~~~~i~~l~~~a  240 (441)
                      .| +.+++..++..+
T Consensus       216 ~G-slR~al~lLdq~  229 (618)
T PRK14951        216 RG-SMRDALSLTDQA  229 (618)
T ss_pred             CC-CHHHHHHHHHHH
Confidence            65 555555555443

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.65  E-value=1.7e-14  Score=139.23  Aligned_cols=186  Identities=14%  Similarity=0.184  Sum_probs=129.0

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..|++++|++.+++.|..++...            ..++.+||+||+|||||++++.+++.+++.               
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 ATFAEVVGQEHVTEPLSSALDAG------------RINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESCV   77 (584)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHHH
Confidence            67899999999999999988541            234568999999999999999999987632               


Q ss_pred             -----------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHH
Q 013506           81 -----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (441)
Q Consensus        81 -----------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~  149 (441)
                                 ++++++..      ......++++..........+...|+||||+|.|          .....+.|+..
T Consensus        78 ~i~~~~~~~~dvieidaas------~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~L----------t~~A~NALLK~  141 (584)
T PRK14952         78 ALAPNGPGSIDVVELDAAS------HGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMV----------TTAGFNALLKI  141 (584)
T ss_pred             HhhcccCCCceEEEecccc------ccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcC----------CHHHHHHHHHH
Confidence                       11121111      0112334444444443333455779999999988          33577888888


Q ss_pred             HhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCC
Q 013506          150 MDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGY  228 (441)
Q Consensus       150 ~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~  228 (441)
                      ++....      ++++|.+|+.+..+.+.+++  |+. .+.|..++.++..+.+..++.......+.. +..++.... .
T Consensus       142 LEEpp~------~~~fIL~tte~~kll~TI~S--Rc~-~~~F~~l~~~~i~~~L~~i~~~egi~i~~~al~~Ia~~s~-G  211 (584)
T PRK14952        142 VEEPPE------HLIFIFATTEPEKVLPTIRS--RTH-HYPFRLLPPRTMRALIARICEQEGVVVDDAVYPLVIRAGG-G  211 (584)
T ss_pred             HhcCCC------CeEEEEEeCChHhhHHHHHH--hce-EEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC-C
Confidence            887432      56777777888899999988  864 899999999999999988887766544333 444555444 4


Q ss_pred             CHHHHHHHHHH
Q 013506          229 VGADLEALCRE  239 (441)
Q Consensus       229 ~~~~i~~l~~~  239 (441)
                      +.+++.++++.
T Consensus       212 dlR~aln~Ldq  222 (584)
T PRK14952        212 SPRDTLSVLDQ  222 (584)
T ss_pred             CHHHHHHHHHH
Confidence            45555455444

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=99.65  E-value=2.5e-15  Score=141.42  Aligned_cols=169  Identities=25%  Similarity=0.386  Sum_probs=124.4

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccc--------
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH--------   90 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~--------   90 (441)
                      ++=-|++++|+.+-+++.-..+.       +-..+.-+.|+||||+|||++++.||+.+++.|+.++...+.        
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            56789999999999988653222       334567899999999999999999999999999998765443        


Q ss_pred             -cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHH---------hcCCCCCCCC
Q 013506           91 -KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM---------DSNKPSKTSV  160 (441)
Q Consensus        91 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~---------~~~~~~~~~~  160 (441)
                       ..|+|....++-+.++...-    . ..+++|||+|.+....  .+.+.    ..|+..+         |.+-......
T Consensus       484 RRTYVGAMPGkiIq~LK~v~t----~-NPliLiDEvDKlG~g~--qGDPa----sALLElLDPEQNanFlDHYLdVp~DL  552 (906)
T KOG2004|consen  484 RRTYVGAMPGKIIQCLKKVKT----E-NPLILIDEVDKLGSGH--QGDPA----SALLELLDPEQNANFLDHYLDVPVDL  552 (906)
T ss_pred             ceeeeccCChHHHHHHHhhCC----C-CceEEeehhhhhCCCC--CCChH----HHHHHhcChhhccchhhhccccccch
Confidence             23566666666555554432    2 3489999999996322  12221    2333333         3333333345


Q ss_pred             CeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhc
Q 013506          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTK  208 (441)
Q Consensus       161 ~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~  208 (441)
                      .+++||+|+|..+.++++++.  |+. +|+++-|..++..+|.+.++-
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            679999999999999999999  996 899999999999999987754

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=99.65  E-value=1.8e-14  Score=139.94  Aligned_cols=187  Identities=21%  Similarity=0.283  Sum_probs=133.8

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..|++++|++.+++.|..++...            ..++.+||+||+|||||++|+.+++.+++.               
T Consensus        13 ~~f~~viGq~~v~~~L~~~i~~~------------~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~   80 (559)
T PRK05563         13 QTFEDVVGQEHITKTLKNAIKQG------------KISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICK   80 (559)
T ss_pred             CcHHhccCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHH
Confidence            67899999999999999988541            245678999999999999999999987532               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               ++.+++..      ......++.+...+......++..|++|||+|.|          .....+.|+..++
T Consensus        81 ~i~~g~~~dv~eidaas------~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~L----------t~~a~naLLKtLE  144 (559)
T PRK05563         81 AITNGSLMDVIEIDAAS------NNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHML----------STGAFNALLKTLE  144 (559)
T ss_pred             HHhcCCCCCeEEeeccc------cCCHHHHHHHHHHHhhCcccCCeEEEEEECcccC----------CHHHHHHHHHHhc
Confidence                     22222211      1223445666666554444556789999999988          3356778888877


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~  230 (441)
                      ...      +++++|.+|+.+..+++.+++  |+. .+.|.+|+.++....++..+.......+. .+..++....| +.
T Consensus       145 epp------~~~ifIlatt~~~ki~~tI~S--Rc~-~~~f~~~~~~ei~~~L~~i~~~egi~i~~~al~~ia~~s~G-~~  214 (559)
T PRK05563        145 EPP------AHVIFILATTEPHKIPATILS--RCQ-RFDFKRISVEDIVERLKYILDKEGIEYEDEALRLIARAAEG-GM  214 (559)
T ss_pred             CCC------CCeEEEEEeCChhhCcHHHHh--Hhe-EEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Confidence            532      256777777788899999988  885 78999999999999999888776654443 35666766665 55


Q ss_pred             HHHHHHHHHH
Q 013506          231 ADLEALCREA  240 (441)
Q Consensus       231 ~~i~~l~~~a  240 (441)
                      +++...++.+
T Consensus       215 R~al~~Ldq~  224 (559)
T PRK05563        215 RDALSILDQA  224 (559)
T ss_pred             HHHHHHHHHH
Confidence            5555555443

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.64  E-value=1.3e-14  Score=139.87  Aligned_cols=187  Identities=20%  Similarity=0.258  Sum_probs=131.4

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..|++++|++.+++.|..++...            ..++.+||+||+|+|||++|+.+++.++..               
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 KSFSELVGQEHVVRALTNALEQQ------------RLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACL   80 (527)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcC------------CCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHH
Confidence            67899999999999999987541            234668999999999999999999998642               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               ++.+++..      ......++.+...+......++..|+||||+|.+          +....+.|+..++
T Consensus        81 ~i~~~~~~d~~ei~~~~------~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~l----------s~~a~naLLK~LE  144 (527)
T PRK14969         81 EIDSGRFVDLIEVDAAS------NTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHML----------SKSAFNAMLKTLE  144 (527)
T ss_pred             HHhcCCCCceeEeeccc------cCCHHHHHHHHHHHhhCcccCCceEEEEcCcccC----------CHHHHHHHHHHHh
Confidence                     11121110      1223345666665554444556789999999987          3356778888887


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~  230 (441)
                      ...      +++.+|.+|+.+..+.+.+++  |+. .+.|..++.++....+...+.......+. .+..++..+.| +.
T Consensus       145 epp------~~~~fIL~t~d~~kil~tI~S--Rc~-~~~f~~l~~~~i~~~L~~il~~egi~~~~~al~~la~~s~G-sl  214 (527)
T PRK14969        145 EPP------EHVKFILATTDPQKIPVTVLS--RCL-QFNLKQMPPPLIVSHLQHILEQENIPFDATALQLLARAAAG-SM  214 (527)
T ss_pred             CCC------CCEEEEEEeCChhhCchhHHH--HHH-HHhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Confidence            743      246777777777888877888  874 89999999999999888877665544332 25666666654 45


Q ss_pred             HHHHHHHHHH
Q 013506          231 ADLEALCREA  240 (441)
Q Consensus       231 ~~i~~l~~~a  240 (441)
                      +++.++++.+
T Consensus       215 r~al~lldqa  224 (527)
T PRK14969        215 RDALSLLDQA  224 (527)
T ss_pred             HHHHHHHHHH
Confidence            5555555543

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=99.64  E-value=2.1e-14  Score=143.99  Aligned_cols=188  Identities=18%  Similarity=0.182  Sum_probs=132.1

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      .+|++|+|++.+++.|..++...            +..+.+||+||+|||||++++.+++.+++.               
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 ATFAEVIGQEHVTEPLSTALDSG------------RINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCV   79 (824)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhC------------CCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHH
Confidence            57899999999999999988541            234568999999999999999999998642               


Q ss_pred             -----------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHH
Q 013506           81 -----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (441)
Q Consensus        81 -----------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~  149 (441)
                                 +++++...      ......++++.+........++..|+||||+|.|          +....+.|++.
T Consensus        80 ~~~~g~~~~~dv~eidaas------~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~l----------t~~a~NaLLK~  143 (824)
T PRK07764         80 ALAPGGPGSLDVTEIDAAS------HGGVDDARELRERAFFAPAESRYKIFIIDEAHMV----------TPQGFNALLKI  143 (824)
T ss_pred             HHHcCCCCCCcEEEecccc------cCCHHHHHHHHHHHHhchhcCCceEEEEechhhc----------CHHHHHHHHHH
Confidence                       11111110      0112334444444443344456789999999988          44677889999


Q ss_pred             HhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCC
Q 013506          150 MDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGY  228 (441)
Q Consensus       150 ~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~  228 (441)
                      ++....      +++||.+|+.++.|.+.+++  |+. .+.|..++.+++.+++...+....+..+.. +..++....| 
T Consensus       144 LEEpP~------~~~fIl~tt~~~kLl~TIrS--Rc~-~v~F~~l~~~~l~~~L~~il~~EGv~id~eal~lLa~~sgG-  213 (824)
T PRK07764        144 VEEPPE------HLKFIFATTEPDKVIGTIRS--RTH-HYPFRLVPPEVMRGYLERICAQEGVPVEPGVLPLVIRAGGG-  213 (824)
T ss_pred             HhCCCC------CeEEEEEeCChhhhhHHHHh--hee-EEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-
Confidence            987433      56777777888888888888  874 899999999999999998887666554333 4555665554 


Q ss_pred             CHHHHHHHHHHHH
Q 013506          229 VGADLEALCREAT  241 (441)
Q Consensus       229 ~~~~i~~l~~~a~  241 (441)
                      +.+++..++++..
T Consensus       214 dlR~Al~eLEKLi  226 (824)
T PRK07764        214 SVRDSLSVLDQLL  226 (824)
T ss_pred             CHHHHHHHHHHHH
Confidence            5565555555443

>PRK04195 replication factor C large subunit; Provisional

Probab=99.63  E-value=1.9e-14  Score=138.71  Aligned_cols=181  Identities=26%  Similarity=0.381  Sum_probs=126.3

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      ..+++++|++.+++.|..++....        .| .++.++||+||||||||++|+++++.++.+++.+++.+...    
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            678999999999999999985421        11 23689999999999999999999999999999998865321    


Q ss_pred             chHHHHHHHHHHHHhh-hhcC-CCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCC
Q 013506           96 ESEKALREAFSQASSH-ALSG-KPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD  173 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~-~~~~-~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~  173 (441)
                        ...+.......... ...+ ++.+|+|||+|.+....      +......++..++..        +..+|.++|.+.
T Consensus        78 --~~~i~~~i~~~~~~~sl~~~~~kvIiIDEaD~L~~~~------d~~~~~aL~~~l~~~--------~~~iIli~n~~~  141 (482)
T PRK04195         78 --ADVIERVAGEAATSGSLFGARRKLILLDEVDGIHGNE------DRGGARAILELIKKA--------KQPIILTANDPY  141 (482)
T ss_pred             --HHHHHHHHHHhhccCcccCCCCeEEEEecCccccccc------chhHHHHHHHHHHcC--------CCCEEEeccCcc
Confidence              11233332222211 1122 57899999999885422      223456666666632        234566778888


Q ss_pred             ccCH-HHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCC
Q 013506          174 AIDP-ALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGY  228 (441)
Q Consensus       174 ~l~~-~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~  228 (441)
                      .+.+ .+++  ++ ..+.|++|+..++..++...+.......+ ..+..++..+.|-
T Consensus       142 ~~~~k~Lrs--r~-~~I~f~~~~~~~i~~~L~~i~~~egi~i~~eaL~~Ia~~s~GD  195 (482)
T PRK04195        142 DPSLRELRN--AC-LMIEFKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGGD  195 (482)
T ss_pred             ccchhhHhc--cc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC
Confidence            7776 5554  55 48999999999999999988876665433 2377777777653

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=99.63  E-value=3.5e-14  Score=135.76  Aligned_cols=186  Identities=20%  Similarity=0.235  Sum_probs=130.4

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..|++++|++.+++.|.+++...            ..++.+||+||+|+|||++|+.+|+.+.+.               
T Consensus        13 ~~F~dIIGQe~iv~~L~~aI~~~------------rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr   80 (605)
T PRK05896         13 HNFKQIIGQELIKKILVNAILNN------------KLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCE   80 (605)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC------------CCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHH
Confidence            67899999999999999887431            234679999999999999999999987531               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               ++.+++..      ......++.+..........++..|++|||+|.|          .......|+..++
T Consensus        81 ~i~~~~h~DiieIdaas------~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~L----------t~~A~NaLLKtLE  144 (605)
T PRK05896         81 SINTNQSVDIVELDAAS------NNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHML----------STSAWNALLKTLE  144 (605)
T ss_pred             HHHcCCCCceEEecccc------ccCHHHHHHHHHHHHhchhhCCcEEEEEechHhC----------CHHHHHHHHHHHH
Confidence                     12222211      0112335555555444444445679999999987          2345678888888


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~  230 (441)
                      ....      .+++|.+|+.+..+.+.+++  |+. .+.|++++.++....+...+.......+ ..+..++..+.| +.
T Consensus       145 EPp~------~tvfIL~Tt~~~KLl~TI~S--Rcq-~ieF~~Ls~~eL~~~L~~il~kegi~Is~eal~~La~lS~G-dl  214 (605)
T PRK05896        145 EPPK------HVVFIFATTEFQKIPLTIIS--RCQ-RYNFKKLNNSELQELLKSIAKKEKIKIEDNAIDKIADLADG-SL  214 (605)
T ss_pred             hCCC------cEEEEEECCChHhhhHHHHh--hhh-hcccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-cH
Confidence            6432      46777778888899999988  886 7999999999999999988776554332 235666766665 45


Q ss_pred             HHHHHHHHH
Q 013506          231 ADLEALCRE  239 (441)
Q Consensus       231 ~~i~~l~~~  239 (441)
                      +++..+++.
T Consensus       215 R~AlnlLek  223 (605)
T PRK05896        215 RDGLSILDQ  223 (605)
T ss_pred             HHHHHHHHH
Confidence            555454444

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=99.62  E-value=4.3e-14  Score=137.87  Aligned_cols=193  Identities=20%  Similarity=0.282  Sum_probs=134.2

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEE---ccC-----
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI---SPH-----   87 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v---~~~-----   87 (441)
                      ..|++++|++.+++.|..++...            ..++.+||+||+|+|||++|+.+|+.+.+.-...   .|.     
T Consensus        15 ~~f~dIiGQe~~v~~L~~aI~~~------------rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~   82 (725)
T PRK07133         15 KTFDDIVGQDHIVQTLKNIIKSN------------KISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIEN   82 (725)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHh
Confidence            56799999999999999988541            2346789999999999999999999886431100   000     


Q ss_pred             -----ccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCC
Q 013506           88 -----SVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSV  160 (441)
Q Consensus        88 -----~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  160 (441)
                           ++.  ..........++.+...+......++..|++|||+|.|          .......|+..++...      
T Consensus        83 ~~~~~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~L----------T~~A~NALLKtLEEPP------  146 (725)
T PRK07133         83 VNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHML----------SKSAFNALLKTLEEPP------  146 (725)
T ss_pred             hcCCCcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhC----------CHHHHHHHHHHhhcCC------
Confidence                 000  00000123446666666665555567789999999987          2356778888888642      


Q ss_pred             CeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHH
Q 013506          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVGADLEALCRE  239 (441)
Q Consensus       161 ~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~  239 (441)
                      +.+++|.+|+.++.+.+.+++  |+. .+.|.+++.++...++...+.+.+...+.. +..++..+.| +.+++..+++.
T Consensus       147 ~~tifILaTte~~KLl~TI~S--Rcq-~ieF~~L~~eeI~~~L~~il~kegI~id~eAl~~LA~lS~G-slR~AlslLek  222 (725)
T PRK07133        147 KHVIFILATTEVHKIPLTILS--RVQ-RFNFRRISEDEIVSRLEFILEKENISYEKNALKLIAKLSSG-SLRDALSIAEQ  222 (725)
T ss_pred             CceEEEEEcCChhhhhHHHHh--hce-eEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHH
Confidence            256777778888899999988  885 899999999999999988777665544332 5666776664 44555454444


Q ss_pred             H
Q 013506          240 A  240 (441)
Q Consensus       240 a  240 (441)
                      .
T Consensus       223 l  223 (725)
T PRK07133        223 V  223 (725)
T ss_pred             H
Confidence            3

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.62  E-value=3.3e-14  Score=136.69  Aligned_cols=176  Identities=16%  Similarity=0.182  Sum_probs=123.9

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..|++|+|++.+++.|.+++...            +..+.+||+||+|+|||++|+.+++.+...               
T Consensus        13 ~sf~dIiGQe~v~~~L~~ai~~~------------ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC~   80 (624)
T PRK14959         13 QTFAEVAGQETVKAILSRAAQEN------------RVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQCR   80 (624)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHcC------------CCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHHH
Confidence            67899999999999999988541            124689999999999999999999988642               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               ++++++..      ......++.+.+........++..|+||||+|.|          ....++.|+..++
T Consensus        81 ~i~~g~hpDv~eId~a~------~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~L----------t~~a~naLLk~LE  144 (624)
T PRK14959         81 KVTQGMHVDVVEIDGAS------NRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHML----------TREAFNALLKTLE  144 (624)
T ss_pred             HHhcCCCCceEEEeccc------ccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhC----------CHHHHHHHHHHhh
Confidence                     22232211      0112233333333333333455689999999988          3356788888887


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCC
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGY  228 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~  228 (441)
                      ...      +.+++|.+|+.+..+.+.+++  |+. .+.|+.++.++...++...+.......+. .+..++..+.|-
T Consensus       145 EP~------~~~ifILaTt~~~kll~TI~S--Rcq-~i~F~pLs~~eL~~~L~~il~~egi~id~eal~lIA~~s~Gd  213 (624)
T PRK14959        145 EPP------ARVTFVLATTEPHKFPVTIVS--RCQ-HFTFTRLSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAGS  213 (624)
T ss_pred             ccC------CCEEEEEecCChhhhhHHHHh--hhh-ccccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC
Confidence            632      247777888888888888888  875 78999999999999998877766543332 356666666653

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=99.62  E-value=2.2e-14  Score=124.90  Aligned_cols=212  Identities=21%  Similarity=0.330  Sum_probs=133.8

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---EEEEccCccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---LTVISPHSVHKA   92 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---~~~v~~~~~~~~   92 (441)
                      ++|++.+|++....+ .-.+...+      ++   ..-..++||||||||||++|+.++.....+   |+++++..    
T Consensus       135 ktL~dyvGQ~hlv~q-~gllrs~i------eq---~~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~----  200 (554)
T KOG2028|consen  135 KTLDDYVGQSHLVGQ-DGLLRSLI------EQ---NRIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATN----  200 (554)
T ss_pred             chHHHhcchhhhcCc-chHHHHHH------Hc---CCCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccc----
Confidence            678899999888665 22221111      11   122469999999999999999999877655   56665533    


Q ss_pred             cccchHHHHHHHHHHHHhhhh-cCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEc--
Q 013506           93 HVGESEKALREAFSQASSHAL-SGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST--  169 (441)
Q Consensus        93 ~~~~~~~~~~~~~~~~~~~~~-~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~--  169 (441)
                         .....++.+|+++..... ..+..||||||+|..          ....++.++...+..        .+++|++|  
T Consensus       201 ---a~t~dvR~ife~aq~~~~l~krkTilFiDEiHRF----------NksQQD~fLP~VE~G--------~I~lIGATTE  259 (554)
T KOG2028|consen  201 ---AKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRF----------NKSQQDTFLPHVENG--------DITLIGATTE  259 (554)
T ss_pred             ---cchHHHHHHHHHHHHHHhhhcceeEEEeHHhhhh----------hhhhhhcccceeccC--------ceEEEecccC
Confidence               234457777777654433 355789999999976          223345555555432        57888876  


Q ss_pred             CCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccC--------CCCC------cccHHHHHHHCCCCCHHHHHH
Q 013506          170 NRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV--------PLDA------NVDLEAIATSCNGYVGADLEA  235 (441)
Q Consensus       170 ~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~--------~~~~------~~~~~~l~~~~~g~~~~~i~~  235 (441)
                      |+...++.++.+  |+. ++.+.....+....|+..-...+        ++..      +..++.++..+.|-....+..
T Consensus       260 NPSFqln~aLlS--RC~-VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR~aLN~  336 (554)
T KOG2028|consen  260 NPSFQLNAALLS--RCR-VFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDARAALNA  336 (554)
T ss_pred             CCccchhHHHHh--ccc-eeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchHHHHHHH
Confidence            555688999999  884 78888889999988887633211        1111      112677888888766555544


Q ss_pred             HHHHHHHHHHHhcccccccccceeeeHhhHHhhhh
Q 013506          236 LCREATMSAVKRSSDANECAGVLSVTMEDWRHARS  270 (441)
Q Consensus       236 l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~  270 (441)
                      + +.+......+..    +.....++.+|+...+.
T Consensus       337 L-ems~~m~~tr~g----~~~~~~lSidDvke~lq  366 (554)
T KOG2028|consen  337 L-EMSLSMFCTRSG----QSSRVLLSIDDVKEGLQ  366 (554)
T ss_pred             H-HHHHHHHHhhcC----CcccceecHHHHHHHHh
Confidence            3 333223333322    11344567777766554

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.62  E-value=3.3e-14  Score=138.80  Aligned_cols=184  Identities=16%  Similarity=0.226  Sum_probs=130.8

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..|++++|++.+++.|..++...            ..++.+||+||+|+|||++++.+++.++..               
T Consensus        13 ~~f~~iiGq~~v~~~L~~~i~~~------------~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c~~c~   80 (576)
T PRK14965         13 QTFSDLTGQEHVSRTLQNAIDTG------------RVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCV   80 (576)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHH
Confidence            57799999999999999987541            235678999999999999999999988642               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               ++++++..      ......++.+..........++..|++|||+|.|          +....+.|+..++
T Consensus        81 ~i~~g~~~d~~eid~~s------~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~L----------t~~a~naLLk~LE  144 (576)
T PRK14965         81 EITEGRSVDVFEIDGAS------NTGVDDIRELRENVKYLPSRSRYKIFIIDEVHML----------STNAFNALLKTLE  144 (576)
T ss_pred             HHhcCCCCCeeeeeccC------ccCHHHHHHHHHHHHhccccCCceEEEEEChhhC----------CHHHHHHHHHHHH
Confidence                     12222211      1122345566655554444456689999999987          3356788899988


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~  230 (441)
                      ...      +++++|.+|+.+..+.+.+++  |+. .+.|..++.++....+...+.+.....+. .+..++..+.| +.
T Consensus       145 epp------~~~~fIl~t~~~~kl~~tI~S--Rc~-~~~f~~l~~~~i~~~L~~i~~~egi~i~~~al~~la~~a~G-~l  214 (576)
T PRK14965        145 EPP------PHVKFIFATTEPHKVPITILS--RCQ-RFDFRRIPLQKIVDRLRYIADQEGISISDAALALVARKGDG-SM  214 (576)
T ss_pred             cCC------CCeEEEEEeCChhhhhHHHHH--hhh-hhhcCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCC-CH
Confidence            743      257777788888999999998  885 79999999999998888877766554332 35566666654 34


Q ss_pred             HHHHHHH
Q 013506          231 ADLEALC  237 (441)
Q Consensus       231 ~~i~~l~  237 (441)
                      +++..++
T Consensus       215 r~al~~L  221 (576)
T PRK14965        215 RDSLSTL  221 (576)
T ss_pred             HHHHHHH
Confidence            4443333

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=99.61  E-value=6.3e-14  Score=129.37  Aligned_cols=233  Identities=17%  Similarity=0.252  Sum_probs=144.0

Q ss_pred             ccccc-ccchHHHHHHHHHHHHhhccCchHH-Hh---cCC-CCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcc
Q 013506           16 KAEEA-IGGNRAAVEALRELITFPLLYSSQA-QK---LGL-KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (441)
Q Consensus        16 ~~~~~-i~G~~~~~~~l~~~~~~~~~~~~~~-~~---~~~-~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~   89 (441)
                      ..|++ ++|++++++.+..++...+...... ..   .++ ....++||+||||||||++|+.++..++.++..+++..+
T Consensus        73 ~~L~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~da~~L  152 (413)
T TIGR00382        73 AHLDEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTL  152 (413)
T ss_pred             HHhcceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCeEEechhhc
Confidence            44444 7999999999998875433221110 00   001 124689999999999999999999999999988887765


Q ss_pred             cc-ccccch-HHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC----chhhHHHHHHHHHHHhcCCC-------C
Q 013506           90 HK-AHVGES-EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSNKP-------S  156 (441)
Q Consensus        90 ~~-~~~~~~-~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~----~~~~~~~~~~l~~~~~~~~~-------~  156 (441)
                      .. .+.+.. ...+...+...........+++|||||+|.+.+..+..    .-....+++.|+..+++...       .
T Consensus       153 ~~~gyvG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLeG~~~~v~~~~gr  232 (413)
T TIGR00382       153 TEAGYVGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQGGR  232 (413)
T ss_pred             cccccccccHHHHHHHHHHhCcccHHhcccceEEecccchhchhhccccccccccchhHHHHHHHHhhccceecccCCCc
Confidence            42 344443 23333333322211222357899999999987643211    11123577888888865321       2


Q ss_pred             CCCCCeEEEEEEcCCCC--------------------------------------------------ccCHHHhhCCccc
Q 013506          157 KTSVPHVVVVASTNRVD--------------------------------------------------AIDPALRRSGRFD  186 (441)
Q Consensus       157 ~~~~~~~~vi~~~~~~~--------------------------------------------------~l~~~l~~~~r~~  186 (441)
                      .....++++|.|+|...                                                  .+.|+|..  |++
T Consensus       233 ~~~~~~~i~i~TsNilfi~~Gaf~g~~~i~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~dl~~~g~~PEflg--Rld  310 (413)
T TIGR00382       233 KHPYQEFIQIDTSNILFICGGAFVGLEKIIKKRTGKSSIGFGAEVKKKSKEKADLLRQVEPEDLVKFGLIPEFIG--RLP  310 (413)
T ss_pred             cccCCCeEEEEcCCceeeecccccChHHHHHHHhhhccccccccccccchhhHHHHHHHHHHHHHHHhhHHHHhC--CCC
Confidence            22334567777766510                                                  02355555  888


Q ss_pred             eEEEecCCCHHHHHHHHHHH----hccC-------CCCCcc---cHHHHHHHC--CCCCHHHHHHHHHHHHHHHHHhccc
Q 013506          187 AEVEVTVPTAEERFEILKLY----TKKV-------PLDANV---DLEAIATSC--NGYVGADLEALCREATMSAVKRSSD  250 (441)
Q Consensus       187 ~~i~~~~p~~~~~~~il~~~----~~~~-------~~~~~~---~~~~l~~~~--~g~~~~~i~~l~~~a~~~~~~~~~~  250 (441)
                      .++.|.+.+.+++.+|+...    .+++       ......   -++.+++..  ..+.+|.++.+++......+-....
T Consensus       311 ~Iv~f~pL~~~~L~~Il~~~~n~l~kq~~~~l~~~gi~L~~t~~a~~~Ia~~~~~~~~GAR~Lr~iie~~l~~~m~e~p~  390 (413)
T TIGR00382       311 VIATLEKLDEEALIAILTKPKNALVKQYQALFKMDNVELDFEEEALKAIAKKALERKTGARGLRSIVEGLLLDVMFDLPS  390 (413)
T ss_pred             eEeecCCCCHHHHHHHHHHHHHHHHHHHHHHhccCCeEEEECHHHHHHHHHhCCCCCCCchHHHHHHHHhhHHHHhhCCC
Confidence            88999999999999998652    2211       222111   255666653  3467788888888877766655543

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.

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.61  E-value=8.2e-14  Score=132.74  Aligned_cols=188  Identities=22%  Similarity=0.326  Sum_probs=129.9

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..|++++|++.+++.|..++...            ..++.+||+||+|+|||++|+.+++.++..               
T Consensus        13 ~~f~diiGq~~i~~~L~~~i~~~------------~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~   80 (486)
T PRK14953         13 KFFKEVIGQEIVVRILKNAVKLQ------------RVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCV   80 (486)
T ss_pred             CcHHHccChHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHH
Confidence            67899999999999999988541            234568999999999999999999988631               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               ++.+++.      .......++.+...+......++..|++|||+|.+          +....+.|+..++
T Consensus        81 ~i~~g~~~d~~eidaa------s~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~L----------t~~a~naLLk~LE  144 (486)
T PRK14953         81 EIDKGSFPDLIEIDAA------SNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHML----------TKEAFNALLKTLE  144 (486)
T ss_pred             HHhcCCCCcEEEEeCc------cCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhc----------CHHHHHHHHHHHh
Confidence                     1111110      01112234455555544444556789999999977          2345677788877


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~  230 (441)
                      ...      +.+++|.+++.+..+.+.+.+  |+. .+.|++++.+++..++..++.......+.+ +..++..+.| +.
T Consensus       145 epp------~~~v~Il~tt~~~kl~~tI~S--Rc~-~i~f~~ls~~el~~~L~~i~k~egi~id~~al~~La~~s~G-~l  214 (486)
T PRK14953        145 EPP------PRTIFILCTTEYDKIPPTILS--RCQ-RFIFSKPTKEQIKEYLKRICNEEKIEYEEKALDLLAQASEG-GM  214 (486)
T ss_pred             cCC------CCeEEEEEECCHHHHHHHHHH--hce-EEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Confidence            632      245666667777788888888  775 799999999999999998888766554333 5666666554 45


Q ss_pred             HHHHHHHHHHH
Q 013506          231 ADLEALCREAT  241 (441)
Q Consensus       231 ~~i~~l~~~a~  241 (441)
                      +++...++.+.
T Consensus       215 r~al~~Ldkl~  225 (486)
T PRK14953        215 RDAASLLDQAS  225 (486)
T ss_pred             HHHHHHHHHHH
Confidence            66555555543

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=99.61  E-value=8e-14  Score=134.86  Aligned_cols=187  Identities=22%  Similarity=0.285  Sum_probs=130.8

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..|++++|++.+++.|..++...            ..++.+||+||+|+|||++|+.+++.+...               
T Consensus        13 ~~f~diiGqe~iv~~L~~~i~~~------------~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C~~C~   80 (563)
T PRK06647         13 RDFNSLEGQDFVVETLKHSIESN------------KIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSCK   80 (563)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHHH
Confidence            56799999999999999988541            235679999999999999999999988642               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               ++.+++..      ......++.+..........++..|++|||+|.+          +....+.|+..++
T Consensus        81 ~i~~~~~~dv~~idgas------~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~L----------s~~a~naLLK~LE  144 (563)
T PRK06647         81 SIDNDNSLDVIEIDGAS------NTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHML----------SNSAFNALLKTIE  144 (563)
T ss_pred             HHHcCCCCCeEEecCcc------cCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhc----------CHHHHHHHHHhhc
Confidence                     11111110      1122345555544444444556789999999987          3356777888877


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~  230 (441)
                      ...      +.+++|.+++.+..+.+.+++  |+. .+.|.+++.+++.+++...+.......+.. +..++....| +.
T Consensus       145 epp------~~~vfI~~tte~~kL~~tI~S--Rc~-~~~f~~l~~~el~~~L~~i~~~egi~id~eAl~lLa~~s~G-dl  214 (563)
T PRK06647        145 EPP------PYIVFIFATTEVHKLPATIKS--RCQ-HFNFRLLSLEKIYNMLKKVCLEDQIKYEDEALKWIAYKSTG-SV  214 (563)
T ss_pred             cCC------CCEEEEEecCChHHhHHHHHH--hce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Confidence            532      257777777778889999998  886 789999999999999988876655443333 5556666554 55


Q ss_pred             HHHHHHHHHH
Q 013506          231 ADLEALCREA  240 (441)
Q Consensus       231 ~~i~~l~~~a  240 (441)
                      +++..+++..
T Consensus       215 R~alslLdkl  224 (563)
T PRK06647        215 RDAYTLFDQV  224 (563)
T ss_pred             HHHHHHHHHH
Confidence            5555555443

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=99.60  E-value=4e-14  Score=142.13  Aligned_cols=229  Identities=20%  Similarity=0.222  Sum_probs=144.2

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc-------
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-------   91 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~-------   91 (441)
                      ++..|++++|+.+.+++......       +-..+..++|+||||+|||++++.+++.++.+++.++......       
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~-------~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~~~i~g~  394 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRV-------NKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGH  394 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhc-------ccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCHHHhccc
Confidence            34999999999999988642221       1124568999999999999999999999999998887554321       


Q ss_pred             --ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcC---------CCCCCCC
Q 013506           92 --AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSN---------KPSKTSV  160 (441)
Q Consensus        92 --~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~~~  160 (441)
                        .+.+.....+...+..+.     ....|++|||+|.+.+...+      +....|+..++..         -......
T Consensus       395 ~~~~~g~~~G~~~~~l~~~~-----~~~~villDEidk~~~~~~g------~~~~aLlevld~~~~~~~~d~~~~~~~dl  463 (784)
T PRK10787        395 RRTYIGSMPGKLIQKMAKVG-----VKNPLFLLDEIDKMSSDMRG------DPASALLEVLDPEQNVAFSDHYLEVDYDL  463 (784)
T ss_pred             hhccCCCCCcHHHHHHHhcC-----CCCCEEEEEChhhcccccCC------CHHHHHHHHhccccEEEEecccccccccC
Confidence              122222233333333221     12348999999988653221      1245666666531         1111233


Q ss_pred             CeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhcc-----CCCC---Cccc---HHHHHHH-CCCC
Q 013506          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK-----VPLD---ANVD---LEAIATS-CNGY  228 (441)
Q Consensus       161 ~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~-----~~~~---~~~~---~~~l~~~-~~g~  228 (441)
                      .++++|+|+|.. .+++++++  |+. ++.++.++.++..+|.+.++..     ....   ...+   +..++.. +..+
T Consensus       464 s~v~~i~TaN~~-~i~~aLl~--R~~-ii~~~~~t~eek~~Ia~~~L~~k~~~~~~l~~~~l~i~~~ai~~ii~~yt~e~  539 (784)
T PRK10787        464 SDVMFVATSNSM-NIPAPLLD--RME-VIRLSGYTEDEKLNIAKRHLLPKQIERNALKKGELTVDDSAIIGIIRYYTREA  539 (784)
T ss_pred             CceEEEEcCCCC-CCCHHHhc--cee-eeecCCCCHHHHHHHHHHhhhHHHHHHhCCCCCeEEECHHHHHHHHHhCCccc
Confidence            578999999987 59999999  995 8999999999999999877642     1111   1111   3444432 3345


Q ss_pred             CHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhh
Q 013506          229 VGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARS  270 (441)
Q Consensus       229 ~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~  270 (441)
                      ..|.++..++..+.....+..... ......++.+++...+.
T Consensus       540 GaR~LeR~I~~i~r~~l~~~~~~~-~~~~v~v~~~~~~~~lg  580 (784)
T PRK10787        540 GVRSLEREISKLCRKAVKQLLLDK-SLKHIEINGDNLHDYLG  580 (784)
T ss_pred             CCcHHHHHHHHHHHHHHHHHHhcC-CCceeeecHHHHHHHhC
Confidence            667777777776655554432111 11234566676665544

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=99.60  E-value=1.5e-13  Score=130.80  Aligned_cols=189  Identities=19%  Similarity=0.207  Sum_probs=132.0

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..|++++|++.+++.|...+...            ..++.+||+||+|+|||++++.+++.+...               
T Consensus        11 ~~fdeiiGqe~v~~~L~~~I~~g------------rl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~   78 (535)
T PRK08451         11 KHFDELIGQESVSKTLSLALDNN------------RLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQ   78 (535)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcC------------CCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHH
Confidence            57799999999999999987541            234667999999999999999999987421               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               ++.+++..      ......++............+...|++|||+|.|          +...++.|+..++
T Consensus        79 ~~~~~~h~dv~eldaas------~~gId~IRelie~~~~~P~~~~~KVvIIDEad~L----------t~~A~NALLK~LE  142 (535)
T PRK08451         79 SALENRHIDIIEMDAAS------NRGIDDIRELIEQTKYKPSMARFKIFIIDEVHML----------TKEAFNALLKTLE  142 (535)
T ss_pred             HHhhcCCCeEEEecccc------ccCHHHHHHHHHHHhhCcccCCeEEEEEECcccC----------CHHHHHHHHHHHh
Confidence                     22222111      0112345555444332322345679999999987          4467888899888


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~  230 (441)
                      ....      ++.+|.+++.+..+.+.+.+  |+. .+.|.+++.++..+.+...+...+...+ ..+..++....| +.
T Consensus       143 Epp~------~t~FIL~ttd~~kL~~tI~S--Rc~-~~~F~~Ls~~ei~~~L~~Il~~EGi~i~~~Al~~Ia~~s~G-dl  212 (535)
T PRK08451        143 EPPS------YVKFILATTDPLKLPATILS--RTQ-HFRFKQIPQNSIISHLKTILEKEGVSYEPEALEILARSGNG-SL  212 (535)
T ss_pred             hcCC------ceEEEEEECChhhCchHHHh--hce-eEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-cH
Confidence            7432      45666667777889999998  864 8999999999999999888877665433 236666766664 66


Q ss_pred             HHHHHHHHHHHH
Q 013506          231 ADLEALCREATM  242 (441)
Q Consensus       231 ~~i~~l~~~a~~  242 (441)
                      +++..+++.+..
T Consensus       213 R~alnlLdqai~  224 (535)
T PRK08451        213 RDTLTLLDQAII  224 (535)
T ss_pred             HHHHHHHHHHHH
Confidence            666666665543

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=99.60  E-value=1.3e-13  Score=134.04  Aligned_cols=193  Identities=19%  Similarity=0.227  Sum_probs=133.3

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc----------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS----------   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~----------   85 (441)
                      ..|++++|++.+++.|..++...            +.++.+||+||+|+|||++|+.+++.+++.....+          
T Consensus        21 ~~f~dliGq~~~v~~L~~~~~~g------------ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg~   88 (598)
T PRK09111         21 QTFDDLIGQEAMVRTLTNAFETG------------RIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCGV   88 (598)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC------------CCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCcc
Confidence            67899999999999999987541            24578999999999999999999998864321111          


Q ss_pred             ---cC--------cccccc--ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhc
Q 013506           86 ---PH--------SVHKAH--VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDS  152 (441)
Q Consensus        86 ---~~--------~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~  152 (441)
                         |.        ++....  .......++++...+......+...|+||||+|.|          +....+.|+..++.
T Consensus        89 c~~C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~L----------s~~a~naLLKtLEe  158 (598)
T PRK09111         89 GEHCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHML----------STAAFNALLKTLEE  158 (598)
T ss_pred             cHHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhC----------CHHHHHHHHHHHHh
Confidence               00        000000  01113356666666655555566789999999988          33567888888887


Q ss_pred             CCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCHH
Q 013506          153 NKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVGA  231 (441)
Q Consensus       153 ~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~~  231 (441)
                      ...      ++.+|.+++....+.+.+++  |+. .+.|..++.++...++...+.......+. .+..++..+.| +.+
T Consensus       159 Pp~------~~~fIl~tte~~kll~tI~S--Rcq-~~~f~~l~~~el~~~L~~i~~kegi~i~~eAl~lIa~~a~G-dlr  228 (598)
T PRK09111        159 PPP------HVKFIFATTEIRKVPVTVLS--RCQ-RFDLRRIEADVLAAHLSRIAAKEGVEVEDEALALIARAAEG-SVR  228 (598)
T ss_pred             CCC------CeEEEEEeCChhhhhHHHHh--hee-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHH
Confidence            432      46666677777778888888  885 79999999999999999888766655443 35555666554 455


Q ss_pred             HHHHHHHHH
Q 013506          232 DLEALCREA  240 (441)
Q Consensus       232 ~i~~l~~~a  240 (441)
                      ++...++.+
T Consensus       229 ~al~~Ldkl  237 (598)
T PRK09111        229 DGLSLLDQA  237 (598)
T ss_pred             HHHHHHHHH
Confidence            555544443

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.59  E-value=1.3e-13  Score=128.96  Aligned_cols=188  Identities=24%  Similarity=0.315  Sum_probs=130.0

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..+++++|++++++.|.+.+...            ..++.+||+||||+|||++++.+++.+..+               
T Consensus        11 ~~~~~iig~~~~~~~l~~~~~~~------------~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~   78 (355)
T TIGR02397        11 QTFEDVIGQEHIVQTLKNAIKNG------------RIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCK   78 (355)
T ss_pred             CcHhhccCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHH
Confidence            45689999999999999987541            235679999999999999999999887532               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               ++.+++..      ......++.++..+......+...+++|||+|.+.          ......++..++
T Consensus        79 ~~~~~~~~~~~~~~~~~------~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~----------~~~~~~Ll~~le  142 (355)
T TIGR02397        79 EINSGSSLDVIEIDAAS------NNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLS----------KSAFNALLKTLE  142 (355)
T ss_pred             HHhcCCCCCEEEeeccc------cCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcC----------HHHHHHHHHHHh
Confidence                     22222210      11223455666655544444566799999998772          245667777776


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~  230 (441)
                      ...      +++++|.+++.+..+.+.+.+  |+. .+.+++|+.+++..++...+.......+ ..+..++..+.| +.
T Consensus       143 ~~~------~~~~lIl~~~~~~~l~~~l~s--r~~-~~~~~~~~~~~l~~~l~~~~~~~g~~i~~~a~~~l~~~~~g-~~  212 (355)
T TIGR02397       143 EPP------EHVVFILATTEPHKIPATILS--RCQ-RFDFKRIPLEDIVERLKKILDKEGIKIEDEALELIARAADG-SL  212 (355)
T ss_pred             CCc------cceeEEEEeCCHHHHHHHHHh--hee-EEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-Ch
Confidence            532      246667777777788888888  874 7899999999999999988877665433 335666776665 45


Q ss_pred             HHHHHHHHHHH
Q 013506          231 ADLEALCREAT  241 (441)
Q Consensus       231 ~~i~~l~~~a~  241 (441)
                      +.+.+.++...
T Consensus       213 ~~a~~~lekl~  223 (355)
T TIGR02397       213 RDALSLLDQLI  223 (355)
T ss_pred             HHHHHHHHHHH
Confidence            55555554443

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.

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=99.59  E-value=2.3e-14  Score=134.47  Aligned_cols=194  Identities=21%  Similarity=0.281  Sum_probs=144.8

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEE---E-----EccC
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLT---V-----ISPH   87 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~---~-----v~~~   87 (441)
                      ..|++++|++.++..|..++..-            +-.+..+|+||-||||||++|.+|+.+++.--   .     ..|.
T Consensus        13 ~~F~evvGQe~v~~~L~nal~~~------------ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck   80 (515)
T COG2812          13 KTFDDVVGQEHVVKTLSNALENG------------RIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCK   80 (515)
T ss_pred             ccHHHhcccHHHHHHHHHHHHhC------------cchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhH
Confidence            67899999999999999988542            23467999999999999999999999875420   0     0011


Q ss_pred             ccccc----------cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCC
Q 013506           88 SVHKA----------HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK  157 (441)
Q Consensus        88 ~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  157 (441)
                      .+...          ........++.+.+........++..|.+|||+|+|          +......|+..++.     
T Consensus        81 ~I~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHML----------S~~afNALLKTLEE-----  145 (515)
T COG2812          81 EINEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHML----------SKQAFNALLKTLEE-----  145 (515)
T ss_pred             hhhcCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhh----------hHHHHHHHhccccc-----
Confidence            11100          011223467777888777777788899999999988          55677888888876     


Q ss_pred             CCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCHHHHHHH
Q 013506          158 TSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVGADLEAL  236 (441)
Q Consensus       158 ~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l  236 (441)
                       ..+++.+|.+|..+..+++-+++  |+. .+.|...+.++....+..++.+.....+.+ +..++...+| +.||...+
T Consensus       146 -PP~hV~FIlATTe~~Kip~TIlS--Rcq-~f~fkri~~~~I~~~L~~i~~~E~I~~e~~aL~~ia~~a~G-s~RDalsl  220 (515)
T COG2812         146 -PPSHVKFILATTEPQKIPNTILS--RCQ-RFDFKRLDLEEIAKHLAAILDKEGINIEEDALSLIARAAEG-SLRDALSL  220 (515)
T ss_pred             -CccCeEEEEecCCcCcCchhhhh--ccc-cccccCCCHHHHHHHHHHHHHhcCCccCHHHHHHHHHHcCC-ChhhHHHH
Confidence             34479999999999999999999  886 799999999999999999998887776555 5555665554 45665555


Q ss_pred             HHHHH
Q 013506          237 CREAT  241 (441)
Q Consensus       237 ~~~a~  241 (441)
                      +..+.
T Consensus       221 LDq~i  225 (515)
T COG2812         221 LDQAI  225 (515)
T ss_pred             HHHHH
Confidence            55443

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.59  E-value=1.2e-13  Score=129.72  Aligned_cols=193  Identities=16%  Similarity=0.233  Sum_probs=126.7

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEE----------c
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI----------S   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v----------~   85 (441)
                      ..|++++|++.+++.|..++...            ..++.+||+||+|+|||++|+.+|+.+...-..-          .
T Consensus        13 ~~~~eiiGq~~~~~~L~~~~~~~------------~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~   80 (397)
T PRK14955         13 KKFADITAQEHITRTIQNSLRMG------------RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEP   80 (397)
T ss_pred             CcHhhccChHHHHHHHHHHHHhC------------CcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCC
Confidence            56799999999999999887541            2356799999999999999999999986521000          0


Q ss_pred             cC--------------ccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHH
Q 013506           86 PH--------------SVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (441)
Q Consensus        86 ~~--------------~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~  149 (441)
                      |.              ++.  ..........++.+..........+...++||||+|.+.          ....+.|+..
T Consensus        81 c~~c~~c~~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~----------~~~~~~LLk~  150 (397)
T PRK14955         81 CGECESCRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLS----------IAAFNAFLKT  150 (397)
T ss_pred             CCCCHHHHHHhcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCC----------HHHHHHHHHH
Confidence            00              000  000001123455554444433444556799999999872          2456677777


Q ss_pred             HhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCC
Q 013506          150 MDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGY  228 (441)
Q Consensus       150 ~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~  228 (441)
                      ++....      .+++|.+++.+..+.+.+.+  |+. .+.|.+++.++..+.+...+.......+ ..+..++..+.| 
T Consensus       151 LEep~~------~t~~Il~t~~~~kl~~tl~s--R~~-~v~f~~l~~~ei~~~l~~~~~~~g~~i~~~al~~l~~~s~g-  220 (397)
T PRK14955        151 LEEPPP------HAIFIFATTELHKIPATIAS--RCQ-RFNFKRIPLEEIQQQLQGICEAEGISVDADALQLIGRKAQG-  220 (397)
T ss_pred             HhcCCC------CeEEEEEeCChHHhHHHHHH--HHH-HhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-
Confidence            775322      45666666667788888887  775 7999999999999998888776554333 236666766664 


Q ss_pred             CHHHHHHHHHHH
Q 013506          229 VGADLEALCREA  240 (441)
Q Consensus       229 ~~~~i~~l~~~a  240 (441)
                      +.+.+...++..
T Consensus       221 ~lr~a~~~L~kl  232 (397)
T PRK14955        221 SMRDAQSILDQV  232 (397)
T ss_pred             CHHHHHHHHHHH
Confidence            455555554443

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=99.58  E-value=4.7e-14  Score=115.32  Aligned_cols=186  Identities=20%  Similarity=0.259  Sum_probs=126.2

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC-----cEEEEccCccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HLTVISPHSVH   90 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~-----~~~~v~~~~~~   90 (441)
                      ..+.+|+|+|+.++.|+.+...             ..-.++++.|||||||||-+.++|+++-.     .++++++++-.
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            5689999999999999987643             13358999999999999999999998732     34666665532


Q ss_pred             cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcC
Q 013506           91 KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (441)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~  170 (441)
                      ..   +..+.-...|.+..-....++..|+++||+|++          ....++.+.+.++-+..      .+.+..+||
T Consensus        91 GI---DvVRn~IK~FAQ~kv~lp~grhKIiILDEADSM----------T~gAQQAlRRtMEiyS~------ttRFalaCN  151 (333)
T KOG0991|consen   91 GI---DVVRNKIKMFAQKKVTLPPGRHKIIILDEADSM----------TAGAQQALRRTMEIYSN------TTRFALACN  151 (333)
T ss_pred             cc---HHHHHHHHHHHHhhccCCCCceeEEEeeccchh----------hhHHHHHHHHHHHHHcc------cchhhhhhc
Confidence            21   222333445666555555566789999999988          33567777777776544      367888899


Q ss_pred             CCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCC-CcccHHHHHHHCCCCCHHHHHHH
Q 013506          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEAL  236 (441)
Q Consensus       171 ~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~l  236 (441)
                      ..+.+-+.+.+  |+. .+.+...+..+...-+....+..... .+..++.+..-.+|-....+.++
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            99999888988  875 56666666666555444444443333 23346666666666444444443

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.58  E-value=2.8e-13  Score=126.77  Aligned_cols=194  Identities=19%  Similarity=0.230  Sum_probs=128.7

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcc----c-
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV----H-   90 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~----~-   90 (441)
                      ..+++++|++.+++.+.+.+...            ..+++++|+||||+|||++++.+++.+..+........+    . 
T Consensus        14 ~~~~~iig~~~~~~~l~~~i~~~------------~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~   81 (367)
T PRK14970         14 QTFDDVVGQSHITNTLLNAIENN------------HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFE   81 (367)
T ss_pred             CcHHhcCCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEE
Confidence            57899999999999999988541            235689999999999999999999987542211100000    0 


Q ss_pred             -cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEc
Q 013506           91 -KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST  169 (441)
Q Consensus        91 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~  169 (441)
                       ..........+..++..+......++..+++|||++.+.          ......++..++...      ..+++|.++
T Consensus        82 l~~~~~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~----------~~~~~~ll~~le~~~------~~~~~Il~~  145 (367)
T PRK14970         82 LDAASNNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLS----------SAAFNAFLKTLEEPP------AHAIFILAT  145 (367)
T ss_pred             eccccCCCHHHHHHHHHHHhhccccCCcEEEEEeChhhcC----------HHHHHHHHHHHhCCC------CceEEEEEe
Confidence             000111224455666655444444567899999998772          234566777666522      135666667


Q ss_pred             CCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCHHHHHHHHHHHH
Q 013506          170 NRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREAT  241 (441)
Q Consensus       170 ~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~~~i~~l~~~a~  241 (441)
                      +....+.+.+.+  |+. .+.+++|+.++...++...+.+.....+ ..+..++..+.| +.+.+.+.++...
T Consensus       146 ~~~~kl~~~l~s--r~~-~v~~~~~~~~~l~~~l~~~~~~~g~~i~~~al~~l~~~~~g-dlr~~~~~lekl~  214 (367)
T PRK14970        146 TEKHKIIPTILS--RCQ-IFDFKRITIKDIKEHLAGIAVKEGIKFEDDALHIIAQKADG-ALRDALSIFDRVV  214 (367)
T ss_pred             CCcccCCHHHHh--cce-eEecCCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            777888888888  774 7899999999999999888777665433 336666766654 5555555555443

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=99.57  E-value=1.8e-13  Score=124.43  Aligned_cols=187  Identities=24%  Similarity=0.351  Sum_probs=126.8

Q ss_pred             ccccc-ccchHHHHHHHHHHHHhhccCchHHHhcCC-CCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc-c
Q 013506           16 KAEEA-IGGNRAAVEALRELITFPLLYSSQAQKLGL-KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-A   92 (441)
Q Consensus        16 ~~~~~-i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~-~   92 (441)
                      ..|+. ++|++++|+.+..++............+.. ..+.+++|+||||||||++++.++..++.+++.+++..+.. .
T Consensus        11 ~~Ld~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f~e~G   90 (443)
T PRK05201         11 SELDKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVG   90 (443)
T ss_pred             HHhccccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhhccCC
Confidence            34444 999999999999988543222111111110 12589999999999999999999999999999999877664 4


Q ss_pred             ccc-chHHHHHHHHHHHH--------------------------------------------------------------
Q 013506           93 HVG-ESEKALREAFSQAS--------------------------------------------------------------  109 (441)
Q Consensus        93 ~~~-~~~~~~~~~~~~~~--------------------------------------------------------------  109 (441)
                      +.+ ..+..++.++..+.                                                              
T Consensus        91 yvG~d~e~~ir~L~~~A~~~~~~~~~~~~~~~a~~~~e~ri~~~l~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~g~ldd  170 (443)
T PRK05201         91 YVGRDVESIIRDLVEIAVKMVREEKREKVREKAEEAAEERILDALLPPAKNNWGEEEEKEEISATRQKFRKKLREGELDD  170 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhCCCccCCccccccchhhhHHHHHHHHHHHcCCcCC
Confidence            555 33334444443330                                                              


Q ss_pred             --------h----------------------------------------------------------------hhhcCCC
Q 013506          110 --------S----------------------------------------------------------------HALSGKP  117 (441)
Q Consensus       110 --------~----------------------------------------------------------------~~~~~~~  117 (441)
                              .                                                                .....+.
T Consensus       171 ~~iei~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~eA~~~l~~~e~~~lid~~~v~~~ai~~ae~~  250 (443)
T PRK05201        171 KEIEIEVAEAAPMMEIMGPPGMEEMTIQLQDMFGNLGPKKKKKRKLKVKEARKILIEEEAAKLIDMEEIKQEAIERVEQN  250 (443)
T ss_pred             cEEEEEecCCCCcccCCCCcchhHHHHHHHHHHHhhCCCCCceEEeEHHHHHHHHHHHHHHhccChHHHHHHHHHHHHcC
Confidence                    0                                                                0001245


Q ss_pred             eEEEEccccccccCCCC--CchhhHHHHHHHHHHHhcCCCCC----CCCCeEEEEEEc----CCCCccCHHHhhCCccce
Q 013506          118 SVVFIDEIDALCPRRDH--RREQDVRIASQLFTLMDSNKPSK----TSVPHVVVVAST----NRVDAIDPALRRSGRFDA  187 (441)
Q Consensus       118 ~il~iDe~~~l~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~----~~~~~~~vi~~~----~~~~~l~~~l~~~~r~~~  187 (441)
                      +|+||||+|.++...+.  ..-....+++.|+..+++.....    .+..+++||++.    ..|..|-|.|.-  ||..
T Consensus       251 GIVfiDEiDKIa~~~~~~~~DvS~eGVQ~~LLki~EG~~v~~k~~~i~T~~ILFI~~GAF~~~kp~DlIPEl~G--R~Pi  328 (443)
T PRK05201        251 GIVFIDEIDKIAARGGSSGPDVSREGVQRDLLPLVEGSTVSTKYGMVKTDHILFIASGAFHVSKPSDLIPELQG--RFPI  328 (443)
T ss_pred             CEEEEEcchhhcccCCCCCCCCCccchhcccccccccceeeecceeEECCceeEEecCCcCCCChhhccHHHhC--ccce
Confidence            69999999999876532  12223457888999888743221    122467888764    345667788876  9999


Q ss_pred             EEEecCCCHHHHHHHHH
Q 013506          188 EVEVTVPTAEERFEILK  204 (441)
Q Consensus       188 ~i~~~~p~~~~~~~il~  204 (441)
                      ++.+.+++.+++.+|+.
T Consensus       329 ~v~L~~L~~~dL~~ILt  345 (443)
T PRK05201        329 RVELDALTEEDFVRILT  345 (443)
T ss_pred             EEECCCCCHHHHHHHhc
Confidence            99999999999999984

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=99.57  E-value=1.4e-13  Score=136.55  Aligned_cols=184  Identities=22%  Similarity=0.313  Sum_probs=121.3

Q ss_pred             cccccccchHHHHH---HHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccc
Q 013506           16 KAEEAIGGNRAAVE---ALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA   92 (441)
Q Consensus        16 ~~~~~i~G~~~~~~---~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~   92 (441)
                      .+|++++|++....   .|.+++..             ....+++|+|||||||||+++.+++..+..++.+++....  
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            77899999999885   45555432             2335899999999999999999999998888777764211  


Q ss_pred             cccchHHHHHHHHHHHHhh-hhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcC-
Q 013506           93 HVGESEKALREAFSQASSH-ALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN-  170 (441)
Q Consensus        93 ~~~~~~~~~~~~~~~~~~~-~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~-  170 (441)
                           ...+...+...... ...++..+|||||+|.+.          ...++.|+..++..        .+++|++++ 
T Consensus        90 -----i~dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln----------~~qQdaLL~~lE~g--------~IiLI~aTTe  146 (725)
T PRK13341         90 -----VKDLRAEVDRAKERLERHGKRTILFIDEVHRFN----------KAQQDALLPWVENG--------TITLIGATTE  146 (725)
T ss_pred             -----hHHHHHHHHHHHHHhhhcCCceEEEEeChhhCC----------HHHHHHHHHHhcCc--------eEEEEEecCC
Confidence                 11223333322111 112346799999999872          23455666665532        466666553 


Q ss_pred             -CCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhcc-------CCCCC-cccHHHHHHHCCCCCHHHHHHHHHHHH
Q 013506          171 -RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK-------VPLDA-NVDLEAIATSCNGYVGADLEALCREAT  241 (441)
Q Consensus       171 -~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~-------~~~~~-~~~~~~l~~~~~g~~~~~i~~l~~~a~  241 (441)
                       +...+++++.+  |+. .+.+++++.+++..+++..+..       ..... +..+..++..+. .+.+.+.++++.+.
T Consensus       147 np~~~l~~aL~S--R~~-v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~-GD~R~lln~Le~a~  222 (725)
T PRK13341        147 NPYFEVNKALVS--RSR-LFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVAN-GDARSLLNALELAV  222 (725)
T ss_pred             ChHhhhhhHhhc--ccc-ceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence             33468889988  764 7999999999999999987762       22222 223667777664 45666666666554

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.57  E-value=1.3e-14  Score=130.89  Aligned_cols=148  Identities=26%  Similarity=0.302  Sum_probs=116.4

Q ss_pred             ccccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhh
Q 013506          281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (441)
Q Consensus       281 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~  360 (441)
                      .++.| .+++.+.--.++|+.+.+-+..-+.....+.+.|.+=.++.||+|||||||||++.++|..++++++-++.++.
T Consensus       193 ~f~Hp-stF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v  271 (457)
T KOG0743|consen  193 GFPHP-STFETLAMDPDLKERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEV  271 (457)
T ss_pred             CCCCC-CCccccccChhHHHHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhhcCCceEEeeeccc
Confidence            34444 56777777788899988888878888888999999889999999999999999999999999999999998774


Q ss_pred             hhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCC---CCcc-hhhHHHHHHHHHhcCCCC---CCeEEEE
Q 013506          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSS---TSIT-VGERLLSTLLTEMDGLEQ---AKVIIYP  433 (441)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~---~~~~-~~~~~~~~ll~~l~~~~~---~~~v~~~  433 (441)
                           +...+ ++.++..+  .+.+||+|.+||+.+-.|+....   +..+ .+.--++.||+++||+-+   ..+|||.
T Consensus       272 -----~~n~d-Lr~LL~~t--~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivF  343 (457)
T KOG0743|consen  272 -----KLDSD-LRHLLLAT--PNKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVF  343 (457)
T ss_pred             -----cCcHH-HHHHHHhC--CCCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEE
Confidence                 33444 88888875  45679999999998876654332   1111 122349999999999876   3589999


Q ss_pred             eeee
Q 013506          434 ISFI  437 (441)
Q Consensus       434 ~~~~  437 (441)
                      +||-
T Consensus       344 TTNh  347 (457)
T KOG0743|consen  344 TTNH  347 (457)
T ss_pred             ecCC
Confidence            9984

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=99.57  E-value=3.1e-13  Score=128.11  Aligned_cols=186  Identities=21%  Similarity=0.275  Sum_probs=127.3

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      .+|++++|++.+++.|..++...            ..++.+||+||+|+|||++|+.+++.+...               
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 QTFSEILGQDAVVAVLKNALRFN------------RAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASC   81 (451)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC------------CCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHH
Confidence            56799999999999999988541            235679999999999999999999987532               


Q ss_pred             ----------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHH
Q 013506           81 ----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM  150 (441)
Q Consensus        81 ----------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~  150 (441)
                                ++.+++..      ......++.+.+........+...|++|||+|.+.          ....+.|+..+
T Consensus        82 ~~i~~~~~~d~~~i~g~~------~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt----------~~~~n~LLk~l  145 (451)
T PRK06305         82 KEISSGTSLDVLEIDGAS------HRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLT----------KEAFNSLLKTL  145 (451)
T ss_pred             HHHhcCCCCceEEeeccc------cCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhC----------HHHHHHHHHHh
Confidence                      11121110      01112333333333322233567899999999872          34567788888


Q ss_pred             hcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCC
Q 013506          151 DSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYV  229 (441)
Q Consensus       151 ~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~  229 (441)
                      +....      ++++|.+++.+..+.+.+.+  |+. .+.|+.++.++....+...+...+...+. .++.++..+.| +
T Consensus       146 Eep~~------~~~~Il~t~~~~kl~~tI~s--Rc~-~v~f~~l~~~el~~~L~~~~~~eg~~i~~~al~~L~~~s~g-d  215 (451)
T PRK06305        146 EEPPQ------HVKFFLATTEIHKIPGTILS--RCQ-KMHLKRIPEETIIDKLALIAKQEGIETSREALLPIARAAQG-S  215 (451)
T ss_pred             hcCCC------CceEEEEeCChHhcchHHHH--hce-EEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-C
Confidence            76322      45666777878888899988  885 79999999999999998877766544332 36677777664 4


Q ss_pred             HHHHHHHHHH
Q 013506          230 GADLEALCRE  239 (441)
Q Consensus       230 ~~~i~~l~~~  239 (441)
                      .+.+...++.
T Consensus       216 lr~a~~~Lek  225 (451)
T PRK06305        216 LRDAESLYDY  225 (451)
T ss_pred             HHHHHHHHHH
Confidence            4544444444

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.57  E-value=2.7e-13  Score=125.96  Aligned_cols=188  Identities=23%  Similarity=0.273  Sum_probs=119.4

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC-----CcEEEEccCccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG-----AHLTVISPHSVH   90 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~-----~~~~~v~~~~~~   90 (441)
                      ..+++++|++.+++.|.+++..+             ...+++|+||||||||++++.+++.+.     .+++++++.++.
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            56799999999999999987531             123799999999999999999999874     245677765543


Q ss_pred             cccc-------------cc-------hHHHHHHHHHHHHhh-hhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHH
Q 013506           91 KAHV-------------GE-------SEKALREAFSQASSH-ALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (441)
Q Consensus        91 ~~~~-------------~~-------~~~~~~~~~~~~~~~-~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~  149 (441)
                      ....             +.       ....+..+....... .....+.+++|||++.+.          ......|...
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~----------~~~~~~L~~~  148 (337)
T PRK12402         79 DQGKKYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALR----------EDAQQALRRI  148 (337)
T ss_pred             hcchhhhhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCC----------HHHHHHHHHH
Confidence            1110             00       011122222111111 112345699999998772          2345566666


Q ss_pred             HhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCC
Q 013506          150 MDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGY  228 (441)
Q Consensus       150 ~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~  228 (441)
                      ++....      ...+|.+++.+..+.+.+.+  |+. .+.+++|+.+++.+++...+.......+ ..++.++..+. .
T Consensus       149 le~~~~------~~~~Il~~~~~~~~~~~L~s--r~~-~v~~~~~~~~~~~~~l~~~~~~~~~~~~~~al~~l~~~~~-g  218 (337)
T PRK12402        149 MEQYSR------TCRFIIATRQPSKLIPPIRS--RCL-PLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAG-G  218 (337)
T ss_pred             HHhccC------CCeEEEEeCChhhCchhhcC--Cce-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC-C
Confidence            665322      23455556556667777877  764 7899999999999999988776665433 33677777664 3


Q ss_pred             CHHHHHHH
Q 013506          229 VGADLEAL  236 (441)
Q Consensus       229 ~~~~i~~l  236 (441)
                      +.+.+...
T Consensus       219 dlr~l~~~  226 (337)
T PRK12402        219 DLRKAILT  226 (337)
T ss_pred             CHHHHHHH
Confidence            44444333

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.57  E-value=1.8e-13  Score=125.69  Aligned_cols=155  Identities=25%  Similarity=0.358  Sum_probs=108.5

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      .++++++|++.+++.+..++...            ..++.++|+||||+|||++++++++.++.+++++++.. . . ..
T Consensus        18 ~~~~~~~~~~~~~~~l~~~~~~~------------~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~-~-~-~~   82 (316)
T PHA02544         18 STIDECILPAADKETFKSIVKKG------------RIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSD-C-R-ID   82 (316)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhcC------------CCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCc-c-c-HH
Confidence            68899999999999999887431            13456777999999999999999999988888888765 1 1 11


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCcc
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l  175 (441)
                      .....+.....   .......+.+++|||+|.+..         ......+...++....      ++.+|.++|.+..+
T Consensus        83 ~i~~~l~~~~~---~~~~~~~~~vliiDe~d~l~~---------~~~~~~L~~~le~~~~------~~~~Ilt~n~~~~l  144 (316)
T PHA02544         83 FVRNRLTRFAS---TVSLTGGGKVIIIDEFDRLGL---------ADAQRHLRSFMEAYSK------NCSFIITANNKNGI  144 (316)
T ss_pred             HHHHHHHHHHH---hhcccCCCeEEEEECcccccC---------HHHHHHHHHHHHhcCC------CceEEEEcCChhhc
Confidence            11111211111   111123478999999987621         1234445555654322      46788889988899


Q ss_pred             CHHHhhCCccceEEEecCCCHHHHHHHHHHH
Q 013506          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLY  206 (441)
Q Consensus       176 ~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~  206 (441)
                      .+.+.+  ||. .+.++.|+.+++..++...
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 7899999999998776654

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=99.57  E-value=2.2e-14  Score=133.32  Aligned_cols=147  Identities=29%  Similarity=0.267  Sum_probs=100.1

Q ss_pred             cccCchhHHHHHHHHHhcccCCchhhhh---cCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh-hccC
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSR---LGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MYVG  366 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~---~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~-~~~g  366 (441)
                      .+.|++.+++.+...+............   -...+..++||+||||||||++|+++|..++.+++.++++.+.. .|+|
T Consensus        72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~~~l~~~gyvG  151 (412)
T PRK05342         72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADATTLTEAGYVG  151 (412)
T ss_pred             HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecchhhcccCCccc
Confidence            3789999998886655321111111000   01124578999999999999999999999999999999988653 5888


Q ss_pred             chHHH-HHHHHHHH----HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCC------------CCCe
Q 013506          367 ESEAL-LRNTFQRA----RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE------------QAKV  429 (441)
Q Consensus       367 ~~~~~-~~~~~~~a----~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~------------~~~~  429 (441)
                      +.... +..+++.+    ....++||||||||++.+.+++.+.+.+-.+..+.+.||+.||+..            ....
T Consensus       152 ~d~e~~l~~l~~~~~~~~~~a~~gIi~iDEIdkl~~~~~~~~~~~d~s~~~vQ~~LL~~Leg~~~~v~~~gg~~~~~~~~  231 (412)
T PRK05342        152 EDVENILLKLLQAADYDVEKAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVASVPPQGGRKHPQQEF  231 (412)
T ss_pred             chHHHHHHHHHHhccccHHHcCCcEEEEechhhhccccCCCCcCCCcccHHHHHHHHHHHhcCeEEeCCCCCcCcCCCCe
Confidence            76443 45555432    2346789999999999877544333333334578999999998631            1234


Q ss_pred             EEEEeeee
Q 013506          430 IIYPISFI  437 (441)
Q Consensus       430 v~~~~~~~  437 (441)
                      ++|.++|+
T Consensus       232 ~~i~t~ni  239 (412)
T PRK05342        232 IQVDTTNI  239 (412)
T ss_pred             EEeccCCc
Confidence            67777777

>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=99.56  E-value=1.1e-14  Score=128.43  Aligned_cols=141  Identities=21%  Similarity=0.296  Sum_probs=104.8

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCc
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGE  367 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~  367 (441)
                      .+..++-...+++.+.++-..     .........|-++++||||||||||.+|+-+|...|++.-.+.+.|+-- .-.+
T Consensus       353 pl~~ViL~psLe~Rie~lA~a-----TaNTK~h~apfRNilfyGPPGTGKTm~ArelAr~SGlDYA~mTGGDVAP-lG~q  426 (630)
T KOG0742|consen  353 PLEGVILHPSLEKRIEDLAIA-----TANTKKHQAPFRNILFYGPPGTGKTMFARELARHSGLDYAIMTGGDVAP-LGAQ  426 (630)
T ss_pred             CcCCeecCHHHHHHHHHHHHH-----hcccccccchhhheeeeCCCCCCchHHHHHHHhhcCCceehhcCCCccc-cchH
Confidence            355566666666666554321     1111123355678999999999999999999999999998888888533 3345


Q ss_pred             hHHHHHHHHHHHHhcCCe-EEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          368 SEALLRNTFQRARLAAPS-IIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       368 ~~~~~~~~~~~a~~~~~~-vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      ....+.++|+.+..++.. +|||||+|.+++.|..  +..++.....+|.|| +-.|-.+++.|+++|||-
T Consensus       427 aVTkiH~lFDWakkS~rGLllFIDEADAFLceRnk--tymSEaqRsaLNAlL-fRTGdqSrdivLvlAtNr  494 (630)
T KOG0742|consen  427 AVTKIHKLFDWAKKSRRGLLLFIDEADAFLCERNK--TYMSEAQRSALNALL-FRTGDQSRDIVLVLATNR  494 (630)
T ss_pred             HHHHHHHHHHHHhhcccceEEEehhhHHHHHHhch--hhhcHHHHHHHHHHH-HHhcccccceEEEeccCC
Confidence            577899999999876544 8999999999998854  344555677899999 455778899999999984

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.56  E-value=4.4e-13  Score=121.81  Aligned_cols=183  Identities=21%  Similarity=0.355  Sum_probs=124.3

Q ss_pred             cccchHHHHHHHHHHHHhhccCchHHHhc-CCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc-cccc-c
Q 013506           20 AIGGNRAAVEALRELITFPLLYSSQAQKL-GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-AHVG-E   96 (441)
Q Consensus        20 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~-~~~~-~   96 (441)
                      -++|++++|+.+..++............+ .-.++++++|+||||||||++++.++..++.+++.+++..+.. .+.+ +
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            49999999999998886532222111111 1124589999999999999999999999999999999876653 4444 3


Q ss_pred             hHHHHHHHHHHHHh--------------------------------h---------------------------------
Q 013506           97 SEKALREAFSQASS--------------------------------H---------------------------------  111 (441)
Q Consensus        97 ~~~~~~~~~~~~~~--------------------------------~---------------------------------  111 (441)
                      .+..++.++..+..                                .                                 
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            33334433333200                                0                                 


Q ss_pred             ----------------------------------------------------------------------hhcCCCeEEE
Q 013506          112 ----------------------------------------------------------------------ALSGKPSVVF  121 (441)
Q Consensus       112 ----------------------------------------------------------------------~~~~~~~il~  121 (441)
                                                                                            ....+.+|+|
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                                                                                  0012456999


Q ss_pred             EccccccccCCCC-C-chhhHHHHHHHHHHHhcCCCCC----CCCCeEEEEEEc----CCCCccCHHHhhCCccceEEEe
Q 013506          122 IDEIDALCPRRDH-R-REQDVRIASQLFTLMDSNKPSK----TSVPHVVVVAST----NRVDAIDPALRRSGRFDAEVEV  191 (441)
Q Consensus       122 iDe~~~l~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~----~~~~~~~vi~~~----~~~~~l~~~l~~~~r~~~~i~~  191 (441)
                      |||+|.++..... + .-...-+++.|+..+++.....    ....+++||++.    ..|..|-|.|.-  ||..++.+
T Consensus       253 iDEiDKIa~~~~~~~~DvS~eGVQ~~LLkilEGt~v~~k~~~v~T~~ILFI~~GAF~~~kp~DlIPEl~G--R~Pi~v~L  330 (441)
T TIGR00390       253 IDEIDKIAKKGESSGADVSREGVQRDLLPIVEGSTVNTKYGMVKTDHILFIAAGAFQLAKPSDLIPELQG--RFPIRVEL  330 (441)
T ss_pred             EEchhhhcccCCCCCCCCCccchhccccccccCceeeecceeEECCceeEEecCCcCCCChhhccHHHhC--ccceEEEC
Confidence            9999999876521 1 2233457888999888743221    123467888764    245667788876  99999999


Q ss_pred             cCCCHHHHHHHHH
Q 013506          192 TVPTAEERFEILK  204 (441)
Q Consensus       192 ~~p~~~~~~~il~  204 (441)
                      .+++.++..+|+.
T Consensus       331 ~~L~~edL~rILt  343 (441)
T TIGR00390       331 QALTTDDFERILT  343 (441)
T ss_pred             CCCCHHHHHHHhc
Confidence            9999999999983

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.

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.56  E-value=4.3e-13  Score=131.33  Aligned_cols=191  Identities=21%  Similarity=0.250  Sum_probs=129.0

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEE----ccC----
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI----SPH----   87 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v----~~~----   87 (441)
                      ..|++++|++.+++.|.+++...            ...+++||+||+|+|||++|+.+++.+.......    .|.    
T Consensus        13 ~~f~~liGq~~i~~~L~~~l~~~------------rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~~   80 (620)
T PRK14948         13 QRFDELVGQEAIATTLKNALISN------------RIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCEL   80 (620)
T ss_pred             CcHhhccChHHHHHHHHHHHHcC------------CCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccHH
Confidence            67899999999999999988541            1246899999999999999999999986521100    000    


Q ss_pred             ----------ccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCC
Q 013506           88 ----------SVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP  155 (441)
Q Consensus        88 ----------~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~  155 (441)
                                ++.  ..........++++...+......+...|+||||+|.|          .....+.|+..++... 
T Consensus        81 C~~i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~L----------t~~a~naLLK~LEePp-  149 (620)
T PRK14948         81 CRAIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHML----------STAAFNALLKTLEEPP-  149 (620)
T ss_pred             HHHHhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECcccc----------CHHHHHHHHHHHhcCC-
Confidence                      000  00111233456666665554443455679999999988          3356788888888632 


Q ss_pred             CCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCHHHHH
Q 013506          156 SKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLE  234 (441)
Q Consensus       156 ~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~~~i~  234 (441)
                           ..+++|.+++.+..+.+.+++  |+. .+.|..++.++....+.....+.....+ ..+..++..+.|. .+.+.
T Consensus       150 -----~~tvfIL~t~~~~~llpTIrS--Rc~-~~~f~~l~~~ei~~~L~~ia~kegi~is~~al~~La~~s~G~-lr~A~  220 (620)
T PRK14948        150 -----PRVVFVLATTDPQRVLPTIIS--RCQ-RFDFRRIPLEAMVQHLSEIAEKESIEIEPEALTLVAQRSQGG-LRDAE  220 (620)
T ss_pred             -----cCeEEEEEeCChhhhhHHHHh--hee-EEEecCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCC-HHHHH
Confidence                 246777777777788888888  885 7899999999988888777666544332 2356666666653 34443


Q ss_pred             HHHH
Q 013506          235 ALCR  238 (441)
Q Consensus       235 ~l~~  238 (441)
                      .+++
T Consensus       221 ~lLe  224 (620)
T PRK14948        221 SLLD  224 (620)
T ss_pred             HHHH
Confidence            4333

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.56  E-value=7.4e-13  Score=124.32  Aligned_cols=221  Identities=21%  Similarity=0.264  Sum_probs=130.7

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC---------CcEEEEccCcc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---------AHLTVISPHSV   89 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~---------~~~~~v~~~~~   89 (441)
                      ++++|.++.++.|..++.....        + ..+.+++|+||||||||++++.+++.+.         ..++++++...
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            5799999999999998754211        1 2346799999999999999999987653         35677777543


Q ss_pred             cccc--c-----------------c-chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHH
Q 013506           90 HKAH--V-----------------G-ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (441)
Q Consensus        90 ~~~~--~-----------------~-~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~  149 (441)
                      ....  .                 + ........++....   ...++.||+|||+|.+....       ...+..+..+
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            2210  0                 0 00111112222111   12446799999999986211       1234444443


Q ss_pred             HhcCCCCCCCCCeEEEEEEcCCCC---ccCHHHhhCCccc-eEEEecCCCHHHHHHHHHHHhccCCC--CCccc-HHHH-
Q 013506          150 MDSNKPSKTSVPHVVVVASTNRVD---AIDPALRRSGRFD-AEVEVTVPTAEERFEILKLYTKKVPL--DANVD-LEAI-  221 (441)
Q Consensus       150 ~~~~~~~~~~~~~~~vi~~~~~~~---~l~~~l~~~~r~~-~~i~~~~p~~~~~~~il~~~~~~~~~--~~~~~-~~~l-  221 (441)
                      .+...   ....++.+|+++|.+.   .+++++.+  ||. ..+.|++++.+++.+|++..+.....  ..+.+ ++.+ 
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   1223678888888775   57788877  664 57999999999999999988752111  11111 2333 


Q ss_pred             --HHHCCCCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhhc
Q 013506          222 --ATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVV  272 (441)
Q Consensus       222 --~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~  272 (441)
                        +..+.|. .+.+..+++.+...+..+.        ...++.+++..+....
T Consensus       231 ~~~~~~~Gd-~R~al~~l~~a~~~a~~~~--------~~~it~~~v~~a~~~~  274 (365)
T TIGR02928       231 ALAAQEHGD-ARKAIDLLRVAGEIAEREG--------AERVTEDHVEKAQEKI  274 (365)
T ss_pred             HHHHHhcCC-HHHHHHHHHHHHHHHHHcC--------CCCCCHHHHHHHHHHH
Confidence              3333443 4444556666655444332        1246677776655533

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.

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=99.55  E-value=3.4e-14  Score=131.17  Aligned_cols=147  Identities=31%  Similarity=0.324  Sum_probs=100.3

Q ss_pred             cccCchhHHHHHHHHHhcccCCchhh--hh--cCC-CCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh-hc
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTAF--SR--LGI-SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MY  364 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~--~~--~~~-~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~-~~  364 (441)
                      .+.|+++.++.+...+-.........  ..  .+. ....++||+||||||||++|+++|..++.++..++.+.+.. .|
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            46888888888876552111111000  00  001 12468999999999999999999999999999998887653 48


Q ss_pred             cCch-HHHHHHHHHHH----HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCC------------CC
Q 013506          365 VGES-EALLRNTFQRA----RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE------------QA  427 (441)
Q Consensus       365 ~g~~-~~~~~~~~~~a----~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~------------~~  427 (441)
                      +|+. +..+..+++.+    ....++||||||+|++.+++.+.+.+.+-.+..+.+.||+.|+|..            ..
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            8876 34455555432    2345679999999999987654433333344578999999998742            23


Q ss_pred             CeEEEEeeee
Q 013506          428 KVIIYPISFI  437 (441)
Q Consensus       428 ~~v~~~~~~~  437 (441)
                      ..++|.+||+
T Consensus       238 ~~i~i~TsNi  247 (413)
T TIGR00382       238 EFIQIDTSNI  247 (413)
T ss_pred             CeEEEEcCCc
Confidence            4588999998

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.55  E-value=6.4e-13  Score=130.74  Aligned_cols=228  Identities=23%  Similarity=0.354  Sum_probs=133.1

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~v~   85 (441)
                      .+|++++|++...+.+.+.+..             ..+.+++|+|||||||||+++.+.+..          +.+++.++
T Consensus       151 ~~~~~iiGqs~~~~~l~~~ia~-------------~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~  217 (615)
T TIGR02903       151 RAFSEIVGQERAIKALLAKVAS-------------PFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVD  217 (615)
T ss_pred             CcHHhceeCcHHHHHHHHHHhc-------------CCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEe
Confidence            5778999999998887665532             235689999999999999999998655          34578888


Q ss_pred             cCccccc-------cccchHH----HHHHHHHHH------HhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHH
Q 013506           86 PHSVHKA-------HVGESEK----ALREAFSQA------SSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFT  148 (441)
Q Consensus        86 ~~~~~~~-------~~~~~~~----~~~~~~~~~------~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~  148 (441)
                      +..+...       ..+....    .....+...      ........+++|||||++.|          +...+..++.
T Consensus       218 ~~~l~~d~~~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~L----------d~~~Q~~Ll~  287 (615)
T TIGR02903       218 GTTLRWDPREVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGEL----------DPLLQNKLLK  287 (615)
T ss_pred             chhccCCHHHHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccC----------CHHHHHHHHH
Confidence            7654210       0110000    000000000      00000112569999999877          4456667777


Q ss_pred             HHhcCCC----------------------CCCCCCeEEEEE-EcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHH
Q 013506          149 LMDSNKP----------------------SKTSVPHVVVVA-STNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKL  205 (441)
Q Consensus       149 ~~~~~~~----------------------~~~~~~~~~vi~-~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~  205 (441)
                      .++....                      ......++++++ |++.+..+++++.+  ||. .+.+++++.+++..|++.
T Consensus       288 ~Le~~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrS--R~~-~i~~~pls~edi~~Il~~  364 (615)
T TIGR02903       288 VLEDKRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRS--RCA-EVFFEPLTPEDIALIVLN  364 (615)
T ss_pred             HHhhCeEEeecceeccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHh--cee-EEEeCCCCHHHHHHHHHH
Confidence            7754210                      001122355555 45567789999988  886 678999999999999999


Q ss_pred             HhccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhh
Q 013506          206 YTKKVPLDANVD-LEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       206 ~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~  271 (441)
                      .+.......+.. ++.++..+.  .++..-+.+..+......+............++.+++......
T Consensus       365 ~a~~~~v~ls~eal~~L~~ys~--~gRraln~L~~~~~~~~~~~~~~~~~~~~~~I~~edv~~~l~~  429 (615)
T TIGR02903       365 AAEKINVHLAAGVEELIARYTI--EGRKAVNILADVYGYALYRAAEAGKENDKVTITQDDVYEVIQI  429 (615)
T ss_pred             HHHHcCCCCCHHHHHHHHHCCC--cHHHHHHHHHHHHHHHHHHHHHhccCCCCeeECHHHHHHHhCC
Confidence            887654433323 344444333  3444434444443332222110011112356788888777653

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.

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.55  E-value=7.1e-13  Score=129.04  Aligned_cols=188  Identities=15%  Similarity=0.249  Sum_probs=125.2

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEE----------Ec
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV----------IS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~----------v~   85 (441)
                      ..|++++|++.+++.|.+++...            ..++.+||+||+||||||+|+.+|+.+....-.          -.
T Consensus        13 ~~f~eivGQe~i~~~L~~~i~~~------------ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~   80 (620)
T PRK14954         13 SKFADITAQEHITHTIQNSLRMD------------RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEP   80 (620)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC------------CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCC
Confidence            56799999999999999987441            235679999999999999999999998652100          00


Q ss_pred             cC--------------ccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHH
Q 013506           86 PH--------------SVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (441)
Q Consensus        86 ~~--------------~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~  149 (441)
                      |.              ++.  ..........++.+.+........+...|++|||+|.+          .....+.|+..
T Consensus        81 Cg~C~sC~~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~L----------t~~a~naLLK~  150 (620)
T PRK14954         81 CGECESCRDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHML----------STAAFNAFLKT  150 (620)
T ss_pred             CccCHHHHHHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhc----------CHHHHHHHHHH
Confidence            00              000  00000112345555555444344456789999999987          23457788888


Q ss_pred             HhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCC
Q 013506          150 MDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGY  228 (441)
Q Consensus       150 ~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~  228 (441)
                      ++....      .+++|.+++.+..+.+.+.+  |+. .+.|..++.++....+...+.......+ ..++.++..+.| 
T Consensus       151 LEePp~------~tv~IL~t~~~~kLl~TI~S--Rc~-~vef~~l~~~ei~~~L~~i~~~egi~I~~eal~~La~~s~G-  220 (620)
T PRK14954        151 LEEPPP------HAIFIFATTELHKIPATIAS--RCQ-RFNFKRIPLDEIQSQLQMICRAEGIQIDADALQLIARKAQG-  220 (620)
T ss_pred             HhCCCC------CeEEEEEeCChhhhhHHHHh--hce-EEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCC-
Confidence            887432      35666666667888888888  775 8999999999999888887766554332 235666666665 


Q ss_pred             CHHHHHH
Q 013506          229 VGADLEA  235 (441)
Q Consensus       229 ~~~~i~~  235 (441)
                      +.+.+..
T Consensus       221 dlr~al~  227 (620)
T PRK14954        221 SMRDAQS  227 (620)
T ss_pred             CHHHHHH
Confidence            3343333

>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=99.53  E-value=3e-13  Score=115.99  Aligned_cols=195  Identities=25%  Similarity=0.360  Sum_probs=115.0

Q ss_pred             ccccc-cc--hHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEccCc
Q 013506           17 AEEAI-GG--NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHS   88 (441)
Q Consensus        17 ~~~~i-~G--~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l-----~~~~~~v~~~~   88 (441)
                      +|++. +|  ++.+......+...+          + ....+++|+||+|+|||+|++++++++     +..++++++.+
T Consensus         6 tFdnfv~g~~N~~a~~~~~~ia~~~----------~-~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~   74 (219)
T PF00308_consen    6 TFDNFVVGESNELAYAAAKAIAENP----------G-ERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEE   74 (219)
T ss_dssp             SCCCS--TTTTHHHHHHHHHHHHST----------T-TSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHH
T ss_pred             ccccCCcCCcHHHHHHHHHHHHhcC----------C-CCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHH
Confidence            34554 35  455565555544331          1 123579999999999999999998765     45678888776


Q ss_pred             cccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEE
Q 013506           89 VHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (441)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~  168 (441)
                      +...............|....     ...++|+|||++.+..        ...++..++.+++......    +-+++++
T Consensus        75 f~~~~~~~~~~~~~~~~~~~~-----~~~DlL~iDDi~~l~~--------~~~~q~~lf~l~n~~~~~~----k~li~ts  137 (219)
T PF00308_consen   75 FIREFADALRDGEIEEFKDRL-----RSADLLIIDDIQFLAG--------KQRTQEELFHLFNRLIESG----KQLILTS  137 (219)
T ss_dssp             HHHHHHHHHHTTSHHHHHHHH-----CTSSEEEEETGGGGTT--------HHHHHHHHHHHHHHHHHTT----SEEEEEE
T ss_pred             HHHHHHHHHHcccchhhhhhh-----hcCCEEEEecchhhcC--------chHHHHHHHHHHHHHHhhC----CeEEEEe
Confidence            654332211111011121111     1367999999998742        2245566666655533221    2455665


Q ss_pred             cCCCC---ccCHHHhhCCccc--eEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHHHHH
Q 013506          169 TNRVD---AIDPALRRSGRFD--AEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       169 ~~~~~---~l~~~l~~~~r~~--~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                      ...|.   .+++++.+  |+.  ..+.+.+|+.+.+.+|++..........+.+ ++.++.... -+.+.+..++.....
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--RLSWGLVVELQPPDDEDRRRILQKKAKERGIELPEEVIEYLARRFR-RDVRELEGALNRLDA  214 (219)
T ss_dssp             SS-TTTTTTS-HHHHH--HHHCSEEEEE----HHHHHHHHHHHHHHTT--S-HHHHHHHHHHTT-SSHHHHHHHHHHHHH
T ss_pred             CCCCccccccChhhhh--hHhhcchhhcCCCCHHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhc-CCHHHHHHHHHHHHH
Confidence            55555   35688988  664  6899999999999999999888877765544 566666654 467777777665543

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.

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.53  E-value=9.2e-13  Score=129.49  Aligned_cols=186  Identities=20%  Similarity=0.295  Sum_probs=126.3

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcE--------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL--------------   81 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~--------------   81 (441)
                      ..|++++|++.+++.|..++...            ..++.+||+||+|+|||++++.+++.++...              
T Consensus        13 ~~~~eiiGq~~~~~~L~~~i~~~------------~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c   80 (585)
T PRK14950         13 QTFAELVGQEHVVQTLRNAIAEG------------RVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMC   80 (585)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHhC------------CCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHH
Confidence            57799999999999999887541            2346789999999999999999999885321              


Q ss_pred             -----------EEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHH
Q 013506           82 -----------TVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM  150 (441)
Q Consensus        82 -----------~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~  150 (441)
                                 +.++..      .......++.+..........+...|+||||+|.|          .....+.|+..+
T Consensus        81 ~~i~~~~~~d~~~i~~~------~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L----------~~~a~naLLk~L  144 (585)
T PRK14950         81 RAIAEGSAVDVIEMDAA------SHTSVDDAREIIERVQFRPALARYKVYIIDEVHML----------STAAFNALLKTL  144 (585)
T ss_pred             HHHhcCCCCeEEEEecc------ccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhC----------CHHHHHHHHHHH
Confidence                       111110      01112234444443333333345679999999987          235577788888


Q ss_pred             hcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCC
Q 013506          151 DSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYV  229 (441)
Q Consensus       151 ~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~  229 (441)
                      +...      +++++|.+++....+.+.+.+  |+. .+.|..++..+...++...+.......+. .+..++..+.| +
T Consensus       145 Eepp------~~tv~Il~t~~~~kll~tI~S--R~~-~i~f~~l~~~el~~~L~~~a~~egl~i~~eal~~La~~s~G-d  214 (585)
T PRK14950        145 EEPP------PHAIFILATTEVHKVPATILS--RCQ-RFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATG-S  214 (585)
T ss_pred             hcCC------CCeEEEEEeCChhhhhHHHHh--ccc-eeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-C
Confidence            7643      246666667777778888887  775 78999999999999988887766554332 35666666665 5


Q ss_pred             HHHHHHHHHH
Q 013506          230 GADLEALCRE  239 (441)
Q Consensus       230 ~~~i~~l~~~  239 (441)
                      .+.+.+.++.
T Consensus       215 lr~al~~Lek  224 (585)
T PRK14950        215 MRDAENLLQQ  224 (585)
T ss_pred             HHHHHHHHHH
Confidence            5555555444

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.53  E-value=4.1e-12  Score=110.72  Aligned_cols=126  Identities=27%  Similarity=0.319  Sum_probs=88.0

Q ss_pred             CeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCC------------CCccCHHHhhCCc
Q 013506          117 PSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR------------VDAIDPALRRSGR  184 (441)
Q Consensus       117 ~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~------------~~~l~~~l~~~~r  184 (441)
                      |.||||||+|.|          +.++...|.+.++..-.      . ++|.++|+            |.-+|..++.  |
T Consensus       292 pGVLFIDEvHmL----------DIE~FsFlnrAlEse~a------P-Iii~AtNRG~~kiRGTd~~sPhGIP~DlLD--R  352 (450)
T COG1224         292 PGVLFIDEVHML----------DIECFSFLNRALESELA------P-IIILATNRGMTKIRGTDIESPHGIPLDLLD--R  352 (450)
T ss_pred             cceEEEechhhh----------hHHHHHHHHHHhhcccC------c-EEEEEcCCceeeecccCCcCCCCCCHhhhh--h
Confidence            679999999988          66778888888876432      2 44445553            4567888888  8


Q ss_pred             cceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHh
Q 013506          185 FDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTME  263 (441)
Q Consensus       185 ~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e  263 (441)
                      .- ++...+++.++..+|++..........+.+ ++.+++.....+-+..-+++.-+...+..+...        .+..+
T Consensus       353 ll-II~t~py~~~EireIi~iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~--------~V~~~  423 (450)
T COG1224         353 LL-IISTRPYSREEIREIIRIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSK--------RVEVE  423 (450)
T ss_pred             ee-EEecCCCCHHHHHHHHHHhhhhhccccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCC--------eeehh
Confidence            74 889999999999999998887766654433 677777666666666666666666666665432        35566


Q ss_pred             hHHhhhh
Q 013506          264 DWRHARS  270 (441)
Q Consensus       264 ~~~~~~~  270 (441)
                      |+..+..
T Consensus       424 dVe~a~~  430 (450)
T COG1224         424 DVERAKE  430 (450)
T ss_pred             HHHHHHH
Confidence            6655433

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.53  E-value=1.2e-12  Score=120.77  Aligned_cols=185  Identities=21%  Similarity=0.247  Sum_probs=120.1

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC-----cEEEEccCccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HLTVISPHSVH   90 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~-----~~~~v~~~~~~   90 (441)
                      .++++++|++.+++.|..++...             ...+++|+||||||||++++.+++.+..     .++.+++....
T Consensus        14 ~~~~~~~g~~~~~~~l~~~i~~~-------------~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~   80 (319)
T PRK00440         14 RTLDEIVGQEEIVERLKSYVKEK-------------NMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDER   80 (319)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhCC-------------CCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEecccccc
Confidence            56799999999999999887431             2236999999999999999999998743     23444332211


Q ss_pred             cccccchHHHHHHHHHHHHhhh-hc-CCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEE
Q 013506           91 KAHVGESEKALREAFSQASSHA-LS-GKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (441)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~  168 (441)
                            ....+...+....... .. ..+.+++|||++.+.          ......+...++....      ++.+|.+
T Consensus        81 ------~~~~~~~~i~~~~~~~~~~~~~~~vviiDe~~~l~----------~~~~~~L~~~le~~~~------~~~lIl~  138 (319)
T PRK00440         81 ------GIDVIRNKIKEFARTAPVGGAPFKIIFLDEADNLT----------SDAQQALRRTMEMYSQ------NTRFILS  138 (319)
T ss_pred             ------chHHHHHHHHHHHhcCCCCCCCceEEEEeCcccCC----------HHHHHHHHHHHhcCCC------CCeEEEE
Confidence                  1111222222211111 11 235799999998772          1334566666665332      3456666


Q ss_pred             cCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCC-cccHHHHHHHCCCCCHHHHHHHHHH
Q 013506          169 TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEALCRE  239 (441)
Q Consensus       169 ~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~-~~~~~~l~~~~~g~~~~~i~~l~~~  239 (441)
                      ++.+..+.+.+.+  |+. .+.+++++.++...++...+....... +..+..++..+.| +.+.+.+.++.
T Consensus       139 ~~~~~~l~~~l~s--r~~-~~~~~~l~~~ei~~~l~~~~~~~~~~i~~~al~~l~~~~~g-d~r~~~~~l~~  206 (319)
T PRK00440        139 CNYSSKIIDPIQS--RCA-VFRFSPLKKEAVAERLRYIAENEGIEITDDALEAIYYVSEG-DMRKAINALQA  206 (319)
T ss_pred             eCCccccchhHHH--Hhh-eeeeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHH
Confidence            7777777778887  775 689999999999999998887766543 3347777777665 34444444443

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=99.52  E-value=5.2e-13  Score=133.09  Aligned_cols=208  Identities=19%  Similarity=0.253  Sum_probs=134.4

Q ss_pred             cccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccc-----c
Q 013506           20 AIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAH-----V   94 (441)
Q Consensus        20 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~-----~   94 (441)
                      .|+|++++++.|.+.+......-..    .-+|..+++|+||||||||++|+.+|+.++.+++.+++.++....     .
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~gl~~----~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~~~~~~~Li  534 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRAGLGH----EHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLI  534 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhccccC----CCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcccccHHHHc
Confidence            4899999999999998652211000    112345799999999999999999999999999999887764321     1


Q ss_pred             cch----HHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCC-----CCCCCCeEEE
Q 013506           95 GES----EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP-----SKTSVPHVVV  165 (441)
Q Consensus        95 ~~~----~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~-----~~~~~~~~~v  165 (441)
                      +..    .......+.....   ....+|+|+||+|.+          +.++.+.|+..++....     ......++++
T Consensus       535 G~~~gyvg~~~~g~L~~~v~---~~p~sVlllDEieka----------~~~v~~~LLq~ld~G~ltd~~g~~vd~rn~ii  601 (758)
T PRK11034        535 GAPPGYVGFDQGGLLTDAVI---KHPHAVLLLDEIEKA----------HPDVFNLLLQVMDNGTLTDNNGRKADFRNVVL  601 (758)
T ss_pred             CCCCCcccccccchHHHHHH---hCCCcEEEeccHhhh----------hHHHHHHHHHHHhcCeeecCCCceecCCCcEE
Confidence            100    0000111211111   123589999999988          34678888888875322     1123346788


Q ss_pred             EEEcCCC-------------------------CccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhcc-------CCCC
Q 013506          166 VASTNRV-------------------------DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK-------VPLD  213 (441)
Q Consensus       166 i~~~~~~-------------------------~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~-------~~~~  213 (441)
                      |+|+|.-                         ..+.|.+..  |++.++.|++.+.++..+|+...+..       ....
T Consensus       602 I~TsN~g~~~~~~~~~g~~~~~~~~~~~~~~~~~f~pefl~--Rid~ii~f~~L~~~~l~~I~~~~l~~~~~~l~~~~i~  679 (758)
T PRK11034        602 VMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQVVDKFIVELQAQLDQKGVS  679 (758)
T ss_pred             EEeCCcCHHHHhhcccCcccchhhHHHHHHHHHhcCHHHHc--cCCEEEEcCCCCHHHHHHHHHHHHHHHHHHHHHCCCC
Confidence            9998832                         125578877  99999999999999999998765432       2232


Q ss_pred             Cccc---HHHHHHHC--CCCCHHHHHHHHHHHHHHHHH
Q 013506          214 ANVD---LEAIATSC--NGYVGADLEALCREATMSAVK  246 (441)
Q Consensus       214 ~~~~---~~~l~~~~--~g~~~~~i~~l~~~a~~~~~~  246 (441)
                      ...+   .+.++...  ..+..|.++.+++......+.
T Consensus       680 l~~~~~~~~~l~~~~~~~~~GAR~l~r~i~~~l~~~la  717 (758)
T PRK11034        680 LEVSQEARDWLAEKGYDRAMGARPMARVIQDNLKKPLA  717 (758)
T ss_pred             ceECHHHHHHHHHhCCCCCCCCchHHHHHHHHHHHHHH
Confidence            2222   44455433  235567788777766555444

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

Probab=99.52  E-value=5.7e-14  Score=124.54  Aligned_cols=113  Identities=31%  Similarity=0.412  Sum_probs=82.3

Q ss_pred             ccccccccCchhHH---HHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh
Q 013506          286 KVTWEDIGGLRDLK---KKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (441)
Q Consensus       286 ~~~~~~i~g~~~~k---~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~  362 (441)
                      ..++++++|++++.   ..+...++.             ..-.+++|+|||||||||+|+++|...+..|..++.     
T Consensus        20 P~~lde~vGQ~HLlg~~~~lrr~v~~-------------~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sA-----   81 (436)
T COG2256          20 PKSLDEVVGQEHLLGEGKPLRRAVEA-------------GHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSA-----   81 (436)
T ss_pred             CCCHHHhcChHhhhCCCchHHHHHhc-------------CCCceeEEECCCCCCHHHHHHHHHHhhCCceEEecc-----
Confidence            34577777776653   333333321             234579999999999999999999999999999998     


Q ss_pred             hccCchHHHHHHHHHHHHhc----CCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          363 MYVGESEALLRNTFQRARLA----APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~----~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                        +-.+.+++++++++|+..    ...|||+|||+.+-..              =-+.||-.|+    .+.|+++|+|
T Consensus        82 --v~~gvkdlr~i~e~a~~~~~~gr~tiLflDEIHRfnK~--------------QQD~lLp~vE----~G~iilIGAT  139 (436)
T COG2256          82 --VTSGVKDLREIIEEARKNRLLGRRTILFLDEIHRFNKA--------------QQDALLPHVE----NGTIILIGAT  139 (436)
T ss_pred             --ccccHHHHHHHHHHHHHHHhcCCceEEEEehhhhcChh--------------hhhhhhhhhc----CCeEEEEecc
Confidence              445678899999999543    3479999999998532              1367777775    3556666655

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.52  E-value=2e-12  Score=112.41  Aligned_cols=184  Identities=15%  Similarity=0.161  Sum_probs=110.7

Q ss_pred             ccccccc-c-hHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC---CcEEEEccCccc
Q 013506           16 KAEEAIG-G-NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---AHLTVISPHSVH   90 (441)
Q Consensus        16 ~~~~~i~-G-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~---~~~~~v~~~~~~   90 (441)
                      ..|++.+ | +..+...+.++...             ....+++|+||+|||||+++++++..+.   ..+.+++.....
T Consensus        19 ~~fd~f~~~~n~~a~~~l~~~~~~-------------~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~   85 (235)
T PRK08084         19 ETFASFYPGDNDSLLAALQNALRQ-------------EHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRA   85 (235)
T ss_pred             CCccccccCccHHHHHHHHHHHhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHh
Confidence            3456644 4 66667777665422             1346899999999999999999988753   334555443321


Q ss_pred             cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcC
Q 013506           91 KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (441)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~  170 (441)
                      .        ....+.+...      +..+|+|||++.+...        ..+...++..+........   ..+++++.+
T Consensus        86 ~--------~~~~~~~~~~------~~dlliiDdi~~~~~~--------~~~~~~lf~l~n~~~e~g~---~~li~ts~~  140 (235)
T PRK08084         86 W--------FVPEVLEGME------QLSLVCIDNIECIAGD--------ELWEMAIFDLYNRILESGR---TRLLITGDR  140 (235)
T ss_pred             h--------hhHHHHHHhh------hCCEEEEeChhhhcCC--------HHHHHHHHHHHHHHHHcCC---CeEEEeCCC
Confidence            1        1111121111      1369999999987321        1233344444433221110   134555555


Q ss_pred             CCCc---cCHHHhhCCccc--eEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCHHHHHHHHHHH
Q 013506          171 RVDA---IDPALRRSGRFD--AEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVGADLEALCREA  240 (441)
Q Consensus       171 ~~~~---l~~~l~~~~r~~--~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~~~i~~l~~~a  240 (441)
                      ++..   +.+++.+  |+.  .++.+.+|+.+++.++++..........+. -++.++..+.+ +.+.+..+++..
T Consensus       141 ~p~~l~~~~~~L~S--Rl~~g~~~~l~~~~~~~~~~~l~~~a~~~~~~l~~~v~~~L~~~~~~-d~r~l~~~l~~l  213 (235)
T PRK08084        141 PPRQLNLGLPDLAS--RLDWGQIYKLQPLSDEEKLQALQLRARLRGFELPEDVGRFLLKRLDR-EMRTLFMTLDQL  213 (235)
T ss_pred             ChHHcCcccHHHHH--HHhCCceeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhhcC-CHHHHHHHHHHH
Confidence            6554   5789999  774  689999999999999998866555444333 36677776664 456666666654

>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=99.51  E-value=6.6e-14  Score=116.00  Aligned_cols=108  Identities=25%  Similarity=0.328  Sum_probs=72.0

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhcc
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYV  365 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~  365 (441)
                      ...++++.|+++++..+.-++..+...        -.+..|++|+||||+||||+|+.+|..++.++...+++.+-.   
T Consensus        20 P~~L~efiGQ~~l~~~l~i~i~aa~~r--------~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k---   88 (233)
T PF05496_consen   20 PKSLDEFIGQEHLKGNLKILIRAAKKR--------GEALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEK---   88 (233)
T ss_dssp             -SSCCCS-S-HHHHHHHHHHHHHHHCT--------TS---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--S---
T ss_pred             CCCHHHccCcHHHHhhhHHHHHHHHhc--------CCCcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhh---
Confidence            447889999999999877666532211        123458999999999999999999999999998877754321   


Q ss_pred             CchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          366 GESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       366 g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                         ..++..++...  ....|||||||+.+-              +..-+.|+..|++
T Consensus        89 ---~~dl~~il~~l--~~~~ILFIDEIHRln--------------k~~qe~LlpamEd  127 (233)
T PF05496_consen   89 ---AGDLAAILTNL--KEGDILFIDEIHRLN--------------KAQQEILLPAMED  127 (233)
T ss_dssp             ---CHHHHHHHHT----TT-EEEECTCCC----------------HHHHHHHHHHHHC
T ss_pred             ---HHHHHHHHHhc--CCCcEEEEechhhcc--------------HHHHHHHHHHhcc
Confidence               23455555554  345699999999985              3567889999985

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.

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.51  E-value=9.2e-13  Score=126.19  Aligned_cols=173  Identities=21%  Similarity=0.323  Sum_probs=109.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccccc
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDAL  128 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l-----~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l  128 (441)
                      ++++|||++|+|||+|++++++.+     +..++++++.++...............|....     .+.++|+|||++.+
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            569999999999999999999876     45678888777654332222111111222221     23689999999987


Q ss_pred             ccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCC---ccCHHHhhCCccceEEEecCCCHHHHHHHHHH
Q 013506          129 CPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD---AIDPALRRSGRFDAEVEVTVPTAEERFEILKL  205 (441)
Q Consensus       129 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~---~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~  205 (441)
                      ....        .....|+.+++......    +-+|+++...+.   .+++++.++.....++.+..|+.+.|.+|++.
T Consensus       390 ~gke--------~tqeeLF~l~N~l~e~g----k~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~k  457 (617)
T PRK14086        390 EDKE--------STQEEFFHTFNTLHNAN----KQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRK  457 (617)
T ss_pred             cCCH--------HHHHHHHHHHHHHHhcC----CCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHH
Confidence            4321        22344444444332211    124444443443   56789999333357889999999999999999


Q ss_pred             HhccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHHHHHHH
Q 013506          206 YTKKVPLDANVD-LEAIATSCNGYVGADLEALCREATMSA  244 (441)
Q Consensus       206 ~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~a~~~~  244 (441)
                      .+....+....+ ++.++.... -+.+.+..++......+
T Consensus       458 ka~~r~l~l~~eVi~yLa~r~~-rnvR~LegaL~rL~a~a  496 (617)
T PRK14086        458 KAVQEQLNAPPEVLEFIASRIS-RNIRELEGALIRVTAFA  496 (617)
T ss_pred             HHHhcCCCCCHHHHHHHHHhcc-CCHHHHHHHHHHHHHHH
Confidence            887766654433 677777665 35677777766655433

>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=99.51  E-value=6.5e-14  Score=114.58  Aligned_cols=111  Identities=23%  Similarity=0.316  Sum_probs=77.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCC----ceEEechhhhhhhccCchHHHHHHHHHHH----HhcCCeEEEEecccc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAAEA----SFFSLSGAELYSMYVGESEALLRNTFQRA----RLAAPSIIFFDEADV  394 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~~~----~~~~i~~~~~~~~~~g~~~~~~~~~~~~a----~~~~~~vl~iDE~d~  394 (441)
                      |..+++|+||+|||||.+|+++|+.+..    +++.++++++...  ++.+..+.+++..+    ......|||||||||
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            5678999999999999999999999996    8999999987661  11111122222211    122223999999999


Q ss_pred             cccccCCCCCCCcchhhHHHHHHHHHhcC----------CCCCCeEEEEeeeee
Q 013506          395 VGAKRGGSSSTSITVGERLLSTLLTEMDG----------LEQAKVIIYPISFIF  438 (441)
Q Consensus       395 ~~~~r~~~~~~~~~~~~~~~~~ll~~l~~----------~~~~~~v~~~~~~~~  438 (441)
                      ++++   .+.+.+-.+..+.+.||+.||+          +.-.+.+||+++|+.
T Consensus        80 a~~~---~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~~  130 (171)
T PF07724_consen   80 AHPS---NSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNFG  130 (171)
T ss_dssp             CSHT---TTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESSS
T ss_pred             cccc---ccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEecccc
Confidence            9986   3334556678999999999975          222445777777764

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 ....

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.50  E-value=1.3e-12  Score=113.92  Aligned_cols=186  Identities=20%  Similarity=0.279  Sum_probs=116.4

Q ss_pred             cccccc--chHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCcccc
Q 013506           17 AEEAIG--GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHK   91 (441)
Q Consensus        17 ~~~~i~--G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~   91 (441)
                      +|++.+  +.+..++.+.+++..             ..+.+++|+||+|||||++++.+++..   +.+++++++..+..
T Consensus        13 ~~~~~~~~~~~~~~~~l~~~~~~-------------~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~~   79 (226)
T TIGR03420        13 TFDNFYAGGNAELLAALRQLAAG-------------KGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQ   79 (226)
T ss_pred             hhcCcCcCCcHHHHHHHHHHHhc-------------CCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHHH
Confidence            445554  466678887776521             346789999999999999999999876   35677777765432


Q ss_pred             ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCC
Q 013506           92 AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (441)
Q Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~  171 (441)
                      ..        ...+...      .+..+|+|||++.+...        ......+...++......    ..++++++..
T Consensus        80 ~~--------~~~~~~~------~~~~lLvIDdi~~l~~~--------~~~~~~L~~~l~~~~~~~----~~iIits~~~  133 (226)
T TIGR03420        80 AD--------PEVLEGL------EQADLVCLDDVEAIAGQ--------PEWQEALFHLYNRVREAG----GRLLIAGRAA  133 (226)
T ss_pred             hH--------HHHHhhc------ccCCEEEEeChhhhcCC--------hHHHHHHHHHHHHHHHcC----CeEEEECCCC
Confidence            11        1222111      12469999999987321        122344444444321111    2234433333


Q ss_pred             CCcc--C-HHHhhCCcc--ceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHHHHHHH
Q 013506          172 VDAI--D-PALRRSGRF--DAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVGADLEALCREATMSA  244 (441)
Q Consensus       172 ~~~l--~-~~l~~~~r~--~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~a~~~~  244 (441)
                      +..+  . +.+.+  |+  ...+.+++|+.+++..+++.+........+.. ++.++.. .+.+.+++..+++.+....
T Consensus       134 ~~~~~~~~~~L~~--r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~l~~L~~~-~~gn~r~L~~~l~~~~~~~  209 (226)
T TIGR03420       134 PAQLPLRLPDLRT--RLAWGLVFQLPPLSDEEKIAALQSRAARRGLQLPDEVADYLLRH-GSRDMGSLMALLDALDRAS  209 (226)
T ss_pred             hHHCCcccHHHHH--HHhcCeeEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHh-ccCCHHHHHHHHHHHHHHH
Confidence            4333  2 67776  55  46899999999999999988766555443333 6666664 5568888888888766433

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.

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.50  E-value=2.6e-12  Score=125.98  Aligned_cols=186  Identities=19%  Similarity=0.284  Sum_probs=131.8

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..|++|+|++.+++.|..++...            ..++.+||+||+|+|||++++.+++.+.+.               
T Consensus        14 ~~f~~viGq~~~~~~L~~~i~~~------------~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC   81 (614)
T PRK14971         14 STFESVVGQEALTTTLKNAIATN------------KLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESC   81 (614)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC------------CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHH
Confidence            56799999999999999988541            234669999999999999999999987532               


Q ss_pred             ----------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHH
Q 013506           81 ----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM  150 (441)
Q Consensus        81 ----------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~  150 (441)
                                ++.+++..      ......++.+...+......+...|++|||+|.|          +....+.|+..+
T Consensus        82 ~~~~~~~~~n~~~ld~~~------~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~L----------s~~a~naLLK~L  145 (614)
T PRK14971         82 VAFNEQRSYNIHELDAAS------NNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHML----------SQAAFNAFLKTL  145 (614)
T ss_pred             HHHhcCCCCceEEecccc------cCCHHHHHHHHHHHhhCcccCCcEEEEEECcccC----------CHHHHHHHHHHH
Confidence                      12222210      1113345566655554444556679999999987          335678888888


Q ss_pred             hcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCC
Q 013506          151 DSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYV  229 (441)
Q Consensus       151 ~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~  229 (441)
                      +....      ++++|.+++....+.+.+++  |+. .+.|.+++.++....+...+.......+.+ +..++..+.| +
T Consensus       146 Eepp~------~tifIL~tt~~~kIl~tI~S--Rc~-iv~f~~ls~~ei~~~L~~ia~~egi~i~~~al~~La~~s~g-d  215 (614)
T PRK14971        146 EEPPS------YAIFILATTEKHKILPTILS--RCQ-IFDFNRIQVADIVNHLQYVASKEGITAEPEALNVIAQKADG-G  215 (614)
T ss_pred             hCCCC------CeEEEEEeCCchhchHHHHh--hhh-eeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-C
Confidence            87432      45677777777888899988  885 799999999999999988877766654433 6667776654 4


Q ss_pred             HHHHHHHHHH
Q 013506          230 GADLEALCRE  239 (441)
Q Consensus       230 ~~~i~~l~~~  239 (441)
                      .+.+...++.
T Consensus       216 lr~al~~Lek  225 (614)
T PRK14971        216 MRDALSIFDQ  225 (614)
T ss_pred             HHHHHHHHHH
Confidence            4544444433

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.50  E-value=7.3e-12  Score=118.86  Aligned_cols=224  Identities=24%  Similarity=0.278  Sum_probs=133.8

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEccCcccccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAH   93 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l-----~~~~~~v~~~~~~~~~   93 (441)
                      +.++|.++..+.|...+...+.        + ..+.+++++||||||||++++.+++.+     +..++++++.......
T Consensus        30 ~~l~~Re~e~~~l~~~l~~~~~--------~-~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~  100 (394)
T PRK00411         30 ENLPHREEQIEELAFALRPALR--------G-SRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRY  100 (394)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhC--------C-CCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHH
Confidence            6799999999999988754221        1 234679999999999999999999877     3557788775432110


Q ss_pred             ----------cc----chHHHHHHHHHHHHhhhh-cCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCC
Q 013506           94 ----------VG----ESEKALREAFSQASSHAL-SGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKT  158 (441)
Q Consensus        94 ----------~~----~~~~~~~~~~~~~~~~~~-~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  158 (441)
                                .+    ........++........ .+++.||+|||+|.+....      ....+..++..++....   
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                      00    000001122222211111 2346899999999886211      12345666665554321   


Q ss_pred             CCCeEEEEEEcCCCC---ccCHHHhhCCccc-eEEEecCCCHHHHHHHHHHHhccCC---CCCcccHHHHHHHCCC--CC
Q 013506          159 SVPHVVVVASTNRVD---AIDPALRRSGRFD-AEVEVTVPTAEERFEILKLYTKKVP---LDANVDLEAIATSCNG--YV  229 (441)
Q Consensus       159 ~~~~~~vi~~~~~~~---~l~~~l~~~~r~~-~~i~~~~p~~~~~~~il~~~~~~~~---~~~~~~~~~l~~~~~g--~~  229 (441)
                        .++.+|+++|...   .+++++.+  |+. ..+.|++++.++..+|++..+....   .-.+..++.++..+.+  ..
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              1577777777653   46788777  553 4789999999999999998775421   1122224555555522  22


Q ss_pred             HHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhhc
Q 013506          230 GADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVV  272 (441)
Q Consensus       230 ~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~  272 (441)
                      .+.+-.++..+...+..+.        ...++.+++..+....
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            3444455555554444332        2346777777666544

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.50  E-value=2.6e-12  Score=125.33  Aligned_cols=180  Identities=20%  Similarity=0.230  Sum_probs=114.2

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC----------CcEEEEccCc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG----------AHLTVISPHS   88 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~----------~~~~~v~~~~   88 (441)
                      +.|.|.|+..+.|..++...+.        +-.++..++|+|+||||||++++.+++++.          ..+++++|..
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            6799999999999998854221        122334567999999999999999987761          4467888855


Q ss_pred             cccccc----------------c-chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           89 VHKAHV----------------G-ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        89 ~~~~~~----------------~-~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                      +.....                + .....+..+|.....  ......||+|||+|.|...       ..+++..|+++..
T Consensus       827 Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k--~~r~v~IIILDEID~L~kK-------~QDVLYnLFR~~~  897 (1164)
T PTZ00112        827 VVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKK--DNRNVSILIIDEIDYLITK-------TQKVLFTLFDWPT  897 (1164)
T ss_pred             cCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhc--ccccceEEEeehHhhhCcc-------HHHHHHHHHHHhh
Confidence            332210                0 011223333332211  1123569999999998642       2244555555433


Q ss_pred             cCCCCCCCCCeEEEEEEcCC---CCccCHHHhhCCccc-eEEEecCCCHHHHHHHHHHHhccCCCC-CcccHHHHHH
Q 013506          152 SNKPSKTSVPHVVVVASTNR---VDAIDPALRRSGRFD-AEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIAT  223 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~---~~~l~~~l~~~~r~~-~~i~~~~p~~~~~~~il~~~~~~~~~~-~~~~~~~l~~  223 (441)
                      .      ....+.+|+++|.   +..+++++.+  |+. ..+.|++|+.+++.+|+...+...... .+..++.++.
T Consensus       898 ~------s~SKLiLIGISNdlDLperLdPRLRS--RLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIAr  966 (1164)
T PTZ00112        898 K------INSKLVLIAISNTMDLPERLIPRCRS--RLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCAR  966 (1164)
T ss_pred             c------cCCeEEEEEecCchhcchhhhhhhhh--ccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Confidence            2      1226889999886   4467788888  554 248899999999999999887754211 2222555555

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.49  E-value=5.3e-13  Score=127.84  Aligned_cols=172  Identities=24%  Similarity=0.334  Sum_probs=108.3

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l-----~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~  127 (441)
                      .++++|+||+|+|||+|++++++.+     +..++++++.++...............|....     ...++|+|||++.
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            3679999999999999999999887     44577887766543322221111111122111     1367999999998


Q ss_pred             cccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCc---cCHHHhhCCccc--eEEEecCCCHHHHHHH
Q 013506          128 LCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA---IDPALRRSGRFD--AEVEVTVPTAEERFEI  202 (441)
Q Consensus       128 l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~---l~~~l~~~~r~~--~~i~~~~p~~~~~~~i  202 (441)
                      +....        .....++..++......    ..+++++..+|..   +++++.+  ||.  ..+.+.+|+.+++.+|
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            74321        12334444443322111    2355555555544   6788888  774  5799999999999999


Q ss_pred             HHHHhccCCCCCcc-cHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q 013506          203 LKLYTKKVPLDANV-DLEAIATSCNGYVGADLEALCREATMSA  244 (441)
Q Consensus       203 l~~~~~~~~~~~~~-~~~~l~~~~~g~~~~~i~~l~~~a~~~~  244 (441)
                      ++..+.......+. .++.++..+. -+.+.+..++......+
T Consensus       289 l~~~~~~~~~~l~~e~l~~ia~~~~-~~~R~l~~~l~~l~~~~  330 (450)
T PRK00149        289 LKKKAEEEGIDLPDEVLEFIAKNIT-SNVRELEGALNRLIAYA  330 (450)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHcCcC-CCHHHHHHHHHHHHHHH
Confidence            99988765544332 3666677665 35677776666655443

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.49  E-value=5.5e-12  Score=115.33  Aligned_cols=187  Identities=17%  Similarity=0.195  Sum_probs=120.4

Q ss_pred             cccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc-------EEEE-c
Q 013506           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-------LTVI-S   85 (441)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~-------~~~v-~   85 (441)
                      ....+++++|++++++.|...+...            .-++.+||+||+|+|||++++.+++.+...       .... .
T Consensus        18 ~P~~~~~l~Gh~~a~~~L~~a~~~g------------rl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~   85 (351)
T PRK09112         18 SPSENTRLFGHEEAEAFLAQAYREG------------KLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADP   85 (351)
T ss_pred             CCCchhhccCcHHHHHHHHHHHHcC------------CCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCC
Confidence            4566789999999999999988542            234679999999999999999999987541       1000 0


Q ss_pred             c---C-----------ccc---cc--c------ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhH
Q 013506           86 P---H-----------SVH---KA--H------VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDV  140 (441)
Q Consensus        86 ~---~-----------~~~---~~--~------~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~  140 (441)
                      +   .           ++.   ..  .      ..-....++.+.+........+...|++|||+|.|          +.
T Consensus        86 ~~~c~~c~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l----------~~  155 (351)
T PRK09112         86 DPASPVWRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDM----------NR  155 (351)
T ss_pred             CCCCHHHHHHHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhc----------CH
Confidence            0   0           000   00  0      00112233443333333333455679999999988          44


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHH
Q 013506          141 RIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEA  220 (441)
Q Consensus       141 ~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~  220 (441)
                      ...+.|+..++....      +.++|..++.++.+.+.+++  |+. .+.+++|+.++..+++........ ..+.....
T Consensus       156 ~aanaLLk~LEEpp~------~~~fiLit~~~~~llptIrS--Rc~-~i~l~pl~~~~~~~~L~~~~~~~~-~~~~~~~~  225 (351)
T PRK09112        156 NAANAILKTLEEPPA------RALFILISHSSGRLLPTIRS--RCQ-PISLKPLDDDELKKALSHLGSSQG-SDGEITEA  225 (351)
T ss_pred             HHHHHHHHHHhcCCC------CceEEEEECChhhccHHHHh--hcc-EEEecCCCHHHHHHHHHHhhcccC-CCHHHHHH
Confidence            667888888876332      34555556778888899988  884 899999999999999987432222 11222455


Q ss_pred             HHHHCCCCCHHH
Q 013506          221 IATSCNGYVGAD  232 (441)
Q Consensus       221 l~~~~~g~~~~~  232 (441)
                      ++..+.|.....
T Consensus       226 i~~~s~G~pr~A  237 (351)
T PRK09112        226 LLQRSKGSVRKA  237 (351)
T ss_pred             HHHHcCCCHHHH
Confidence            666666543333

>PRK06893 DNA replication initiation factor; Validated

Probab=99.49  E-value=1.9e-12  Score=112.21  Aligned_cols=161  Identities=12%  Similarity=0.158  Sum_probs=99.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccccccc
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCP  130 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~  130 (441)
                      ..++|+||||||||++++++++++   +....+++......        .....+...      .+.++|+|||++.+..
T Consensus        40 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~~--------~~~~~~~~~------~~~dlLilDDi~~~~~  105 (229)
T PRK06893         40 PFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQY--------FSPAVLENL------EQQDLVCLDDLQAVIG  105 (229)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhhh--------hhHHHHhhc------ccCCEEEEeChhhhcC
Confidence            458999999999999999999876   33445554432110        011112111      2357999999998743


Q ss_pred             CCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccC---HHHhhCCccceEEEecCCCHHHHHHHHHHHh
Q 013506          131 RRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAID---PALRRSGRFDAEVEVTVPTAEERFEILKLYT  207 (441)
Q Consensus       131 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~---~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~  207 (441)
                      ..        .+...++..++......   ..++++++...|..++   +++.++.++...+.+++|+.+++.++++..+
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            21        22334555554332211   1244555555566554   7888844455788999999999999999877


Q ss_pred             ccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHHH
Q 013506          208 KKVPLDANVD-LEAIATSCNGYVGADLEALCREA  240 (441)
Q Consensus       208 ~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~a  240 (441)
                      .......+.+ ++.++....+ +.+.+..++...
T Consensus       175 ~~~~l~l~~~v~~~L~~~~~~-d~r~l~~~l~~l  207 (229)
T PRK06893        175 YQRGIELSDEVANFLLKRLDR-DMHTLFDALDLL  207 (229)
T ss_pred             HHcCCCCCHHHHHHHHHhccC-CHHHHHHHHHHH
Confidence            6555543333 6677776663 455665555544

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

Probab=99.49  E-value=7e-12  Score=115.03  Aligned_cols=214  Identities=25%  Similarity=0.367  Sum_probs=136.9

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc-----EEEEccCcccccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-----LTVISPHSVHKAH   93 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~-----~~~v~~~~~~~~~   93 (441)
                      +++.+.|++++++..++...+..         ..|.+++++|+||||||++++.+++++...     ++++||......+
T Consensus        17 ~~l~~Re~ei~~l~~~l~~~~~~---------~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~   87 (366)
T COG1474          17 EELPHREEEINQLASFLAPALRG---------ERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPY   87 (366)
T ss_pred             ccccccHHHHHHHHHHHHHHhcC---------CCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHH
Confidence            45999999999999987553221         245579999999999999999999988543     7888886643321


Q ss_pred             ---------------ccchH-HHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCC
Q 013506           94 ---------------VGESE-KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK  157 (441)
Q Consensus        94 ---------------~~~~~-~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  157 (441)
                                     .+... +....+++....   .....|+++||+|.|.....       +.+..|+......    
T Consensus        88 ~i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~---~~~~~IvvLDEid~L~~~~~-------~~LY~L~r~~~~~----  153 (366)
T COG1474          88 QVLSKILNKLGKVPLTGDSSLEILKRLYDNLSK---KGKTVIVILDEVDALVDKDG-------EVLYSLLRAPGEN----  153 (366)
T ss_pred             HHHHHHHHHcCCCCCCCCchHHHHHHHHHHHHh---cCCeEEEEEcchhhhccccc-------hHHHHHHhhcccc----
Confidence                           01111 111122222211   23467999999999975432       4566666655544    


Q ss_pred             CCCCeEEEEEEcCCCC---ccCHHHhhCCccc-eEEEecCCCHHHHHHHHHHHhccCCCCCc--cc-HHHHH---HHCCC
Q 013506          158 TSVPHVVVVASTNRVD---AIDPALRRSGRFD-AEVEVTVPTAEERFEILKLYTKKVPLDAN--VD-LEAIA---TSCNG  227 (441)
Q Consensus       158 ~~~~~~~vi~~~~~~~---~l~~~l~~~~r~~-~~i~~~~p~~~~~~~il~~~~~~~~~~~~--~~-~~~l~---~~~~g  227 (441)
                        ..++.+|+.+|..+   .+++++.+  ++. ..+.|++++.+|...|+............  .+ ++.++   ....|
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              23688888888864   67899988  443 35899999999999999988775432221  11 33333   33333


Q ss_pred             CCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhh
Q 013506          228 YVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHA  268 (441)
Q Consensus       228 ~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~  268 (441)
                       ..+-.-.+++.+...+.++...        .++.+++..+
T Consensus       230 -DAR~aidilr~A~eiAe~~~~~--------~v~~~~v~~a  261 (366)
T COG1474         230 -DARKAIDILRRAGEIAEREGSR--------KVSEDHVREA  261 (366)
T ss_pred             -cHHHHHHHHHHHHHHHHhhCCC--------CcCHHHHHHH
Confidence             4455556677777666554432        3555555544

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.49  E-value=8e-13  Score=116.98  Aligned_cols=143  Identities=21%  Similarity=0.256  Sum_probs=95.5

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc--ccccch----HHHHHHHHH---------------HHHh
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK--AHVGES----EKALREAFS---------------QASS  110 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~--~~~~~~----~~~~~~~~~---------------~~~~  110 (441)
                      .+.+++|+||||||||++|+.++..++.+++.+++..-..  ...+..    ......-|.               ...-
T Consensus        20 ~g~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~l   99 (262)
T TIGR02640        20 SGYPVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIHNVVKLEDIVRQNWVDNRL   99 (262)
T ss_pred             cCCeEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCccCCHHHHhhhhcccchhhHHHHHHHHhhhhhcccceeecCchH
Confidence            4678999999999999999999999999999887754221  111110    010000000               0000


Q ss_pred             hhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC----------CCCCCeEEEEEEcCCCC-----cc
Q 013506          111 HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS----------KTSVPHVVVVASTNRVD-----AI  175 (441)
Q Consensus       111 ~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~----------~~~~~~~~vi~~~~~~~-----~l  175 (441)
                      .....++.+|++||+|.+          +.+.+..|+..++.....          ...++++.+|+|+|+..     .+
T Consensus       100 ~~A~~~g~~lllDEi~r~----------~~~~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~~~~~g~~~l  169 (262)
T TIGR02640       100 TLAVREGFTLVYDEFTRS----------KPETNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNPVEYAGVHET  169 (262)
T ss_pred             HHHHHcCCEEEEcchhhC----------CHHHHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCCccccceecc
Confidence            000123579999999986          346777788877653210          11335778999999863     56


Q ss_pred             CHHHhhCCccceEEEecCCCHHHHHHHHHHHh
Q 013506          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYT  207 (441)
Q Consensus       176 ~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~  207 (441)
                      ++++.+  ||. .+.++.|+.++..+|+....
T Consensus       170 ~~aL~~--R~~-~i~i~~P~~~~e~~Il~~~~  198 (262)
T TIGR02640       170 QDALLD--RLI-TIFMDYPDIDTETAILRAKT  198 (262)
T ss_pred             cHHHHh--hcE-EEECCCCCHHHHHHHHHHhh
Confidence            888998  884 79999999999999988754

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).

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.48  E-value=7.6e-13  Score=125.28  Aligned_cols=173  Identities=24%  Similarity=0.332  Sum_probs=108.6

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l-----~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~  127 (441)
                      ..+++|+||+|+|||+|++++++++     +..++++++.++...............|....     ...++|+|||++.
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~dlLiiDDi~~  210 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTNDFVNALRNNKMEEFKEKY-----RSVDLLLIDDIQF  210 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHHHHHHHHHcCCHHHHHHHH-----HhCCEEEEehhhh
Confidence            4679999999999999999999876     45677887766543221111100011121111     1267999999998


Q ss_pred             cccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCC---ccCHHHhhCCccc--eEEEecCCCHHHHHHH
Q 013506          128 LCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD---AIDPALRRSGRFD--AEVEVTVPTAEERFEI  202 (441)
Q Consensus       128 l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~---~l~~~l~~~~r~~--~~i~~~~p~~~~~~~i  202 (441)
                      +....        .....++..++......    ..+++++...|.   .+++++.+  ||.  ..+.+++|+.++|..|
T Consensus       211 l~~~~--------~~~~~l~~~~n~~~~~~----~~iiits~~~p~~l~~l~~~l~S--Rl~~g~~v~i~~pd~~~r~~i  276 (405)
T TIGR00362       211 LAGKE--------RTQEEFFHTFNALHENG----KQIVLTSDRPPKELPGLEERLRS--RFEWGLVVDIEPPDLETRLAI  276 (405)
T ss_pred             hcCCH--------HHHHHHHHHHHHHHHCC----CCEEEecCCCHHHHhhhhhhhhh--hccCCeEEEeCCCCHHHHHHH
Confidence            74321        12333444443321111    235555555554   35688888  774  5799999999999999


Q ss_pred             HHHHhccCCCCCcc-cHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Q 013506          203 LKLYTKKVPLDANV-DLEAIATSCNGYVGADLEALCREATMSAV  245 (441)
Q Consensus       203 l~~~~~~~~~~~~~-~~~~l~~~~~g~~~~~i~~l~~~a~~~~~  245 (441)
                      ++..+.......+. .++.++.... -+.+++..++......+.
T Consensus       277 l~~~~~~~~~~l~~e~l~~ia~~~~-~~~r~l~~~l~~l~~~a~  319 (405)
T TIGR00362       277 LQKKAEEEGLELPDEVLEFIAKNIR-SNVRELEGALNRLLAYAS  319 (405)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHH
Confidence            99988776654333 3677777665 456777777776655443

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).

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=99.48  E-value=2.5e-12  Score=130.07  Aligned_cols=205  Identities=21%  Similarity=0.316  Sum_probs=134.1

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCC----CCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccc-
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGL----KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAH-   93 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~----~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~-   93 (441)
                      +.++|++.+++.|.+.+...        +.|+    ++...++|+||+|||||++|+.+++.++.+++.++++++.... 
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~--------~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~~~~  525 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRS--------RAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYMEKHT  525 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHH--------hcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhhccc
Confidence            45899999999999887542        2222    2334689999999999999999999999999999887654321 


Q ss_pred             ----c----cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCC-----CCCCC
Q 013506           94 ----V----GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP-----SKTSV  160 (441)
Q Consensus        94 ----~----~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~-----~~~~~  160 (441)
                          .    +.....-...+.....   ....+|++|||+|.+.          ..+...|+..++....     .....
T Consensus       526 ~~~lig~~~gyvg~~~~~~l~~~~~---~~p~~VvllDEieka~----------~~~~~~Ll~~ld~g~~~d~~g~~vd~  592 (731)
T TIGR02639       526 VSRLIGAPPGYVGFEQGGLLTEAVR---KHPHCVLLLDEIEKAH----------PDIYNILLQVMDYATLTDNNGRKADF  592 (731)
T ss_pred             HHHHhcCCCCCcccchhhHHHHHHH---hCCCeEEEEechhhcC----------HHHHHHHHHhhccCeeecCCCcccCC
Confidence                1    1000000111111111   1236899999999873          3677888888876422     11223


Q ss_pred             CeEEEEEEcCCCC-------------------------ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccC-----
Q 013506          161 PHVVVVASTNRVD-------------------------AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV-----  210 (441)
Q Consensus       161 ~~~~vi~~~~~~~-------------------------~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~-----  210 (441)
                      .++++|+|+|...                         .+.|.+..  |++.++.|.+++.+++.+|++..+...     
T Consensus       593 ~~~iii~Tsn~g~~~~~~~~~~f~~~~~~~~~~~~~~~~f~pef~~--Rid~Vi~F~pLs~e~l~~Iv~~~L~~l~~~l~  670 (731)
T TIGR02639       593 RNVILIMTSNAGASEMSKPPIGFGSENVESKSDKAIKKLFSPEFRN--RLDAIIHFNPLSEEVLEKIVQKFVDELSKQLN  670 (731)
T ss_pred             CCCEEEECCCcchhhhhhccCCcchhhhHHHHHHHHHhhcChHHHh--cCCeEEEcCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            4678888887631                         24677777  999999999999999999998766532     


Q ss_pred             --CCCCccc---HHHHHHHC--CCCCHHHHHHHHHHHHHHHHH
Q 013506          211 --PLDANVD---LEAIATSC--NGYVGADLEALCREATMSAVK  246 (441)
Q Consensus       211 --~~~~~~~---~~~l~~~~--~g~~~~~i~~l~~~a~~~~~~  246 (441)
                        ......+   .+.++...  ..+..+.++.+++......+.
T Consensus       671 ~~~~~l~i~~~a~~~La~~~~~~~~GaR~l~r~i~~~~~~~l~  713 (731)
T TIGR02639       671 EKNIKLELTDDAKKYLAEKGYDEEFGARPLARVIQEEIKKPLS  713 (731)
T ss_pred             hCCCeEEeCHHHHHHHHHhCCCcccCchHHHHHHHHHhHHHHH
Confidence              1111111   44555542  346678888887776555443

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.48  E-value=9.6e-12  Score=102.63  Aligned_cols=201  Identities=22%  Similarity=0.254  Sum_probs=137.4

Q ss_pred             ccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC---CcEEEEc
Q 013506            9 SEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---AHLTVIS   85 (441)
Q Consensus         9 ~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~---~~~~~v~   85 (441)
                      +-+....-.+.+|+|.|.+++.|.+.......        | .+.++|||+|.-|||||++++++..++.   ..+++|+
T Consensus        50 pv~~~~~i~L~~l~Gvd~qk~~L~~NT~~F~~--------G-~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~  120 (287)
T COG2607          50 PVPDPDPIDLADLVGVDRQKEALVRNTEQFAE--------G-LPANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVD  120 (287)
T ss_pred             CCCCCCCcCHHHHhCchHHHHHHHHHHHHHHc--------C-CcccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEEc
Confidence            33444456779999999999999987644221        1 3568999999999999999999988874   4567776


Q ss_pred             cCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEE
Q 013506           86 PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVV  165 (441)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v  165 (441)
                      ..++.         .+-.++......   .++-|||+||+..         +.+......|...+++....  ...+++|
T Consensus       121 k~dl~---------~Lp~l~~~Lr~~---~~kFIlFcDDLSF---------e~gd~~yK~LKs~LeG~ve~--rP~NVl~  177 (287)
T COG2607         121 KEDLA---------TLPDLVELLRAR---PEKFILFCDDLSF---------EEGDDAYKALKSALEGGVEG--RPANVLF  177 (287)
T ss_pred             HHHHh---------hHHHHHHHHhcC---CceEEEEecCCCC---------CCCchHHHHHHHHhcCCccc--CCCeEEE
Confidence            65532         233334443332   3467999999731         22335567777778765433  4458999


Q ss_pred             EEEcCCCCccCH--------------------HHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc---HHHH-
Q 013506          166 VASTNRVDAIDP--------------------ALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD---LEAI-  221 (441)
Q Consensus       166 i~~~~~~~~l~~--------------------~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~---~~~l-  221 (441)
                      .+|+|+...+++                    .+--+-||...+.|++++.++..+|+..+.+...+..+.+   .+.+ 
T Consensus       178 YATSNRRHLl~e~~~dn~~~~~eih~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a~~~~l~~~~e~l~~eAl~  257 (287)
T COG2607         178 YATSNRRHLLPEDMKDNEGSTGEIHPSEAVEEKLSLSDRFGLWLSFYPCDQDEYLKIVDHYAKHFGLDISDEELHAEALQ  257 (287)
T ss_pred             EEecCCcccccHhhhhCCCcccccChhHHHHHhhchhhhcceeecccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            999998654331                    2222348999999999999999999999999888776421   2222 


Q ss_pred             -HHHCCCCCHHHHHHHHHHHH
Q 013506          222 -ATSCNGYVGADLEALCREAT  241 (441)
Q Consensus       222 -~~~~~g~~~~~i~~l~~~a~  241 (441)
                       +..-.+-+++-..++++...
T Consensus       258 WAt~rg~RSGR~A~QF~~~~~  278 (287)
T COG2607         258 WATTRGGRSGRVAWQFIRDLA  278 (287)
T ss_pred             HHHhcCCCccHhHHHHHHHHH
Confidence             33345667777777666544

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.47  E-value=5.9e-12  Score=109.65  Aligned_cols=182  Identities=19%  Similarity=0.222  Sum_probs=112.3

Q ss_pred             ccccccc--chHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccc
Q 013506           16 KAEEAIG--GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVH   90 (441)
Q Consensus        16 ~~~~~i~--G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~   90 (441)
                      .+|++.+  +.+.+...+.++..            +.....+++|+||+|||||++++++++..   +..++++++..+.
T Consensus        15 ~~~d~f~~~~~~~~~~~l~~~~~------------~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~~   82 (227)
T PRK08903         15 PTFDNFVAGENAELVARLRELAA------------GPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAASPL   82 (227)
T ss_pred             hhhcccccCCcHHHHHHHHHHHh------------ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHhH
Confidence            4566755  45666666666543            12346789999999999999999999875   4567777665432


Q ss_pred             cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcC
Q 013506           91 KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (441)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~  170 (441)
                      ..            +..      .....+|+|||++.+.+          .....+...++.....    +..+++.+++
T Consensus        83 ~~------------~~~------~~~~~~liiDdi~~l~~----------~~~~~L~~~~~~~~~~----~~~~vl~~~~  130 (227)
T PRK08903         83 LA------------FDF------DPEAELYAVDDVERLDD----------AQQIALFNLFNRVRAH----GQGALLVAGP  130 (227)
T ss_pred             HH------------Hhh------cccCCEEEEeChhhcCc----------hHHHHHHHHHHHHHHc----CCcEEEEeCC
Confidence            11            110      12357999999997621          2233444444332111    1223444443


Q ss_pred             C-CC--ccCHHHhhCCcc--ceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHHHHHHH
Q 013506          171 R-VD--AIDPALRRSGRF--DAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVGADLEALCREATMSA  244 (441)
Q Consensus       171 ~-~~--~l~~~l~~~~r~--~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~a~~~~  244 (441)
                      . +.  .+.+.+.+  |+  ...+.+++|+.+++..++...........+.+ +..++.. ..-+.+.+..+++.....+
T Consensus       131 ~~~~~~~l~~~L~s--r~~~~~~i~l~pl~~~~~~~~l~~~~~~~~v~l~~~al~~L~~~-~~gn~~~l~~~l~~l~~~~  207 (227)
T PRK08903        131 AAPLALPLREDLRT--RLGWGLVYELKPLSDADKIAALKAAAAERGLQLADEVPDYLLTH-FRRDMPSLMALLDALDRYS  207 (227)
T ss_pred             CCHHhCCCCHHHHH--HHhcCeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHh-ccCCHHHHHHHHHHHHHHH
Confidence            3 22  35577777  65  46899999999999999888766655544333 5666663 4456777777777654333

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.46  E-value=1.1e-11  Score=114.06  Aligned_cols=183  Identities=20%  Similarity=0.228  Sum_probs=121.7

Q ss_pred             cccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcE------------
Q 013506           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL------------   81 (441)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~------------   81 (441)
                      ....+++|+|++.+++.|.+.+...            .-++.+||+||+|+||+++|..+++.+...-            
T Consensus        14 ~P~~~~~iiGq~~~~~~L~~~~~~~------------rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~   81 (365)
T PRK07471         14 HPRETTALFGHAAAEAALLDAYRSG------------RLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPT   81 (365)
T ss_pred             CCCchhhccChHHHHHHHHHHHHcC------------CCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccc
Confidence            4456789999999999999988652            2356799999999999999999998773211            


Q ss_pred             ----------------------EEEccCccccc---cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCc
Q 013506           82 ----------------------TVISPHSVHKA---HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR  136 (441)
Q Consensus        82 ----------------------~~v~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~  136 (441)
                                            ..+....-...   ...-....++.+.+........+.+.|++|||+|.+        
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                                  11110000000   000112335555544444444566789999999987        


Q ss_pred             hhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc
Q 013506          137 EQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV  216 (441)
Q Consensus       137 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~  216 (441)
                        +....+.|+..++....      +.++|.+++.++.+.+.+++  |+. .+.+++++.++..+++......   ....
T Consensus       154 --~~~aanaLLK~LEepp~------~~~~IL~t~~~~~llpti~S--Rc~-~i~l~~l~~~~i~~~L~~~~~~---~~~~  219 (365)
T PRK07471        154 --NANAANALLKVLEEPPA------RSLFLLVSHAPARLLPTIRS--RCR-KLRLRPLAPEDVIDALAAAGPD---LPDD  219 (365)
T ss_pred             --CHHHHHHHHHHHhcCCC------CeEEEEEECCchhchHHhhc--cce-EEECCCCCHHHHHHHHHHhccc---CCHH
Confidence              45678889998887432      45777778888888888887  885 8999999999999988765321   1111


Q ss_pred             cHHHHHHHCCCCCH
Q 013506          217 DLEAIATSCNGYVG  230 (441)
Q Consensus       217 ~~~~l~~~~~g~~~  230 (441)
                      ....++..+.|-..
T Consensus       220 ~~~~l~~~s~Gsp~  233 (365)
T PRK07471        220 PRAALAALAEGSVG  233 (365)
T ss_pred             HHHHHHHHcCCCHH
Confidence            12455555555433

>PRK08727 hypothetical protein; Validated

Probab=99.46  E-value=1.2e-11  Score=107.35  Aligned_cols=159  Identities=22%  Similarity=0.297  Sum_probs=96.8

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALC  129 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~  129 (441)
                      ...++|+||+|||||+++++++..+   +....+++..++.        ..+...++...      +..+|+|||++.+.
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            3569999999999999999997765   4455555543321        12222232221      35799999998774


Q ss_pred             cCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCcc---CHHHhhCCcc--ceEEEecCCCHHHHHHHHH
Q 013506          130 PRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI---DPALRRSGRF--DAEVEVTVPTAEERFEILK  204 (441)
Q Consensus       130 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l---~~~l~~~~r~--~~~i~~~~p~~~~~~~il~  204 (441)
                      ...        .....++..++......    .-+++++...|..+   ++++.+  |+  ...+.+++|+.+++.++++
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            221        22334444444332111    12444444456544   688988  75  4678999999999999999


Q ss_pred             HHhccCCCCCcc-cHHHHHHHCCCCCHHHHHHHHHHH
Q 013506          205 LYTKKVPLDANV-DLEAIATSCNGYVGADLEALCREA  240 (441)
Q Consensus       205 ~~~~~~~~~~~~-~~~~l~~~~~g~~~~~i~~l~~~a  240 (441)
                      ..........+. .+..++..+.+ ..+.+.++++..
T Consensus       173 ~~a~~~~l~l~~e~~~~La~~~~r-d~r~~l~~L~~l  208 (233)
T PRK08727        173 ERAQRRGLALDEAAIDWLLTHGER-ELAGLVALLDRL  208 (233)
T ss_pred             HHHHHcCCCCCHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            876654443332 36777777663 334443444443

>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=99.45  E-value=3.7e-12  Score=103.39  Aligned_cols=145  Identities=34%  Similarity=0.481  Sum_probs=88.9

Q ss_pred             cchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccchH
Q 013506           22 GGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESE   98 (441)
Q Consensus        22 ~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~~~   98 (441)
                      +|.+.+.+.+...+..             ..+.+++++||||||||++++.+++.+   +.+++.+++............
T Consensus         1 ~~~~~~~~~i~~~~~~-------------~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~   67 (151)
T cd00009           1 VGQEEAIEALREALEL-------------PPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAEL   67 (151)
T ss_pred             CchHHHHHHHHHHHhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHH
Confidence            3667777777776643             246789999999999999999999998   777888877654432221111


Q ss_pred             HHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCC--ccC
Q 013506           99 KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD--AID  176 (441)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~--~l~  176 (441)
                      .... ............++.++++||++.+.          ......+...+...........++.+|++++...  .++
T Consensus        68 ~~~~-~~~~~~~~~~~~~~~~lilDe~~~~~----------~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~~~~~~  136 (151)
T cd00009          68 FGHF-LVRLLFELAEKAKPGVLFIDEIDSLS----------RGAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLD  136 (151)
T ss_pred             hhhh-hHhHHHHhhccCCCeEEEEeChhhhh----------HHHHHHHHHHHHhcCceeccCCCeEEEEecCccccCCcC
Confidence            1000 01111112223457899999998761          1233445555544322111123578888888776  677


Q ss_pred             HHHhhCCccceEEEec
Q 013506          177 PALRRSGRFDAEVEVT  192 (441)
Q Consensus       177 ~~l~~~~r~~~~i~~~  192 (441)
                      +.+.+  |+...+.++
T Consensus       137 ~~~~~--r~~~~i~~~  150 (151)
T cd00009         137 RALYD--RLDIRIVIP  150 (151)
T ss_pred             hhHHh--hhccEeecC
Confidence            77777  887566655

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.

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=99.45  E-value=8.8e-13  Score=124.59  Aligned_cols=116  Identities=28%  Similarity=0.459  Sum_probs=88.2

Q ss_pred             ccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh------
Q 013506          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM------  363 (441)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~------  363 (441)
                      ++--|++++|+.+.+++.-..-       -+...+.-++|+||||+|||+++|.+|+.++..|++++..-+-+.      
T Consensus       411 eDHYgm~dVKeRILEfiAV~kL-------rgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIkGH  483 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKL-------RGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGH  483 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhh-------cccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhccc
Confidence            4556899999999998752110       133345567999999999999999999999999999886433222      


Q ss_pred             ---ccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          364 ---YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       364 ---~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                         |+|....++-+.+++++-.+| +++|||+|++.  +|.+++-        -+.||.-||-
T Consensus       484 RRTYVGAMPGkiIq~LK~v~t~NP-liLiDEvDKlG--~g~qGDP--------asALLElLDP  535 (906)
T KOG2004|consen  484 RRTYVGAMPGKIIQCLKKVKTENP-LILIDEVDKLG--SGHQGDP--------ASALLELLDP  535 (906)
T ss_pred             ceeeeccCChHHHHHHHhhCCCCc-eEEeehhhhhC--CCCCCCh--------HHHHHHhcCh
Confidence               888888888899999988888 99999999997  4443332        2566766665

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.44  E-value=3.8e-13  Score=119.36  Aligned_cols=145  Identities=16%  Similarity=0.196  Sum_probs=98.3

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccc--cccchHHHHH-----HHHHHHHhhhhcCCCeEEEEcc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA--HVGESEKALR-----EAFSQASSHALSGKPSVVFIDE  124 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~--~~~~~~~~~~-----~~~~~~~~~~~~~~~~il~iDe  124 (441)
                      .+++++|.||||||||++++.+|..++.+++.+++......  ..|...-.+.     ..|....-......+.+|++||
T Consensus        63 ~~~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~GpL~~A~~~g~illlDE  142 (327)
T TIGR01650        63 YDRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDGILPWALQHNVALCFDE  142 (327)
T ss_pred             cCCcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecCcchhHHhCCeEEEech
Confidence            46789999999999999999999999999999877654332  2222110000     0111110000012477899999


Q ss_pred             ccccccCCCCCchhhHHHHHHHHHHHhcC--------CCCCCCCCeEEEEEEcCCCC------------ccCHHHhhCCc
Q 013506          125 IDALCPRRDHRREQDVRIASQLFTLMDSN--------KPSKTSVPHVVVVASTNRVD------------AIDPALRRSGR  184 (441)
Q Consensus       125 ~~~l~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~~~~~~~vi~~~~~~~------------~l~~~l~~~~r  184 (441)
                      +|..          ..+.+..|...++..        ......++.+.+|+|.|+.+            .+++++..  |
T Consensus       143 in~a----------~p~~~~~L~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~Gd~~G~y~Gt~~l~~A~lD--R  210 (327)
T TIGR01650       143 YDAG----------RPDVMFVIQRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGLGDTTGLYHGTQQINQAQMD--R  210 (327)
T ss_pred             hhcc----------CHHHHHHHHHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCcCCCCcceeeeecCCHHHHh--h
Confidence            9976          234556666666531        11223556899999999854            46889998  9


Q ss_pred             cceEEEecCCCHHHHHHHHHHHhc
Q 013506          185 FDAEVEVTVPTAEERFEILKLYTK  208 (441)
Q Consensus       185 ~~~~i~~~~p~~~~~~~il~~~~~  208 (441)
                      |..++.++.|+.++-.+|+.....
T Consensus       211 F~i~~~~~Yp~~e~E~~Il~~~~~  234 (327)
T TIGR01650       211 WSIVTTLNYLEHDNEAAIVLAKAK  234 (327)
T ss_pred             eeeEeeCCCCCHHHHHHHHHhhcc
Confidence            987789999999999999876543

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.

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=99.44  E-value=5.5e-13  Score=126.53  Aligned_cols=116  Identities=26%  Similarity=0.363  Sum_probs=88.6

Q ss_pred             ccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh------
Q 013506          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM------  363 (441)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~------  363 (441)
                      .+--|++.+|+.+.+++.-..       +..-..+.-++|+||||+|||++++.+|+.++..|+++...-+.+.      
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~-------l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGH  395 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQK-------LTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGH  395 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHH-------HhccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhccc
Confidence            345689999999998876311       1122334567999999999999999999999999999987544333      


Q ss_pred             ---ccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          364 ---YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       364 ---~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                         |+|.....+-+-+++|+..+| |++|||||++..+-.+  +-        -+.||..||-
T Consensus       396 RRTYIGamPGrIiQ~mkka~~~NP-v~LLDEIDKm~ss~rG--DP--------aSALLEVLDP  447 (782)
T COG0466         396 RRTYIGAMPGKIIQGMKKAGVKNP-VFLLDEIDKMGSSFRG--DP--------ASALLEVLDP  447 (782)
T ss_pred             cccccccCChHHHHHHHHhCCcCC-eEEeechhhccCCCCC--Ch--------HHHHHhhcCH
Confidence               899888888888999998888 9999999999754211  11        3677777765

>TIGR00763 lon ATP-dependent protease La

Probab=99.44  E-value=4.3e-13  Score=136.25  Aligned_cols=115  Identities=28%  Similarity=0.402  Sum_probs=83.8

Q ss_pred             cccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhh---------
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY---------  361 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~---------  361 (441)
                      ++.|++.+++.+.+++......       +...+.+++|+||||||||++|+++|+.++.+++.++.....         
T Consensus       321 ~~~G~~~~k~~i~~~~~~~~~~-------~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~~~i~g~~  393 (775)
T TIGR00763       321 DHYGLKKVKERILEYLAVQKLR-------GKMKGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGHR  393 (775)
T ss_pred             hcCChHHHHHHHHHHHHHHHhh-------cCCCCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccHHHHcCCC
Confidence            4678888888888776532111       112344799999999999999999999999999988654321         


Q ss_pred             hhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                      ..|+|.....+.+.|..+...+| |+||||||++.+...+          ...+.||+.||.
T Consensus       394 ~~~~g~~~g~i~~~l~~~~~~~~-villDEidk~~~~~~~----------~~~~aLl~~ld~  444 (775)
T TIGR00763       394 RTYVGAMPGRIIQGLKKAKTKNP-LFLLDEIDKIGSSFRG----------DPASALLEVLDP  444 (775)
T ss_pred             CceeCCCCchHHHHHHHhCcCCC-EEEEechhhcCCccCC----------CHHHHHHHhcCH
Confidence            24778777778888888876666 9999999999853211          124677877763

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.

>KOG3595 consensus Dyneins, heavy chain [Cytoskeleton]

Probab=99.44  E-value=7e-12  Score=134.12  Aligned_cols=329  Identities=20%  Similarity=0.224  Sum_probs=197.0

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCC-cEEEEccCccccccccchHHHHHH-HHHHHH---hhhhcCCCeEEEEccccc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGA-HLTVISPHSVHKAHVGESEKALRE-AFSQAS---SHALSGKPSVVFIDEIDA  127 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~-~~~~v~~~~~~~~~~~~~~~~~~~-~~~~~~---~~~~~~~~~il~iDe~~~  127 (441)
                      +.+++++||+|+|||..+......... .++.++.+...   .+.....+.. ..+...   .....++.-++|+||++.
T Consensus       127 ~k~~~~~g~~g~gk~~~~~~~~~~~~~~~~~~~~fs~~t---s~~~~q~~~~~~~~k~~~~~~~~~~~~~~~~f~ddinm  203 (1395)
T KOG3595|consen  127 GKPVLLVGPTGTGKTVLVLSELRSLQDREVYLLNFSSVT---SSELLQEIIESKLDKRRSGNYGPPLGKKLVLFVDDINM  203 (1395)
T ss_pred             CCeEEEEcCCCCCeeeehHHHHHhcccchheEEeeeeec---cHHHHHHHHHHHHHHhcccCCCCCCCceeEEEEeccCC
Confidence            478999999999999999887766532 22222222211   1111111111 111111   111122335999999986


Q ss_pred             cccCCCCCchhhHHHHHHHHHHH---hcCCCCCCCCCeEEEEEEcCCCC----ccCHHHhhCCccceEEEecCCCHHHHH
Q 013506          128 LCPRRDHRREQDVRIASQLFTLM---DSNKPSKTSVPHVVVVASTNRVD----AIDPALRRSGRFDAEVEVTVPTAEERF  200 (441)
Q Consensus       128 l~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~~~~~~~vi~~~~~~~----~l~~~l~~~~r~~~~i~~~~p~~~~~~  200 (441)
                      ...+. .+.+.....+++++...   +.....+...-++.++++++++.    .+++++.|  +|. .+.+..|+.+...
T Consensus       204 p~~~~-yg~q~~~~~lrq~~e~~g~~~~~~~~~~~i~~i~~~~a~~~~~~gr~~i~~r~~r--~f~-~~~~~~~~~~sl~  279 (1395)
T KOG3595|consen  204 PALDK-YGDQPPIELLRQMLEHGGFYDRKKSEWVEIENVQLVGAMNPPGGGRNDITERFLR--HFL-IVSLNYPSQESLT  279 (1395)
T ss_pred             chhhh-cCCccHHHHHHHHHHhceeecccccceeEEeeeEEEeecCCCCCccCcccHHHHH--Hee-eEeeCCCChhhHH
Confidence            54433 33444556666666543   33444556667899999999754    67889987  775 8999999999999


Q ss_pred             HHHHHHhccCCCCCc----------------------------------ccHHHHHHHCCCCC------HHHHHHHHHHH
Q 013506          201 EILKLYTKKVPLDAN----------------------------------VDLEAIATSCNGYV------GADLEALCREA  240 (441)
Q Consensus       201 ~il~~~~~~~~~~~~----------------------------------~~~~~l~~~~~g~~------~~~i~~l~~~a  240 (441)
                      +|+..++........                                  .+++++.....|..      ......+.+.+
T Consensus       280 ~if~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~t~~~~hyv~~lrd~~r~~~~i~~~~~~~~~~~~~l~~~~  359 (1395)
T KOG3595|consen  280 QIFNTILTGHLRFAPAFRTSIEPIVNASVDFYPKVQENFLPTPSKSHYVFNLRDLSRVVQGILLAVSEALLTLEDLIRLW  359 (1395)
T ss_pred             HHHHHHHhcccCccHHHHHhHHHHHHHHHHHHHHHHHhcCCCCCcceeeechhhhhhheeehcccCcHhhccHHHHHHHH
Confidence            999988776532100                                  11222222222211      11133445555


Q ss_pred             HHHHHHhcccccccccceeeeHhhHHhhhhhccccc-------ccCcccccCccccccccCchhHHHHHHHHHh------
Q 013506          241 TMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSI-------TRGVTVEIPKVTWEDIGGLRDLKKKLQQAVE------  307 (441)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~------  307 (441)
                      .....+-+.+............+.+...........       ......... ..|..+...+.+...+...+.      
T Consensus       360 ~~e~~rv~~drlv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~y~~~~~~~~l~~~~~~~l~~~~~~~  438 (1395)
T KOG3595|consen  360 VHEAIRVFADRLVDDEDRQWFDKKLQEVLLKLFEADSLQMPLLYGDFRSESH-KIYEEVLSVELLRGVLEAYLKQFNIEE  438 (1395)
T ss_pred             HHHHHHhhhhhcccHHHHHHHHHHHHHHHHHHhhhhhhcCCceeeecccccc-cccCchHhHHHHHHHHHHHHHHHhhhc
Confidence            555555555543322222233333332222111111       111111111 335555555554444433222      


Q ss_pred             ----------cccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCchHHHHHHHHH
Q 013506          308 ----------WPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQ  377 (441)
Q Consensus       308 ----------~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~~~~~~~~~~  377 (441)
                                +.+.|..+..++-..+++|.+++|.+|+||+++.+..+++.+..++++.....+.  ..+...+++.++.
T Consensus       439 ~~~~~lvlf~~~~~h~~ri~ril~~~~g~~llvgv~g~gkqsl~r~~~~~~~~~~fq~~~~~~y~--~~~~~~dl~~~~r  516 (1395)
T KOG3595|consen  439 IRPMHLVLFRDAIEHVLRIDRILRQPRGHALLVGVGGSGKQSLTRLAAFINGLSVFQIEITRSYN--IEDFREDLKAILR  516 (1395)
T ss_pred             cCCCceeeeHHHhhhhhhhHHHhcCCCccEEEeecCCCCcccHHHHHHhhccccceeeeccccCc--HHHHHHHHHHHHH
Confidence                      4566777888888999999999999999999999999999999999999988877  7778999999999


Q ss_pred             HHHhcCCe-EEEEec
Q 013506          378 RARLAAPS-IIFFDE  391 (441)
Q Consensus       378 ~a~~~~~~-vl~iDE  391 (441)
                      .++..+.. ++.++|
T Consensus       517 ~~g~~~~~~~f~~~~  531 (1395)
T KOG3595|consen  517 KAGLKNKETVFILTD  531 (1395)
T ss_pred             HhccCCCceEEeech
Confidence            99876654 555666

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.44  E-value=5.2e-12  Score=119.68  Aligned_cols=172  Identities=19%  Similarity=0.252  Sum_probs=105.1

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEccCccccccccchHH-HHHHHHHHHHhhhhcCCCeEEEEcccc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAHVGESEK-ALREAFSQASSHALSGKPSVVFIDEID  126 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l-----~~~~~~v~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iDe~~  126 (441)
                      .++++||||+|+|||+|++++++.+     +..++++++.++.......... .... |....    ..++++|+|||++
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            3579999999999999999999876     3457777776654332111110 1111 11111    1237899999999


Q ss_pred             ccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCc---cCHHHhhCCcc--ceEEEecCCCHHHHHH
Q 013506          127 ALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA---IDPALRRSGRF--DAEVEVTVPTAEERFE  201 (441)
Q Consensus       127 ~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~---l~~~l~~~~r~--~~~i~~~~p~~~~~~~  201 (441)
                      .+....        .....++..+.......    ..+++++...|..   +.+++.+  ||  ...+.+.+|+.+.|..
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            874321        12233333333221111    2355555556554   4577887  66  4678999999999999


Q ss_pred             HHHHHhccCCCCCcc-cHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q 013506          202 ILKLYTKKVPLDANV-DLEAIATSCNGYVGADLEALCREATMSA  244 (441)
Q Consensus       202 il~~~~~~~~~~~~~-~~~~l~~~~~g~~~~~i~~l~~~a~~~~  244 (441)
                      |++..+.......+. .++.++....+ +.+.+..++......+
T Consensus       271 IL~~~~~~~~~~l~~ev~~~Ia~~~~~-~~R~L~g~l~~l~~~~  313 (440)
T PRK14088        271 IARKMLEIEHGELPEEVLNFVAENVDD-NLRRLRGAIIKLLVYK  313 (440)
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHhcccc-CHHHHHHHHHHHHHHH
Confidence            999887765444332 36666776653 6677777766654433

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.44  E-value=6.3e-13  Score=127.05  Aligned_cols=118  Identities=14%  Similarity=0.230  Sum_probs=82.6

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC---------------
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA---------------  350 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~---------------  350 (441)
                      ...++++.|++.+++.|...+...            +....+||+||+|+||||+|+.+|+.+.+               
T Consensus        12 PqtFddVIGQe~vv~~L~~al~~g------------RLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~PCG   79 (700)
T PRK12323         12 PRDFTTLVGQEHVVRALTHALEQQ------------RLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQPCG   79 (700)
T ss_pred             CCcHHHHcCcHHHHHHHHHHHHhC------------CCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCCCCc
Confidence            346889999999999998887631            11224699999999999999999999976               


Q ss_pred             --------------ceEEechhhhhhhccCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhH
Q 013506          351 --------------SFFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGER  412 (441)
Q Consensus       351 --------------~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~  412 (441)
                                    ++++++..+.      ...+.++++.+.+.    .+...|+||||+|++.              ..
T Consensus        80 ~C~sC~~I~aG~hpDviEIdAas~------~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls--------------~~  139 (700)
T PRK12323         80 QCRACTEIDAGRFVDYIEMDAASN------RGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLT--------------NH  139 (700)
T ss_pred             ccHHHHHHHcCCCCcceEeccccc------CCHHHHHHHHHHHHhchhcCCceEEEEEChHhcC--------------HH
Confidence                          1223322211      12345666666543    3456799999999984              35


Q ss_pred             HHHHHHHHhcCCCCCCeEEEEeee
Q 013506          413 LLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       413 ~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ..|.||+.|+....+. +||++||
T Consensus       140 AaNALLKTLEEPP~~v-~FILaTt  162 (700)
T PRK12323        140 AFNAMLKTLEEPPEHV-KFILATT  162 (700)
T ss_pred             HHHHHHHhhccCCCCc-eEEEEeC
Confidence            6899999999755544 4444444

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.43  E-value=4.9e-13  Score=121.53  Aligned_cols=89  Identities=26%  Similarity=0.355  Sum_probs=63.7

Q ss_pred             cccCchhHHHHHHHHHhcccCCchhhhh-cCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh-hccC-c
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSR-LGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MYVG-E  367 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~-~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~-~~~g-~  367 (441)
                      .+.|+++.++.+...+............ ....++.|++|+||||||||++|+++|..++.+++.++.+.+.. .|+| +
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            4678888888887665421111100000 01223579999999999999999999999999999999998874 5777 4


Q ss_pred             hHHHHHHHHHHH
Q 013506          368 SEALLRNTFQRA  379 (441)
Q Consensus       368 ~~~~~~~~~~~a  379 (441)
                      .+..++.+|..|
T Consensus        93 vE~i~r~l~e~A  104 (441)
T TIGR00390        93 VESMVRDLTDAA  104 (441)
T ss_pred             HHHHHHHHHHHH
Confidence            567777776665

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.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=99.43  E-value=3.9e-13  Score=122.21  Aligned_cols=88  Identities=26%  Similarity=0.375  Sum_probs=64.5

Q ss_pred             cccCchhHHHHHHHHHhcccCCchh--hhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh-hccC-
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTA--FSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MYVG-  366 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~--~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~-~~~g-  366 (441)
                      .+.|++..++.+...+.........  ..+... .+.|+||+||||||||++|+.+|..++.+++.++.+++.. .|+| 
T Consensus        16 ~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~-~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f~e~GyvG~   94 (443)
T PRK05201         16 YIIGQDDAKRAVAIALRNRWRRMQLPEELRDEV-TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGR   94 (443)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHhcCCccccccc-CCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhhccCCcccC
Confidence            4788999998887766421111100  001111 2479999999999999999999999999999999999886 5888 


Q ss_pred             chHHHHHHHHHHH
Q 013506          367 ESEALLRNTFQRA  379 (441)
Q Consensus       367 ~~~~~~~~~~~~a  379 (441)
                      +.+..++.+|+.|
T Consensus        95 d~e~~ir~L~~~A  107 (443)
T PRK05201         95 DVESIIRDLVEIA  107 (443)
T ss_pred             CHHHHHHHHHHHH
Confidence            4467777777777

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.43  E-value=9.5e-13  Score=122.73  Aligned_cols=118  Identities=17%  Similarity=0.228  Sum_probs=81.2

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc--------------
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS--------------  351 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~--------------  351 (441)
                      ...++++.|++.+...+...+..           + ..+..+||+||+||||||+|+++|+.+++.              
T Consensus        14 P~~f~dvVGQe~iv~~L~~~i~~-----------~-ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C~sC   81 (484)
T PRK14956         14 PQFFRDVIHQDLAIGALQNALKS-----------G-KIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNECTSC   81 (484)
T ss_pred             CCCHHHHhChHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCCcHH
Confidence            34688899999998888777653           1 122347999999999999999999998763              


Q ss_pred             ----------eEEechhhhhhhccCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHH
Q 013506          352 ----------FFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTL  417 (441)
Q Consensus       352 ----------~~~i~~~~~~~~~~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~l  417 (441)
                                +++++...-      ...+.++++.+.+.    .+...|+||||+|.+.              ...++.|
T Consensus        82 ~~i~~g~~~dviEIdaas~------~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls--------------~~A~NAL  141 (484)
T PRK14956         82 LEITKGISSDVLEIDAASN------RGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLT--------------DQSFNAL  141 (484)
T ss_pred             HHHHccCCccceeechhhc------ccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcC--------------HHHHHHH
Confidence                      333333211      11344555555443    3456799999999984              3578999


Q ss_pred             HHHhcCCCCCCeEEEEeee
Q 013506          418 LTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       418 l~~l~~~~~~~~v~~~~~~  436 (441)
                      |+.|+..+ ...++|++||
T Consensus       142 LKtLEEPp-~~viFILaTt  159 (484)
T PRK14956        142 LKTLEEPP-AHIVFILATT  159 (484)
T ss_pred             HHHhhcCC-CceEEEeecC
Confidence            99998643 4455555555

>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]

Probab=99.43  E-value=9.6e-13  Score=132.40  Aligned_cols=333  Identities=16%  Similarity=0.087  Sum_probs=184.0

Q ss_pred             HHhcCCCCCcEEEEEcCCCCcHHHHHH-HHHHHhCCcEEEEccCccccccccchHHHHHHHHHHHHhhhhc-------C-
Q 013506           45 AQKLGLKWPRGLLLYGPPGTGKTSLVR-AVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALS-------G-  115 (441)
Q Consensus        45 ~~~~~~~~~~~vll~Gp~GtGKT~l~~-~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~-  115 (441)
                      +.+..+...+++++|||||+|||++.. .+-.+....++.+|.+...      ..+.+-.++.+.......       . 
T Consensus      1486 f~n~~lnt~R~~i~cGppGSgK~mlM~~sLrs~~~~ev~~~Nfs~~t------~T~s~ls~Ler~t~yy~~tg~~~l~PK 1559 (3164)
T COG5245        1486 FSNEALNTLRSYIYCGPPGSGKEMLMCPSLRSELITEVKYFNFSTCT------MTPSKLSVLERETEYYPNTGVVRLYPK 1559 (3164)
T ss_pred             HHHHHHhccceEEEECCCCCccchhcchhhhhhhheeeeEEeecccc------CCHHHHHHHHhhceeeccCCeEEEccC
Confidence            444455677999999999999999754 5555666667766654322      122222333332221111       1 


Q ss_pred             ---CCeEEEEccccccccCCC-CCchhhHHHHHHHHHH---HhcCCCCCCCCCeEEEEEEcCCCCc-----cCHHHhhCC
Q 013506          116 ---KPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTL---MDSNKPSKTSVPHVVVVASTNRVDA-----IDPALRRSG  183 (441)
Q Consensus       116 ---~~~il~iDe~~~l~~~~~-~~~~~~~~~~~~l~~~---~~~~~~~~~~~~~~~vi~~~~~~~~-----l~~~l~~~~  183 (441)
                         +..|||.|||+  +|... ..++...-.+++++..   +......+....++++.++||++..     .+.++.|  
T Consensus      1560 ~~vK~lVLFcDeIn--Lp~~~~y~~~~vI~FlR~l~e~QGfw~s~~~~wvTI~~i~l~Gacnp~td~gRv~~~eRf~r-- 1635 (3164)
T COG5245        1560 PVVKDLVLFCDEIN--LPYGFEYYPPTVIVFLRPLVERQGFWSSIAVSWVTICGIILYGACNPGTDEGRVKYYERFIR-- 1635 (3164)
T ss_pred             cchhheEEEeeccC--CccccccCCCceEEeeHHHHHhcccccchhhhHhhhcceEEEccCCCCCCcccCccHHHHhc--
Confidence               23589999999  34333 3322222223333332   2333445567788999999999764     3467765  


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhccCCCCCc-c------------c--------HHHHHHHCCCCCHHHHHHHHHHHHH
Q 013506          184 RFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-V------------D--------LEAIATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       184 r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~------------~--------~~~l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                      |- ..+++..|+...+..|+..++..-..-.+ .            .        .....+.-.+|+++++...++....
T Consensus      1636 ~~-v~vf~~ype~~SL~~Iyea~l~~s~l~~~ef~~~se~~~~aSv~ly~~~k~~~k~~lq~~y~y~pReLtR~lr~i~~ 1714 (3164)
T COG5245        1636 KP-VFVFCCYPELASLRNIYEAVLMGSYLCFDEFNRLSEETMSASVELYLSSKDKTKFFLQMNYGYKPRELTRSLRAIFG 1714 (3164)
T ss_pred             Cc-eEEEecCcchhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhcccccccChHHHHHHHHHHHh
Confidence            33 46788899999999999876654322111 0            0        0000111156888888766654433


Q ss_pred             HH-------------------HHhcccccccccceeeeHhhHH-hhhhhcccccccCcccccCcccccccc--Cchh-HH
Q 013506          243 SA-------------------VKRSSDANECAGVLSVTMEDWR-HARSVVGPSITRGVTVEIPKVTWEDIG--GLRD-LK  299 (441)
Q Consensus       243 ~~-------------------~~~~~~~~~~~~~~~~~~e~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~--g~~~-~k  299 (441)
                      .+                   ++...+....+........++. ...+.++....... .+ ....+..+-  |++. .+
T Consensus      1715 yaeT~~~t~~~slI~~wy~ea~r~~~dRLV~qkE~st~~q~ly~~~~~~~~e~~~g~i-~e-~~I~fS~Il~~g~~~l~k 1792 (3164)
T COG5245        1715 YAETRIDTPDVSLIIDWYCEAIREKIDRLVQQKESSTSRQDLYDFGLRAIREMIAGHI-GE-AEITFSMILFFGMACLLK 1792 (3164)
T ss_pred             HHhcCCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHhhhhhhhccc-ch-hhhhHHHHHhccHHHHhh
Confidence            22                   2222221111111111111111 11111111100000 00 000111110  1111 11


Q ss_pred             HHHHHHH-------------------hcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhh
Q 013506          300 KKLQQAV-------------------EWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (441)
Q Consensus       300 ~~l~~~~-------------------~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~  360 (441)
                      ..+...+                   +.++.|..+..|.....++|.++.|..|+||+.+.+..|+..+.+++++....-
T Consensus      1793 ~dl~~fvEe~~K~F~sshl~v~~V~~~~~l~HiLr~~R~l~~vggh~~l~g~~~~g~~~~~efvcwlN~~~m~e~~~hr~ 1872 (3164)
T COG5245        1793 KDLAVFVEEVRKIFGSSHLDVEAVAYKDALLHILRSRRGLLVVGGHGVLKGVLIRGACDAREFVCWLNPRNMREIFGHRD 1872 (3164)
T ss_pred             hhHHHHHHHHHHHhcccCCCCceeeeHHHHHHHHHHHHHHHHhccchhhhhhhhhhhHHHHHHHHHhCccchhhhhcccc
Confidence            1111111                   134556666777777789999999999999999999999999999999998776


Q ss_pred             hhhccCchHHHHHHHHHHHH-hcCCeEEEEecc
Q 013506          361 YSMYVGESEALLRNTFQRAR-LAAPSIIFFDEA  392 (441)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~-~~~~~vl~iDE~  392 (441)
                      +.  .++++..++...-.+. +....++||||-
T Consensus      1873 ~~--~~Df~d~lk~~~~~~~~~~~r~Cl~I~Es 1903 (3164)
T COG5245        1873 EL--TGDFRDSLKVQDLRRNIHGGRECLFIFES 1903 (3164)
T ss_pred             cc--hhhHHHHHHHHHHhccccCCceEEEEecC
Confidence            66  8899888877766663 345568888876

>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=99.43  E-value=1e-11  Score=110.21  Aligned_cols=79  Identities=29%  Similarity=0.394  Sum_probs=52.9

Q ss_pred             CeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCC------------CCccCHHHhhCCc
Q 013506          117 PSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR------------VDAIDPALRRSGR  184 (441)
Q Consensus       117 ~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~------------~~~l~~~l~~~~r  184 (441)
                      |+||||||+|.|          +.++...|.+.++..-.      . ++|.+||+            |..+|..++.  |
T Consensus       279 pGVLFIDEvHmL----------DiEcFsfLnralEs~~s------P-iiIlATNRg~~~irGt~~~sphGiP~DlLD--R  339 (398)
T PF06068_consen  279 PGVLFIDEVHML----------DIECFSFLNRALESELS------P-IIILATNRGITKIRGTDIISPHGIPLDLLD--R  339 (398)
T ss_dssp             E-EEEEESGGGS----------BHHHHHHHHHHHTSTT---------EEEEEES-SEEE-BTTS-EEETT--HHHHT--T
T ss_pred             cceEEecchhhc----------cHHHHHHHHHHhcCCCC------c-EEEEecCceeeeccCccCcCCCCCCcchHh--h
Confidence            579999999988          66888888888887432      2 55555553            3467788888  8


Q ss_pred             cceEEEecCCCHHHHHHHHHHHhccCCCCCc
Q 013506          185 FDAEVEVTVPTAEERFEILKLYTKKVPLDAN  215 (441)
Q Consensus       185 ~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~  215 (441)
                      +- ++...+++.++..+|+...+.......+
T Consensus       340 ll-II~t~py~~~ei~~Il~iR~~~E~v~i~  369 (398)
T PF06068_consen  340 LL-IIRTKPYSEEEIKQILKIRAKEEDVEIS  369 (398)
T ss_dssp             EE-EEEE----HHHHHHHHHHHHHHCT--B-
T ss_pred             cE-EEECCCCCHHHHHHHHHhhhhhhcCcCC
Confidence            84 8999999999999999998887766544

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.

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.42  E-value=1.5e-12  Score=117.45  Aligned_cols=167  Identities=25%  Similarity=0.336  Sum_probs=103.9

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC-------cEEEEccC-
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-------HLTVISPH-   87 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~-------~~~~v~~~-   87 (441)
                      .+|++++|++++++.+.-.+..             ....++||.|+||||||++++.++..++.       ++-..... 
T Consensus         5 ~~f~~i~Gq~~~~~~l~~~~~~-------------~~~~~vLl~G~pG~gKT~lar~la~llP~~~~~e~~~~~~~~~~~   71 (334)
T PRK13407          5 FPFSAIVGQEEMKQAMVLTAID-------------PGIGGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARPED   71 (334)
T ss_pred             CCHHHhCCHHHHHHHHHHHHhc-------------cCCCcEEEEcCCCCCHHHHHHHHHHHCCCcchhcccccccCcccC
Confidence            4579999999999988864422             12368999999999999999999998842       11000000 


Q ss_pred             --cc---------------ccccccchHH------HHHHHHHHH-----HhhhhcCCCeEEEEccccccccCCCCCchhh
Q 013506           88 --SV---------------HKAHVGESEK------ALREAFSQA-----SSHALSGKPSVVFIDEIDALCPRRDHRREQD  139 (441)
Q Consensus        88 --~~---------------~~~~~~~~~~------~~~~~~~~~-----~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~  139 (441)
                        +.               .....+.+..      .+...+...     ..........+||+||++.+          +
T Consensus        72 ~~~~~~~~~~~~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~l~~A~~GiL~lDEInrl----------~  141 (334)
T PRK13407         72 CPEWAHVSSTTMIERPTPVVDLPLGVTEDRVVGALDIERALTRGEKAFEPGLLARANRGYLYIDEVNLL----------E  141 (334)
T ss_pred             CcccccccCCcccccCCccccCCCCCCcceeecchhhhhhhhcCCeeecCCceEEcCCCeEEecChHhC----------C
Confidence              00               0000000000      000000000     00011123469999999987          4


Q ss_pred             HHHHHHHHHHHhcCCC-------CCCCCCeEEEEEEcCCCC-ccCHHHhhCCccceEEEecCCCH-HHHHHHHHHHh
Q 013506          140 VRIASQLFTLMDSNKP-------SKTSVPHVVVVASTNRVD-AIDPALRRSGRFDAEVEVTVPTA-EERFEILKLYT  207 (441)
Q Consensus       140 ~~~~~~l~~~~~~~~~-------~~~~~~~~~vi~~~~~~~-~l~~~l~~~~r~~~~i~~~~p~~-~~~~~il~~~~  207 (441)
                      ...+..|+..++....       .......+++++++|+.+ .+++.+..  ||...+.+++|.. +++.+++....
T Consensus       142 ~~~q~~Lle~mee~~v~v~r~G~~~~~p~rfiviAt~NP~e~~l~~aLld--RF~~~v~v~~~~~~~e~~~il~~~~  216 (334)
T PRK13407        142 DHIVDLLLDVAQSGENVVEREGLSIRHPARFVLVGSGNPEEGELRPQLLD--RFGLSVEVRSPRDVETRVEVIRRRD  216 (334)
T ss_pred             HHHHHHHHHHHHcCCeEEEECCeEEecCCCEEEEecCCcccCCCCHHHHh--hcceEEEcCCCCcHHHHHHHHHHhh
Confidence            4677888888865321       111224688999999755 68899998  9988899888877 88888887643

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=99.41  E-value=3.3e-11  Score=109.99  Aligned_cols=176  Identities=12%  Similarity=0.230  Sum_probs=119.2

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc--------EEEEccCc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--------LTVISPHS   88 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~--------~~~v~~~~   88 (441)
                      .|++++|++.+++.|.+.+...            ..++.+||+||+|+|||++|+.+++.+.+.        +..+...+
T Consensus         2 ~~~~i~g~~~~~~~l~~~~~~~------------~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~   69 (313)
T PRK05564          2 SFHTIIGHENIKNRIKNSIIKN------------RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPIN   69 (313)
T ss_pred             ChhhccCcHHHHHHHHHHHHcC------------CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEecccc
Confidence            3689999999999999987431            235678999999999999999999976331        22232210


Q ss_pred             cccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEE
Q 013506           89 VHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (441)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~  168 (441)
                        ..  ......++.+..........++..|++||++|.+          +....+.|+..++...      +++++|.+
T Consensus        70 --~~--~i~v~~ir~~~~~~~~~p~~~~~kv~iI~~ad~m----------~~~a~naLLK~LEepp------~~t~~il~  129 (313)
T PRK05564         70 --KK--SIGVDDIRNIIEEVNKKPYEGDKKVIIIYNSEKM----------TEQAQNAFLKTIEEPP------KGVFIILL  129 (313)
T ss_pred             --CC--CCCHHHHHHHHHHHhcCcccCCceEEEEechhhc----------CHHHHHHHHHHhcCCC------CCeEEEEE
Confidence              11  1122345555554444444456789999999877          4467788899888633      24566666


Q ss_pred             cCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCH
Q 013506          169 TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVG  230 (441)
Q Consensus       169 ~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~  230 (441)
                      ++.++.+.+.+++  |+. .+.|++++.++....+......  . ....++.++..+.|...
T Consensus       130 ~~~~~~ll~TI~S--Rc~-~~~~~~~~~~~~~~~l~~~~~~--~-~~~~~~~l~~~~~g~~~  185 (313)
T PRK05564        130 CENLEQILDTIKS--RCQ-IYKLNRLSKEEIEKFISYKYND--I-KEEEKKSAIAFSDGIPG  185 (313)
T ss_pred             eCChHhCcHHHHh--hce-eeeCCCcCHHHHHHHHHHHhcC--C-CHHHHHHHHHHcCCCHH
Confidence            6778899999998  885 8999999999988877654431  1 12224455555555433

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.41  E-value=1.6e-12  Score=111.55  Aligned_cols=100  Identities=33%  Similarity=0.407  Sum_probs=82.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh-hccCchHHH-HHHHHHHH----HhcCCeEEEEeccccccc
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MYVGESEAL-LRNTFQRA----RLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~-~~~g~~~~~-~~~~~~~a----~~~~~~vl~iDE~d~~~~  397 (441)
                      ..++||+||+|||||.||+-||++++.||-.-+.+.+-. -|+|+..++ +-++++.|    ......+++|||||+++.
T Consensus        97 KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATtLTEAGYVGEDVENillkLlqaadydV~rAerGIIyIDEIDKIar  176 (408)
T COG1219          97 KSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVGEDVENILLKLLQAADYDVERAERGIIYIDEIDKIAR  176 (408)
T ss_pred             eccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccchhhccccchhHHHHHHHHHHHcccCHHHHhCCeEEEechhhhhc
Confidence            358999999999999999999999999999888888754 499998554 57777766    234455999999999987


Q ss_pred             ccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          398 KRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       398 ~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                      .-.+.+-+.+-.+..+--.||+.++|
T Consensus       177 kSeN~SITRDVSGEGVQQALLKiiEG  202 (408)
T COG1219         177 KSENPSITRDVSGEGVQQALLKIIEG  202 (408)
T ss_pred             cCCCCCcccccCchHHHHHHHHHHcC
Confidence            66666666666678999999999998

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.41  E-value=2.8e-12  Score=121.11  Aligned_cols=167  Identities=19%  Similarity=0.287  Sum_probs=103.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccccccc
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCP  130 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~  130 (441)
                      ++++|+||+|+|||+|++++++.+   +..++++++..+...............|...     ....++|+|||++.+..
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~~~~~~l~~~~~~~f~~~-----~~~~dvLiIDDiq~l~~  216 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTEHLVSAIRSGEMQRFRQF-----YRNVDALFIEDIEVFSG  216 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHHHHHHHHhcchHHHHHHH-----cccCCEEEEcchhhhcC
Confidence            689999999999999999999876   4667777766543321111110001112221     12468999999998743


Q ss_pred             CCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCC---ccCHHHhhCCccc--eEEEecCCCHHHHHHHHHH
Q 013506          131 RRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD---AIDPALRRSGRFD--AEVEVTVPTAEERFEILKL  205 (441)
Q Consensus       131 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~---~l~~~l~~~~r~~--~~i~~~~p~~~~~~~il~~  205 (441)
                      ..        .....++..++......    ..+++++...|.   .+++++.+  ||.  ..+.+++|+.+++.+|++.
T Consensus       217 k~--------~~qeelf~l~N~l~~~~----k~IIlts~~~p~~l~~l~~rL~S--R~~~Gl~~~l~~pd~e~r~~iL~~  282 (445)
T PRK12422        217 KG--------ATQEEFFHTFNSLHTEG----KLIVISSTCAPQDLKAMEERLIS--RFEWGIAIPLHPLTKEGLRSFLER  282 (445)
T ss_pred             Ch--------hhHHHHHHHHHHHHHCC----CcEEEecCCCHHHHhhhHHHHHh--hhcCCeEEecCCCCHHHHHHHHHH
Confidence            21        12333444333221111    235555544454   46789998  774  7899999999999999998


Q ss_pred             HhccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHHH
Q 013506          206 YTKKVPLDANVD-LEAIATSCNGYVGADLEALCREA  240 (441)
Q Consensus       206 ~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~a  240 (441)
                      .+.......+.+ ++.++....+ +.+.+...+...
T Consensus       283 k~~~~~~~l~~evl~~la~~~~~-dir~L~g~l~~l  317 (445)
T PRK12422        283 KAEALSIRIEETALDFLIEALSS-NVKSLLHALTLL  317 (445)
T ss_pred             HHHHcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHH
Confidence            887766544333 5556666553 455665555554

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.40  E-value=3.6e-12  Score=115.19  Aligned_cols=165  Identities=23%  Similarity=0.314  Sum_probs=106.3

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC-------cEEEEccCc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-------HLTVISPHS   88 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~-------~~~~v~~~~   88 (441)
                      -.|++|+|++++|..|...+..|             ...+++|.|++|||||++++.+...+..       ++. .....
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            46899999999999999877653             2357999999999999999999877632       111 00000


Q ss_pred             --------------------------cccccccchHHH------HHHHHHHHHh-----hhhcCCCeEEEEccccccccC
Q 013506           89 --------------------------VHKAHVGESEKA------LREAFSQASS-----HALSGKPSVVFIDEIDALCPR  131 (441)
Q Consensus        89 --------------------------~~~~~~~~~~~~------~~~~~~~~~~-----~~~~~~~~il~iDe~~~l~~~  131 (441)
                                                +.....+.....      +...+.....     .......++||+||++.+   
T Consensus        80 p~~~~~~~~~~~~~~~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEInrL---  156 (350)
T CHL00081         80 PELMSDEVREAIQNGETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNLL---  156 (350)
T ss_pred             hhhhchhhhhhhcccccccceeccccceecCCCCchhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChHhC---
Confidence                                      000000111111      1111111110     011123579999999988   


Q ss_pred             CCCCchhhHHHHHHHHHHHhcCC-------CCCCCCCeEEEEEEcCCCC-ccCHHHhhCCccceEEEecCCC-HHHHHHH
Q 013506          132 RDHRREQDVRIASQLFTLMDSNK-------PSKTSVPHVVVVASTNRVD-AIDPALRRSGRFDAEVEVTVPT-AEERFEI  202 (441)
Q Consensus       132 ~~~~~~~~~~~~~~l~~~~~~~~-------~~~~~~~~~~vi~~~~~~~-~l~~~l~~~~r~~~~i~~~~p~-~~~~~~i  202 (441)
                             +...+..|+..++...       .......+++++++.|+.+ .+++.+..  ||...+.+..|+ .+.+.+|
T Consensus       157 -------~~~~Q~~LLeam~e~~~~ier~G~s~~~p~rfiviaT~np~eg~l~~~Lld--Rf~l~i~l~~~~~~~~e~~i  227 (350)
T CHL00081        157 -------DDHLVDILLDSAASGWNTVEREGISIRHPARFVLVGSGNPEEGELRPQLLD--RFGMHAEIRTVKDPELRVKI  227 (350)
T ss_pred             -------CHHHHHHHHHHHHhCCeEEeeCCeeeecCCCEEEEeccCcccCCCCHHHHH--HhCceeecCCCCChHHHHHH
Confidence                   4467777888776421       1111234688888888765 68999998  999899999997 5899999


Q ss_pred             HHHH
Q 013506          203 LKLY  206 (441)
Q Consensus       203 l~~~  206 (441)
                      ++..
T Consensus       228 l~~~  231 (350)
T CHL00081        228 VEQR  231 (350)
T ss_pred             HHhh
Confidence            8764

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.40  E-value=1.5e-12  Score=126.08  Aligned_cols=120  Identities=18%  Similarity=0.253  Sum_probs=83.4

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc--------------
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS--------------  351 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~--------------  351 (441)
                      ..+|+++.|++.+++.|...+..           + +....+||+||+||||||+|+++|+.+.+.              
T Consensus        12 PqtFdEVIGQe~Vv~~L~~aL~~-----------g-RL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sC   79 (830)
T PRK07003         12 PKDFASLVGQEHVVRALTHALDG-----------G-RLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRAC   79 (830)
T ss_pred             CCcHHHHcCcHHHHHHHHHHHhc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHH
Confidence            34688999999999998887753           1 122246999999999999999999988652              


Q ss_pred             ----------eEEechhhhhhhccCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHH
Q 013506          352 ----------FFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTL  417 (441)
Q Consensus       352 ----------~~~i~~~~~~~~~~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~l  417 (441)
                                +++++.++      ....+.++.+++.+.    .....|+||||+|++.              ...+|.|
T Consensus        80 r~I~~G~h~DviEIDAas------~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT--------------~~A~NAL  139 (830)
T PRK07003         80 REIDEGRFVDYVEMDAAS------NRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLT--------------NHAFNAM  139 (830)
T ss_pred             HHHhcCCCceEEEecccc------cccHHHHHHHHHHHHhccccCCceEEEEeChhhCC--------------HHHHHHH
Confidence                      23333221      112345666666653    2456799999999984              2568999


Q ss_pred             HHHhcCCCCCCeEEEEeeee
Q 013506          418 LTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       418 l~~l~~~~~~~~v~~~~~~~  437 (441)
                      |+.|+....+.++|+++++.
T Consensus       140 LKtLEEPP~~v~FILaTtd~  159 (830)
T PRK07003        140 LKTLEEPPPHVKFILATTDP  159 (830)
T ss_pred             HHHHHhcCCCeEEEEEECCh
Confidence            99999765555555555443

>PRK06620 hypothetical protein; Validated

Probab=99.39  E-value=7.2e-11  Score=100.71  Aligned_cols=144  Identities=15%  Similarity=0.207  Sum_probs=90.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCC
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD  133 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~  133 (441)
                      .+++||||||||||++++++++..+..  .++....           ....+         ...++|+|||+|.+     
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~~--~~~~~~~-----------~~~~~---------~~~d~lliDdi~~~-----   97 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNAY--IIKDIFF-----------NEEIL---------EKYNAFIIEDIENW-----   97 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCCE--Ecchhhh-----------chhHH---------hcCCEEEEeccccc-----
Confidence            679999999999999999998877542  2221110           00111         12479999999844     


Q ss_pred             CCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCc--cCHHHhhCCccc--eEEEecCCCHHHHHHHHHHHhcc
Q 013506          134 HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA--IDPALRRSGRFD--AEVEVTVPTAEERFEILKLYTKK  209 (441)
Q Consensus       134 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~--l~~~l~~~~r~~--~~i~~~~p~~~~~~~il~~~~~~  209 (441)
                           ....+-.+++.+....       +.++++++..|..  + +++++  |+.  .++.+.+|+.+.+..+++.....
T Consensus        98 -----~~~~lf~l~N~~~e~g-------~~ilits~~~p~~l~l-~~L~S--Rl~~gl~~~l~~pd~~~~~~~l~k~~~~  162 (214)
T PRK06620         98 -----QEPALLHIFNIINEKQ-------KYLLLTSSDKSRNFTL-PDLSS--RIKSVLSILLNSPDDELIKILIFKHFSI  162 (214)
T ss_pred             -----hHHHHHHHHHHHHhcC-------CEEEEEcCCCccccch-HHHHH--HHhCCceEeeCCCCHHHHHHHHHHHHHH
Confidence                 1122233333332211       3466666655443  5 78888  664  57999999999999999887765


Q ss_pred             CCCCCc-ccHHHHHHHCCCCCHHHHHHHHHHH
Q 013506          210 VPLDAN-VDLEAIATSCNGYVGADLEALCREA  240 (441)
Q Consensus       210 ~~~~~~-~~~~~l~~~~~g~~~~~i~~l~~~a  240 (441)
                      .....+ .-++.++.... -+.+.+..+++..
T Consensus       163 ~~l~l~~ev~~~L~~~~~-~d~r~l~~~l~~l  193 (214)
T PRK06620        163 SSVTISRQIIDFLLVNLP-REYSKIIEILENI  193 (214)
T ss_pred             cCCCCCHHHHHHHHHHcc-CCHHHHHHHHHHH
Confidence            544433 23667777665 3556666665553

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=99.38  E-value=4.6e-11  Score=107.78  Aligned_cols=184  Identities=17%  Similarity=0.235  Sum_probs=124.2

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc----------------
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH----------------   80 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~----------------   80 (441)
                      .|++|+|++.+++.|.+.+...            .-++.+||+||+|+||+++|..+++.+...                
T Consensus         2 ~f~~iiGq~~~~~~L~~~i~~~------------rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~h   69 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIKQN------------RIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNH   69 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHhC------------CCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCC
Confidence            4689999999999999988552            235789999999999999999999886322                


Q ss_pred             --EEEEccCccc-cccc----------------cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHH
Q 013506           81 --LTVISPHSVH-KAHV----------------GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVR  141 (441)
Q Consensus        81 --~~~v~~~~~~-~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~  141 (441)
                        +..+...... ....                .-....++.+.+........+...|++||++|.|          ...
T Consensus        70 PDl~~i~p~~~~~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m----------~~~  139 (314)
T PRK07399         70 PDLLWVEPTYQHQGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETM----------NEA  139 (314)
T ss_pred             CCEEEEeccccccccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhc----------CHH
Confidence              1222111000 0000                0011234555555554444566789999999987          446


Q ss_pred             HHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHH
Q 013506          142 IASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAI  221 (441)
Q Consensus       142 ~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l  221 (441)
                      ..+.|++.++...       +.++|..++.++.+.|.+++  |+. .+.|++++.++..+++.........  +.....+
T Consensus       140 aaNaLLK~LEEPp-------~~~fILi~~~~~~Ll~TI~S--Rcq-~i~f~~l~~~~~~~~L~~~~~~~~~--~~~~~~l  207 (314)
T PRK07399        140 AANALLKTLEEPG-------NGTLILIAPSPESLLPTIVS--RCQ-IIPFYRLSDEQLEQVLKRLGDEEIL--NINFPEL  207 (314)
T ss_pred             HHHHHHHHHhCCC-------CCeEEEEECChHhCcHHHHh--hce-EEecCCCCHHHHHHHHHHhhccccc--hhHHHHH
Confidence            7888999998743       23566667788999999999  885 8999999999999998876432111  1124566


Q ss_pred             HHHCCCCCHHHHH
Q 013506          222 ATSCNGYVGADLE  234 (441)
Q Consensus       222 ~~~~~g~~~~~i~  234 (441)
                      +....|-.+..+.
T Consensus       208 ~~~a~Gs~~~al~  220 (314)
T PRK07399        208 LALAQGSPGAAIA  220 (314)
T ss_pred             HHHcCCCHHHHHH
Confidence            6666665444443

>PRK05642 DNA replication initiation factor; Validated

Probab=99.38  E-value=1.6e-11  Score=106.74  Aligned_cols=160  Identities=17%  Similarity=0.224  Sum_probs=101.2

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALC  129 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~  129 (441)
                      ..+++|+||+|+|||+|++++++.+   +..+++++..++...        .....+...      +.++|+|||++.+.
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~~~--------~~~~~~~~~------~~d~LiiDDi~~~~  110 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDR--------GPELLDNLE------QYELVCLDDLDVIA  110 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHHhh--------hHHHHHhhh------hCCEEEEechhhhc
Confidence            3689999999999999999998764   456777776654431        111111111      24699999998763


Q ss_pred             cCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCc---cCHHHhhCCcc--ceEEEecCCCHHHHHHHHH
Q 013506          130 PRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA---IDPALRRSGRF--DAEVEVTVPTAEERFEILK  204 (441)
Q Consensus       130 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~---l~~~l~~~~r~--~~~i~~~~p~~~~~~~il~  204 (441)
                      ..        ......|+..++......    +.++++++..+..   ..+++.+  |+  ..++.+.+|+.+++.++++
T Consensus       111 ~~--------~~~~~~Lf~l~n~~~~~g----~~ilits~~~p~~l~~~~~~L~S--Rl~~gl~~~l~~~~~e~~~~il~  176 (234)
T PRK05642        111 GK--------ADWEEALFHLFNRLRDSG----RRLLLAASKSPRELPIKLPDLKS--RLTLALVFQMRGLSDEDKLRALQ  176 (234)
T ss_pred             CC--------hHHHHHHHHHHHHHHhcC----CEEEEeCCCCHHHcCccCccHHH--HHhcCeeeecCCCCHHHHHHHHH
Confidence            22        123445566555432211    3466666555543   3688888  76  3678899999999999999


Q ss_pred             HHhccCCCCCcc-cHHHHHHHCCCCCHHHHHHHHHHHH
Q 013506          205 LYTKKVPLDANV-DLEAIATSCNGYVGADLEALCREAT  241 (441)
Q Consensus       205 ~~~~~~~~~~~~-~~~~l~~~~~g~~~~~i~~l~~~a~  241 (441)
                      ..........+. -++.++.... -+.+.+..+++...
T Consensus       177 ~ka~~~~~~l~~ev~~~L~~~~~-~d~r~l~~~l~~l~  213 (234)
T PRK05642        177 LRASRRGLHLTDEVGHFILTRGT-RSMSALFDLLERLD  213 (234)
T ss_pred             HHHHHcCCCCCHHHHHHHHHhcC-CCHHHHHHHHHHHH
Confidence            665554443332 3566666555 45666666666554

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.37  E-value=2.6e-12  Score=123.30  Aligned_cols=118  Identities=15%  Similarity=0.223  Sum_probs=83.9

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc--------------
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS--------------  351 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~--------------  351 (441)
                      ...++++.|++.+.+.+...+..           + ..+..+||+||+|+||||+|+++|+.+.+.              
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-----------Q-YLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENC   79 (509)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHh-----------C-CCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHH
Confidence            34688999999999998888753           1 122246999999999999999999988653              


Q ss_pred             ----------eEEechhhhhhhccCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHH
Q 013506          352 ----------FFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTL  417 (441)
Q Consensus       352 ----------~~~i~~~~~~~~~~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~l  417 (441)
                                +++++.++      ....+.++.+.+.+.    .+...|+||||+|++.              ...++.|
T Consensus        80 ~~i~~g~~~d~~eidaas------~~~v~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls--------------~~a~naL  139 (509)
T PRK14958         80 REIDEGRFPDLFEVDAAS------RTKVEDTRELLDNIPYAPTKGRFKVYLIDEVHMLS--------------GHSFNAL  139 (509)
T ss_pred             HHHhcCCCceEEEEcccc------cCCHHHHHHHHHHHhhccccCCcEEEEEEChHhcC--------------HHHHHHH
Confidence                      44444332      122345666666543    3456799999999985              2568999


Q ss_pred             HHHhcCCCCCCeEEEEeee
Q 013506          418 LTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       418 l~~l~~~~~~~~v~~~~~~  436 (441)
                      |+.|+..+.. .++|++||
T Consensus       140 Lk~LEepp~~-~~fIlatt  157 (509)
T PRK14958        140 LKTLEEPPSH-VKFILATT  157 (509)
T ss_pred             HHHHhccCCC-eEEEEEEC
Confidence            9999986555 45555554

>PHA02244 ATPase-like protein

Probab=99.37  E-value=2.1e-11  Score=109.35  Aligned_cols=133  Identities=19%  Similarity=0.204  Sum_probs=84.1

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPR  131 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~  131 (441)
                      .+.+++|+||||||||++|++++..++.+++.++...-.....+....  ...|....-.....++.+|+|||++.+.  
T Consensus       118 ~~~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G~i~~--~g~~~dgpLl~A~~~GgvLiLDEId~a~--  193 (383)
T PHA02244        118 ANIPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKGFIDA--NGKFHETPFYEAFKKGGLFFIDEIDASI--  193 (383)
T ss_pred             cCCCEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhcccccc--cccccchHHHHHhhcCCEEEEeCcCcCC--
Confidence            457899999999999999999999999999988742100000000000  0011100000001247899999999762  


Q ss_pred             CCCCchhhHHHHHHHHHHHhcC-----CCCCCCCCeEEEEEEcCCC-----------CccCHHHhhCCccceEEEecCCC
Q 013506          132 RDHRREQDVRIASQLFTLMDSN-----KPSKTSVPHVVVVASTNRV-----------DAIDPALRRSGRFDAEVEVTVPT  195 (441)
Q Consensus       132 ~~~~~~~~~~~~~~l~~~~~~~-----~~~~~~~~~~~vi~~~~~~-----------~~l~~~l~~~~r~~~~i~~~~p~  195 (441)
                              ...+..|...++..     ......++++.+|+|+|+.           ..+++++..  ||. .+++..|+
T Consensus       194 --------p~vq~~L~~lLd~r~l~l~g~~i~~h~~FRlIATsN~~~~G~~~~y~G~k~L~~AllD--RFv-~I~~dyp~  262 (383)
T PHA02244        194 --------PEALIIINSAIANKFFDFADERVTAHEDFRVISAGNTLGKGADHIYVARNKIDGATLD--RFA-PIEFDYDE  262 (383)
T ss_pred             --------HHHHHHHHHHhccCeEEecCcEEecCCCEEEEEeeCCCccCcccccCCCcccCHHHHh--hcE-EeeCCCCc
Confidence                    34555666665431     1122245689999999983           367899998  996 78999988


Q ss_pred             HHHH
Q 013506          196 AEER  199 (441)
Q Consensus       196 ~~~~  199 (441)
                      ..+.
T Consensus       263 ~~E~  266 (383)
T PHA02244        263 KIEH  266 (383)
T ss_pred             HHHH
Confidence            4443

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.37  E-value=2.5e-11  Score=109.99  Aligned_cols=165  Identities=24%  Similarity=0.300  Sum_probs=103.3

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC-------cEE-------
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-------HLT-------   82 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~-------~~~-------   82 (441)
                      .|..|+|++++|..|.-.+..|             ...+++|.|+||+||||+++.+++.+..       ++-       
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            3688999999999987665442             3468999999999999999999988732       110       


Q ss_pred             --EEccCc----------------cccccccchHH------HHHHHHHHHH-----hhhhcCCCeEEEEccccccccCCC
Q 013506           83 --VISPHS----------------VHKAHVGESEK------ALREAFSQAS-----SHALSGKPSVVFIDEIDALCPRRD  133 (441)
Q Consensus        83 --~v~~~~----------------~~~~~~~~~~~------~~~~~~~~~~-----~~~~~~~~~il~iDe~~~l~~~~~  133 (441)
                        ..++..                +.....+.+..      .+...+....     .......+.+||+||++.+     
T Consensus        69 ~~~~~~r~~~~~~~~~~~~~~~~~~~~lP~~~t~d~l~G~~d~~~~l~~g~~~~~~GlL~~A~~GvL~lDEi~~L-----  143 (337)
T TIGR02030        69 MMCEEVRIRVDSQEPLSIIKKPVPVVDLPLGATEDRVCGTLDIERALTEGVKAFEPGLLARANRGILYIDEVNLL-----  143 (337)
T ss_pred             ccChHHhhhhhcccccccccCCCCcCCCCCCCcccceecchhHhhHhhcCCEEeecCcceeccCCEEEecChHhC-----
Confidence              000000                00000000000      0111110000     0011123579999999987     


Q ss_pred             CCchhhHHHHHHHHHHHhcCC------C-CCCCCCeEEEEEEcCCCC-ccCHHHhhCCccceEEEecCCCH-HHHHHHHH
Q 013506          134 HRREQDVRIASQLFTLMDSNK------P-SKTSVPHVVVVASTNRVD-AIDPALRRSGRFDAEVEVTVPTA-EERFEILK  204 (441)
Q Consensus       134 ~~~~~~~~~~~~l~~~~~~~~------~-~~~~~~~~~vi~~~~~~~-~l~~~l~~~~r~~~~i~~~~p~~-~~~~~il~  204 (441)
                           +...+..|+..++...      + ......++++++++|+.+ .+++.+..  ||...+.++.|+. +++.+|++
T Consensus       144 -----~~~~Q~~Ll~~l~~g~~~v~r~G~~~~~~~r~iviat~np~eg~l~~~Lld--Rf~l~i~l~~p~~~eer~eIL~  216 (337)
T TIGR02030       144 -----EDHLVDVLLDVAASGWNVVEREGISIRHPARFVLVGSGNPEEGELRPQLLD--RFGLHAEIRTVRDVELRVEIVE  216 (337)
T ss_pred             -----CHHHHHHHHHHHHhCCeEEEECCEEEEcCCCEEEEeccccccCCCCHHHHh--hcceEEECCCCCCHHHHHHHHH
Confidence                 4467788888876532      0 111223688888888765 78999999  9998899998876 88888887


Q ss_pred             HH
Q 013506          205 LY  206 (441)
Q Consensus       205 ~~  206 (441)
                      ..
T Consensus       217 ~~  218 (337)
T TIGR02030       217 RR  218 (337)
T ss_pred             hh
Confidence            64

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.

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.37  E-value=5e-12  Score=121.28  Aligned_cols=117  Identities=16%  Similarity=0.251  Sum_probs=82.9

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC----------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA----------------  350 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~----------------  350 (441)
                      ..++++.|++.+++.+...+..           + ..+..+||+||+|+||||+|+++|+.+++                
T Consensus        12 ktFddVIGQe~vv~~L~~aI~~-----------g-rl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~sC~   79 (702)
T PRK14960         12 RNFNELVGQNHVSRALSSALER-----------G-RLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCATCK   79 (702)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCHHHH
Confidence            4688999999999998887752           1 22345699999999999999999999876                


Q ss_pred             --------ceEEechhhhhhhccCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHH
Q 013506          351 --------SFFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (441)
Q Consensus       351 --------~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll  418 (441)
                              ++++++.++-      ...+.++.+...+.    .++..|+||||+|.+.              ....+.||
T Consensus        80 ~I~~g~hpDviEIDAAs~------~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS--------------~~A~NALL  139 (702)
T PRK14960         80 AVNEGRFIDLIEIDAASR------TKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLS--------------THSFNALL  139 (702)
T ss_pred             HHhcCCCCceEEeccccc------CCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcC--------------HHHHHHHH
Confidence                    3344444321      12445666666552    2456799999999884              24689999


Q ss_pred             HHhcCCCCCCeEEEEeee
Q 013506          419 TEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       419 ~~l~~~~~~~~v~~~~~~  436 (441)
                      +.|+..+... ++|+++|
T Consensus       140 KtLEEPP~~v-~FILaTt  156 (702)
T PRK14960        140 KTLEEPPEHV-KFLFATT  156 (702)
T ss_pred             HHHhcCCCCc-EEEEEEC
Confidence            9999765544 4444443

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=99.36  E-value=7e-11  Score=120.41  Aligned_cols=144  Identities=23%  Similarity=0.281  Sum_probs=99.4

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccc-------cccchHHHHHHHHHHHHhhhhcCCCeEEEEc
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA-------HVGESEKALREAFSQASSHALSGKPSVVFID  123 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~il~iD  123 (441)
                      +-+++++|-|.||+|||+++.++|+..|...+.++.++..+.       ...+....+  .+..+.--....++.++++|
T Consensus      1541 qv~kpilLEGsPGVGKTSlItaLAr~tG~kliRINLSeQTdL~DLfGsd~Pve~~Gef--~w~dapfL~amr~G~WVlLD 1618 (4600)
T COG5271        1541 QVGKPILLEGSPGVGKTSLITALARKTGKKLIRINLSEQTDLCDLFGSDLPVEEGGEF--RWMDAPFLHAMRDGGWVLLD 1618 (4600)
T ss_pred             hcCCceeecCCCCccHHHHHHHHHHHhcCceEEeeccccchHHHHhCCCCCcccCcee--EecccHHHHHhhcCCEEEee
Confidence            346789999999999999999999999999999987653211       111100000  01111111111246799999


Q ss_pred             cccccccCCCCCchhhHHHHHHHHHHHhcCC--------CCCCCCCeEEEEEEcCCCC------ccCHHHhhCCccceEE
Q 013506          124 EIDALCPRRDHRREQDVRIASQLFTLMDSNK--------PSKTSVPHVVVVASTNRVD------AIDPALRRSGRFDAEV  189 (441)
Q Consensus       124 e~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~--------~~~~~~~~~~vi~~~~~~~------~l~~~l~~~~r~~~~i  189 (441)
                      |++..          ++.++..|...++...        .....+|++.|+++-|+-+      .+|..+..  ||. ++
T Consensus      1619 EiNLa----------SQSVlEGLNacLDhR~eayIPEld~~f~~HpnfrVFAaqNPq~qggGRKgLPkSF~n--RFs-vV 1685 (4600)
T COG5271        1619 EINLA----------SQSVLEGLNACLDHRREAYIPELDKTFDVHPNFRVFAAQNPQDQGGGRKGLPKSFLN--RFS-VV 1685 (4600)
T ss_pred             hhhhh----------HHHHHHHHHHHHhhccccccccccceeeccCCeeeeeecCchhcCCCcccCCHHHhh--hhh-eE
Confidence            99754          4467777777776532        2345678999999988854      68889988  996 88


Q ss_pred             EecCCCHHHHHHHHHHHhcc
Q 013506          190 EVTVPTAEERFEILKLYTKK  209 (441)
Q Consensus       190 ~~~~p~~~~~~~il~~~~~~  209 (441)
                      ++..++.+....|......+
T Consensus      1686 ~~d~lt~dDi~~Ia~~~yp~ 1705 (4600)
T COG5271        1686 KMDGLTTDDITHIANKMYPQ 1705 (4600)
T ss_pred             EecccccchHHHHHHhhCCc
Confidence            99999999988887765543

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.35  E-value=4.5e-12  Score=129.74  Aligned_cols=100  Identities=21%  Similarity=0.288  Sum_probs=80.7

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCceEEech
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLSG  357 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~----------~~~~~~i~~  357 (441)
                      .++.+.|.+...+.+.+.+.             .+...+++|+||||||||++|+.+|...          +..++.++.
T Consensus       177 ~~~~~igr~~ei~~~~~~L~-------------r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~  243 (821)
T CHL00095        177 NLDPVIGREKEIERVIQILG-------------RRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDI  243 (821)
T ss_pred             CCCCCCCcHHHHHHHHHHHc-------------ccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeH
Confidence            35566676665555555443             2345589999999999999999999876          478999999


Q ss_pred             hhhh--hhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccC
Q 013506          358 AELY--SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRG  400 (441)
Q Consensus       358 ~~~~--~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~  400 (441)
                      ++++  .+|.|++++.++.+++.+....++||||||++.+++.++
T Consensus       244 ~~l~ag~~~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~  288 (821)
T CHL00095        244 GLLLAGTKYRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGA  288 (821)
T ss_pred             HHHhccCCCccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCC
Confidence            8887  478999999999999999877889999999999986543

>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=99.35  E-value=3.6e-12  Score=112.57  Aligned_cols=148  Identities=24%  Similarity=0.366  Sum_probs=88.4

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEE---EEccCccccccccchHHHHHHHHHHHH-------hhhhcCCCeEEE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLT---VISPHSVHKAHVGESEKALREAFSQAS-------SHALSGKPSVVF  121 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~---~v~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~il~  121 (441)
                      .++++||+||+|||||++++.....+...-+   .++.+..      .....+....+...       .....++..|+|
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            5789999999999999999988877654322   2222211      11112222211110       011134557999


Q ss_pred             EccccccccCCCCCchhhHHHHHHHHHH---HhcCCCCCCCCCeEEEEEEcCCCC---ccCHHHhhCCccceEEEecCCC
Q 013506          122 IDEIDALCPRRDHRREQDVRIASQLFTL---MDSNKPSKTSVPHVVVVASTNRVD---AIDPALRRSGRFDAEVEVTVPT  195 (441)
Q Consensus       122 iDe~~~l~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~~~~~~~vi~~~~~~~---~l~~~l~~~~r~~~~i~~~~p~  195 (441)
                      |||++...++. .+.++..+.+++++..   ++..+..+....++.+++++++..   .+++++.|  +|. ++.++.|+
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 IDDLNMPQPDK-YGTQPPIELLRQLIDYGGFYDRKKLEWKSIEDIQFVAAMNPTGGRNPISPRFLR--HFN-ILNIPYPS  181 (272)
T ss_dssp             EETTT-S---T-TS--HHHHHHHHHHHCSEEECTTTTEEEEECSEEEEEEESSTTT--SHHHHHHT--TEE-EEE----T
T ss_pred             ecccCCCCCCC-CCCcCHHHHHHHHHHhcCcccCCCcEEEEEeeeEEEEecCCCCCCCCCChHHhh--heE-EEEecCCC
Confidence            99999655444 3334455666666653   233333344556789999998754   58899998  885 89999999


Q ss_pred             HHHHHHHHHHHhcc
Q 013506          196 AEERFEILKLYTKK  209 (441)
Q Consensus       196 ~~~~~~il~~~~~~  209 (441)
                      .+++..|+..++..
T Consensus       182 ~~sl~~If~~il~~  195 (272)
T PF12775_consen  182 DESLNTIFSSILQS  195 (272)
T ss_dssp             CCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhh
Confidence            99999999877654

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

Probab=99.34  E-value=1.7e-11  Score=119.91  Aligned_cols=164  Identities=22%  Similarity=0.291  Sum_probs=115.8

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCC----CCcEEEEEcCCCCcHHHHHHHHHHHhC---CcEEEEccCcccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLK----WPRGLLLYGPPGTGKTSLVRAVVRECG---AHLTVISPHSVHK   91 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~----~~~~vll~Gp~GtGKT~l~~~l~~~l~---~~~~~v~~~~~~~   91 (441)
                      +.++|++++++.+.+++..        .+.|+.    |....||.||+|+|||.+|+.+|..+.   ..++.++++++..
T Consensus       491 ~rViGQd~AV~avs~aIrr--------aRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~E  562 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRR--------ARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYME  562 (786)
T ss_pred             cceeChHHHHHHHHHHHHH--------HhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHH
Confidence            4699999999999999854        223333    335789999999999999999999986   6788998887654


Q ss_pred             c------------cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCC----
Q 013506           92 A------------HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP----  155 (441)
Q Consensus        92 ~------------~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~----  155 (441)
                      .            |+|..+  -..+-...+.    .+.+|+++||++..          ++++.+.|+..++....    
T Consensus       563 kHsVSrLIGaPPGYVGyee--GG~LTEaVRr----~PySViLlDEIEKA----------HpdV~nilLQVlDdGrLTD~~  626 (786)
T COG0542         563 KHSVSRLIGAPPGYVGYEE--GGQLTEAVRR----KPYSVILLDEIEKA----------HPDVFNLLLQVLDDGRLTDGQ  626 (786)
T ss_pred             HHHHHHHhCCCCCCceecc--ccchhHhhhc----CCCeEEEechhhhc----------CHHHHHHHHHHhcCCeeecCC
Confidence            3            122111  0111111221    23589999999976          44789999999986432    


Q ss_pred             -CCCCCCeEEEEEEcCCCC----------------------------ccCHHHhhCCccceEEEecCCCHHHHHHHHHHH
Q 013506          156 -SKTSVPHVVVVASTNRVD----------------------------AIDPALRRSGRFDAEVEVTVPTAEERFEILKLY  206 (441)
Q Consensus       156 -~~~~~~~~~vi~~~~~~~----------------------------~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~  206 (441)
                       ......++++|+|+|--.                            .+.|.|+.  |++.+|.|.+.+.+...+|+...
T Consensus       627 Gr~VdFrNtiIImTSN~Gs~~i~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFLN--Rid~II~F~~L~~~~l~~Iv~~~  704 (786)
T COG0542         627 GRTVDFRNTIIIMTSNAGSEEILRDADGDDFADKEALKEAVMEELKKHFRPEFLN--RIDEIIPFNPLSKEVLERIVDLQ  704 (786)
T ss_pred             CCEEecceeEEEEecccchHHHHhhccccccchhhhHHHHHHHHHHhhCCHHHHh--hcccEEeccCCCHHHHHHHHHHH
Confidence             223345789999987521                            23467777  88888999999999988888765


Q ss_pred             hc
Q 013506          207 TK  208 (441)
Q Consensus       207 ~~  208 (441)
                      +.
T Consensus       705 L~  706 (786)
T COG0542         705 LN  706 (786)
T ss_pred             HH
Confidence            54

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.34  E-value=7.1e-12  Score=118.34  Aligned_cols=117  Identities=17%  Similarity=0.240  Sum_probs=83.7

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC---------------
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA---------------  350 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~---------------  350 (441)
                      ..+++++.|++.+.+.+...+..           + +.+.++||+||+|+||||+|+++|..+.+               
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-----------N-KIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNC   76 (491)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHH
Confidence            34688999999999988876652           1 22447999999999999999999986632               


Q ss_pred             ---------ceEEechhhhhhhccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHH
Q 013506          351 ---------SFFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTL  417 (441)
Q Consensus       351 ---------~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~l  417 (441)
                               +++++++++.      ...++++.+.+.+..    +...|+||||++.+.              ...++.|
T Consensus        77 ~~i~~~~~~Dv~eidaas~------~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls--------------~~A~NaL  136 (491)
T PRK14964         77 ISIKNSNHPDVIEIDAASN------TSVDDIKVILENSCYLPISSKFKVYIIDEVHMLS--------------NSAFNAL  136 (491)
T ss_pred             HHHhccCCCCEEEEecccC------CCHHHHHHHHHHHHhccccCCceEEEEeChHhCC--------------HHHHHHH
Confidence                     3455555322      234567777777643    345699999999884              3568999


Q ss_pred             HHHhcCCCCCCeEEEEe
Q 013506          418 LTEMDGLEQAKVIIYPI  434 (441)
Q Consensus       418 l~~l~~~~~~~~v~~~~  434 (441)
                      |+.|+..++..++|+.+
T Consensus       137 LK~LEePp~~v~fIlat  153 (491)
T PRK14964        137 LKTLEEPAPHVKFILAT  153 (491)
T ss_pred             HHHHhCCCCCeEEEEEe
Confidence            99999866654444443

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.34  E-value=8e-12  Score=123.59  Aligned_cols=120  Identities=17%  Similarity=0.216  Sum_probs=79.0

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCce-EEEECCCCCcHHHHHHHHHHHcCCce-------EEech-
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRG-ALLHGPPGCSKTTLAKAAAHAAEASF-------FSLSG-  357 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~-~ll~Gp~GtGKTtla~~la~~~~~~~-------~~i~~-  357 (441)
                      ..++++.|++.+.+.|...+...             .-.| +||+||+||||||+|+++|+.+.+.-       ..+.. 
T Consensus        13 ~tFddIIGQe~Iv~~LknaI~~~-------------rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC   79 (944)
T PRK14949         13 ATFEQMVGQSHVLHALTNALTQQ-------------RLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSC   79 (944)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhC-------------CCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHH
Confidence            46889999999999888776531             1134 58999999999999999999987641       11110 


Q ss_pred             --------hhhhhhcc--CchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          358 --------AELYSMYV--GESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       358 --------~~~~~~~~--g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                              .+++...-  ......+|.+.+.+.    .+...|+||||++++-              ...++.||+.|+.
T Consensus        80 ~~i~~g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT--------------~eAqNALLKtLEE  145 (944)
T PRK14949         80 VEIAQGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLS--------------RSSFNALLKTLEE  145 (944)
T ss_pred             HHHhcCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcC--------------HHHHHHHHHHHhc
Confidence                    00100000  012344555555443    3456799999999984              4678999999997


Q ss_pred             CCCCCeEEEE
Q 013506          424 LEQAKVIIYP  433 (441)
Q Consensus       424 ~~~~~~v~~~  433 (441)
                      .+...+.|++
T Consensus       146 PP~~vrFILa  155 (944)
T PRK14949        146 PPEHVKFLLA  155 (944)
T ss_pred             cCCCeEEEEE
Confidence            5555554444

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=99.33  E-value=6e-12  Score=107.73  Aligned_cols=124  Identities=20%  Similarity=0.235  Sum_probs=83.0

Q ss_pred             cCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC------ceEEech
Q 013506          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA------SFFSLSG  357 (441)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~------~~~~i~~  357 (441)
                      .....++++.+++.+.+.+...+..             +-..|+||+||||||||+.|+++|+.+.+      .+.+.+.
T Consensus        30 YrPkt~de~~gQe~vV~~L~~a~~~-------------~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lna   96 (346)
T KOG0989|consen   30 YRPKTFDELAGQEHVVQVLKNALLR-------------RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNA   96 (346)
T ss_pred             hCCCcHHhhcchHHHHHHHHHHHhh-------------cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcc
Confidence            3345688899999998888876652             22348999999999999999999999865      3455666


Q ss_pred             hhhhhhccCc-hHHHHHHHHHHH------HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeE
Q 013506          358 AELYSMYVGE-SEALLRNTFQRA------RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVI  430 (441)
Q Consensus       358 ~~~~~~~~g~-~~~~~~~~~~~a------~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v  430 (441)
                      ++..+.-++. ..++..++...-      -..++.|++|||+|.+.              ...-++|.+.||++....+.
T Consensus        97 SderGisvvr~Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmt--------------sdaq~aLrr~mE~~s~~trF  162 (346)
T KOG0989|consen   97 SDERGISVVREKIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMT--------------SDAQAALRRTMEDFSRTTRF  162 (346)
T ss_pred             cccccccchhhhhcCHHHHhhccccccCCCCCcceEEEEechhhhh--------------HHHHHHHHHHHhccccceEE
Confidence            6665532221 112222222211      01233699999999985              35679999999995555554


Q ss_pred             EEEe
Q 013506          431 IYPI  434 (441)
Q Consensus       431 ~~~~  434 (441)
                      +++.
T Consensus       163 iLIc  166 (346)
T KOG0989|consen  163 ILIC  166 (346)
T ss_pred             EEEc
Confidence            4443

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.33  E-value=3.3e-12  Score=109.63  Aligned_cols=138  Identities=17%  Similarity=0.292  Sum_probs=95.7

Q ss_pred             ccccc-ccchHHHHHHHHHHHHhhccCchHHHh-cCC-CCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc-
Q 013506           16 KAEEA-IGGNRAAVEALRELITFPLLYSSQAQK-LGL-KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-   91 (441)
Q Consensus        16 ~~~~~-i~G~~~~~~~l~~~~~~~~~~~~~~~~-~~~-~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~-   91 (441)
                      .-|++ ++|+|.+|+.|.-++..++.+-..... -.+ -...+|||+||+|||||.||+.+|+.++.||...++..+.. 
T Consensus        57 ~~Ld~YVIGQe~AKKvLsVAVYNHYKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATtLTEA  136 (408)
T COG1219          57 AHLDEYVIGQEQAKKVLSVAVYNHYKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEA  136 (408)
T ss_pred             HHhhhheecchhhhceeeeeehhHHHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccchhhc
Confidence            34455 899999999998877554332111111 011 13478999999999999999999999999999999888764 


Q ss_pred             ccccchHHH-HHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC----chhhHHHHHHHHHHHhcC
Q 013506           92 AHVGESEKA-LREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSN  153 (441)
Q Consensus        92 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~----~~~~~~~~~~l~~~~~~~  153 (441)
                      .++|+..+. +..+++.+..-....+.+|++|||+|.+....+..    .-...-+++.|+..+++.
T Consensus       137 GYVGEDVENillkLlqaadydV~rAerGIIyIDEIDKIarkSeN~SITRDVSGEGVQQALLKiiEGT  203 (408)
T COG1219         137 GYVGEDVENILLKLLQAADYDVERAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKIIEGT  203 (408)
T ss_pred             cccchhHHHHHHHHHHHcccCHHHHhCCeEEEechhhhhccCCCCCcccccCchHHHHHHHHHHcCc
Confidence            466665554 33444544433334457899999999998765321    123456788999999873

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.33  E-value=5.3e-11  Score=121.30  Aligned_cols=205  Identities=20%  Similarity=0.265  Sum_probs=129.6

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccc---
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKA---   92 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~---   92 (441)
                      +.++|++.+++.+.+.+......-..    .-+|...++|+||+|+|||++|+.+++.+   ...++.++++++...   
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~----~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~~~~~  641 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLED----PRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEAHTV  641 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCC----CCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhhhhhh
Confidence            46999999999999988653211000    01222358999999999999999999988   346777776654322   


Q ss_pred             ---------cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCC-----CCC
Q 013506           93 ---------HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP-----SKT  158 (441)
Q Consensus        93 ---------~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~-----~~~  158 (441)
                               +.+...   ...+.....   ..+.+||+|||++.+          +..+.+.|+..++....     ...
T Consensus       642 ~~l~g~~~gyvg~~~---~g~L~~~v~---~~p~svvllDEieka----------~~~v~~~Llq~ld~g~l~d~~Gr~v  705 (852)
T TIGR03345       642 SRLKGSPPGYVGYGE---GGVLTEAVR---RKPYSVVLLDEVEKA----------HPDVLELFYQVFDKGVMEDGEGREI  705 (852)
T ss_pred             ccccCCCCCcccccc---cchHHHHHH---hCCCcEEEEechhhc----------CHHHHHHHHHHhhcceeecCCCcEE
Confidence                     111111   011111111   134689999999876          33667778888775431     112


Q ss_pred             CCCeEEEEEEcCCCC-----------------------------ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhcc
Q 013506          159 SVPHVVVVASTNRVD-----------------------------AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK  209 (441)
Q Consensus       159 ~~~~~~vi~~~~~~~-----------------------------~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~  209 (441)
                      ...+.++|.|+|...                             .+.|++.+  |++ ++.|.+++.++..+|+...+..
T Consensus       706 d~~n~iiI~TSNlg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEfln--Ri~-iI~F~pLs~e~l~~Iv~~~L~~  782 (852)
T TIGR03345       706 DFKNTVILLTSNAGSDLIMALCADPETAPDPEALLEALRPELLKVFKPAFLG--RMT-VIPYLPLDDDVLAAIVRLKLDR  782 (852)
T ss_pred             eccccEEEEeCCCchHHHHHhccCcccCcchHHHHHHHHHHHHHhccHHHhc--cee-EEEeCCCCHHHHHHHHHHHHHH
Confidence            234678888887421                             14567777  886 8999999999999998765543


Q ss_pred             C--------CCCCccc---HHHHHHHCCC--CCHHHHHHHHHHHHHHHHH
Q 013506          210 V--------PLDANVD---LEAIATSCNG--YVGADLEALCREATMSAVK  246 (441)
Q Consensus       210 ~--------~~~~~~~---~~~l~~~~~g--~~~~~i~~l~~~a~~~~~~  246 (441)
                      .        ......+   .+.++....+  +..|.++.+++......+.
T Consensus       783 l~~rl~~~~gi~l~i~d~a~~~La~~g~~~~~GAR~L~r~Ie~~i~~~la  832 (852)
T TIGR03345       783 IARRLKENHGAELVYSEALVEHIVARCTEVESGARNIDAILNQTLLPELS  832 (852)
T ss_pred             HHHHHHHhcCceEEECHHHHHHHHHHcCCCCCChHHHHHHHHHHHHHHHH
Confidence            2        2222222   5566666543  5688888888775554443

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.33  E-value=6.5e-11  Score=121.60  Aligned_cols=209  Identities=18%  Similarity=0.217  Sum_probs=133.1

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccc-
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHV-   94 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~-   94 (441)
                      +.++|++.+++.+.+.+......  .  +-.-+|...++|+||+|||||++|+.++..+   +.+++.++++.+..... 
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~g--l--~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~~~~~~~~  640 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAG--L--SDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYMEKHSV  640 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhcc--C--CCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechhhcccchH
Confidence            56999999999999988652110  0  0011244679999999999999999999987   35678888766543211 


Q ss_pred             ----cchHH-----HHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCC
Q 013506           95 ----GESEK-----ALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSV  160 (441)
Q Consensus        95 ----~~~~~-----~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~~~  160 (441)
                          +....     ....+......    ...+||++||++.+          +..++..|+..++.....     ....
T Consensus       641 ~~l~g~~~g~~g~~~~g~l~~~v~~----~p~~vlllDeieka----------~~~v~~~Ll~~l~~g~l~d~~g~~vd~  706 (852)
T TIGR03346       641 ARLIGAPPGYVGYEEGGQLTEAVRR----KPYSVVLFDEVEKA----------HPDVFNVLLQVLDDGRLTDGQGRTVDF  706 (852)
T ss_pred             HHhcCCCCCccCcccccHHHHHHHc----CCCcEEEEeccccC----------CHHHHHHHHHHHhcCceecCCCeEEec
Confidence                00000     00111111111    23579999999977          446788888888654311     1223


Q ss_pred             CeEEEEEEcCCCC-------------------------ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhcc------
Q 013506          161 PHVVVVASTNRVD-------------------------AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK------  209 (441)
Q Consensus       161 ~~~~vi~~~~~~~-------------------------~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~------  209 (441)
                      .+.+||+|+|...                         .+.|.|..  |++.++.|.+++.++..+|+...+..      
T Consensus       707 rn~iiI~TSn~g~~~~~~~~~~~~~~~~~~~~~~~~~~~F~pel~~--Rid~IivF~PL~~e~l~~I~~l~L~~l~~~l~  784 (852)
T TIGR03346       707 RNTVIIMTSNLGSQFIQELAGGDDYEEMREAVMEVLRAHFRPEFLN--RIDEIVVFHPLGREQIARIVEIQLGRLRKRLA  784 (852)
T ss_pred             CCcEEEEeCCcchHhHhhhcccccHHHHHHHHHHHHHhhcCHHHhc--CcCeEEecCCcCHHHHHHHHHHHHHHHHHHHH
Confidence            4678899988721                         13466666  88889999999999999988755432      


Q ss_pred             -CCC--CCcc-cHHHHHHHCC--CCCHHHHHHHHHHHHHHHHHh
Q 013506          210 -VPL--DANV-DLEAIATSCN--GYVGADLEALCREATMSAVKR  247 (441)
Q Consensus       210 -~~~--~~~~-~~~~l~~~~~--g~~~~~i~~l~~~a~~~~~~~  247 (441)
                       ...  ..+. ..+.++....  .+..+.++++++......+..
T Consensus       785 ~~~~~l~i~~~a~~~L~~~~~~~~~gaR~L~~~i~~~i~~~l~~  828 (852)
T TIGR03346       785 ERKITLELSDAALDFLAEAGYDPVYGARPLKRAIQREIENPLAK  828 (852)
T ss_pred             HCCCeecCCHHHHHHHHHhCCCCCCCchhHHHHHHHHHHHHHHH
Confidence             111  1111 2555666533  577888988888776655443

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.

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.33  E-value=8.7e-11  Score=99.03  Aligned_cols=131  Identities=19%  Similarity=0.287  Sum_probs=91.2

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCc------------------------EEEEccCccccccccchHHHHHHHHHH
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAH------------------------LTVISPHSVHKAHVGESEKALREAFSQ  107 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~------------------------~~~v~~~~~~~~~~~~~~~~~~~~~~~  107 (441)
                      .++.+||+||+|+|||++++.+++.+...                        +..+....   .  ......++.+.+.
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            35679999999999999999999987432                        11111110   0  1122345555555


Q ss_pred             HHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccce
Q 013506          108 ASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDA  187 (441)
Q Consensus       108 ~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~  187 (441)
                      +......+...|++|||+|.+          ....++.|+..++....      +..+|.+++.+..+.+.+.+  |+. 
T Consensus        88 ~~~~~~~~~~kviiide~~~l----------~~~~~~~Ll~~le~~~~------~~~~il~~~~~~~l~~~i~s--r~~-  148 (188)
T TIGR00678        88 LSRTPQESGRRVVIIEDAERM----------NEAAANALLKTLEEPPP------NTLFILITPSPEKLLPTIRS--RCQ-  148 (188)
T ss_pred             HccCcccCCeEEEEEechhhh----------CHHHHHHHHHHhcCCCC------CeEEEEEECChHhChHHHHh--hcE-
Confidence            554444456789999999987          33456778888866322      35566667777889999998  775 


Q ss_pred             EEEecCCCHHHHHHHHHHH
Q 013506          188 EVEVTVPTAEERFEILKLY  206 (441)
Q Consensus       188 ~i~~~~p~~~~~~~il~~~  206 (441)
                      .+.+++|+.++..+++...
T Consensus       149 ~~~~~~~~~~~~~~~l~~~  167 (188)
T TIGR00678       149 VLPFPPLSEEALLQWLIRQ  167 (188)
T ss_pred             EeeCCCCCHHHHHHHHHHc
Confidence            8999999999998888765

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.

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.32  E-value=2.4e-11  Score=115.33  Aligned_cols=174  Identities=16%  Similarity=0.227  Sum_probs=107.6

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l-----~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~  127 (441)
                      .++++|+|++|+|||+|++++++.+     +..++++++.++............ ..+......  ....++|+|||++.
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            3679999999999999999999865     356777877665543322221100 111111111  12467999999987


Q ss_pred             cccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCC---ccCHHHhhCCcc--ceEEEecCCCHHHHHHH
Q 013506          128 LCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD---AIDPALRRSGRF--DAEVEVTVPTAEERFEI  202 (441)
Q Consensus       128 l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~---~l~~~l~~~~r~--~~~i~~~~p~~~~~~~i  202 (441)
                      +...        ......++.+++......    ..+|+++..+|.   .+++++.+  ||  ..++.+.+|+.+++.+|
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 LSYK--------EKTNEIFFTIFNNFIEND----KQLFFSSDKSPELLNGFDNRLIT--RFNMGLSIAIQKLDNKTATAI  283 (450)
T ss_pred             ccCC--------HHHHHHHHHHHHHHHHcC----CcEEEECCCCHHHHhhccHHHHH--HHhCCceeccCCcCHHHHHHH
Confidence            7321        123444444444332211    124444444444   45789998  66  47889999999999999


Q ss_pred             HHHHhccCCC---CCcccHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q 013506          203 LKLYTKKVPL---DANVDLEAIATSCNGYVGADLEALCREATMSA  244 (441)
Q Consensus       203 l~~~~~~~~~---~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~  244 (441)
                      ++..+.....   -.+..++.++..+.| +.|.+..++......+
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            9988876543   122236667776664 6777777777665433

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=99.32  E-value=5.4e-11  Score=108.70  Aligned_cols=191  Identities=20%  Similarity=0.297  Sum_probs=120.5

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEID  126 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l-----~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~  126 (441)
                      ..++++||||+|+|||+|++++++..     +..+++++...+....+......-..-|+...      .-++++|||++
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            45789999999999999999998876     23467777666554433322221122233222      25699999999


Q ss_pred             ccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCcc---CHHHhhCCccc--eEEEecCCCHHHHHH
Q 013506          127 ALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI---DPALRRSGRFD--AEVEVTVPTAEERFE  201 (441)
Q Consensus       127 ~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l---~~~l~~~~r~~--~~i~~~~p~~~~~~~  201 (441)
                      .+....        .....++..+.......    +-+++++-..|..+   .+++.+  ||.  .++.+.+|+.+.|..
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            885432        34555666655544322    23555555566644   589999  664  678999999999999


Q ss_pred             HHHHHhccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhhc
Q 013506          202 ILKLYTKKVPLDANVD-LEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVV  272 (441)
Q Consensus       202 il~~~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~  272 (441)
                      |++..........+.+ ...++.... -+.+++...+......+.....         .++.+.+...+...
T Consensus       252 iL~kka~~~~~~i~~ev~~~la~~~~-~nvReLegaL~~l~~~a~~~~~---------~iTi~~v~e~L~~~  313 (408)
T COG0593         252 ILRKKAEDRGIEIPDEVLEFLAKRLD-RNVRELEGALNRLDAFALFTKR---------AITIDLVKEILKDL  313 (408)
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHhh-ccHHHHHHHHHHHHHHHHhcCc---------cCcHHHHHHHHHHh
Confidence            9999777766655444 555566554 4566776666665554443322         35555555544433

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.32  E-value=5.6e-11  Score=112.96  Aligned_cols=206  Identities=20%  Similarity=0.310  Sum_probs=128.3

Q ss_pred             cccccccchHHHHHHHHHHHHh--hccCchHHHhc-------------------CCCCCcEEEEEcCCCCcHHHHHHHHH
Q 013506           16 KAEEAIGGNRAAVEALRELITF--PLLYSSQAQKL-------------------GLKWPRGLLLYGPPGTGKTSLVRAVV   74 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~--~~~~~~~~~~~-------------------~~~~~~~vll~Gp~GtGKT~l~~~l~   74 (441)
                      ..|-+++|-|.+-+.+-.|+..  |--+.+.+.++                   +.++.+-+||+||||-||||||+.+|
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            6788999998888777777631  11111111121                   23455778999999999999999999


Q ss_pred             HHhCCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcC-
Q 013506           75 RECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSN-  153 (441)
Q Consensus        75 ~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~-  153 (441)
                      +..|..++++|+++-...  ......+..+.+....-...++|.+|+|||||.-          ....++.++..+... 
T Consensus       348 kqaGYsVvEINASDeRt~--~~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa----------~~~~Vdvilslv~a~~  415 (877)
T KOG1969|consen  348 KQAGYSVVEINASDERTA--PMVKEKIENAVQNHSVLDADSRPVCLVIDEIDGA----------PRAAVDVILSLVKATN  415 (877)
T ss_pred             HhcCceEEEecccccccH--HHHHHHHHHHHhhccccccCCCcceEEEecccCC----------cHHHHHHHHHHHHhhc
Confidence            999999999999773321  2223334333333222222367999999999843          234556666555421 


Q ss_pred             -----CCCC---------CCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cH
Q 013506          154 -----KPSK---------TSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DL  218 (441)
Q Consensus       154 -----~~~~---------~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~  218 (441)
                           +...         ...-.--||+.||....  |+++.-.-|..+++|.+|....+.+-++.++.......+. .+
T Consensus       416 k~~~Gkq~~~~~~rkkkr~~~L~RPIICICNdLYa--PaLR~Lr~~A~ii~f~~p~~s~Lv~RL~~IC~rE~mr~d~~aL  493 (877)
T KOG1969|consen  416 KQATGKQAKKDKKRKKKRSKLLTRPIICICNDLYA--PALRPLRPFAEIIAFVPPSQSRLVERLNEICHRENMRADSKAL  493 (877)
T ss_pred             chhhcCcccchhhhhhhccccccCCEEEEecCccc--hhhhhcccceEEEEecCCChhHHHHHHHHHHhhhcCCCCHHHH
Confidence                 1110         00112357788888653  4443222566789999999999888888888776655442 25


Q ss_pred             HHHHHHCCCCCHHHHHHHHHH
Q 013506          219 EAIATSCNGYVGADLEALCRE  239 (441)
Q Consensus       219 ~~l~~~~~g~~~~~i~~l~~~  239 (441)
                      ..+.+.++    .|++.++..
T Consensus       494 ~~L~el~~----~DIRsCINt  510 (877)
T KOG1969|consen  494 NALCELTQ----NDIRSCINT  510 (877)
T ss_pred             HHHHHHhc----chHHHHHHH
Confidence            55555555    355555543

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

Probab=99.32  E-value=3.7e-12  Score=107.81  Aligned_cols=96  Identities=26%  Similarity=0.347  Sum_probs=73.3

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhcc
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYV  365 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~  365 (441)
                      ...+.+..|++++|+.+.-+++.+....        ....|+||+||||.||||+|..+|.+++.++-..++.-+-.   
T Consensus        22 P~~l~efiGQ~~vk~~L~ifI~AAk~r~--------e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~leK---   90 (332)
T COG2255          22 PKTLDEFIGQEKVKEQLQIFIKAAKKRG--------EALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEK---   90 (332)
T ss_pred             cccHHHhcChHHHHHHHHHHHHHHHhcC--------CCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccccccC---
Confidence            3467888999999999988876433322        34568999999999999999999999999887777765432   


Q ss_pred             CchHHHHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          366 GESEALLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       366 g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                         ..++..++...  ....|+|||||+.+.+
T Consensus        91 ---~gDlaaiLt~L--e~~DVLFIDEIHrl~~  117 (332)
T COG2255          91 ---PGDLAAILTNL--EEGDVLFIDEIHRLSP  117 (332)
T ss_pred             ---hhhHHHHHhcC--CcCCeEEEehhhhcCh
Confidence               33455566553  4557999999999964

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.32  E-value=1.2e-10  Score=119.26  Aligned_cols=209  Identities=17%  Similarity=0.226  Sum_probs=128.7

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccc-
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHV-   94 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~-   94 (441)
                      +.++|++.+++.|.+.+.......    .-.-+|...++|+||+|||||++|++++..+   +.+++.+++..+..... 
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl----~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~se~~~~~~~  643 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGL----SDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFMEKHSV  643 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcc----cCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhHHhhhhhhH
Confidence            468999999999999885421100    0001122479999999999999999999877   34677787766543210 


Q ss_pred             ----cch----HHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCC
Q 013506           95 ----GES----EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVP  161 (441)
Q Consensus        95 ----~~~----~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~~~~  161 (441)
                          +..    ...-...+.....   ..+.++|+|||++.+          +......|+..++.....     .....
T Consensus       644 ~~LiG~~pgy~g~~~~g~l~~~v~---~~p~~vLllDEieka----------~~~v~~~Ll~ile~g~l~d~~gr~vd~r  710 (857)
T PRK10865        644 SRLVGAPPGYVGYEEGGYLTEAVR---RRPYSVILLDEVEKA----------HPDVFNILLQVLDDGRLTDGQGRTVDFR  710 (857)
T ss_pred             HHHhCCCCcccccchhHHHHHHHH---hCCCCeEEEeehhhC----------CHHHHHHHHHHHhhCceecCCceEEeec
Confidence                000    0000011111111   123479999999876          346778888888654211     12233


Q ss_pred             eEEEEEEcCCCC-------------------------ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccC------
Q 013506          162 HVVVVASTNRVD-------------------------AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV------  210 (441)
Q Consensus       162 ~~~vi~~~~~~~-------------------------~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~------  210 (441)
                      +.++|+|+|...                         .+.|++..  |++.++.|.+++.+...+|+...+...      
T Consensus       711 n~iiI~TSN~g~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PELln--Rld~iivF~PL~~edl~~Iv~~~L~~l~~rl~~  788 (857)
T PRK10865        711 NTVVIMTSNLGSDLIQERFGELDYAHMKELVLGVVSHNFRPEFIN--RIDEVVVFHPLGEQHIASIAQIQLQRLYKRLEE  788 (857)
T ss_pred             ccEEEEeCCcchHHHHHhccccchHHHHHHHHHHHcccccHHHHH--hCCeeEecCCCCHHHHHHHHHHHHHHHHHHHHh
Confidence            567888888621                         24567887  998899999999999999887665432      


Q ss_pred             -CCCCccc---HHHHHHHCC--CCCHHHHHHHHHHHHHHHHH
Q 013506          211 -PLDANVD---LEAIATSCN--GYVGADLEALCREATMSAVK  246 (441)
Q Consensus       211 -~~~~~~~---~~~l~~~~~--g~~~~~i~~l~~~a~~~~~~  246 (441)
                       ......+   +..++....  .+..|.++.+++..+...+.
T Consensus       789 ~gi~l~is~~al~~L~~~gy~~~~GARpL~r~I~~~i~~~la  830 (857)
T PRK10865        789 RGYEIHISDEALKLLSENGYDPVYGARPLKRAIQQQIENPLA  830 (857)
T ss_pred             CCCcCcCCHHHHHHHHHcCCCccCChHHHHHHHHHHHHHHHH
Confidence             2222222   444444322  24578888888776655444

>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=99.32  E-value=1e-12  Score=108.44  Aligned_cols=127  Identities=24%  Similarity=0.271  Sum_probs=70.6

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcE----EEEccC-----
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL----TVISPH-----   87 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~----~~v~~~-----   87 (441)
                      +|++|+|++.+|++|.-+..-               ++++|++||||||||++|+.+...+..--    .++...     
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            578999999999999977632               57999999999999999999998774211    111000     


Q ss_pred             -----------ccccccccchHHHHHHHHHHHHh----hhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhc
Q 013506           88 -----------SVHKAHVGESEKALREAFSQASS----HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDS  152 (441)
Q Consensus        88 -----------~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~  152 (441)
                                 -+.......   ....++.....    ........|||+||+..+          +..+++.|...++.
T Consensus        66 ~~~~~~~~~~~Pfr~phhs~---s~~~liGgg~~~~PGeislAh~GVLflDE~~ef----------~~~vld~Lr~ple~  132 (206)
T PF01078_consen   66 LGPDEGLIRQRPFRAPHHSA---SEAALIGGGRPPRPGEISLAHRGVLFLDELNEF----------DRSVLDALRQPLED  132 (206)
T ss_dssp             -S---EEEE---EEEE-TT-----HHHHHEEGGGEEE-CGGGGTTSEEEECETTTS-----------HHHHHHHHHHHHH
T ss_pred             CCCCCceecCCCcccCCCCc---CHHHHhCCCcCCCcCHHHHhcCCEEEechhhhc----------CHHHHHHHHHHHHC
Confidence                       000000001   11111111100    000112469999999755          66788888888876


Q ss_pred             CCCC-------CCCCCeEEEEEEcCC
Q 013506          153 NKPS-------KTSVPHVVVVASTNR  171 (441)
Q Consensus       153 ~~~~-------~~~~~~~~vi~~~~~  171 (441)
                      ....       ..-..++++|+|+|+
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            3221       112235789999887

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.

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.31  E-value=1.2e-11  Score=114.75  Aligned_cols=134  Identities=19%  Similarity=0.216  Sum_probs=87.9

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceE------Ee------
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFF------SL------  355 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~------~i------  355 (441)
                      .|+++.|++.+++.+...+.....+...   .+...+..+||+||+|+|||++|+.+|..+.+.--      .+      
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 VWDDLVGQEAVVAELRAAARAARADVAA---AGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTV   79 (394)
T ss_pred             hhhhccChHHHHHHHHHHHHhccccccc---cCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHH
Confidence            4778999999999999988754432211   22234556899999999999999999998755310      00      


Q ss_pred             ---chhhh--hhhc-cCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCC
Q 013506          356 ---SGAEL--YSMY-VGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE  425 (441)
Q Consensus       356 ---~~~~~--~~~~-~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~  425 (441)
                         +-+|+  +... ..-..+.++.+++.+..    +...|+||||+|.+.+              ...|.||+.|+..+
T Consensus        80 ~~~~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~--------------~aanaLLk~LEep~  145 (394)
T PRK07940         80 LAGTHPDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTE--------------RAANALLKAVEEPP  145 (394)
T ss_pred             hcCCCCCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCH--------------HHHHHHHHHhhcCC
Confidence               00111  0000 01123457778777753    3456999999999842              45699999999866


Q ss_pred             CCCeEEEEeeeee
Q 013506          426 QAKVIIYPISFIF  438 (441)
Q Consensus       426 ~~~~v~~~~~~~~  438 (441)
                      ....+|+++++..
T Consensus       146 ~~~~fIL~a~~~~  158 (394)
T PRK07940        146 PRTVWLLCAPSPE  158 (394)
T ss_pred             CCCeEEEEECChH
Confidence            6655666555543

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=99.31  E-value=2.7e-11  Score=111.32  Aligned_cols=159  Identities=24%  Similarity=0.299  Sum_probs=101.5

Q ss_pred             cccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccc--cccch
Q 013506           20 AIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA--HVGES   97 (441)
Q Consensus        20 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~--~~~~~   97 (441)
                      .++|.++++..+...+.               .+.+++|.||||||||++++.+|+.++.+++.+.+......  ..|..
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            37777777766665543               46899999999999999999999999999999988754322  11211


Q ss_pred             HHHHH----HHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCC-----C-CCCCCeEEEEE
Q 013506           98 EKALR----EAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP-----S-KTSVPHVVVVA  167 (441)
Q Consensus        98 ~~~~~----~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~-----~-~~~~~~~~vi~  167 (441)
                      .-...    ..+.............++++|||+..          +...+..|+..++....     . ..-...+++++
T Consensus        90 ~~~~~~~~~~~~~~~~gpl~~~~~~ill~DEInra----------~p~~q~aLl~~l~e~~vtv~~~~~~~~~~~f~via  159 (329)
T COG0714          90 AYAALLLEPGEFRFVPGPLFAAVRVILLLDEINRA----------PPEVQNALLEALEERQVTVPGLTTIRLPPPFIVIA  159 (329)
T ss_pred             hHhhhhccCCeEEEecCCcccccceEEEEeccccC----------CHHHHHHHHHHHhCcEEEECCcCCcCCCCCCEEEE
Confidence            11100    00000000000000139999999976          34677888888765221     1 22234578888


Q ss_pred             EcCCC-----CccCHHHhhCCccceEEEecCCC-HHHHHHHHHH
Q 013506          168 STNRV-----DAIDPALRRSGRFDAEVEVTVPT-AEERFEILKL  205 (441)
Q Consensus       168 ~~~~~-----~~l~~~l~~~~r~~~~i~~~~p~-~~~~~~il~~  205 (441)
                      |.|+.     ..+++++.+  ||...+.++.|+ ..+...++..
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            88953     467899999  997789999994 4444444443

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=99.31  E-value=1.6e-10  Score=110.75  Aligned_cols=30  Identities=30%  Similarity=0.416  Sum_probs=27.2

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.+.++..+-|+|++|+||||+.+.+++..
T Consensus        24 l~~~~G~riGLvG~NGaGKSTLLkilaG~~   53 (530)
T COG0488          24 LTLNPGERIGLVGRNGAGKSTLLKILAGEL   53 (530)
T ss_pred             ceeCCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            356788999999999999999999999877

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=99.31  E-value=1.1e-11  Score=126.06  Aligned_cols=138  Identities=24%  Similarity=0.306  Sum_probs=99.9

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc----------ccccchHHHHHHHHHHHHhhhhcCCCeEEE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK----------AHVGESEKALREAFSQASSHALSGKPSVVF  121 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~il~  121 (441)
                      ...++|+.||+.+|||+.+.++|++.+..++.++.++-.+          ...|...- -..++-.+..     ++-+++
T Consensus       887 ~~fP~LiQGpTSSGKTSMI~yla~~tghkfVRINNHEHTdlqeYiGTyvTdd~G~lsF-kEGvLVeAlR-----~GyWIV  960 (4600)
T COG5271         887 SNFPLLIQGPTSSGKTSMILYLARETGHKFVRINNHEHTDLQEYIGTYVTDDDGSLSF-KEGVLVEALR-----RGYWIV  960 (4600)
T ss_pred             cCCcEEEecCCCCCcchHHHHHHHHhCccEEEecCcccchHHHHhhceeecCCCceee-ehhHHHHHHh-----cCcEEE
Confidence            3468999999999999999999999999999998764321          11111110 1112222222     367999


Q ss_pred             EccccccccCCCCCchhhHHHHHHHHHHHhcCCC--------CCCCCCeEEEEEEcCCCC------ccCHHHhhCCccce
Q 013506          122 IDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP--------SKTSVPHVVVVASTNRVD------AIDPALRRSGRFDA  187 (441)
Q Consensus       122 iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~--------~~~~~~~~~vi~~~~~~~------~l~~~l~~~~r~~~  187 (441)
                      +||++..          +.+++..|.++++....        ....+|++.+++|-|+|.      .++.+++.  ||- 
T Consensus       961 LDELNLA----------pTDVLEaLNRLLDDNRelfIPETqevV~PHp~F~lFATQNppg~YgGRK~LSrAFRN--RFl- 1027 (4600)
T COG5271         961 LDELNLA----------PTDVLEALNRLLDDNRELFIPETQEVVVPHPNFRLFATQNPPGGYGGRKGLSRAFRN--RFL- 1027 (4600)
T ss_pred             eeccccC----------cHHHHHHHHHhhccccceecCCcceeeccCCCeeEEeecCCCccccchHHHHHHHHh--hhH-
Confidence            9999754          44678888888876432        245678999999999986      56788888  995 


Q ss_pred             EEEecCCCHHHHHHHHHHHhc
Q 013506          188 EVEVTVPTAEERFEILKLYTK  208 (441)
Q Consensus       188 ~i~~~~p~~~~~~~il~~~~~  208 (441)
                      .++|..-..+++..|+...+.
T Consensus      1028 E~hFddipedEle~ILh~rc~ 1048 (4600)
T COG5271        1028 EMHFDDIPEDELEEILHGRCE 1048 (4600)
T ss_pred             hhhcccCcHHHHHHHHhccCc
Confidence            788999899999998876554

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=99.31  E-value=1.3e-11  Score=120.09  Aligned_cols=117  Identities=16%  Similarity=0.254  Sum_probs=80.8

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc---------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS---------------  351 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~---------------  351 (441)
                      ..++++.|++.+.+.+...+..           + ..+..+||+||+|+||||+|+++|+.+.+.               
T Consensus        13 ~~f~divGQe~vv~~L~~~l~~-----------~-rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~~C~   80 (647)
T PRK07994         13 QTFAEVVGQEHVLTALANALDL-----------G-RLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECDNCR   80 (647)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCHHHH
Confidence            4688999999999988877653           1 112235899999999999999999998763               


Q ss_pred             ---------eEEechhhhhhhccCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHH
Q 013506          352 ---------FFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (441)
Q Consensus       352 ---------~~~i~~~~~~~~~~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll  418 (441)
                               +++++..+-      ...+.++++.+.+.    .+...|+||||+|++-              ....|.||
T Consensus        81 ~i~~g~~~D~ieidaas~------~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls--------------~~a~NALL  140 (647)
T PRK07994         81 EIEQGRFVDLIEIDAASR------TKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLS--------------RHSFNALL  140 (647)
T ss_pred             HHHcCCCCCceeeccccc------CCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCC--------------HHHHHHHH
Confidence                     233333210      12344566555543    3456799999999984              35689999


Q ss_pred             HHhcCCCCCCeEEEEeee
Q 013506          419 TEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       419 ~~l~~~~~~~~v~~~~~~  436 (441)
                      +.|+......+ +|++||
T Consensus       141 KtLEEPp~~v~-FIL~Tt  157 (647)
T PRK07994        141 KTLEEPPEHVK-FLLATT  157 (647)
T ss_pred             HHHHcCCCCeE-EEEecC
Confidence            99997555444 444444

>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=99.31  E-value=6.1e-13  Score=106.37  Aligned_cols=119  Identities=26%  Similarity=0.400  Sum_probs=72.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccc--cccchHHH-HHHHHHHHHhhhhcCCCeEEEEccccccccC
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA--HVGESEKA-LREAFSQASSHALSGKPSVVFIDEIDALCPR  131 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~--~~~~~~~~-~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~  131 (441)
                      +|+|+||||||||++++.++..++.++..+++......  ..+..... ....+..........++.+++|||+|..   
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~~~~il~lDEin~a---   77 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMRKGGILVLDEINRA---   77 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHHEEEEEEESSCGG----
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccccccceeeeeecccccccccccccccccceeEEEECCcccC---
Confidence            68999999999999999999999999888876553211  00000000 0000000000000013789999999976   


Q ss_pred             CCCCchhhHHHHHHHHHHHhcCCCC-------CCCCC------eEEEEEEcCCCC----ccCHHHhhCCcc
Q 013506          132 RDHRREQDVRIASQLFTLMDSNKPS-------KTSVP------HVVVVASTNRVD----AIDPALRRSGRF  185 (441)
Q Consensus       132 ~~~~~~~~~~~~~~l~~~~~~~~~~-------~~~~~------~~~vi~~~~~~~----~l~~~l~~~~r~  185 (441)
                             +..++..|+..++.....       .....      ++.+|+|+|+..    .+++++.+  ||
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                   346777888877653211       00111      489999999988    89999998  86

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.

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.30  E-value=1.4e-11  Score=117.07  Aligned_cols=117  Identities=19%  Similarity=0.275  Sum_probs=80.7

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC----------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA----------------  350 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~----------------  350 (441)
                      ..++++.|++++.+.+...+..           + ..+.+++|+|||||||||+|+++|..+.+                
T Consensus        11 ~~~~divGq~~i~~~L~~~i~~-----------~-~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~   78 (472)
T PRK14962         11 KTFSEVVGQDHVKKLIINALKK-----------N-SISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACR   78 (472)
T ss_pred             CCHHHccCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHH
Confidence            4688899999998888776653           1 12345899999999999999999998865                


Q ss_pred             --------ceEEechhhhhhhccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHH
Q 013506          351 --------SFFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (441)
Q Consensus       351 --------~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll  418 (441)
                              .++.++.+..      .....++++.+.+..    +...|+||||++.+.              ...++.||
T Consensus        79 ~i~~g~~~dv~el~aa~~------~gid~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt--------------~~a~~~LL  138 (472)
T PRK14962         79 SIDEGTFMDVIELDAASN------RGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLT--------------KEAFNALL  138 (472)
T ss_pred             HHhcCCCCccEEEeCccc------CCHHHHHHHHHHHhhChhcCCeEEEEEEChHHhH--------------HHHHHHHH
Confidence                    2444443221      123456666665542    345699999999884              24578999


Q ss_pred             HHhcCCCCCCeEEEEeee
Q 013506          419 TEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       419 ~~l~~~~~~~~v~~~~~~  436 (441)
                      +.|+...+ ..++|+++|
T Consensus       139 k~LE~p~~-~vv~Ilatt  155 (472)
T PRK14962        139 KTLEEPPS-HVVFVLATT  155 (472)
T ss_pred             HHHHhCCC-cEEEEEEeC
Confidence            99997544 445555554

>PRK09087 hypothetical protein; Validated

Probab=99.29  E-value=1.4e-10  Score=99.89  Aligned_cols=150  Identities=21%  Similarity=0.243  Sum_probs=90.6

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCC
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR  132 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~  132 (441)
                      ...++|+||+|||||||+++++...+..  +++...+..           .......       ..+|+|||++.+..  
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~~~--~i~~~~~~~-----------~~~~~~~-------~~~l~iDDi~~~~~--  101 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSDAL--LIHPNEIGS-----------DAANAAA-------EGPVLIEDIDAGGF--  101 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcCCE--EecHHHcch-----------HHHHhhh-------cCeEEEECCCCCCC--
Confidence            3569999999999999999999876433  333322111           1111111       24899999986521  


Q ss_pred             CCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCc---cCHHHhhCCcc--ceEEEecCCCHHHHHHHHHHHh
Q 013506          133 DHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA---IDPALRRSGRF--DAEVEVTVPTAEERFEILKLYT  207 (441)
Q Consensus       133 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~---l~~~l~~~~r~--~~~i~~~~p~~~~~~~il~~~~  207 (441)
                            ..+   .++..++......    +.++++++..+..   ..+++++  |+  ..++.+.+|+.+++.++++..+
T Consensus       102 ------~~~---~lf~l~n~~~~~g----~~ilits~~~p~~~~~~~~dL~S--Rl~~gl~~~l~~pd~e~~~~iL~~~~  166 (226)
T PRK09087        102 ------DET---GLFHLINSVRQAG----TSLLMTSRLWPSSWNVKLPDLKS--RLKAATVVEIGEPDDALLSQVIFKLF  166 (226)
T ss_pred             ------CHH---HHHHHHHHHHhCC----CeEEEECCCChHHhccccccHHH--HHhCCceeecCCCCHHHHHHHHHHHH
Confidence                  112   2344333322111    2466665554442   3577888  66  3689999999999999999988


Q ss_pred             ccCCCCCcc-cHHHHHHHCCCCCHHHHHHHHHHH
Q 013506          208 KKVPLDANV-DLEAIATSCNGYVGADLEALCREA  240 (441)
Q Consensus       208 ~~~~~~~~~-~~~~l~~~~~g~~~~~i~~l~~~a  240 (441)
                      .......+. .++.++....+ +.+.+..++...
T Consensus       167 ~~~~~~l~~ev~~~La~~~~r-~~~~l~~~l~~L  199 (226)
T PRK09087        167 ADRQLYVDPHVVYYLVSRMER-SLFAAQTIVDRL  199 (226)
T ss_pred             HHcCCCCCHHHHHHHHHHhhh-hHHHHHHHHHHH
Confidence            776554333 36677776662 334444433333

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.29  E-value=2.5e-11  Score=116.38  Aligned_cols=118  Identities=15%  Similarity=0.245  Sum_probs=79.7

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC----------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA----------------  350 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~----------------  350 (441)
                      ..++++.|++.+.+.+...+..           + ..+..+||+||+|+||||+|+++|..+.+                
T Consensus        13 ~~f~diiGq~~~v~~L~~~i~~-----------~-rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~   80 (546)
T PRK14957         13 QSFAEVAGQQHALNSLVHALET-----------Q-KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCV   80 (546)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHH
Confidence            4688899999999888877653           1 11224789999999999999999998864                


Q ss_pred             --------ceEEechhhhhhhccCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHH
Q 013506          351 --------SFFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (441)
Q Consensus       351 --------~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll  418 (441)
                              ++++++....    .  ..+.++.+.+.+.    .+...|+||||+|++.              ....+.||
T Consensus        81 ~i~~~~~~dlieidaas~----~--gvd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls--------------~~a~naLL  140 (546)
T PRK14957         81 AINNNSFIDLIEIDAASR----T--GVEETKEILDNIQYMPSQGRYKVYLIDEVHMLS--------------KQSFNALL  140 (546)
T ss_pred             HHhcCCCCceEEeecccc----c--CHHHHHHHHHHHHhhhhcCCcEEEEEechhhcc--------------HHHHHHHH
Confidence                    2223322111    1  1234555555543    2456799999999874              35789999


Q ss_pred             HHhcCCCCCCeEEEEeee
Q 013506          419 TEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       419 ~~l~~~~~~~~v~~~~~~  436 (441)
                      +.|+..++..++|+++++
T Consensus       141 K~LEepp~~v~fIL~Ttd  158 (546)
T PRK14957        141 KTLEEPPEYVKFILATTD  158 (546)
T ss_pred             HHHhcCCCCceEEEEECC
Confidence            999975555545544443

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.29  E-value=3.5e-11  Score=104.25  Aligned_cols=86  Identities=28%  Similarity=0.420  Sum_probs=64.0

Q ss_pred             CeEEEEccccccccCCCCCc--hhhHHHHHHHHHHHhcCCCC----CCCCCeEEEEEEc----CCCCccCHHHhhCCccc
Q 013506          117 PSVVFIDEIDALCPRRDHRR--EQDVRIASQLFTLMDSNKPS----KTSVPHVVVVAST----NRVDAIDPALRRSGRFD  186 (441)
Q Consensus       117 ~~il~iDe~~~l~~~~~~~~--~~~~~~~~~l~~~~~~~~~~----~~~~~~~~vi~~~----~~~~~l~~~l~~~~r~~  186 (441)
                      .+|+||||||.++...+.++  -.-..++..|+.+.++....    ....++++||++.    ..|..|-|.++-  ||.
T Consensus       251 ~GIvFIDEIDKIa~~~~~g~~dvSREGVQRDlLPlvEGstV~TKyG~VkTdHILFIasGAFh~sKPSDLiPELQG--RfP  328 (444)
T COG1220         251 NGIVFIDEIDKIAKRGGSGGPDVSREGVQRDLLPLVEGSTVSTKYGPVKTDHILFIASGAFHVAKPSDLIPELQG--RFP  328 (444)
T ss_pred             cCeEEEehhhHHHhcCCCCCCCcchhhhcccccccccCceeeccccccccceEEEEecCceecCChhhcChhhcC--CCc
Confidence            45999999999988775332  22335677888888764322    1233578888874    567788899986  999


Q ss_pred             eEEEecCCCHHHHHHHHH
Q 013506          187 AEVEVTVPTAEERFEILK  204 (441)
Q Consensus       187 ~~i~~~~p~~~~~~~il~  204 (441)
                      ..+++...+.+...+|+.
T Consensus       329 IRVEL~~Lt~~Df~rILt  346 (444)
T COG1220         329 IRVELDALTKEDFERILT  346 (444)
T ss_pred             eEEEcccCCHHHHHHHHc
Confidence            999999999999988874

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=99.28  E-value=2.6e-11  Score=108.39  Aligned_cols=100  Identities=31%  Similarity=0.459  Sum_probs=79.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh-hccCch-HHHHHHHHHHHH----hcCCeEEEEeccccccc
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MYVGES-EALLRNTFQRAR----LAAPSIIFFDEADVVGA  397 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~-~~~g~~-~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~  397 (441)
                      ..++||.||+|+|||.+|+-||+.++.++...+++.+-. -|+|+. |-.+.+++..|.    +....|+||||+|++..
T Consensus       226 KSNvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQqGIVflDEvDKi~~  305 (564)
T KOG0745|consen  226 KSNVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGIVFLDEVDKITK  305 (564)
T ss_pred             cccEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHhcCeEEEehhhhhcc
Confidence            358999999999999999999999999999999998753 599998 556788888773    34455999999999985


Q ss_pred             ccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          398 KRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       398 ~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                      .-.+-....+--++.+-..||+.++|
T Consensus       306 ~~~~i~~~RDVsGEGVQQaLLKllEG  331 (564)
T KOG0745|consen  306 KAESIHTSRDVSGEGVQQALLKLLEG  331 (564)
T ss_pred             cCccccccccccchhHHHHHHHHhcc
Confidence            43322222344467889999999998

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=99.28  E-value=3e-10  Score=104.73  Aligned_cols=30  Identities=33%  Similarity=0.416  Sum_probs=25.4

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +++.+...+.++||||+||||+.+++-..+
T Consensus       411 fgid~~srvAlVGPNG~GKsTLlKl~~gdl  440 (614)
T KOG0927|consen  411 FGIDLDSRVALVGPNGAGKSTLLKLITGDL  440 (614)
T ss_pred             cccCcccceeEecCCCCchhhhHHHHhhcc
Confidence            466677789999999999999999887655

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=99.27  E-value=1.5e-10  Score=106.99  Aligned_cols=154  Identities=27%  Similarity=0.380  Sum_probs=106.7

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC--------------------
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG--------------------   78 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~--------------------   78 (441)
                      ++++|.+.+...+..+....          + .-++.+||+||||+|||++|..+|+.+.                    
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            35778888888877776421          0 1233599999999999999999999886                    


Q ss_pred             ----CcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCC
Q 013506           79 ----AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK  154 (441)
Q Consensus        79 ----~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~  154 (441)
                          ..++++++++.....  .....++.+.+........++..|++|||+|.|          .......++..++...
T Consensus        70 ~~~~~d~lel~~s~~~~~~--i~~~~vr~~~~~~~~~~~~~~~kviiidead~m----------t~~A~nallk~lEep~  137 (325)
T COG0470          70 AGNHPDFLELNPSDLRKID--IIVEQVRELAEFLSESPLEGGYKVVIIDEADKL----------TEDAANALLKTLEEPP  137 (325)
T ss_pred             hcCCCceEEecccccCCCc--chHHHHHHHHHHhccCCCCCCceEEEeCcHHHH----------hHHHHHHHHHHhccCC
Confidence                356667666543322  123334444333333222345689999999988          4477888888888754


Q ss_pred             CCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHH
Q 013506          155 PSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILK  204 (441)
Q Consensus       155 ~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~  204 (441)
                      .      ++.++.+||.++.+-+.+++  |+. .+.|++|+........+
T Consensus       138 ~------~~~~il~~n~~~~il~tI~S--Rc~-~i~f~~~~~~~~i~~~e  178 (325)
T COG0470         138 K------NTRFILITNDPSKILPTIRS--RCQ-RIRFKPPSRLEAIAWLE  178 (325)
T ss_pred             C------CeEEEEEcCChhhccchhhh--cce-eeecCCchHHHHHHHhh
Confidence            3      57888899999999888988  885 78888866555544433

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=99.27  E-value=1.7e-10  Score=105.54  Aligned_cols=152  Identities=17%  Similarity=0.226  Sum_probs=108.0

Q ss_pred             cccccc-hHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc----------------
Q 013506           18 EEAIGG-NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH----------------   80 (441)
Q Consensus        18 ~~~i~G-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~----------------   80 (441)
                      ++.|+| ++.+++.|...+...            ..++.+||+||+|+||+++|+.+++.+...                
T Consensus         4 ~~~i~~~q~~~~~~L~~~~~~~------------~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~   71 (329)
T PRK08058          4 WEQLTALQPVVVKMLQNSIAKN------------RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKR   71 (329)
T ss_pred             HHHHHhhHHHHHHHHHHHHHcC------------CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHH
Confidence            367888 999999999887431            245678999999999999999999887421                


Q ss_pred             --------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhc
Q 013506           81 --------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDS  152 (441)
Q Consensus        81 --------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~  152 (441)
                              +..+...   ..  ......++.+..........+...|++|||+|.+          +....+.|+..++.
T Consensus        72 ~~~~~hpD~~~i~~~---~~--~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~----------~~~a~NaLLK~LEE  136 (329)
T PRK08058         72 IDSGNHPDVHLVAPD---GQ--SIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKM----------TASAANSLLKFLEE  136 (329)
T ss_pred             HhcCCCCCEEEeccc---cc--cCCHHHHHHHHHHHhhCCcccCceEEEeehHhhh----------CHHHHHHHHHHhcC
Confidence                    1111111   00  0112345555444443333455679999999987          44678889999987


Q ss_pred             CCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHH
Q 013506          153 NKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKL  205 (441)
Q Consensus       153 ~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~  205 (441)
                      ...      ++++|.+++.+..+.+.+++  |+. .+.|++|+.++..+++..
T Consensus       137 Pp~------~~~~Il~t~~~~~ll~TIrS--Rc~-~i~~~~~~~~~~~~~L~~  180 (329)
T PRK08058        137 PSG------GTTAILLTENKHQILPTILS--RCQ-VVEFRPLPPESLIQRLQE  180 (329)
T ss_pred             CCC------CceEEEEeCChHhCcHHHHh--hce-eeeCCCCCHHHHHHHHHH
Confidence            432      56777788888899999998  885 899999999998777764

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.27  E-value=2.2e-11  Score=113.10  Aligned_cols=119  Identities=18%  Similarity=0.281  Sum_probs=81.2

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc---------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS---------------  351 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~---------------  351 (441)
                      ..++++.|++.+.+.+...+..           + ..+..++|+||+|+||||+|+++|+.+.+.               
T Consensus        13 ~~~~~iiGq~~~~~~l~~~~~~-----------~-~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~~c~   80 (363)
T PRK14961         13 QYFRDIIGQKHIVTAISNGLSL-----------G-RIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCIICK   80 (363)
T ss_pred             CchhhccChHHHHHHHHHHHHc-----------C-CCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHH
Confidence            4688899999999988877642           1 112246899999999999999999988642               


Q ss_pred             ---------eEEechhhhhhhccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHH
Q 013506          352 ---------FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (441)
Q Consensus       352 ---------~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll  418 (441)
                               ++.++.++      ....+.++.+...+..    +...|+||||+|++.              ....+.||
T Consensus        81 ~~~~~~~~d~~~~~~~~------~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~--------------~~a~naLL  140 (363)
T PRK14961         81 EIEKGLCLDLIEIDAAS------RTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLS--------------RHSFNALL  140 (363)
T ss_pred             HHhcCCCCceEEecccc------cCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcC--------------HHHHHHHH
Confidence                     12222111      1223556777766542    334699999999883              25678999


Q ss_pred             HHhcCCCCCCeEEEEeeee
Q 013506          419 TEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       419 ~~l~~~~~~~~v~~~~~~~  437 (441)
                      +.|+..+....+|+++++.
T Consensus       141 k~lEe~~~~~~fIl~t~~~  159 (363)
T PRK14961        141 KTLEEPPQHIKFILATTDV  159 (363)
T ss_pred             HHHhcCCCCeEEEEEcCCh
Confidence            9999866655555555443

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=99.27  E-value=2.5e-11  Score=122.21  Aligned_cols=115  Identities=23%  Similarity=0.357  Sum_probs=82.8

Q ss_pred             cccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh--------
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS--------  362 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~--------  362 (441)
                      +..|++.+|+.+.+++.....       ....++..++|+||||+|||++++.+|+.++.+++.++.....+        
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            467888999988877653111       12234557899999999999999999999999998887654322        


Q ss_pred             -hccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          363 -MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       363 -~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                       .|+|.....+.+.+..+...+| |+||||+|++.+...+          ...+.||..||.
T Consensus       396 ~~~~g~~~G~~~~~l~~~~~~~~-villDEidk~~~~~~g----------~~~~aLlevld~  446 (784)
T PRK10787        396 RTYIGSMPGKLIQKMAKVGVKNP-LFLLDEIDKMSSDMRG----------DPASALLEVLDP  446 (784)
T ss_pred             hccCCCCCcHHHHHHHhcCCCCC-EEEEEChhhcccccCC----------CHHHHHHHHhcc
Confidence             3666666666666777665555 9999999999754221          235788888874

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=99.25  E-value=4.6e-10  Score=101.89  Aligned_cols=155  Identities=20%  Similarity=0.280  Sum_probs=107.0

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCc------------------------EEEEccCccccccccchHHHHHHHHHH
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAH------------------------LTVISPHSVHKAHVGESEKALREAFSQ  107 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~------------------------~~~v~~~~~~~~~~~~~~~~~~~~~~~  107 (441)
                      .++.+||+||+|+|||++|+.+|+.+...                        ++.+....-   ........++++.+.
T Consensus        21 ~~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~---~~~i~id~iR~l~~~   97 (328)
T PRK05707         21 HPHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEA---DKTIKVDQVRELVSF   97 (328)
T ss_pred             cceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCC---CCCCCHHHHHHHHHH
Confidence            45789999999999999999999987431                        122211100   001223456666665


Q ss_pred             HHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccce
Q 013506          108 ASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDA  187 (441)
Q Consensus       108 ~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~  187 (441)
                      .......+...|++||++|.|          +....+.|++.++...      +++++|.+|+.++.+.|.+++  |+. 
T Consensus        98 ~~~~~~~~~~kv~iI~~a~~m----------~~~aaNaLLK~LEEPp------~~~~fiL~t~~~~~ll~TI~S--Rc~-  158 (328)
T PRK05707         98 VVQTAQLGGRKVVLIEPAEAM----------NRNAANALLKSLEEPS------GDTVLLLISHQPSRLLPTIKS--RCQ-  158 (328)
T ss_pred             HhhccccCCCeEEEECChhhC----------CHHHHHHHHHHHhCCC------CCeEEEEEECChhhCcHHHHh--hce-
Confidence            555544556779999999988          5578899999998743      257888889999999999999  986 


Q ss_pred             EEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHH
Q 013506          188 EVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGA  231 (441)
Q Consensus       188 ~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~  231 (441)
                      .+.|++|+.++..+.+.....   ...+.....++....|-...
T Consensus       159 ~~~~~~~~~~~~~~~L~~~~~---~~~~~~~~~~l~la~Gsp~~  199 (328)
T PRK05707        159 QQACPLPSNEESLQWLQQALP---ESDERERIELLTLAGGSPLR  199 (328)
T ss_pred             eeeCCCcCHHHHHHHHHHhcc---cCChHHHHHHHHHcCCCHHH
Confidence            699999999998888775431   11222234555555654433

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.25  E-value=5.1e-11  Score=115.41  Aligned_cols=116  Identities=23%  Similarity=0.317  Sum_probs=79.4

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCce-EEEECCCCCcHHHHHHHHHHHcCCc--------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRG-ALLHGPPGCSKTTLAKAAAHAAEAS--------------  351 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~-~ll~Gp~GtGKTtla~~la~~~~~~--------------  351 (441)
                      ..|+++.|++.+.+.+...+..           +  ...| +||+||+||||||+|+++|..+.+.              
T Consensus        10 ~~f~eivGq~~i~~~L~~~i~~-----------~--r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C   76 (584)
T PRK14952         10 ATFAEVVGQEHVTEPLSSALDA-----------G--RINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVCESC   76 (584)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHc-----------C--CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCcccccHHH
Confidence            4688999999999998887753           1  1234 6899999999999999999987642              


Q ss_pred             ------------eEEechhhhhhhccCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHH
Q 013506          352 ------------FFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLS  415 (441)
Q Consensus       352 ------------~~~i~~~~~~~~~~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~  415 (441)
                                  +++++.+..      .....++++.+.+.    .....|+||||++.+.              ....+
T Consensus        77 ~~i~~~~~~~~dvieidaas~------~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt--------------~~A~N  136 (584)
T PRK14952         77 VALAPNGPGSIDVVELDAASH------GGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVT--------------TAGFN  136 (584)
T ss_pred             HHhhcccCCCceEEEeccccc------cCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCC--------------HHHHH
Confidence                        222222111      12344555544442    3456799999999984              24789


Q ss_pred             HHHHHhcCCCCCCeEEEEeee
Q 013506          416 TLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       416 ~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .||+.|+..+. ..++|+++|
T Consensus       137 ALLK~LEEpp~-~~~fIL~tt  156 (584)
T PRK14952        137 ALLKIVEEPPE-HLIFIFATT  156 (584)
T ss_pred             HHHHHHhcCCC-CeEEEEEeC
Confidence            99999997555 444444443

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.25  E-value=4e-11  Score=114.30  Aligned_cols=125  Identities=20%  Similarity=0.246  Sum_probs=83.3

Q ss_pred             CccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceE-----------
Q 013506          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFF-----------  353 (441)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~-----------  353 (441)
                      ....+.++.|++.+.+.+...+..            -..+.++||+||+||||||+|+++|+.+.+...           
T Consensus        16 RP~~f~dliGq~~vv~~L~~ai~~------------~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~   83 (507)
T PRK06645         16 RPSNFAELQGQEVLVKVLSYTILN------------DRLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCE   83 (507)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc------------CCCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCC
Confidence            345788899999999888776542            122457899999999999999999999865311           


Q ss_pred             Eech---------hhhhhh--ccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHH
Q 013506          354 SLSG---------AELYSM--YVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (441)
Q Consensus       354 ~i~~---------~~~~~~--~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll  418 (441)
                      .+..         .+++..  -.......++.+++.+..    +...|+||||++.+.              ...++.||
T Consensus        84 ~C~~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls--------------~~a~naLL  149 (507)
T PRK06645         84 QCTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLS--------------KGAFNALL  149 (507)
T ss_pred             CChHHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcC--------------HHHHHHHH
Confidence            0000         011100  011235677888887753    345699999999883              25689999


Q ss_pred             HHhcCCCCCCeEEEEeee
Q 013506          419 TEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       419 ~~l~~~~~~~~v~~~~~~  436 (441)
                      +.|+..+. ..++|+++|
T Consensus       150 k~LEepp~-~~vfI~aTt  166 (507)
T PRK06645        150 KTLEEPPP-HIIFIFATT  166 (507)
T ss_pred             HHHhhcCC-CEEEEEEeC
Confidence            99997444 445555554

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=99.25  E-value=3.6e-11  Score=120.98  Aligned_cols=117  Identities=22%  Similarity=0.302  Sum_probs=80.1

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc---------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS---------------  351 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~---------------  351 (441)
                      .+|.++.|++.+++.|...+..           + .....+||+||+||||||+|+++|+.+.|.               
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-----------G-RINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCV   79 (824)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHh-----------C-CCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHH
Confidence            4688999999999988887753           1 112237999999999999999999999652               


Q ss_pred             -----------eEEechhhhhhhccCchHHHHHHHHHHH----HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHH
Q 013506          352 -----------FFSLSGAELYSMYVGESEALLRNTFQRA----RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLST  416 (441)
Q Consensus       352 -----------~~~i~~~~~~~~~~g~~~~~~~~~~~~a----~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~  416 (441)
                                 +++++..+..      ....++++.+.+    ......|+||||+|++.              ....|.
T Consensus        80 ~~~~g~~~~~dv~eidaas~~------~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt--------------~~a~Na  139 (824)
T PRK07764         80 ALAPGGPGSLDVTEIDAASHG------GVDDARELRERAFFAPAESRYKIFIIDEAHMVT--------------PQGFNA  139 (824)
T ss_pred             HHHcCCCCCCcEEEecccccC------CHHHHHHHHHHHHhchhcCCceEEEEechhhcC--------------HHHHHH
Confidence                       2222221111      133445544333    34567799999999994              356899


Q ss_pred             HHHHhcCCCCCCeEEEEee
Q 013506          417 LLTEMDGLEQAKVIIYPIS  435 (441)
Q Consensus       417 ll~~l~~~~~~~~v~~~~~  435 (441)
                      ||+.|+......++|++++
T Consensus       140 LLK~LEEpP~~~~fIl~tt  158 (824)
T PRK07764        140 LLKIVEEPPEHLKFIFATT  158 (824)
T ss_pred             HHHHHhCCCCCeEEEEEeC
Confidence            9999998666555554443

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.25  E-value=3.6e-11  Score=116.85  Aligned_cols=117  Identities=14%  Similarity=0.240  Sum_probs=80.9

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc---------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS---------------  351 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~---------------  351 (441)
                      ..++++.|++.+.+.|...+...            ..+..+||+||+|+||||+|+++|+.+.+.               
T Consensus        13 ~~f~dviGQe~vv~~L~~~l~~~------------rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~pCg~   80 (618)
T PRK14951         13 RSFSEMVGQEHVVQALTNALTQQ------------RLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATPCGV   80 (618)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCCCCc
Confidence            46888999999999888877631            112235999999999999999999998752               


Q ss_pred             --------------eEEechhhhhhhccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHH
Q 013506          352 --------------FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERL  413 (441)
Q Consensus       352 --------------~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~  413 (441)
                                    +++++..+      ....+.++++.+.+..    +...|+||||+|.+.              ...
T Consensus        81 C~~C~~i~~g~h~D~~eldaas------~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls--------------~~a  140 (618)
T PRK14951         81 CQACRDIDSGRFVDYTELDAAS------NRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLT--------------NTA  140 (618)
T ss_pred             cHHHHHHHcCCCCceeecCccc------ccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCC--------------HHH
Confidence                          22222211      1123467777766542    345799999999984              255


Q ss_pred             HHHHHHHhcCCCCCCeEEEEeee
Q 013506          414 LSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       414 ~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      +|.||+.|+..+.. .++|++||
T Consensus       141 ~NaLLKtLEEPP~~-~~fIL~Tt  162 (618)
T PRK14951        141 FNAMLKTLEEPPEY-LKFVLATT  162 (618)
T ss_pred             HHHHHHhcccCCCC-eEEEEEEC
Confidence            89999999975544 44455544

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.25  E-value=5e-10  Score=94.52  Aligned_cols=184  Identities=22%  Similarity=0.241  Sum_probs=123.6

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcE--------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL--------------   81 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~--------------   81 (441)
                      ..++.+.+.++....+......             ..-.|+++|||+|+||-|.+-++.+++-.+.              
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            5567888888888888876532             1125899999999999999999998873210              


Q ss_pred             ----EEE---ccCcccc---ccccchHH-HHHHHHHHHHhhhh-----cCCCeEEEEccccccccCCCCCchhhHHHHHH
Q 013506           82 ----TVI---SPHSVHK---AHVGESEK-ALREAFSQASSHAL-----SGKPSVVFIDEIDALCPRRDHRREQDVRIASQ  145 (441)
Q Consensus        82 ----~~v---~~~~~~~---~~~~~~~~-~~~~~~~~~~~~~~-----~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~  145 (441)
                          +++   +...-..   ...|..++ .+.++.++......     .....+++|-|+|.|          ..+++..
T Consensus        77 S~kklEistvsS~yHlEitPSDaG~~DRvViQellKevAQt~qie~~~qr~fKvvvi~ead~L----------T~dAQ~a  146 (351)
T KOG2035|consen   77 SKKKLEISTVSSNYHLEITPSDAGNYDRVVIQELLKEVAQTQQIETQGQRPFKVVVINEADEL----------TRDAQHA  146 (351)
T ss_pred             CCceEEEEEecccceEEeChhhcCcccHHHHHHHHHHHHhhcchhhccccceEEEEEechHhh----------hHHHHHH
Confidence                111   1100000   01121121 23333333221110     112369999999987          6678889


Q ss_pred             HHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHH
Q 013506          146 LFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATS  224 (441)
Q Consensus       146 l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~  224 (441)
                      |.+.++.+..      ++.+|..||....+-+++++  |+. .+.+|.|+.++...++...+++....... .+..+++.
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            9999988654      57888889999999999998  874 79999999999999999988877665443 36677776


Q ss_pred             CCCCCHH
Q 013506          225 CNGYVGA  231 (441)
Q Consensus       225 ~~g~~~~  231 (441)
                      +.|--.+
T Consensus       218 S~~nLRr  224 (351)
T KOG2035|consen  218 SNRNLRR  224 (351)
T ss_pred             hcccHHH
Confidence            6654333

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.25  E-value=6e-11  Score=115.04  Aligned_cols=124  Identities=19%  Similarity=0.239  Sum_probs=82.6

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCce-------EEec--
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF-------FSLS--  356 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~-------~~i~--  356 (441)
                      ...++++.|++.+++.|...+..            .+.+..+||+||+|+||||+|+++|+.+.+.-       -.+.  
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            34788999999999998887763            12234579999999999999999999886531       1110  


Q ss_pred             ----hh---hhhhh--ccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          357 ----GA---ELYSM--YVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       357 ----~~---~~~~~--~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                          ..   +++..  ......+.++.++..+..    ....|+||||+|.+-              ...++.||+.|+.
T Consensus        80 r~i~~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls--------------~~A~NALLKtLEE  145 (709)
T PRK08691         80 TQIDAGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLS--------------KSAFNAMLKTLEE  145 (709)
T ss_pred             HHHhccCccceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccC--------------HHHHHHHHHHHHh
Confidence                00   11100  011224567777776532    345799999999873              3568999999997


Q ss_pred             CCCCCeEEEEeee
Q 013506          424 LEQAKVIIYPISF  436 (441)
Q Consensus       424 ~~~~~~v~~~~~~  436 (441)
                      ..+. .++|+++|
T Consensus       146 Pp~~-v~fILaTt  157 (709)
T PRK08691        146 PPEH-VKFILATT  157 (709)
T ss_pred             CCCC-cEEEEEeC
Confidence            5554 44555544

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.25  E-value=3.9e-11  Score=116.04  Aligned_cols=123  Identities=17%  Similarity=0.242  Sum_probs=81.6

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCce-------EEech--
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF-------FSLSG--  357 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~-------~~i~~--  357 (441)
                      ..+.++.|++.+.+.+...+..            ...+..+||+||+|+||||+|+++|+.+.+..       -.+..  
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            4688899999999988887653            01122368999999999999999999986631       11100  


Q ss_pred             -------hhhhhh--ccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCC
Q 013506          358 -------AELYSM--YVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL  424 (441)
Q Consensus       358 -------~~~~~~--~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~  424 (441)
                             .+++..  -.......++++...+..    +...|+||||+|++.              ....|.||+.|+..
T Consensus        81 ~i~~~~~~d~~ei~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls--------------~~a~naLLK~LEep  146 (527)
T PRK14969         81 EIDSGRFVDLIEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLS--------------KSAFNAMLKTLEEP  146 (527)
T ss_pred             HHhcCCCCceeEeeccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCC--------------HHHHHHHHHHHhCC
Confidence                   011100  001234567777777643    345699999999884              35689999999985


Q ss_pred             CCCCeEEEEeee
Q 013506          425 EQAKVIIYPISF  436 (441)
Q Consensus       425 ~~~~~v~~~~~~  436 (441)
                      +. ..++|++||
T Consensus       147 p~-~~~fIL~t~  157 (527)
T PRK14969        147 PE-HVKFILATT  157 (527)
T ss_pred             CC-CEEEEEEeC
Confidence            54 445555554

>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=99.24  E-value=8.6e-12  Score=102.13  Aligned_cols=120  Identities=19%  Similarity=0.298  Sum_probs=76.4

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCC----cEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGA----HLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~----~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~  127 (441)
                      |..+++|+||+|||||.+++.+++.+..    +++.+++..+....  +....+..............+..|+|+||||.
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            4568999999999999999999999985    89999998877611  11111112222111111111134999999999


Q ss_pred             cccCCCCCch-hhHHHHHHHHHHHhcCCC-----CCCCCCeEEEEEEcCCCC
Q 013506          128 LCPRRDHRRE-QDVRIASQLFTLMDSNKP-----SKTSVPHVVVVASTNRVD  173 (441)
Q Consensus       128 l~~~~~~~~~-~~~~~~~~l~~~~~~~~~-----~~~~~~~~~vi~~~~~~~  173 (441)
                      ..+....... ....+++.|+..++....     ......++++|+|+|--.
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            9875333322 234677888888876322     122345789999988754

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 ....

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=99.24  E-value=2.4e-10  Score=105.58  Aligned_cols=152  Identities=23%  Similarity=0.321  Sum_probs=90.1

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc-------EEEEccC--
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-------LTVISPH--   87 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~-------~~~v~~~--   87 (441)
                      .++++.+.+...+.+...+.               .+.+++|+||||||||++|+.++..+...       .+.+...  
T Consensus       173 ~l~d~~i~e~~le~l~~~L~---------------~~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsyS  237 (459)
T PRK11331        173 ALNDLFIPETTIETILKRLT---------------IKKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYS  237 (459)
T ss_pred             HhhcccCCHHHHHHHHHHHh---------------cCCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeeccccc
Confidence            36777777777777766553               35789999999999999999999887432       1222211  


Q ss_pred             --cccccc----ccch--HHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCC-----
Q 013506           88 --SVHKAH----VGES--EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK-----  154 (441)
Q Consensus        88 --~~~~~~----~~~~--~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~-----  154 (441)
                        ++....    .+..  ...+..+...+...  ..++.+|||||+|..-.         ..+...++.+++..+     
T Consensus       238 YeDFI~G~rP~~vgy~~~~G~f~~~~~~A~~~--p~~~~vliIDEINRani---------~kiFGel~~lLE~~~rg~~~  306 (459)
T PRK11331        238 YEDFIQGYRPNGVGFRRKDGIFYNFCQQAKEQ--PEKKYVFIIDEINRANL---------SKVFGEVMMLMEHDKRGENW  306 (459)
T ss_pred             HHHHhcccCCCCCCeEecCchHHHHHHHHHhc--ccCCcEEEEehhhccCH---------HHhhhhhhhhcccccccccc
Confidence              111111    0000  00112222222211  23578999999986521         123344444444311     


Q ss_pred             -----------CCCCCCCeEEEEEEcCCCC----ccCHHHhhCCccceEEEecC-CCHH
Q 013506          155 -----------PSKTSVPHVVVVASTNRVD----AIDPALRRSGRFDAEVEVTV-PTAE  197 (441)
Q Consensus       155 -----------~~~~~~~~~~vi~~~~~~~----~l~~~l~~~~r~~~~i~~~~-p~~~  197 (441)
                                 ....-..++.||+|+|..+    .+|.+++|  ||. .+.+.+ ++..
T Consensus       307 ~v~l~y~e~d~e~f~iP~Nl~IIgTMNt~Drs~~~lD~AlrR--RF~-fi~i~p~~~~~  362 (459)
T PRK11331        307 SVPLTYSENDEERFYVPENVYIIGLMNTADRSLAVVDYALRR--RFS-FIDIEPGFDTP  362 (459)
T ss_pred             ceeeeccccccccccCCCCeEEEEecCccccchhhccHHHHh--hhh-eEEecCCCChH
Confidence                       1123457899999999987    78999999  886 455554 4443

>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=99.23  E-value=2.2e-10  Score=93.35  Aligned_cols=138  Identities=27%  Similarity=0.397  Sum_probs=93.8

Q ss_pred             chHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc----------------------
Q 013506           23 GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH----------------------   80 (441)
Q Consensus        23 G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~----------------------   80 (441)
                      |++++++.|.+.+..-            .-++.+||+||+|+||+++|..+++.+...                      
T Consensus         1 gq~~~~~~L~~~~~~~------------~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~   68 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSG------------RLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHP   68 (162)
T ss_dssp             S-HHHHHHHHHHHHCT------------C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CT
T ss_pred             CcHHHHHHHHHHHHcC------------CcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCc
Confidence            7899999999887541            345779999999999999999999887321                      


Q ss_pred             -EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCC
Q 013506           81 -LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTS  159 (441)
Q Consensus        81 -~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  159 (441)
                       +..++......   .-....++.+..........+...|++|||+|.|          .....+.|+..++....    
T Consensus        69 d~~~~~~~~~~~---~i~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l----------~~~a~NaLLK~LEepp~----  131 (162)
T PF13177_consen   69 DFIIIKPDKKKK---SIKIDQIREIIEFLSLSPSEGKYKVIIIDEADKL----------TEEAQNALLKTLEEPPE----  131 (162)
T ss_dssp             TEEEEETTTSSS---SBSHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS-----------HHHHHHHHHHHHSTTT----
T ss_pred             ceEEEecccccc---hhhHHHHHHHHHHHHHHHhcCCceEEEeehHhhh----------hHHHHHHHHHHhcCCCC----
Confidence             22232221100   1223456666655554444456789999999988          56889999999998543    


Q ss_pred             CCeEEEEEEcCCCCccCHHHhhCCccceEEEecCC
Q 013506          160 VPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVP  194 (441)
Q Consensus       160 ~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p  194 (441)
                        ++.+|.+++.+..+.+.+++  |+. .+.+++.
T Consensus       132 --~~~fiL~t~~~~~il~TI~S--Rc~-~i~~~~l  161 (162)
T PF13177_consen  132 --NTYFILITNNPSKILPTIRS--RCQ-VIRFRPL  161 (162)
T ss_dssp             --TEEEEEEES-GGGS-HHHHT--TSE-EEEE---
T ss_pred             --CEEEEEEECChHHChHHHHh--hce-EEecCCC
Confidence              68889999999999999999  885 6777664

...

>PLN03025 replication factor C subunit; Provisional

Probab=99.22  E-value=8.8e-11  Score=107.47  Aligned_cols=120  Identities=22%  Similarity=0.262  Sum_probs=77.3

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcC-----CceEEechhhh
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE-----ASFFSLSGAEL  360 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~-----~~~~~i~~~~~  360 (441)
                      +..++++.|.+++.+.+..++..             ....|++|+|||||||||+|+++|+.+.     ..+++++.++.
T Consensus         9 P~~l~~~~g~~~~~~~L~~~~~~-------------~~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~   75 (319)
T PLN03025          9 PTKLDDIVGNEDAVSRLQVIARD-------------GNMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDD   75 (319)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHhc-------------CCCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeeccccc
Confidence            34678888988888887776542             1223799999999999999999999873     23667777665


Q ss_pred             hhhccCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          361 YSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .+  +....+.++. |....    .....|++|||+|.+..              ...+.|+..|+.+....+ +++.+|
T Consensus        76 ~~--~~~vr~~i~~-~~~~~~~~~~~~~kviiiDE~d~lt~--------------~aq~aL~~~lE~~~~~t~-~il~~n  137 (319)
T PLN03025         76 RG--IDVVRNKIKM-FAQKKVTLPPGRHKIVILDEADSMTS--------------GAQQALRRTMEIYSNTTR-FALACN  137 (319)
T ss_pred             cc--HHHHHHHHHH-HHhccccCCCCCeEEEEEechhhcCH--------------HHHHHHHHHHhcccCCce-EEEEeC
Confidence            43  2222222222 11111    13467999999999852              335778888876554444 455554

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.22  E-value=1e-10  Score=110.79  Aligned_cols=110  Identities=29%  Similarity=0.408  Sum_probs=75.9

Q ss_pred             ccccccCchhHHHH---HHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhc
Q 013506          288 TWEDIGGLRDLKKK---LQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (441)
Q Consensus       288 ~~~~i~g~~~~k~~---l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~  364 (441)
                      .++++.|.+++...   +...+..             ....+++|+|||||||||+|+++|...+.+++.++...     
T Consensus        10 ~l~d~vGq~~~v~~~~~L~~~i~~-------------~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~-----   71 (413)
T PRK13342         10 TLDEVVGQEHLLGPGKPLRRMIEA-------------GRLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVT-----   71 (413)
T ss_pred             CHHHhcCcHHHhCcchHHHHHHHc-------------CCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccc-----
Confidence            56677777766433   5555532             12347999999999999999999999999998888743     


Q ss_pred             cCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEee
Q 013506          365 VGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPIS  435 (441)
Q Consensus       365 ~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~  435 (441)
                        ...+.++.+++.+.    .+...||||||+|.+..              ...+.|+..|+.    +.++++++
T Consensus        72 --~~~~~ir~ii~~~~~~~~~g~~~vL~IDEi~~l~~--------------~~q~~LL~~le~----~~iilI~a  126 (413)
T PRK13342         72 --SGVKDLREVIEEARQRRSAGRRTILFIDEIHRFNK--------------AQQDALLPHVED----GTITLIGA  126 (413)
T ss_pred             --ccHHHHHHHHHHHHHhhhcCCceEEEEechhhhCH--------------HHHHHHHHHhhc----CcEEEEEe
Confidence              22345556666553    23567999999998742              345778888763    34444444

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=99.22  E-value=7.6e-11  Score=114.87  Aligned_cols=117  Identities=24%  Similarity=0.361  Sum_probs=83.4

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC----------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA----------------  350 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~----------------  350 (441)
                      ..++++.|++.+.+.+...+..           + ..+..+||+||+|||||++|+.+|..+.+                
T Consensus        13 ~~f~~viGq~~v~~~L~~~i~~-----------~-~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C~~C~   80 (559)
T PRK05563         13 QTFEDVVGQEHITKTLKNAIKQ-----------G-KISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNECEICK   80 (559)
T ss_pred             CcHHhccCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccHHHH
Confidence            4688999999999998887763           1 12334789999999999999999998753                


Q ss_pred             --------ceEEechhhhhhhccCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHH
Q 013506          351 --------SFFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (441)
Q Consensus       351 --------~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll  418 (441)
                              ++++++++.      +.....++.+...+.    .....|+||||+|.+.              ...++.||
T Consensus        81 ~i~~g~~~dv~eidaas------~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt--------------~~a~naLL  140 (559)
T PRK05563         81 AITNGSLMDVIEIDAAS------NNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLS--------------TGAFNALL  140 (559)
T ss_pred             HHhcCCCCCeEEeeccc------cCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCC--------------HHHHHHHH
Confidence                    233333321      123456777777764    2345799999999884              35689999


Q ss_pred             HHhcCCCCCCeEEEEeee
Q 013506          419 TEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       419 ~~l~~~~~~~~v~~~~~~  436 (441)
                      +.|+..+ ...++|++||
T Consensus       141 KtLEepp-~~~ifIlatt  157 (559)
T PRK05563        141 KTLEEPP-AHVIFILATT  157 (559)
T ss_pred             HHhcCCC-CCeEEEEEeC
Confidence            9999754 4556666654

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.21  E-value=1e-10  Score=108.83  Aligned_cols=158  Identities=17%  Similarity=0.204  Sum_probs=94.1

Q ss_pred             cccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC--cEEEEccCc-cccccccc
Q 013506           20 AIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA--HLTVISPHS-VHKAHVGE   96 (441)
Q Consensus        20 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~--~~~~v~~~~-~~~~~~~~   96 (441)
                      .++|.+++++.+..++.               .+.++||.||||||||++|+.++.....  ++..+.+.. ......|.
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            48888888888877652               4689999999999999999999987653  333333221 11111111


Q ss_pred             h-HHHH--HHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCC----CCCCCCCeEEEEEEc
Q 013506           97 S-EKAL--REAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK----PSKTSVPHVVVVAST  169 (441)
Q Consensus        97 ~-~~~~--~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~~~~~~~vi~~~  169 (441)
                      . ....  ...|....... .....+||+||++.+          +...+..|+..++...    ......+.-++++++
T Consensus        86 l~i~~~~~~g~f~r~~~G~-L~~A~lLfLDEI~ra----------sp~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~AT  154 (498)
T PRK13531         86 LSIQALKDEGRYQRLTSGY-LPEAEIVFLDEIWKA----------GPAILNTLLTAINERRFRNGAHEEKIPMRLLVTAS  154 (498)
T ss_pred             HHHhhhhhcCchhhhcCCc-cccccEEeecccccC----------CHHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEEC
Confidence            1 0000  01111111000 002349999999866          4477888888885433    222223334555566


Q ss_pred             CCCCc---cCHHHhhCCccceEEEecCCC-HHHHHHHHHH
Q 013506          170 NRVDA---IDPALRRSGRFDAEVEVTVPT-AEERFEILKL  205 (441)
Q Consensus       170 ~~~~~---l~~~l~~~~r~~~~i~~~~p~-~~~~~~il~~  205 (441)
                      |+..+   ..+++..  ||...+.+++|+ .++-.+++..
T Consensus       155 N~LPE~g~~leAL~D--RFliri~vp~l~~~~~e~~lL~~  192 (498)
T PRK13531        155 NELPEADSSLEALYD--RMLIRLWLDKVQDKANFRSMLTS  192 (498)
T ss_pred             CCCcccCCchHHhHh--hEEEEEECCCCCchHHHHHHHHc
Confidence            75322   2347777  898889999997 4555777764

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.21  E-value=1e-10  Score=112.87  Aligned_cols=118  Identities=19%  Similarity=0.241  Sum_probs=80.2

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc--------------
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS--------------  351 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~--------------  351 (441)
                      ...++++.|++.+++.+..++..           + .-...+||+||+|+||||+|+++|+.+.+.              
T Consensus        12 P~sf~dIiGQe~v~~~L~~ai~~-----------~-ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C~sC   79 (624)
T PRK14959         12 PQTFAEVAGQETVKAILSRAAQE-----------N-RVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTCEQC   79 (624)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCcccHHH
Confidence            34688899999999988887753           1 112368999999999999999999999753              


Q ss_pred             ----------eEEechhhhhhhccCchHHHHHHHHHHH----HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHH
Q 013506          352 ----------FFSLSGAELYSMYVGESEALLRNTFQRA----RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTL  417 (441)
Q Consensus       352 ----------~~~i~~~~~~~~~~g~~~~~~~~~~~~a----~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~l  417 (441)
                                +++++....      ..-..++.+.+.+    ......|+||||+|.+.              ....+.|
T Consensus        80 ~~i~~g~hpDv~eId~a~~------~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt--------------~~a~naL  139 (624)
T PRK14959         80 RKVTQGMHVDVVEIDGASN------RGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLT--------------REAFNAL  139 (624)
T ss_pred             HHHhcCCCCceEEEecccc------cCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCC--------------HHHHHHH
Confidence                      333433211      1123344433333    23456799999999984              3557999


Q ss_pred             HHHhcCCCCCCeEEEEeee
Q 013506          418 LTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       418 l~~l~~~~~~~~v~~~~~~  436 (441)
                      |+.|+.... ..++|++||
T Consensus       140 Lk~LEEP~~-~~ifILaTt  157 (624)
T PRK14959        140 LKTLEEPPA-RVTFVLATT  157 (624)
T ss_pred             HHHhhccCC-CEEEEEecC
Confidence            999997444 455555554

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=99.21  E-value=1.5e-11  Score=115.65  Aligned_cols=124  Identities=19%  Similarity=0.258  Sum_probs=86.7

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-------eEEech--
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-------FFSLSG--  357 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~-------~~~i~~--  357 (441)
                      ..|.++.|++.+.+.|...+...            +-....+|.||-||||||+||.+|+.++|.       +-.+..  
T Consensus        13 ~~F~evvGQe~v~~~L~nal~~~------------ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~~Ck   80 (515)
T COG2812          13 KTFDDVVGQEHVVKTLSNALENG------------RIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCISCK   80 (515)
T ss_pred             ccHHHhcccHHHHHHHHHHHHhC------------cchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhhhhH
Confidence            36888999999999999887631            112247999999999999999999999654       111111  


Q ss_pred             -------hhhhhh--ccCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCC
Q 013506          358 -------AELYSM--YVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL  424 (441)
Q Consensus       358 -------~~~~~~--~~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~  424 (441)
                             .|++..  -.....+++|++.+++.    .+++.|.+|||++++-              ..++|.||+.|+..
T Consensus        81 ~I~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS--------------~~afNALLKTLEEP  146 (515)
T COG2812          81 EINEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLS--------------KQAFNALLKTLEEP  146 (515)
T ss_pred             hhhcCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhh--------------HHHHHHHhcccccC
Confidence                   111110  01123467788877774    4567799999999984              47799999999974


Q ss_pred             CCCCeEEEEeeee
Q 013506          425 EQAKVIIYPISFI  437 (441)
Q Consensus       425 ~~~~~v~~~~~~~  437 (441)
                       ...+++|+|||=
T Consensus       147 -P~hV~FIlATTe  158 (515)
T COG2812         147 -PSHVKFILATTE  158 (515)
T ss_pred             -ccCeEEEEecCC
Confidence             455666666663

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.19  E-value=3.4e-10  Score=112.43  Aligned_cols=162  Identities=23%  Similarity=0.313  Sum_probs=102.9

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC------------------
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG------------------   78 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~------------------   78 (441)
                      .|.+|+|++.+|..|.-....|             ...+|||.|++|||||++++.++..+.                  
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            3679999999999887765442             124799999999999999999998873                  


Q ss_pred             -----------------CcEEEEccCccccccccchHHHHHHHHHHH-----HhhhhcCCCeEEEEccccccccCCCCCc
Q 013506           79 -----------------AHLTVISPHSVHKAHVGESEKALREAFSQA-----SSHALSGKPSVVFIDEIDALCPRRDHRR  136 (441)
Q Consensus        79 -----------------~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~il~iDe~~~l~~~~~~~~  136 (441)
                                       .+++.+..........|...  +...+...     ..........+|||||++.+        
T Consensus        69 ~~~~~~~~~~~~~~~~~~pfv~~p~~~t~~~l~G~~d--~~~~l~~g~~~~~~G~L~~A~~GiL~lDEi~~l--------  138 (633)
T TIGR02442        69 EWCEECRRKYRPSEQRPVPFVNLPLGATEDRVVGSLD--IERALREGEKAFQPGLLAEAHRGILYIDEVNLL--------  138 (633)
T ss_pred             ccChhhhhcccccccCCCCeeeCCCCCcHHHcCCccc--HHHHhhcCCeeecCcceeecCCCeEEeChhhhC--------
Confidence                             23333333222111112110  11111100     00011123469999999988        


Q ss_pred             hhhHHHHHHHHHHHhcCC-------CCCCCCCeEEEEEEcCCC-CccCHHHhhCCccceEEEecCCC-HHHHHHHHHH
Q 013506          137 EQDVRIASQLFTLMDSNK-------PSKTSVPHVVVVASTNRV-DAIDPALRRSGRFDAEVEVTVPT-AEERFEILKL  205 (441)
Q Consensus       137 ~~~~~~~~~l~~~~~~~~-------~~~~~~~~~~vi~~~~~~-~~l~~~l~~~~r~~~~i~~~~p~-~~~~~~il~~  205 (441)
                        +...+..|+..++...       .......++.+|+++|+. ..+++.+..  ||...+.++.+. .+++.+++..
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              4467888888886532       111122468999999875 368889998  998788887774 5666777654

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.

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=99.19  E-value=1.2e-10  Score=111.82  Aligned_cols=117  Identities=21%  Similarity=0.269  Sum_probs=79.5

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC----------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA----------------  350 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~----------------  350 (441)
                      ..+.++.|++.+.+.+...+..           + ..+..+||+||+|+||||+|+++|..+.+                
T Consensus        13 ~~F~dIIGQe~iv~~L~~aI~~-----------~-rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C~sCr   80 (605)
T PRK05896         13 HNFKQIIGQELIKKILVNAILN-----------N-KLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSCSVCE   80 (605)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHH
Confidence            4678889999999888876642           1 22345899999999999999999998854                


Q ss_pred             --------ceEEechhhhhhhccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHH
Q 013506          351 --------SFFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (441)
Q Consensus       351 --------~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll  418 (441)
                              ++++++++..      -....++.+...+..    ....|++|||+|.+.              ....+.||
T Consensus        81 ~i~~~~h~DiieIdaas~------igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt--------------~~A~NaLL  140 (605)
T PRK05896         81 SINTNQSVDIVELDAASN------NGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLS--------------TSAWNALL  140 (605)
T ss_pred             HHHcCCCCceEEeccccc------cCHHHHHHHHHHHHhchhhCCcEEEEEechHhCC--------------HHHHHHHH
Confidence                    1223322211      123446666665543    334699999999884              24579999


Q ss_pred             HHhcCCCCCCeEEEEeee
Q 013506          419 TEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       419 ~~l~~~~~~~~v~~~~~~  436 (441)
                      +.|+..+.. .++|++|+
T Consensus       141 KtLEEPp~~-tvfIL~Tt  157 (605)
T PRK05896        141 KTLEEPPKH-VVFIFATT  157 (605)
T ss_pred             HHHHhCCCc-EEEEEECC
Confidence            999975554 45555544

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=99.19  E-value=1.1e-09  Score=98.11  Aligned_cols=100  Identities=21%  Similarity=0.431  Sum_probs=77.0

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccc-cccccchHH-HHHHHHHHHHhhhhcCCCeEEEEcccccccc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH-KAHVGESEK-ALREAFSQASSHALSGKPSVVFIDEIDALCP  130 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~-~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~  130 (441)
                      +.+|||.||+|+|||.|++.+|+.++.|+...+|..+. ..|+++..+ .+..++..+.......+..|+||||+|.+..
T Consensus       226 KSNvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQqGIVflDEvDKi~~  305 (564)
T KOG0745|consen  226 KSNVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGIVFLDEVDKITK  305 (564)
T ss_pred             cccEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHhcCeEEEehhhhhcc
Confidence            35899999999999999999999999999999998875 446665543 4556666666555556788999999999975


Q ss_pred             CCCCCch----hhHHHHHHHHHHHhc
Q 013506          131 RRDHRRE----QDVRIASQLFTLMDS  152 (441)
Q Consensus       131 ~~~~~~~----~~~~~~~~l~~~~~~  152 (441)
                      ...+.+.    ...-+++.|+.+++.
T Consensus       306 ~~~~i~~~RDVsGEGVQQaLLKllEG  331 (564)
T KOG0745|consen  306 KAESIHTSRDVSGEGVQQALLKLLEG  331 (564)
T ss_pred             cCccccccccccchhHHHHHHHHhcc
Confidence            4432222    244678889999876

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.19  E-value=1.3e-10  Score=113.94  Aligned_cols=117  Identities=21%  Similarity=0.339  Sum_probs=81.8

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc---------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS---------------  351 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~---------------  351 (441)
                      ..|+++.|++++++.+...+..           + ..+..+||+||+|+||||+|+++|..+.+.               
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-----------G-RVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVCPPCV   80 (576)
T ss_pred             CCHHHccCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCccHHHH
Confidence            4688999999999998887753           1 123346999999999999999999998653               


Q ss_pred             ---------eEEechhhhhhhccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHH
Q 013506          352 ---------FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (441)
Q Consensus       352 ---------~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll  418 (441)
                               ++++++.+      ....++++.+...+..    ....|+||||+|.+.              ....|.||
T Consensus        81 ~i~~g~~~d~~eid~~s------~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt--------------~~a~naLL  140 (576)
T PRK14965         81 EITEGRSVDVFEIDGAS------NTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLS--------------TNAFNALL  140 (576)
T ss_pred             HHhcCCCCCeeeeeccC------ccCHHHHHHHHHHHHhccccCCceEEEEEChhhCC--------------HHHHHHHH
Confidence                     22222211      1123457777766642    345699999999884              35689999


Q ss_pred             HHhcCCCCCCeEEEEeee
Q 013506          419 TEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       419 ~~l~~~~~~~~v~~~~~~  436 (441)
                      +.|+...+. .++|++||
T Consensus       141 k~LEepp~~-~~fIl~t~  157 (576)
T PRK14965        141 KTLEEPPPH-VKFIFATT  157 (576)
T ss_pred             HHHHcCCCC-eEEEEEeC
Confidence            999975554 44444444

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.19  E-value=1.3e-10  Score=111.42  Aligned_cols=117  Identities=23%  Similarity=0.349  Sum_probs=79.8

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc---------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS---------------  351 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~---------------  351 (441)
                      ..|+++.|++.+++.+..++..           + ..+..+||+|||||||||+|+++|..+.+.               
T Consensus        11 ~~~~dvvGq~~v~~~L~~~i~~-----------~-~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~   78 (504)
T PRK14963         11 ITFDEVVGQEHVKEVLLAALRQ-----------G-RLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLA   78 (504)
T ss_pred             CCHHHhcChHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHH
Confidence            4688999999999988887763           1 122235999999999999999999988541               


Q ss_pred             --------eEEechhhhhhhccCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHH
Q 013506          352 --------FFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLT  419 (441)
Q Consensus       352 --------~~~i~~~~~~~~~~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~  419 (441)
                              +++++.++      ......++.+...+.    ...+.|+||||+|.+.              ...++.||+
T Consensus        79 i~~~~h~dv~el~~~~------~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls--------------~~a~naLLk  138 (504)
T PRK14963         79 VRRGAHPDVLEIDAAS------NNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMS--------------KSAFNALLK  138 (504)
T ss_pred             HhcCCCCceEEecccc------cCCHHHHHHHHHHHhhccccCCCeEEEEECccccC--------------HHHHHHHHH
Confidence                    34444321      112345566555443    2456799999999762              356899999


Q ss_pred             HhcCCCCCCeEEEEeee
Q 013506          420 EMDGLEQAKVIIYPISF  436 (441)
Q Consensus       420 ~l~~~~~~~~v~~~~~~  436 (441)
                      .|+.... ..++|+.++
T Consensus       139 ~LEep~~-~t~~Il~t~  154 (504)
T PRK14963        139 TLEEPPE-HVIFILATT  154 (504)
T ss_pred             HHHhCCC-CEEEEEEcC
Confidence            9997544 444554444

>TIGR00368 Mg chelatase-related protein

Probab=99.18  E-value=4.2e-10  Score=107.48  Aligned_cols=153  Identities=22%  Similarity=0.263  Sum_probs=93.4

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC----cEEEEccC-cc-
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA----HLTVISPH-SV-   89 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~----~~~~v~~~-~~-   89 (441)
                      .+|+++.|++.+++.+.-.+               ..+++++|+||||||||++++.+...+..    ..+.+... .. 
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            37899999999988877544               34689999999999999999999876532    11111110 00 


Q ss_pred             --------------ccccccchHHHHHHHHHHH----HhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           90 --------------HKAHVGESEKALREAFSQA----SSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        90 --------------~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                                    ..........   .++...    .........++|||||++.+          +...+..|...++
T Consensus       254 g~~~~~~~~~~~Pf~~p~~s~s~~---~~~ggg~~~~pG~i~lA~~GvLfLDEi~e~----------~~~~~~~L~~~LE  320 (499)
T TIGR00368       254 GKLIDRKQIKQRPFRSPHHSASKP---ALVGGGPIPLPGEISLAHNGVLFLDELPEF----------KRSVLDALREPIE  320 (499)
T ss_pred             hhhccccccccCCccccccccchh---hhhCCccccchhhhhccCCCeEecCChhhC----------CHHHHHHHHHHHH
Confidence                          0000000000   000000    00011123579999999876          4466777777776


Q ss_pred             cCCC-------CCCCCCeEEEEEEcCCC-----C------------------ccCHHHhhCCccceEEEecCCCHHH
Q 013506          152 SNKP-------SKTSVPHVVVVASTNRV-----D------------------AIDPALRRSGRFDAEVEVTVPTAEE  198 (441)
Q Consensus       152 ~~~~-------~~~~~~~~~vi~~~~~~-----~------------------~l~~~l~~~~r~~~~i~~~~p~~~~  198 (441)
                      ....       ......++.+|+++|+-     .                  .++..++.  ||+..+.++.++.++
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            5321       11223468999999863     1                  36777888  999888888887664

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.18  E-value=1.6e-10  Score=108.64  Aligned_cols=123  Identities=16%  Similarity=0.245  Sum_probs=80.4

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceE-------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFF-------------  353 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~-------------  353 (441)
                      ..++++.|++.+++.+...+..           + ..+..+||+||+|+||||+|+++|+.+.+.-.             
T Consensus        13 ~~~~eiiGq~~~~~~L~~~~~~-----------~-~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~   80 (397)
T PRK14955         13 KKFADITAQEHITRTIQNSLRM-----------G-RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEP   80 (397)
T ss_pred             CcHhhccChHHHHHHHHHHHHh-----------C-CcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCC
Confidence            4688899999999988877652           1 22334899999999999999999999876310             


Q ss_pred             --Eec-h--------hhhhhhccC---chHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHH
Q 013506          354 --SLS-G--------AELYSMYVG---ESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLS  415 (441)
Q Consensus       354 --~i~-~--------~~~~~~~~g---~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~  415 (441)
                        .+. +        .++. .+.+   ...+.++.+.+.+.    .....|+||||+|.+.              ....+
T Consensus        81 c~~c~~c~~~~~~~~~n~~-~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~--------------~~~~~  145 (397)
T PRK14955         81 CGECESCRDFDAGTSLNIS-EFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLS--------------IAAFN  145 (397)
T ss_pred             CCCCHHHHHHhcCCCCCeE-eecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCC--------------HHHHH
Confidence              000 0        0110 0111   11355666666553    2345699999999884              24578


Q ss_pred             HHHHHhcCCCCCCeEEEEeee
Q 013506          416 TLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       416 ~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .||+.|+..++..++|++++.
T Consensus       146 ~LLk~LEep~~~t~~Il~t~~  166 (397)
T PRK14955        146 AFLKTLEEPPPHAIFIFATTE  166 (397)
T ss_pred             HHHHHHhcCCCCeEEEEEeCC
Confidence            899999976665555555543

>TIGR00602 rad24 checkpoint protein rad24

Probab=99.18  E-value=9.9e-10  Score=107.16  Aligned_cols=197  Identities=13%  Similarity=0.234  Sum_probs=111.5

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEE-EccC---cccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV-ISPH---SVHK   91 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~-v~~~---~~~~   91 (441)
                      ..+++++|+++.++.|..++...        .++..+++.++|+|||||||||+++.+++.++..+.+ ++..   ....
T Consensus        81 ~~ldel~~~~~ki~~l~~~l~~~--------~~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~Ew~npv~~~~~~~  152 (637)
T TIGR00602        81 ETQHELAVHKKKIEEVETWLKAQ--------VLENAPKRILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLPDFQKN  152 (637)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhc--------ccccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHHHhhhhhhccccc
Confidence            78899999999999999887542        1223455679999999999999999999988755432 1111   0000


Q ss_pred             c------------cccchHHHHHHHHHHHHhh--h----hcCCCeEEEEccccccccCCCCCchhhHHHHHHHHH-HHhc
Q 013506           92 A------------HVGESEKALREAFSQASSH--A----LSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFT-LMDS  152 (441)
Q Consensus        92 ~------------~~~~~~~~~~~~~~~~~~~--~----~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~-~~~~  152 (441)
                      .            ........+..++..+...  .    ...+..||||||++.+...       ....++.++. .+..
T Consensus       153 ~~~~~~s~~~~~~~~~s~~~~F~~fl~~a~~~~~~~g~~~~~~~~IILIDEiPn~~~r-------~~~~lq~lLr~~~~e  225 (637)
T TIGR00602       153 DHKVTLSLESCFSNFQSQIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFYR-------DTRALHEILRWKYVS  225 (637)
T ss_pred             ccccchhhhhccccccchHHHHHHHHHHHHhhhcccccccCCceeEEEeecchhhchh-------hHHHHHHHHHHHhhc
Confidence            0            0011223334444433311  0    1235679999999876422       1224444544 2221


Q ss_pred             CCCCCCCCCeEEEEEEcCCC------C-------ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCC------
Q 013506          153 NKPSKTSVPHVVVVASTNRV------D-------AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD------  213 (441)
Q Consensus       153 ~~~~~~~~~~~~vi~~~~~~------~-------~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~------  213 (441)
                      .     ....++++.+-++.      .       .+.+.+++..|. .+|.|++++..++.+.+...+......      
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     11123444432221      0       134677653344 379999999999888777766543211      


Q ss_pred             --CcccHHHHHHHCCCCCHHHH
Q 013506          214 --ANVDLEAIATSCNGYVGADL  233 (441)
Q Consensus       214 --~~~~~~~l~~~~~g~~~~~i  233 (441)
                        ....+..++....|-....|
T Consensus       300 ~p~~~~l~~I~~~s~GDiRsAI  321 (637)
T TIGR00602       300 VPKKTSVELLCQGCSGDIRSAI  321 (637)
T ss_pred             cCCHHHHHHHHHhCCChHHHHH
Confidence              11235566665555433333

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK04132 replication factor C small subunit; Provisional

Probab=99.18  E-value=9.4e-10  Score=110.15  Aligned_cols=157  Identities=18%  Similarity=0.183  Sum_probs=114.4

Q ss_pred             CCcEEEEEc--CCCCcHHHHHHHHHHHh-----CCcEEEEccCccccccccchHHHHHHHHHHHHhhh-hc-CCCeEEEE
Q 013506           52 WPRGLLLYG--PPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAHVGESEKALREAFSQASSHA-LS-GKPSVVFI  122 (441)
Q Consensus        52 ~~~~vll~G--p~GtGKT~l~~~l~~~l-----~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~~~~il~i  122 (441)
                      |+-+-+..|  |++.||||+|+++|+++     +.+++++|+++...      ...++...+...... .. .+..|+||
T Consensus       563 ~~~~~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rg------id~IR~iIk~~a~~~~~~~~~~KVvII  636 (846)
T PRK04132        563 PGYHNFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERG------INVIREKVKEFARTKPIGGASFKIIFL  636 (846)
T ss_pred             CchhhhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCccc------HHHHHHHHHHHHhcCCcCCCCCEEEEE
Confidence            344556779  99999999999999998     45789999876322      123444443332211 11 13479999


Q ss_pred             ccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHH
Q 013506          123 DEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEI  202 (441)
Q Consensus       123 De~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~i  202 (441)
                      ||+|.|          +...++.|+..++....      ++.+|.+||.+..+.+.+++  |+. .+.|++|+.++....
T Consensus       637 DEaD~L----------t~~AQnALLk~lEep~~------~~~FILi~N~~~kIi~tIrS--RC~-~i~F~~ls~~~i~~~  697 (846)
T PRK04132        637 DEADAL----------TQDAQQALRRTMEMFSS------NVRFILSCNYSSKIIEPIQS--RCA-IFRFRPLRDEDIAKR  697 (846)
T ss_pred             ECcccC----------CHHHHHHHHHHhhCCCC------CeEEEEEeCChhhCchHHhh--hce-EEeCCCCCHHHHHHH
Confidence            999988          34678889999987432      57899999999999999998  885 899999999999998


Q ss_pred             HHHHhccCCCCC-cccHHHHHHHCCCCCHHHH
Q 013506          203 LKLYTKKVPLDA-NVDLEAIATSCNGYVGADL  233 (441)
Q Consensus       203 l~~~~~~~~~~~-~~~~~~l~~~~~g~~~~~i  233 (441)
                      +...+.+..... +..+..++..+.|-....+
T Consensus       698 L~~I~~~Egi~i~~e~L~~Ia~~s~GDlR~AI  729 (846)
T PRK04132        698 LRYIAENEGLELTEEGLQAILYIAEGDMRRAI  729 (846)
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHcCCCHHHHH
Confidence            888777655432 3347788888877544444

>PRK04195 replication factor C large subunit; Provisional

Probab=99.16  E-value=3.3e-10  Score=109.45  Aligned_cols=124  Identities=25%  Similarity=0.330  Sum_probs=84.1

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhcc
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYV  365 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~  365 (441)
                      ...+.++.|.+..++.+..++.....        + .++.++||+|||||||||+|+++|+.++.++++++.++...   
T Consensus        10 P~~l~dlvg~~~~~~~l~~~l~~~~~--------g-~~~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd~r~---   77 (482)
T PRK04195         10 PKTLSDVVGNEKAKEQLREWIESWLK--------G-KPKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRT---   77 (482)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHHhc--------C-CCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEccccccc---
Confidence            34678899999999999888753221        1 23568999999999999999999999999999999887543   


Q ss_pred             CchHHHHHHHHHHHHh------cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          366 GESEALLRNTFQRARL------AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       366 g~~~~~~~~~~~~a~~------~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                         ...++.+...+..      ..+.||+|||+|.+....      .    ...++.|+..++.  ....+|+++..
T Consensus        78 ---~~~i~~~i~~~~~~~sl~~~~~kvIiIDEaD~L~~~~------d----~~~~~aL~~~l~~--~~~~iIli~n~  139 (482)
T PRK04195         78 ---ADVIERVAGEAATSGSLFGARRKLILLDEVDGIHGNE------D----RGGARAILELIKK--AKQPIILTAND  139 (482)
T ss_pred             ---HHHHHHHHHHhhccCcccCCCCeEEEEecCccccccc------c----hhHHHHHHHHHHc--CCCCEEEeccC
Confidence               1223333333321      256799999999986421      0    1235667777763  33345544433

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.15  E-value=2.3e-10  Score=109.28  Aligned_cols=123  Identities=16%  Similarity=0.201  Sum_probs=78.7

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-------eEEe----
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-------FFSL----  355 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~-------~~~i----  355 (441)
                      ..+.++.|++.+.+.+...+..           + ..+..+||+||+|+||||+|+++|..+.+.       +-.+    
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-----------Q-RVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCV   80 (486)
T ss_pred             CcHHHccChHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHH
Confidence            4678899999999988887753           1 122236899999999999999999988641       1111    


Q ss_pred             --ch---hhhhhhc--cCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCC
Q 013506          356 --SG---AELYSMY--VGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL  424 (441)
Q Consensus       356 --~~---~~~~~~~--~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~  424 (441)
                        ..   .+++...  .......++.+.+.+..    +.+.|++|||+|.+.              ...++.||+.|+..
T Consensus        81 ~i~~g~~~d~~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt--------------~~a~naLLk~LEep  146 (486)
T PRK14953         81 EIDKGSFPDLIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLT--------------KEAFNALLKTLEEP  146 (486)
T ss_pred             HHhcCCCCcEEEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcC--------------HHHHHHHHHHHhcC
Confidence              00   0111000  00123445666655542    345799999999874              35679999999986


Q ss_pred             CCCCeEEEEeee
Q 013506          425 EQAKVIIYPISF  436 (441)
Q Consensus       425 ~~~~~v~~~~~~  436 (441)
                      +... ++|+++|
T Consensus       147 p~~~-v~Il~tt  157 (486)
T PRK14953        147 PPRT-IFILCTT  157 (486)
T ss_pred             CCCe-EEEEEEC
Confidence            5554 4555543

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=99.15  E-value=1.9e-08  Score=90.31  Aligned_cols=194  Identities=19%  Similarity=0.245  Sum_probs=108.2

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCC-cEEE---EccCc--------ccc----ccccc-hHHHHHHHHHHHHhhhhcC
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGA-HLTV---ISPHS--------VHK----AHVGE-SEKALREAFSQASSHALSG  115 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~-~~~~---v~~~~--------~~~----~~~~~-~~~~~~~~~~~~~~~~~~~  115 (441)
                      +..++|+||+|+||||+++.+++.+.. .+..   ++...        +..    ...+. .......+..........+
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            346899999999999999999998763 2221   11100        000    00000 0111122222222222345


Q ss_pred             CCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCC--Ccc----CHHHhhCCccceEE
Q 013506          116 KPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRV--DAI----DPALRRSGRFDAEV  189 (441)
Q Consensus       116 ~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~--~~l----~~~l~~~~r~~~~i  189 (441)
                      ++.+++|||++.+.+          .....+..+.+. ...  ....+.++.+..+.  ..+    ...+.+  |+...+
T Consensus       123 ~~~vliiDe~~~l~~----------~~~~~l~~l~~~-~~~--~~~~~~vvl~g~~~~~~~l~~~~~~~l~~--r~~~~~  187 (269)
T TIGR03015       123 KRALLVVDEAQNLTP----------ELLEELRMLSNF-QTD--NAKLLQIFLVGQPEFRETLQSPQLQQLRQ--RIIASC  187 (269)
T ss_pred             CCeEEEEECcccCCH----------HHHHHHHHHhCc-ccC--CCCeEEEEEcCCHHHHHHHcCchhHHHHh--heeeee
Confidence            678999999987621          223333322221 111  11123333333221  111    123555  776788


Q ss_pred             EecCCCHHHHHHHHHHHhccCCC-----CCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhh
Q 013506          190 EVTVPTAEERFEILKLYTKKVPL-----DANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMED  264 (441)
Q Consensus       190 ~~~~p~~~~~~~il~~~~~~~~~-----~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~  264 (441)
                      .+++++.++..+++...+.....     -.+..++.+...+.|.. +.+..++..+...+.....        ..++.++
T Consensus       188 ~l~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p-~~i~~l~~~~~~~a~~~~~--------~~i~~~~  258 (269)
T TIGR03015       188 HLGPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIP-RLINILCDRLLLSAFLEEK--------REIGGEE  258 (269)
T ss_pred             eCCCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcc-cHHHHHHHHHHHHHHHcCC--------CCCCHHH
Confidence            99999999999999887765432     12234777888888875 5588888888777665432        2466666


Q ss_pred             HHhhhh
Q 013506          265 WRHARS  270 (441)
Q Consensus       265 ~~~~~~  270 (441)
                      +..+..
T Consensus       259 v~~~~~  264 (269)
T TIGR03015       259 VREVIA  264 (269)
T ss_pred             HHHHHH
Confidence            665544

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.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.14  E-value=2.8e-10  Score=104.01  Aligned_cols=93  Identities=26%  Similarity=0.311  Sum_probs=64.8

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCc
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGE  367 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~  367 (441)
                      +|.++.|++++++.+..++.....        ...++.+++|+||||||||++|+++|..++.++.....+....     
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            467889999999988877642111        1133567999999999999999999999988776655433211     


Q ss_pred             hHHHHHHHHHHHHhcCCeEEEEecccccc
Q 013506          368 SEALLRNTFQRARLAAPSIIFFDEADVVG  396 (441)
Q Consensus       368 ~~~~~~~~~~~a~~~~~~vl~iDE~d~~~  396 (441)
                       ...+...+...  ..+.++||||++.+.
T Consensus        69 -~~~l~~~l~~~--~~~~vl~iDEi~~l~   94 (305)
T TIGR00635        69 -PGDLAAILTNL--EEGDVLFIDEIHRLS   94 (305)
T ss_pred             -chhHHHHHHhc--ccCCEEEEehHhhhC
Confidence             12233333332  345699999999985

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.

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.14  E-value=2.8e-10  Score=111.78  Aligned_cols=124  Identities=16%  Similarity=0.221  Sum_probs=83.8

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceE---------Eec
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFF---------SLS  356 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~---------~i~  356 (441)
                      ...|.++.|++.+...+...+...            ....++||+||+|+|||++|+++|+.+.+...         .+.
T Consensus        12 P~~f~~liGq~~i~~~L~~~l~~~------------rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg~C~   79 (620)
T PRK14948         12 PQRFDELVGQEAIATTLKNALISN------------RIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCGKCE   79 (620)
T ss_pred             CCcHhhccChHHHHHHHHHHHHcC------------CCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCcccH
Confidence            346888999999999888877631            12236899999999999999999999876311         110


Q ss_pred             h---------hhhh--hhccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHh
Q 013506          357 G---------AELY--SMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEM  421 (441)
Q Consensus       357 ~---------~~~~--~~~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l  421 (441)
                      .         .+++  ........+.++++...+..    +...|+||||+|.+-              ....+.||+.|
T Consensus        80 ~C~~i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt--------------~~a~naLLK~L  145 (620)
T PRK14948         80 LCRAIAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLS--------------TAAFNALLKTL  145 (620)
T ss_pred             HHHHHhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccC--------------HHHHHHHHHHH
Confidence            0         0111  11112335677888777643    345699999999883              36789999999


Q ss_pred             cCCCCCCeEEEEeee
Q 013506          422 DGLEQAKVIIYPISF  436 (441)
Q Consensus       422 ~~~~~~~~v~~~~~~  436 (441)
                      +.... ..++|++|+
T Consensus       146 EePp~-~tvfIL~t~  159 (620)
T PRK14948        146 EEPPP-RVVFVLATT  159 (620)
T ss_pred             hcCCc-CeEEEEEeC
Confidence            97444 455555554

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=99.14  E-value=2.7e-10  Score=111.68  Aligned_cols=124  Identities=20%  Similarity=0.287  Sum_probs=82.2

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceE--------Eec-
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFF--------SLS-  356 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~--------~i~-  356 (441)
                      +..|.++.|++.+.+.+...+...            ..+..+||+||+|+|||++|+++|..+.+.-.        .+. 
T Consensus        14 P~~f~dIiGQe~~v~~L~~aI~~~------------rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~   81 (725)
T PRK07133         14 PKTFDDIVGQDHIVQTLKNIIKSN------------KISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIE   81 (725)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcC------------CCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHH
Confidence            346889999999999888877531            12234689999999999999999998865311        000 


Q ss_pred             ----hhhhhhh--ccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCC
Q 013506          357 ----GAELYSM--YVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ  426 (441)
Q Consensus       357 ----~~~~~~~--~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~  426 (441)
                          ..+++..  -.......++.+.+.+..    +...|++|||+|.+.              ....+.||+.|+..+.
T Consensus        82 ~~~~~~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT--------------~~A~NALLKtLEEPP~  147 (725)
T PRK07133         82 NVNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLS--------------KSAFNALLKTLEEPPK  147 (725)
T ss_pred             hhcCCCcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCC--------------HHHHHHHHHHhhcCCC
Confidence                0011100  000124557777777753    445799999999884              2468999999998555


Q ss_pred             CCeEEEEeee
Q 013506          427 AKVIIYPISF  436 (441)
Q Consensus       427 ~~~v~~~~~~  436 (441)
                       ..++|++|+
T Consensus       148 -~tifILaTt  156 (725)
T PRK07133        148 -HVIFILATT  156 (725)
T ss_pred             -ceEEEEEcC
Confidence             445555544

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.13  E-value=4.9e-10  Score=109.43  Aligned_cols=122  Identities=16%  Similarity=0.274  Sum_probs=80.5

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceE-------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFF-------------  353 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~-------------  353 (441)
                      ..++++.|++.+.+.+...+..           + .-+..+||+||+|+||||+|+++|+.+.+...             
T Consensus        13 ~~f~eivGQe~i~~~L~~~i~~-----------~-ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~   80 (620)
T PRK14954         13 SKFADITAQEHITHTIQNSLRM-----------D-RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEP   80 (620)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHc-----------C-CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCC
Confidence            4688899999999988876642           1 22334899999999999999999999977311             


Q ss_pred             --Eec-------h--hhhhhhccCc---hHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHH
Q 013506          354 --SLS-------G--AELYSMYVGE---SEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLS  415 (441)
Q Consensus       354 --~i~-------~--~~~~~~~~g~---~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~  415 (441)
                        .+.       +  .++. .+.+.   ..+.++.+.+.+.    .+...|+||||+|.+.              ....+
T Consensus        81 Cg~C~sC~~~~~g~~~n~~-~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt--------------~~a~n  145 (620)
T PRK14954         81 CGECESCRDFDAGTSLNIS-EFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLS--------------TAAFN  145 (620)
T ss_pred             CccCHHHHHHhccCCCCeE-EecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcC--------------HHHHH
Confidence              000       0  0110 01111   1355666665552    3445699999999884              24579


Q ss_pred             HHHHHhcCCCCCCeEEEEee
Q 013506          416 TLLTEMDGLEQAKVIIYPIS  435 (441)
Q Consensus       416 ~ll~~l~~~~~~~~v~~~~~  435 (441)
                      .||+.|+..+...++|++++
T Consensus       146 aLLK~LEePp~~tv~IL~t~  165 (620)
T PRK14954        146 AFLKTLEEPPPHAIFIFATT  165 (620)
T ss_pred             HHHHHHhCCCCCeEEEEEeC
Confidence            99999998666544444443

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=99.13  E-value=3.6e-10  Score=110.23  Aligned_cols=123  Identities=20%  Similarity=0.250  Sum_probs=83.6

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEec---------
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS---------  356 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~---------  356 (441)
                      ...++++.|++.+++.+...+..           + +.+..+||+||+|+||||+|+++|+.+.+.....+         
T Consensus        20 P~~f~dliGq~~~v~~L~~~~~~-----------g-ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~cg   87 (598)
T PRK09111         20 PQTFDDLIGQEAMVRTLTNAFET-----------G-RIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLCG   87 (598)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccCc
Confidence            34788999999999998887753           1 22346899999999999999999998875421111         


Q ss_pred             ----h--------hhhhhhc--cCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHH
Q 013506          357 ----G--------AELYSMY--VGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (441)
Q Consensus       357 ----~--------~~~~~~~--~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll  418 (441)
                          +        .|++...  ..-....++.+...+..    ....|+||||+|.+.              ...++.||
T Consensus        88 ~c~~C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls--------------~~a~naLL  153 (598)
T PRK09111         88 VGEHCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLS--------------TAAFNALL  153 (598)
T ss_pred             ccHHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCC--------------HHHHHHHH
Confidence                0        0111100  00124567777777643    345799999999884              35689999


Q ss_pred             HHhcCCCCCCeEEEEe
Q 013506          419 TEMDGLEQAKVIIYPI  434 (441)
Q Consensus       419 ~~l~~~~~~~~v~~~~  434 (441)
                      +.|+.......+|+++
T Consensus       154 KtLEePp~~~~fIl~t  169 (598)
T PRK09111        154 KTLEEPPPHVKFIFAT  169 (598)
T ss_pred             HHHHhCCCCeEEEEEe
Confidence            9999866654444444

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.13  E-value=3.1e-10  Score=104.38  Aligned_cols=94  Identities=26%  Similarity=0.323  Sum_probs=68.7

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccC
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVG  366 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g  366 (441)
                      ..+.++.|.+..++.+...+.....        ...+..+++|+||||||||++|+++|+.++..+..++.+.+.     
T Consensus        22 ~~~~~~vG~~~~~~~l~~~l~~~~~--------~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~-----   88 (328)
T PRK00080         22 KSLDEFIGQEKVKENLKIFIEAAKK--------RGEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALE-----   88 (328)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHHh--------cCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEeccccc-----
Confidence            4678889999999888877653111        123456899999999999999999999999887766654321     


Q ss_pred             chHHHHHHHHHHHHhcCCeEEEEecccccc
Q 013506          367 ESEALLRNTFQRARLAAPSIIFFDEADVVG  396 (441)
Q Consensus       367 ~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~  396 (441)
                       ....+..++...  ..++||||||++.+.
T Consensus        89 -~~~~l~~~l~~l--~~~~vl~IDEi~~l~  115 (328)
T PRK00080         89 -KPGDLAAILTNL--EEGDVLFIDEIHRLS  115 (328)
T ss_pred             -ChHHHHHHHHhc--ccCCEEEEecHhhcc
Confidence             223455555543  346799999999985

>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=99.12  E-value=3.6e-11  Score=90.55  Aligned_cols=114  Identities=25%  Similarity=0.371  Sum_probs=60.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCc-cc-cccccchHHHHHHHHHHHHhhh--hcC--CCeEEEEcccccc
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS-VH-KAHVGESEKALREAFSQASSHA--LSG--KPSVVFIDEIDAL  128 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~--~~~--~~~il~iDe~~~l  128 (441)
                      |+||.|+||+|||++++++|+.++..+..+.+.. +. ++..|..      +++......  ..+  -..|+++||+|..
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdllPsDi~G~~------v~~~~~~~f~~~~GPif~~ill~DEiNra   74 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLLPSDILGFP------VYDQETGEFEFRPGPIFTNILLADEINRA   74 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--HHHHHEEE------EEETTTTEEEEEE-TT-SSEEEEETGGGS
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCCcccceeee------eeccCCCeeEeecChhhhceeeecccccC
Confidence            6899999999999999999999999887775431 11 0000000      000000000  000  0259999999976


Q ss_pred             ccCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCCeEEEEEEcCCCC-----ccCHHHhhCCccc
Q 013506          129 CPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVPHVVVVASTNRVD-----AIDPALRRSGRFD  186 (441)
Q Consensus       129 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~~~~~~~vi~~~~~~~-----~l~~~l~~~~r~~  186 (441)
                                +...+..+++.+......     ..-...++||+|.|+.+     .++++...  ||.
T Consensus        75 ----------ppktQsAlLeam~Er~Vt~~g~~~~lp~pf~ViATqNp~e~~Gty~Lpea~~D--RF~  130 (131)
T PF07726_consen   75 ----------PPKTQSALLEAMEERQVTIDGQTYPLPDPFFVIATQNPVEQEGTYPLPEAQLD--RFM  130 (131)
T ss_dssp             -----------HHHHHHHHHHHHHSEEEETTEEEE--SS-EEEEEE-TT--S------HHHHT--TSS
T ss_pred             ----------CHHHHHHHHHHHHcCeEEeCCEEEECCCcEEEEEecCccccCceecCCHHHhc--ccc
Confidence                      447788888888754322     11223478999999876     67888887  773

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.

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=99.12  E-value=1.1e-08  Score=87.20  Aligned_cols=88  Identities=27%  Similarity=0.405  Sum_probs=61.0

Q ss_pred             CeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCC-------------CCccCHHHhhCC
Q 013506          117 PSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR-------------VDAIDPALRRSG  183 (441)
Q Consensus       117 ~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~-------------~~~l~~~l~~~~  183 (441)
                      |.+|||||+|.|          +.++...|...++....      .++++ ++|+             |..+++.++.  
T Consensus       297 PGVLFIDEVhML----------DiEcFTyL~kalES~ia------Pivif-AsNrG~~~irGt~d~~sPhGip~dllD--  357 (456)
T KOG1942|consen  297 PGVLFIDEVHML----------DIECFTYLHKALESPIA------PIVIF-ASNRGMCTIRGTEDILSPHGIPPDLLD--  357 (456)
T ss_pred             CcceEeeehhhh----------hhHHHHHHHHHhcCCCC------ceEEE-ecCCcceeecCCcCCCCCCCCCHHHhh--
Confidence            779999999987          66777778888776432      24444 4443             3467788887  


Q ss_pred             ccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHH
Q 013506          184 RFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATS  224 (441)
Q Consensus       184 r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~  224 (441)
                      |.- ++..-+++.++..+|++.......+..+.+ +..++..
T Consensus       358 Rl~-Iirt~~y~~~e~r~Ii~~Ra~~E~l~~~e~a~~~l~~~  398 (456)
T KOG1942|consen  358 RLL-IIRTLPYDEEEIRQIIKIRAQVEGLQVEEEALDLLAEI  398 (456)
T ss_pred             hee-EEeeccCCHHHHHHHHHHHHhhhcceecHHHHHHHHhh
Confidence            774 788888999999999998777665554332 3444443

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=99.11  E-value=6.6e-10  Score=105.58  Aligned_cols=117  Identities=21%  Similarity=0.294  Sum_probs=78.6

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc---------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS---------------  351 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~---------------  351 (441)
                      ..|+++.|++.+...+...+..           + ..+..+||+||+|+|||++|+++|..+.+.               
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-----------N-RAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASC   81 (451)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHc-----------C-CCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHH
Confidence            4688999999999888877753           1 223458999999999999999999988542               


Q ss_pred             ----------eEEechhhhhhhccCchHHHHHHHHHHH----HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHH
Q 013506          352 ----------FFSLSGAELYSMYVGESEALLRNTFQRA----RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTL  417 (441)
Q Consensus       352 ----------~~~i~~~~~~~~~~g~~~~~~~~~~~~a----~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~l  417 (441)
                                ++++++...    .  .-+.++.+.+.+    ......|+||||+|.+.              ....+.|
T Consensus        82 ~~i~~~~~~d~~~i~g~~~----~--gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt--------------~~~~n~L  141 (451)
T PRK06305         82 KEISSGTSLDVLEIDGASH----R--GIEDIRQINETVLFTPSKSRYKIYIIDEVHMLT--------------KEAFNSL  141 (451)
T ss_pred             HHHhcCCCCceEEeecccc----C--CHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhC--------------HHHHHHH
Confidence                      222222111    1  123444443333    22556799999999884              2457999


Q ss_pred             HHHhcCCCCCCeEEEEeee
Q 013506          418 LTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       418 l~~l~~~~~~~~v~~~~~~  436 (441)
                      |+.|+..++ ..++|+++|
T Consensus       142 Lk~lEep~~-~~~~Il~t~  159 (451)
T PRK06305        142 LKTLEEPPQ-HVKFFLATT  159 (451)
T ss_pred             HHHhhcCCC-CceEEEEeC
Confidence            999998655 455555554

>smart00763 AAA_PrkA PrkA AAA domain

Probab=99.10  E-value=9.4e-09  Score=92.65  Aligned_cols=65  Identities=25%  Similarity=0.310  Sum_probs=50.5

Q ss_pred             cccccc-cccchHHHHHHHHHHHHhhccCchHHHhcCCC-CCcEEEEEcCCCCcHHHHHHHHHHHhCC-------cEEEE
Q 013506           14 KWKAEE-AIGGNRAAVEALRELITFPLLYSSQAQKLGLK-WPRGLLLYGPPGTGKTSLVRAVVRECGA-------HLTVI   84 (441)
Q Consensus        14 ~~~~~~-~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~~vll~Gp~GtGKT~l~~~l~~~l~~-------~~~~v   84 (441)
                      ....|+ ++.|++++++++.+++....        .|.. ....++|+|||||||||+++++++.++.       +++.+
T Consensus        45 ~y~~F~~~~~G~~~~i~~lv~~l~~~a--------~g~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~  116 (361)
T smart00763       45 RYRFFDHDFFGMEEAIERFVNYFKSAA--------QGLEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTF  116 (361)
T ss_pred             eccccchhccCcHHHHHHHHHHHHHHH--------hcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEE
Confidence            356677 89999999999998875522        1222 3467899999999999999999999865       66666


Q ss_pred             cc
Q 013506           85 SP   86 (441)
Q Consensus        85 ~~   86 (441)
                      ..
T Consensus       117 ~~  118 (361)
T smart00763      117 KW  118 (361)
T ss_pred             Ee
Confidence            55

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>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=99.10  E-value=1.4e-09  Score=88.05  Aligned_cols=73  Identities=38%  Similarity=0.545  Sum_probs=53.0

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCchHHH---HHHHHHHHHhcCCeEEEEeccccc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEAL---LRNTFQRARLAAPSIIFFDEADVV  395 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~~~~---~~~~~~~a~~~~~~vl~iDE~d~~  395 (441)
                      .+.+++++||||||||++++.++..+   +.+++.++..+....+.......   ....+.......+.++++||++.+
T Consensus        18 ~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lilDe~~~~   96 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSL   96 (151)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHhhhhhHhHHHHhhccCCCeEEEEeChhhh
Confidence            45689999999999999999999998   88888888877655332222111   122233344556789999999987

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.

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.10  E-value=4.3e-10  Score=110.80  Aligned_cols=117  Identities=21%  Similarity=0.339  Sum_probs=78.6

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCce--------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF--------------  352 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~--------------  352 (441)
                      ..++++.|++.+++.+...+..           + ..+..+||+||+|+||||+|+++|+.+.+..              
T Consensus        13 ~~~~eiiGq~~~~~~L~~~i~~-----------~-~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~c~~c   80 (585)
T PRK14950         13 QTFAELVGQEHVVQTLRNAIAE-----------G-RVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGTCEMC   80 (585)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHh-----------C-CCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCccCHHH
Confidence            4688999999999988877653           1 1223469999999999999999999886422              


Q ss_pred             -----------EEechhhhhhhccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHH
Q 013506          353 -----------FSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTL  417 (441)
Q Consensus       353 -----------~~i~~~~~~~~~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~l  417 (441)
                                 ++++.++      ....+.++.+.+.+..    ....|+||||+|.+.              ...++.|
T Consensus        81 ~~i~~~~~~d~~~i~~~~------~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~--------------~~a~naL  140 (585)
T PRK14950         81 RAIAEGSAVDVIEMDAAS------HTSVDDAREIIERVQFRPALARYKVYIIDEVHMLS--------------TAAFNAL  140 (585)
T ss_pred             HHHhcCCCCeEEEEeccc------cCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCC--------------HHHHHHH
Confidence                       1111111      1123445665554432    345699999999884              2568999


Q ss_pred             HHHhcCCCCCCeEEEEee
Q 013506          418 LTEMDGLEQAKVIIYPIS  435 (441)
Q Consensus       418 l~~l~~~~~~~~v~~~~~  435 (441)
                      |+.|+.......+|++++
T Consensus       141 Lk~LEepp~~tv~Il~t~  158 (585)
T PRK14950        141 LKTLEEPPPHAIFILATT  158 (585)
T ss_pred             HHHHhcCCCCeEEEEEeC
Confidence            999998665544444443

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=99.09  E-value=6.4e-10  Score=108.04  Aligned_cols=123  Identities=15%  Similarity=0.206  Sum_probs=80.6

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-------eEEech-
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-------FFSLSG-  357 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~-------~~~i~~-  357 (441)
                      ...|.++.|++.+.+.+...+..           + ..+..+||+||+|+||||+|+++|+.+.+.       +-.+.. 
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-----------N-KIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGECSSC   79 (563)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccchHH
Confidence            34688999999999988887753           1 123348999999999999999999998652       111100 


Q ss_pred             --------hhhhhhccC---chHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhc
Q 013506          358 --------AELYSMYVG---ESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (441)
Q Consensus       358 --------~~~~~~~~g---~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~  422 (441)
                              .+++. +-|   ..-+.++.+.+.+.    .....|++|||++.+.              ....+.||+.|+
T Consensus        80 ~~i~~~~~~dv~~-idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls--------------~~a~naLLK~LE  144 (563)
T PRK06647         80 KSIDNDNSLDVIE-IDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLS--------------NSAFNALLKTIE  144 (563)
T ss_pred             HHHHcCCCCCeEE-ecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcC--------------HHHHHHHHHhhc
Confidence                    01110 111   12345666654432    3456799999999883              356899999999


Q ss_pred             CCCCCCeEEEEeee
Q 013506          423 GLEQAKVIIYPISF  436 (441)
Q Consensus       423 ~~~~~~~v~~~~~~  436 (441)
                      ..+. ..++|+++|
T Consensus       145 epp~-~~vfI~~tt  157 (563)
T PRK06647        145 EPPP-YIVFIFATT  157 (563)
T ss_pred             cCCC-CEEEEEecC
Confidence            7444 455555544

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=99.09  E-value=2.4e-08  Score=90.01  Aligned_cols=148  Identities=18%  Similarity=0.280  Sum_probs=106.5

Q ss_pred             hHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc-----------------------
Q 013506           24 NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-----------------------   80 (441)
Q Consensus        24 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~-----------------------   80 (441)
                      +....+.|.+.+...            .-++.+||+||+|+||+++|+.+|+.+...                       
T Consensus         7 ~~~~~~~l~~~~~~~------------rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HP   74 (325)
T PRK06871          7 LQPTYQQITQAFQQG------------LGHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHP   74 (325)
T ss_pred             hHHHHHHHHHHHHcC------------CcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            556666666665431            235789999999999999999999877431                       


Q ss_pred             -EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCC
Q 013506           81 -LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTS  159 (441)
Q Consensus        81 -~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  159 (441)
                       +..+...+  ..  .-....++.+.+........+...|++||++|.|          .....+.|++.++...     
T Consensus        75 D~~~i~p~~--~~--~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m----------~~~AaNaLLKtLEEPp-----  135 (325)
T PRK06871         75 DFHILEPID--NK--DIGVDQVREINEKVSQHAQQGGNKVVYIQGAERL----------TEAAANALLKTLEEPR-----  135 (325)
T ss_pred             CEEEEcccc--CC--CCCHHHHHHHHHHHhhccccCCceEEEEechhhh----------CHHHHHHHHHHhcCCC-----
Confidence             11221110  00  1223456666665555555566789999999988          5578899999998743     


Q ss_pred             CCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHH
Q 013506          160 VPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLY  206 (441)
Q Consensus       160 ~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~  206 (441)
                       +++++|.+++.++.+.|.+++  |+. .+.|++|+.++..+.+...
T Consensus       136 -~~~~fiL~t~~~~~llpTI~S--RC~-~~~~~~~~~~~~~~~L~~~  178 (325)
T PRK06871        136 -PNTYFLLQADLSAALLPTIYS--RCQ-TWLIHPPEEQQALDWLQAQ  178 (325)
T ss_pred             -CCeEEEEEECChHhCchHHHh--hce-EEeCCCCCHHHHHHHHHHH
Confidence             367888889999999999999  886 7999999999988877754

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=99.08  E-value=9.5e-10  Score=88.49  Aligned_cols=74  Identities=30%  Similarity=0.424  Sum_probs=59.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc---eEEechhhhhhh--------------ccCchHHHHHHHHHHHHhcCCeE
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEAS---FFSLSGAELYSM--------------YVGESEALLRNTFQRARLAAPSI  386 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~---~~~i~~~~~~~~--------------~~g~~~~~~~~~~~~a~~~~~~v  386 (441)
                      +.+++|+||||||||++++.+|..+...   ++.++.......              .........+.++..+....+.+
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v   81 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPDV   81 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhcCCCE
Confidence            4579999999999999999999999775   778777654321              22344667788899998777789


Q ss_pred             EEEeccccccc
Q 013506          387 IFFDEADVVGA  397 (441)
Q Consensus       387 l~iDE~d~~~~  397 (441)
                      +|+||++.+..
T Consensus        82 iiiDei~~~~~   92 (148)
T smart00382       82 LILDEITSLLD   92 (148)
T ss_pred             EEEECCcccCC
Confidence            99999999874

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.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=99.07  E-value=2.1e-09  Score=98.15  Aligned_cols=194  Identities=15%  Similarity=0.188  Sum_probs=109.9

Q ss_pred             ccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccch
Q 013506           21 IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGES   97 (441)
Q Consensus        21 i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~~   97 (441)
                      ++|.....+.+.+.+...           .....+|+|+|++||||+++|+++-...   +.+++.++|..+.....   
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            356555555555554331           1245789999999999999999986544   46899999986542111   


Q ss_pred             HHHHHHHHHHH-----------HhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCC-----CCCCCC
Q 013506           98 EKALREAFSQA-----------SSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP-----SKTSVP  161 (441)
Q Consensus        98 ~~~~~~~~~~~-----------~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~-----~~~~~~  161 (441)
                      .   ..+|...           ........++.|||||++.|          +...+..|+..++....     ......
T Consensus        67 ~---~~lfG~~~g~~~ga~~~~~G~~~~a~gGtL~Ldei~~L----------~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~  133 (329)
T TIGR02974        67 D---SELFGHEAGAFTGAQKRHQGRFERADGGTLFLDELATA----------SLLVQEKLLRVIEYGEFERVGGSQTLQV  133 (329)
T ss_pred             H---HHHhccccccccCcccccCCchhhCCCCEEEeCChHhC----------CHHHHHHHHHHHHcCcEEecCCCceecc
Confidence            0   1122110           00011224679999999987          44677888888765331     111223


Q ss_pred             eEEEEEEcCCC-------CccCHHHhhCCccc-eEEEecCCC--HHHHHHHHHHHhcc----CCCC--Cccc---HHHHH
Q 013506          162 HVVVVASTNRV-------DAIDPALRRSGRFD-AEVEVTVPT--AEERFEILKLYTKK----VPLD--ANVD---LEAIA  222 (441)
Q Consensus       162 ~~~vi~~~~~~-------~~l~~~l~~~~r~~-~~i~~~~p~--~~~~~~il~~~~~~----~~~~--~~~~---~~~l~  222 (441)
                      ++.+|++++..       ..+.+.+..  |+. ..+.+|+..  .++...++..++..    ....  ...+   ++.+.
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            57888888753       234456655  663 234455543  23334444443332    1211  1122   44555


Q ss_pred             HHCCCCCHHHHHHHHHHHHHH
Q 013506          223 TSCNGYVGADLEALCREATMS  243 (441)
Q Consensus       223 ~~~~g~~~~~i~~l~~~a~~~  243 (441)
                      .....-+-++++++++.++..
T Consensus       212 ~y~WPGNvrEL~n~i~~~~~~  232 (329)
T TIGR02974       212 EYHWPGNVRELKNVVERSVYR  232 (329)
T ss_pred             hCCCCchHHHHHHHHHHHHHh
Confidence            555555777888887776653

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

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=99.07  E-value=2.4e-08  Score=89.85  Aligned_cols=174  Identities=19%  Similarity=0.280  Sum_probs=112.4

Q ss_pred             hHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------------EE
Q 013506           24 NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------------LT   82 (441)
Q Consensus        24 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------------~~   82 (441)
                      ++.+.+.+...+...            .-++.+||+||+|+||+++|..+++.+...                     +.
T Consensus         9 ~~~~~~~l~~~~~~~------------rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~   76 (319)
T PRK08769          9 QQRAYDQTVAALDAG------------RLGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQ   76 (319)
T ss_pred             HHHHHHHHHHHHHcC------------CcceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEE
Confidence            556677777665431            235679999999999999999999876321                     11


Q ss_pred             EEc--cCccccc-cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCC
Q 013506           83 VIS--PHSVHKA-HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTS  159 (441)
Q Consensus        83 ~v~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  159 (441)
                      .+.  ...-... ........++++.+........+...|++||++|.|          +....+.|++.++....    
T Consensus        77 ~i~~~p~~~~~k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m----------~~~AaNaLLKtLEEPp~----  142 (319)
T PRK08769         77 LVSFIPNRTGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAI----------NRAACNALLKTLEEPSP----  142 (319)
T ss_pred             EEecCCCcccccccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhh----------CHHHHHHHHHHhhCCCC----
Confidence            121  1000000 001123345555554444444455679999999988          55788999999987433    


Q ss_pred             CCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHH
Q 013506          160 VPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADL  233 (441)
Q Consensus       160 ~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i  233 (441)
                        +++||.+++.++.+.|.+++  |+. .+.|++|+.++..+.+...    ... ......++..+.|.....+
T Consensus       143 --~~~fiL~~~~~~~lLpTIrS--RCq-~i~~~~~~~~~~~~~L~~~----~~~-~~~a~~~~~l~~G~p~~A~  206 (319)
T PRK08769        143 --GRYLWLISAQPARLPATIRS--RCQ-RLEFKLPPAHEALAWLLAQ----GVS-ERAAQEALDAARGHPGLAA  206 (319)
T ss_pred             --CCeEEEEECChhhCchHHHh--hhe-EeeCCCcCHHHHHHHHHHc----CCC-hHHHHHHHHHcCCCHHHHH
Confidence              56788888889999999999  986 7899999999888777642    111 1123345556665544443

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=99.07  E-value=3.7e-10  Score=98.95  Aligned_cols=65  Identities=32%  Similarity=0.539  Sum_probs=52.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCc---eEEechhhhhhhccCchHHHHHHHHHHHHh-----cCCeEEEEeccccccc
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEAS---FFSLSGAELYSMYVGESEALLRNTFQRARL-----AAPSIIFFDEADVVGA  397 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~---~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~-----~~~~vl~iDE~d~~~~  397 (441)
                      .++|.|||||||||+|++++.-....   |++++...       ...++++.+|+.+..     ....|||||||+.+-.
T Consensus       164 SmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~-------a~t~dvR~ife~aq~~~~l~krkTilFiDEiHRFNk  236 (554)
T KOG2028|consen  164 SMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATN-------AKTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFNK  236 (554)
T ss_pred             ceEEecCCCCchHHHHHHHHhhcCCCceEEEEEeccc-------cchHHHHHHHHHHHHHHhhhcceeEEEeHHhhhhhh
Confidence            68999999999999999999988654   77776633       456678888888853     4567999999999853

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=99.06  E-value=2.4e-09  Score=100.95  Aligned_cols=31  Identities=26%  Similarity=0.248  Sum_probs=27.4

Q ss_pred             hcCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          318 RLGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       318 ~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .+.+.++..+-++|++||||||+||+++...
T Consensus       311 Sf~l~~GE~lglVGeSGsGKSTlar~i~gL~  341 (539)
T COG1123         311 SFDLREGETLGLVGESGSGKSTLARILAGLL  341 (539)
T ss_pred             eeEecCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3456778889999999999999999999887

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=99.06  E-value=1.1e-09  Score=104.74  Aligned_cols=118  Identities=18%  Similarity=0.256  Sum_probs=80.1

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC---------------
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA---------------  350 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~---------------  350 (441)
                      ...++++.|++.+++.+...+..           + ..+..+||+||+|+|||++|+++|..+.+               
T Consensus        10 P~~fdeiiGqe~v~~~L~~~I~~-----------g-rl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C   77 (535)
T PRK08451         10 PKHFDELIGQESVSKTLSLALDN-----------N-RLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQC   77 (535)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc-----------C-CCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHH
Confidence            34688999999999988887753           1 12234589999999999999999998743               


Q ss_pred             ---------ceEEechhhhhhhccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHH
Q 013506          351 ---------SFFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTL  417 (441)
Q Consensus       351 ---------~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~l  417 (441)
                               .++.++.++.      ..-+.++.+...+..    +...|++|||+|.+.              ..+.+.|
T Consensus        78 ~~~~~~~h~dv~eldaas~------~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt--------------~~A~NAL  137 (535)
T PRK08451         78 QSALENRHIDIIEMDAASN------RGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLT--------------KEAFNAL  137 (535)
T ss_pred             HHHhhcCCCeEEEeccccc------cCHHHHHHHHHHHhhCcccCCeEEEEEECcccCC--------------HHHHHHH
Confidence                     1233322111      113556666655421    345699999999884              3678999


Q ss_pred             HHHhcCCCCCCeEEEEee
Q 013506          418 LTEMDGLEQAKVIIYPIS  435 (441)
Q Consensus       418 l~~l~~~~~~~~v~~~~~  435 (441)
                      |+.|+..+...++|++++
T Consensus       138 LK~LEEpp~~t~FIL~tt  155 (535)
T PRK08451        138 LKTLEEPPSYVKFILATT  155 (535)
T ss_pred             HHHHhhcCCceEEEEEEC
Confidence            999998755544444443

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.06  E-value=2.5e-08  Score=85.33  Aligned_cols=126  Identities=23%  Similarity=0.305  Sum_probs=83.5

Q ss_pred             CeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCC------------CCccCHHHhhCCc
Q 013506          117 PSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR------------VDAIDPALRRSGR  184 (441)
Q Consensus       117 ~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~------------~~~l~~~l~~~~r  184 (441)
                      |.||||||+|.|          +.++...|.+.++..-.      . +++.+||+            |..+|-.++.  |
T Consensus       289 pGVLFIDEvHML----------DIEcFsFlNrAlE~d~~------P-iiimaTNrgit~iRGTn~~SphGiP~D~lD--R  349 (454)
T KOG2680|consen  289 PGVLFIDEVHML----------DIECFSFLNRALENDMA------P-IIIMATNRGITRIRGTNYRSPHGIPIDLLD--R  349 (454)
T ss_pred             cceEEEeeehhh----------hhHHHHHHHHHhhhccC------c-EEEEEcCCceEEeecCCCCCCCCCcHHHhh--h
Confidence            679999999987          66777777777776432      2 44444443            4467778877  7


Q ss_pred             cceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHh
Q 013506          185 FDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTME  263 (441)
Q Consensus       185 ~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e  263 (441)
                      +. ++...+++.++..+|++..+.......+.+ +..+.......+.+..-.++..+...+.++...        .+..+
T Consensus       350 ~l-II~t~py~~~d~~~IL~iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk~~--------~v~~~  420 (454)
T KOG2680|consen  350 ML-IISTQPYTEEDIKKILRIRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRKGK--------VVEVD  420 (454)
T ss_pred             hh-eeecccCcHHHHHHHHHhhhhhhccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhcCc--------eeehh
Confidence            74 789999999999999999887766655544 344444444445555556666666666665432        35556


Q ss_pred             hHHhhhh
Q 013506          264 DWRHARS  270 (441)
Q Consensus       264 ~~~~~~~  270 (441)
                      |+..++.
T Consensus       421 di~r~y~  427 (454)
T KOG2680|consen  421 DIERVYR  427 (454)
T ss_pred             HHHHHHH
Confidence            6655544

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.06  E-value=7.9e-10  Score=103.47  Aligned_cols=119  Identities=20%  Similarity=0.349  Sum_probs=80.7

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc--------------
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS--------------  351 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~--------------  351 (441)
                      ...|+++.|.+.+++.+...+..           + ..+..+||+||||+|||++|+.+|..+.++              
T Consensus        10 p~~~~~iig~~~~~~~l~~~~~~-----------~-~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c   77 (355)
T TIGR02397        10 PQTFEDVIGQEHIVQTLKNAIKN-----------G-RIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESC   77 (355)
T ss_pred             CCcHhhccCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHH
Confidence            34688899999999888877652           1 223457999999999999999999987543              


Q ss_pred             ----------eEEechhhhhhhccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHH
Q 013506          352 ----------FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTL  417 (441)
Q Consensus       352 ----------~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~l  417 (441)
                                ++.+++.+      ......++.+++.+..    ....|++|||+|.+.              ....+.|
T Consensus        78 ~~~~~~~~~~~~~~~~~~------~~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~--------------~~~~~~L  137 (355)
T TIGR02397        78 KEINSGSSLDVIEIDAAS------NNGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLS--------------KSAFNAL  137 (355)
T ss_pred             HHHhcCCCCCEEEeeccc------cCCHHHHHHHHHHHhcCcccCCceEEEEeChhhcC--------------HHHHHHH
Confidence                      22222211      1233456777777643    234599999999873              2567899


Q ss_pred             HHHhcCCCCCCeEEEEeee
Q 013506          418 LTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       418 l~~l~~~~~~~~v~~~~~~  436 (441)
                      |+.|+..+....+|+.+.+
T Consensus       138 l~~le~~~~~~~lIl~~~~  156 (355)
T TIGR02397       138 LKTLEEPPEHVVFILATTE  156 (355)
T ss_pred             HHHHhCCccceeEEEEeCC
Confidence            9999875554444444433

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.

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.06  E-value=1.6e-09  Score=99.55  Aligned_cols=122  Identities=19%  Similarity=0.148  Sum_probs=78.1

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhcc
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYV  365 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~  365 (441)
                      +..++++.+.+.+++.+...+..           + ..+..++|+||||+|||++|+++++..+.+++.++.++  .. +
T Consensus        17 P~~~~~~~~~~~~~~~l~~~~~~-----------~-~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~--~~-~   81 (316)
T PHA02544         17 PSTIDECILPAADKETFKSIVKK-----------G-RIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSD--CR-I   81 (316)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhc-----------C-CCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCc--cc-H
Confidence            34678889999998888877652           1 12234555899999999999999999998898888876  21 2


Q ss_pred             CchHHHHHHHHHHHH-hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          366 GESEALLRNTFQRAR-LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       366 g~~~~~~~~~~~~a~-~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ......+........ ...+.++||||+|.+..             ....+.|.+.|+...... .+|+++|
T Consensus        82 ~~i~~~l~~~~~~~~~~~~~~vliiDe~d~l~~-------------~~~~~~L~~~le~~~~~~-~~Ilt~n  139 (316)
T PHA02544         82 DFVRNRLTRFASTVSLTGGGKVIIIDEFDRLGL-------------ADAQRHLRSFMEAYSKNC-SFIITAN  139 (316)
T ss_pred             HHHHHHHHHHHHhhcccCCCeEEEEECcccccC-------------HHHHHHHHHHHHhcCCCc-eEEEEcC
Confidence            222222332222221 13567999999998731             123345555677655444 4555554

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.06  E-value=2.2e-09  Score=99.77  Aligned_cols=123  Identities=21%  Similarity=0.294  Sum_probs=78.8

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcC-----CceEEechhhhh
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE-----ASFFSLSGAELY  361 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~-----~~~~~i~~~~~~  361 (441)
                      ..++++.|.+.+.+.+..++..           +  ...+++|+||||||||++|+++++.+.     .+++.++.+++.
T Consensus        12 ~~~~~~~g~~~~~~~L~~~~~~-----------~--~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~   78 (337)
T PRK12402         12 ALLEDILGQDEVVERLSRAVDS-----------P--NLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFF   78 (337)
T ss_pred             CcHHHhcCCHHHHHHHHHHHhC-----------C--CCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhh
Confidence            3567788888888888776642           1  123799999999999999999999874     346777877654


Q ss_pred             hhc-------------cCc-------hHHHHHHHHHHHHh-----cCCeEEEEecccccccccCCCCCCCcchhhHHHHH
Q 013506          362 SMY-------------VGE-------SEALLRNTFQRARL-----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLST  416 (441)
Q Consensus       362 ~~~-------------~g~-------~~~~~~~~~~~a~~-----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~  416 (441)
                      ...             .+.       ....++.+.+....     ..+.+|||||++.+..              ...+.
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~--------------~~~~~  144 (337)
T PRK12402         79 DQGKKYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALRE--------------DAQQA  144 (337)
T ss_pred             hcchhhhhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCH--------------HHHHH
Confidence            321             011       12233444333322     2346999999998742              33566


Q ss_pred             HHHHhcCCCCCCeEEEEeee
Q 013506          417 LLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       417 ll~~l~~~~~~~~v~~~~~~  436 (441)
                      |+..|+......++|+.+++
T Consensus       145 L~~~le~~~~~~~~Il~~~~  164 (337)
T PRK12402        145 LRRIMEQYSRTCRFIIATRQ  164 (337)
T ss_pred             HHHHHHhccCCCeEEEEeCC
Confidence            77777776655555554443

>smart00350 MCM minichromosome maintenance proteins

Probab=99.06  E-value=9e-10  Score=106.81  Aligned_cols=173  Identities=20%  Similarity=0.243  Sum_probs=99.3

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEE----ccCccccccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI----SPHSVHKAHV   94 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v----~~~~~~~~~~   94 (441)
                      ..+.|++.+|..+.-.+..-.. ........+...-|+||+|+||||||++++.++.......+..    ++..+.....
T Consensus       203 p~i~G~~~~k~~l~l~l~gg~~-~~~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r~~~~~~~~~~~~~l~~~~~  281 (509)
T smart00350      203 PSIYGHEDIKKAILLLLFGGVH-KNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTAAVT  281 (509)
T ss_pred             ccccCcHHHHHHHHHHHhCCCc-cccCCCccccccceEEEeCCCChhHHHHHHHHHHHcCcceEcCCCCCCcCCccccce
Confidence            3567777776666544422100 0000011122334899999999999999999998876543221    1111111000


Q ss_pred             cchHHHHHH-HHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-------CCCCCeEEEE
Q 013506           95 GESEKALRE-AFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-------KTSVPHVVVV  166 (441)
Q Consensus        95 ~~~~~~~~~-~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-------~~~~~~~~vi  166 (441)
                      ...  .... .++.  ........++++|||++.+          +...+..|+..++.....       ..-..++.+|
T Consensus       282 ~~~--~~g~~~~~~--G~l~~A~~Gil~iDEi~~l----------~~~~q~~L~e~me~~~i~i~k~G~~~~l~~~~~vi  347 (509)
T smart00350      282 RDP--ETREFTLEG--GALVLADNGVCCIDEFDKM----------DDSDRTAIHEAMEQQTISIAKAGITTTLNARCSVL  347 (509)
T ss_pred             Ecc--CcceEEecC--ccEEecCCCEEEEechhhC----------CHHHHHHHHHHHhcCEEEEEeCCEEEEecCCcEEE
Confidence            000  0000 0000  0111224679999999987          335667777777653210       1112367999


Q ss_pred             EEcCCCC-------------ccCHHHhhCCccceEE-EecCCCHHHHHHHHHHHhc
Q 013506          167 ASTNRVD-------------AIDPALRRSGRFDAEV-EVTVPTAEERFEILKLYTK  208 (441)
Q Consensus       167 ~~~~~~~-------------~l~~~l~~~~r~~~~i-~~~~p~~~~~~~il~~~~~  208 (441)
                      +++|+.+             .+++.+++  ||+..+ ..+.|+.+...+|..+.+.
T Consensus       348 Aa~NP~~g~y~~~~~~~~n~~l~~~lLs--RFdLi~~~~d~~~~~~d~~i~~~i~~  401 (509)
T smart00350      348 AAANPIGGRYDPKLTPEENIDLPAPILS--RFDLLFVVLDEVDEERDRELAKHVVD  401 (509)
T ss_pred             EEeCCCCcccCCCcChhhccCCChHHhC--ceeeEEEecCCCChHHHHHHHHHHHH
Confidence            9999863             58899999  997654 4578888888888887654

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=99.05  E-value=1.1e-08  Score=98.91  Aligned_cols=78  Identities=19%  Similarity=0.090  Sum_probs=54.0

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhc------cC----------------------c
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMY------VG----------------------E  367 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~------~g----------------------~  367 (441)
                      -|+.++..+|+.||||+|||+++..++...   |.+++.+...+-...+      .|                      .
T Consensus       258 GG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~eEs~~~i~~~~~~lg~~~~~~~~~g~l~~~~~~p~~~~  337 (484)
T TIGR02655       258 GGFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFAYEESRAQLLRNAYSWGIDFEEMEQQGLLKIICAYPESAG  337 (484)
T ss_pred             CCccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCHHHHHHHHHHcCCChHHHhhCCcEEEEEcccccCC
Confidence            378888889999999999999998887644   4455555432211110      00                      1


Q ss_pred             hHHHHHHHHHHHHhcCCeEEEEecccccc
Q 013506          368 SEALLRNTFQRARLAAPSIIFFDEADVVG  396 (441)
Q Consensus       368 ~~~~~~~~~~~a~~~~~~vl~iDE~d~~~  396 (441)
                      .+..+..+.+.+....+.+++||-+-.+.
T Consensus       338 ~~~~~~~i~~~i~~~~~~~vvIDsi~~~~  366 (484)
T TIGR02655       338 LEDHLQIIKSEIADFKPARIAIDSLSALA  366 (484)
T ss_pred             hHHHHHHHHHHHHHcCCCEEEEcCHHHHH
Confidence            14566777777777788899999888764

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.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=99.04  E-value=3.3e-09  Score=96.99  Aligned_cols=196  Identities=12%  Similarity=0.175  Sum_probs=115.1

Q ss_pred             cccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccc
Q 013506           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHV   94 (441)
Q Consensus        18 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~   94 (441)
                      +++++|.....+.+.+.+...           .....+|+|+|++||||+++|+.+-...   +.+++.++|..+.....
T Consensus         5 ~~~liG~S~~~~~~~~~i~~~-----------a~~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~~~~   73 (326)
T PRK11608          5 KDNLLGEANSFLEVLEQVSRL-----------APLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLL   73 (326)
T ss_pred             cCccEECCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCHHHH
Confidence            467889888877777766441           1346789999999999999999987554   46899999987532110


Q ss_pred             cchHHHHHHHHHHH-----------HhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----CC
Q 013506           95 GESEKALREAFSQA-----------SSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KT  158 (441)
Q Consensus        95 ~~~~~~~~~~~~~~-----------~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~  158 (441)
                         .   ..+|...           ........++.|||||++.|          +...+..|+..++.....     ..
T Consensus        74 ---~---~~lfg~~~~~~~g~~~~~~g~l~~a~gGtL~l~~i~~L----------~~~~Q~~L~~~l~~~~~~~~g~~~~  137 (326)
T PRK11608         74 ---D---SELFGHEAGAFTGAQKRHPGRFERADGGTLFLDELATA----------PMLVQEKLLRVIEYGELERVGGSQP  137 (326)
T ss_pred             ---H---HHHccccccccCCcccccCCchhccCCCeEEeCChhhC----------CHHHHHHHHHHHhcCcEEeCCCCce
Confidence               0   1111110           00111223678999999988          446677888877653211     11


Q ss_pred             CCCeEEEEEEcCCC-------CccCHHHhhCCccc-eEEEecCCCH--HHHHHHHHHHhc----cCCCC--Cccc---HH
Q 013506          159 SVPHVVVVASTNRV-------DAIDPALRRSGRFD-AEVEVTVPTA--EERFEILKLYTK----KVPLD--ANVD---LE  219 (441)
Q Consensus       159 ~~~~~~vi~~~~~~-------~~l~~~l~~~~r~~-~~i~~~~p~~--~~~~~il~~~~~----~~~~~--~~~~---~~  219 (441)
                      ...++.+|++++..       ..+.+.+..  |+. ..+.+|+...  ++...++..++.    .....  ...+   +.
T Consensus       138 ~~~~~RiI~~s~~~l~~l~~~g~f~~dL~~--~l~~~~i~lPpLReR~eDI~~L~~~fl~~~~~~~~~~~~~~~s~~al~  215 (326)
T PRK11608        138 LQVNVRLVCATNADLPAMVAEGKFRADLLD--RLAFDVVQLPPLRERQSDIMLMAEHFAIQMCRELGLPLFPGFTERARE  215 (326)
T ss_pred             eeccEEEEEeCchhHHHHHHcCCchHHHHH--hcCCCEEECCChhhhhhhHHHHHHHHHHHHHHHhCCCCCCCCCHHHHH
Confidence            12257788877653       245566665  663 3455555432  233334444432    22211  1122   45


Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHH
Q 013506          220 AIATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       220 ~l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                      .+.......+-++++++++.++.
T Consensus       216 ~L~~y~WPGNvrEL~~vl~~a~~  238 (326)
T PRK11608        216 TLLNYRWPGNIRELKNVVERSVY  238 (326)
T ss_pred             HHHhCCCCcHHHHHHHHHHHHHH
Confidence            55555555677888888887764

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=99.04  E-value=1.1e-08  Score=102.25  Aligned_cols=30  Identities=23%  Similarity=0.294  Sum_probs=26.8

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.+.++..+.|+||+|+|||||++.+++.+
T Consensus        22 ~~i~~Ge~v~LvG~NGsGKSTLLkiL~G~~   51 (638)
T PRK10636         22 ATINPGQKVGLVGKNGCGKSTLLALLKNEI   51 (638)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            346788999999999999999999999875

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=99.04  E-value=1.2e-08  Score=92.60  Aligned_cols=137  Identities=21%  Similarity=0.338  Sum_probs=97.3

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHhCCc-------------------------EEEEccCcccc--------------
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAH-------------------------LTVISPHSVHK--------------   91 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~-------------------------~~~v~~~~~~~--------------   91 (441)
                      +-++.+||+||+|+||+++|+.+++.+...                         +..+.......              
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            356789999999999999999999877432                         11121110000              


Q ss_pred             --cc-------ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCe
Q 013506           92 --AH-------VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPH  162 (441)
Q Consensus        92 --~~-------~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  162 (441)
                        ..       -.-....++.+.+........+...|++||++|.|          .....+.|++.++.-      .++
T Consensus        99 ~~~~~k~~~~~~~I~idqiR~l~~~~~~~~~~~~~kV~iI~~ae~m----------~~~AaNaLLKtLEEP------p~~  162 (342)
T PRK06964         99 DEGGKKTKAPSKEIKIEQVRALLDFCGVGTHRGGARVVVLYPAEAL----------NVAAANALLKTLEEP------PPG  162 (342)
T ss_pred             hcccccccccccccCHHHHHHHHHHhccCCccCCceEEEEechhhc----------CHHHHHHHHHHhcCC------CcC
Confidence              00       01122345555555444444455679999999988          557889999999863      336


Q ss_pred             EEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHH
Q 013506          163 VVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLY  206 (441)
Q Consensus       163 ~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~  206 (441)
                      +++|.+|+.++.+.|.++|  |+. .+.|++|+.++..+.+...
T Consensus       163 t~fiL~t~~~~~LLpTI~S--Rcq-~i~~~~~~~~~~~~~L~~~  203 (342)
T PRK06964        163 TVFLLVSARIDRLLPTILS--RCR-QFPMTVPAPEAAAAWLAAQ  203 (342)
T ss_pred             cEEEEEECChhhCcHHHHh--cCE-EEEecCCCHHHHHHHHHHc
Confidence            7888899999999999999  885 8999999999998888653

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=99.03  E-value=8.5e-09  Score=93.23  Aligned_cols=168  Identities=23%  Similarity=0.306  Sum_probs=107.2

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccC--------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH--------   87 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~--------   87 (441)
                      -.|..++|+|..|..|--....|             .-.++|+-|+.|+||||++|+++..|+.--....+.        
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            35688999999999887553332             236899999999999999999999885322221110        


Q ss_pred             ------------------------ccccccccchHHH------HHHHHHHHHh-----hhhcCCCeEEEEccccccccCC
Q 013506           88 ------------------------SVHKAHVGESEKA------LREAFSQASS-----HALSGKPSVVFIDEIDALCPRR  132 (441)
Q Consensus        88 ------------------------~~~~~~~~~~~~~------~~~~~~~~~~-----~~~~~~~~il~iDe~~~l~~~~  132 (441)
                                              .+.....+.+..+      +.........     ........||++||++.|    
T Consensus        81 ~~~c~~c~~k~~e~~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa~AnRGIlYvDEvnlL----  156 (423)
T COG1239          81 EEMCDECRAKGDELEWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLARANRGILYVDEVNLL----  156 (423)
T ss_pred             hhhhHHHHhhccccccccccceecceecCCCccchhhhccccCHHHHHhcCccccCCcchhhccCCEEEEeccccc----
Confidence                                    0111111111110      1111111100     011123569999999987    


Q ss_pred             CCCchhhHHHHHHHHHHHhcCC-------CCCCCCCeEEEEEEcCCCC-ccCHHHhhCCccceEEEecCC-CHHHHHHHH
Q 013506          133 DHRREQDVRIASQLFTLMDSNK-------PSKTSVPHVVVVASTNRVD-AIDPALRRSGRFDAEVEVTVP-TAEERFEIL  203 (441)
Q Consensus       133 ~~~~~~~~~~~~~l~~~~~~~~-------~~~~~~~~~~vi~~~~~~~-~l~~~l~~~~r~~~~i~~~~p-~~~~~~~il  203 (441)
                            +...+..|++.+....       .......++++|+|+|+.+ .|-|.++.  ||...+....| +.+++.+|.
T Consensus       157 ------~d~lvd~LLd~aaeG~n~vereGisi~hpa~fvligTmNPEeGeLrpqLlD--Rfg~~v~~~~~~~~~~rv~Ii  228 (423)
T COG1239         157 ------DDHLVDALLDVAAEGVNDVEREGISIRHPARFLLIGTMNPEEGELRPQLLD--RFGLEVDTHYPLDLEERVEII  228 (423)
T ss_pred             ------cHHHHHHHHHHHHhCCceeeeCceeeccCccEEEEeecCccccccchhhHh--hhcceeeccCCCCHHHHHHHH
Confidence                  4467788888776521       1223345799999999965 78899998  99988887666 677888888


Q ss_pred             HHHhc
Q 013506          204 KLYTK  208 (441)
Q Consensus       204 ~~~~~  208 (441)
                      .....
T Consensus       229 ~r~~~  233 (423)
T COG1239         229 RRRLA  233 (423)
T ss_pred             HHHHH
Confidence            76554

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.03  E-value=2.3e-09  Score=100.46  Aligned_cols=123  Identities=20%  Similarity=0.312  Sum_probs=80.7

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhh----hh
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAE----LY  361 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~----~~  361 (441)
                      +..++++.|++.+.+.+...+..           + ..+.+++|+||||+|||++|+++|..+.++.......+    .+
T Consensus        13 P~~~~~iig~~~~~~~l~~~i~~-----------~-~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~   80 (367)
T PRK14970         13 PQTFDDVVGQSHITNTLLNAIEN-----------N-HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIF   80 (367)
T ss_pred             CCcHHhcCCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceE
Confidence            34688899999998888877753           1 23457899999999999999999998865321111000    00


Q ss_pred             --hhccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEee
Q 013506          362 --SMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPIS  435 (441)
Q Consensus       362 --~~~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~  435 (441)
                        +.........++.+++.+..    ..+.++|+||+|.+.              ...++.|++.|+..+.. .++|+++
T Consensus        81 ~l~~~~~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~--------------~~~~~~ll~~le~~~~~-~~~Il~~  145 (367)
T PRK14970         81 ELDAASNNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLS--------------SAAFNAFLKTLEEPPAH-AIFILAT  145 (367)
T ss_pred             EeccccCCCHHHHHHHHHHHhhccccCCcEEEEEeChhhcC--------------HHHHHHHHHHHhCCCCc-eEEEEEe
Confidence              00011224567777776643    345699999999774              24578999999875444 4444444

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=99.02  E-value=3.4e-09  Score=85.22  Aligned_cols=74  Identities=38%  Similarity=0.601  Sum_probs=50.7

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCc---EEEEccCccccccc--------------cchHHHHHHHHHHHHhhhhcC
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAH---LTVISPHSVHKAHV--------------GESEKALREAFSQASSHALSG  115 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~---~~~v~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~  115 (441)
                      +.+++|+||||||||++++.++..+...   ++.+++........              ..........+..+...    
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----   77 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKL----   77 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhc----
Confidence            4689999999999999999999998775   77777665432211              12223333444444322    


Q ss_pred             CCeEEEEcccccccc
Q 013506          116 KPSVVFIDEIDALCP  130 (441)
Q Consensus       116 ~~~il~iDe~~~l~~  130 (441)
                      .+.++++||++.+..
T Consensus        78 ~~~viiiDei~~~~~   92 (148)
T smart00382       78 KPDVLILDEITSLLD   92 (148)
T ss_pred             CCCEEEEECCcccCC
Confidence            368999999988753

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.

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=99.02  E-value=1.6e-08  Score=99.66  Aligned_cols=30  Identities=17%  Similarity=0.260  Sum_probs=26.8

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.+.++..+.|+||+|+|||||++.+++.+
T Consensus        22 l~i~~Ge~~~liG~NGsGKSTLl~~l~Gl~   51 (530)
T PRK15064         22 VKFGGGNRYGLIGANGCGKSTFMKILGGDL   51 (530)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            346788999999999999999999999875

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=99.01  E-value=1.2e-08  Score=100.34  Aligned_cols=51  Identities=27%  Similarity=0.416  Sum_probs=43.5

Q ss_pred             ccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc
Q 013506           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH   80 (441)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~   80 (441)
                      ..-+++++|++++++.+...+..               +++++|+||||||||++++.+++.++..
T Consensus        14 ~~~~~~viG~~~a~~~l~~a~~~---------------~~~~ll~G~pG~GKT~la~~la~~l~~~   64 (608)
T TIGR00764        14 ERLIDQVIGQEEAVEIIKKAAKQ---------------KRNVLLIGEPGVGKSMLAKAMAELLPDE   64 (608)
T ss_pred             hhhHhhccCHHHHHHHHHHHHHc---------------CCCEEEECCCCCCHHHHHHHHHHHcCch
Confidence            34568999999999999987743               3589999999999999999999998654

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=99.01  E-value=2.9e-09  Score=106.15  Aligned_cols=111  Identities=29%  Similarity=0.351  Sum_probs=71.7

Q ss_pred             cccccccCchhHHH---HHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh
Q 013506          287 VTWEDIGGLRDLKK---KLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (441)
Q Consensus       287 ~~~~~i~g~~~~k~---~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~  363 (441)
                      .+++++.|++.+..   .+...+..             ....+++|+|||||||||+|+++|...+..++.++.+..   
T Consensus        25 ~tldd~vGQe~ii~~~~~L~~~i~~-------------~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~~~---   88 (725)
T PRK13341         25 RTLEEFVGQDHILGEGRLLRRAIKA-------------DRVGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAVLA---   88 (725)
T ss_pred             CcHHHhcCcHHHhhhhHHHHHHHhc-------------CCCceEEEECCCCCCHHHHHHHHHHHhcCcceeehhhhh---
Confidence            45677778776653   34443321             223479999999999999999999999988888876431   


Q ss_pred             ccCchHHHHHHHHHHHH-----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEee
Q 013506          364 YVGESEALLRNTFQRAR-----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPIS  435 (441)
Q Consensus       364 ~~g~~~~~~~~~~~~a~-----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~  435 (441)
                          ..+.++.++..+.     .....+|||||||.+..              ...+.|+..+++    +.++++++
T Consensus        89 ----~i~dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~--------------~qQdaLL~~lE~----g~IiLI~a  143 (725)
T PRK13341         89 ----GVKDLRAEVDRAKERLERHGKRTILFIDEVHRFNK--------------AQQDALLPWVEN----GTITLIGA  143 (725)
T ss_pred             ----hhHHHHHHHHHHHHHhhhcCCceEEEEeChhhCCH--------------HHHHHHHHHhcC----ceEEEEEe
Confidence                1123333333331     13456999999998742              234667777753    34555544

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=99.01  E-value=1.8e-08  Score=101.11  Aligned_cols=30  Identities=27%  Similarity=0.419  Sum_probs=26.8

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.+.++..+.|+||+|+|||||++++++..
T Consensus        24 ~~i~~Ge~v~LvG~NGsGKSTLLriiaG~~   53 (635)
T PRK11147         24 LHIEDNERVCLVGRNGAGKSTLMKILNGEV   53 (635)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            346788999999999999999999999875

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=99.00  E-value=4.2e-08  Score=88.21  Aligned_cols=149  Identities=19%  Similarity=0.241  Sum_probs=104.4

Q ss_pred             chHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc----------------------
Q 013506           23 GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH----------------------   80 (441)
Q Consensus        23 G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~----------------------   80 (441)
                      .+....+.|.+.+...            +-++.+||+||.|+||+++|+.++..+...                      
T Consensus         7 Wl~~~~~~l~~~~~~~------------rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HP   74 (319)
T PRK06090          7 WLVPVWQNWKAGLDAG------------RIPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHP   74 (319)
T ss_pred             cHHHHHHHHHHHHHcC------------CcceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCC
Confidence            3566777777766431            245789999999999999999999876321                      


Q ss_pred             -EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCC
Q 013506           81 -LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTS  159 (441)
Q Consensus        81 -~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  159 (441)
                       +..+....- ..  .-....++.+.+........+...|++||++|.|          .....+.|++.++.-.     
T Consensus        75 D~~~i~p~~~-~~--~I~vdqiR~l~~~~~~~~~~~~~kV~iI~~ae~m----------~~~AaNaLLKtLEEPp-----  136 (319)
T PRK06090         75 DLHVIKPEKE-GK--SITVEQIRQCNRLAQESSQLNGYRLFVIEPADAM----------NESASNALLKTLEEPA-----  136 (319)
T ss_pred             CEEEEecCcC-CC--cCCHHHHHHHHHHHhhCcccCCceEEEecchhhh----------CHHHHHHHHHHhcCCC-----
Confidence             222222110 00  1122345554444433333445679999999988          4578899999998743     


Q ss_pred             CCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHH
Q 013506          160 VPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKL  205 (441)
Q Consensus       160 ~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~  205 (441)
                       +++++|..++.++.+.|-++|  |+. .+.|++|+.++..+.+..
T Consensus       137 -~~t~fiL~t~~~~~lLpTI~S--RCq-~~~~~~~~~~~~~~~L~~  178 (319)
T PRK06090        137 -PNCLFLLVTHNQKRLLPTIVS--RCQ-QWVVTPPSTAQAMQWLKG  178 (319)
T ss_pred             -CCeEEEEEECChhhChHHHHh--cce-eEeCCCCCHHHHHHHHHH
Confidence             367888889999999999999  986 899999999998887764

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=99.00  E-value=2.6e-09  Score=97.54  Aligned_cols=203  Identities=18%  Similarity=0.194  Sum_probs=119.0

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHH---H-hCCcEEEEccCcccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVR---E-CGAHLTVISPHSVHK   91 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~---~-l~~~~~~v~~~~~~~   91 (441)
                      ..+.+++|.....+++.+-+.. +          -+.+.+||+.|++||||+.+|+.+..   . ...|++.+||..+..
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            5668899987777666665543 1          14568999999999999999998753   3 367899999988765


Q ss_pred             ccccchHHHHHHHHHHHHh-----------hhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCC-----C
Q 013506           92 AHVGESEKALREAFSQASS-----------HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK-----P  155 (441)
Q Consensus        92 ~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~-----~  155 (441)
                      .....      ++|.....           ......++.||+||++.|.          ...+..++..++...     .
T Consensus       144 n~~~~------eLFG~~kGaftGa~~~k~Glfe~A~GGtLfLDEI~~LP----------~~~Q~kLl~~le~g~~~rvG~  207 (403)
T COG1221         144 NLQEA------ELFGHEKGAFTGAQGGKAGLFEQANGGTLFLDEIHRLP----------PEGQEKLLRVLEEGEYRRVGG  207 (403)
T ss_pred             CHHHH------HHhccccceeecccCCcCchheecCCCEEehhhhhhCC----------HhHHHHHHHHHHcCceEecCC
Confidence            43221      12221110           0111235799999999884          366788888887632     2


Q ss_pred             CCCCCCeEEEEEEcCCC--CccCH--HHhhCCccceEEEecCCCHH--HHHHHHH----HHhccCCCCCccc----HHHH
Q 013506          156 SKTSVPHVVVVASTNRV--DAIDP--ALRRSGRFDAEVEVTVPTAE--ERFEILK----LYTKKVPLDANVD----LEAI  221 (441)
Q Consensus       156 ~~~~~~~~~vi~~~~~~--~~l~~--~l~~~~r~~~~i~~~~p~~~--~~~~il~----~~~~~~~~~~~~~----~~~l  221 (441)
                      ......++.+|++|+..  ..+-.  .+.++ +....|.+|+..+.  ++..+++    .++.+........    ...+
T Consensus       208 ~~~~~~dVRli~AT~~~l~~~~~~g~dl~~r-l~~~~I~LPpLrER~~Di~~L~e~Fl~~~~~~l~~~~~~~~~~a~~~L  286 (403)
T COG1221         208 SQPRPVDVRLICATTEDLEEAVLAGADLTRR-LNILTITLPPLRERKEDILLLAEHFLKSEARRLGLPLSVDSPEALRAL  286 (403)
T ss_pred             CCCcCCCceeeeccccCHHHHHHhhcchhhh-hcCceecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHH
Confidence            22334567888887652  22222  33331 34344555544332  2222223    3333444332222    3333


Q ss_pred             HHHCCCCCHHHHHHHHHHHHHHHHH
Q 013506          222 ATSCNGYVGADLEALCREATMSAVK  246 (441)
Q Consensus       222 ~~~~~g~~~~~i~~l~~~a~~~~~~  246 (441)
                      ......-+-++++++++.++..+..
T Consensus       287 ~~y~~pGNirELkN~Ve~~~~~~~~  311 (403)
T COG1221         287 LAYDWPGNIRELKNLVERAVAQASG  311 (403)
T ss_pred             HhCCCCCcHHHHHHHHHHHHHHhcc
Confidence            3333445788899999988876543

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.00  E-value=3.5e-09  Score=93.85  Aligned_cols=84  Identities=23%  Similarity=0.273  Sum_probs=56.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEEechh------hhhhhccCchHHHH---------------------HHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA------ELYSMYVGESEALL---------------------RNTF  376 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~------~~~~~~~g~~~~~~---------------------~~~~  376 (441)
                      +.+++|.||||||||++|+.+|..++.+++.+++.      ++++.|.+.....+                     ..++
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            45799999999999999999999999999988653      44444432221110                     1122


Q ss_pred             HHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          377 QRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       377 ~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                      . |.. .+.+|+|||++++-+              .+.+.|+..|+.
T Consensus       101 ~-A~~-~g~~lllDEi~r~~~--------------~~q~~Ll~~Le~  131 (262)
T TIGR02640       101 L-AVR-EGFTLVYDEFTRSKP--------------ETNNVLLSVFEE  131 (262)
T ss_pred             H-HHH-cCCEEEEcchhhCCH--------------HHHHHHHHHhcC
Confidence            2 222 335999999999743              455666666653

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).

>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=98.99  E-value=2.2e-09  Score=87.68  Aligned_cols=124  Identities=23%  Similarity=0.322  Sum_probs=75.5

Q ss_pred             ccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccch
Q 013506           21 IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGES   97 (441)
Q Consensus        21 i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~~   97 (441)
                      |+|.....+.+.+.+...           ...+.+|+|+|++||||+.+|+++-+..   +.+|+.++|..+....    
T Consensus         1 liG~s~~m~~~~~~~~~~-----------a~~~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~----   65 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRA-----------ASSDLPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEEL----   65 (168)
T ss_dssp             SS--SHHHHHHHHHHHHH-----------TTSTS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHH----
T ss_pred             CEeCCHHHHHHHHHHHHH-----------hCCCCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcch----
Confidence            466666666666655431           1245899999999999999999998754   4689999998763221    


Q ss_pred             HHHHHHHHHHHH-----------hhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCC-----CCCCCC
Q 013506           98 EKALREAFSQAS-----------SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP-----SKTSVP  161 (441)
Q Consensus        98 ~~~~~~~~~~~~-----------~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~-----~~~~~~  161 (441)
                        .-..+|....           ........+.|||||++.|          +...+..|+..++....     ......
T Consensus        66 --~e~~LFG~~~~~~~~~~~~~~G~l~~A~~GtL~Ld~I~~L----------~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~  133 (168)
T PF00158_consen   66 --LESELFGHEKGAFTGARSDKKGLLEQANGGTLFLDEIEDL----------PPELQAKLLRVLEEGKFTRLGSDKPVPV  133 (168)
T ss_dssp             --HHHHHHEBCSSSSTTTSSEBEHHHHHTTTSEEEEETGGGS-----------HHHHHHHHHHHHHSEEECCTSSSEEE-
T ss_pred             --hhhhhhccccccccccccccCCceeeccceEEeecchhhh----------HHHHHHHHHHHHhhchhccccccccccc
Confidence              1112222110           0111123679999999988          55788888888875321     111224


Q ss_pred             eEEEEEEcCC
Q 013506          162 HVVVVASTNR  171 (441)
Q Consensus       162 ~~~vi~~~~~  171 (441)
                      ++.+|++|+.
T Consensus       134 ~~RiI~st~~  143 (168)
T PF00158_consen  134 DVRIIASTSK  143 (168)
T ss_dssp             -EEEEEEESS
T ss_pred             cceEEeecCc
Confidence            6888888886

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 ....

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=98.99  E-value=5e-08  Score=93.09  Aligned_cols=206  Identities=21%  Similarity=0.241  Sum_probs=117.9

Q ss_pred             cccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC----------CcEEEEccCcc
Q 013506           20 AIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG----------AHLTVISPHSV   89 (441)
Q Consensus        20 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~----------~~~~~v~~~~~   89 (441)
                      .+.+.|..++.|..++...+.-        -..+..+++.|-||||||..++.+.+.|.          ..++++|+-.+
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 SLPCRENEFSEIEDFLRSFISD--------QGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRL  468 (767)
T ss_pred             cccchhHHHHHHHHHHHhhcCC--------CCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceee
Confidence            4566666677777666542221        01245899999999999999999988663          35677887665


Q ss_pred             ccccc----------cch---HHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC
Q 013506           90 HKAHV----------GES---EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS  156 (441)
Q Consensus        90 ~~~~~----------~~~---~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~  156 (441)
                      .+...          ++.   ...+..+-...........++|++|||+|.|+...       ++++..++.+-..    
T Consensus       469 ~~~~~~Y~~I~~~lsg~~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~-------QdVlYn~fdWpt~----  537 (767)
T KOG1514|consen  469 ASPREIYEKIWEALSGERVTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRS-------QDVLYNIFDWPTL----  537 (767)
T ss_pred             cCHHHHHHHHHHhcccCcccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhccc-------HHHHHHHhcCCcC----
Confidence            44210          000   01111111111111223457899999999986422       2344444443222    


Q ss_pred             CCCCCeEEEEEEcCCCCc----cCHHHhhCCccc-eEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCC--C
Q 013506          157 KTSVPHVVVVASTNRVDA----IDPALRRSGRFD-AEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGY--V  229 (441)
Q Consensus       157 ~~~~~~~~vi~~~~~~~~----l~~~l~~~~r~~-~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~--~  229 (441)
                        ...+++||+.+|..+.    +..+..+  |.. ..+.|.+++..++++|+...+.....-.+.-.+.+++.....  .
T Consensus       538 --~~sKLvvi~IaNTmdlPEr~l~nrvsS--Rlg~tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGD  613 (767)
T KOG1514|consen  538 --KNSKLVVIAIANTMDLPERLLMNRVSS--RLGLTRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGD  613 (767)
T ss_pred             --CCCceEEEEecccccCHHHHhccchhh--hccceeeecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhcccc
Confidence              2236888888887652    3334444  443 468999999999999999988876333222234444433222  2


Q ss_pred             HHHHHHHHHHHHHHHHHhc
Q 013506          230 GADLEALCREATMSAVKRS  248 (441)
Q Consensus       230 ~~~i~~l~~~a~~~~~~~~  248 (441)
                      .+....+|++|...+..+.
T Consensus       614 aRraldic~RA~Eia~~~~  632 (767)
T KOG1514|consen  614 ARRALDICRRAAEIAEERN  632 (767)
T ss_pred             HHHHHHHHHHHHHHhhhhc
Confidence            2333455666655554443

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=98.98  E-value=5e-08  Score=88.93  Aligned_cols=156  Identities=20%  Similarity=0.214  Sum_probs=107.2

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCc------------------------EEEEccCccccccccchHHHHHHHHHH
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAH------------------------LTVISPHSVHKAHVGESEKALREAFSQ  107 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~------------------------~~~v~~~~~~~~~~~~~~~~~~~~~~~  107 (441)
                      -++.+||+||+|+||+++|..+|..+...                        +..+....-   ...-....++.+.+.
T Consensus        23 l~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~---~~~I~idqiR~l~~~   99 (334)
T PRK07993         23 GHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKG---KSSLGVDAVREVTEK   99 (334)
T ss_pred             cceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccc---cccCCHHHHHHHHHH
Confidence            45789999999999999999999887321                        122211100   011234456666666


Q ss_pred             HHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccce
Q 013506          108 ASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDA  187 (441)
Q Consensus       108 ~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~  187 (441)
                      .......+...|++||++|.|          .....+.|++.++.-.      +++++|.+++.++.+.|-++|  |+. 
T Consensus       100 ~~~~~~~g~~kV~iI~~ae~m----------~~~AaNaLLKtLEEPp------~~t~fiL~t~~~~~lLpTIrS--RCq-  160 (334)
T PRK07993        100 LYEHARLGGAKVVWLPDAALL----------TDAAANALLKTLEEPP------ENTWFFLACREPARLLATLRS--RCR-  160 (334)
T ss_pred             HhhccccCCceEEEEcchHhh----------CHHHHHHHHHHhcCCC------CCeEEEEEECChhhChHHHHh--ccc-
Confidence            555555566789999999988          5578899999998743      368888889999999999999  887 


Q ss_pred             EEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHH
Q 013506          188 EVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADL  233 (441)
Q Consensus       188 ~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i  233 (441)
                      .+.|++|+.++..+.+....   ... ......++..+.|-..+.+
T Consensus       161 ~~~~~~~~~~~~~~~L~~~~---~~~-~~~a~~~~~la~G~~~~Al  202 (334)
T PRK07993        161 LHYLAPPPEQYALTWLSREV---TMS-QDALLAALRLSAGAPGAAL  202 (334)
T ss_pred             cccCCCCCHHHHHHHHHHcc---CCC-HHHHHHHHHHcCCCHHHHH
Confidence            68999999998887775421   111 1123445555565444433

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=98.98  E-value=5.7e-10  Score=102.14  Aligned_cols=49  Identities=33%  Similarity=0.344  Sum_probs=42.6

Q ss_pred             ccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      ..+|.||.|++.+|+.+.-+..               .++++|++||||||||++++.+...+.
T Consensus       175 ~~D~~DV~GQ~~AKrAleiAAA---------------GgHnLl~~GpPGtGKTmla~Rl~~lLP  223 (490)
T COG0606         175 APDFKDVKGQEQAKRALEIAAA---------------GGHNLLLVGPPGTGKTMLASRLPGLLP  223 (490)
T ss_pred             CcchhhhcCcHHHHHHHHHHHh---------------cCCcEEEecCCCCchHHhhhhhcccCC
Confidence            3588999999999999997653               478999999999999999999877663

>TIGR01817 nifA Nif-specific regulatory protein

Probab=98.98  E-value=1e-08  Score=100.82  Aligned_cols=198  Identities=16%  Similarity=0.186  Sum_probs=119.5

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKA   92 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~   92 (441)
                      ..++.++|.....+.+.+.+...           .....+|+|+|++||||+++|+++....   +.+++.++|..+...
T Consensus       193 ~~~~~liG~s~~~~~~~~~~~~~-----------a~~~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~~~  261 (534)
T TIGR01817       193 GKEDGIIGKSPAMRQVVDQARVV-----------ARSNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSET  261 (534)
T ss_pred             CccCceEECCHHHHHHHHHHHHH-----------hCcCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCCHH
Confidence            46689999999888888776542           1345789999999999999999998764   468999999876321


Q ss_pred             cccchHHHHHHHHHHHH-----------hhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----
Q 013506           93 HVGESEKALREAFSQAS-----------SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----  156 (441)
Q Consensus        93 ~~~~~~~~~~~~~~~~~-----------~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----  156 (441)
                      ..      -..+|....           .......++.|||||++.|          +...+..|+..++.....     
T Consensus       262 ~~------~~~lfg~~~~~~~~~~~~~~g~~~~a~~GtL~ldei~~L----------~~~~Q~~Ll~~l~~~~~~~~~~~  325 (534)
T TIGR01817       262 LL------ESELFGHEKGAFTGAIAQRKGRFELADGGTLFLDEIGEI----------SPAFQAKLLRVLQEGEFERVGGN  325 (534)
T ss_pred             HH------HHHHcCCCCCccCCCCcCCCCcccccCCCeEEEechhhC----------CHHHHHHHHHHHhcCcEEECCCC
Confidence            10      111221110           0011234679999999988          446778888887653211     


Q ss_pred             CCCCCeEEEEEEcCCCC-------ccCHHHhhCCccc-eEEEecCCC--HHHHHHHHHHHhccC----CCCCccc---HH
Q 013506          157 KTSVPHVVVVASTNRVD-------AIDPALRRSGRFD-AEVEVTVPT--AEERFEILKLYTKKV----PLDANVD---LE  219 (441)
Q Consensus       157 ~~~~~~~~vi~~~~~~~-------~l~~~l~~~~r~~-~~i~~~~p~--~~~~~~il~~~~~~~----~~~~~~~---~~  219 (441)
                      .....++.+|++++..-       .+.+.+..  |+. ..+.+|+..  .++...++..++...    ......+   +.
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            11112467888776531       33444444  443 346666654  344445555444322    1111122   45


Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHH
Q 013506          220 AIATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       220 ~l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                      .+......-+-++++++++.+..
T Consensus       404 ~L~~~~WPGNvrEL~~v~~~a~~  426 (534)
T TIGR01817       404 VLMSCKWPGNVRELENCLERTAT  426 (534)
T ss_pred             HHHhCCCCChHHHHHHHHHHHHH
Confidence            55555555677888888887764

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.

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=98.97  E-value=1.4e-08  Score=92.22  Aligned_cols=136  Identities=21%  Similarity=0.383  Sum_probs=94.2

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHhCC-------------------------cEEEEccCcc---ccc-cccchHHHH
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGA-------------------------HLTVISPHSV---HKA-HVGESEKAL  101 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l~~-------------------------~~~~v~~~~~---~~~-~~~~~~~~~  101 (441)
                      +-++.+||+||+|+|||++|+.+++.+..                         .+++++...-   ... ...-....+
T Consensus        19 r~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~g~~~~~I~id~i   98 (325)
T PRK08699         19 RRPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPENGRKLLQIKIDAV   98 (325)
T ss_pred             CcceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccccccCCCcCHHHH
Confidence            34678999999999999999999988742                         1233332110   000 001124456


Q ss_pred             HHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhh
Q 013506          102 REAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRR  181 (441)
Q Consensus       102 ~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~  181 (441)
                      +.+.+........+...|++||+++.|          +....+.+++.++....      ++.+|.+++.++.+.+.+.+
T Consensus        99 R~l~~~~~~~p~~~~~kV~iiEp~~~L----------d~~a~naLLk~LEep~~------~~~~Ilvth~~~~ll~ti~S  162 (325)
T PRK08699         99 REIIDNVYLTSVRGGLRVILIHPAESM----------NLQAANSLLKVLEEPPP------QVVFLLVSHAADKVLPTIKS  162 (325)
T ss_pred             HHHHHHHhhCcccCCceEEEEechhhC----------CHHHHHHHHHHHHhCcC------CCEEEEEeCChHhChHHHHH
Confidence            666666555444455679999999987          55778888888887531      35566678888889899988


Q ss_pred             CCccceEEEecCCCHHHHHHHHHH
Q 013506          182 SGRFDAEVEVTVPTAEERFEILKL  205 (441)
Q Consensus       182 ~~r~~~~i~~~~p~~~~~~~il~~  205 (441)
                        |+. .+.|++|+.++..+.+..
T Consensus       163 --Rc~-~~~~~~~~~~~~~~~L~~  183 (325)
T PRK08699        163 --RCR-KMVLPAPSHEEALAYLRE  183 (325)
T ss_pred             --Hhh-hhcCCCCCHHHHHHHHHh
Confidence              885 789999999998887754

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=98.96  E-value=1.6e-08  Score=97.43  Aligned_cols=197  Identities=17%  Similarity=0.234  Sum_probs=115.9

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHH-----------hCCcEEEE
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRE-----------CGAHLTVI   84 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~-----------l~~~~~~v   84 (441)
                      ..|++++|.....+.+.+.+...           -....+|||+|++||||+++|+.+-..           -+.+|+.+
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            45788999999888888776431           124578999999999999999999765           35689999


Q ss_pred             ccCccccccccchHHHHHHHHHH-------HH-----hhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhc
Q 013506           85 SPHSVHKAHVGESEKALREAFSQ-------AS-----SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDS  152 (441)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~-------~~-----~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~  152 (441)
                      +|..+.....   +   ..+|..       +.     ........+.|||||++.|          +...+..|+..++.
T Consensus       285 nCaal~e~ll---e---seLFG~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~L----------p~~~Q~kLl~~L~e  348 (538)
T PRK15424        285 NCGAIAESLL---E---AELFGYEEGAFTGSRRGGRAGLFEIAHGGTLFLDEIGEM----------PLPLQTRLLRVLEE  348 (538)
T ss_pred             ecccCChhhH---H---HHhcCCccccccCccccccCCchhccCCCEEEEcChHhC----------CHHHHHHHHhhhhc
Confidence            9987643211   0   111211       00     0011123578999999987          44677888888865


Q ss_pred             CCC-----CCCCCCeEEEEEEcCCCC-------ccCHHHhhCCccceEEEecCCCHHHH----HHHHHHHhcc----CCC
Q 013506          153 NKP-----SKTSVPHVVVVASTNRVD-------AIDPALRRSGRFDAEVEVTVPTAEER----FEILKLYTKK----VPL  212 (441)
Q Consensus       153 ~~~-----~~~~~~~~~vi~~~~~~~-------~l~~~l~~~~r~~~~i~~~~p~~~~~----~~il~~~~~~----~~~  212 (441)
                      ...     ......++.+|++++..-       .+.+.+..  |+. .+.+..|...+|    ..++..++.+    ...
T Consensus       349 ~~~~r~G~~~~~~~dvRiIaat~~~L~~~v~~g~Fr~dL~y--rL~-~~~I~lPPLReR~eDI~~L~~~fl~~~~~~~~~  425 (538)
T PRK15424        349 KEVTRVGGHQPVPVDVRVISATHCDLEEDVRQGRFRRDLFY--RLS-ILRLQLPPLRERVADILPLAESFLKQSLAALSA  425 (538)
T ss_pred             CeEEecCCCceeccceEEEEecCCCHHHHHhcccchHHHHH--Hhc-CCeecCCChhhchhHHHHHHHHHHHHHHHHcCC
Confidence            321     111123567888887642       12233333  443 344455544444    3344454443    222


Q ss_pred             CCcccH--------HHHHHHCCCCCHHHHHHHHHHHHH
Q 013506          213 DANVDL--------EAIATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       213 ~~~~~~--------~~l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                      ......        ..+.......+-++++++++.++.
T Consensus       426 ~~~~~a~~~~~~a~~~L~~y~WPGNvREL~nvier~~i  463 (538)
T PRK15424        426 PFSAALRQGLQQCETLLLHYDWPGNVRELRNLMERLAL  463 (538)
T ss_pred             CCCHHHHHhhHHHHHHHHhCCCCchHHHHHHHHHHHHH
Confidence            211111        233333344577888888887765

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.96  E-value=4.7e-09  Score=95.91  Aligned_cols=120  Identities=14%  Similarity=0.205  Sum_probs=79.4

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc--------eEEechhh
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS--------FFSLSGAE  359 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~--------~~~i~~~~  359 (441)
                      .++++.|++.+++.+...+..           + ..+..+||+||+|+|||++|+.+|..+-+.        +..+...+
T Consensus         2 ~~~~i~g~~~~~~~l~~~~~~-----------~-~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~   69 (313)
T PRK05564          2 SFHTIIGHENIKNRIKNSIIK-----------N-RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPIN   69 (313)
T ss_pred             ChhhccCcHHHHHHHHHHHHc-----------C-CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEecccc
Confidence            367788999988888877642           1 122346899999999999999999987442        22222211


Q ss_pred             hhhhccCchHHHHHHHHHHH----HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEee
Q 013506          360 LYSMYVGESEALLRNTFQRA----RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPIS  435 (441)
Q Consensus       360 ~~~~~~g~~~~~~~~~~~~a----~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~  435 (441)
                        +.  .-..+.++.+.+.+    ..+...|++||++|++.              ....|.||+.|+..++...+|++++
T Consensus        70 --~~--~i~v~~ir~~~~~~~~~p~~~~~kv~iI~~ad~m~--------------~~a~naLLK~LEepp~~t~~il~~~  131 (313)
T PRK05564         70 --KK--SIGVDDIRNIIEEVNKKPYEGDKKVIIIYNSEKMT--------------EQAQNAFLKTIEEPPKGVFIILLCE  131 (313)
T ss_pred             --CC--CCCHHHHHHHHHHHhcCcccCCceEEEEechhhcC--------------HHHHHHHHHHhcCCCCCeEEEEEeC
Confidence              10  01234466666544    33456799999999873              3568999999998665555555554


Q ss_pred             ee
Q 013506          436 FI  437 (441)
Q Consensus       436 ~~  437 (441)
                      +.
T Consensus       132 ~~  133 (313)
T PRK05564        132 NL  133 (313)
T ss_pred             Ch
Confidence            43

>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=98.96  E-value=5.3e-09  Score=85.26  Aligned_cols=118  Identities=23%  Similarity=0.258  Sum_probs=75.6

Q ss_pred             CchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc----------------------
Q 013506          294 GLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS----------------------  351 (441)
Q Consensus       294 g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~----------------------  351 (441)
                      |++.+.+.+...+..            -..+..+||+||+|+||+++|+.+|+.+-+.                      
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            345556666655542            1223357999999999999999999987432                      


Q ss_pred             -eEEechhhhhhhccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCC
Q 013506          352 -FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ  426 (441)
Q Consensus       352 -~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~  426 (441)
                       ++.++..+..   -.-..+.++.+...+..    ....|++|||+|++.              ..+.|.||+.|+..+.
T Consensus        69 d~~~~~~~~~~---~~i~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l~--------------~~a~NaLLK~LEepp~  131 (162)
T PF13177_consen   69 DFIIIKPDKKK---KSIKIDQIREIIEFLSLSPSEGKYKVIIIDEADKLT--------------EEAQNALLKTLEEPPE  131 (162)
T ss_dssp             TEEEEETTTSS---SSBSHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS---------------HHHHHHHHHHHHSTTT
T ss_pred             ceEEEeccccc---chhhHHHHHHHHHHHHHHHhcCCceEEEeehHhhhh--------------HHHHHHHHHHhcCCCC
Confidence             2222211100   01134667777766633    456799999999984              4789999999999777


Q ss_pred             CCeEEEEeeeeeec
Q 013506          427 AKVIIYPISFIFQL  440 (441)
Q Consensus       427 ~~~v~~~~~~~~~~  440 (441)
                      ....|+++++..++
T Consensus       132 ~~~fiL~t~~~~~i  145 (162)
T PF13177_consen  132 NTYFILITNNPSKI  145 (162)
T ss_dssp             TEEEEEEES-GGGS
T ss_pred             CEEEEEEECChHHC
Confidence            77777777766543

...

>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]

Probab=98.95  E-value=4.5e-09  Score=90.91  Aligned_cols=164  Identities=18%  Similarity=0.195  Sum_probs=109.8

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcE------EEEccCcc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL------TVISPHSV   89 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~------~~v~~~~~   89 (441)
                      ..+.+++++++....++++...+             .-.|.|+|||||+|||+.+...++.+..+.      .+.++++-
T Consensus        38 ~~l~dv~~~~ei~st~~~~~~~~-------------~lPh~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lelnaSd~  104 (360)
T KOG0990|consen   38 PFLGIVIKQEPIWSTENRYSGMP-------------GLPHLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELNASDD  104 (360)
T ss_pred             chhhhHhcCCchhhHHHHhccCC-------------CCCcccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHhhccCc
Confidence            67899999999999999875442             223899999999999999999999886531      11222221


Q ss_pred             ccccccchHHHHHHHHHHHHh-hhh--cCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEE
Q 013506           90 HKAHVGESEKALREAFSQASS-HAL--SGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVV  166 (441)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~~~-~~~--~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi  166 (441)
                      ...  + ..+.-...|..... ...  ...+.++++||+|.+          ...++.+|.+..+.+..      ++.|.
T Consensus       105 rgi--d-~vr~qi~~fast~~~~~fst~~~fKlvILDEADaM----------T~~AQnALRRviek~t~------n~rF~  165 (360)
T KOG0990|consen  105 RGI--D-PVRQQIHLFASTQQPTTYSTHAAFKLVILDEADAM----------TRDAQNALRRVIEKYTA------NTRFA  165 (360)
T ss_pred             cCC--c-chHHHHHHHHhhccceeccccCceeEEEecchhHh----------hHHHHHHHHHHHHHhcc------ceEEE
Confidence            111  1 11111122222221 001  124679999999987          55677777776555432      45666


Q ss_pred             EEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCC
Q 013506          167 ASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA  214 (441)
Q Consensus       167 ~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~  214 (441)
                      ..+|.+..+.|++++  ||. .+.|.+.+..+....+.++++......
T Consensus       166 ii~n~~~ki~pa~qs--Rct-rfrf~pl~~~~~~~r~shi~e~e~~~~  210 (360)
T KOG0990|consen  166 TISNPPQKIHPAQQS--RCT-RFRFAPLTMAQQTERQSHIRESEQKET  210 (360)
T ss_pred             EeccChhhcCchhhc--ccc-cCCCCCCChhhhhhHHHHHHhcchhhc
Confidence            779999999999998  886 678888888887777777776555443

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=98.95  E-value=1.1e-08  Score=86.48  Aligned_cols=124  Identities=24%  Similarity=0.341  Sum_probs=88.8

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhh
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYS  362 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~  362 (441)
                      ...++++.|.+..++.+.+....-+.        + .|..|+||+|+.|||||+++|++...+   |+.++++...++..
T Consensus        23 ~~~l~~L~Gie~Qk~~l~~Nt~~Fl~--------G-~pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L~~   93 (249)
T PF05673_consen   23 PIRLDDLIGIERQKEALIENTEQFLQ--------G-LPANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDLGD   93 (249)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHc--------C-CCCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHhcc
Confidence            45688899999999888776643222        2 366789999999999999999999877   67788888877654


Q ss_pred             hccCchHHHHHHHHHHHHh-cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC---CCCCCeEEEEeeeee
Q 013506          363 MYVGESEALLRNTFQRARL-AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG---LEQAKVIIYPISFIF  438 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~-~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~---~~~~~~v~~~~~~~~  438 (441)
                               +..+++..+. ..+-|||+|+..  |..           .+.-...|-..|||   -.+++++|.++||-.
T Consensus        94 ---------l~~l~~~l~~~~~kFIlf~DDLs--Fe~-----------~d~~yk~LKs~LeGgle~~P~NvliyATSNRR  151 (249)
T PF05673_consen   94 ---------LPELLDLLRDRPYKFILFCDDLS--FEE-----------GDTEYKALKSVLEGGLEARPDNVLIYATSNRR  151 (249)
T ss_pred             ---------HHHHHHHHhcCCCCEEEEecCCC--CCC-----------CcHHHHHHHHHhcCccccCCCcEEEEEecchh
Confidence                     4556666543 334599999754  311           12335777777777   455788999999875


Q ss_pred             ec
Q 013506          439 QL  440 (441)
Q Consensus       439 ~~  440 (441)
                      .|
T Consensus       152 HL  153 (249)
T PF05673_consen  152 HL  153 (249)
T ss_pred             hc
Confidence            54

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=98.95  E-value=3.2e-09  Score=92.26  Aligned_cols=69  Identities=25%  Similarity=0.299  Sum_probs=47.0

Q ss_pred             cccCchhHHHHHHHHHhcccCCchhhhhc-CCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhh
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRL-GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAE  359 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~-~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~  359 (441)
                      .+.|+.+.|+.+.-.+.....+.+.-..+ .--.|.++|.+||+|+|||.+||-+|...+.||+.+..+.
T Consensus        16 yIIGQ~~AKkaVAIALRNR~RR~qL~~~lr~EV~PKNILMIGpTGVGKTEIARRLAkl~~aPFiKVEATK   85 (444)
T COG1220          16 YIIGQDEAKKAVAIALRNRWRRMQLEEELRDEVTPKNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATK   85 (444)
T ss_pred             HhcCcHHHHHHHHHHHHHHHHHHhcCHHHhhccCccceEEECCCCCcHHHHHHHHHHHhCCCeEEEEeee
Confidence            46788888888876654311111110000 0113679999999999999999999999998877666544

>PRK09862 putative ATP-dependent protease; Provisional

Probab=98.93  E-value=3.8e-09  Score=100.50  Aligned_cols=153  Identities=22%  Similarity=0.263  Sum_probs=94.9

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc----EEEEccC----
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH----LTVISPH----   87 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~----~~~v~~~----   87 (441)
                      .++.++.|++.+++.+.-.               ...+++++|+||||||||++++.++..+...    .+.+..-    
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            4778888988877765422               2467899999999999999999999876421    1221110    


Q ss_pred             ------------ccccccccchHHHHHHHHHH----HHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           88 ------------SVHKAHVGESEKALREAFSQ----ASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        88 ------------~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                                  -+...+...+   ...++..    ...........+||+||++.+          +...+..|.+.++
T Consensus       253 g~~~~~~~~~~rPfr~ph~~~s---~~~l~GGg~~~~pG~l~~A~gGvLfLDEi~e~----------~~~~~~~L~~~LE  319 (506)
T PRK09862        253 NAESVQKQWRQRPFRSPHHSAS---LTAMVGGGAIPGPGEISLAHNGVLFLDELPEF----------ERRTLDALREPIE  319 (506)
T ss_pred             ccccccCCcCCCCccCCCccch---HHHHhCCCceehhhHhhhccCCEEecCCchhC----------CHHHHHHHHHHHH
Confidence                        0111111111   1111110    000111223579999999865          4467777887775


Q ss_pred             cCCC-------CCCCCCeEEEEEEcCCCC---------------------ccCHHHhhCCccceEEEecCCCHHH
Q 013506          152 SNKP-------SKTSVPHVVVVASTNRVD---------------------AIDPALRRSGRFDAEVEVTVPTAEE  198 (441)
Q Consensus       152 ~~~~-------~~~~~~~~~vi~~~~~~~---------------------~l~~~l~~~~r~~~~i~~~~p~~~~  198 (441)
                      ....       ......++.+|+++|+..                     .++..++.  ||+..+.++.++.++
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            5332       112245689999999852                     36678888  999999999998773

>PF12780 AAA_8: P-loop containing dynein motor region D4; InterPro: IPR024317 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases

Probab=98.93  E-value=9.3e-10  Score=96.55  Aligned_cols=85  Identities=25%  Similarity=0.397  Sum_probs=72.7

Q ss_pred             cccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCchHHHHHHHHHHHHhc-CCeE
Q 013506          308 WPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLA-APSI  386 (441)
Q Consensus       308 ~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~-~~~v  386 (441)
                      .++.|..++.|+..+|++|+||+|.+||||+|++|+.|.+.++.++++..+..++  ..++.++++.++.+|+.. .+.|
T Consensus        15 ~ai~hi~ri~RvL~~~~Gh~LLvG~~GsGr~sl~rLaa~i~~~~~~~i~~~~~y~--~~~f~~dLk~~~~~ag~~~~~~v   92 (268)
T PF12780_consen   15 EAIEHIARISRVLSQPRGHALLVGVGGSGRQSLARLAAFICGYEVFQIEITKGYS--IKDFKEDLKKALQKAGIKGKPTV   92 (268)
T ss_dssp             HHHHHHHHHHHHHCSTTEEEEEECTTTSCHHHHHHHHHHHTTEEEE-TTTSTTTH--HHHHHHHHHHHHHHHHCS-S-EE
T ss_pred             HHHHHHHHHHHHHcCCCCCeEEecCCCccHHHHHHHHHHHhccceEEEEeeCCcC--HHHHHHHHHHHHHHHhccCCCeE
Confidence            4567778888888899999999999999999999999999999999999988777  778899999999999755 4778


Q ss_pred             EEEecccc
Q 013506          387 IFFDEADV  394 (441)
Q Consensus       387 l~iDE~d~  394 (441)
                      ++++|..-
T Consensus        93 fll~d~qi  100 (268)
T PF12780_consen   93 FLLTDSQI  100 (268)
T ss_dssp             EEEECCCS
T ss_pred             EEecCccc
Confidence            88887653

The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four (D1 - D4) correspond to the ATP binding sites with P-loop signatures described previously, and two (D5, D6) are modules in which the P loop has been lost in evolution. This particular entry represents the D4 ATP-binding domain of the motor [].; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=98.93  E-value=2.4e-08  Score=101.13  Aligned_cols=196  Identities=19%  Similarity=0.274  Sum_probs=117.4

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKA   92 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~   92 (441)
                      ..+++++|.....+.+.+.+...           .....+|+|+|++|||||++|+.+....   +.+++.++|..+...
T Consensus       373 ~~~~~liG~S~~~~~~~~~~~~~-----------a~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~~~  441 (686)
T PRK15429        373 SEFGEIIGRSEAMYSVLKQVEMV-----------AQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAG  441 (686)
T ss_pred             ccccceeecCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCChh
Confidence            35678999988888887766431           1245689999999999999999997654   468999998765321


Q ss_pred             c-----ccc--------hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCC----
Q 013506           93 H-----VGE--------SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP----  155 (441)
Q Consensus        93 ~-----~~~--------~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~----  155 (441)
                      .     .+.        ..... ..+.       ...++.|||||++.+          +...+..|+..++....    
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     010        00000 1111       123679999999987          44677888888765321    


Q ss_pred             -CCCCCCeEEEEEEcCCCC-------ccCHHHhhCCccceEEEecCCCHHHHHH----HHHHHhcc----CCCC----Cc
Q 013506          156 -SKTSVPHVVVVASTNRVD-------AIDPALRRSGRFDAEVEVTVPTAEERFE----ILKLYTKK----VPLD----AN  215 (441)
Q Consensus       156 -~~~~~~~~~vi~~~~~~~-------~l~~~l~~~~r~~~~i~~~~p~~~~~~~----il~~~~~~----~~~~----~~  215 (441)
                       ......++.+|++++..-       .+.+.+..  |+. .+.+..|...+|.+    ++..++.+    ....    ..
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             111123678888887642       23333433  443 34455555554433    34433322    2211    11


Q ss_pred             ccHHHHHHHCCCCCHHHHHHHHHHHHHH
Q 013506          216 VDLEAIATSCNGYVGADLEALCREATMS  243 (441)
Q Consensus       216 ~~~~~l~~~~~g~~~~~i~~l~~~a~~~  243 (441)
                      ..++.+.......+-++++++++.+...
T Consensus       581 ~al~~L~~y~WPGNvrEL~~~i~~a~~~  608 (686)
T PRK15429        581 ETLRTLSNMEWPGNVRELENVIERAVLL  608 (686)
T ss_pred             HHHHHHHhCCCCCcHHHHHHHHHHHHHh
Confidence            2255555555666788888888887753

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=98.92  E-value=1.3e-08  Score=99.10  Aligned_cols=198  Identities=20%  Similarity=0.270  Sum_probs=119.2

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCcccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAH   93 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~   93 (441)
                      ...+++|.....+.+.+.+...           .....+|+|+|++||||+++|+.+....   +.+++.++|..+....
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            4578999998888888877541           1346789999999999999999998764   4689999998764321


Q ss_pred             ccchHHHHHHHHHHHH-----------hhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCC-----CC
Q 013506           94 VGESEKALREAFSQAS-----------SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP-----SK  157 (441)
Q Consensus        94 ~~~~~~~~~~~~~~~~-----------~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~-----~~  157 (441)
                      .   .   ..+|....           .......++.|||||++.|          +...+..|+..++....     ..
T Consensus       254 ~---e---~~lfG~~~g~~~ga~~~~~g~~~~a~gGtL~ldeI~~L----------~~~~Q~~Ll~~l~~~~~~~~g~~~  317 (509)
T PRK05022        254 A---E---SELFGHVKGAFTGAISNRSGKFELADGGTLFLDEIGEL----------PLALQAKLLRVLQYGEIQRVGSDR  317 (509)
T ss_pred             H---H---HHhcCccccccCCCcccCCcchhhcCCCEEEecChhhC----------CHHHHHHHHHHHhcCCEeeCCCCc
Confidence            1   0   11121100           0011223678999999988          44677888888765331     11


Q ss_pred             CCCCeEEEEEEcCCCC-------ccCHHHhhCCccceEEEecCCCHHHH----HHHHHHHhcc----CC---CC-CcccH
Q 013506          158 TSVPHVVVVASTNRVD-------AIDPALRRSGRFDAEVEVTVPTAEER----FEILKLYTKK----VP---LD-ANVDL  218 (441)
Q Consensus       158 ~~~~~~~vi~~~~~~~-------~l~~~l~~~~r~~~~i~~~~p~~~~~----~~il~~~~~~----~~---~~-~~~~~  218 (441)
                      ....++.+|++++..-       .+.+.+..  |+. .+.+..|...+|    ..++.+++.+    ..   .. ...-+
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            1223578888887642       34455544  443 334444444433    3333333322    21   11 11125


Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHHH
Q 013506          219 EAIATSCNGYVGADLEALCREATMSA  244 (441)
Q Consensus       219 ~~l~~~~~g~~~~~i~~l~~~a~~~~  244 (441)
                      ..+.......+-++++++++.++..+
T Consensus       395 ~~L~~y~WPGNvrEL~~~i~ra~~~~  420 (509)
T PRK05022        395 AALLAYDWPGNVRELEHVISRAALLA  420 (509)
T ss_pred             HHHHhCCCCCcHHHHHHHHHHHHHhc
Confidence            55555556668889999888887654

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=98.92  E-value=6e-09  Score=96.96  Aligned_cols=197  Identities=20%  Similarity=0.280  Sum_probs=119.8

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCcccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAH   93 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~   93 (441)
                      ....++|.....+++.+.+...           -+...+||++|++||||-.+|++|-..-   +.||+.+||..+....
T Consensus       139 ~~~~liG~S~am~~l~~~i~kv-----------A~s~a~VLI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~~l  207 (464)
T COG2204         139 LGGELVGESPAMQQLRRLIAKV-----------APSDASVLITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPENL  207 (464)
T ss_pred             ccCCceecCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCCcHHHHHHHHHhhCcccCCCceeeecccCCHHH
Confidence            3468999999988888877441           1245789999999999999999997654   5699999998764332


Q ss_pred             ccchHHHHHHHHHHHH-----------hhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCC-----CCC
Q 013506           94 VGESEKALREAFSQAS-----------SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK-----PSK  157 (441)
Q Consensus        94 ~~~~~~~~~~~~~~~~-----------~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~  157 (441)
                      ..      .++|....           .......++.||+|||..|          +...+..|+..+....     +..
T Consensus       208 ~E------SELFGhekGAFTGA~~~r~G~fE~A~GGTLfLDEI~~m----------pl~~Q~kLLRvLqe~~~~rvG~~~  271 (464)
T COG2204         208 LE------SELFGHEKGAFTGAITRRIGRFEQANGGTLFLDEIGEM----------PLELQVKLLRVLQEREFERVGGNK  271 (464)
T ss_pred             HH------HHhhcccccCcCCcccccCcceeEcCCceEEeeccccC----------CHHHHHHHHHHHHcCeeEecCCCc
Confidence            11      01222111           1111234679999999877          5578888888886532     222


Q ss_pred             CCCCeEEEEEEcCCCC-------ccCHHHhhCCccceEEEecCCCHHHHHH----HHHHHhc----cCCC-CCccc---H
Q 013506          158 TSVPHVVVVASTNRVD-------AIDPALRRSGRFDAEVEVTVPTAEERFE----ILKLYTK----KVPL-DANVD---L  218 (441)
Q Consensus       158 ~~~~~~~vi~~~~~~~-------~l~~~l~~~~r~~~~i~~~~p~~~~~~~----il~~~~~----~~~~-~~~~~---~  218 (441)
                      .-..++.||++||..-       .+-+.+--  |+. ++.+..|...+|.+    ++.+++.    .... ....+   +
T Consensus       272 ~i~vdvRiIaaT~~dL~~~v~~G~FReDLyy--RLn-V~~i~iPpLRER~EDIp~L~~hfl~~~~~~~~~~~~~~s~~a~  348 (464)
T COG2204         272 PIKVDVRIIAATNRDLEEEVAAGRFREDLYY--RLN-VVPLRLPPLRERKEDIPLLAEHFLKRFAAELGRPPKGFSPEAL  348 (464)
T ss_pred             ccceeeEEEeecCcCHHHHHHcCCcHHHHHh--hhc-cceecCCcccccchhHHHHHHHHHHHHHHHcCCCCCCCCHHHH
Confidence            2334689999998742       23334433  443 56666666655543    3333333    2322 12223   3


Q ss_pred             HHHHHHCCCCCHHHHHHHHHHHHHH
Q 013506          219 EAIATSCNGYVGADLEALCREATMS  243 (441)
Q Consensus       219 ~~l~~~~~g~~~~~i~~l~~~a~~~  243 (441)
                      ..+......-+-++++++++.++..
T Consensus       349 ~~L~~y~WPGNVREL~N~ver~~il  373 (464)
T COG2204         349 AALLAYDWPGNVRELENVVERAVIL  373 (464)
T ss_pred             HHHHhCCCChHHHHHHHHHHHHHhc
Confidence            3333333444667777777776644

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=98.92  E-value=2.5e-09  Score=88.03  Aligned_cols=93  Identities=25%  Similarity=0.391  Sum_probs=65.0

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC-----ceEEechhhhhh
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA-----SFFSLSGAELYS  362 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~-----~~~~i~~~~~~~  362 (441)
                      .+.+++|.++..+.+.-....           +..|  |+++.||||+||||.+..+|+.+-.     .+++++.|+-.+
T Consensus        25 ~l~dIVGNe~tv~rl~via~~-----------gnmP--~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRG   91 (333)
T KOG0991|consen   25 VLQDIVGNEDTVERLSVIAKE-----------GNMP--NLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERG   91 (333)
T ss_pred             HHHHhhCCHHHHHHHHHHHHc-----------CCCC--ceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccc
Confidence            466788887776665554432           3333  7999999999999999999998732     478889888766


Q ss_pred             hccCchHHHHHHHHHHHHh----cCCeEEEEecccccc
Q 013506          363 MYVGESEALLRNTFQRARL----AAPSIIFFDEADVVG  396 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~  396 (441)
                        +.--...++ .|.+-+.    +...++++||+|++.
T Consensus        92 --IDvVRn~IK-~FAQ~kv~lp~grhKIiILDEADSMT  126 (333)
T KOG0991|consen   92 --IDVVRNKIK-MFAQKKVTLPPGRHKIIILDEADSMT  126 (333)
T ss_pred             --cHHHHHHHH-HHHHhhccCCCCceeEEEeeccchhh
Confidence              544444454 4444332    233599999999985

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.92  E-value=8.5e-09  Score=101.47  Aligned_cols=117  Identities=22%  Similarity=0.328  Sum_probs=80.9

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc---------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS---------------  351 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~---------------  351 (441)
                      ..++++.|++.+.+.+...+..           + ..+..+||+||+|+|||++|+++|..+.+.               
T Consensus        14 ~~f~~viGq~~~~~~L~~~i~~-----------~-~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC   81 (614)
T PRK14971         14 STFESVVGQEALTTTLKNAIAT-----------N-KLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESC   81 (614)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHc-----------C-CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHH
Confidence            4688899999999988887753           1 122347999999999999999999988642               


Q ss_pred             ----------eEEechhhhhhhccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHH
Q 013506          352 ----------FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTL  417 (441)
Q Consensus       352 ----------~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~l  417 (441)
                                ++.+++.+      ......++.+...+..    +...|++|||+|.+.              ....+.|
T Consensus        82 ~~~~~~~~~n~~~ld~~~------~~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls--------------~~a~naL  141 (614)
T PRK14971         82 VAFNEQRSYNIHELDAAS------NNSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLS--------------QAAFNAF  141 (614)
T ss_pred             HHHhcCCCCceEEecccc------cCCHHHHHHHHHHHhhCcccCCcEEEEEECcccCC--------------HHHHHHH
Confidence                      22222211      1124567777766643    335699999999883              2568999


Q ss_pred             HHHhcCCCCCCeEEEEeee
Q 013506          418 LTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       418 l~~l~~~~~~~~v~~~~~~  436 (441)
                      |+.|+..+.. .++|++|+
T Consensus       142 LK~LEepp~~-tifIL~tt  159 (614)
T PRK14971        142 LKTLEEPPSY-AIFILATT  159 (614)
T ss_pred             HHHHhCCCCC-eEEEEEeC
Confidence            9999986554 44555443

>KOG0066 consensus eIF2-interacting protein ABC50 (ABC superfamily) [Translation, ribosomal structure and biogenesis]

Probab=98.91  E-value=3.8e-08  Score=88.71  Aligned_cols=30  Identities=30%  Similarity=0.365  Sum_probs=25.3

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +|+..-..+.++||+|+||+|+.+++...+
T Consensus       608 FGiDmdSRiaIVGPNGVGKSTlLkLL~Gkl  637 (807)
T KOG0066|consen  608 FGIDMDSRIAIVGPNGVGKSTLLKLLIGKL  637 (807)
T ss_pred             ccccccceeEEECCCCccHHHHHHHHhcCC
Confidence            455566779999999999999999997766

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=98.91  E-value=1.8e-09  Score=96.18  Aligned_cols=76  Identities=18%  Similarity=0.152  Sum_probs=55.0

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh--ccCchHHH----------HHHHHHHHHhcCCeEEE
Q 013506          321 ISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM--YVGESEAL----------LRNTFQRARLAAPSIIF  388 (441)
Q Consensus       321 ~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~--~~g~~~~~----------~~~~~~~a~~~~~~vl~  388 (441)
                      +..+++++|.||||||||++++.+|..++.+++.++.......  ++|...-.          ....+-.|. ..+.+++
T Consensus        61 l~~~~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~GpL~~A~-~~g~ill  139 (327)
T TIGR01650        61 FAYDRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDGILPWAL-QHNVALC  139 (327)
T ss_pred             HhcCCcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecCcchhHH-hCCeEEE
Confidence            3446789999999999999999999999999999987665554  34442111          112333343 3456899


Q ss_pred             Eeccccccc
Q 013506          389 FDEADVVGA  397 (441)
Q Consensus       389 iDE~d~~~~  397 (441)
                      +||++.+-|
T Consensus       140 lDEin~a~p  148 (327)
T TIGR01650       140 FDEYDAGRP  148 (327)
T ss_pred             echhhccCH
Confidence            999998854

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.

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.90  E-value=4.3e-09  Score=100.45  Aligned_cols=85  Identities=26%  Similarity=0.345  Sum_probs=62.8

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCchHHHHHHHHHHHH----hcCCeEEEEeccccccc
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGA  397 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~  397 (441)
                      ++..-+||+||||-||||||+.+|+.+|+.+++++.||-.+  .....+.+..+.+.-.    .++|.+|++||||-.. 
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkqaGYsVvEINASDeRt--~~~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa~-  400 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQAGYSVVEINASDERT--APMVKEKIENAVQNHSVLDADSRPVCLVIDEIDGAP-  400 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHhcCceEEEeccccccc--HHHHHHHHHHHHhhccccccCCCcceEEEecccCCc-
Confidence            33456789999999999999999999999999999999765  3333444444433321    2678899999999543 


Q ss_pred             ccCCCCCCCcchhhHHHHHHHHHhc
Q 013506          398 KRGGSSSTSITVGERLLSTLLTEMD  422 (441)
Q Consensus       398 ~r~~~~~~~~~~~~~~~~~ll~~l~  422 (441)
                                   ..+++.+|..+.
T Consensus       401 -------------~~~Vdvilslv~  412 (877)
T KOG1969|consen  401 -------------RAAVDVILSLVK  412 (877)
T ss_pred             -------------HHHHHHHHHHHH
Confidence                         355777776665

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=98.89  E-value=1.7e-07  Score=90.09  Aligned_cols=175  Identities=20%  Similarity=0.277  Sum_probs=99.1

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc-cCccc----
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS-PHSVH----   90 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~-~~~~~----   90 (441)
                      ..+++++-..+.+++|+.|+...+.        +..+.+-+||+||+||||||+++.+|++++..+.+-. ...+.    
T Consensus        16 ~~~~eLavhkkKv~eV~~wl~~~~~--------~~~~~~iLlLtGP~G~GKtttv~~La~elg~~v~Ew~np~~~~~~~~   87 (519)
T PF03215_consen   16 KTLDELAVHKKKVEEVRSWLEEMFS--------GSSPKRILLLTGPSGCGKTTTVKVLAKELGFEVQEWINPVSFRESDN   87 (519)
T ss_pred             CCHHHhhccHHHHHHHHHHHHHHhc--------cCCCcceEEEECCCCCCHHHHHHHHHHHhCCeeEEecCCCCcccccc
Confidence            6778999999999999999864221        2234567899999999999999999999988776542 22210    


Q ss_pred             --cccccc---------hHHHHHHH-HHHHHhhhh-------cCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           91 --KAHVGE---------SEKALREA-FSQASSHAL-------SGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        91 --~~~~~~---------~~~~~~~~-~~~~~~~~~-------~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                        ..+.+.         ......+. +........       ..++.||+|||+=.+..      .........|..++.
T Consensus        88 ~~~d~~s~~~~~~~f~sq~~~F~~f~l~~s~y~~l~~~g~~~~~~~kvILVEDlPN~~~------~~~~~f~~~L~~~l~  161 (519)
T PF03215_consen   88 QEDDFESDFNKFDEFLSQSDKFSEFLLRASKYSSLSMSGSNSSSNKKVILVEDLPNVFH------RDTSRFREALRQYLR  161 (519)
T ss_pred             ccccccccccccccccchhhhhccccccccccccccccCCCcCCCceEEEeeccccccc------hhHHHHHHHHHHHHH
Confidence              001100         00111111 111111111       13567999999743321      112233344444444


Q ss_pred             cCCCCCCCCCeEEEEEE-cCC------C--------CccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccC
Q 013506          152 SNKPSKTSVPHVVVVAS-TNR------V--------DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV  210 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~-~~~------~--------~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~  210 (441)
                      ....    .| ++||.+ +..      .        ..+++.+....+. ..|.|.+-....+.+.+...+...
T Consensus       162 ~~~~----~P-lV~iiSe~~~~~~~~~~~~~~~t~~~L~~~~il~~~~i-~~I~FNpIa~T~mkKaL~rI~~~E  229 (519)
T PF03215_consen  162 SSRC----LP-LVFIISETESLSGDNSYRSNSFTAERLFPKEILNHPGI-TRIKFNPIAPTFMKKALKRILKKE  229 (519)
T ss_pred             cCCC----CC-EEEEEecccccCCCCcccccchhhhhccCHHHHhCCCc-eEEEecCCCHHHHHHHHHHHHHHH
Confidence            3221    13 444444 211      1        1356666654344 479999999988888777665543

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.89  E-value=2e-08  Score=92.16  Aligned_cols=126  Identities=18%  Similarity=0.123  Sum_probs=80.5

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-------eE-----
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-------FF-----  353 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~-------~~-----  353 (441)
                      ...+..+.|++.+...+...+..           + ..+..+||+||+|+||||+|+.+|+.+.+.       ..     
T Consensus        19 P~~~~~l~Gh~~a~~~L~~a~~~-----------g-rl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~~~~   86 (351)
T PRK09112         19 PSENTRLFGHEEAEAFLAQAYRE-----------G-KLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLADPD   86 (351)
T ss_pred             CCchhhccCcHHHHHHHHHHHHc-----------C-CCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccCCCC
Confidence            34677889999999988887753           1 122348999999999999999999988651       10     


Q ss_pred             -Eech---------hhhh---hhc-c--C-----chHHHHHHHHHHH----HhcCCeEEEEecccccccccCCCCCCCcc
Q 013506          354 -SLSG---------AELY---SMY-V--G-----ESEALLRNTFQRA----RLAAPSIIFFDEADVVGAKRGGSSSTSIT  408 (441)
Q Consensus       354 -~i~~---------~~~~---~~~-~--g-----~~~~~~~~~~~~a----~~~~~~vl~iDE~d~~~~~r~~~~~~~~~  408 (441)
                       ....         .+++   ..+ .  +     -+.+.++.+.+..    ..+...|++|||+|.+-            
T Consensus        87 ~~c~~c~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~------------  154 (351)
T PRK09112         87 PASPVWRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMN------------  154 (351)
T ss_pred             CCCHHHHHHHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcC------------
Confidence             0000         0110   000 0  0     0123445444433    23456799999999984            


Q ss_pred             hhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          409 VGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       409 ~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                        ....+.||+.|+..+....+|+++.+.
T Consensus       155 --~~aanaLLk~LEEpp~~~~fiLit~~~  181 (351)
T PRK09112        155 --RNAANAILKTLEEPPARALFILISHSS  181 (351)
T ss_pred             --HHHHHHHHHHHhcCCCCceEEEEECCh
Confidence              355789999999866665666665544

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=98.88  E-value=2.6e-08  Score=96.10  Aligned_cols=199  Identities=16%  Similarity=0.203  Sum_probs=115.8

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHH---hCCcEEEEccCccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRE---CGAHLTVISPHSVHKA   92 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~---l~~~~~~v~~~~~~~~   92 (441)
                      ..|++++|.....+.+.+.+...           .....+|+|+|++||||+++|+.+-..   -+.+++.++|..+...
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            55788999999888888776431           124578999999999999999999764   3568999999876432


Q ss_pred             cccchHHHHHHHHHH-------HH-----hhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC----
Q 013506           93 HVGESEKALREAFSQ-------AS-----SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS----  156 (441)
Q Consensus        93 ~~~~~~~~~~~~~~~-------~~-----~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~----  156 (441)
                      ..      -..+|..       +.     ........+.|||||++.|          +...+..|+..++.....    
T Consensus       278 ll------eseLFG~~~gaftga~~~~~~Gl~e~A~gGTLfLdeI~~L----------p~~~Q~~Ll~~L~~~~~~r~g~  341 (526)
T TIGR02329       278 LL------EAELFGYEEGAFTGARRGGRTGLIEAAHRGTLFLDEIGEM----------PLPLQTRLLRVLEEREVVRVGG  341 (526)
T ss_pred             HH------HHHhcCCcccccccccccccccchhhcCCceEEecChHhC----------CHHHHHHHHHHHhcCcEEecCC
Confidence            11      0112211       00     0001123578999999987          446778888888653311    


Q ss_pred             -CCCCCeEEEEEEcCCCC-------ccCHHHhhCCccc-eEEEecCCCH--HHHHHHHHHHhccC----CCCCccc-HHH
Q 013506          157 -KTSVPHVVVVASTNRVD-------AIDPALRRSGRFD-AEVEVTVPTA--EERFEILKLYTKKV----PLDANVD-LEA  220 (441)
Q Consensus       157 -~~~~~~~~vi~~~~~~~-------~l~~~l~~~~r~~-~~i~~~~p~~--~~~~~il~~~~~~~----~~~~~~~-~~~  220 (441)
                       .....++.+|++++..-       .+.+.+..  |+. ..+.+|+...  ++...++..++.+.    ......+ +..
T Consensus       342 ~~~~~~dvRiIaat~~~l~~~v~~g~fr~dL~~--rL~~~~I~lPPLReR~eDI~~L~~~fl~~~~~~~~~~~~~~a~~~  419 (526)
T TIGR02329       342 TEPVPVDVRVVAATHCALTTAVQQGRFRRDLFY--RLSILRIALPPLRERPGDILPLAAEYLVQAAAALRLPDSEAAAQV  419 (526)
T ss_pred             CceeeecceEEeccCCCHHHHhhhcchhHHHHH--hcCCcEEeCCCchhchhHHHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence             11122457888876642       22333333  443 3445555432  23334444444432    1111111 222


Q ss_pred             -------HHHHCCCCCHHHHHHHHHHHHHH
Q 013506          221 -------IATSCNGYVGADLEALCREATMS  243 (441)
Q Consensus       221 -------l~~~~~g~~~~~i~~l~~~a~~~  243 (441)
                             +.......+-++++++++.++..
T Consensus       420 ~~~~~~~L~~y~WPGNvrEL~nvier~~i~  449 (526)
T TIGR02329       420 LAGVADPLQRYPWPGNVRELRNLVERLALE  449 (526)
T ss_pred             hHHHHHHHHhCCCCchHHHHHHHHHHHHHh
Confidence                   44444555778888888877654

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.

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=98.88  E-value=2.3e-08  Score=93.13  Aligned_cols=206  Identities=21%  Similarity=0.233  Sum_probs=121.0

Q ss_pred             ccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCcc
Q 013506           13 EKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSV   89 (441)
Q Consensus        13 ~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~   89 (441)
                      .+...|++|+|.......+.+.+...           -+...+||+.|++||||..+|+++-+.-   +.||+.+||..+
T Consensus       239 ~a~y~f~~Iig~S~~m~~~~~~akr~-----------A~tdstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAi  307 (560)
T COG3829         239 KAKYTFDDIIGESPAMLRVLELAKRI-----------AKTDSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAI  307 (560)
T ss_pred             ccccchhhhccCCHHHHHHHHHHHhh-----------cCCCCcEEEecCCCccHHHHHHHHHhcCcccCCCeEEEecccC
Confidence            34467899999988888877766441           2356789999999999999999996644   679999999876


Q ss_pred             cccccc-chHHHHHHHHHHHHhh-----hhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcC-----CCCCC
Q 013506           90 HKAHVG-ESEKALREAFSQASSH-----ALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSN-----KPSKT  158 (441)
Q Consensus        90 ~~~~~~-~~~~~~~~~~~~~~~~-----~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~  158 (441)
                      ....+. +.-......|--+...     ......+-||+|||..|          +...+..|++.++..     .+...
T Consensus       308 Pe~LlESELFGye~GAFTGA~~~GK~GlfE~A~gGTLFLDEIgem----------pl~LQaKLLRVLQEkei~rvG~t~~  377 (560)
T COG3829         308 PETLLESELFGYEKGAFTGASKGGKPGLFELANGGTLFLDEIGEM----------PLPLQAKLLRVLQEKEIERVGGTKP  377 (560)
T ss_pred             CHHHHHHHHhCcCCccccccccCCCCcceeeccCCeEEehhhccC----------CHHHHHHHHHHHhhceEEecCCCCc
Confidence            543211 1111111112222211     01123468999999877          456778888887652     23333


Q ss_pred             CCCeEEEEEEcCCCC-------ccCHHHhhCCccceEEEecCCCHHHHHH----H----HHHHhccCCCCC----cccHH
Q 013506          159 SVPHVVVVASTNRVD-------AIDPALRRSGRFDAEVEVTVPTAEERFE----I----LKLYTKKVPLDA----NVDLE  219 (441)
Q Consensus       159 ~~~~~~vi~~~~~~~-------~l~~~l~~~~r~~~~i~~~~p~~~~~~~----i----l~~~~~~~~~~~----~~~~~  219 (441)
                      ...++.+|++||..-       .+-..+--  |.+ ++.+..|...+|.+    +    +..+.+.+....    +.-+.
T Consensus       378 ~~vDVRIIAATN~nL~~~i~~G~FReDLYY--RLN-V~~i~iPPLReR~eDI~~L~~~Fl~k~s~~~~~~v~~ls~~a~~  454 (560)
T COG3829         378 IPVDVRIIAATNRNLEKMIAEGTFREDLYY--RLN-VIPITIPPLRERKEDIPLLAEYFLDKFSRRYGRNVKGLSPDALA  454 (560)
T ss_pred             eeeEEEEEeccCcCHHHHHhcCcchhhhee--eec-eeeecCCCcccCcchHHHHHHHHHHHHHHHcCCCcccCCHHHHH
Confidence            445799999999731       11122211  332 44455554444432    2    222223332221    11244


Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHH
Q 013506          220 AIATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       220 ~l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                      .+...-..-+-|+++++++++..
T Consensus       455 ~L~~y~WPGNVRELeNviER~v~  477 (560)
T COG3829         455 LLLRYDWPGNVRELENVIERAVN  477 (560)
T ss_pred             HHHhCCCCchHHHHHHHHHHHHh
Confidence            44555555677888888888764

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=98.87  E-value=5.4e-08  Score=97.97  Aligned_cols=196  Identities=15%  Similarity=0.181  Sum_probs=113.1

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCcccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAH   93 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~   93 (441)
                      .|++++|.....+.+.+.+...           .....+|+|+|++||||+++|+++....   +.+++.++|..+....
T Consensus       323 ~~~~l~g~s~~~~~~~~~~~~~-----------a~~~~pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~~~~  391 (638)
T PRK11388        323 TFDHMPQDSPQMRRLIHFGRQA-----------AKSSFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDEA  391 (638)
T ss_pred             cccceEECCHHHHHHHHHHHHH-----------hCcCCCEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCChHH
Confidence            5678888887777666655331           1345689999999999999999998764   4689999997754211


Q ss_pred             ccchHHHHHHHHHHH---H-----hhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCC-----CCC
Q 013506           94 VGESEKALREAFSQA---S-----SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK-----TSV  160 (441)
Q Consensus        94 ~~~~~~~~~~~~~~~---~-----~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-----~~~  160 (441)
                            .-.++|...   .     .......++.|||||++.|          +...+..|+..++......     ...
T Consensus       392 ------~~~elfg~~~~~~~~~~~g~~~~a~~GtL~ldei~~l----------~~~~Q~~Ll~~l~~~~~~~~~~~~~~~  455 (638)
T PRK11388        392 ------LAEEFLGSDRTDSENGRLSKFELAHGGTLFLEKVEYL----------SPELQSALLQVLKTGVITRLDSRRLIP  455 (638)
T ss_pred             ------HHHHhcCCCCcCccCCCCCceeECCCCEEEEcChhhC----------CHHHHHHHHHHHhcCcEEeCCCCceEE
Confidence                  011122111   0     0011224678999999987          4467778888876533111     111


Q ss_pred             CeEEEEEEcCCCC-------ccCHHHhhCCccceEEEecCCCHHHH----HHHHHHHhccC----CCCCccc---HHHHH
Q 013506          161 PHVVVVASTNRVD-------AIDPALRRSGRFDAEVEVTVPTAEER----FEILKLYTKKV----PLDANVD---LEAIA  222 (441)
Q Consensus       161 ~~~~vi~~~~~~~-------~l~~~l~~~~r~~~~i~~~~p~~~~~----~~il~~~~~~~----~~~~~~~---~~~l~  222 (441)
                      .++.+|++++...       .+.+.+.-  |+. .+.+..|...+|    ..++..++...    ......+   +..+.
T Consensus       456 ~~~riI~~t~~~l~~~~~~~~f~~dL~~--~l~-~~~i~lPpLreR~~Di~~L~~~~l~~~~~~~~~~~~~s~~a~~~L~  532 (638)
T PRK11388        456 VDVRVIATTTADLAMLVEQNRFSRQLYY--ALH-AFEITIPPLRMRREDIPALVNNKLRSLEKRFSTRLKIDDDALARLV  532 (638)
T ss_pred             eeEEEEEeccCCHHHHHhcCCChHHHhh--hhc-eeEEeCCChhhhhhHHHHHHHHHHHHHHHHhCCCCCcCHHHHHHHH
Confidence            2577888887632       22333332  332 344555554444    33344433322    1111122   44555


Q ss_pred             HHCCCCCHHHHHHHHHHHHH
Q 013506          223 TSCNGYVGADLEALCREATM  242 (441)
Q Consensus       223 ~~~~g~~~~~i~~l~~~a~~  242 (441)
                      .....-+.++++++++.+..
T Consensus       533 ~y~WPGNvreL~~~l~~~~~  552 (638)
T PRK11388        533 SYRWPGNDFELRSVIENLAL  552 (638)
T ss_pred             cCCCCChHHHHHHHHHHHHH
Confidence            55555677888888887664

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=98.87  E-value=1.8e-08  Score=93.19  Aligned_cols=95  Identities=23%  Similarity=0.272  Sum_probs=70.9

Q ss_pred             ce-EEEECCCCCcHHHHHHHHHHHcC------------------------CceEEechhhhhhhccCchHHHHHHHHHHH
Q 013506          325 RG-ALLHGPPGCSKTTLAKAAAHAAE------------------------ASFFSLSGAELYSMYVGESEALLRNTFQRA  379 (441)
Q Consensus       325 ~~-~ll~Gp~GtGKTtla~~la~~~~------------------------~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a  379 (441)
                      .| +||+||||+|||++|.++|+.+.                        .++++++.++...  ..-..+.++.+-+..
T Consensus        24 ~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~--~~i~~~~vr~~~~~~  101 (325)
T COG0470          24 PHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRK--IDIIVEQVRELAEFL  101 (325)
T ss_pred             CceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccCC--CcchHHHHHHHHHHh
Confidence            35 89999999999999999999887                        5788888888655  223455566655554


Q ss_pred             Hh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          380 RL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       380 ~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ..    .+..|++|||+|.+..              .+.+.|++.|+..+ ...++|+.+|
T Consensus       102 ~~~~~~~~~kviiidead~mt~--------------~A~nallk~lEep~-~~~~~il~~n  147 (325)
T COG0470         102 SESPLEGGYKVVIIDEADKLTE--------------DAANALLKTLEEPP-KNTRFILITN  147 (325)
T ss_pred             ccCCCCCCceEEEeCcHHHHhH--------------HHHHHHHHHhccCC-CCeEEEEEcC
Confidence            32    3567999999999863              66899999998744 4555555555

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=98.86  E-value=9.5e-08  Score=83.64  Aligned_cols=207  Identities=19%  Similarity=0.232  Sum_probs=106.3

Q ss_pred             cchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC---------CcEEEEccCccccc
Q 013506           22 GGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---------AHLTVISPHSVHKA   92 (441)
Q Consensus        22 ~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~---------~~~~~v~~~~~~~~   92 (441)
                      +|...+++.|...-.. +..|+      .....+++|+|++|.|||++++.+.+...         .+++.+.+..-.+.
T Consensus        37 IgY~~A~~~L~~L~~L-l~~P~------~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~  109 (302)
T PF05621_consen   37 IGYPRAKEALDRLEEL-LEYPK------RHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDE  109 (302)
T ss_pred             ecCHHHHHHHHHHHHH-HhCCc------ccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCCh
Confidence            6666665555543321 11111      12336899999999999999999987653         24555544321110


Q ss_pred             ---c------cc---chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCC
Q 013506           93 ---H------VG---ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSV  160 (441)
Q Consensus        93 ---~------~~---~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  160 (441)
                         +      .+   ....................+..+|+|||+|.++....       ..+..+++.+....... ..
T Consensus       110 ~~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~-------~~qr~~Ln~LK~L~NeL-~i  181 (302)
T PF05621_consen  110 RRFYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSY-------RKQREFLNALKFLGNEL-QI  181 (302)
T ss_pred             HHHHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccH-------HHHHHHHHHHHHHhhcc-CC
Confidence               0      00   00001111112222222233477999999999764221       22333333333221111 11


Q ss_pred             CeEEEEEEcCCCC--ccCHHHhhCCccceEEEecCCCHH-HHHHHHHHHhccCCCCCc------ccHHHHHHHCCCCCHH
Q 013506          161 PHVVVVASTNRVD--AIDPALRRSGRFDAEVEVTVPTAE-ERFEILKLYTKKVPLDAN------VDLEAIATSCNGYVGA  231 (441)
Q Consensus       161 ~~~~vi~~~~~~~--~l~~~l~~~~r~~~~i~~~~p~~~-~~~~il~~~~~~~~~~~~------~~~~~l~~~~~g~~~~  231 (441)
                       .++.++|.....  .-|+.+.+  ||. .+.+|....+ +-.+++..+...+++...      .-...+...+.|.. +
T Consensus       182 -piV~vGt~~A~~al~~D~QLa~--RF~-~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~i-G  256 (302)
T PF05621_consen  182 -PIVGVGTREAYRALRTDPQLAS--RFE-PFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLI-G  256 (302)
T ss_pred             -CeEEeccHHHHHHhccCHHHHh--ccC-CccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCch-H
Confidence             244555433333  33677777  996 5666666443 445566665555543321      11455666666654 5


Q ss_pred             HHHHHHHHHHHHHHHhc
Q 013506          232 DLEALCREATMSAVKRS  248 (441)
Q Consensus       232 ~i~~l~~~a~~~~~~~~  248 (441)
                      ++..++..+...+....
T Consensus       257 ~l~~ll~~aA~~AI~sG  273 (302)
T PF05621_consen  257 ELSRLLNAAAIAAIRSG  273 (302)
T ss_pred             HHHHHHHHHHHHHHhcC
Confidence            67777777777766643

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.86  E-value=2.5e-08  Score=91.97  Aligned_cols=119  Identities=26%  Similarity=0.315  Sum_probs=72.6

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC-----ceEEechhhhh
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA-----SFFSLSGAELY  361 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~-----~~~~i~~~~~~  361 (441)
                      ..++++.|.+.+.+.+..++..           +  ...+++|+||||||||++++.++..+..     .++.++.++..
T Consensus        14 ~~~~~~~g~~~~~~~l~~~i~~-----------~--~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~~~~~~   80 (319)
T PRK00440         14 RTLDEIVGQEEIVERLKSYVKE-----------K--NMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELNASDER   80 (319)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhC-----------C--CCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEecccccc
Confidence            4677788888888888877642           1  1236899999999999999999998732     34455443321


Q ss_pred             hhccCchHHHHHHHHHHH--HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEe
Q 013506          362 SMYVGESEALLRNTFQRA--RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPI  434 (441)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a--~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~  434 (441)
                      +  .......+.......  ....+.+++|||+|.+..              ...+.|+..++.......+|+.+
T Consensus        81 ~--~~~~~~~i~~~~~~~~~~~~~~~vviiDe~~~l~~--------------~~~~~L~~~le~~~~~~~lIl~~  139 (319)
T PRK00440         81 G--IDVIRNKIKEFARTAPVGGAPFKIIFLDEADNLTS--------------DAQQALRRTMEMYSQNTRFILSC  139 (319)
T ss_pred             c--hHHHHHHHHHHHhcCCCCCCCceEEEEeCcccCCH--------------HHHHHHHHHHhcCCCCCeEEEEe
Confidence            1  111112222221111  112356999999998842              23567788888766655444443

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=98.86  E-value=1.8e-08  Score=99.07  Aligned_cols=140  Identities=19%  Similarity=0.289  Sum_probs=90.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCC--cEEEEccCccccccccchHHHHHHHHHHHH-----hhhhcCCCeEEEEcccc
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGA--HLTVISPHSVHKAHVGESEKALREAFSQAS-----SHALSGKPSVVFIDEID  126 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~--~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~il~iDe~~  126 (441)
                      .+|||.|+||||||++++.++..++.  +++.+..........+..  .+...+....     .........+||+||++
T Consensus        17 g~vLl~G~~GtgKs~lar~l~~~~~~~~pfv~i~~~~t~d~L~G~i--dl~~~~~~g~~~~~~G~L~~A~~GvL~lDEi~   94 (589)
T TIGR02031        17 GGVAIRARAGTGKTALARALAEILPPIMPFVELPLGVTEDRLIGGI--DVEESLAGGQRVTQPGLLDEAPRGVLYVDMAN   94 (589)
T ss_pred             ceEEEEcCCCcHHHHHHHHHHHhCCcCCCeEecCcccchhhcccch--hhhhhhhcCcccCCCCCeeeCCCCcEeccchh
Confidence            58999999999999999999998764  477766433222222321  1111111100     00111235699999999


Q ss_pred             ccccCCCCCchhhHHHHHHHHHHHhcCC------C-CCCCCCeEEEEEEcCCCC---ccCHHHhhCCccceEEEec-CCC
Q 013506          127 ALCPRRDHRREQDVRIASQLFTLMDSNK------P-SKTSVPHVVVVASTNRVD---AIDPALRRSGRFDAEVEVT-VPT  195 (441)
Q Consensus       127 ~l~~~~~~~~~~~~~~~~~l~~~~~~~~------~-~~~~~~~~~vi~~~~~~~---~l~~~l~~~~r~~~~i~~~-~p~  195 (441)
                      .+          +...+..|+..++...      + .......+.+|+++|+.+   .+++.+..  ||...+.+. .++
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 LL----------DDGLSNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGGGLPDHLLD--RLALHVSLEDVAS  162 (589)
T ss_pred             hC----------CHHHHHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccCCCCHHHHH--hccCeeecCCCCC
Confidence            88          4477888888887543      1 111123578899999865   78899998  998766654 456


Q ss_pred             HHHHHHHHHHHh
Q 013506          196 AEERFEILKLYT  207 (441)
Q Consensus       196 ~~~~~~il~~~~  207 (441)
                      .+++.+|++...
T Consensus       163 ~~er~eil~~~~  174 (589)
T TIGR02031       163 QDLRVEIVRRER  174 (589)
T ss_pred             HHHHHHHHHHHH
Confidence            777888887654

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.

>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=98.86  E-value=4.4e-09  Score=84.01  Aligned_cols=82  Identities=24%  Similarity=0.286  Sum_probs=53.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh------hccCc---hHHHHHHHHHHHHhcCCeEEEEecccccc
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS------MYVGE---SEALLRNTFQRARLAAPSIIFFDEADVVG  396 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~------~~~g~---~~~~~~~~~~~a~~~~~~vl~iDE~d~~~  396 (441)
                      +++|+||||||||++|+.+|+.++.+++.+.++....      .|.-.   .+-.-..+.+.+  ..+.++||||++++.
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~--~~~~il~lDEin~a~   78 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAM--RKGGILVLDEINRAP   78 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTH--HEEEEEEESSCGG--
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccccccceeeeeecccccccccccccccc--cceeEEEECCcccCC
Confidence            5899999999999999999999999998888765322      22211   000000111111  156799999999874


Q ss_pred             cccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          397 AKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       397 ~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                                    ..+++.|+..|++
T Consensus        79 --------------~~v~~~L~~ll~~   91 (139)
T PF07728_consen   79 --------------PEVLESLLSLLEE   91 (139)
T ss_dssp             --------------HHHHHTTHHHHSS
T ss_pred             --------------HHHHHHHHHHHhh
Confidence                          3677777777775

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.

>PLN03073 ABC transporter F family; Provisional

Probab=98.86  E-value=4.6e-07  Score=91.28  Aligned_cols=31  Identities=26%  Similarity=0.362  Sum_probs=26.8

Q ss_pred             hcCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          318 RLGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       318 ~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .+.+.++..+.++||||+|||||.++++...
T Consensus       529 sl~i~~Ge~i~LvG~NGsGKSTLLk~L~Gll  559 (718)
T PLN03073        529 NFGIDLDSRIAMVGPNGIGKSTILKLISGEL  559 (718)
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3456677889999999999999999999875

>PRK08116 hypothetical protein; Validated

Probab=98.85  E-value=3.6e-08  Score=87.30  Aligned_cols=123  Identities=19%  Similarity=0.275  Sum_probs=67.8

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccc----hHHHHHHHHHHHHhhhhcCCCeEEEEccc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGE----SEKALREAFSQASSHALSGKPSVVFIDEI  125 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~il~iDe~  125 (441)
                      +.+++|+|++|||||+|+.++++.+   +.++++++..++.......    .......++...      ...++|+|||+
T Consensus       114 ~~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~~~~ll~~i~~~~~~~~~~~~~~~~~~l------~~~dlLviDDl  187 (268)
T PRK08116        114 NVGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNRIKSTYKSSGKEDENEIIRSL------VNADLLILDDL  187 (268)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhccccccHHHHHHHh------cCCCEEEEecc
Confidence            4579999999999999999999876   5667777765543221100    000111111111      23569999998


Q ss_pred             cccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCC-CCc----cCHHHhhCCcc---ceEEEecCCCH
Q 013506          126 DALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR-VDA----IDPALRRSGRF---DAEVEVTVPTA  196 (441)
Q Consensus       126 ~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~-~~~----l~~~l~~~~r~---~~~i~~~~p~~  196 (441)
                      ....        ........++..++.....     ...+|.|+|. +..    ++.++.+  |+   ...+.++.++.
T Consensus       188 g~e~--------~t~~~~~~l~~iin~r~~~-----~~~~IiTsN~~~~eL~~~~~~ri~s--Rl~e~~~~v~~~g~d~  251 (268)
T PRK08116        188 GAER--------DTEWAREKVYNIIDSRYRK-----GLPTIVTTNLSLEELKNQYGKRIYD--RILEMCTPVENEGKSY  251 (268)
T ss_pred             cCCC--------CCHHHHHHHHHHHHHHHHC-----CCCEEEECCCCHHHHHHHHhHHHHH--HHHHcCEEEEeeCcCh
Confidence            5321        1123345566666543211     1234555554 333    3556666  54   33566666664

>PRK13409 putative ATPase RIL; Provisional

Probab=98.85  E-value=1.5e-07  Score=92.88  Aligned_cols=29  Identities=34%  Similarity=0.263  Sum_probs=25.5

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .+.++..+.++||||+|||||+++++...
T Consensus       361 ~i~~Geiv~l~G~NGsGKSTLlk~L~Gl~  389 (590)
T PRK13409        361 EIYEGEVIGIVGPNGIGKTTFAKLLAGVL  389 (590)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45667789999999999999999999876

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.85  E-value=1.9e-08  Score=92.74  Aligned_cols=125  Identities=17%  Similarity=0.104  Sum_probs=80.9

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceE------------
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFF------------  353 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~------------  353 (441)
                      ...+.++.|++.+++.+...+..           + +.+..+||+||+|+||+++|..+|+.+-+.--            
T Consensus        15 P~~~~~iiGq~~~~~~L~~~~~~-----------~-rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~   82 (365)
T PRK07471         15 PRETTALFGHAAAEAALLDAYRS-----------G-RLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTS   82 (365)
T ss_pred             CCchhhccChHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCcccccccc
Confidence            34677889999999998887763           1 22334899999999999999999998743210            


Q ss_pred             -----Eech---------hhhhhhc---cCc--------hHHHHHHHHHHH----HhcCCeEEEEecccccccccCCCCC
Q 013506          354 -----SLSG---------AELYSMY---VGE--------SEALLRNTFQRA----RLAAPSIIFFDEADVVGAKRGGSSS  404 (441)
Q Consensus       354 -----~i~~---------~~~~~~~---~g~--------~~~~~~~~~~~a----~~~~~~vl~iDE~d~~~~~r~~~~~  404 (441)
                           .+..         +|+..-.   ...        ..+.++.+.+.+    ..+.+.|++|||+|.+-        
T Consensus        83 l~~~~~c~~c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~--------  154 (365)
T PRK07471         83 LAIDPDHPVARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMN--------  154 (365)
T ss_pred             ccCCCCChHHHHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcC--------
Confidence                 0000         0110000   000        124466655554    34567799999999884        


Q ss_pred             CCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          405 TSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       405 ~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                            ....|.||+.|+..+....+|+++.+
T Consensus       155 ------~~aanaLLK~LEepp~~~~~IL~t~~  180 (365)
T PRK07471        155 ------ANAANALLKVLEEPPARSLFLLVSHA  180 (365)
T ss_pred             ------HHHHHHHHHHHhcCCCCeEEEEEECC
Confidence                  36689999999976555555555544

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=98.84  E-value=5.3e-08  Score=94.85  Aligned_cols=198  Identities=17%  Similarity=0.165  Sum_probs=111.9

Q ss_pred             ccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCcccc
Q 013506           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHK   91 (441)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~   91 (441)
                      ...|++++|.....+.+.+.+...           .....+|+|+|++||||+++|+++-...   ..+++.++|..+..
T Consensus       200 ~~~f~~~ig~s~~~~~~~~~~~~~-----------A~~~~pvlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~~~  268 (520)
T PRK10820        200 DSAFSQIVAVSPKMRQVVEQARKL-----------AMLDAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPD  268 (520)
T ss_pred             cccccceeECCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccCCH
Confidence            357789999888777666655321           1235679999999999999999986543   35889999987642


Q ss_pred             ccccchHHHHHHHHHHHH-----------hhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC----
Q 013506           92 AHVGESEKALREAFSQAS-----------SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS----  156 (441)
Q Consensus        92 ~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~----  156 (441)
                      ...      -..+|....           .......++.|||||++.|          +...+..|+..+......    
T Consensus       269 ~~~------e~elFG~~~~~~~~~~~~~~g~~e~a~~GtL~LdeI~~L----------~~~~Q~~Ll~~l~~~~~~~~g~  332 (520)
T PRK10820        269 DVV------ESELFGHAPGAYPNALEGKKGFFEQANGGSVLLDEIGEM----------SPRMQAKLLRFLNDGTFRRVGE  332 (520)
T ss_pred             HHH------HHHhcCCCCCCcCCcccCCCChhhhcCCCEEEEeChhhC----------CHHHHHHHHHHHhcCCcccCCC
Confidence            110      011221100           0001123678999999987          446677788877653211    


Q ss_pred             -CCCCCeEEEEEEcCCCC-------ccCHHHhhCCccceEEEecCCCHHHH----HHHHHHHhc----cCCCC-Cccc--
Q 013506          157 -KTSVPHVVVVASTNRVD-------AIDPALRRSGRFDAEVEVTVPTAEER----FEILKLYTK----KVPLD-ANVD--  217 (441)
Q Consensus       157 -~~~~~~~~vi~~~~~~~-------~l~~~l~~~~r~~~~i~~~~p~~~~~----~~il~~~~~----~~~~~-~~~~--  217 (441)
                       .....++.+|++++..-       .+.+.+..  |+. .+.+..|...+|    ..++..++.    +.... ....  
T Consensus       333 ~~~~~~~vRiI~st~~~l~~l~~~g~f~~dL~~--rL~-~~~i~lPpLreR~~Di~~L~~~fl~~~~~~~g~~~~~ls~~  409 (520)
T PRK10820        333 DHEVHVDVRVICATQKNLVELVQKGEFREDLYY--RLN-VLTLNLPPLRDRPQDIMPLTELFVARFADEQGVPRPKLAAD  409 (520)
T ss_pred             CcceeeeeEEEEecCCCHHHHHHcCCccHHHHh--hcC-eeEEeCCCcccChhHHHHHHHHHHHHHHHHcCCCCCCcCHH
Confidence             11123567888776532       34455655  554 344444444333    333333332    22221 1122  


Q ss_pred             -HHHHHHHCCCCCHHHHHHHHHHHHH
Q 013506          218 -LEAIATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       218 -~~~l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                       +..+......-+-+++++++..+..
T Consensus       410 a~~~L~~y~WPGNvreL~nvl~~a~~  435 (520)
T PRK10820        410 LNTVLTRYGWPGNVRQLKNAIYRALT  435 (520)
T ss_pred             HHHHHhcCCCCCHHHHHHHHHHHHHH
Confidence             3444444344567777777776654

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=98.84  E-value=4.6e-08  Score=89.96  Aligned_cols=205  Identities=21%  Similarity=0.275  Sum_probs=121.7

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKA   92 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~   92 (441)
                      .....|+|...+...+.+.+..- .          +...+|||.|++||||-.+|++|-..-   ..+++.+||..+...
T Consensus       220 ~~~~~iIG~S~am~~ll~~i~~V-A----------~Sd~tVLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAlPes  288 (550)
T COG3604         220 LEVGGIIGRSPAMRQLLKEIEVV-A----------KSDSTVLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAALPES  288 (550)
T ss_pred             cccccceecCHHHHHHHHHHHHH-h----------cCCCeEEEecCCCccHHHHHHHHHhhCcccCCCceeeeccccchH
Confidence            35578999999988888877542 1          245789999999999999999987654   578999999886543


Q ss_pred             cc-cchHHHHHHHHH----HHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCC-----CCCCCCCe
Q 013506           93 HV-GESEKALREAFS----QASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK-----PSKTSVPH  162 (441)
Q Consensus        93 ~~-~~~~~~~~~~~~----~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~~~~~  162 (441)
                      .. ++.-...+..|-    .-........++-||+|||-.|          +...+..|++.+....     +...-..+
T Consensus       289 LlESELFGHeKGAFTGA~~~r~GrFElAdGGTLFLDEIGel----------PL~lQaKLLRvLQegEieRvG~~r~ikVD  358 (550)
T COG3604         289 LLESELFGHEKGAFTGAINTRRGRFELADGGTLFLDEIGEL----------PLALQAKLLRVLQEGEIERVGGDRTIKVD  358 (550)
T ss_pred             HHHHHHhcccccccccchhccCcceeecCCCeEechhhccC----------CHHHHHHHHHHHhhcceeecCCCceeEEE
Confidence            21 111111112222    2222222334678999999766          4467788888776533     22223346


Q ss_pred             EEEEEEcCCCCccCHHHhhCCccc-------eEEEecCCCHHHH-------HHH-HHHHhccCCC-CCcc---cHHHHHH
Q 013506          163 VVVVASTNRVDAIDPALRRSGRFD-------AEVEVTVPTAEER-------FEI-LKLYTKKVPL-DANV---DLEAIAT  223 (441)
Q Consensus       163 ~~vi~~~~~~~~l~~~l~~~~r~~-------~~i~~~~p~~~~~-------~~i-l~~~~~~~~~-~~~~---~~~~l~~  223 (441)
                      +.+|++||+-  +...+. .|+|-       .++-+..|...+|       ... ++.+...... ....   -++.+..
T Consensus       359 VRiIAATNRD--L~~~V~-~G~FRaDLYyRLsV~Pl~lPPLRER~~DIplLA~~Fle~~~~~~gr~~l~ls~~Al~~L~~  435 (550)
T COG3604         359 VRVIAATNRD--LEEMVR-DGEFRADLYYRLSVFPLELPPLRERPEDIPLLAGYFLEKFRRRLGRAILSLSAEALELLSS  435 (550)
T ss_pred             EEEEeccchh--HHHHHH-cCcchhhhhhcccccccCCCCcccCCccHHHHHHHHHHHHHHhcCCcccccCHHHHHHHHc
Confidence            8999999983  222221 22332       1222333333333       222 2222233332 1111   2455555


Q ss_pred             HCCCCCHHHHHHHHHHHHHHH
Q 013506          224 SCNGYVGADLEALCREATMSA  244 (441)
Q Consensus       224 ~~~g~~~~~i~~l~~~a~~~~  244 (441)
                      ....-+-++++++++++...+
T Consensus       436 y~wPGNVRELen~veRavlla  456 (550)
T COG3604         436 YEWPGNVRELENVVERAVLLA  456 (550)
T ss_pred             CCCCCcHHHHHHHHHHHHHHh
Confidence            555567899999999988766

>KOG0062 consensus ATPase component of ABC transporters with duplicated ATPase domains/Translation elongation factor EF-3b [Amino acid transport and metabolism; Translation, ribosomal structure and biogenesis]

Probab=98.83  E-value=3.7e-08  Score=90.66  Aligned_cols=29  Identities=38%  Similarity=0.539  Sum_probs=25.5

Q ss_pred             hcCCCCCcEEEEEcCCCCcHHHHHHHHHH
Q 013506           47 KLGLKWPRGLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        47 ~~~~~~~~~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      ++.+..++..-|||++|+|||||.|+|++
T Consensus       100 ~L~L~~GrRYGLvGrNG~GKsTLLRaia~  128 (582)
T KOG0062|consen  100 NLTLSRGRRYGLVGRNGIGKSTLLRAIAN  128 (582)
T ss_pred             ceeeecccccceeCCCCCcHHHHHHHHHh
Confidence            34456788999999999999999999998

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=98.83  E-value=1e-08  Score=94.33  Aligned_cols=84  Identities=26%  Similarity=0.343  Sum_probs=60.7

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh--ccCchHHHHH------------HHHHHHHhcCCeEE
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM--YVGESEALLR------------NTFQRARLAAPSII  387 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~--~~g~~~~~~~------------~~~~~a~~~~~~vl  387 (441)
                      ..++|++|.||||||||++|+.+|+.++.+++.+.++.....  .+|...-..+            -+|....    +++
T Consensus        41 ~~~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~p~d~~G~~~~~~~~~~~~~~~~~~gpl~~~~~----~il  116 (329)
T COG0714          41 LAGGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFRFVPGPLFAAVR----VIL  116 (329)
T ss_pred             HcCCCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCCHHHhcCchhHhhhhccCCeEEEecCCcccccc----eEE
Confidence            346789999999999999999999999999999998764432  1222211111            1222222    499


Q ss_pred             EEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          388 FFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       388 ~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                      |+|||.+..+              .+.+.||..|+.
T Consensus       117 l~DEInra~p--------------~~q~aLl~~l~e  138 (329)
T COG0714         117 LLDEINRAPP--------------EVQNALLEALEE  138 (329)
T ss_pred             EEeccccCCH--------------HHHHHHHHHHhC
Confidence            9999999864              567888888886

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.83  E-value=4.8e-08  Score=92.81  Aligned_cols=103  Identities=20%  Similarity=0.240  Sum_probs=65.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc-----CCceEEechhhhh----------hhccC--------chHHHHHHHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELY----------SMYVG--------ESEALLRNTFQRAR  380 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~-----~~~~~~i~~~~~~----------~~~~g--------~~~~~~~~~~~~a~  380 (441)
                      +.+++++||||||||++++.++..+     +..++.+++....          ....+        ...+.+..+.+...
T Consensus        55 ~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~  134 (394)
T PRK00411         55 PLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLD  134 (394)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHH
Confidence            4568999999999999999999876     4567777764321          11111        12333444444443


Q ss_pred             h-cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          381 L-AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       381 ~-~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      . ..+.||+|||+|.+... .         ...++..|+..++........+|+.+|
T Consensus       135 ~~~~~~viviDE~d~l~~~-~---------~~~~l~~l~~~~~~~~~~~v~vI~i~~  181 (394)
T PRK00411        135 ERDRVLIVALDDINYLFEK-E---------GNDVLYSLLRAHEEYPGARIGVIGISS  181 (394)
T ss_pred             hcCCEEEEEECCHhHhhcc-C---------CchHHHHHHHhhhccCCCeEEEEEEEC
Confidence            2 34579999999998721 1         125678888877766554444444433

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=98.82  E-value=1.6e-07  Score=91.82  Aligned_cols=97  Identities=20%  Similarity=0.112  Sum_probs=56.8

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhh--------------c--------c------Cch
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM--------------Y--------V------GES  368 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~--------------~--------~------g~~  368 (441)
                      |++++..+++.|+||+|||+++..++...   +.+++.+...+....              +        .      ...
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            67778888999999999999998776533   455555433211100              0        0      001


Q ss_pred             HHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhc
Q 013506          369 EALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (441)
Q Consensus       369 ~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~  422 (441)
                      +..+..+.+.....++.+++||-+..+....      ......+.+..|+..+.
T Consensus       349 ~~~~~~i~~~i~~~~~~~vVIDslt~l~~~~------~~~~~~~~l~~l~~~~k  396 (509)
T PRK09302        349 EDHLIIIKREIEEFKPSRVAIDPLSALARGG------SLNEFRQFVIRLTDYLK  396 (509)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEcCHHHHHHhC------CHHHHHHHHHHHHHHHH
Confidence            2333444444555677899999988776321      11112445556666654

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=98.82  E-value=1.8e-08  Score=91.63  Aligned_cols=95  Identities=21%  Similarity=0.276  Sum_probs=63.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCc------------------------eEEechhhhhhhccCchHHHHHHHHHHHH
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEAS------------------------FFSLSGAELYSMYVGESEALLRNTFQRAR  380 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~------------------------~~~i~~~~~~~~~~g~~~~~~~~~~~~a~  380 (441)
                      ..+||+||+|+|||++|+.+|..+.+.                        ++.+...+- +.  .-..+.+|++.+.+.
T Consensus        23 ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~-~~--~i~id~iR~l~~~~~   99 (328)
T PRK05707         23 HAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEA-DK--TIKVDQVRELVSFVV   99 (328)
T ss_pred             eeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCC-CC--CCCHHHHHHHHHHHh
Confidence            357899999999999999999988552                        222221100 00  012355666665553


Q ss_pred             ----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          381 ----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       381 ----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                          .+...|++|||+|++.              ....|.||+.|+..+.....|+++++
T Consensus       100 ~~~~~~~~kv~iI~~a~~m~--------------~~aaNaLLK~LEEPp~~~~fiL~t~~  145 (328)
T PRK05707        100 QTAQLGGRKVVLIEPAEAMN--------------RNAANALLKSLEEPSGDTVLLLISHQ  145 (328)
T ss_pred             hccccCCCeEEEECChhhCC--------------HHHHHHHHHHHhCCCCCeEEEEEECC
Confidence                3556799999999984              36789999999986654444444443

>PHA02244 ATPase-like protein

Probab=98.81  E-value=2.5e-08  Score=89.86  Aligned_cols=71  Identities=20%  Similarity=0.339  Sum_probs=47.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEEechh----hhhhhccCchHHHH-HHHHHHHHhcCCeEEEEeccccccc
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA----ELYSMYVGESEALL-RNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~----~~~~~~~g~~~~~~-~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      +.+++|.||||||||++|+++|..++.+++.++..    ++.+ ++.....-. ..++..+  ....++||||++.+.+
T Consensus       119 ~~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G-~i~~~g~~~dgpLl~A~--~~GgvLiLDEId~a~p  194 (383)
T PHA02244        119 NIPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKG-FIDANGKFHETPFYEAF--KKGGLFFIDEIDASIP  194 (383)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhcc-cccccccccchHHHHHh--hcCCEEEEeCcCcCCH
Confidence            44699999999999999999999999999988742    1111 111111100 1222322  3456999999998854

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.80  E-value=2e-08  Score=84.62  Aligned_cols=93  Identities=18%  Similarity=0.243  Sum_probs=61.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc------------------------eEEechhhhhhhccCchHHHHHHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEAS------------------------FFSLSGAELYSMYVGESEALLRNTFQRA  379 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~------------------------~~~i~~~~~~~~~~g~~~~~~~~~~~~a  379 (441)
                      +..+||+||+|+|||++|+.++..+.+.                        +..+...   +  ..-..+.++.+.+.+
T Consensus        14 ~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~---~--~~~~~~~i~~i~~~~   88 (188)
T TIGR00678        14 AHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPE---G--QSIKVDQVRELVEFL   88 (188)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEeccc---c--CcCCHHHHHHHHHHH
Confidence            3458999999999999999999987542                        1111110   0  001235666667666


Q ss_pred             Hh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEee
Q 013506          380 RL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPIS  435 (441)
Q Consensus       380 ~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~  435 (441)
                      ..    ....|+||||+|.+.              ....+.||+.|+..++...+|+++.
T Consensus        89 ~~~~~~~~~kviiide~~~l~--------------~~~~~~Ll~~le~~~~~~~~il~~~  134 (188)
T TIGR00678        89 SRTPQESGRRVVIIEDAERMN--------------EAAANALLKTLEEPPPNTLFILITP  134 (188)
T ss_pred             ccCcccCCeEEEEEechhhhC--------------HHHHHHHHHHhcCCCCCeEEEEEEC
Confidence            43    445699999999884              2457889999998655444444443

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.

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.79  E-value=2.3e-07  Score=91.87  Aligned_cols=62  Identities=32%  Similarity=0.433  Sum_probs=43.5

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCceEEe
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSL  355 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~----------~~~~~~i  355 (441)
                      ...++++.|.....+.+...+..             ..+.+++|+|||||||||+|+++++..          +.+++.+
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            34567777877666655443321             224579999999999999999998765          3467888


Q ss_pred             chhhh
Q 013506          356 SGAEL  360 (441)
Q Consensus       356 ~~~~~  360 (441)
                      ++..+
T Consensus       217 ~~~~l  221 (615)
T TIGR02903       217 DGTTL  221 (615)
T ss_pred             echhc
Confidence            87654

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.

>PF13173 AAA_14: AAA domain

Probab=98.79  E-value=5.4e-08  Score=76.27  Aligned_cols=119  Identities=24%  Similarity=0.395  Sum_probs=70.4

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhC--CcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccccccc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECG--AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCP  130 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~--~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~  130 (441)
                      ...++|+||.||||||+++.++..+.  .++++++..+..........  +...+.+.    ...++.++||||++.+. 
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~~~~~~--~~~~~~~~----~~~~~~~i~iDEiq~~~-   74 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRRLADPD--LLEYFLEL----IKPGKKYIFIDEIQYLP-   74 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHHHhhhh--hHHHHHHh----hccCCcEEEEehhhhhc-
Confidence            35689999999999999999998876  67788877654332111100  12222221    11246799999998762 


Q ss_pred             CCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCcc----CHHHhhCCccceEEEecCCCHHH
Q 013506          131 RRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI----DPALRRSGRFDAEVEVTVPTAEE  198 (441)
Q Consensus       131 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l----~~~l~~~~r~~~~i~~~~p~~~~  198 (441)
                                .+...+..+.+..       +++.++.|++....+    ...+  .||.. .+.+.+.+..|
T Consensus        75 ----------~~~~~lk~l~d~~-------~~~~ii~tgS~~~~l~~~~~~~l--~gr~~-~~~l~Plsf~E  126 (128)
T PF13173_consen   75 ----------DWEDALKFLVDNG-------PNIKIILTGSSSSLLSKDIAESL--AGRVI-EIELYPLSFRE  126 (128)
T ss_pred             ----------cHHHHHHHHHHhc-------cCceEEEEccchHHHhhcccccC--CCeEE-EEEECCCCHHH
Confidence                      3444444555533       134555554443322    2233  23664 68888887765

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.79  E-value=4.3e-08  Score=92.12  Aligned_cols=126  Identities=22%  Similarity=0.262  Sum_probs=74.3

Q ss_pred             cccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcC---------CceEEechhhhh
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE---------ASFFSLSGAELY  361 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~---------~~~~~i~~~~~~  361 (441)
                      .+.+.+...+.+...+...+.        + ..+.+++++||||||||++++.++..+.         ..++.+++....
T Consensus        16 ~l~gRe~e~~~l~~~l~~~~~--------~-~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~   86 (365)
T TIGR02928        16 RIVHRDEQIEELAKALRPILR--------G-SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILD   86 (365)
T ss_pred             CCCCcHHHHHHHHHHHHHHHc--------C-CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCC
Confidence            456666666666665543211        1 2345799999999999999999987652         356677764422


Q ss_pred             hh----------cc--C--------chHHHHHHHHHHHHh-cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHH
Q 013506          362 SM----------YV--G--------ESEALLRNTFQRARL-AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTE  420 (441)
Q Consensus       362 ~~----------~~--g--------~~~~~~~~~~~~a~~-~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~  420 (441)
                      +.          ..  +        ...+.++.+++.... ..+.||+|||+|.+...           .+.++..|+..
T Consensus        87 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~-----------~~~~L~~l~~~  155 (365)
T TIGR02928        87 TLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGD-----------DDDLLYQLSRA  155 (365)
T ss_pred             CHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccC-----------CcHHHHhHhcc
Confidence            11          10  1        112334555555432 45679999999999721           12456677766


Q ss_pred             --hcCCCCCCeEEEEeee
Q 013506          421 --MDGLEQAKVIIYPISF  436 (441)
Q Consensus       421 --l~~~~~~~~v~~~~~~  436 (441)
                        ....++...++|+.+|
T Consensus       156 ~~~~~~~~~~v~lI~i~n  173 (365)
T TIGR02928       156 RSNGDLDNAKVGVIGISN  173 (365)
T ss_pred             ccccCCCCCeEEEEEEEC
Confidence              3344434455555554

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.

>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=98.78  E-value=1.3e-09  Score=82.31  Aligned_cols=77  Identities=32%  Similarity=0.390  Sum_probs=46.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEechh------hhhhhccCchHHH-----HHHHHHHHHhcCCeEEEEecccc
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA------ELYSMYVGESEAL-----LRNTFQRARLAAPSIIFFDEADV  394 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~------~~~~~~~g~~~~~-----~~~~~~~a~~~~~~vl~iDE~d~  394 (441)
                      |+||.|+||+|||++|+++|..++..+.++..+      |+.+..+-+.+..     -.-+|       ..|+++||+-.
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdllPsDi~G~~v~~~~~~~f~~~~GPif-------~~ill~DEiNr   73 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLLPSDILGFPVYDQETGEFEFRPGPIF-------TNILLADEINR   73 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--HHHHHEEEEEETTTTEEEEEE-TT--------SSEEEEETGGG
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCCcccceeeeeeccCCCeeEeecChhh-------hceeeeccccc
Confidence            789999999999999999999999999888763      3333211111100     01122       13999999998


Q ss_pred             cccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          395 VGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       395 ~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                      ..|              +.-+.||+.|..
T Consensus        74 app--------------ktQsAlLeam~E   88 (131)
T PF07726_consen   74 APP--------------KTQSALLEAMEE   88 (131)
T ss_dssp             S-H--------------HHHHHHHHHHHH
T ss_pred             CCH--------------HHHHHHHHHHHc
Confidence            865              567888888873

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.

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.76  E-value=3.4e-08  Score=85.50  Aligned_cols=99  Identities=16%  Similarity=0.198  Sum_probs=67.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCc---hHHHHHHHHHHHHhcCCeEEEEecccccccc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGE---SEALLRNTFQRARLAAPSIIFFDEADVVGAK  398 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~---~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~  398 (441)
                      .+++|+|+||||||+++.++|..+   +..++.++.+++.......   .......+++..  ....+|+|||++...  
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~l~~~l~~~~~~~~~~~~~~l~~l--~~~dlLvIDDig~~~--  175 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSAMKDTFSNSETSEEQLLNDL--SNVDLLVIDEIGVQT--  175 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHHHHHHHHHHHhhccccHHHHHHHh--ccCCEEEEeCCCCCC--
Confidence            479999999999999999999887   6788888888887643221   112233455543  246699999998764  


Q ss_pred             cCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          399 RGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       399 r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                             .+.+...++..++..-   .....-+|+.||+
T Consensus       176 -------~s~~~~~~l~~Ii~~R---y~~~~~tiitSNl  204 (244)
T PRK07952        176 -------ESRYEKVIINQIVDRR---SSSKRPTGMLTNS  204 (244)
T ss_pred             -------CCHHHHHHHHHHHHHH---HhCCCCEEEeCCC
Confidence                   2234455666666543   2334567777875

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.76  E-value=1.9e-08  Score=96.63  Aligned_cols=71  Identities=14%  Similarity=0.241  Sum_probs=50.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc-----CCceEEechhhhhhhccCchHHH-HHHHHHHHHhcCCeEEEEeccccccc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSMYVGESEAL-LRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~-----~~~~~~i~~~~~~~~~~g~~~~~-~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      ..++|+||+|+|||+|+++++..+     +..++.++..++...+....... ...+.+..+  ...+|+|||++.+.+
T Consensus       149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~--~~dlLiiDDi~~l~~  225 (450)
T PRK00149        149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSEKFTNDFVNALRNNTMEEFKEKYR--SVDVLLIDDIQFLAG  225 (450)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHcCcHHHHHHHHh--cCCEEEEehhhhhcC
Confidence            458999999999999999999887     45688888888766554333221 222222222  466999999999863

>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=98.75  E-value=3.6e-07  Score=78.56  Aligned_cols=135  Identities=19%  Similarity=0.231  Sum_probs=74.2

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCC
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR  132 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~  132 (441)
                      ..+..++||+|||||+.++.+++.++..++.+++.+..+      ...+..++.-....     +.++++||+|.+-.+.
T Consensus        32 ~~~~~~~GpagtGKtetik~La~~lG~~~~vfnc~~~~~------~~~l~ril~G~~~~-----GaW~cfdefnrl~~~v  100 (231)
T PF12774_consen   32 NLGGALSGPAGTGKTETIKDLARALGRFVVVFNCSEQMD------YQSLSRILKGLAQS-----GAWLCFDEFNRLSEEV  100 (231)
T ss_dssp             TTEEEEESSTTSSHHHHHHHHHHCTT--EEEEETTSSS-------HHHHHHHHHHHHHH-----T-EEEEETCCCSSHHH
T ss_pred             CCCCCCcCCCCCCchhHHHHHHHHhCCeEEEeccccccc------HHHHHHHHHHHhhc-----CchhhhhhhhhhhHHH
Confidence            456789999999999999999999999999999877332      34455556554443     7899999999873211


Q ss_pred             CCCchhhHHHHHHHHHHHhcCCC-------CCCCCCeEEEEEEcCCC----CccCHHHhhCCccceEEEecCCCHHHHHH
Q 013506          133 DHRREQDVRIASQLFTLMDSNKP-------SKTSVPHVVVVASTNRV----DAIDPALRRSGRFDAEVEVTVPTAEERFE  201 (441)
Q Consensus       133 ~~~~~~~~~~~~~l~~~~~~~~~-------~~~~~~~~~vi~~~~~~----~~l~~~l~~~~r~~~~i~~~~p~~~~~~~  201 (441)
                      -   +.-...+..+...+.....       ...-.++.-+..|+|+.    ..+|+.++.  -| +.+.+..||.....+
T Consensus       101 L---S~i~~~i~~i~~al~~~~~~~~~~g~~i~l~~~~~iFiT~np~y~gr~~LP~nLk~--lF-Rpvam~~PD~~~I~e  174 (231)
T PF12774_consen  101 L---SVISQQIQSIQDALRAKQKSFTLEGQEIKLNPNCGIFITMNPGYAGRSELPENLKA--LF-RPVAMMVPDLSLIAE  174 (231)
T ss_dssp             H---HHHHHHHHHHHHHHHCTSSEEEETTCEEE--TT-EEEEEE-B-CCCC--S-HHHCT--TE-EEEE--S--HHHHHH
T ss_pred             H---HHHHHHHHHHHHhhcccccccccCCCEEEEccceeEEEeeccccCCcccCCHhHHH--Hh-heeEEeCCCHHHHHH
Confidence            0   0000111222222221110       01112344556667653    378888875  44 579999999888766


Q ss_pred             HHH
Q 013506          202 ILK  204 (441)
Q Consensus       202 il~  204 (441)
                      ++-
T Consensus       175 i~L  177 (231)
T PF12774_consen  175 ILL  177 (231)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>PRK08181 transposase; Validated

Probab=98.75  E-value=1.3e-08  Score=89.38  Aligned_cols=87  Identities=25%  Similarity=0.371  Sum_probs=51.8

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccc-hHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGE-SEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~  127 (441)
                      .+.+++|+||||||||+|+.+++..+   +..+++++..++....... ........+...      .+.++|+|||+..
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            45789999999999999999998755   5566666665543321100 000111222221      2367999999976


Q ss_pred             cccCCCCCchhhHHHHHHHHHHHhc
Q 013506          128 LCPRRDHRREQDVRIASQLFTLMDS  152 (441)
Q Consensus       128 l~~~~~~~~~~~~~~~~~l~~~~~~  152 (441)
                      +..        +......++.+++.
T Consensus       179 ~~~--------~~~~~~~Lf~lin~  195 (269)
T PRK08181        179 VTK--------DQAETSVLFELISA  195 (269)
T ss_pred             ccC--------CHHHHHHHHHHHHH
Confidence            532        12334555665554

>PF13173 AAA_14: AAA domain

Probab=98.75  E-value=4.1e-08  Score=76.92  Aligned_cols=98  Identities=23%  Similarity=0.198  Sum_probs=62.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC--CceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCC
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAE--ASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGS  402 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~--~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~  402 (441)
                      ..+++.||.||||||+++.++..+.  .+.+.++..+.........+  +.+.+.+.....+.++||||+..+..     
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~i~iDEiq~~~~-----   75 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRRLADPD--LLEYFLELIKPGKKYIFIDEIQYLPD-----   75 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHHHhhhh--hHHHHHHhhccCCcEEEEehhhhhcc-----
Confidence            3578999999999999999998776  77777777665442111111  22333332223567999999998731     


Q ss_pred             CCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeeeeec
Q 013506          403 SSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFIFQL  440 (441)
Q Consensus       403 ~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~~~~  440 (441)
                             ....+..+..    ......+++.||+...+
T Consensus        76 -------~~~~lk~l~d----~~~~~~ii~tgS~~~~l  102 (128)
T PF13173_consen   76 -------WEDALKFLVD----NGPNIKIILTGSSSSLL  102 (128)
T ss_pred             -------HHHHHHHHHH----hccCceEEEEccchHHH
Confidence                   1233333332    23456888888876543

>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=98.75  E-value=7.1e-09  Score=85.82  Aligned_cols=45  Identities=38%  Similarity=0.544  Sum_probs=35.5

Q ss_pred             cccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          289 WEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       289 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.++.|++.+|..+.-...            +   +.|+|++||||||||++|+.+..++
T Consensus         2 f~dI~GQe~aKrAL~iAAa------------G---~h~lLl~GppGtGKTmlA~~l~~lL   46 (206)
T PF01078_consen    2 FSDIVGQEEAKRALEIAAA------------G---GHHLLLIGPPGTGKTMLARRLPSLL   46 (206)
T ss_dssp             TCCSSSTHHHHHHHHHHHH------------C---C--EEEES-CCCTHHHHHHHHHHCS
T ss_pred             hhhhcCcHHHHHHHHHHHc------------C---CCCeEEECCCCCCHHHHHHHHHHhC
Confidence            5678899999998775543            2   3589999999999999999999988

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.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=98.75  E-value=4.9e-08  Score=95.07  Aligned_cols=60  Identities=25%  Similarity=0.386  Sum_probs=44.0

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCceEEe
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSL  355 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~----------~~~~~~i  355 (441)
                      ...++++.|.....+.+...+.             -..+.+++|+||||||||++|+++.+.+          +.+++.+
T Consensus        61 p~~f~~iiGqs~~i~~l~~al~-------------~~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~i  127 (531)
T TIGR02902        61 PKSFDEIIGQEEGIKALKAALC-------------GPNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEI  127 (531)
T ss_pred             cCCHHHeeCcHHHHHHHHHHHh-------------CCCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEE
Confidence            3467788888877766654321             1234589999999999999999998652          3578888


Q ss_pred             chh
Q 013506          356 SGA  358 (441)
Q Consensus       356 ~~~  358 (441)
                      +++
T Consensus       128 d~~  130 (531)
T TIGR02902       128 DAT  130 (531)
T ss_pred             ccc
Confidence            875

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.

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=98.74  E-value=8.8e-08  Score=95.84  Aligned_cols=176  Identities=20%  Similarity=0.147  Sum_probs=96.2

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHh--------cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQK--------LGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH   90 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~--------~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~   90 (441)
                      ..|.|.+.+|+.|.-.+.--.........        ..+...-+|||+|+||||||.+++.+........ ++++..+.
T Consensus       450 P~I~G~e~vK~ailL~L~gG~~k~~~~~~~~dg~~~~~~iRgdihVLLvGDPGTGKSqLAr~Ih~lspR~~-ytsG~~~s  528 (915)
T PTZ00111        450 PSIKARNNVKIGLLCQLFSGNKNSSDFNKSPDACYKVDNFRGIINVLLCGDPGTAKSQLLHYTHLLSPRSI-YTSGKSSS  528 (915)
T ss_pred             CeEECCHHHHHHHHHHHhcCCccccccccccccccccccccCCceEEEeCCCCccHHHHHHHHHHhCCccc-cCCCCCCc
Confidence            46788888888775444211100000000        1233445999999999999999999988654322 11221111


Q ss_pred             cccccchHHHHH---HHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-------CCCC
Q 013506           91 KAHVGESEKALR---EAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-------KTSV  160 (441)
Q Consensus        91 ~~~~~~~~~~~~---~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-------~~~~  160 (441)
                      ............   .-+..-.........++|+|||++.+          +...+..|+..++.....       ..-.
T Consensus       529 ~vgLTa~~~~~d~~tG~~~le~GaLvlAdgGtL~IDEidkm----------s~~~Q~aLlEaMEqqtIsI~KaGi~~tL~  598 (915)
T PTZ00111        529 SVGLTASIKFNESDNGRAMIQPGAVVLANGGVCCIDELDKC----------HNESRLSLYEVMEQQTVTIAKAGIVATLK  598 (915)
T ss_pred             cccccchhhhcccccCcccccCCcEEEcCCCeEEecchhhC----------CHHHHHHHHHHHhCCEEEEecCCcceecC
Confidence            100000000000   00000000111233579999999987          335667778887654311       1122


Q ss_pred             CeEEEEEEcCCCC-------------ccCHHHhhCCccceEE-EecCCCHHHHHHHHHHHh
Q 013506          161 PHVVVVASTNRVD-------------AIDPALRRSGRFDAEV-EVTVPTAEERFEILKLYT  207 (441)
Q Consensus       161 ~~~~vi~~~~~~~-------------~l~~~l~~~~r~~~~i-~~~~p~~~~~~~il~~~~  207 (441)
                      .++.||+++|+.+             .+++.+++  ||+.++ .++.|+.+.=..|..+.+
T Consensus       599 ar~rVIAAaNP~~gryd~~~s~~eni~Lp~~LLS--RFDLIf~l~D~~d~~~D~~lA~hI~  657 (915)
T PTZ00111        599 AETAILASCNPINSRYNKNKAVIENINISPSLFT--RFDLIYLVLDHIDQDTDQLISLSIA  657 (915)
T ss_pred             CCeEEEEEcCCcccccCcccCcccccCCChHHhh--hhcEEEEecCCCChHHHHHHHHHHH
Confidence            4689999999853             56789999  998654 466666665555554444

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=98.74  E-value=4.8e-08  Score=89.52  Aligned_cols=122  Identities=15%  Similarity=0.123  Sum_probs=75.4

Q ss_pred             cccccC-chhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCce-------EEec----
Q 013506          289 WEDIGG-LRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF-------FSLS----  356 (441)
Q Consensus       289 ~~~i~g-~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~-------~~i~----  356 (441)
                      |..+.| ++.+.+.+...+..           + ..+..+||+||+|+||+++|+.+|..+-+.-       -.+.    
T Consensus         4 ~~~i~~~q~~~~~~L~~~~~~-----------~-~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c~~   71 (329)
T PRK08058          4 WEQLTALQPVVVKMLQNSIAK-----------N-RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNCKR   71 (329)
T ss_pred             HHHHHhhHHHHHHHHHHHHHc-----------C-CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHHHH
Confidence            445555 77777777776542           1 2233469999999999999999999874321       0000    


Q ss_pred             -----hhhhhh-hccCc--hHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCC
Q 013506          357 -----GAELYS-MYVGE--SEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL  424 (441)
Q Consensus       357 -----~~~~~~-~~~g~--~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~  424 (441)
                           -+|+.- ...|.  ..+.++.+.+.+.    .+...|++|||+|.+-              ....|.||+.|+..
T Consensus        72 ~~~~~hpD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~--------------~~a~NaLLK~LEEP  137 (329)
T PRK08058         72 IDSGNHPDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMT--------------ASAANSLLKFLEEP  137 (329)
T ss_pred             HhcCCCCCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhC--------------HHHHHHHHHHhcCC
Confidence                 011100 00111  1345666665543    3445699999999873              46789999999986


Q ss_pred             CCCCeEEEEeee
Q 013506          425 EQAKVIIYPISF  436 (441)
Q Consensus       425 ~~~~~v~~~~~~  436 (441)
                      ++....|+++++
T Consensus       138 p~~~~~Il~t~~  149 (329)
T PRK08058        138 SGGTTAILLTEN  149 (329)
T ss_pred             CCCceEEEEeCC
Confidence            655555555444

>PRK09183 transposase/IS protein; Provisional

Probab=98.74  E-value=1.8e-08  Score=88.72  Aligned_cols=74  Identities=26%  Similarity=0.316  Sum_probs=51.6

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccC-chHHHHHHHHHHHHhcCCeEEEEecccccc
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVG-ESEALLRNTFQRARLAAPSIIFFDEADVVG  396 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g-~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~  396 (441)
                      ..+.+++|+||||||||++|.+++..+   |..+..++..++...+.. .....+..+++... ..+.+++|||+....
T Consensus       100 ~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~l~~~l~~a~~~~~~~~~~~~~~-~~~dlLiiDdlg~~~  177 (259)
T PRK09183        100 ERNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQLSTAQRQGRYKTTLQRGV-MAPRLLIIDEIGYLP  177 (259)
T ss_pred             hcCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHHHHHHHHHHHHCCcHHHHHHHHh-cCCCEEEEcccccCC
Confidence            345689999999999999999997664   667777777776643321 11123455665542 456699999998753

>PRK12377 putative replication protein; Provisional

Probab=98.74  E-value=6.2e-08  Score=84.12  Aligned_cols=70  Identities=21%  Similarity=0.310  Sum_probs=42.9

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccchH--HHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESE--KALREAFSQASSHALSGKPSVVFIDEIDA  127 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~il~iDe~~~  127 (441)
                      ..+++|+||||||||+|+.++++.+   +..+++++..++.........  ......+..      ..+.++|+|||+..
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~l~~~l~~~~~~~~~~~~~l~~------l~~~dLLiIDDlg~  174 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMSRLHESYDNGQSGEKFLQE------LCKVDLLVLDEIGI  174 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHHHHHHHHHhccchHHHHHHH------hcCCCEEEEcCCCC
Confidence            3689999999999999999999887   445666655443321110000  000111111      13468999999964


Q ss_pred             c
Q 013506          128 L  128 (441)
Q Consensus       128 l  128 (441)
                      .
T Consensus       175 ~  175 (248)
T PRK12377        175 Q  175 (248)
T ss_pred             C
Confidence            3

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=98.73  E-value=6.8e-08  Score=94.56  Aligned_cols=30  Identities=20%  Similarity=0.298  Sum_probs=26.6

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+.++..+.|+||+|+|||||++.+++.+.
T Consensus        27 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   56 (506)
T PRK13549         27 KVRAGEIVSLCGENGAGKSTLMKVLSGVYP   56 (506)
T ss_pred             EEeCCeEEEEECCCCCCHHHHHHHHhCCCC
Confidence            456788999999999999999999998764

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.73  E-value=3.3e-08  Score=86.24  Aligned_cols=64  Identities=25%  Similarity=0.283  Sum_probs=47.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVG  396 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~  396 (441)
                      .+.+++|+||+|||||++|+.++..+   +.+++.++++++....        ..++...  ....+|+|||++.+.
T Consensus        37 ~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~~~~--------~~~~~~~--~~~~lLvIDdi~~l~  103 (226)
T TIGR03420        37 GDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQAD--------PEVLEGL--EQADLVCLDDVEAIA  103 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHHHhH--------HHHHhhc--ccCCEEEEeChhhhc
Confidence            45689999999999999999999876   4677888887765421        2233322  234599999999885

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.

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=98.72  E-value=5.7e-08  Score=90.11  Aligned_cols=86  Identities=21%  Similarity=0.390  Sum_probs=54.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc-------eEEech----hhhhhhc----cCch--HHHHHHHHHHHHhc--CC
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEAS-------FFSLSG----AELYSMY----VGES--EALLRNTFQRARLA--AP  384 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~-------~~~i~~----~~~~~~~----~g~~--~~~~~~~~~~a~~~--~~  384 (441)
                      +.+++|+||||||||++|+.+|..+...       .+....    .+++..+    +|-.  ...+.++++.|...  .+
T Consensus       194 ~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP~~vgy~~~~G~f~~~~~~A~~~p~~~  273 (459)
T PRK11331        194 KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRPNGVGFRRKDGIFYNFCQQAKEQPEKK  273 (459)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCCCCCCeEecCchHHHHHHHHHhcccCC
Confidence            5689999999999999999999987532       222222    2222111    1111  11234556666543  47


Q ss_pred             eEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhc
Q 013506          385 SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (441)
Q Consensus       385 ~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~  422 (441)
                      .||||||++....             .+++.++++.|+
T Consensus       274 ~vliIDEINRani-------------~kiFGel~~lLE  298 (459)
T PRK11331        274 YVFIIDEINRANL-------------SKVFGEVMMLME  298 (459)
T ss_pred             cEEEEehhhccCH-------------HHhhhhhhhhcc
Confidence            8999999998753             356666666665

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=98.72  E-value=5.6e-08  Score=87.92  Aligned_cols=122  Identities=15%  Similarity=0.145  Sum_probs=80.0

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCce----------EEech
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF----------FSLSG  357 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~----------~~i~~  357 (441)
                      .|.++.|++.+++.+...+..           + +.+..+||+||.|+||+++|..+|..+-+.-          -..+-
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-----------N-RIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNH   69 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHh-----------C-CCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCC
Confidence            367889999999998888763           1 2234689999999999999999999874321          01111


Q ss_pred             hhhhh--h-c--cCc--------------------hHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcc
Q 013506          358 AELYS--M-Y--VGE--------------------SEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSIT  408 (441)
Q Consensus       358 ~~~~~--~-~--~g~--------------------~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~  408 (441)
                      +|+.-  + |  .|.                    ..+.++.+.+.+.    .+...|++||++|++.            
T Consensus        70 PDl~~i~p~~~~~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~------------  137 (314)
T PRK07399         70 PDLLWVEPTYQHQGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMN------------  137 (314)
T ss_pred             CCEEEEeccccccccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcC------------
Confidence            12110  0 0  010                    1234566655553    3456799999999884            


Q ss_pred             hhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          409 VGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       409 ~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                        ....|.||+.|+..+ ...+|+++++
T Consensus       138 --~~aaNaLLK~LEEPp-~~~fILi~~~  162 (314)
T PRK07399        138 --EAAANALLKTLEEPG-NGTLILIAPS  162 (314)
T ss_pred             --HHHHHHHHHHHhCCC-CCeEEEEECC
Confidence              366899999999877 5555555444

>PRK06893 DNA replication initiation factor; Validated

Probab=98.71  E-value=8.2e-08  Score=83.36  Aligned_cols=92  Identities=13%  Similarity=0.129  Sum_probs=54.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCC
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGG  401 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~  401 (441)
                      ..++|+||||||||++++++|..+   +..+..+...+...        ....+++..  ....+|+|||++.+.+.+  
T Consensus        40 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~~--------~~~~~~~~~--~~~dlLilDDi~~~~~~~--  107 (229)
T PRK06893         40 PFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQY--------FSPAVLENL--EQQDLVCLDDLQAVIGNE--  107 (229)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhhh--------hhHHHHhhc--ccCCEEEEeChhhhcCCh--
Confidence            357999999999999999999876   34444444432111        111233332  244699999999886321  


Q ss_pred             CCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          402 SSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       402 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                            . ..+.+-.+++.+.  +....++++++|.
T Consensus       108 ------~-~~~~l~~l~n~~~--~~~~~illits~~  134 (229)
T PRK06893        108 ------E-WELAIFDLFNRIK--EQGKTLLLISADC  134 (229)
T ss_pred             ------H-HHHHHHHHHHHHH--HcCCcEEEEeCCC
Confidence                  1 2233334444432  2344567777764

>PRK08181 transposase; Validated

Probab=98.71  E-value=5.3e-08  Score=85.64  Aligned_cols=99  Identities=19%  Similarity=0.179  Sum_probs=64.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccC-chHHHHHHHHHHHHhcCCeEEEEeccccccccc
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVG-ESEALLRNTFQRARLAAPSIIFFDEADVVGAKR  399 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g-~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r  399 (441)
                      +.+++|+||||||||.+|.+++..+   |..++.++..++...+.. ..+....++++..  ..+.+|+|||+...... 
T Consensus       106 ~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l--~~~dLLIIDDlg~~~~~-  182 (269)
T PRK08181        106 GANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQVARRELQLESAIAKL--DKFDLLILDDLAYVTKD-  182 (269)
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHHHHHHHHHHhCCcHHHHHHHH--hcCCEEEEeccccccCC-
Confidence            4579999999999999999998754   778888888887765421 1112233444443  34569999999876431 


Q ss_pred             CCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          400 GGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       400 ~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                              ......+-.++...-+   . .=+|++||+
T Consensus       183 --------~~~~~~Lf~lin~R~~---~-~s~IiTSN~  208 (269)
T PRK08181        183 --------QAETSVLFELISARYE---R-RSILITANQ  208 (269)
T ss_pred             --------HHHHHHHHHHHHHHHh---C-CCEEEEcCC
Confidence                    2233445555544322   2 347777775

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=98.71  E-value=1.1e-07  Score=75.00  Aligned_cols=98  Identities=18%  Similarity=0.189  Sum_probs=61.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc--------CCceEEechhhhhhh--------------ccC-chHHH-HHHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA--------EASFFSLSGAELYSM--------------YVG-ESEAL-LRNTFQRA  379 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~--------~~~~~~i~~~~~~~~--------------~~g-~~~~~-~~~~~~~a  379 (441)
                      .+.++++||+|+|||++++.++..+        ..+++.++.+.....              ... .+... .+.+.+..
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            4568999999999999999999987        667777776543311              011 22333 33444444


Q ss_pred             HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          380 RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       380 ~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ......+|+|||+|.+.             ....++.|...++  +..-.+|++|+.
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            44444599999999974             1467788876666  555567776654

>PRK08116 hypothetical protein; Validated

Probab=98.70  E-value=5.6e-08  Score=86.08  Aligned_cols=100  Identities=14%  Similarity=0.129  Sum_probs=65.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhcc----CchHHHHHHHHHHHHhcCCeEEEEecccccc
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYV----GESEALLRNTFQRARLAAPSIIFFDEADVVG  396 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~----g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~  396 (441)
                      +.+++|+|++|||||.||.+++..+   +.+++.++.+++...+.    +........+++..  ....+|+|||+..--
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            3469999999999999999999976   67888888888765432    11112222344333  233599999996421


Q ss_pred             cccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          397 AKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       397 ~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                               ..   +...+.|...++.....+.-+|++||+
T Consensus       192 ---------~t---~~~~~~l~~iin~r~~~~~~~IiTsN~  220 (268)
T PRK08116        192 ---------DT---EWAREKVYNIIDSRYRKGLPTIVTTNL  220 (268)
T ss_pred             ---------CC---HHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence                     11   223455566666555566778888885

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.70  E-value=3.5e-08  Score=93.79  Aligned_cols=72  Identities=11%  Similarity=0.189  Sum_probs=49.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc-----CCceEEechhhhhhhccCchH-HHHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSMYVGESE-ALLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~-----~~~~~~i~~~~~~~~~~g~~~-~~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      .+++|+||+|+|||+|+++++..+     +..++.++..++...+..... ..+....+. ....+.+|+|||++.+.+
T Consensus       131 n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~~~~~~~~~~~~~~~f~~~-~~~~~dvLlIDDi~~l~~  208 (440)
T PRK14088        131 NPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKEGKLNEFREK-YRKKVDVLLIDDVQFLIG  208 (440)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHhcccHHHHHHH-HHhcCCEEEEechhhhcC
Confidence            358999999999999999999875     456788888876654432211 122222222 223567999999998863

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.70  E-value=3.4e-08  Score=93.71  Aligned_cols=71  Identities=14%  Similarity=0.233  Sum_probs=49.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc-----CCceEEechhhhhhhccCchHH-HHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSMYVGESEA-LLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~-----~~~~~~i~~~~~~~~~~g~~~~-~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      ..++|+||+|+|||+|+++++..+     +..++.++..++...+...... .+....+..  ....+|+|||++.+.+
T Consensus       137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~--~~~dlLiiDDi~~l~~  213 (405)
T TIGR00362       137 NPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTNDFVNALRNNKMEEFKEKY--RSVDLLLIDDIQFLAG  213 (405)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHHHHHHHHHcCCHHHHHHHH--HhCCEEEEehhhhhcC
Confidence            458999999999999999999876     5678888888776554332211 122222222  2356999999998863

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).

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=98.70  E-value=1.6e-07  Score=93.77  Aligned_cols=132  Identities=21%  Similarity=0.281  Sum_probs=89.4

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCC-CCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCcccc---
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGL-KWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHK---   91 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~---   91 (441)
                      +.|+||+++...|.+++.....      .++- ++...++|.||.|+|||-+|+++|..+   ...++.++.+++..   
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~------gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriDmse~~evsk  635 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRA------GLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLDMSEFQEVSK  635 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhc------ccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEechhhhhhhhh
Confidence            4599999999999999865322      1111 356789999999999999999999987   23578888775332   


Q ss_pred             ---c---cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCC-----CCCCCC
Q 013506           92 ---A---HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK-----PSKTSV  160 (441)
Q Consensus        92 ---~---~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~~~  160 (441)
                         .   +.+...  ...+.......    ..+|++|||++..          +..++..|+.+++..+     +...+.
T Consensus       636 ligsp~gyvG~e~--gg~Lteavrrr----P~sVVLfdeIEkA----------h~~v~n~llq~lD~GrltDs~Gr~Vd~  699 (898)
T KOG1051|consen  636 LIGSPPGYVGKEE--GGQLTEAVKRR----PYSVVLFEEIEKA----------HPDVLNILLQLLDRGRLTDSHGREVDF  699 (898)
T ss_pred             ccCCCcccccchh--HHHHHHHHhcC----CceEEEEechhhc----------CHHHHHHHHHHHhcCccccCCCcEeec
Confidence               1   222221  22223333322    3589999999865          4467777888887643     233445


Q ss_pred             CeEEEEEEcCCC
Q 013506          161 PHVVVVASTNRV  172 (441)
Q Consensus       161 ~~~~vi~~~~~~  172 (441)
                      .+++||+|+|.-
T Consensus       700 kN~I~IMTsn~~  711 (898)
T KOG1051|consen  700 KNAIFIMTSNVG  711 (898)
T ss_pred             cceEEEEecccc
Confidence            689999998863

>PRK13531 regulatory ATPase RavA; Provisional

Probab=98.69  E-value=2.6e-08  Score=93.17  Aligned_cols=98  Identities=26%  Similarity=0.357  Sum_probs=58.9

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCC--ceE--Ee---chhhhhhhccCchHHHH--HHHHHHHHhc---CCeEEEE
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEA--SFF--SL---SGAELYSMYVGESEALL--RNTFQRARLA---APSIIFF  389 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~~~--~~~--~i---~~~~~~~~~~g~~~~~~--~~~~~~a~~~---~~~vl~i  389 (441)
                      ..++|+||.||||||||++|++++...+.  ++.  .+   ..+++++..   +-...  ..-|.....+   ...++|+
T Consensus        37 lag~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~~~~fttp~DLfG~l---~i~~~~~~g~f~r~~~G~L~~A~lLfL  113 (498)
T PRK13531         37 LSGESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGPL---SIQALKDEGRYQRLTSGYLPEAEIVFL  113 (498)
T ss_pred             ccCCCEEEECCCChhHHHHHHHHHHHhcccCcceeeeeeecCcHHhcCcH---HHhhhhhcCchhhhcCCccccccEEee
Confidence            45779999999999999999999997743  222  22   233443321   00010  1112211111   2239999


Q ss_pred             ecccccccccCCCCCCCcchhhHHHHHHHHHhcCCC---------CCCeEEEEeee
Q 013506          390 DEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE---------QAKVIIYPISF  436 (441)
Q Consensus       390 DE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~---------~~~~v~~~~~~  436 (441)
                      |||.++.              ....+.||..|..-.         -..+++++|||
T Consensus       114 DEI~ras--------------p~~QsaLLeam~Er~~t~g~~~~~lp~rfiv~ATN  155 (498)
T PRK13531        114 DEIWKAG--------------PAILNTLLTAINERRFRNGAHEEKIPMRLLVTASN  155 (498)
T ss_pred             cccccCC--------------HHHHHHHHHHHHhCeEecCCeEEeCCCcEEEEECC
Confidence            9998664              367899999994311         12357777776

>PRK06526 transposase; Provisional

Probab=98.69  E-value=1.8e-08  Score=88.22  Aligned_cols=71  Identities=20%  Similarity=0.353  Sum_probs=41.6

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccc-hHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGE-SEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~  127 (441)
                      .+.+++|+||||||||+++.+++..+   +..+..++..++....... ........+..      ..++++|+|||++.
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            45789999999999999999998765   4444444443322211000 00011111111      12468999999986


Q ss_pred             c
Q 013506          128 L  128 (441)
Q Consensus       128 l  128 (441)
                      +
T Consensus       171 ~  171 (254)
T PRK06526        171 I  171 (254)
T ss_pred             C
Confidence            5

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=98.69  E-value=9.6e-07  Score=80.71  Aligned_cols=193  Identities=21%  Similarity=0.242  Sum_probs=117.7

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC----C-cEEEEccCcccccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG----A-HLTVISPHSVHKAH   93 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~----~-~~~~v~~~~~~~~~   93 (441)
                      ..+.|.|..+..+.+++..++.         ...+..+++.|-||||||.+..-+...+.    . ..+++++..+....
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            5789999999999998865432         35678899999999999999987765542    2 34677776532210


Q ss_pred             ---------------ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCC
Q 013506           94 ---------------VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKT  158 (441)
Q Consensus        94 ---------------~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  158 (441)
                                     ...........|......  ...+-++++||+|.|....       ..++..++.+-..      
T Consensus       221 aiF~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q--~k~~~llVlDEmD~L~tr~-------~~vLy~lFewp~l------  285 (529)
T KOG2227|consen  221 AIFKKIFSSLLQDLVSPGTGMQHLEKFEKHTKQ--SKFMLLLVLDEMDHLITRS-------QTVLYTLFEWPKL------  285 (529)
T ss_pred             HHHHHHHHHHHHHhcCCchhHHHHHHHHHHHhc--ccceEEEEechhhHHhhcc-------cceeeeehhcccC------
Confidence                           001111122222222211  1236799999999986322       1233333333222      


Q ss_pred             CCCeEEEEEEcCCCCccCH---HHhh-CCccceEEEecCCCHHHHHHHHHHHhccCCCCCc--ccHHHHHHHCCCCCHHH
Q 013506          159 SVPHVVVVASTNRVDAIDP---ALRR-SGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN--VDLEAIATSCNGYVGAD  232 (441)
Q Consensus       159 ~~~~~~vi~~~~~~~~l~~---~l~~-~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~--~~~~~l~~~~~g~~~~~  232 (441)
                      ...++++|+.+|..+.-|.   ++.. ..--...+.|++|+.++..+|+...+........  ..++..+....+.+ +|
T Consensus       286 p~sr~iLiGiANslDlTdR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~S-GD  364 (529)
T KOG2227|consen  286 PNSRIILIGIANSLDLTDRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPS-GD  364 (529)
T ss_pred             CcceeeeeeehhhhhHHHHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCc-hh
Confidence            2226888998888764332   2222 1111257899999999999999998887765433  23666777776554 45


Q ss_pred             HHHH
Q 013506          233 LEAL  236 (441)
Q Consensus       233 i~~l  236 (441)
                      ++.+
T Consensus       365 lRka  368 (529)
T KOG2227|consen  365 LRKA  368 (529)
T ss_pred             HHHH
Confidence            5443

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=98.68  E-value=8.5e-08  Score=76.24  Aligned_cols=107  Identities=30%  Similarity=0.462  Sum_probs=63.8

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCC---cEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccccc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGA---HLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDAL  128 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~---~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l  128 (441)
                      ...+|+|+|++||||+++|+++......   +++.+++....           .+.++.+       ++..|||+|++.+
T Consensus        20 ~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~-----------~~~l~~a-------~~gtL~l~~i~~L   81 (138)
T PF14532_consen   20 SSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLP-----------AELLEQA-------KGGTLYLKNIDRL   81 (138)
T ss_dssp             SSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTC-----------HHHHHHC-------TTSEEEEECGCCS
T ss_pred             CCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCc-----------HHHHHHc-------CCCEEEECChHHC
Confidence            4678999999999999999999876543   33333433321           2233332       3779999999988


Q ss_pred             ccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCC-C------ccCHHHhhCCccc-eEEEecC
Q 013506          129 CPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRV-D------AIDPALRRSGRFD-AEVEVTV  193 (441)
Q Consensus       129 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~-~------~l~~~l~~~~r~~-~~i~~~~  193 (441)
                                +...+..+...+......     ++.+|+++... .      .+++.+..  ++. ..+.+|+
T Consensus        82 ----------~~~~Q~~L~~~l~~~~~~-----~~RlI~ss~~~l~~l~~~~~~~~~L~~--~l~~~~i~lPp  137 (138)
T PF14532_consen   82 ----------SPEAQRRLLDLLKRQERS-----NVRLIASSSQDLEELVEEGRFSPDLYY--RLSQLEIHLPP  137 (138)
T ss_dssp             -----------HHHHHHHHHHHHHCTTT-----TSEEEEEECC-CCCHHHHSTHHHHHHH--HCSTCEEEE--
T ss_pred             ----------CHHHHHHHHHHHHhcCCC-----CeEEEEEeCCCHHHHhhccchhHHHHH--HhCCCEEeCCC
Confidence                      556778888888764311     24555555432 2      34555554  443 3455554

>PRK06526 transposase; Provisional

Probab=98.68  E-value=8.3e-08  Score=84.02  Aligned_cols=99  Identities=16%  Similarity=0.195  Sum_probs=59.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCc-hHHHHHHHHHHHHhcCCeEEEEeccccccccc
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGE-SEALLRNTFQRARLAAPSIIFFDEADVVGAKR  399 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~-~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r  399 (441)
                      +.+++|+||||||||++|.+++..+   |..+......++....... ....+...+...  ..+.+|+|||++..... 
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~~l~~~l~~~~~~~~~~~~l~~l--~~~dlLIIDD~g~~~~~-  174 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQWVARLAAAHHAGRLQAELVKL--GRYPLLIVDEVGYIPFE-  174 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHHHHHHHHHHHHhcCcHHHHHHHh--ccCCEEEEcccccCCCC-
Confidence            4589999999999999999998765   6666666666665432110 111222233322  34569999999987521 


Q ss_pred             CCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          400 GGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       400 ~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                              .....++-.++...-   .. ..+|++||.
T Consensus       175 --------~~~~~~L~~li~~r~---~~-~s~IitSn~  200 (254)
T PRK06526        175 --------PEAANLFFQLVSSRY---ER-ASLIVTSNK  200 (254)
T ss_pred             --------HHHHHHHHHHHHHHH---hc-CCEEEEcCC
Confidence                    222334444444332   22 347777775

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=98.68  E-value=5.7e-08  Score=94.84  Aligned_cols=30  Identities=33%  Similarity=0.471  Sum_probs=26.6

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.+.++..+.|+||+|+|||||++.+++.+
T Consensus        24 l~i~~Ge~~~liG~nGsGKSTLl~~l~G~~   53 (490)
T PRK10938         24 LTLNAGDSWAFVGANGSGKSALARALAGEL   53 (490)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            345688999999999999999999999875

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=98.66  E-value=2.4e-07  Score=90.68  Aligned_cols=29  Identities=21%  Similarity=0.339  Sum_probs=26.1

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      .+.++..+.|+||+|+|||||++.+++.+
T Consensus        26 ~i~~Ge~~~l~G~NGsGKSTLl~~l~G~~   54 (501)
T PRK10762         26 NVYPGRVMALVGENGAGKSTMMKVLTGIY   54 (501)
T ss_pred             EEcCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            45678999999999999999999999875

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.66  E-value=1.4e-07  Score=82.14  Aligned_cols=61  Identities=18%  Similarity=0.151  Sum_probs=44.8

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccc
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVG  396 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~  396 (441)
                      ....+++|+||+|||||++|++++...   +..++.++..+....            +.  ......+|+|||++.+.
T Consensus        40 ~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~~~~~~------------~~--~~~~~~~liiDdi~~l~  103 (227)
T PRK08903         40 VADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAASPLLA------------FD--FDPEAELYAVDDVERLD  103 (227)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehHHhHHH------------Hh--hcccCCEEEEeChhhcC
Confidence            345679999999999999999999875   557777777664321            11  12345699999999863

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.66  E-value=1.3e-07  Score=85.88  Aligned_cols=86  Identities=24%  Similarity=0.359  Sum_probs=51.1

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccc---hHHHHHHHHHHHHhhhhcCCCeEEEEcccc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGE---SEKALREAFSQASSHALSGKPSVVFIDEID  126 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~il~iDe~~  126 (441)
                      ..+++|+||+|||||+|+.+++..+   +..+++++..++.......   ........+...      ...++|+|||+.
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~l------~~~DLLIIDDlG  256 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILREIRFNNDKELEEVYDLL------INCDLLIIDDLG  256 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHHHHHhccchhHHHHHHHh------ccCCEEEEeccC
Confidence            3789999999999999999999886   5567777765543321100   000001111111      235799999986


Q ss_pred             ccccCCCCCchhhHHHHHHHHHHHhc
Q 013506          127 ALCPRRDHRREQDVRIASQLFTLMDS  152 (441)
Q Consensus       127 ~l~~~~~~~~~~~~~~~~~l~~~~~~  152 (441)
                      ....        .......++..++.
T Consensus       257 ~e~~--------t~~~~~~Lf~iin~  274 (329)
T PRK06835        257 TEKI--------TEFSKSELFNLINK  274 (329)
T ss_pred             CCCC--------CHHHHHHHHHHHHH
Confidence            5421        22334555665554

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=98.66  E-value=2.3e-07  Score=90.79  Aligned_cols=29  Identities=24%  Similarity=0.316  Sum_probs=26.0

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      .+.++..+.|+||+|+|||||++.+++.+
T Consensus        33 ~i~~Ge~~~liG~NGsGKSTLl~~l~Gl~   61 (510)
T PRK15439         33 TLHAGEVHALLGGNGAGKSTLMKIIAGIV   61 (510)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45678899999999999999999999875

>PRK09183 transposase/IS protein; Provisional

Probab=98.65  E-value=5.1e-08  Score=85.93  Aligned_cols=73  Identities=23%  Similarity=0.373  Sum_probs=44.6

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccc-hHHHHHHHHHHHHhhhhcCCCeEEEEcccc
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGE-SEKALREAFSQASSHALSGKPSVVFIDEID  126 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~il~iDe~~  126 (441)
                      ..+.+++|+||||||||+++.+++...   +..+.+++..++....... ....+...+....     ..+++++|||+.
T Consensus       100 ~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~l~~~l~~a~~~~~~~~~~~~~~-----~~~dlLiiDdlg  174 (259)
T PRK09183        100 ERNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQLSTAQRQGRYKTTLQRGV-----MAPRLLIIDEIG  174 (259)
T ss_pred             hcCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHHHHHHHHHHHHCCcHHHHHHHHh-----cCCCEEEEcccc
Confidence            456889999999999999999997654   4456666554433211000 0001222232211     246899999997


Q ss_pred             cc
Q 013506          127 AL  128 (441)
Q Consensus       127 ~l  128 (441)
                      ..
T Consensus       175 ~~  176 (259)
T PRK09183        175 YL  176 (259)
T ss_pred             cC
Confidence            64

>PRK12377 putative replication protein; Provisional

Probab=98.64  E-value=9.4e-08  Score=82.98  Aligned_cols=99  Identities=14%  Similarity=0.172  Sum_probs=61.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCch--HHHHHHHHHHHHhcCCeEEEEeccccccccc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGES--EALLRNTFQRARLAAPSIIFFDEADVVGAKR  399 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~--~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r  399 (441)
                      .+++|+||||||||+||.++|..+   +..++.+...++........  ......+++..  ....+|+|||+.....  
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~~l~~~l~~~~~~~~~~~~~l~~l--~~~dLLiIDDlg~~~~--  177 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVPDVMSRLHESYDNGQSGEKFLQEL--CKVDLLVLDEIGIQRE--  177 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHHHHHHHHHHHHhccchHHHHHHHh--cCCCEEEEcCCCCCCC--
Confidence            579999999999999999999887   56777888877766432110  01122334333  3456999999976531  


Q ss_pred             CCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          400 GGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       400 ~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                             +.+...++..++   +.-.....=+|++||+
T Consensus       178 -------s~~~~~~l~~ii---~~R~~~~~ptiitSNl  205 (248)
T PRK12377        178 -------TKNEQVVLNQII---DRRTASMRSVGMLTNL  205 (248)
T ss_pred             -------CHHHHHHHHHHH---HHHHhcCCCEEEEcCC
Confidence                   122334444444   4333333446777875

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.63  E-value=7.7e-08  Score=91.27  Aligned_cols=71  Identities=21%  Similarity=0.302  Sum_probs=49.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVG  396 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~  396 (441)
                      .+++|+||+|+|||+|+++++..+   +..++.++..++...+.......-...|.... ....+|+|||++.+.
T Consensus       142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~~~~~~l~~~~~~~f~~~~-~~~dvLiIDDiq~l~  215 (445)
T PRK12422        142 NPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTEHLVSAIRSGEMQRFRQFY-RNVDALFIEDIEVFS  215 (445)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHHHHHHHHhcchHHHHHHHc-ccCCEEEEcchhhhc
Confidence            468999999999999999999876   67888888876655433222111112233332 345699999999875

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=98.63  E-value=3.7e-07  Score=89.81  Aligned_cols=29  Identities=21%  Similarity=0.232  Sum_probs=26.2

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      .+..+..+.|+||+|+|||||++.+++..
T Consensus        22 ~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   50 (520)
T TIGR03269        22 TIEEGEVLGILGRSGAGKSVLMHVLRGMD   50 (520)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            45678999999999999999999999974

The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.

>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=98.63  E-value=4.5e-07  Score=79.46  Aligned_cols=178  Identities=27%  Similarity=0.360  Sum_probs=90.5

Q ss_pred             cchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcE---EEEccCccc-cc-----
Q 013506           22 GGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL---TVISPHSVH-KA-----   92 (441)
Q Consensus        22 ~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~---~~v~~~~~~-~~-----   92 (441)
                      +|.++..+.|.+++..             .+...++|+||.|+|||++++.+...+...-   ++++..... ..     
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            6788888888886644             2457899999999999999999999874321   111111000 00     


Q ss_pred             -----------------------------cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccc-cCCCCCchhhHHH
Q 013506           93 -----------------------------HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALC-PRRDHRREQDVRI  142 (441)
Q Consensus        93 -----------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~-~~~~~~~~~~~~~  142 (441)
                                                   ........+..++......   +...+++|||++.+. ...     .....
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                                         0001112223333332221   234899999999986 211     12355


Q ss_pred             HHHHHHHHhcCCCCCCCCCeEEEEEEcCCCC---c---cCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCC---
Q 013506          143 ASQLFTLMDSNKPSKTSVPHVVVVASTNRVD---A---IDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD---  213 (441)
Q Consensus       143 ~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~---~---l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~---  213 (441)
                      ...+...++.....    .++.+|.+.....   .   -...+..  |+.. +.+++.+.++..+++....... ..   
T Consensus       141 ~~~l~~~~~~~~~~----~~~~~v~~~S~~~~~~~~~~~~~~~~~--~~~~-~~l~~l~~~e~~~~~~~~~~~~-~~~~~  212 (234)
T PF01637_consen  141 LKSLRSLLDSLLSQ----QNVSIVITGSSDSLMEEFLDDKSPLFG--RFSH-IELKPLSKEEAREFLKELFKEL-IKLPF  212 (234)
T ss_dssp             HHHHHHHHHH--------TTEEEEEEESSHHHHHHTT-TTSTTTT-----E-EEE----HHHHHHHHHHHHHCC------
T ss_pred             HHHHHHHHhhcccc----CCceEEEECCchHHHHHhhcccCcccc--ccce-EEEeeCCHHHHHHHHHHHHHHh-hcccC
Confidence            66666666652211    1233333332211   1   1112322  6665 9999999999999999876665 22   


Q ss_pred             CcccHHHHHHHCCCC
Q 013506          214 ANVDLEAIATSCNGY  228 (441)
Q Consensus       214 ~~~~~~~l~~~~~g~  228 (441)
                      .+..++.+...+.|.
T Consensus       213 ~~~~~~~i~~~~gG~  227 (234)
T PF01637_consen  213 SDEDIEEIYSLTGGN  227 (234)
T ss_dssp             -HHHHHHHHHHHTT-
T ss_pred             CHHHHHHHHHHhCCC
Confidence            344466667666664

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=98.63  E-value=1.3e-06  Score=86.00  Aligned_cols=51  Identities=25%  Similarity=0.402  Sum_probs=42.8

Q ss_pred             cccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      +...+++++|++++++.|..++..               +++++|+||||||||++++.++..++.
T Consensus        26 ~~~~~~~vigq~~a~~~L~~~~~~---------------~~~~l~~G~~G~GKttla~~l~~~l~~   76 (637)
T PRK13765         26 PERLIDQVIGQEHAVEVIKKAAKQ---------------RRHVMMIGSPGTGKSMLAKAMAELLPK   76 (637)
T ss_pred             CcccHHHcCChHHHHHHHHHHHHh---------------CCeEEEECCCCCcHHHHHHHHHHHcCh
Confidence            345668999999999999887643               347999999999999999999987753

>COG4172 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]

Probab=98.62  E-value=3.7e-07  Score=81.87  Aligned_cols=71  Identities=20%  Similarity=0.233  Sum_probs=48.3

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcCC-ceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAEA-SFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~-~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      +.++++..+-++|.+||||||+.+++.+.... .-+...+.++-    +.+.+.++-+     ...-.|+|=|-.-++-|
T Consensus       308 l~L~~gqTlGlVGESGSGKsTlG~allrL~~s~G~I~F~G~~i~----~~~~~~mrpl-----R~~mQvVFQDPygSLsP  378 (534)
T COG4172         308 LTLRRGQTLGLVGESGSGKSTLGLALLRLIPSQGEIRFDGQDID----GLSRKEMRPL-----RRRMQVVFQDPYGSLSP  378 (534)
T ss_pred             eEecCCCeEEEEecCCCCcchHHHHHHhhcCcCceEEECCcccc----ccChhhhhhh-----hhhceEEEeCCCCCCCc
Confidence            34566778899999999999999999988743 34455554432    2333433332     23345999998888877


Q ss_pred             c
Q 013506          398 K  398 (441)
Q Consensus       398 ~  398 (441)
                      +
T Consensus       379 R  379 (534)
T COG4172         379 R  379 (534)
T ss_pred             c
Confidence            5

>PRK06921 hypothetical protein; Provisional

Probab=98.62  E-value=2.6e-07  Score=81.66  Aligned_cols=69  Identities=23%  Similarity=0.323  Sum_probs=41.9

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh----CCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC----GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l----~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~  127 (441)
                      ...+++|+||+|+|||+|+.++++.+    +..+++++..++....    ..... .+......  ..+.++|+|||++.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l~~~l----~~~~~-~~~~~~~~--~~~~dlLiIDDl~~  188 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGDL----KDDFD-LLEAKLNR--MKKVEVLFIDDLFK  188 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHHHHHH----HHHHH-HHHHHHHH--hcCCCEEEEecccc
Confidence            35789999999999999999999876    3455666554332211    11110 01111111  12467999999943

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=98.62  E-value=3.5e-07  Score=89.76  Aligned_cols=29  Identities=21%  Similarity=0.211  Sum_probs=26.0

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      .+.++..+.|+||+|+|||||++.+++.+
T Consensus        27 ~i~~Ge~~~liG~nGsGKSTLl~~i~Gl~   55 (510)
T PRK09700         27 TVYPGEIHALLGENGAGKSTLMKVLSGIH   55 (510)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHcCCc
Confidence            45678899999999999999999998865

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=98.61  E-value=3.2e-07  Score=88.67  Aligned_cols=195  Identities=18%  Similarity=0.235  Sum_probs=110.0

Q ss_pred             cccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccc
Q 013506           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHV   94 (441)
Q Consensus        18 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~   94 (441)
                      +..++|.....+.+.+.+...           .....+++++|++||||+++|+.+....   +.+++.++|..+.....
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            345666666655555544221           1245789999999999999999997654   45789999877532110


Q ss_pred             cchHHHHHHHHHHH-----------HhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCC-----CCC
Q 013506           95 GESEKALREAFSQA-----------SSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP-----SKT  158 (441)
Q Consensus        95 ~~~~~~~~~~~~~~-----------~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~-----~~~  158 (441)
                            -..+|...           ........++.|||||++.|          +...+..|+..++....     ...
T Consensus       207 ------~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l~~i~~l----------~~~~q~~l~~~l~~~~~~~~~~~~~  270 (445)
T TIGR02915       207 ------ESELFGYEKGAFTGAVKQTLGKIEYAHGGTLFLDEIGDL----------PLNLQAKLLRFLQERVIERLGGREE  270 (445)
T ss_pred             ------HHHhcCCCCCCcCCCccCCCCceeECCCCEEEEechhhC----------CHHHHHHHHHHHhhCeEEeCCCCce
Confidence                  01112110           00011234679999999988          44677788888765321     111


Q ss_pred             CCCeEEEEEEcCCC-------CccCHHHhhCCccceEEEecCCCHHHHHH----HHHHHhcc----CCCC----CcccHH
Q 013506          159 SVPHVVVVASTNRV-------DAIDPALRRSGRFDAEVEVTVPTAEERFE----ILKLYTKK----VPLD----ANVDLE  219 (441)
Q Consensus       159 ~~~~~~vi~~~~~~-------~~l~~~l~~~~r~~~~i~~~~p~~~~~~~----il~~~~~~----~~~~----~~~~~~  219 (441)
                      ...++.+|++++..       ..+.+.+..  |+. .+.+..|...+|.+    ++..++..    ....    ....++
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            12357888887764       234455544  443 34444454444432    33333322    1211    112245


Q ss_pred             HHHHHCCCCCHHHHHHHHHHHHH
Q 013506          220 AIATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       220 ~l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                      .+.......+.++++++++.+..
T Consensus       348 ~L~~~~wpgNvreL~~~i~~a~~  370 (445)
T TIGR02915       348 ALEAHAWPGNVRELENKVKRAVI  370 (445)
T ss_pred             HHHhCCCCChHHHHHHHHHHHHH
Confidence            55555555677888888887764

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).

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=98.61  E-value=1.5e-07  Score=85.59  Aligned_cols=103  Identities=15%  Similarity=0.104  Sum_probs=66.8

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCCce-------------------------EEechhhh----------------
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEASF-------------------------FSLSGAEL----------------  360 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~-------------------------~~i~~~~~----------------  360 (441)
                      +.+..+||+||+|+||+++|+.+|..+.+.-                         ..+.....                
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            3345688999999999999999999885521                         11111000                


Q ss_pred             --hhh----c-cCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCe
Q 013506          361 --YSM----Y-VGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKV  429 (441)
Q Consensus       361 --~~~----~-~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  429 (441)
                        .+.    + -.-..+.++.+.+.+.    .+...|++||++|++.              ...-|.||+.|+..+....
T Consensus        99 ~~~~~k~~~~~~~I~idqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~--------------~~AaNaLLKtLEEPp~~t~  164 (342)
T PRK06964         99 DEGGKKTKAPSKEIKIEQVRALLDFCGVGTHRGGARVVVLYPAEALN--------------VAAANALLKTLEEPPPGTV  164 (342)
T ss_pred             hcccccccccccccCHHHHHHHHHHhccCCccCCceEEEEechhhcC--------------HHHHHHHHHHhcCCCcCcE
Confidence              000    0 0012345666666553    3455699999999985              3678999999998666666


Q ss_pred             EEEEeeeee
Q 013506          430 IIYPISFIF  438 (441)
Q Consensus       430 v~~~~~~~~  438 (441)
                      +|+++++.-
T Consensus       165 fiL~t~~~~  173 (342)
T PRK06964        165 FLLVSARID  173 (342)
T ss_pred             EEEEECChh
Confidence            666666543

>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]

Probab=98.60  E-value=2e-07  Score=88.63  Aligned_cols=172  Identities=19%  Similarity=0.209  Sum_probs=91.7

Q ss_pred             cccchHHHHHHHHHHHHhhccCchHHHhcC-CCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccc----cc
Q 013506           20 AIGGNRAAVEALRELITFPLLYSSQAQKLG-LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA----HV   94 (441)
Q Consensus        20 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~----~~   94 (441)
                      .|.|+|++|+-|--.+--  .....+++.| ...--+|||||.||||||.+.+++.+...... ++++.....-    ++
T Consensus       430 sIye~edvKkglLLqLfG--Gt~k~~~~~~~~R~~INILL~GDPGtsKSqlLqyv~~l~pRg~-yTSGkGsSavGLTayV  506 (804)
T KOG0478|consen  430 SIYELEDVKKGLLLQLFG--GTRKEDEKSGRFRGDINILLVGDPGTSKSQLLQYCHRLLPRGV-YTSGKGSSAVGLTAYV  506 (804)
T ss_pred             hhhcccchhhhHHHHHhc--CCcccccccccccccceEEEecCCCcCHHHHHHHHHHhCCcce-eecCCccchhcceeeE
Confidence            466777777665533311  0112222222 22336899999999999999999998875443 3333211100    00


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCC-------CCCCeEEEEE
Q 013506           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK-------TSVPHVVVVA  167 (441)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-------~~~~~~~vi~  167 (441)
                      .. ....+++..+..+.. ....++++|||||.|-.          ....-|.+.|++.....       .-..+.-|+|
T Consensus       507 tr-d~dtkqlVLesGALV-LSD~GiCCIDEFDKM~d----------StrSvLhEvMEQQTvSIAKAGII~sLNAR~SVLA  574 (804)
T KOG0478|consen  507 TK-DPDTRQLVLESGALV-LSDNGICCIDEFDKMSD----------STRSVLHEVMEQQTLSIAKAGIIASLNARCSVLA  574 (804)
T ss_pred             Ee-cCccceeeeecCcEE-EcCCceEEchhhhhhhH----------HHHHHHHHHHHHhhhhHhhcceeeeccccceeee
Confidence            00 001111111111111 23467999999998821          22233344443321110       1122568889


Q ss_pred             EcCCCC-------------ccCHHHhhCCccceEEE-ecCCCHHHHHHHHHHHhc
Q 013506          168 STNRVD-------------AIDPALRRSGRFDAEVE-VTVPTAEERFEILKLYTK  208 (441)
Q Consensus       168 ~~~~~~-------------~l~~~l~~~~r~~~~i~-~~~p~~~~~~~il~~~~~  208 (441)
                      ++|+..             .++|.+++  ||+.++- +..+++..=..+..+...
T Consensus       575 aANP~~skynp~k~i~eNI~LpptLLS--RFDLIylllD~~DE~~Dr~La~Hivs  627 (804)
T KOG0478|consen  575 AANPIRSKYNPNKSIIENINLPPTLLS--RFDLIFLLLDKPDERSDRRLADHIVA  627 (804)
T ss_pred             eeccccccCCCCCchhhccCCChhhhh--hhcEEEEEecCcchhHHHHHHHHHHH
Confidence            998753             57899999  9996654 566666644555554443

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.60  E-value=2.9e-07  Score=79.76  Aligned_cols=69  Identities=25%  Similarity=0.409  Sum_probs=43.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccch---HHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGES---EKALREAFSQASSHALSGKPSVVFIDEIDA  127 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~il~iDe~~~  127 (441)
                      .+++|+|+||||||+++.+++..+   +..+++++..++........   ......+++..      .+.++|+|||+..
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            589999999999999999999887   55666666555432211100   00111122221      2478999999976


Q ss_pred             c
Q 013506          128 L  128 (441)
Q Consensus       128 l  128 (441)
                      .
T Consensus       174 ~  174 (244)
T PRK07952        174 Q  174 (244)
T ss_pred             C
Confidence            4

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=98.60  E-value=6.4e-08  Score=87.73  Aligned_cols=49  Identities=22%  Similarity=0.315  Sum_probs=38.2

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ..+..+.|++.+++.+.-....             ...+|+||.|+|||||||+|++++..+
T Consensus         5 ~~f~~i~Gq~~~~~~l~~~~~~-------------~~~~~vLl~G~pG~gKT~lar~la~ll   53 (334)
T PRK13407          5 FPFSAIVGQEEMKQAMVLTAID-------------PGIGGVLVFGDRGTGKSTAVRALAALL   53 (334)
T ss_pred             CCHHHhCCHHHHHHHHHHHHhc-------------cCCCcEEEEcCCCCCHHHHHHHHHHHC
Confidence            3577888988888876643211             123689999999999999999999998

>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=98.60  E-value=1.2e-07  Score=77.55  Aligned_cols=83  Identities=23%  Similarity=0.333  Sum_probs=55.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhh-----ccCch-------HHHHHHHHHHHHhcCCeEEE
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM-----YVGES-------EALLRNTFQRARLAAPSIIF  388 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~-----~~g~~-------~~~~~~~~~~a~~~~~~vl~  388 (441)
                      +.+++++|++||||+.+|+++-...   ..+++.++++.+...     ..|..       ...-.-+|..|..+   +||
T Consensus        22 ~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~~LFG~~~~~~~~~~~~~~G~l~~A~~G---tL~   98 (168)
T PF00158_consen   22 DLPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLESELFGHEKGAFTGARSDKKGLLEQANGG---TLF   98 (168)
T ss_dssp             TS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHHHHHHEBCSSSSTTTSSEBEHHHHHTTTS---EEE
T ss_pred             CCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhhhhhhccccccccccccccCCceeeccce---EEe
Confidence            3679999999999999999998866   468999999775332     11110       00112456655444   999


Q ss_pred             EecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          389 FDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       389 iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                      ||||+.+.+              .+-..|++.|+.
T Consensus        99 Ld~I~~L~~--------------~~Q~~Ll~~l~~  119 (168)
T PF00158_consen   99 LDEIEDLPP--------------ELQAKLLRVLEE  119 (168)
T ss_dssp             EETGGGS-H--------------HHHHHHHHHHHH
T ss_pred             ecchhhhHH--------------HHHHHHHHHHhh
Confidence            999999964              456677777763

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 ....

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.59  E-value=6.4e-06  Score=76.91  Aligned_cols=179  Identities=15%  Similarity=0.215  Sum_probs=96.7

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccC-------c
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH-------S   88 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~-------~   88 (441)
                      ..++++.=..+-+.+++.|+.. +.  ....   -...+-+||+||+||||||.++.++.+++..+.+-+..       .
T Consensus        79 ~t~eeLAVHkkKI~eVk~WL~~-~~--~~~~---~l~~~iLLltGPsGcGKSTtvkvLskelg~~~~Ew~Npi~~~~~~~  152 (634)
T KOG1970|consen   79 RTLEELAVHKKKISEVKQWLKQ-VA--EFTP---KLGSRILLLTGPSGCGKSTTVKVLSKELGYQLIEWSNPINLKEPEN  152 (634)
T ss_pred             ccHHHHhhhHHhHHHHHHHHHH-HH--Hhcc---CCCceEEEEeCCCCCCchhHHHHHHHhhCceeeeecCCcccccccc
Confidence            5566776666777777777751 11  0111   11335689999999999999999999999877664411       1


Q ss_pred             cccccccch------HHHHHHHHHHHHh--------hhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCC
Q 013506           89 VHKAHVGES------EKALREAFSQASS--------HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK  154 (441)
Q Consensus        89 ~~~~~~~~~------~~~~~~~~~~~~~--------~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~  154 (441)
                      +-....+..      -..+.........        ......+.+|+|||+=.....     . ..+..+..+..+-...
T Consensus       153 ~h~~t~~~~~~~~s~L~~fesFler~~kyg~l~~~g~~~~~~~~liLveDLPn~~~~-----d-~~~~f~evL~~y~s~g  226 (634)
T KOG1970|consen  153 LHNETSFLMFPYQSQLAVFESFLLRATKYGSLQMSGDDLRTDKKLILVEDLPNQFYR-----D-DSETFREVLRLYVSIG  226 (634)
T ss_pred             ccccchhcccchhhHHHHHHHHHHHHHhhchhhhcccccccCceEEEeeccchhhhh-----h-hHHHHHHHHHHHHhcC
Confidence            111111110      1111111111111        111234568999997433211     1 3344555555443322


Q ss_pred             CCCCCCCeEEEEEEcCCCCccCH------HHhhCCccceEEEecCCCHHHHHHHHHHHhccCC
Q 013506          155 PSKTSVPHVVVVASTNRVDAIDP------ALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVP  211 (441)
Q Consensus       155 ~~~~~~~~~~vi~~~~~~~~l~~------~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~  211 (441)
                          ..|-+++|+-+...+..++      .+.-..|.. .|.|.+-...-.++.+..++....
T Consensus       227 ----~~PlIf~iTd~~~~g~nnq~rlf~~d~q~~~ri~-~IsFNPIa~T~MKK~L~ric~~e~  284 (634)
T KOG1970|consen  227 ----RCPLIFIITDSLSNGNNNQDRLFPKDIQEEPRIS-NISFNPIAPTIMKKFLKRICRIEA  284 (634)
T ss_pred             ----CCcEEEEEeccccCCCcchhhhchhhhhhccCcc-eEeecCCcHHHHHHHHHHHHHHhc
Confidence                3443444444444443332      222222443 789999999998888887766544

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=98.59  E-value=1.1e-06  Score=85.58  Aligned_cols=197  Identities=17%  Similarity=0.212  Sum_probs=111.4

Q ss_pred             cccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccc
Q 013506           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHV   94 (441)
Q Consensus        18 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~   94 (441)
                      +.+++|.....+.+.+.+..           -.....+++++|++|||||++|+++....   +.+++.++|..+.... 
T Consensus       137 ~~~lig~s~~~~~l~~~~~~-----------~~~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~~~~-  204 (469)
T PRK10923        137 TTDIIGEAPAMQDVFRIIGR-----------LSRSSISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKDL-  204 (469)
T ss_pred             cccceecCHHHHHHHHHHHH-----------HhccCCeEEEEeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCCHHH-
Confidence            34566665555555444322           11345789999999999999999998765   4588999987753211 


Q ss_pred             cchHHHHHHHHHHHH-----------hhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----CC
Q 013506           95 GESEKALREAFSQAS-----------SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KT  158 (441)
Q Consensus        95 ~~~~~~~~~~~~~~~-----------~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~  158 (441)
                           .-..+|....           .......++.|||||++.|          +...+..|+..++.....     ..
T Consensus       205 -----~~~~lfg~~~g~~~~~~~~~~g~~~~a~~Gtl~l~~i~~l----------~~~~q~~L~~~l~~~~~~~~~~~~~  269 (469)
T PRK10923        205 -----IESELFGHEKGAFTGANTIRQGRFEQADGGTLFLDEIGDM----------PLDVQTRLLRVLADGQFYRVGGYAP  269 (469)
T ss_pred             -----HHHHhcCCCCCCCCCCCcCCCCCeeECCCCEEEEeccccC----------CHHHHHHHHHHHhcCcEEeCCCCCe
Confidence                 1111221110           0011223568999999987          446677888877653211     11


Q ss_pred             CCCeEEEEEEcCCCC-------ccCHHHhhCCccc-eEEEecCCCH--HHHHHHHHHHhcc----CCCC----CcccHHH
Q 013506          159 SVPHVVVVASTNRVD-------AIDPALRRSGRFD-AEVEVTVPTA--EERFEILKLYTKK----VPLD----ANVDLEA  220 (441)
Q Consensus       159 ~~~~~~vi~~~~~~~-------~l~~~l~~~~r~~-~~i~~~~p~~--~~~~~il~~~~~~----~~~~----~~~~~~~  220 (441)
                      ...++.+|++++..-       .+.+.+..  |+. ..+.+|+...  ++...++..++..    ....    ....+..
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            123568888876532       34455555  553 3445555422  2333344444332    2111    1122555


Q ss_pred             HHHHCCCCCHHHHHHHHHHHHHH
Q 013506          221 IATSCNGYVGADLEALCREATMS  243 (441)
Q Consensus       221 l~~~~~g~~~~~i~~l~~~a~~~  243 (441)
                      +.......+-++++++++.+...
T Consensus       348 L~~~~wpgNv~eL~~~i~~~~~~  370 (469)
T PRK10923        348 LTRLAWPGNVRQLENTCRWLTVM  370 (469)
T ss_pred             HHhCCCCChHHHHHHHHHHHHHh
Confidence            55555666788888888877643

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=98.58  E-value=6.3e-07  Score=79.05  Aligned_cols=121  Identities=15%  Similarity=0.219  Sum_probs=85.8

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCc----------------EEEEccCccccccccchHHHHHHHHHHHHhhhhcC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAH----------------LTVISPHSVHKAHVGESEKALREAFSQASSHALSG  115 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~----------------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (441)
                      -++.+||+||+|+||+++|..++..+.+.                +..+....- ..  .-....++.+.+........+
T Consensus        18 l~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~-~~--~I~idqiR~l~~~~~~~p~e~   94 (290)
T PRK05917         18 VPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGK-GR--LHSIETPRAIKKQIWIHPYES   94 (290)
T ss_pred             cCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCC-CC--cCcHHHHHHHHHHHhhCccCC
Confidence            45789999999999999999999877431                111211100 00  012344566655555555556


Q ss_pred             CCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCC
Q 013506          116 KPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVP  194 (441)
Q Consensus       116 ~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p  194 (441)
                      ...|++||++|.|          .....+.|++.++...      +++++|..++.++.+.|.+++  |+. .+.|+++
T Consensus        95 ~~kv~ii~~ad~m----------t~~AaNaLLK~LEEPp------~~~~fiL~~~~~~~ll~TI~S--Rcq-~~~~~~~  154 (290)
T PRK05917         95 PYKIYIIHEADRM----------TLDAISAFLKVLEDPP------QHGVIILTSAKPQRLPPTIRS--RSL-SIHIPME  154 (290)
T ss_pred             CceEEEEechhhc----------CHHHHHHHHHHhhcCC------CCeEEEEEeCChhhCcHHHHh--cce-EEEccch
Confidence            6789999999988          5578899999998843      367888888999999999998  886 6777765

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=98.58  E-value=2.4e-07  Score=83.56  Aligned_cols=94  Identities=13%  Similarity=0.220  Sum_probs=62.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCc------------------------eEEechhhhhhhccCchHHHHHHHHHHH--
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEAS------------------------FFSLSGAELYSMYVGESEALLRNTFQRA--  379 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~------------------------~~~i~~~~~~~~~~g~~~~~~~~~~~~a--  379 (441)
                      .+||.||.|+||+++|+.+|..+-+.                        ++.+...+  ++.+  ..+.+|++.+.+  
T Consensus        26 A~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~--~~~I--~id~iR~l~~~~~~  101 (325)
T PRK06871         26 ALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPID--NKDI--GVDQVREINEKVSQ  101 (325)
T ss_pred             eEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEcccc--CCCC--CHHHHHHHHHHHhh
Confidence            56899999999999999999988442                        12221110  0001  244556555544  


Q ss_pred             --HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          380 --RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       380 --~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                        ..+...|++||++|++-              ....|.||+.|+..+.....|+++++.
T Consensus       102 ~~~~g~~KV~iI~~a~~m~--------------~~AaNaLLKtLEEPp~~~~fiL~t~~~  147 (325)
T PRK06871        102 HAQQGGNKVVYIQGAERLT--------------EAAANALLKTLEEPRPNTYFLLQADLS  147 (325)
T ss_pred             ccccCCceEEEEechhhhC--------------HHHHHHHHHHhcCCCCCeEEEEEECCh
Confidence              34556799999999984              467899999999866655555555443

>PRK06921 hypothetical protein; Provisional

Probab=98.58  E-value=2.7e-07  Score=81.61  Aligned_cols=68  Identities=24%  Similarity=0.291  Sum_probs=45.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc----CCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccc
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADV  394 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~----~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~  394 (441)
                      ..+++|+|++|+|||+|+.++|..+    +..++.+...+++....... ......++..  ....+|+|||++.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l~~~l~~~~-~~~~~~~~~~--~~~dlLiIDDl~~  188 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGDLKDDF-DLLEAKLNRM--KKVEVLFIDDLFK  188 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHHHHHHHHHH-HHHHHHHHHh--cCCCEEEEecccc
Confidence            4579999999999999999999876    45677777766655321111 1222233332  3456999999955

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.58  E-value=5.5e-07  Score=89.07  Aligned_cols=100  Identities=22%  Similarity=0.273  Sum_probs=61.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc----------CCceEEechhhhhhhc----------------cC-chHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA----------EASFFSLSGAELYSMY----------------VG-ESEALLRNTFQR  378 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~----------~~~~~~i~~~~~~~~~----------------~g-~~~~~~~~~~~~  378 (441)
                      .++++|+||||||++++.+...+          ...++.+++..+...+                .| .+.+.+..+|..
T Consensus       783 vLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~  862 (1164)
T PTZ00112        783 ILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQ  862 (1164)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhh
Confidence            35699999999999999997765          2456788875432221                01 123456667766


Q ss_pred             HHh--cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          379 ARL--AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       379 a~~--~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      ...  ....||+|||||.+...           .+.++=.|..+.. ..+...++|..||-
T Consensus       863 L~k~~r~v~IIILDEID~L~kK-----------~QDVLYnLFR~~~-~s~SKLiLIGISNd  911 (1164)
T PTZ00112        863 NKKDNRNVSILIIDEIDYLITK-----------TQKVLFTLFDWPT-KINSKLVLIAISNT  911 (1164)
T ss_pred             hhcccccceEEEeehHhhhCcc-----------HHHHHHHHHHHhh-ccCCeEEEEEecCc
Confidence            522  33469999999999742           1345555555543 23444455555553

>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional

Probab=98.58  E-value=4.2e-07  Score=88.76  Aligned_cols=30  Identities=23%  Similarity=0.326  Sum_probs=26.3

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.+.++..+.|+||+|+|||||++.+++.+
T Consensus        19 ~~i~~Ge~~~liG~nGsGKSTLl~~l~Gl~   48 (491)
T PRK10982         19 LKVRPHSIHALMGENGAGKSTLLKCLFGIY   48 (491)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHcCCC
Confidence            345678899999999999999999999865

>TIGR00602 rad24 checkpoint protein rad24

Probab=98.57  E-value=3.8e-07  Score=89.39  Aligned_cols=103  Identities=17%  Similarity=0.190  Sum_probs=66.7

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEE-echhh-----
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFS-LSGAE-----  359 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~-i~~~~-----  359 (441)
                      ...++++.++++..+.+..++....        .+..++..++|+|||||||||+++++|..++..+.+ .+...     
T Consensus        80 P~~ldel~~~~~ki~~l~~~l~~~~--------~~~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~Ew~npv~~~~~~  151 (637)
T TIGR00602        80 PETQHELAVHKKKIEEVETWLKAQV--------LENAPKRILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLPDFQK  151 (637)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHhcc--------cccCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHHHhhhhhhcccc
Confidence            4467788888877777777665321        122344458999999999999999999999876655 22111     


Q ss_pred             -h----------hhhccCchHHHHHHHHHHHHh----------cCCeEEEEeccccccc
Q 013506          360 -L----------YSMYVGESEALLRNTFQRARL----------AAPSIIFFDEADVVGA  397 (441)
Q Consensus       360 -~----------~~~~~g~~~~~~~~~~~~a~~----------~~~~vl~iDE~d~~~~  397 (441)
                       .          +..+ ....+.++.++..+..          ....||||||++.++.
T Consensus       152 ~~~~~~~s~~~~~~~~-~s~~~~F~~fl~~a~~~~~~~g~~~~~~~~IILIDEiPn~~~  209 (637)
T TIGR00602       152 NDHKVTLSLESCFSNF-QSQIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFY  209 (637)
T ss_pred             cccccchhhhhccccc-cchHHHHHHHHHHHHhhhcccccccCCceeEEEeecchhhch
Confidence             0          0111 1223455666666541          3566999999998773

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=98.56  E-value=1.4e-07  Score=85.67  Aligned_cols=51  Identities=22%  Similarity=0.268  Sum_probs=41.3

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      ...+.+++|++++|..+......             +..++++|.|++|||||++||+++..+.
T Consensus        13 ~~pf~~ivGq~~~k~al~~~~~~-------------p~~~~vli~G~~GtGKs~~ar~~~~~l~   63 (350)
T CHL00081         13 VFPFTAIVGQEEMKLALILNVID-------------PKIGGVMIMGDRGTGKSTTIRALVDLLP   63 (350)
T ss_pred             CCCHHHHhChHHHHHHHHHhccC-------------CCCCeEEEEcCCCCCHHHHHHHHHHHHh
Confidence            45688999999999988765432             2335899999999999999999988873

>TIGR02633 xylG D-xylose ABC transporter, ATP-binding protein

Probab=98.56  E-value=5.3e-07  Score=88.34  Aligned_cols=31  Identities=23%  Similarity=0.312  Sum_probs=26.9

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.+.++..+.|+||+|+|||||++.+++.+.
T Consensus        22 l~i~~Ge~~~liG~nGsGKSTLl~~i~G~~~   52 (500)
T TIGR02633        22 LEVRPGECVGLCGENGAGKSTLMKILSGVYP   52 (500)
T ss_pred             EEEeCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3456788999999999999999999998753

Several bacterial species have enzymes xylose isomerase and xylulokinase enzymes for xylose utilization. Members of this protein family are the ATP-binding cassette (ABC) subunit of the known or predicted high-affinity xylose ABC transporter for xylose import. These genes, which closely resemble other sugar transport ABC transporter genes, typically are encoded near xylose utilization enzymes and regulatory proteins. Note that this form of the transporter contains two copies of the ABC transporter domain (pfam00005).

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=98.56  E-value=8.4e-07  Score=87.85  Aligned_cols=29  Identities=21%  Similarity=0.228  Sum_probs=26.5

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      .+.++..+.|+||+|+|||||++.+++.+
T Consensus        29 ~i~~Ge~~~iiG~NGsGKSTLlk~i~G~~   57 (556)
T PRK11819         29 SFFPGAKIGVLGLNGAGKSTLLRIMAGVD   57 (556)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            46788999999999999999999999876

>PRK05642 DNA replication initiation factor; Validated

Probab=98.56  E-value=1.8e-07  Score=81.42  Aligned_cols=91  Identities=19%  Similarity=0.182  Sum_probs=58.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCC
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGG  401 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~  401 (441)
                      .+++|+||+|||||.|+++++..+   +..++.++..++...+        ..+.+...  ...+|+|||++.+.+.   
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~~~~--------~~~~~~~~--~~d~LiiDDi~~~~~~---  112 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDRG--------PELLDNLE--QYELVCLDDLDVIAGK---  112 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHHhhh--------HHHHHhhh--hCCEEEEechhhhcCC---
Confidence            568999999999999999998754   5678888887765421        12333322  2249999999987532   


Q ss_pred             CCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          402 SSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       402 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                           ... .   ..|...++.....++.++++|+.
T Consensus       113 -----~~~-~---~~Lf~l~n~~~~~g~~ilits~~  139 (234)
T PRK05642        113 -----ADW-E---EALFHLFNRLRDSGRRLLLAASK  139 (234)
T ss_pred             -----hHH-H---HHHHHHHHHHHhcCCEEEEeCCC
Confidence                 111 1   23444444445556677777763

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.55  E-value=2e-07  Score=81.76  Aligned_cols=69  Identities=25%  Similarity=0.318  Sum_probs=50.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhcc-----CchHHHHHHHHHHHHhcCCeEEEEecccc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYV-----GESEALLRNTFQRARLAAPSIIFFDEADV  394 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~-----g~~~~~~~~~~~~a~~~~~~vl~iDE~d~  394 (441)
                      .+.+++|+||||+|||.||-++|..+   |..+..+..++++...-     |..+..+.+.   .  ....+|+|||+-.
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~---l--~~~dlLIiDDlG~  178 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLRE---L--KKVDLLIIDDIGY  178 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhcCchHHHHHHH---h--hcCCEEEEecccC
Confidence            45689999999999999999999877   67888888888876522     1222222221   2  3445999999987


Q ss_pred             cc
Q 013506          395 VG  396 (441)
Q Consensus       395 ~~  396 (441)
                      .-
T Consensus       179 ~~  180 (254)
T COG1484         179 EP  180 (254)
T ss_pred             cc
Confidence            63

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.55  E-value=5e-07  Score=78.70  Aligned_cols=62  Identities=11%  Similarity=0.065  Sum_probs=40.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC---CceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAE---ASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVG  396 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~---~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~  396 (441)
                      .+++|+||+|||||+++++++..+.   ..+..+...+...     ....+.+.+.     ...+|+|||++.+.
T Consensus        46 ~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~-----~~~~~~~~~~-----~~dlliiDdi~~~~  110 (235)
T PRK08084         46 GYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAW-----FVPEVLEGME-----QLSLVCIDNIECIA  110 (235)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhh-----hhHHHHHHhh-----hCCEEEEeChhhhc
Confidence            4799999999999999999988653   4455555544221     1112222222     12599999999885

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.54  E-value=1.5e-07  Score=77.33  Aligned_cols=28  Identities=25%  Similarity=0.518  Sum_probs=24.8

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHH
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .+..+.-+.++||+||||||++|++...
T Consensus        24 ~v~~Gevv~iiGpSGSGKSTlLRclN~L   51 (240)
T COG1126          24 SVEKGEVVVIIGPSGSGKSTLLRCLNGL   51 (240)
T ss_pred             eEcCCCEEEEECCCCCCHHHHHHHHHCC
Confidence            4567899999999999999999999754

>PRK06851 hypothetical protein; Provisional

Probab=98.54  E-value=1.7e-06  Score=79.12  Aligned_cols=26  Identities=38%  Similarity=0.603  Sum_probs=23.0

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+-++|.|+|||||||+++.++..+.
T Consensus        30 ~~~~il~G~pGtGKStl~~~i~~~~~   55 (367)
T PRK06851         30 NRIFILKGGPGTGKSTLMKKIGEEFL   55 (367)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45689999999999999999988773

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.54  E-value=3.3e-07  Score=80.36  Aligned_cols=72  Identities=28%  Similarity=0.397  Sum_probs=44.9

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccchHH-HHHHHHHHHHhhhhcCCCeEEEEccccc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEK-ALREAFSQASSHALSGKPSVVFIDEIDA  127 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~il~iDe~~~  127 (441)
                      .+.+++|+||||+|||+|+.+++.++   +..+..++..++....-..... .....+...     -.+.++|+|||+-.
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~-----l~~~dlLIiDDlG~  178 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLRE-----LKKVDLLIIDDIGY  178 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhcCchHHHHHHH-----hhcCCEEEEecccC
Confidence            56899999999999999999998876   4566666665544321111110 011111110     12367999999865


Q ss_pred             c
Q 013506          128 L  128 (441)
Q Consensus       128 l  128 (441)
                      .
T Consensus       179 ~  179 (254)
T COG1484         179 E  179 (254)
T ss_pred             c
Confidence            4

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=98.54  E-value=2.9e-07  Score=84.01  Aligned_cols=97  Identities=13%  Similarity=0.273  Sum_probs=63.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCc------------------------eEEechh---hhhhhccCchHHHHHHHHH
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEAS------------------------FFSLSGA---ELYSMYVGESEALLRNTFQ  377 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~------------------------~~~i~~~---~~~~~~~g~~~~~~~~~~~  377 (441)
                      ..+||.||+|+||+++|..+|..+-+.                        ++.+...   ..++  +.+-.+..+.+..
T Consensus        25 HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~--idqiR~l~~~~~~  102 (334)
T PRK07993         25 HALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLG--VDAVREVTEKLYE  102 (334)
T ss_pred             eEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccCC--HHHHHHHHHHHhh
Confidence            346899999999999999999988431                        2222111   0011  2222333333444


Q ss_pred             HHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          378 RARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       378 ~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      .+..+...|++||++|++-              ..+-|.|||.|+..+.....|+++++.
T Consensus       103 ~~~~g~~kV~iI~~ae~m~--------------~~AaNaLLKtLEEPp~~t~fiL~t~~~  148 (334)
T PRK07993        103 HARLGGAKVVWLPDAALLT--------------DAAANALLKTLEEPPENTWFFLACREP  148 (334)
T ss_pred             ccccCCceEEEEcchHhhC--------------HHHHHHHHHHhcCCCCCeEEEEEECCh
Confidence            4445666799999999984              467899999999866655555555544

>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional

Probab=98.54  E-value=5.2e-07  Score=88.30  Aligned_cols=30  Identities=20%  Similarity=0.336  Sum_probs=26.4

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.+.++..+.|+||+|+|||||++.+++.+
T Consensus        25 l~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   54 (501)
T PRK11288         25 FDCRAGQVHALMGENGAGKSTLLKILSGNY   54 (501)
T ss_pred             EEEeCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            345688899999999999999999999865

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.53  E-value=2.2e-07  Score=89.83  Aligned_cols=71  Identities=20%  Similarity=0.280  Sum_probs=51.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc-----CCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~-----~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      .++|+|++|+|||.|+++++..+     +..++.++..++...+...........|.+-. ....+|+|||++.+..
T Consensus       316 pL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~~al~~~~~~~f~~~y-~~~DLLlIDDIq~l~g  391 (617)
T PRK14086        316 PLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFINSIRDGKGDSFRRRY-REMDILLVDDIQFLED  391 (617)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHhccHHHHHHHh-hcCCEEEEehhccccC
Confidence            48999999999999999999876     56788999988876655433222222333322 2356999999999864

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=98.53  E-value=3.8e-08  Score=81.44  Aligned_cols=71  Identities=27%  Similarity=0.492  Sum_probs=42.2

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccc-hHHHHHHHHHHHHhhhhcCCCeEEEEcccc
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGE-SEKALREAFSQASSHALSGKPSVVFIDEID  126 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~il~iDe~~  126 (441)
                      ..+.+++|+||+|||||++|.+++.++   +..+.+++..++....... ........++...      +.++|+|||+-
T Consensus        45 ~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~------~~dlLilDDlG  118 (178)
T PF01695_consen   45 ENGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRLK------RVDLLILDDLG  118 (178)
T ss_dssp             SC--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHHH------TSSCEEEETCT
T ss_pred             ccCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceeccccccccccchhhhcCccc------cccEecccccc
Confidence            356899999999999999999998765   5667777766543221110 0001112222222      26799999985


Q ss_pred             c
Q 013506          127 A  127 (441)
Q Consensus       127 ~  127 (441)
                      .
T Consensus       119 ~  119 (178)
T PF01695_consen  119 Y  119 (178)
T ss_dssp             S
T ss_pred             e
Confidence            3

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.

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=98.52  E-value=3.1e-07  Score=72.52  Aligned_cols=37  Identities=32%  Similarity=0.582  Sum_probs=26.4

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh--------CCcEEEEccCc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC--------GAHLTVISPHS   88 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l--------~~~~~~v~~~~   88 (441)
                      .+..++++||+|+|||++++.+++.+        ..+++.+++..
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   47 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPS   47 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCC
Confidence            35679999999999999999999887        55666665543

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=98.51  E-value=4.4e-06  Score=74.75  Aligned_cols=129  Identities=10%  Similarity=0.176  Sum_probs=88.8

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCC-------------cEEEEccCccccccccchHHHHHHHHHHHHhhhhc-CCCe
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGA-------------HLTVISPHSVHKAHVGESEKALREAFSQASSHALS-GKPS  118 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~-------------~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  118 (441)
                      .+..||+|+.|.||+++++.++..+.+             .+..++..   ..  ......++.+.+........ +...
T Consensus        18 ~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~---g~--~i~vd~Ir~l~~~~~~~~~~~~~~K   92 (299)
T PRK07132         18 SHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIF---DK--DLSKSEFLSAINKLYFSSFVQSQKK   92 (299)
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccC---CC--cCCHHHHHHHHHHhccCCcccCCce
Confidence            467889999999999999999988722             11222200   01  11223455555544333322 4678


Q ss_pred             EEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHH
Q 013506          119 VVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEE  198 (441)
Q Consensus       119 il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~  198 (441)
                      |++||+++.+          .......|+..++....      ++++|..++.+..+-+.+++  |+. .+.|.+++.++
T Consensus        93 vvII~~~e~m----------~~~a~NaLLK~LEEPp~------~t~~il~~~~~~kll~TI~S--Rc~-~~~f~~l~~~~  153 (299)
T PRK07132         93 ILIIKNIEKT----------SNSLLNALLKTIEEPPK------DTYFLLTTKNINKVLPTIVS--RCQ-VFNVKEPDQQK  153 (299)
T ss_pred             EEEEeccccc----------CHHHHHHHHHHhhCCCC------CeEEEEEeCChHhChHHHHh--CeE-EEECCCCCHHH
Confidence            9999999877          44677889999987432      46666666677888888888  885 79999999999


Q ss_pred             HHHHHHH
Q 013506          199 RFEILKL  205 (441)
Q Consensus       199 ~~~il~~  205 (441)
                      ..+.+..
T Consensus       154 l~~~l~~  160 (299)
T PRK07132        154 ILAKLLS  160 (299)
T ss_pred             HHHHHHH
Confidence            8877664

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=98.51  E-value=1.2e-07  Score=78.43  Aligned_cols=71  Identities=23%  Similarity=0.347  Sum_probs=47.8

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCch-HHHHHHHHHHHHhcCCeEEEEeccccc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGES-EALLRNTFQRARLAAPSIIFFDEADVV  395 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~-~~~~~~~~~~a~~~~~~vl~iDE~d~~  395 (441)
                      .+.+++|+||+|||||.+|.+++..+   +..+..++.++++...-... .....+.++...  ...+|+|||+...
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~--~~dlLilDDlG~~  120 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRLK--RVDLLILDDLGYE  120 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHHH--TSSCEEEETCTSS
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceeccccccccccchhhhcCccc--cccEeccccccee
Confidence            35689999999999999999998765   78888999988876532111 112233444432  3459999999754

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.

>PF05729 NACHT: NACHT domain

Probab=98.51  E-value=2.4e-06  Score=70.42  Aligned_cols=143  Identities=17%  Similarity=0.258  Sum_probs=72.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCC--------c-EEEEccCcccccccc-chHHHHHHHHHH--------HHhhhhcCC
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGA--------H-LTVISPHSVHKAHVG-ESEKALREAFSQ--------ASSHALSGK  116 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~--------~-~~~v~~~~~~~~~~~-~~~~~~~~~~~~--------~~~~~~~~~  116 (441)
                      .++|+|++|+|||++++.++..+..        . ++.+........... .....+...+..        .........
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   81 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKNK   81 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcCC
Confidence            5899999999999999999876621        1 223333322221110 111111111100        001111244


Q ss_pred             CeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCc--cCHHHhhCCccceEEEecCC
Q 013506          117 PSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA--IDPALRRSGRFDAEVEVTVP  194 (441)
Q Consensus       117 ~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~--l~~~l~~~~r~~~~i~~~~p  194 (441)
                      ..+++||.+|.+......  .........+..++....     .+++.++.++++...  +...+..   . ..+.+++.
T Consensus        82 ~~llilDglDE~~~~~~~--~~~~~~~~~l~~l~~~~~-----~~~~~liit~r~~~~~~~~~~~~~---~-~~~~l~~~  150 (166)
T PF05729_consen   82 RVLLILDGLDELEEQDQS--QERQRLLDLLSQLLPQAL-----PPGVKLIITSRPRAFPDLRRRLKQ---A-QILELEPF  150 (166)
T ss_pred             ceEEEEechHhcccchhh--hHHHHHHHHHHHHhhhcc-----CCCCeEEEEEcCChHHHHHHhcCC---C-cEEEECCC
Confidence            678999999988643221  111122333333443311     113445555544222  2222221   1 46899999


Q ss_pred             CHHHHHHHHHHHhc
Q 013506          195 TAEERFEILKLYTK  208 (441)
Q Consensus       195 ~~~~~~~il~~~~~  208 (441)
                      +.++..++++.++.
T Consensus       151 ~~~~~~~~~~~~f~  164 (166)
T PF05729_consen  151 SEEDIKQYLRKYFS  164 (166)
T ss_pred             CHHHHHHHHHHHhh
Confidence            99999999987765

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.50  E-value=4.1e-07  Score=81.91  Aligned_cols=101  Identities=19%  Similarity=0.193  Sum_probs=63.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCch-HHHHHHHHHHHHhcCCeEEEEeccccccccc
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGES-EALLRNTFQRARLAAPSIIFFDEADVVGAKR  399 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~-~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r  399 (441)
                      ..+++|+||+|||||.|+.++|..+   |.++..+..++++....... ...+.+.++..  ....+|+|||+..-..  
T Consensus       156 ~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l~~~lk~~~~~~~~~~~l~~l--~~~dlLiIDDiG~e~~--  231 (306)
T PRK08939        156 VKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIRELKNSISDGSVKEKIDAV--KEAPVLMLDDIGAEQM--  231 (306)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHHHHHHHHHHhcCcHHHHHHHh--cCCCEEEEecCCCccc--
Confidence            4689999999999999999999988   67777777777655432111 11223344443  3455999999976431  


Q ss_pred             CCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          400 GGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       400 ~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                            +.-..+.++..+|..-   -.+..-+|++||+
T Consensus       232 ------s~~~~~~ll~~Il~~R---~~~~~~ti~TSNl  260 (306)
T PRK08939        232 ------SSWVRDEVLGVILQYR---MQEELPTFFTSNF  260 (306)
T ss_pred             ------cHHHHHHHHHHHHHHH---HHCCCeEEEECCC
Confidence                  1111223455554321   1245668888886

>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=98.49  E-value=3.2e-07  Score=78.84  Aligned_cols=97  Identities=21%  Similarity=0.264  Sum_probs=61.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc-----CCceEEechhhhhhhccCchHH-HHHHHHHHHHhcCCeEEEEeccccccccc
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSMYVGESEA-LLRNTFQRARLAAPSIIFFDEADVVGAKR  399 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~-----~~~~~~i~~~~~~~~~~g~~~~-~~~~~~~~a~~~~~~vl~iDE~d~~~~~r  399 (441)
                      .++++||+|+|||.|.++++..+     +..++.++..++...+...... .+..+....  ....+|+||+++.+... 
T Consensus        36 ~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~~f~~~~~~~~~~~~~~~~~~~~--~~~DlL~iDDi~~l~~~-  112 (219)
T PF00308_consen   36 PLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAEEFIREFADALRDGEIEEFKDRL--RSADLLIIDDIQFLAGK-  112 (219)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHHHHHHHHHHHHHTTSHHHHHHHH--CTSSEEEEETGGGGTTH-
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHHHHHHHHHHHHHcccchhhhhhh--hcCCEEEEecchhhcCc-
Confidence            58999999999999999998765     5678889888887655432221 122222222  34559999999998631 


Q ss_pred             CCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          400 GGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       400 ~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                                 .+....|...++.....++-+|++|.
T Consensus       113 -----------~~~q~~lf~l~n~~~~~~k~li~ts~  138 (219)
T PF00308_consen  113 -----------QRTQEELFHLFNRLIESGKQLILTSD  138 (219)
T ss_dssp             -----------HHHHHHHHHHHHHHHHTTSEEEEEES
T ss_pred             -----------hHHHHHHHHHHHHHHhhCCeEEEEeC
Confidence                       12234444444444455555666654

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.

>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]

Probab=98.48  E-value=7.3e-07  Score=84.22  Aligned_cols=175  Identities=17%  Similarity=0.190  Sum_probs=99.5

Q ss_pred             cccccchHHHHHHHHHHHHhhccCchHH--HhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           18 EEAIGGNRAAVEALRELITFPLLYSSQA--QKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        18 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~--~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      +..|-|.|.+|.-|.-.+-   .-....  ....+..--||+++|.||+|||-++++.++-++..++ +++......-+.
T Consensus       344 ~PsIyGhe~VK~GilL~Lf---GGv~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsPR~vY-tsGkaSSaAGLT  419 (764)
T KOG0480|consen  344 FPSIYGHELVKAGILLSLF---GGVHKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSPRSVY-TSGKASSAAGLT  419 (764)
T ss_pred             CccccchHHHHhhHHHHHh---CCccccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCCcceE-ecCcccccccce
Confidence            3456677777766654331   111111  1222333468999999999999999999988766544 333222111000


Q ss_pred             ch---HHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCC-------CCCeEEE
Q 013506           96 ES---EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKT-------SVPHVVV  165 (441)
Q Consensus        96 ~~---~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-------~~~~~~v  165 (441)
                      ..   .....+..-++.+ ......+|+.|||||.|          +..-...+...|++...+..       -..+..|
T Consensus       420 aaVvkD~esgdf~iEAGA-LmLADnGICCIDEFDKM----------d~~dqvAihEAMEQQtISIaKAGv~aTLnARtSI  488 (764)
T KOG0480|consen  420 AAVVKDEESGDFTIEAGA-LMLADNGICCIDEFDKM----------DVKDQVAIHEAMEQQTISIAKAGVVATLNARTSI  488 (764)
T ss_pred             EEEEecCCCCceeeecCc-EEEccCceEEechhccc----------ChHhHHHHHHHHHhheehheecceEEeecchhhh
Confidence            00   0000000011111 11234679999999988          22335666777766432211       1124567


Q ss_pred             EEEcCCCC-------------ccCHHHhhCCccceE-EEecCCCHHHHHHHHHHHhcc
Q 013506          166 VASTNRVD-------------AIDPALRRSGRFDAE-VEVTVPTAEERFEILKLYTKK  209 (441)
Q Consensus       166 i~~~~~~~-------------~l~~~l~~~~r~~~~-i~~~~p~~~~~~~il~~~~~~  209 (441)
                      ++++|+..             .+++++.+  ||+.. +-+..+++..-..|-++.+..
T Consensus       489 lAAANPv~GhYdR~ktl~eNi~msApimS--RFDL~FiLlD~~nE~~D~~ia~hIld~  544 (764)
T KOG0480|consen  489 LAAANPVGGHYDRKKTLRENINMSAPIMS--RFDLFFILLDDCNEVVDYAIARHILDL  544 (764)
T ss_pred             hhhcCCcCCccccccchhhhcCCCchhhh--hhcEEEEEecCCchHHHHHHHHHHHHH
Confidence            88888864             56788999  99854 457888887777777766654

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=98.48  E-value=2.8e-06  Score=70.91  Aligned_cols=121  Identities=22%  Similarity=0.313  Sum_probs=84.2

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhh
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYS  362 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~  362 (441)
                      ...+.++.|.+..++.+.+.....+.         -.|..|+||.|.-||||++++|++-..+   +..+++++..++..
T Consensus        56 ~i~L~~l~Gvd~qk~~L~~NT~~F~~---------G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~k~dl~~  126 (287)
T COG2607          56 PIDLADLVGVDRQKEALVRNTEQFAE---------GLPANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKEDLAT  126 (287)
T ss_pred             CcCHHHHhCchHHHHHHHHHHHHHHc---------CCcccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEEcHHHHhh
Confidence            45677889999999888765543211         2355689999999999999999998877   57789998888755


Q ss_pred             hccCchHHHHHHHHHHHHhcC-CeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC---CCCCCeEEEEeeee
Q 013506          363 MYVGESEALLRNTFQRARLAA-PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG---LEQAKVIIYPISFI  437 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~-~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~---~~~~~~v~~~~~~~  437 (441)
                               +-.++...+..+ +-|||+|+.--             +.++.....|-..|||   -++.++++..+||-
T Consensus       127 ---------Lp~l~~~Lr~~~~kFIlFcDDLSF-------------e~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNR  183 (287)
T COG2607         127 ---------LPDLVELLRARPEKFILFCDDLSF-------------EEGDDAYKALKSALEGGVEGRPANVLFYATSNR  183 (287)
T ss_pred             ---------HHHHHHHHhcCCceEEEEecCCCC-------------CCCchHHHHHHHHhcCCcccCCCeEEEEEecCC
Confidence                     444555554433 44999997531             2233456777777887   23466777777773

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.47  E-value=4.9e-07  Score=82.04  Aligned_cols=99  Identities=14%  Similarity=0.164  Sum_probs=61.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccC---chHHHHHHHHHHHHhcCCeEEEEecccccccc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVG---ESEALLRNTFQRARLAAPSIIFFDEADVVGAK  398 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g---~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~  398 (441)
                      .+++|+||+|||||+||.++|..+   +..++.++..++......   +........++..  ....+|+|||+..... 
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~l--~~~DLLIIDDlG~e~~-  260 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILREIRFNNDKELEEVYDLL--INCDLLIIDDLGTEKI-  260 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHHHHHhccchhHHHHHHHh--ccCCEEEEeccCCCCC-
Confidence            679999999999999999999987   678888888887664321   0111111223332  2345999999987642 


Q ss_pred             cCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          399 RGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       399 r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                              ..+..   +.|...++.-...+.=+|++||+
T Consensus       261 --------t~~~~---~~Lf~iin~R~~~~k~tIiTSNl  288 (329)
T PRK06835        261 --------TEFSK---SELFNLINKRLLRQKKMIISTNL  288 (329)
T ss_pred             --------CHHHH---HHHHHHHHHHHHCCCCEEEECCC
Confidence                    22223   33333333323334457888875

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=98.47  E-value=2.4e-07  Score=84.26  Aligned_cols=47  Identities=26%  Similarity=0.309  Sum_probs=37.3

Q ss_pred             cccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          289 WEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       289 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +..+.|++.++..+.-.+-.             +..+|+++.|+||+||||++++++..+
T Consensus         3 f~~ivgq~~~~~al~~~~~~-------------~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         3 FTAIVGQDEMKLALLLNVID-------------PKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             ccccccHHHHHHHHHHHhcC-------------CCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            56788998888876544321             225689999999999999999999887

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.

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=98.47  E-value=1.3e-06  Score=78.73  Aligned_cols=97  Identities=13%  Similarity=0.151  Sum_probs=63.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc-----------------------eEEechhhhhhhccCchHHHHHHHHHHH-
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEAS-----------------------FFSLSGAELYSMYVGESEALLRNTFQRA-  379 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~-----------------------~~~i~~~~~~~~~~g~~~~~~~~~~~~a-  379 (441)
                      +..+||+||.|+||+++|+.+|..+-+.                       ++.+.... -++.+  ..+.++.+.+.+ 
T Consensus        25 ~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~-~~~~I--~vdqiR~l~~~~~  101 (319)
T PRK06090         25 PGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEK-EGKSI--TVEQIRQCNRLAQ  101 (319)
T ss_pred             ceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCc-CCCcC--CHHHHHHHHHHHh
Confidence            3357999999999999999999987432                       22222110 00001  234556555544 


Q ss_pred             ---HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          380 ---RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       380 ---~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                         ..+...|++||++|++.              ...-|.|||.|+..+.+...|+++++.
T Consensus       102 ~~~~~~~~kV~iI~~ae~m~--------------~~AaNaLLKtLEEPp~~t~fiL~t~~~  148 (319)
T PRK06090        102 ESSQLNGYRLFVIEPADAMN--------------ESASNALLKTLEEPAPNCLFLLVTHNQ  148 (319)
T ss_pred             hCcccCCceEEEecchhhhC--------------HHHHHHHHHHhcCCCCCeEEEEEECCh
Confidence               33456799999999984              367899999999866665555555554

>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family

Probab=98.46  E-value=2e-06  Score=85.15  Aligned_cols=29  Identities=21%  Similarity=0.228  Sum_probs=26.2

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      .+.++..+.|+||+|+|||||++.+++..
T Consensus        27 ~i~~Ge~~~liG~NGsGKSTLl~~i~G~~   55 (552)
T TIGR03719        27 SFFPGAKIGVLGLNGAGKSTLLRIMAGVD   55 (552)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45778899999999999999999999876

Members of this protein family have two copies of the ABC transporter ATP-binding cassette, but are found outside the common ABC transporter operon structure that features integral membrane permease proteins and substrate-binding proteins encoded next to the ATP-binding cassette (ABC domain) protein. The member protein ChvD from Agrobacterium tumefaciens was identified as both a candidate to interact with VirB8, based on yeast two-hybrid analysis, and as an apparent regulator of VirG. The general function of this protein family is unknown.

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=98.46  E-value=4.4e-07  Score=72.86  Aligned_cols=30  Identities=27%  Similarity=0.471  Sum_probs=26.6

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.+.++..++++||+|+||||+.+.+..+.
T Consensus        23 ~~i~~Gef~fl~GpSGAGKSTllkLi~~~e   52 (223)
T COG2884          23 FHIPKGEFVFLTGPSGAGKSTLLKLIYGEE   52 (223)
T ss_pred             EeecCceEEEEECCCCCCHHHHHHHHHhhh
Confidence            356788999999999999999999998775

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=98.46  E-value=7.5e-06  Score=72.58  Aligned_cols=142  Identities=15%  Similarity=0.262  Sum_probs=96.1

Q ss_pred             hHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc-----------------------
Q 013506           24 NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-----------------------   80 (441)
Q Consensus        24 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~-----------------------   80 (441)
                      +..+++.+...+...            .-++.+||+||  +||+++|+.++..+...                       
T Consensus         7 q~~~~~~L~~~~~~~------------rl~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HP   72 (290)
T PRK07276          7 QPKVFQRFQTILEQD------------RLNHAYLFSGD--FASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFS   72 (290)
T ss_pred             HHHHHHHHHHHHHcC------------CcceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            455666666665431            34578999996  68999999999876321                       


Q ss_pred             -EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCC
Q 013506           81 -LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTS  159 (441)
Q Consensus        81 -~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  159 (441)
                       ++.+...     ...-....++++..........+...|++||++|.|          .....+.|++.++...     
T Consensus        73 D~~~i~p~-----~~~I~idqIR~l~~~~~~~p~~~~~kV~II~~ad~m----------~~~AaNaLLKtLEEPp-----  132 (290)
T PRK07276         73 DVTVIEPQ-----GQVIKTDTIRELVKNFSQSGYEGKQQVFIIKDADKM----------HVNAANSLLKVIEEPQ-----  132 (290)
T ss_pred             CeeeecCC-----CCcCCHHHHHHHHHHHhhCcccCCcEEEEeehhhhc----------CHHHHHHHHHHhcCCC-----
Confidence             1111110     001123456666666555555566789999999988          4467889999998743     


Q ss_pred             CCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHH
Q 013506          160 VPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILK  204 (441)
Q Consensus       160 ~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~  204 (441)
                       +++++|.+++.++.+-|-++|  |+. .+.|+. +.++..+++.
T Consensus       133 -~~t~~iL~t~~~~~lLpTI~S--Rcq-~i~f~~-~~~~~~~~L~  172 (290)
T PRK07276        133 -SEIYIFLLTNDENKVLPTIKS--RTQ-IFHFPK-NEAYLIQLLE  172 (290)
T ss_pred             -CCeEEEEEECChhhCchHHHH--cce-eeeCCC-cHHHHHHHHH
Confidence             357888888889999999999  886 788866 5666555554

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=98.45  E-value=7.1e-06  Score=70.80  Aligned_cols=120  Identities=13%  Similarity=0.109  Sum_probs=82.2

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHhCCc----------------------EEEEccCccccccccchHHHHHHHHHHH
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAH----------------------LTVISPHSVHKAHVGESEKALREAFSQA  108 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~----------------------~~~v~~~~~~~~~~~~~~~~~~~~~~~~  108 (441)
                      .+++.+||+||+|+||..+|..+|..+-..                      +..+....     ..-....++++.+..
T Consensus         5 ~~~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~~~Cg~C~sC~~i~~~~HPDl~~i~p~~-----~~I~id~ir~l~~~l   79 (261)
T PRK05818          5 NKTHPLLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFYLIFDQK-----NPIKKEDALSIINKL   79 (261)
T ss_pred             CCCcceeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEEEecCCc-----ccCCHHHHHHHHHHH
Confidence            357889999999999999999998876321                      11111110     011223344444433


Q ss_pred             Hhhhh-cCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccce
Q 013506          109 SSHAL-SGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDA  187 (441)
Q Consensus       109 ~~~~~-~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~  187 (441)
                      ..... .+...|++||++|.|          .......|+..++.-      .+++++|.+++.++.+.|-+++  |+. 
T Consensus        80 ~~~s~e~~~~KV~II~~ae~m----------~~~AaNaLLK~LEEP------p~~t~fiLit~~~~~lLpTI~S--RCq-  140 (261)
T PRK05818         80 NRPSVESNGKKIYIIYGIEKL----------NKQSANSLLKLIEEP------PKNTYGIFTTRNENNILNTILS--RCV-  140 (261)
T ss_pred             ccCchhcCCCEEEEeccHhhh----------CHHHHHHHHHhhcCC------CCCeEEEEEECChHhCchHhhh--hee-
Confidence            32221 234679999999988          557889999999873      3368888889999999999999  885 


Q ss_pred             EEEecCC
Q 013506          188 EVEVTVP  194 (441)
Q Consensus       188 ~i~~~~p  194 (441)
                      .+.++.+
T Consensus       141 ~~~~~~~  147 (261)
T PRK05818        141 QYVVLSK  147 (261)
T ss_pred             eeecCCh
Confidence            5777776

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=98.45  E-value=1.4e-06  Score=78.60  Aligned_cols=98  Identities=21%  Similarity=0.224  Sum_probs=64.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceE----Eech---------hhhhh----h-ccC------chHHHHHHHHHHHHh
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFF----SLSG---------AELYS----M-YVG------ESEALLRNTFQRARL  381 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~----~i~~---------~~~~~----~-~~g------~~~~~~~~~~~~a~~  381 (441)
                      .+||+||+|+||+++|..+|..+-+.--    .+..         +|+.-    . ..|      -..+.++++.+.+..
T Consensus        28 A~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k~~~~I~idqIR~l~~~~~~  107 (319)
T PRK08769         28 GLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLRTEIVIEQVREISQKLAL  107 (319)
T ss_pred             eEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccccccccccHHHHHHHHHHHhh
Confidence            4899999999999999999987743210    0000         11110    0 001      124556666665533


Q ss_pred             ----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          382 ----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       382 ----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                          +...|++||++|++.              ....|.|||.|+..+....+|+++++.
T Consensus       108 ~p~~g~~kV~iI~~ae~m~--------------~~AaNaLLKtLEEPp~~~~fiL~~~~~  153 (319)
T PRK08769        108 TPQYGIAQVVIVDPADAIN--------------RAACNALLKTLEEPSPGRYLWLISAQP  153 (319)
T ss_pred             CcccCCcEEEEeccHhhhC--------------HHHHHHHHHHhhCCCCCCeEEEEECCh
Confidence                345699999999984              467899999999877666666666544

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=98.44  E-value=8.8e-07  Score=80.55  Aligned_cols=99  Identities=17%  Similarity=0.201  Sum_probs=63.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc-------------------------eEEechhhh---hhhc-cCchHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEAS-------------------------FFSLSGAEL---YSMY-VGESEALLRN  374 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~-------------------------~~~i~~~~~---~~~~-~g~~~~~~~~  374 (441)
                      +..+||+||+|+|||++|+.+|+.+.+.                         ++.+....-   -++. ..-..+.+|.
T Consensus        21 ~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~g~~~~~I~id~iR~  100 (325)
T PRK08699         21 PNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPENGRKLLQIKIDAVRE  100 (325)
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccccccCCCcCHHHHHH
Confidence            3458899999999999999999987431                         233322100   0000 0012456677


Q ss_pred             HHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          375 TFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       375 ~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      +.+.+..    +...|+++|+++.+-              ....+.||+.|+.......+|+++.+
T Consensus       101 l~~~~~~~p~~~~~kV~iiEp~~~Ld--------------~~a~naLLk~LEep~~~~~~Ilvth~  152 (325)
T PRK08699        101 IIDNVYLTSVRGGLRVILIHPAESMN--------------LQAANSLLKVLEEPPPQVVFLLVSHA  152 (325)
T ss_pred             HHHHHhhCcccCCceEEEEechhhCC--------------HHHHHHHHHHHHhCcCCCEEEEEeCC
Confidence            7666643    445699999999884              35678999999987654444444433

>PRK08727 hypothetical protein; Validated

Probab=98.44  E-value=7.4e-07  Score=77.54  Aligned_cols=62  Identities=27%  Similarity=0.285  Sum_probs=43.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      .++|+||+|||||+++++++..+   +..+..++..++..        .+...++..  ....+|+|||++.+..
T Consensus        43 ~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~~~~--------~~~~~~~~l--~~~dlLiIDDi~~l~~  107 (233)
T PRK08727         43 WLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQAAAG--------RLRDALEAL--EGRSLVALDGLESIAG  107 (233)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHHhhh--------hHHHHHHHH--hcCCEEEEeCcccccC
Confidence            48999999999999999997765   45555555544322        233344433  3445999999998863

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=98.43  E-value=2.4e-06  Score=73.68  Aligned_cols=137  Identities=15%  Similarity=0.148  Sum_probs=81.0

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC-----cEEE--EccCcccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HLTV--ISPHSVHK   91 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~-----~~~~--v~~~~~~~   91 (441)
                      ..+.|+--+++.+...+.....++.      -+.|--+=|+|++||||+.+++.+|+.+-.     +++.  +....+- 
T Consensus        82 ~~lfGQHla~~~Vv~alk~~~~n~~------p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP-  154 (344)
T KOG2170|consen   82 RALFGQHLAKQLVVNALKSHWANPN------PRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFP-  154 (344)
T ss_pred             HHhhchHHHHHHHHHHHHHHhcCCC------CCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCC-
Confidence            3588988889888888865443321      123345678999999999999999988732     2211  1111111 


Q ss_pred             ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCC-CCCCeEEEEEEcC
Q 013506           92 AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK-TSVPHVVVVASTN  170 (441)
Q Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~vi~~~~  170 (441)
                       .....+..-.++..+.......++.++.++||+|.|.          ...++.+...++.+.... ..-.+.++|.-+|
T Consensus       155 -~~~~ie~Yk~eL~~~v~~~v~~C~rslFIFDE~DKmp----------~gLld~lkpfLdyyp~v~gv~frkaIFIfLSN  223 (344)
T KOG2170|consen  155 -HASKIEDYKEELKNRVRGTVQACQRSLFIFDEVDKLP----------PGLLDVLKPFLDYYPQVSGVDFRKAIFIFLSN  223 (344)
T ss_pred             -ChHHHHHHHHHHHHHHHHHHHhcCCceEEechhhhcC----------HhHHHHHhhhhccccccccccccceEEEEEcC
Confidence             1111122222333334444445667899999999984          356777777777543222 2334567777666


Q ss_pred             CCC
Q 013506          171 RVD  173 (441)
Q Consensus       171 ~~~  173 (441)
                      .-.
T Consensus       224 ~gg  226 (344)
T KOG2170|consen  224 AGG  226 (344)
T ss_pred             Ccc
Confidence            644

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.43  E-value=8.7e-07  Score=84.48  Aligned_cols=70  Identities=19%  Similarity=0.235  Sum_probs=50.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc-----CCceEEechhhhhhhccCchHH---HHHHHHHHHHhcCCeEEEEecccccc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSMYVGESEA---LLRNTFQRARLAAPSIIFFDEADVVG  396 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~-----~~~~~~i~~~~~~~~~~g~~~~---~~~~~~~~a~~~~~~vl~iDE~d~~~  396 (441)
                      .+++|+|++|+|||+|+++++..+     +..++.++..++...+......   .+....+..  ....+|+|||++.+.
T Consensus       142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~~~l~~~~~~~~~~~~~~--~~~dvLiIDDiq~l~  219 (450)
T PRK14087        142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAVDILQKTHKEIEQFKNEI--CQNDVLIIDDVQFLS  219 (450)
T ss_pred             CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHHhhhHHHHHHHHh--ccCCEEEEecccccc
Confidence            458999999999999999999854     4678888888877665433222   232332222  345699999999885

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=98.42  E-value=6.7e-08  Score=88.46  Aligned_cols=176  Identities=20%  Similarity=0.202  Sum_probs=85.7

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccchH
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESE   98 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~~   98 (441)
                      ..|.|.+.+|..|--.+........ .........-|+||+|.||+|||.+.+.++...+.. +++++............
T Consensus        24 P~i~g~~~iK~aill~L~~~~~~~~-~~~~~~r~~ihiLlvGdpg~gKS~ll~~~~~~~pr~-v~~~g~~~s~~gLta~~  101 (331)
T PF00493_consen   24 PSIYGHEDIKKAILLQLFGGVEKND-PDGTRIRGNIHILLVGDPGTGKSQLLKYVAKLAPRS-VYTSGKGSSAAGLTASV  101 (331)
T ss_dssp             STTTT-HHHHHHHCCCCTT--SCCC-CT-TEE--S--EEEECSCHHCHHHHHHCCCCT-SSE-EEEECCGSTCCCCCEEE
T ss_pred             CcCcCcHHHHHHHHHHHHhcccccc-ccccccccccceeeccchhhhHHHHHHHHHhhCCce-EEECCCCcccCCcccee
Confidence            4689998888776532211110000 000012234589999999999999999887665443 34443322111000000


Q ss_pred             ---HHHHH-HHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCC-------CCeEEEEE
Q 013506           99 ---KALRE-AFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTS-------VPHVVVVA  167 (441)
Q Consensus        99 ---~~~~~-~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~-------~~~~~vi~  167 (441)
                         ....+ .++ +.. ......+|++|||+|.+-          ......+...|+........       ..+..|++
T Consensus       102 ~~d~~~~~~~le-aGa-lvlad~GiccIDe~dk~~----------~~~~~~l~eaMEqq~isi~kagi~~~l~ar~svla  169 (331)
T PF00493_consen  102 SRDPVTGEWVLE-AGA-LVLADGGICCIDEFDKMK----------EDDRDALHEAMEQQTISIAKAGIVTTLNARCSVLA  169 (331)
T ss_dssp             CCCGGTSSECEE-E-H-HHHCTTSEEEECTTTT------------CHHHHHHHHHHHCSCEEECTSSSEEEEE---EEEE
T ss_pred             ccccccceeEEe-CCc-hhcccCceeeeccccccc----------chHHHHHHHHHHcCeeccchhhhcccccchhhhHH
Confidence               00000 000 000 011236799999999872          24467778888774332211       23578899


Q ss_pred             EcCCCC-------------ccCHHHhhCCccceEEEe-cCCCHHHHHHHHHHHhccC
Q 013506          168 STNRVD-------------AIDPALRRSGRFDAEVEV-TVPTAEERFEILKLYTKKV  210 (441)
Q Consensus       168 ~~~~~~-------------~l~~~l~~~~r~~~~i~~-~~p~~~~~~~il~~~~~~~  210 (441)
                      ++|+..             .+++.+.+  ||+.++.+ ..++.+.-..+..+.+...
T Consensus       170 a~NP~~g~~~~~~~~~~ni~l~~~LLS--RFDLif~l~D~~d~~~D~~la~~il~~~  224 (331)
T PF00493_consen  170 AANPKFGRYDPNKSLSENINLPPPLLS--RFDLIFLLRDKPDEEEDERLAEHILDSH  224 (331)
T ss_dssp             EE--TT--S-TTS-CGCCT-S-CCCHC--C-SEEECC--TTT-HHHHHHHHHHHTTT
T ss_pred             HHhhhhhhcchhhhhHHhcccchhhHh--hcCEEEEeccccccccccccceEEEecc
Confidence            998865             46678888  99977654 5666555555666555543

; 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.

>PRK04132 replication factor C small subunit; Provisional

Probab=98.42  E-value=5.6e-07  Score=90.67  Aligned_cols=94  Identities=23%  Similarity=0.331  Sum_probs=67.6

Q ss_pred             CCceEEEEC--CCCCcHHHHHHHHHHHc-----CCceEEechhhhhhhccCchHHHHHHHHHHHHh------cCCeEEEE
Q 013506          323 PVRGALLHG--PPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSMYVGESEALLRNTFQRARL------AAPSIIFF  389 (441)
Q Consensus       323 ~~~~~ll~G--p~GtGKTtla~~la~~~-----~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~------~~~~vl~i  389 (441)
                      |+-|.+..|  |++.||||+|+++|+.+     +.+++++++++..+  +.    .++++.+.+..      .+..|+||
T Consensus       563 ~~~~~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rg--id----~IR~iIk~~a~~~~~~~~~~KVvII  636 (846)
T PRK04132        563 PGYHNFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERG--IN----VIREKVKEFARTKPIGGASFKIIFL  636 (846)
T ss_pred             CchhhhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCccc--HH----HHHHHHHHHHhcCCcCCCCCEEEEE
Confidence            455677789  99999999999999987     55799999998644  22    44444443321      13469999


Q ss_pred             ecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          390 DEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       390 DE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ||+|.+.              ....+.|++.|+..+.....|+++.+
T Consensus       637 DEaD~Lt--------------~~AQnALLk~lEep~~~~~FILi~N~  669 (846)
T PRK04132        637 DEADALT--------------QDAQQALRRTMEMFSSNVRFILSCNY  669 (846)
T ss_pred             ECcccCC--------------HHHHHHHHHHhhCCCCCeEEEEEeCC
Confidence            9999984              24679999999986655554444443

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=98.41  E-value=4.9e-07  Score=90.17  Aligned_cols=47  Identities=30%  Similarity=0.357  Sum_probs=36.4

Q ss_pred             cccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          289 WEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       289 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      |..+.|++.++..+.-....             +..+++||.|++|||||++|++++..+
T Consensus         3 f~~ivGq~~~~~al~~~av~-------------~~~g~vli~G~~GtgKs~lar~l~~~l   49 (633)
T TIGR02442         3 FTAIVGQEDLKLALLLNAVD-------------PRIGGVLIRGEKGTAKSTAARGLAALL   49 (633)
T ss_pred             cchhcChHHHHHHHHHHhhC-------------CCCCeEEEEcCCCCcHHHHHHHHHHhC
Confidence            56788888888766543321             123579999999999999999999998

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.

>TIGR00368 Mg chelatase-related protein

Probab=98.41  E-value=5.7e-07  Score=86.29  Aligned_cols=46  Identities=35%  Similarity=0.463  Sum_probs=34.2

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .+.++.|...+++.+.-.               ...+.+++|+||||||||++++.++..+
T Consensus       190 d~~dv~Gq~~~~~al~~a---------------a~~g~~vlliG~pGsGKTtlar~l~~ll  235 (499)
T TIGR00368       190 DLKDIKGQQHAKRALEIA---------------AAGGHNLLLFGPPGSGKTMLASRLQGIL  235 (499)
T ss_pred             CHHHhcCcHHHHhhhhhh---------------ccCCCEEEEEecCCCCHHHHHHHHhccc
Confidence            466677776665544332               2345689999999999999999999866

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>PLN03210 Resistant to P

Probab=98.41  E-value=1.4e-05  Score=86.12  Aligned_cols=180  Identities=18%  Similarity=0.206  Sum_probs=96.8

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcE---EEEccCc----
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL---TVISPHS----   88 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~---~~v~~~~----   88 (441)
                      ..+++++|.+...+.+...+..           .....+-+.++|++|+||||+|+++++.+...+   +.++...    
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            4568899999999999887743           223567899999999999999999988764332   1221100    


Q ss_pred             ---cccccccc-------hHHHHHHHHH---------HHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHH
Q 013506           89 ---VHKAHVGE-------SEKALREAFS---------QASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (441)
Q Consensus        89 ---~~~~~~~~-------~~~~~~~~~~---------~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~  149 (441)
                         ........       ....+..++.         ......+..++.+|++||++..            .....+...
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               00000000       0000111110         0112223456789999998632            223333322


Q ss_pred             HhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc---ccHHHHHHHCC
Q 013506          150 MDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN---VDLEAIATSCN  226 (441)
Q Consensus       150 ~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~---~~~~~l~~~~~  226 (441)
                      .+..     .. +-.||.||+..     .+.+....+.++.++.++.++-.+++..++-......+   .-...++..+.
T Consensus       318 ~~~~-----~~-GsrIIiTTrd~-----~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~  386 (1153)
T PLN03210        318 TQWF-----GS-GSRIIVITKDK-----HFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAG  386 (1153)
T ss_pred             CccC-----CC-CcEEEEEeCcH-----HHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhC
Confidence            2211     11 22445555543     22221134567899999999998888876543322211   11344566666


Q ss_pred             CCC
Q 013506          227 GYV  229 (441)
Q Consensus       227 g~~  229 (441)
                      |.+
T Consensus       387 GLP  389 (1153)
T PLN03210        387 NLP  389 (1153)
T ss_pred             CCc
Confidence            653

syringae 6; Provisional

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=98.40  E-value=1.9e-06  Score=83.78  Aligned_cols=174  Identities=18%  Similarity=0.235  Sum_probs=100.4

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccchHHHHHHHHHHH-----------HhhhhcCCC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQA-----------SSHALSGKP  117 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~  117 (441)
                      ...++++.|++||||+++++++....   ..+++.++|..+.....      -..+|...           ........+
T Consensus       156 ~~~~vli~Ge~GtGK~~~A~~ih~~~~~~~~~~~~~~c~~~~~~~~------~~~lfg~~~~~~~~~~~~~~g~~~~a~~  229 (463)
T TIGR01818       156 SDITVLINGESGTGKELVARALHRHSPRANGPFIALNMAAIPKDLI------ESELFGHEKGAFTGANTRRQGRFEQADG  229 (463)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHhCCCCCCCeEEEeCCCCCHHHH------HHHhcCCCCCCCCCcccCCCCcEEECCC
Confidence            34679999999999999999997764   45789999877532111      01111100           001112236


Q ss_pred             eEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCCeEEEEEEcCCCC-------ccCHHHhhCCcc
Q 013506          118 SVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVPHVVVVASTNRVD-------AIDPALRRSGRF  185 (441)
Q Consensus       118 ~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~~~~~~~vi~~~~~~~-------~l~~~l~~~~r~  185 (441)
                      +.|||||++.|          +...+..|+..++.....     .....++.+|++++..-       .+.+.+..  |+
T Consensus       230 gtl~l~ei~~l----------~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~l~~~~~~~~f~~~L~~--rl  297 (463)
T TIGR01818       230 GTLFLDEIGDM----------PLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNLEALVRQGKFREDLFH--RL  297 (463)
T ss_pred             CeEEEEchhhC----------CHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCCHHHHHHcCCcHHHHHH--Hh
Confidence            78999999987          345677777777653211     11122567788776532       34445544  44


Q ss_pred             c-eEEEecCCC--HHHHHHHHHHHhccC----CCC----CcccHHHHHHHCCCCCHHHHHHHHHHHHHH
Q 013506          186 D-AEVEVTVPT--AEERFEILKLYTKKV----PLD----ANVDLEAIATSCNGYVGADLEALCREATMS  243 (441)
Q Consensus       186 ~-~~i~~~~p~--~~~~~~il~~~~~~~----~~~----~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~  243 (441)
                      . ..+.+|+..  .++...++..++...    ...    ....+..+......-+-++++++++.++..
T Consensus       298 ~~~~i~lPpLr~R~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNvreL~~~~~~~~~~  366 (463)
T TIGR01818       298 NVIRIHLPPLRERREDIPRLARHFLALAARELDVEPKLLDPEALERLKQLRWPGNVRQLENLCRWLTVM  366 (463)
T ss_pred             CcceecCCCcccchhhHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHh
Confidence            3 356677665  455555555544332    111    111244445544445678888888777653

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.

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=98.40  E-value=7.7e-06  Score=73.02  Aligned_cols=164  Identities=20%  Similarity=0.253  Sum_probs=98.4

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc-------
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-------   91 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~-------   91 (441)
                      .++.+.|.+.+.|...+...          ....|.++.|+|.+|||||.+++.+.+.++.+.+.+++.+...       
T Consensus         6 ~~v~~Re~qi~~L~~Llg~~----------~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~~vw~n~~ecft~~~lle~   75 (438)
T KOG2543|consen    6 PNVPCRESQIRRLKSLLGNN----------SCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLENVWLNCVECFTYAILLEK   75 (438)
T ss_pred             cCccchHHHHHHHHHHhCCC----------CcccceeEEEeccCCCchhHHHHHHHhhcCCcceeeehHHhccHHHHHHH
Confidence            56788899999988876321          1135678899999999999999999999988888777654321       


Q ss_pred             --------ccccchH-------HHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC
Q 013506           92 --------AHVGESE-------KALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS  156 (441)
Q Consensus        92 --------~~~~~~~-------~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~  156 (441)
                              ...+...       ......+.+........+...|++|.+|.+-       +.+...++.++++.+-....
T Consensus        76 IL~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lr-------D~~a~ll~~l~~L~el~~~~  148 (438)
T KOG2543|consen   76 ILNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALR-------DMDAILLQCLFRLYELLNEP  148 (438)
T ss_pred             HHHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhh-------ccchHHHHHHHHHHHHhCCC
Confidence                    1111111       1122233332222222346789999999874       22335566666665543322


Q ss_pred             CCCCCeEEEEEEcCCCCccCHHHhhCCccc-eEEEecCCCHHHHHHHHHHH
Q 013506          157 KTSVPHVVVVASTNRVDAIDPALRRSGRFD-AEVEVTVPTAEERFEILKLY  206 (441)
Q Consensus       157 ~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~-~~i~~~~p~~~~~~~il~~~  206 (441)
                           .+.++.+.......  -..+-|.+. .+++||.|+.++.++|+..-
T Consensus       149 -----~i~iils~~~~e~~--y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~  192 (438)
T KOG2543|consen  149 -----TIVIILSAPSCEKQ--YLINTGTLEIVVLHFPQYSVEETQVILSRD  192 (438)
T ss_pred             -----ceEEEEeccccHHH--hhcccCCCCceEEecCCCCHHHHHHHHhcC
Confidence                 34444433322111  111112222 46899999999999998753

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=98.40  E-value=3.4e-06  Score=66.33  Aligned_cols=32  Identities=25%  Similarity=0.444  Sum_probs=27.8

Q ss_pred             hcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           47 KLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        47 ~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      ++.+.++..++++||+|||||++.+.+|....
T Consensus        23 sl~v~~Ge~iaitGPSG~GKStllk~va~Lis   54 (223)
T COG4619          23 SLSVRAGEFIAITGPSGCGKSTLLKIVASLIS   54 (223)
T ss_pred             eeeecCCceEEEeCCCCccHHHHHHHHHhccC
Confidence            34567899999999999999999999998753

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=98.39  E-value=1.7e-06  Score=71.14  Aligned_cols=96  Identities=20%  Similarity=0.147  Sum_probs=55.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhh----------------------hccCc--hHHHHHHHHHHH
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYS----------------------MYVGE--SEALLRNTFQRA  379 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~----------------------~~~g~--~~~~~~~~~~~a  379 (441)
                      ++++||||+|||+++..++...   +.+++.++......                      .+...  .....+.....+
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIVFATADDPAAARLLSKAERLR   81 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHHHHHHHhhhhhccccccEEEEEcCCCCCcHHHHHHHHHHHH
Confidence            6899999999999999998876   34554444322211                      00001  111122334555


Q ss_pred             HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhc
Q 013506          380 RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (441)
Q Consensus       380 ~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~  422 (441)
                      ....+.++++||+..+.........+......+.+..|+..+.
T Consensus        82 ~~~~~~~lviDe~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~  124 (165)
T cd01120          82 ERGGDDLIILDELTRLVRALREIREGYPGELDEELRELLERAR  124 (165)
T ss_pred             hCCCCEEEEEEcHHHHHHHHHHHHhcCChHHHHHHHHHHHHHh
Confidence            6677889999999998753221001122334556666666664

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.

>COG1119 ModF ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]

Probab=98.38  E-value=1.7e-06  Score=72.70  Aligned_cols=31  Identities=26%  Similarity=0.378  Sum_probs=27.6

Q ss_pred             hcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           47 KLGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        47 ~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +|.+.++.++.++||+|+|||||++.++...
T Consensus        51 sW~V~~ge~W~I~G~NGsGKTTLL~ll~~~~   81 (257)
T COG1119          51 SWQVNPGEHWAIVGPNGAGKTTLLSLLTGEH   81 (257)
T ss_pred             ceeecCCCcEEEECCCCCCHHHHHHHHhccc
Confidence            4567889999999999999999999998765

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=98.38  E-value=2e-06  Score=83.54  Aligned_cols=172  Identities=17%  Similarity=0.263  Sum_probs=96.7

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccchHHHHHHHHHHHH-----------hhhhcCCC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQAS-----------SHALSGKP  117 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~  117 (441)
                      ...++++.|++||||+++++.+....   +.+++.++|..+....      .-..+|....           .......+
T Consensus       165 ~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~~~~------~~~~lfg~~~~~~~~~~~~~~g~~~~a~~  238 (457)
T PRK11361        165 SQASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPESL------LESELFGHEKGAFTGAQTLRQGLFERANE  238 (457)
T ss_pred             CCcEEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCCHHH------HHHHhcCCCCCCCCCCCCCCCCceEECCC
Confidence            45789999999999999999997653   4688999987753211      0111121100           01112235


Q ss_pred             eEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCCeEEEEEEcCCCC-------ccCHHHhhCCcc
Q 013506          118 SVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVPHVVVVASTNRVD-------AIDPALRRSGRF  185 (441)
Q Consensus       118 ~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~~~~~~~vi~~~~~~~-------~l~~~l~~~~r~  185 (441)
                      ++|||||++.|          +...+..|+..++.....     .....++.+|++++...       .+.+.+..  |+
T Consensus       239 gtl~ld~i~~l----------~~~~q~~L~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~l~~~~~~g~~~~~l~~--~l  306 (457)
T PRK11361        239 GTLLLDEIGEM----------PLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNRDLQAMVKEGTFREDLFY--RL  306 (457)
T ss_pred             CEEEEechhhC----------CHHHHHHHHHHHhcCcEEeCCCCceeeeceEEEEeCCCCHHHHHHcCCchHHHHH--Hh
Confidence            79999999988          345677788877653211     11123478888887542       33444443  44


Q ss_pred             ceEEEecCCCHHHHHH----HHHHHhccC----CCC-Cccc---HHHHHHHCCCCCHHHHHHHHHHHHH
Q 013506          186 DAEVEVTVPTAEERFE----ILKLYTKKV----PLD-ANVD---LEAIATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       186 ~~~i~~~~p~~~~~~~----il~~~~~~~----~~~-~~~~---~~~l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                      . .+.+..|...+|..    +...++.+.    ... ...+   ++.+.......+.++++++++.+..
T Consensus       307 ~-~~~i~~ppLreR~~di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgNv~eL~~~~~~~~~  374 (457)
T PRK11361        307 N-VIHLILPPLRDRREDISLLANHFLQKFSSENQRDIIDIDPMAMSLLTAWSWPGNIRELSNVIERAVV  374 (457)
T ss_pred             c-cceecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHcCCCCCcHHHHHHHHHHHHH
Confidence            3 34455555444432    333332221    111 1122   4444554555677888888887664

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.38  E-value=1.6e-06  Score=71.17  Aligned_cols=29  Identities=31%  Similarity=0.496  Sum_probs=24.4

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      .++...-.-|.||+||||||++|++.+..
T Consensus        29 ~i~~~~VTAlIGPSGcGKST~LR~lNRmn   57 (253)
T COG1117          29 DIPKNKVTALIGPSGCGKSTLLRCLNRMN   57 (253)
T ss_pred             eccCCceEEEECCCCcCHHHHHHHHHhhc
Confidence            45566778999999999999999998764

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.37  E-value=7e-07  Score=80.45  Aligned_cols=70  Identities=26%  Similarity=0.416  Sum_probs=43.6

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccchH-HHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESE-KALREAFSQASSHALSGKPSVVFIDEIDA  127 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~il~iDe~~~  127 (441)
                      .+.+++|+||+|||||+|+.++++.+   +.++..+....+....-.... ......++..      .+.++|+|||+..
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            45789999999999999999999987   455666655443322110000 0111122221      2467999999864

>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=98.37  E-value=1.5e-06  Score=77.86  Aligned_cols=82  Identities=35%  Similarity=0.502  Sum_probs=56.0

Q ss_pred             cccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcC--CceEEechhhhhhhccC
Q 013506          289 WEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE--ASFFSLSGAELYSMYVG  366 (441)
Q Consensus       289 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~--~~~~~i~~~~~~~~~~g  366 (441)
                      ...++|+.+.+++.--.++..        +-+...+..+||.||||||||++|-++|+.+|  .||+.++++++|+.-+.
T Consensus        23 ~~GlVGQ~~AReAagiiv~mI--------k~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~isgSEiyS~e~k   94 (398)
T PF06068_consen   23 ADGLVGQEKAREAAGIIVDMI--------KEGKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPFVSISGSEIYSSEVK   94 (398)
T ss_dssp             ETTEES-HHHHHHHHHHHHHH--------HTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEEEEGGGG-BTTC-
T ss_pred             cccccChHHHHHHHHHHHHHH--------hcccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCeeEcccceeeecccC
Confidence            456788888887765554421        11344567899999999999999999999997  78999999999997776


Q ss_pred             chHHHHHHHHHHH
Q 013506          367 ESEALLRNTFQRA  379 (441)
Q Consensus       367 ~~~~~~~~~~~~a  379 (441)
                      .+|. +-+.|++|
T Consensus        95 KTE~-L~qa~Rra  106 (398)
T PF06068_consen   95 KTEA-LTQAFRRA  106 (398)
T ss_dssp             HHHH-HHHHHHCS
T ss_pred             chHH-HHHHHHHh
Confidence            6664 44455554

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.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=98.37  E-value=2.7e-06  Score=69.70  Aligned_cols=104  Identities=17%  Similarity=0.158  Sum_probs=64.8

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcCC--ceEEechhhh--------hhh---ccC--chHHHHHHHHHHHHhcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAEA--SFFSLSGAEL--------YSM---YVG--ESEALLRNTFQRARLAA  383 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~--~~~~i~~~~~--------~~~---~~g--~~~~~~~~~~~~a~~~~  383 (441)
                      +.+.++..+.++||+|+||||+.++++.....  .-+.++..++        ...   |+.  ...+.-+-.+.+|...+
T Consensus        21 ~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v~~~g~~~~~~~~~~~~~~~i~~~~qLS~G~~qrl~laral~~~  100 (163)
T cd03216          21 LSVRRGEVHALLGENGAGKSTLMKILSGLYKPDSGEILVDGKEVSFASPRDARRAGIAMVYQLSVGERQMVEIARALARN  100 (163)
T ss_pred             EEEeCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEECCcCCHHHHHhcCeEEEEecCHHHHHHHHHHHHHhcC
Confidence            45677889999999999999999999988632  1122222111        111   111  12334455777777889


Q ss_pred             CeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEe
Q 013506          384 PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPI  434 (441)
Q Consensus       384 ~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~  434 (441)
                      |.++++||-...+          +....+.+..+|.++.  .....|++++
T Consensus       101 p~illlDEP~~~L----------D~~~~~~l~~~l~~~~--~~~~tiii~s  139 (163)
T cd03216         101 ARLLILDEPTAAL----------TPAEVERLFKVIRRLR--AQGVAVIFIS  139 (163)
T ss_pred             CCEEEEECCCcCC----------CHHHHHHHHHHHHHHH--HCCCEEEEEe
Confidence            9999999998665          2234555666666663  2233444443

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=98.36  E-value=2e-06  Score=72.68  Aligned_cols=94  Identities=14%  Similarity=0.159  Sum_probs=55.0

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc-----CCce-------------EEechhhhhhhccC---chHHHHHHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA-----EASF-------------FSLSGAELYSMYVG---ESEALLRNTFQR  378 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~-----~~~~-------------~~i~~~~~~~~~~g---~~~~~~~~~~~~  378 (441)
                      .+..+.-++++||||+||||+.|.++...     |.++             ..+...+-...-.+   .....++++++.
T Consensus        21 ~l~~g~~~~ltGpNg~GKSTllr~i~~~~~l~~~G~~v~a~~~~~q~~~l~~~~~~~d~l~~~~s~~~~e~~~~~~iL~~  100 (199)
T cd03283          21 DMEKKNGILITGSNMSGKSTFLRTIGVNVILAQAGAPVCASSFELPPVKIFTSIRVSDDLRDGISYFYAELRRLKEIVEK  100 (199)
T ss_pred             EEcCCcEEEEECCCCCChHHHHHHHHHHHHHHHcCCEEecCccCcccceEEEeccchhccccccChHHHHHHHHHHHHHh
Confidence            33445568999999999999999998533     3322             11111111110000   112456777777


Q ss_pred             HHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhc
Q 013506          379 ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (441)
Q Consensus       379 a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~  422 (441)
                      +....|.++++||.-+..         +......+...+++.+.
T Consensus       101 ~~~~~p~llllDEp~~gl---------D~~~~~~l~~~ll~~l~  135 (199)
T cd03283         101 AKKGEPVLFLLDEIFKGT---------NSRERQAASAAVLKFLK  135 (199)
T ss_pred             ccCCCCeEEEEecccCCC---------CHHHHHHHHHHHHHHHH
Confidence            665578899999987644         11223345566677764

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=98.36  E-value=2.7e-06  Score=71.76  Aligned_cols=31  Identities=32%  Similarity=0.487  Sum_probs=27.2

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.+..+..++|+||+||||||+.+.+.+...
T Consensus        22 l~I~~gef~vliGpSGsGKTTtLkMINrLie   52 (309)
T COG1125          22 LTIEEGEFLVLIGPSGSGKTTTLKMINRLIE   52 (309)
T ss_pred             EEecCCeEEEEECCCCCcHHHHHHHHhcccC
Confidence            4567889999999999999999999988763

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

Probab=98.36  E-value=6e-06  Score=76.25  Aligned_cols=102  Identities=26%  Similarity=0.370  Sum_probs=65.7

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCc-----eEEechhhhhhhc---------------cCch-HHHHHHHHHHHHh
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAAEAS-----FFSLSGAELYSMY---------------VGES-EALLRNTFQRARL  381 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~~~~-----~~~i~~~~~~~~~---------------~g~~-~~~~~~~~~~a~~  381 (441)
                      .+.+++++|+||||||.+++.+++.+.-.     ++.+++....++|               .|.+ .+..+.+++....
T Consensus        41 ~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~  120 (366)
T COG1474          41 RPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLGKVPLTGDSSLEILKRLYDNLSK  120 (366)
T ss_pred             CCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHHcCCCCCCCCchHHHHHHHHHHHHh
Confidence            34569999999999999999999988433     7888886544332               1222 2334555555433


Q ss_pred             -cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          382 -AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       382 -~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                       ...-|+++||+|.+....+           .++-.|+...+.. ...+.+|+-+|
T Consensus       121 ~~~~~IvvLDEid~L~~~~~-----------~~LY~L~r~~~~~-~~~v~vi~i~n  164 (366)
T COG1474         121 KGKTVIVILDEVDALVDKDG-----------EVLYSLLRAPGEN-KVKVSIIAVSN  164 (366)
T ss_pred             cCCeEEEEEcchhhhccccc-----------hHHHHHHhhcccc-ceeEEEEEEec
Confidence             4556999999999985311           5666777666554 22233444444

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.35  E-value=4.6e-06  Score=68.46  Aligned_cols=54  Identities=20%  Similarity=0.266  Sum_probs=40.6

Q ss_pred             HHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeeeee
Q 013506          373 RNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFIFQ  439 (441)
Q Consensus       373 ~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~~~  439 (441)
                      |....+|.+-.|.||++||--+.+          +-.+..-+.+|+.+|.   .+..|+|++=|.-|
T Consensus       157 RLcIARalAv~PeVlLmDEPtSAL----------DPIsT~kIEeLi~eLk---~~yTIviVTHnmqQ  210 (253)
T COG1117         157 RLCIARALAVKPEVLLMDEPTSAL----------DPISTLKIEELITELK---KKYTIVIVTHNMQQ  210 (253)
T ss_pred             HHHHHHHHhcCCcEEEecCccccc----------CchhHHHHHHHHHHHH---hccEEEEEeCCHHH
Confidence            446677778889999999998876          2334566899999997   56678887776654

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.35  E-value=2.3e-06  Score=82.84  Aligned_cols=32  Identities=28%  Similarity=0.378  Sum_probs=28.5

Q ss_pred             hcCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          318 RLGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       318 ~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      .+.++|+..+.++||+|+||||+|.++-+.+.
T Consensus       488 sfti~pGe~vALVGPSGsGKSTiasLL~rfY~  519 (716)
T KOG0058|consen  488 SFTIRPGEVVALVGPSGSGKSTIASLLLRFYD  519 (716)
T ss_pred             eeeeCCCCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            45678899999999999999999999998883

>PRK06620 hypothetical protein; Validated

Probab=98.35  E-value=9.2e-07  Score=75.60  Aligned_cols=26  Identities=31%  Similarity=0.371  Sum_probs=23.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCC
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEA  350 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~  350 (441)
                      ..++|+||+|||||+++++++...+.
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~   70 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNA   70 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCC
Confidence            56899999999999999999887764

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.34  E-value=2.2e-05  Score=61.52  Aligned_cols=27  Identities=30%  Similarity=0.532  Sum_probs=23.5

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      ..-.++++|+||+||||++.-+++.+.
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~L~   30 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEKLR   30 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHHH
Confidence            345799999999999999999998773

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=98.33  E-value=5.6e-07  Score=77.59  Aligned_cols=31  Identities=19%  Similarity=0.337  Sum_probs=27.1

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.++.+..+.+.||+|||||||.+++++.+.
T Consensus        23 ~~i~~G~i~~iiGpNG~GKSTLLk~l~g~l~   53 (258)
T COG1120          23 FSIPKGEITGILGPNGSGKSTLLKCLAGLLK   53 (258)
T ss_pred             EEecCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            3467789999999999999999999998764

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=98.33  E-value=1.2e-06  Score=69.53  Aligned_cols=83  Identities=19%  Similarity=0.284  Sum_probs=53.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCC---ceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccC
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEA---SFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRG  400 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~---~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~  400 (441)
                      ..+++++|++||||+++|+++....+.   +++.+++.+.-           .++++.+   ....+||+|+|.+.+   
T Consensus        21 ~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~-----------~~~l~~a---~~gtL~l~~i~~L~~---   83 (138)
T PF14532_consen   21 SSPVLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLP-----------AELLEQA---KGGTLYLKNIDRLSP---   83 (138)
T ss_dssp             SS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTC-----------HHHHHHC---TTSEEEEECGCCS-H---
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCc-----------HHHHHHc---CCCEEEECChHHCCH---
Confidence            456999999999999999999887753   45555554422           3455554   455999999999853   


Q ss_pred             CCCCCCcchhhHHHHHHHHHhcCC-CCCCeEEEEe
Q 013506          401 GSSSTSITVGERLLSTLLTEMDGL-EQAKVIIYPI  434 (441)
Q Consensus       401 ~~~~~~~~~~~~~~~~ll~~l~~~-~~~~~v~~~~  434 (441)
                                 .....|+..|+.. ..+.++|+.+
T Consensus        84 -----------~~Q~~L~~~l~~~~~~~~RlI~ss  107 (138)
T PF14532_consen   84 -----------EAQRRLLDLLKRQERSNVRLIASS  107 (138)
T ss_dssp             -----------HHHHHHHHHHHHCTTTTSEEEEEE
T ss_pred             -----------HHHHHHHHHHHhcCCCCeEEEEEe
Confidence                       3445555555543 3344444443

>TIGR02012 tigrfam_recA protein RecA

Probab=98.33  E-value=4.2e-06  Score=75.23  Aligned_cols=117  Identities=21%  Similarity=0.149  Sum_probs=70.2

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhh----------------ccCchHHHHHHHHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM----------------YVGESEALLRNTFQRAR  380 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~----------------~~g~~~~~~~~~~~~a~  380 (441)
                      |++++.-++++||||||||++|-.++...   +..++.++..+..+.                .....++.+..+...++
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            67777788999999999999987765443   555655544221110                11122333433433345


Q ss_pred             hcCCeEEEEecccccccccCCCC---CCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          381 LAAPSIIFFDEADVVGAKRGGSS---STSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       381 ~~~~~vl~iDE~d~~~~~r~~~~---~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ...+.++++|-+..+.+....++   +...+...|+++.+|..|.+.-....|.++-+|
T Consensus       131 ~~~~~lIVIDSv~al~~~~E~e~~~g~~~~~~~aR~m~~~lr~L~~~l~~~~~tvi~tN  189 (321)
T TIGR02012       131 SGAVDIIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGALSKSNTTAIFIN  189 (321)
T ss_pred             ccCCcEEEEcchhhhccchhhcccccccchhHHHHHHHHHHHHHHHHHHhCCCEEEEEe
Confidence            56788999999999987432221   112223446677777777776555555555544

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.

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=98.31  E-value=2.3e-06  Score=75.56  Aligned_cols=98  Identities=18%  Similarity=0.102  Sum_probs=64.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEE--------echhhhhhhc-cC----chHHHHHHHHHHH----HhcCCeEEE
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFS--------LSGAELYSMY-VG----ESEALLRNTFQRA----RLAAPSIIF  388 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~--------i~~~~~~~~~-~g----~~~~~~~~~~~~a----~~~~~~vl~  388 (441)
                      .+||+||.|+||+++|..+|..+-+.--.        -.-+|++--+ .+    -..+.++.+.+.+    ..+...|++
T Consensus        21 AyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~p~e~~~kv~i  100 (290)
T PRK05917         21 AIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAIKKQIWIHPYESPYKIYI  100 (290)
T ss_pred             eEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHHHHHHhhCccCCCceEEE
Confidence            46899999999999999999988542100        0011110000 11    1234455555544    345567999


Q ss_pred             EecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          389 FDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       389 iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      ||++|++.              ..+-|.||+.|+..+.....|+++++.
T Consensus       101 i~~ad~mt--------------~~AaNaLLK~LEEPp~~~~fiL~~~~~  135 (290)
T PRK05917        101 IHEADRMT--------------LDAISAFLKVLEDPPQHGVIILTSAKP  135 (290)
T ss_pred             EechhhcC--------------HHHHHHHHHHhhcCCCCeEEEEEeCCh
Confidence            99999985              367899999999977666667766664

>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=98.30  E-value=2.5e-05  Score=70.81  Aligned_cols=174  Identities=18%  Similarity=0.209  Sum_probs=89.1

Q ss_pred             HHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHH--hCCc---EEEEccCccccc-------
Q 013506           25 RAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRE--CGAH---LTVISPHSVHKA-------   92 (441)
Q Consensus        25 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~--l~~~---~~~v~~~~~~~~-------   92 (441)
                      |..+++|.+.+...           ......+.|+|++|+|||++|+.++..  ....   ++.++.......       
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            45566666665431           135678999999999999999999877  4332   233332221100       


Q ss_pred             ------c-----ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCC
Q 013506           93 ------H-----VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVP  161 (441)
Q Consensus        93 ------~-----~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  161 (441)
                            .     ...........+    ...+..++.+|++|+++..            .....+...+....      .
T Consensus        71 ~~~l~~~~~~~~~~~~~~~~~~~l----~~~L~~~~~LlVlDdv~~~------------~~~~~l~~~~~~~~------~  128 (287)
T PF00931_consen   71 LRQLGEPDSSISDPKDIEELQDQL----RELLKDKRCLLVLDDVWDE------------EDLEELREPLPSFS------S  128 (287)
T ss_dssp             HHHHTCC-STSSCCSSHHHHHHHH----HHHHCCTSEEEEEEEE-SH------------HHH-------HCHH------S
T ss_pred             cccccccccccccccccccccccc----hhhhccccceeeeeeeccc------------cccccccccccccc------c
Confidence                  0     000111111111    2223455899999998743            12222222222111      1


Q ss_pred             eEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCC----CCCcccHHHHHHHCCCCCHHHHHHH
Q 013506          162 HVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVP----LDANVDLEAIATSCNGYVGADLEAL  236 (441)
Q Consensus       162 ~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~----~~~~~~~~~l~~~~~g~~~~~i~~l  236 (441)
                      +..+|.||...... ....   .-...+.++..+.++-.+++........    .........++..+.|. +-.+..+
T Consensus       129 ~~kilvTTR~~~v~-~~~~---~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~gl-PLal~~~  202 (287)
T PF00931_consen  129 GSKILVTTRDRSVA-GSLG---GTDKVIELEPLSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGL-PLALKLI  202 (287)
T ss_dssp             S-EEEEEESCGGGG-TTHH---SCEEEEECSS--HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT--HHHHHHH
T ss_pred             cccccccccccccc-cccc---ccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccc
Confidence            24556666653322 1121   1135799999999999999998765443    12233367888888764 4444333

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.

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=98.30  E-value=2.1e-06  Score=75.81  Aligned_cols=82  Identities=33%  Similarity=0.519  Sum_probs=60.5

Q ss_pred             cccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcC--CceEEechhhhhhhccC
Q 013506          289 WEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE--ASFFSLSGAELYSMYVG  366 (441)
Q Consensus       289 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~--~~~~~i~~~~~~~~~~g  366 (441)
                      -+.++|+.+.+++.--.++.        -+-+...+.++|++||||||||.+|-.+|+.+|  -||+.++++++|+--+.
T Consensus        38 ~dG~VGQ~~AReAaGvIv~m--------ik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvPF~~isgsEiYS~E~k  109 (450)
T COG1224          38 GDGLVGQEEAREAAGVIVKM--------IKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVPFVAISGSEIYSLEVK  109 (450)
T ss_pred             CCcccchHHHHHhhhHHHHH--------HHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCCCCceeeccceeeeeccc
Confidence            34567777776654333321        122556678899999999999999999999997  68999999999997777


Q ss_pred             chHHHHHHHHHHH
Q 013506          367 ESEALLRNTFQRA  379 (441)
Q Consensus       367 ~~~~~~~~~~~~a  379 (441)
                      .++.- .+.|+++
T Consensus       110 KTE~L-~qa~Rra  121 (450)
T COG1224         110 KTEAL-TQALRRA  121 (450)
T ss_pred             HHHHH-HHHHHHh
Confidence            66654 4555555

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=98.29  E-value=1.8e-05  Score=69.50  Aligned_cols=165  Identities=17%  Similarity=0.340  Sum_probs=91.4

Q ss_pred             cccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHH---HhCCcEEEEccCccccc----
Q 013506           20 AIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVR---ECGAHLTVISPHSVHKA----   92 (441)
Q Consensus        20 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~---~l~~~~~~v~~~~~~~~----   92 (441)
                      .+.|..+....+.+++..-...         ...+.++++||.|+|||+++.....   +.+.+++.+........    
T Consensus        25 ~l~g~~~~~~~l~~~lkqt~~~---------gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~a   95 (408)
T KOG2228|consen   25 NLFGVQDEQKHLSELLKQTILH---------GESNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIA   95 (408)
T ss_pred             ceeehHHHHHHHHHHHHHHHHh---------cCCCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHH
Confidence            4677777777788777542221         3457899999999999999876543   45566655543222111    


Q ss_pred             -----------------cccchHHHHHHHHHHHHhhhhcCCC-eEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCC
Q 013506           93 -----------------HVGESEKALREAFSQASSHALSGKP-SVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK  154 (441)
Q Consensus        93 -----------------~~~~~~~~~~~~~~~~~~~~~~~~~-~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~  154 (441)
                                       ..+.....+..++..........+. .|.++||||..++..         .+-.+.+++|-..
T Consensus        96 l~~I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~---------rQtllYnlfDisq  166 (408)
T KOG2228|consen   96 LKGITRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHS---------RQTLLYNLFDISQ  166 (408)
T ss_pred             HHHHHHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccch---------hhHHHHHHHHHHh
Confidence                             1111222222233222222222223 345567898775422         2334445554432


Q ss_pred             CCCCCCCeEEEEEEcCCCC---ccCHHHhhCCccceE-EEecCC-CHHHHHHHHHHHh
Q 013506          155 PSKTSVPHVVVVASTNRVD---AIDPALRRSGRFDAE-VEVTVP-TAEERFEILKLYT  207 (441)
Q Consensus       155 ~~~~~~~~~~vi~~~~~~~---~l~~~l~~~~r~~~~-i~~~~p-~~~~~~~il~~~~  207 (441)
                      ..  .. .+.+++.|.+.+   .+..+.++  ||.+. |+++++ ...+...+++..+
T Consensus       167 s~--r~-Piciig~Ttrld~lE~LEKRVKS--RFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  167 SA--RA-PICIIGVTTRLDILELLEKRVKS--RFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             hc--CC-CeEEEEeeccccHHHHHHHHHHh--hcccceeeccCCCChHHHHHHHHHHh
Confidence            22  12 355666665544   55678888  99855 555444 5667777777665

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=98.29  E-value=6.2e-06  Score=68.05  Aligned_cols=77  Identities=22%  Similarity=0.166  Sum_probs=50.3

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcCC--ceEEechhhh--hhhcc-CchHHHHHHHHHHHHhcCCeEEEEecccc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEA--SFFSLSGAEL--YSMYV-GESEALLRNTFQRARLAAPSIIFFDEADV  394 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~--~~~~i~~~~~--~~~~~-g~~~~~~~~~~~~a~~~~~~vl~iDE~d~  394 (441)
                      .+.++..+.++||+|+||||+.++++.....  --+.++..++  ..... -...+.-+-.+.++....|.++++||--.
T Consensus        21 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~q~~~LSgGq~qrv~laral~~~p~lllLDEPts  100 (177)
T cd03222          21 VVKEGEVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGITPVYKPQYIDLSGGELQRVAIAAALLRNATFYLFDEPSA  100 (177)
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHHcCCCCCCcEEEECCEEEEEEcccCCCCHHHHHHHHHHHHHhcCCCEEEEECCcc
Confidence            3456778899999999999999999998732  1233333211  01111 11133445566777778899999999987


Q ss_pred             cc
Q 013506          395 VG  396 (441)
Q Consensus       395 ~~  396 (441)
                      .+
T Consensus       101 ~L  102 (177)
T cd03222         101 YL  102 (177)
T ss_pred             cC
Confidence            65

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=98.29  E-value=4.7e-06  Score=68.52  Aligned_cols=32  Identities=28%  Similarity=0.635  Sum_probs=25.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccC
Q 013506           56 LLLYGPPGTGKTSLVRAVVREC---GAHLTVISPH   87 (441)
Q Consensus        56 vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~   87 (441)
                      ++++||||+|||+++..++...   +.++++++..
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e   36 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIE   36 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECC
Confidence            6899999999999999998876   3456665543

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=98.29  E-value=5.3e-06  Score=71.93  Aligned_cols=77  Identities=19%  Similarity=0.207  Sum_probs=47.9

Q ss_pred             CCCCCceEEEECCCCCcHHHHH-HHHHHHc--CCceEEechhh----hhhh----------c---------------cC-
Q 013506          320 GISPVRGALLHGPPGCSKTTLA-KAAAHAA--EASFFSLSGAE----LYSM----------Y---------------VG-  366 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla-~~la~~~--~~~~~~i~~~~----~~~~----------~---------------~g-  366 (441)
                      +++++.-++++|+||||||++| +.++..+  +..++.+...+    ++..          +               .+ 
T Consensus        20 gi~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~~~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~   99 (230)
T PRK08533         20 GIPAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQLTTTEFIKQMMSLGYDINKKLISGKLLYIPVYPLLSGN   99 (230)
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHhCCchHHHhhcCcEEEEEecccccCh
Confidence            5677778899999999999997 5555443  44444443221    1000          0               00 


Q ss_pred             -chHHHHHHHHHHHHhcCCeEEEEecccccc
Q 013506          367 -ESEALLRNTFQRARLAAPSIIFFDEADVVG  396 (441)
Q Consensus       367 -~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~  396 (441)
                       +.+..+..+...+...++.++++||+-.+.
T Consensus       100 ~~~~~~l~~il~~~~~~~~~~lVIDe~t~~l  130 (230)
T PRK08533        100 SEKRKFLKKLMNTRRFYEKDVIIIDSLSSLI  130 (230)
T ss_pred             HHHHHHHHHHHHHHHhcCCCEEEEECccHHh
Confidence             013344556666555678899999999875

>PHA00729 NTP-binding motif containing protein

Probab=98.27  E-value=2.3e-06  Score=72.35  Aligned_cols=25  Identities=28%  Similarity=0.505  Sum_probs=23.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+++|+|+|||||||+|..++..++
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4799999999999999999999875

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=98.27  E-value=9.2e-06  Score=69.51  Aligned_cols=102  Identities=15%  Similarity=0.037  Sum_probs=55.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH-----cCCce--------------EEechhhhhhhccCchHHHHHHHHHHH-HhcCC
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHA-----AEASF--------------FSLSGAELYSMYVGESEALLRNTFQRA-RLAAP  384 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~-----~~~~~--------------~~i~~~~~~~~~~g~~~~~~~~~~~~a-~~~~~  384 (441)
                      +.++|+||||+||||+.|.++..     .|..+              ..+...+-.......+...++++-... ....+
T Consensus        30 ~~~~itGpNg~GKStlLk~i~~~~~la~~G~~v~a~~~~~~~~d~i~~~l~~~~si~~~~S~f~~el~~l~~~l~~~~~~  109 (213)
T cd03281          30 SIMVITGPNSSGKSVYLKQVALIVFLAHIGSFVPADSATIGLVDKIFTRMSSRESVSSGQSAFMIDLYQVSKALRLATRR  109 (213)
T ss_pred             eEEEEECCCCCChHHHHHHHHHHHHHHhCCCeeEcCCcEEeeeeeeeeeeCCccChhhccchHHHHHHHHHHHHHhCCCC
Confidence            56899999999999999999843     23221              111111112212233344444433332 23578


Q ss_pred             eEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEee
Q 013506          385 SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPIS  435 (441)
Q Consensus       385 ~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~  435 (441)
                      .+++|||..+..         +...+..++..+++.+-........+|++|
T Consensus       110 slvllDE~~~gt---------d~~~~~~~~~ail~~l~~~~~~~~~vli~T  151 (213)
T cd03281         110 SLVLIDEFGKGT---------DTEDGAGLLIATIEHLLKRGPECPRVIVST  151 (213)
T ss_pred             cEEEeccccCCC---------CHHHHHHHHHHHHHHHHhcCCCCcEEEEEc
Confidence            899999998654         112234555566666633111223455554

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PRK15115 response regulator GlrR; Provisional

Probab=98.26  E-value=2.4e-05  Score=75.61  Aligned_cols=172  Identities=17%  Similarity=0.233  Sum_probs=97.6

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccchHHHHHHHHHHHH-----------hhhhcCCC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQAS-----------SHALSGKP  117 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~  117 (441)
                      ...+++++|++|||||++|+.+....   +.+++.++|..+.....      -..+|....           .......+
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            34689999999999999999987764   46899999877532111      111221110           01112235


Q ss_pred             eEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCCeEEEEEEcCCCC-------ccCHHHhhCCcc
Q 013506          118 SVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVPHVVVVASTNRVD-------AIDPALRRSGRF  185 (441)
Q Consensus       118 ~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~~~~~~~vi~~~~~~~-------~l~~~l~~~~r~  185 (441)
                      +.|||||++.|          +...+..|+..++.....     .....++.+|++++..-       .+.+.+..  |+
T Consensus       230 gtl~l~~i~~l----------~~~~q~~L~~~l~~~~~~~~g~~~~~~~~~rii~~~~~~l~~~~~~~~f~~~l~~--~l  297 (444)
T PRK15115        230 GTLFLDEIGDM----------PAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRDLPKAMARGEFREDLYY--RL  297 (444)
T ss_pred             CEEEEEccccC----------CHHHHHHHHHHHhhCCEEeCCCCceeeeeEEEEEeCCCCHHHHHHcCCccHHHHH--hh
Confidence            78999999988          446677788877653211     11122578888887531       22223322  33


Q ss_pred             ceEEEecCCCHHHHHH----HHHHHhccC----CCC----CcccHHHHHHHCCCCCHHHHHHHHHHHHH
Q 013506          186 DAEVEVTVPTAEERFE----ILKLYTKKV----PLD----ANVDLEAIATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       186 ~~~i~~~~p~~~~~~~----il~~~~~~~----~~~----~~~~~~~l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                      . .+.+..|...+|.+    ++..++...    ...    ...-++.+.......+.++++++++.++.
T Consensus       298 ~-~~~i~lPpLr~R~eDi~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~~~WpgNvreL~~~i~~~~~  365 (444)
T PRK15115        298 N-VVSLKIPALAERTEDIPLLANHLLRQAAERHKPFVRAFSTDAMKRLMTASWPGNVRQLVNVIEQCVA  365 (444)
T ss_pred             c-eeeecCCChHhccccHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHH
Confidence            2 34555565555532    333333321    111    12225555555556677888888877664

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=98.26  E-value=5.1e-06  Score=76.89  Aligned_cols=103  Identities=21%  Similarity=0.262  Sum_probs=64.1

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhh------ccCc--------hHHHHHHHHHHHHhc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM------YVGE--------SEALLRNTFQRARLA  382 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~------~~g~--------~~~~~~~~~~~a~~~  382 (441)
                      |+.++.-+++.|+||+||||++..+|...   +.+++.++..+....      -++.        .+.++..+++.+...
T Consensus        78 Gi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs~~qi~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~~  157 (372)
T cd01121          78 GLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEESPEQIKLRADRLGISTENLYLLAETNLEDILASIEEL  157 (372)
T ss_pred             CccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcCHHHHHHHHHHcCCCcccEEEEccCcHHHHHHHHHhc
Confidence            67778888999999999999999887654   345666654332111      0110        123456677777677


Q ss_pred             CCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhc
Q 013506          383 APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (441)
Q Consensus       383 ~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~  422 (441)
                      .|.+|+||++..++...-.+..++....++++..|.+...
T Consensus       158 ~~~lVVIDSIq~l~~~~~~~~~g~~~qvr~~~~~L~~lak  197 (372)
T cd01121         158 KPDLVIIDSIQTVYSSELTSAPGSVSQVRECTAELMRFAK  197 (372)
T ss_pred             CCcEEEEcchHHhhccccccCCCCHHHHHHHHHHHHHHHH
Confidence            8899999999988643221112222223455666666554

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>smart00763 AAA_PrkA PrkA AAA domain

Probab=98.26  E-value=2.2e-06  Score=77.57  Aligned_cols=82  Identities=13%  Similarity=0.127  Sum_probs=58.0

Q ss_pred             cccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC-------ceEEech----hh
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA-------SFFSLSG----AE  359 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~-------~~~~i~~----~~  359 (441)
                      ++.|+++....+.+++......       ....+.-++|+|||||||||+|++++..++.       +++.+..    +.
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g-------~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~~~~~sp  124 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQG-------LEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKWNGEESP  124 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhc-------CCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEecCCCCC
Confidence            6788888887777766542211       1123456799999999999999999999965       8888888    66


Q ss_pred             hhhhccCchHHHHHHHHHHH
Q 013506          360 LYSMYVGESEALLRNTFQRA  379 (441)
Q Consensus       360 ~~~~~~g~~~~~~~~~~~~a  379 (441)
                      +....++-.....+..|...
T Consensus       125 ~~e~Pl~l~p~~~r~~~~~~  144 (361)
T smart00763      125 MHEDPLHLFPDELREDLEDE  144 (361)
T ss_pred             CccCCcccCCHHHHHHHHHH
Confidence            66665555555555555443

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=98.26  E-value=8.6e-06  Score=65.14  Aligned_cols=77  Identities=23%  Similarity=0.292  Sum_probs=50.6

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc--eEEechhhhhhhccC--chHHHHHHHHHHHHhcCCeEEEEecccc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS--FFSLSGAELYSMYVG--ESEALLRNTFQRARLAAPSIIFFDEADV  394 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~--~~~i~~~~~~~~~~g--~~~~~~~~~~~~a~~~~~~vl~iDE~d~  394 (441)
                      +.+.++..+.++||+|+||||++++++......  -+.++...... |+.  ...+.-+-.+.+|...+|.++++||-..
T Consensus        21 ~~~~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~~~~~i~-~~~~lS~G~~~rv~laral~~~p~illlDEP~~   99 (144)
T cd03221          21 LTINPGDRIGLVGRNGAGKSTLLKLIAGELEPDEGIVTWGSTVKIG-YFEQLSGGEKMRLALAKLLLENPNLLLLDEPTN   99 (144)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHcCCCCCCceEEEECCeEEEE-EEccCCHHHHHHHHHHHHHhcCCCEEEEeCCcc
Confidence            355677889999999999999999999987421  12222211111 111  1123334456777778889999999987


Q ss_pred             cc
Q 013506          395 VG  396 (441)
Q Consensus       395 ~~  396 (441)
                      -+
T Consensus       100 ~L  101 (144)
T cd03221         100 HL  101 (144)
T ss_pred             CC
Confidence            65

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=98.26  E-value=3.7e-06  Score=68.91  Aligned_cols=31  Identities=23%  Similarity=0.343  Sum_probs=27.5

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.+.++..+.|.||+|+||||+++.+++...
T Consensus        21 ~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~   51 (163)
T cd03216          21 LSVRRGEVHALLGENGAGKSTLMKILSGLYK   51 (163)
T ss_pred             EEEeCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            4567899999999999999999999998763

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.25  E-value=1.8e-06  Score=79.27  Aligned_cols=83  Identities=20%  Similarity=0.282  Sum_probs=60.6

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc----CCceEEechhhhhhh-------------ccCchHHHHHHHHHHHHhcCCe
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGAELYSM-------------YVGESEALLRNTFQRARLAAPS  385 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~----~~~~~~i~~~~~~~~-------------~~g~~~~~~~~~~~~a~~~~~~  385 (441)
                      .+.++|+.|++||||+.+|+++....    ..+++.+|+..+...             |.| ....-.-+|+.|..+   
T Consensus       100 ~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa~~~en~~~~eLFG~~kGaftG-a~~~k~Glfe~A~GG---  175 (403)
T COG1221         100 SGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCAAYSENLQEAELFGHEKGAFTG-AQGGKAGLFEQANGG---  175 (403)
T ss_pred             CCCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHHHhCcCHHHHHHhccccceeec-ccCCcCchheecCCC---
Confidence            35689999999999999999997544    568999999886553             222 122223466665544   


Q ss_pred             EEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          386 IIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       386 vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                      .||+|||..+.+              ..-..|+..||.
T Consensus       176 tLfLDEI~~LP~--------------~~Q~kLl~~le~  199 (403)
T COG1221         176 TLFLDEIHRLPP--------------EGQEKLLRVLEE  199 (403)
T ss_pred             EEehhhhhhCCH--------------hHHHHHHHHHHc
Confidence            999999999975              345677888876

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=98.24  E-value=1.6e-06  Score=73.53  Aligned_cols=71  Identities=15%  Similarity=0.095  Sum_probs=39.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEechhh--hhh-h-------ccCchHHHHHHHHHHHH--hcCCeEEEEecc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAE--LYS-M-------YVGESEALLRNTFQRAR--LAAPSIIFFDEA  392 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~--~~~-~-------~~g~~~~~~~~~~~~a~--~~~~~vl~iDE~  392 (441)
                      ..+|++|+||+||||+|+.++..  .-++..+.+.  +.+ .       -...+-+.+.+.+..+.  ...+.+|+||.+
T Consensus        13 ~~~liyG~~G~GKtt~a~~~~~~--~~~~~~d~~~~~l~g~~~~~v~~~d~~~~~~~~~d~l~~~~~~~~~ydtVVIDsI   90 (220)
T TIGR01618        13 NMYLIYGKPGTGKTSTIKYLPGK--TLVLSFDMSSKVLIGDENVDIADHDDMPPIQAMVEFYVMQNIQAVKYDNIVIDNI   90 (220)
T ss_pred             cEEEEECCCCCCHHHHHHhcCCC--CEEEeccccchhccCCCCCceeecCCCCCHHHHHHHHHHHHhccccCCEEEEecH
Confidence            45899999999999999998631  1122222211  000 0       00111122333333222  345779999999


Q ss_pred             ccccc
Q 013506          393 DVVGA  397 (441)
Q Consensus       393 d~~~~  397 (441)
                      +.+..
T Consensus        91 ~~l~~   95 (220)
T TIGR01618        91 SALQN   95 (220)
T ss_pred             HHHHH
Confidence            98765

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.24  E-value=5.1e-06  Score=71.39  Aligned_cols=81  Identities=21%  Similarity=0.240  Sum_probs=51.0

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc--EEEEccCccccccccchHHHHHHHHHH-------------------
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--LTVISPHSVHKAHVGESEKALREAFSQ-------------------  107 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~--~~~v~~~~~~~~~~~~~~~~~~~~~~~-------------------  107 (441)
                      .+..+..+-|+|++||||||+++.+.+.....  -+.+.+.++......+..+.+.+++..                   
T Consensus        35 ~i~~ge~~glVGESG~GKSTlgr~i~~L~~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQ  114 (268)
T COG4608          35 SIKEGETLGLVGESGCGKSTLGRLILGLEEPTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQ  114 (268)
T ss_pred             EEcCCCEEEEEecCCCCHHHHHHHHHcCcCCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchh
Confidence            45678999999999999999999999877532  244444433222111122223333322                   


Q ss_pred             ----HHhhhhcCCCeEEEEccccccc
Q 013506          108 ----ASSHALSGKPSVVFIDEIDALC  129 (441)
Q Consensus       108 ----~~~~~~~~~~~il~iDe~~~l~  129 (441)
                          ..+.++.-+|.+++.||.-+.+
T Consensus       115 rQRi~IARALal~P~liV~DEpvSaL  140 (268)
T COG4608         115 RQRIGIARALALNPKLIVADEPVSAL  140 (268)
T ss_pred             hhhHHHHHHHhhCCcEEEecCchhhc
Confidence                2344455679999999976554

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=98.24  E-value=2.5e-06  Score=64.32  Aligned_cols=79  Identities=18%  Similarity=0.220  Sum_probs=44.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCC
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTS  406 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~  406 (441)
                      +.|+||||+|||++|+.||..+....-.....+++.   .....   +.+. -.... .++++||+......        
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~~~~~~~~vy~---~~~~~---~~w~-gY~~q-~vvi~DD~~~~~~~--------   64 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHIGEPTKDSVYT---RNPGD---KFWD-GYQGQ-PVVIIDDFGQDNDG--------   64 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHhccCCCCcEEe---CCCcc---chhh-ccCCC-cEEEEeecCccccc--------
Confidence            478999999999999999887753331111112211   11111   1222 22233 39999999876421        


Q ss_pred             cchhhHHHHHHHHHhcC
Q 013506          407 ITVGERLLSTLLTEMDG  423 (441)
Q Consensus       407 ~~~~~~~~~~ll~~l~~  423 (441)
                       . .......+++.++.
T Consensus        65 -~-~~~~~~~l~~l~s~   79 (107)
T PF00910_consen   65 -Y-NYSDESELIRLISS   79 (107)
T ss_pred             -c-chHHHHHHHHHHhc
Confidence             0 12356777776665

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

>PRK11823 DNA repair protein RadA; Provisional

Probab=98.24  E-value=6e-06  Score=78.71  Aligned_cols=103  Identities=21%  Similarity=0.268  Sum_probs=65.8

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhc------cCc--------hHHHHHHHHHHHHhc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMY------VGE--------SEALLRNTFQRARLA  382 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~------~g~--------~~~~~~~~~~~a~~~  382 (441)
                      |+.++.-++++|+||+||||++..++...   +.+++.++..+.....      .|.        .+.++..+++.....
T Consensus        76 Gi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees~~qi~~ra~rlg~~~~~l~~~~e~~l~~i~~~i~~~  155 (446)
T PRK11823         76 GLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEESASQIKLRAERLGLPSDNLYLLAETNLEAILATIEEE  155 (446)
T ss_pred             CccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccccHHHHHHHHHHcCCChhcEEEeCCCCHHHHHHHHHhh
Confidence            77778888999999999999998887755   5677777654433221      111        123355666666667


Q ss_pred             CCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhc
Q 013506          383 APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (441)
Q Consensus       383 ~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~  422 (441)
                      .+.+++||++..++...-.+..++....++.+..|.+...
T Consensus       156 ~~~lVVIDSIq~l~~~~~~~~~g~~~qvr~~~~~L~~~ak  195 (446)
T PRK11823        156 KPDLVVIDSIQTMYSPELESAPGSVSQVRECAAELMRLAK  195 (446)
T ss_pred             CCCEEEEechhhhccccccCCCCCHHHHHHHHHHHHHHHH
Confidence            8889999999988753211111222223455666666654

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=98.24  E-value=7e-06  Score=79.12  Aligned_cols=129  Identities=16%  Similarity=0.209  Sum_probs=70.8

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEech-hhhh-----
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSG-AELY-----  361 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~-~~~~-----  361 (441)
                      ..+++.-+..-.+.++.+++....        +..+..-++|+||+||||||+++++|+.++..+.+... ..+.     
T Consensus        17 ~~~eLavhkkKv~eV~~wl~~~~~--------~~~~~~iLlLtGP~G~GKtttv~~La~elg~~v~Ew~np~~~~~~~~~   88 (519)
T PF03215_consen   17 TLDELAVHKKKVEEVRSWLEEMFS--------GSSPKRILLLTGPSGCGKTTTVKVLAKELGFEVQEWINPVSFRESDNQ   88 (519)
T ss_pred             CHHHhhccHHHHHHHHHHHHHHhc--------cCCCcceEEEECCCCCCHHHHHHHHHHHhCCeeEEecCCCCccccccc
Confidence            344444444434445555543211        22233457889999999999999999999988887542 2210     


Q ss_pred             -hhccCch---H------HHHHHH-HHHHHh-----------cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHH
Q 013506          362 -SMYVGES---E------ALLRNT-FQRARL-----------AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLT  419 (441)
Q Consensus       362 -~~~~g~~---~------~~~~~~-~~~a~~-----------~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~  419 (441)
                       ..|.+..   +      ...... +..++-           ..+.||+++|+=-++.         .+. .+.-+.|.+
T Consensus        89 ~~d~~s~~~~~~~f~sq~~~F~~f~l~~s~y~~l~~~g~~~~~~~kvILVEDlPN~~~---------~~~-~~f~~~L~~  158 (519)
T PF03215_consen   89 EDDFESDFNKFDEFLSQSDKFSEFLLRASKYSSLSMSGSNSSSNKKVILVEDLPNVFH---------RDT-SRFREALRQ  158 (519)
T ss_pred             cccccccccccccccchhhhhccccccccccccccccCCCcCCCceEEEeeccccccc---------hhH-HHHHHHHHH
Confidence             0011110   0      111222 222211           3467999999986653         122 455666666


Q ss_pred             HhcCCCCCCeEEEEe
Q 013506          420 EMDGLEQAKVIIYPI  434 (441)
Q Consensus       420 ~l~~~~~~~~v~~~~  434 (441)
                      ++..-...-.|||++
T Consensus       159 ~l~~~~~~PlV~iiS  173 (519)
T PF03215_consen  159 YLRSSRCLPLVFIIS  173 (519)
T ss_pred             HHHcCCCCCEEEEEe
Confidence            665422226777776

>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]

Probab=98.23  E-value=2.5e-06  Score=74.24  Aligned_cols=115  Identities=17%  Similarity=0.147  Sum_probs=71.4

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc------eEEechhhh
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS------FFSLSGAEL  360 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~------~~~i~~~~~  360 (441)
                      ..+.++.+.+++-..+.++...           +..|  |+||+||||+|||+...+.|..+..+      +.+++.++-
T Consensus        38 ~~l~dv~~~~ei~st~~~~~~~-----------~~lP--h~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lelnaSd~  104 (360)
T KOG0990|consen   38 PFLGIVIKQEPIWSTENRYSGM-----------PGLP--HLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLELNASDD  104 (360)
T ss_pred             chhhhHhcCCchhhHHHHhccC-----------CCCC--cccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHhhccCc
Confidence            3455666666665555555221           2222  89999999999999999999888552      344555554


Q ss_pred             hhhccCchHHHHHHHHHHHH-------hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEE
Q 013506          361 YSMYVGESEALLRNTFQRAR-------LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVII  431 (441)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~-------~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~  431 (441)
                      .+  ++-- ..--..|..++       +..+..+++||+|.+.              ..+-++|=...+.+..+.+..
T Consensus       105 rg--id~v-r~qi~~fast~~~~~fst~~~fKlvILDEADaMT--------------~~AQnALRRviek~t~n~rF~  165 (360)
T KOG0990|consen  105 RG--IDPV-RQQIHLFASTQQPTTYSTHAAFKLVILDEADAMT--------------RDAQNALRRVIEKYTANTRFA  165 (360)
T ss_pred             cC--Ccch-HHHHHHHHhhccceeccccCceeEEEecchhHhh--------------HHHHHHHHHHHHHhccceEEE
Confidence            43  2222 22234455554       3478899999999875              344556656666655555444

>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=98.23  E-value=2.9e-06  Score=78.07  Aligned_cols=103  Identities=26%  Similarity=0.361  Sum_probs=57.4

Q ss_pred             CCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc-EEEEccCccccccccchHHHHHHH------HHHHHhhhhcCCCeEEEE
Q 013506           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-LTVISPHSVHKAHVGESEKALREA------FSQASSHALSGKPSVVFI  122 (441)
Q Consensus        50 ~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~-~~~v~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~il~i  122 (441)
                      ..++++++|+||.|+|||+|.-.+...+... ...+....+....    -+.+...      +.... .....+..+|++
T Consensus        59 ~~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh~Fm~~v----h~~l~~~~~~~~~l~~va-~~l~~~~~lLcf  133 (362)
T PF03969_consen   59 PPPPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHEFMLDV----HSRLHQLRGQDDPLPQVA-DELAKESRLLCF  133 (362)
T ss_pred             CCCCceEEEECCCCCchhHHHHHHHHhCCccccccccccHHHHHH----HHHHHHHhCCCccHHHHH-HHHHhcCCEEEE
Confidence            4578999999999999999999998887642 1222222222111    1111110      01111 111223459999


Q ss_pred             ccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCC
Q 013506          123 DEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRV  172 (441)
Q Consensus       123 De~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~  172 (441)
                      ||++--       .-.+...+..|+..+-..        ++++|+|+|.+
T Consensus       134 DEF~V~-------DiaDAmil~rLf~~l~~~--------gvvlVaTSN~~  168 (362)
T PF03969_consen  134 DEFQVT-------DIADAMILKRLFEALFKR--------GVVLVATSNRP  168 (362)
T ss_pred             eeeecc-------chhHHHHHHHHHHHHHHC--------CCEEEecCCCC
Confidence            998621       111334555566555432        47899998873

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

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=98.22  E-value=1.4e-05  Score=68.05  Aligned_cols=103  Identities=13%  Similarity=0.159  Sum_probs=55.5

Q ss_pred             CCCCc-eEEEECCCCCcHHHHHHHHHHHc-----CCce---------------EEechhhhhhhccCchHHHHHHHHHHH
Q 013506          321 ISPVR-GALLHGPPGCSKTTLAKAAAHAA-----EASF---------------FSLSGAELYSMYVGESEALLRNTFQRA  379 (441)
Q Consensus       321 ~~~~~-~~ll~Gp~GtGKTtla~~la~~~-----~~~~---------------~~i~~~~~~~~~~g~~~~~~~~~~~~a  379 (441)
                      +.++. .++|+||||+||||+.|.++...     |+.+               ..+...+......+.....++++..-+
T Consensus        24 i~~~~~~~~ltG~Ng~GKStll~~i~~~~~~~~~G~~vp~~~~~~~~~~~~~~~~lg~~~~l~~~~s~fs~g~~~~~~i~  103 (200)
T cd03280          24 LGENKRVLVITGPNAGGKTVTLKTLGLLTLMAQSGLPIPAAEGSSLPVFENIFADIGDEQSIEQSLSTFSSHMKNIARIL  103 (200)
T ss_pred             ECCCceEEEEECCCCCChHHHHHHHHHHHHHHHcCCCccccccccCcCccEEEEecCchhhhhcCcchHHHHHHHHHHHH
Confidence            34443 48999999999999999988322     2111               011111122222233333334433333


Q ss_pred             H-hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEee
Q 013506          380 R-LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPIS  435 (441)
Q Consensus       380 ~-~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~  435 (441)
                      . ..+|.++++||......         ......+...++..+..   .+..++++|
T Consensus       104 ~~~~~p~llllDEp~~glD---------~~~~~~i~~~~l~~l~~---~~~~vi~~t  148 (200)
T cd03280         104 QHADPDSLVLLDELGSGTD---------PVEGAALAIAILEELLE---RGALVIATT  148 (200)
T ss_pred             HhCCCCcEEEEcCCCCCCC---------HHHHHHHHHHHHHHHHh---cCCEEEEEC
Confidence            2 35788999999997652         22234444566666642   233444444

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=98.22  E-value=1.9e-06  Score=84.27  Aligned_cols=173  Identities=20%  Similarity=0.175  Sum_probs=94.2

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHh-c-CCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc-
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQK-L-GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG-   95 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~-~-~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~-   95 (441)
                      ..|-|.+.+|++|--.+-   .-...... - .+..--||||+|.||+|||.+.+.+++..+..++. ++.......+. 
T Consensus       286 PsIyG~e~VKkAilLqLf---gGv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~aPr~vyt-sgkgss~~GLTA  361 (682)
T COG1241         286 PSIYGHEDVKKAILLQLF---GGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAPRGVYT-SGKGSSAAGLTA  361 (682)
T ss_pred             ccccCcHHHHHHHHHHhc---CCCcccCCCCcccccceeEEEcCCCchhHHHHHHHHHhhCCceEEE-ccccccccCcee
Confidence            467888888888765441   11111000 0 01223589999999999999999999888665443 32211110000 


Q ss_pred             --chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCC-------CCeEEEE
Q 013506           96 --ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTS-------VPHVVVV  166 (441)
Q Consensus        96 --~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~-------~~~~~vi  166 (441)
                        .......+..-++.+ .-...++|++|||+|.|          +......+...|++......+       ..++.++
T Consensus       362 av~rd~~tge~~LeaGA-LVlAD~Gv~cIDEfdKm----------~~~dr~aihEaMEQQtIsIaKAGI~atLnARcsvL  430 (682)
T COG1241         362 AVVRDKVTGEWVLEAGA-LVLADGGVCCIDEFDKM----------NEEDRVAIHEAMEQQTISIAKAGITATLNARCSVL  430 (682)
T ss_pred             EEEEccCCCeEEEeCCE-EEEecCCEEEEEeccCC----------ChHHHHHHHHHHHhcEeeecccceeeecchhhhhh
Confidence              000000000001111 11234679999999987          223345566666664333221       1245677


Q ss_pred             EEcCCCC-------------ccCHHHhhCCccceEEE-ecCCCHHHHHHHHHHHhc
Q 013506          167 ASTNRVD-------------AIDPALRRSGRFDAEVE-VTVPTAEERFEILKLYTK  208 (441)
Q Consensus       167 ~~~~~~~-------------~l~~~l~~~~r~~~~i~-~~~p~~~~~~~il~~~~~  208 (441)
                      +++|+..             .+++.+++  ||+..+- ...|+.+.-..+..+.+.
T Consensus       431 AAaNP~~Gryd~~~~~~enI~l~~~lLS--RFDLifvl~D~~d~~~D~~ia~hil~  484 (682)
T COG1241         431 AAANPKFGRYDPKKTVAENINLPAPLLS--RFDLIFVLKDDPDEEKDEEIAEHILD  484 (682)
T ss_pred             hhhCCCCCcCCCCCCHHHhcCCChhHHh--hCCeeEEecCCCCccchHHHHHHHHH
Confidence            8888865             46788999  9996543 445555444444444443

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=98.22  E-value=9.2e-06  Score=73.10  Aligned_cols=117  Identities=20%  Similarity=0.144  Sum_probs=67.4

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhh----------------ccCchHHHHHHHHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM----------------YVGESEALLRNTFQRAR  380 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~----------------~~g~~~~~~~~~~~~a~  380 (441)
                      |++++.-+.++||||||||++|-.++...   +..++.++..+..+.                .....++.+..+-..++
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            67777788999999999999998876443   556666654221111                11122333333333345


Q ss_pred             hcCCeEEEEecccccccccCCCCC---CCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          381 LAAPSIIFFDEADVVGAKRGGSSS---TSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       381 ~~~~~vl~iDE~d~~~~~r~~~~~---~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ...+.++++|-+..+.+.-..++.   ...+...|.++..|..|...-....|.++-+|
T Consensus       131 s~~~~lIVIDSvaal~~~~E~~~~~~~~~~~~qaR~l~~~Lr~L~~~~~k~~~~vI~tN  189 (325)
T cd00983         131 SGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSINKSNTTVIFIN  189 (325)
T ss_pred             ccCCCEEEEcchHhhcccccccccccccchHHHHHHHHHHHHHHHHHHHhCCCEEEEEE
Confidence            567889999999999874222111   11122345566666666655444444444444

RecA couples ATP hydrolysis to DNA strand exchange.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=98.22  E-value=5e-06  Score=71.41  Aligned_cols=42  Identities=24%  Similarity=0.306  Sum_probs=31.8

Q ss_pred             HHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          372 LRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       372 ~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                      -|-++.+|....|.++++||--...          |..+...+-+||+++..
T Consensus       146 QRV~lARAL~~~p~lllLDEP~~gv----------D~~~~~~i~~lL~~l~~  187 (254)
T COG1121         146 QRVLLARALAQNPDLLLLDEPFTGV----------DVAGQKEIYDLLKELRQ  187 (254)
T ss_pred             HHHHHHHHhccCCCEEEecCCcccC----------CHHHHHHHHHHHHHHHH
Confidence            3557888889999999999976543          33456778888888875

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.21  E-value=1.3e-05  Score=67.95  Aligned_cols=30  Identities=27%  Similarity=0.447  Sum_probs=26.9

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.+..+..+-++||+||||||+.+.+|+..
T Consensus        24 L~v~~GEfvsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          24 LSVEKGEFVAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             eEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            456788999999999999999999999865

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=98.21  E-value=8.6e-06  Score=70.39  Aligned_cols=123  Identities=20%  Similarity=0.179  Sum_probs=72.0

Q ss_pred             ccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCc----
Q 013506          292 IGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGE----  367 (441)
Q Consensus       292 i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~----  367 (441)
                      +-|+.-+++.+...+..-+...      .-+.+--+-|.|++||||..+++++|+.+-.....   |++...|+..    
T Consensus        84 lfGQHla~~~Vv~alk~~~~n~------~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~---S~~V~~fvat~hFP  154 (344)
T KOG2170|consen   84 LFGQHLAKQLVVNALKSHWANP------NPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLR---SPFVHHFVATLHFP  154 (344)
T ss_pred             hhchHHHHHHHHHHHHHHhcCC------CCCCCeEEEecCCCCCchhHHHHHHHHHHHhcccc---chhHHHhhhhccCC
Confidence            3455555555555444211111      11223445688999999999999999977322111   2222222211    


Q ss_pred             -------h-HHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhc------CCCCCCeEEEE
Q 013506          368 -------S-EALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD------GLEQAKVIIYP  433 (441)
Q Consensus       368 -------~-~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~------~~~~~~~v~~~  433 (441)
                             - ++--..+-..+.....++++|||+|++.+              .+++.|--+||      |+..+..++|+
T Consensus       155 ~~~~ie~Yk~eL~~~v~~~v~~C~rslFIFDE~DKmp~--------------gLld~lkpfLdyyp~v~gv~frkaIFIf  220 (344)
T KOG2170|consen  155 HASKIEDYKEELKNRVRGTVQACQRSLFIFDEVDKLPP--------------GLLDVLKPFLDYYPQVSGVDFRKAIFIF  220 (344)
T ss_pred             ChHHHHHHHHHHHHHHHHHHHhcCCceEEechhhhcCH--------------hHHHHHhhhhccccccccccccceEEEE
Confidence                   1 11223344455555666999999999974              56666666666      45556678887


Q ss_pred             eeee
Q 013506          434 ISFI  437 (441)
Q Consensus       434 ~~~~  437 (441)
                      -||.
T Consensus       221 LSN~  224 (344)
T KOG2170|consen  221 LSNA  224 (344)
T ss_pred             EcCC
Confidence            7764

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=98.20  E-value=1.3e-05  Score=68.27  Aligned_cols=92  Identities=17%  Similarity=0.100  Sum_probs=51.5

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc-----CCc--------------eEEechhhhhhhccCchHHHHHHHHHHH-Hh
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAA-----EAS--------------FFSLSGAELYSMYVGESEALLRNTFQRA-RL  381 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~-----~~~--------------~~~i~~~~~~~~~~g~~~~~~~~~~~~a-~~  381 (441)
                      .++..++++||||+||||+.+.++...     |..              +..+...+......+.....++++-.-+ ..
T Consensus        27 ~~~~~~~l~G~Ng~GKStll~~i~~~~~~~~~g~~~~~~~~~i~~~dqi~~~~~~~d~i~~~~s~~~~e~~~l~~i~~~~  106 (202)
T cd03243          27 GSGRLLLITGPNMGGKSTYLRSIGLAVLLAQIGCFVPAESASIPLVDRIFTRIGAEDSISDGRSTFMAELLELKEILSLA  106 (202)
T ss_pred             cCCeEEEEECCCCCccHHHHHHHHHHHHHHHcCCCccccccccCCcCEEEEEecCcccccCCceeHHHHHHHHHHHHHhc
Confidence            344578999999999999999998432     211              1112222222222333333333322222 23


Q ss_pred             cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhc
Q 013506          382 AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (441)
Q Consensus       382 ~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~  422 (441)
                      ..|.++++||......         ......+...++..+.
T Consensus       107 ~~~~llllDEp~~gld---------~~~~~~l~~~ll~~l~  138 (202)
T cd03243         107 TPRSLVLIDELGRGTS---------TAEGLAIAYAVLEHLL  138 (202)
T ss_pred             cCCeEEEEecCCCCCC---------HHHHHHHHHHHHHHHH
Confidence            5788999999987541         1223345566666654

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=98.20  E-value=2e-05  Score=68.70  Aligned_cols=30  Identities=23%  Similarity=0.409  Sum_probs=26.5

Q ss_pred             CCCCcEEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        50 ~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      +..+..++|+||+|+||||+++.+++.+..
T Consensus        13 i~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~   42 (249)
T cd01128          13 IGKGQRGLIVAPPKAGKTTLLQSIANAITK   42 (249)
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhcccc
Confidence            456789999999999999999999988754

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=98.19  E-value=7.4e-06  Score=74.98  Aligned_cols=83  Identities=22%  Similarity=0.283  Sum_probs=54.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhc-----cCchH-------HHHHHHHHHHHhcCCeEEE
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMY-----VGESE-------ALLRNTFQRARLAAPSIIF  388 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~-----~g~~~-------~~~~~~~~~a~~~~~~vl~  388 (441)
                      ..++|+.|++||||+++|+++-...   +.+++.+++..+....     .|...       ..-...|..|   ...+||
T Consensus        22 ~~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~~~l~~~lfG~~~g~~~ga~~~~~G~~~~a---~gGtL~   98 (329)
T TIGR02974        22 DRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLLDSELFGHEAGAFTGAQKRHQGRFERA---DGGTLF   98 (329)
T ss_pred             CCCEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCChHHHHHHHhccccccccCcccccCCchhhC---CCCEEE
Confidence            4579999999999999999987655   4689999987643210     01100       0001123433   345999


Q ss_pred             EecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          389 FDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       389 iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                      ||||+.+.+              .+...|+..|+.
T Consensus        99 Ldei~~L~~--------------~~Q~~Ll~~l~~  119 (329)
T TIGR02974        99 LDELATASL--------------LVQEKLLRVIEY  119 (329)
T ss_pred             eCChHhCCH--------------HHHHHHHHHHHc
Confidence            999999853              456677777754

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

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=98.19  E-value=6.3e-06  Score=71.20  Aligned_cols=31  Identities=29%  Similarity=0.309  Sum_probs=26.6

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +..+++.-+.++||||||||||.|.+++.+.
T Consensus        23 ~~i~~G~i~~iiGpNG~GKSTLLk~l~g~l~   53 (258)
T COG1120          23 FSIPKGEITGILGPNGSGKSTLLKCLAGLLK   53 (258)
T ss_pred             EEecCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            3456677789999999999999999999884

>COG1245 Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]

Probab=98.19  E-value=4.8e-05  Score=69.72  Aligned_cols=27  Identities=22%  Similarity=0.365  Sum_probs=23.9

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      ++.-+-+.||+|+||||.++.+++++.
T Consensus        99 ~G~V~GilG~NGiGKsTalkILaGel~  125 (591)
T COG1245          99 PGKVVGILGPNGIGKSTALKILAGELK  125 (591)
T ss_pred             CCcEEEEEcCCCccHHHHHHHHhCccc
Confidence            456788999999999999999999874

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	441
3cf1_A	806	Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Len		2e-92
3cf1_A	806	Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Len		2e-21
1r7r_A	816	The Crystal Structure Of Murine P97VCP AT 3.6A Leng		2e-92
1r7r_A	816	The Crystal Structure Of Murine P97VCP AT 3.6A Leng		3e-21
3hu1_A	489	Structure Of P97 N-D1 R95g Mutant In Complex With A		4e-61
3hu1_A	489	Structure Of P97 N-D1 R95g Mutant In Complex With A		2e-21
3hu2_A	489	Structure Of P97 N-D1 R86a Mutant In Complex With A		5e-61
3hu2_A	489	Structure Of P97 N-D1 R86a Mutant In Complex With A		2e-21
3hu3_A	489	Structure Of P97 N-D1 R155h Mutant In Complex With		5e-61
3hu3_A	489	Structure Of P97 N-D1 R155h Mutant In Complex With		1e-21
1e32_A	458	Structure Of The N-Terminal Domain And The D1 Aaa D		5e-52
1e32_A	458	Structure Of The N-Terminal Domain And The D1 Aaa D		2e-21
2x8a_A	274	Human Nuclear Valosin Containing Protein Like (Nvl)		2e-41
2x8a_A	274	Human Nuclear Valosin Containing Protein Like (Nvl)		6e-26
3h4m_A	285	Aaa Atpase Domain Of The Proteasome- Activating Nuc		1e-38
3h4m_A	285	Aaa Atpase Domain Of The Proteasome- Activating Nuc		1e-23
2ce7_A	476	Edta Treated Length = 476		5e-37
2ce7_A	476	Edta Treated Length = 476		3e-16
3kds_E	465	Apo-ftsh Crystal Structure Length = 465		3e-36
3kds_E	465	Apo-ftsh Crystal Structure Length = 465		3e-16
4b4t_L	437	Near-Atomic Resolution Structural Model Of The Yeas		2e-33
4b4t_L	437	Near-Atomic Resolution Structural Model Of The Yeas		3e-20
4b4t_J	405	Near-Atomic Resolution Structural Model Of The Yeas		4e-33
4b4t_J	405	Near-Atomic Resolution Structural Model Of The Yeas		3e-21
4b4t_M	434	Near-Atomic Resolution Structural Model Of The Yeas		4e-33
4b4t_M	434	Near-Atomic Resolution Structural Model Of The Yeas		5e-19
3cf0_A	301	Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH		9e-33
4b4t_I	437	Near-Atomic Resolution Structural Model Of The Yeas		6e-31
4b4t_I	437	Near-Atomic Resolution Structural Model Of The Yeas		3e-18
1lv7_A	257	Crystal Structure Of The Aaa Domain Of Ftsh Length		3e-30
1lv7_A	257	Crystal Structure Of The Aaa Domain Of Ftsh Length		6e-16
2r62_A	268	Crystal Structure Of Helicobacter Pylori Atp Depend		2e-29
2r62_A	268	Crystal Structure Of Helicobacter Pylori Atp Depend		4e-14
4b4t_H	467	Near-Atomic Resolution Structural Model Of The Yeas		2e-28
4b4t_H	467	Near-Atomic Resolution Structural Model Of The Yeas		3e-22
4b4t_K	428	Near-Atomic Resolution Structural Model Of The Yeas		3e-27
4b4t_K	428	Near-Atomic Resolution Structural Model Of The Yeas		1e-25
1ixz_A	254	Crystal Structure Of The Ftsh Atpase Domain From Th		1e-25
1ixz_A	254	Crystal Structure Of The Ftsh Atpase Domain From Th		8e-17
1iy2_A	278	Crystal Structure Of The Ftsh Atpase Domain From Th		1e-25
1iy2_A	278	Crystal Structure Of The Ftsh Atpase Domain From Th		7e-17
4eiw_A	508	Whole Cytosolic Region Of Atp-Dependent Metalloprot		1e-25
4eiw_A	508	Whole Cytosolic Region Of Atp-Dependent Metalloprot		7e-17
2dhr_A	499	Whole Cytosolic Region Of Atp-Dependent Metalloprot		1e-25
2dhr_A	499	Whole Cytosolic Region Of Atp-Dependent Metalloprot		7e-17
3d8b_A	357	Crystal Structure Of Human Fidgetin-Like Protein 1		2e-24
3d8b_A	357	Crystal Structure Of Human Fidgetin-Like Protein 1		7e-14
1xwi_A	322	Crystal Structure Of Vps4b Length = 322		4e-22
1xwi_A	322	Crystal Structure Of Vps4b Length = 322		3e-15
3b9p_A	297	Spastin Length = 297		1e-21
3b9p_A	297	Spastin Length = 297		1e-11
2rko_A	331	Crystal Structure Of The Vps4p-Dimer Length = 331		2e-21
2rko_A	331	Crystal Structure Of The Vps4p-Dimer Length = 331		3e-17
2zam_A	444	Crystal Structure Of Mouse Skd1VPS4B APO-Form Lengt		4e-21
2zam_A	444	Crystal Structure Of Mouse Skd1VPS4B APO-Form Lengt		2e-15
3vfd_A	389	Human Spastin Aaa Domain Length = 389		6e-21
3vfd_A	389	Human Spastin Aaa Domain Length = 389		2e-12
2qp9_X	355	Crystal Structure Of S.Cerevisiae Vps4 Length = 355		6e-21
2qp9_X	355	Crystal Structure Of S.Cerevisiae Vps4 Length = 355		4e-16
3eie_A	322	Crystal Structure Of S.Cerevisiae Vps4 In The So4-B		7e-21
3eie_A	322	Crystal Structure Of S.Cerevisiae Vps4 In The So4-B		5e-16
3eih_A	340	Crystal Structure Of S.Cerevisiae Vps4 In The Prese		9e-21
3eih_A	340	Crystal Structure Of S.Cerevisiae Vps4 In The Prese		4e-16
2qz4_A	262	Human Paraplegin, Aaa Domain In Complex With Adp Le		4e-20
2qz4_A	262	Human Paraplegin, Aaa Domain In Complex With Adp Le		3e-15
3pvs_A	447	Structure And Biochemical Activities Of Escherichia		9e-06
3t15_A	293	Structure Of Green-Type Rubisco Activase From Tobac		5e-05
1ofh_A	310	Asymmetric Complex Between Hslv And I-domain Delete		4e-04
1ixs_B	318	Structure Of Ruvb Complexed With Ruva Domain Iii Le		7e-04
1hqc_A	324	Structure Of Ruvb From Thermus Thermophilus Hb8 Len		7e-04
1ixr_C	312	Ruva-Ruvb Complex Length = 312		8e-04

>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Length = 806

Iteration: 1
 Score =  336 bits (862), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 176/423 (41%), Positives = 253/423 (59%), Gaps = 18/423 (4%)
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 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXX 197
            + RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD           
Sbjct: 320 VERRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
Query: 198 XRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD------- 250
            R EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D       
Sbjct: 376 GRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDE 435
Query: 251 --ANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEW 308
               E    L+VTM+D+R A S   PS  R   VE+P+VTWEDIGGL D+K++LQ+ V++
Sbjct: 436 TIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQY 495
Query: 309 PIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGES 368
           P++H   F + G++P +G L +GPPGC                     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 EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK 615
Query: 429 VII 431
            + 
Sbjct: 616 NVF 618

>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Length = 806

Iteration: 1
 Score =  100 bits (249), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 57/147 (38%), Positives = 78/147 (53%), Gaps = 4/147 (2%)
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 SITVGERLLSTLLTEMDGLEQ-AKVII 431
              V  R++S LLT MDGL+Q A VI+
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIV 343

>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A Length = 816

Iteration: 1
 Score =  335 bits (860), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 175/423 (41%), Positives = 253/423 (59%), Gaps = 18/423 (4%)
Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG 78
           + +GG R  +  ++E++  PL + +  + +G+K PRG+LLYGPPGTGKT + RAV  E G
Sbjct: 204 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG 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 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXX 197
            + RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD           
Sbjct: 320 VERRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
Query: 198 XRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD------- 250
            R EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D       
Sbjct: 376 GRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDE 435
Query: 251 --ANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEW 308
               E    L+VTM+D+R A S   PS  R   VE+P+VTWEDIGGL D+K++LQ+ V++
Sbjct: 436 TIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQY 495
Query: 309 PIKHSTAFSRLGISPVRGALLHGPPGCXXXXXXXXXXXXXXXXXXXXXGAELYSMYVGES 368
           P++H   F + G++P +G L +GPPGC                     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 EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK 615
Query: 429 VII 431
            + 
Sbjct: 616 NVF 618

>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A Length = 816

Iteration: 1
 Score = 99.8 bits (247), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 56/147 (38%), Positives = 78/147 (53%), Gaps = 4/147 (2%)
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 SITVGERLLSTLLTEMDGLEQ-AKVII 431
              V  R++S LLT MDGL+Q A VI+
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIV 343

>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 = 4e-61,   Method: Compositional matrix adjust.
 Identities = 126/286 (44%), Positives = 175/286 (61%), Gaps = 18/286 (6%)
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 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXX 197
            + RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD           
Sbjct: 320 VERRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
Query: 198 XRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD------- 250
            R EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D       
Sbjct: 376 GRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDE 435
Query: 251 --ANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGG 294
               E    L+VTM+D+R A S   PS  R   VE+P+VTWEDIGG
Sbjct: 436 TIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGG 481

>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score =  100 bits (249), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 57/147 (38%), Positives = 78/147 (53%), Gaps = 4/147 (2%)
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 SITVGERLLSTLLTEMDGLEQ-AKVII 431
              V  R++S LLT MDGL+Q A VI+
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIV 343

>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 = 5e-61,   Method: Compositional matrix adjust.
 Identities = 126/286 (44%), Positives = 175/286 (61%), Gaps = 18/286 (6%)
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 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXX 197
            + RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD           
Sbjct: 320 VERRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
Query: 198 XRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD------- 250
            R EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D       
Sbjct: 376 GRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDE 435
Query: 251 --ANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGG 294
               E    L+VTM+D+R A S   PS  R   VE+P+VTWEDIGG
Sbjct: 436 TIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGG 481

>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score =  100 bits (249), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 57/147 (38%), Positives = 78/147 (53%), Gaps = 4/147 (2%)
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 SITVGERLLSTLLTEMDGLEQ-AKVII 431
              V  R++S LLT MDGL+Q A VI+
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIV 343

>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 = 5e-61,   Method: Compositional matrix adjust.
 Identities = 126/286 (44%), Positives = 175/286 (61%), Gaps = 18/286 (6%)
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 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXX 197
            + RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD           
Sbjct: 320 VERRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
Query: 198 XRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD------- 250
            R EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D       
Sbjct: 376 GRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDE 435
Query: 251 --ANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGG 294
               E    L+VTM+D+R A S   PS  R   VE+P+VTWEDIGG
Sbjct: 436 TIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGG 481

>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score =  100 bits (249), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 57/147 (38%), Positives = 78/147 (53%), Gaps = 4/147 (2%)
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 SITVGERLLSTLLTEMDGLEQ-AKVII 431
              V  R++S LLT MDGL+Q A VI+
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIV 343

>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 (512), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 111/262 (42%), Positives = 159/262 (60%), Gaps = 18/262 (6%)
Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG 78
           + +GG R  +  ++E++  PL + +  + +G+K PRG+LLYGPPGTGKT + RAV  E G
Sbjct: 204 DDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETG 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 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXX 197
            + RI SQL TLMD  K       HV+V+A+TNR ++IDPALRR GRFD           
Sbjct: 320 VERRIVSQLLTLMDGLKQRA----HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
Query: 198 XRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD------- 250
            R EIL+++TK + L  +VDLE +A   +G+VGADL ALC EA + A+++  D       
Sbjct: 376 GRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDE 435
Query: 251 --ANECAGVLSVTMEDWRHARS 270
               E    L+VTM+D+R A S
Sbjct: 436 TIDAEVMNSLAVTMDDFRWALS 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 =  100 bits (248), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 56/147 (38%), Positives = 78/147 (53%), Gaps = 4/147 (2%)
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 SITVGERLLSTLLTEMDGLEQ-AKVII 431
              V  R++S LLT MDGL+Q A VI+
Sbjct: 317 HGEVERRIVSQLLTLMDGLKQRAHVIV 343

>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C- Terminal Aaa-Atpase Domain Length = 274

Iteration: 1
 Score =  166 bits (421), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 109/266 (40%), Positives = 147/266 (55%), Gaps = 23/266 (8%)
Query: 27  AVEALRELITF----PLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLT 82
           A+E +RE +T     P+    Q + LGL  P G+LL GPPG GKT L +AV  E G +  
Sbjct: 14  ALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFI 73
Query: 83  VISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRRE-QDVR 141
            +    +   +VGESE+A+R+ F +A + A    P V+F DE+DALCPRR  R     VR
Sbjct: 74  SVKGPELLNMYVGESERAVRQVFQRAKNSA----PCVIFFDEVDALCPRRSDRETGASVR 129
Query: 142 IASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXRFE 201
           + +QL T MD  +  +     V ++A+TNR D IDPA+ R GR D            R  
Sbjct: 130 VVNQLLTEMDGLEARQ----QVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLA 185
Query: 202 ILKLYTK---KVPLDANVDLEAIATS--CNGYVGADLEALCREATMSAVK----RSSDAN 252
           ILK  TK   K PLDA+V+LEAIA    C+ Y GADL AL REA++ A++    R    N
Sbjct: 186 ILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQEMARQKSGN 245
Query: 253 ECAGVLSVTMEDWRHARSVVGPSITR 278
           E  G L V+ + +  A   V  SI++
Sbjct: 246 E-KGELKVSHKHFEEAFKKVRSSISK 270

>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C- Terminal Aaa-Atpase Domain Length = 274

Iteration: 1
 Score =  115 bits (287), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 58/145 (40%), Positives = 80/145 (55%), Gaps = 3/145 (2%)
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 GSSSTSITVGERLLSTLLTEMDGLE 425
             S        R+++ LLTEMDGLE
Sbjct: 120 --SDRETGASVRVVNQLLTEMDGLE 142

>pdb|3H4M|A Chain A, Aaa Atpase Domain Of The Proteasome- Activating Nucleotidase Length = 285

Iteration: 1
 Score =  157 bits (397), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 95/256 (37%), Positives = 137/256 (53%), Gaps = 24/256 (9%)
Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG 78
           E IGG    ++ +RE++  PL +    +K+G++ P+G+LLYGPPGTGKT L +AV  E  
Sbjct: 17  EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETN 76
Query: 79  AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH---- 134
           A    +    + K  +GE    +++ F  A   A    PS++FIDEIDA+  +R      
Sbjct: 77  ATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKA----PSIIFIDEIDAIAAKRTDALTG 132
Query: 135 --RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXX 192
             R  Q  R   QL   MD           V ++ +TNR D +DPA+ R GRFD      
Sbjct: 133 GDREVQ--RTLMQLLAEMDGFDARG----DVKIIGATNRPDILDPAILRPGRFDRIIEVP 186
Query: 193 XXXXXXRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN 252
                 R EILK++T+K+ L  +V+LE IA    G VGA+L+A+C EA M+A++   D  
Sbjct: 187 APDEKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVGAELKAICTEAGMNAIRELRD-- 244
Query: 253 ECAGVLSVTMEDWRHA 268
                  VTM+D+R A
Sbjct: 245 ------YVTMDDFRKA 254

>pdb|3H4M|A Chain A, Aaa Atpase Domain Of The Proteasome- Activating Nucleotidase Length = 285

Iteration: 1
 Score =  107 bits (267), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 53/143 (37%), Positives = 78/143 (54%)
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 SSTSITVGERLLSTLLTEMDGLE 425
            +      +R L  LL EMDG +
Sbjct: 130 LTGGDREVQRTLMQLLAEMDGFD 152

>pdb|2CE7|A Chain A, Edta Treated Length = 476

Iteration: 1
 Score =  152 bits (383), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 100/264 (37%), Positives = 140/264 (53%), Gaps = 29/264 (10%)
Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           +GG   A+E L+E++ F L   S+  ++G + P+G+LL GPPGTGKT L RAV  E    
Sbjct: 18  VGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVP 76
Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-------D 133
              IS     +  VG     +R+ F+QA +HA    P +VFIDEIDA+   R        
Sbjct: 77  FFHISGSDFVELFVGVGAARVRDLFAQAKAHA----PCIVFIDEIDAVGRHRGAGLGGGH 132
Query: 134 HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXX 193
             REQ +   +QL   MD       S   ++V+A+TNR D +DPAL R GRFD       
Sbjct: 133 DEREQTL---NQLLVEMDGF----DSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDP 185
Query: 194 XXXXXRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE 253
                R +IL+++T+  PL  +V+LE IA    G+VGADLE L  EA + A +   D   
Sbjct: 186 PDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREGRD--- 242
Query: 254 CAGVLSVTMEDWRHA--RSVVGPS 275
                 +TM+D+  A  R + GP+
Sbjct: 243 -----KITMKDFEEAIDRVIAGPA 261

>pdb|2CE7|A Chain A, Edta Treated Length = 476

Iteration: 1
 Score = 83.2 bits (204), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 47/146 (32%), Positives = 75/146 (51%), Gaps = 1/146 (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 SITVGERLLSTLLTEMDGLEQAKVII 431
                E+ L+ LL EMDG +  + II
Sbjct: 131 GHDEREQTLNQLLVEMDGFDSKEGII 156

>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure Length = 465

Iteration: 1
 Score =  149 bits (376), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 99/264 (37%), Positives = 139/264 (52%), Gaps = 29/264 (10%)
Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           +GG   A+E L+E++ F L   S+  ++G + P+G+LL GPPGTG T L RAV  E    
Sbjct: 18  VGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAGEANVP 76
Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-------D 133
              IS     +  VG     +R+ F+QA +HA    P +VFIDEIDA+   R        
Sbjct: 77  FFHISGSDFVELFVGVGAARVRDLFAQAKAHA----PCIVFIDEIDAVGRHRGAGLGGGH 132
Query: 134 HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXX 193
             REQ +   +QL   MD       S   ++V+A+TNR D +DPAL R GRFD       
Sbjct: 133 DEREQTL---NQLLVEMDGF----DSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDP 185
Query: 194 XXXXXRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE 253
                R +IL+++T+  PL  +V+LE IA    G+VGADLE L  EA + A +   D   
Sbjct: 186 PDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREGRD--- 242
Query: 254 CAGVLSVTMEDWRHA--RSVVGPS 275
                 +TM+D+  A  R + GP+
Sbjct: 243 -----KITMKDFEEAIDRVIAGPA 261

>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure Length = 465

Iteration: 1
 Score = 83.2 bits (204), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 47/146 (32%), Positives = 75/146 (51%), Gaps = 1/146 (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 SITVGERLLSTLLTEMDGLEQAKVII 431
                E+ L+ LL EMDG +  + II
Sbjct: 131 GHDEREQTLNQLLVEMDGFDSKEGII 156

>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score =  139 bits (351), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 86/238 (36%), Positives = 123/238 (51%), Gaps = 16/238 (6%)
Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG 78
           + IGG    +  LRE+I  PL      Q++G+K P+G+LLYGPPGTGKT L +AV    G
Sbjct: 181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIG 240
Query: 79  AHLTVISPHS-VHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR----- 132
           A+  + SP S +   ++GES + +RE F+ A  H    +P ++F+DE+DA+  RR     
Sbjct: 241 ANF-IFSPASGIVDKYIGESARIIREMFAYAKEH----EPCIIFMDEVDAIGGRRFSEGT 295
Query: 133 DHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXX 192
              RE   R   +L T MD       ++    ++ +TNR D +DPAL R GR D      
Sbjct: 296 SADREIQ-RTLMELLTQMDGF----DNLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIP 350
Query: 193 XXXXXXRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD 250
                 R EI K++T KV      D EA     +G+ GAD+     EA   A++   D
Sbjct: 351 LPNEAGRLEIFKIHTAKVKKTGEFDFEAAVKMSDGFNGADIRNCATEAGFFAIRDDRD 408

>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score = 96.3 bits (238), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 50/161 (31%), Positives = 83/161 (51%), Gaps = 3/161 (1%)
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 VVGAKRGGSSSTSITVGERLLSTLLTEMDGLE---QAKVII 431
            +G +R    +++    +R L  LLT+MDG +   Q K+I+
Sbjct: 285 AIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIM 325

>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 405

Iteration: 1
 Score =  139 bits (349), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 79/251 (31%), Positives = 134/251 (53%), Gaps = 14/251 (5%)
Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG 78
           + +GG    ++ ++E+I  P+ +    + LG+  P+G++LYGPPGTGKT L RAV     
Sbjct: 148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTD 207
Query: 79  AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDAL-CPRRDHRRE 137
                +S   + + ++GE  + +RE F  A  HA    PS++F+DEID++   R +    
Sbjct: 208 CKFIRVSGAELVQKYIGEGSRMVRELFVMAREHA----PSIIFMDEIDSIGSTRVEGSGG 263
Query: 138 QDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXX 197
            D  +   +  L++     +TS  ++ ++ +TNR+D +DPAL R GR D           
Sbjct: 264 GDSEVQRTMLELLNQLDGFETS-KNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVA 322
Query: 198 XRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGV 257
            R EIL+++++K+ L   ++L  +A   NG  GAD++ +C EA M A++           
Sbjct: 323 ARAEILRIHSRKMNLTRGINLRKVAEKMNGCSGADVKGVCTEAGMYALRERR-------- 374
Query: 258 LSVTMEDWRHA 268
           + VT ED+  A
Sbjct: 375 IHVTQEDFELA 385

>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 405

Iteration: 1
 Score = 99.4 bits (246), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 52/157 (33%), Positives = 81/157 (51%)
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 VVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVI 430
            +G+ R   S    +  +R +  LL ++DG E +K I
Sbjct: 252 SIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNI 288

>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 434

Iteration: 1
 Score =  139 bits (349), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 84/262 (32%), Positives = 142/262 (54%), Gaps = 14/262 (5%)
Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           +GG    +E L E I  P+  + + + +G++ P+G L+YGPPGTGKT L RA   +  A 
Sbjct: 183 VGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNAT 242
Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-DHRREQD 139
              ++   + + ++GE  K +R+AF+ A   A    P+++FIDE+DA+  +R D  +  D
Sbjct: 243 FLKLAAPQLVQMYIGEGAKLVRDAFALAKEKA----PTIIFIDELDAIGTKRFDSEKSGD 298
Query: 140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXR 199
             +   +  L+ +     +S   V V+A+TNRVD +DPAL RSGR D            R
Sbjct: 299 REVQRTMLELL-NQLDGFSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSR 357
Query: 200 FEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLS 259
            +IL+++++K+  D +++ + +A S + + GA L+A+  EA M A++         G  S
Sbjct: 358 AQILQIHSRKMTTDDDINWQELARSTDEFNGAQLKAVTVEAGMIALRN--------GQSS 409
Query: 260 VTMEDWRHARSVVGPSITRGVT 281
           V  ED+    S V    ++ V+
Sbjct: 410 VKHEDFVEGISEVQARKSKSVS 431

>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 434

Iteration: 1
 Score = 92.4 bits (228), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 47/142 (33%), Positives = 71/142 (50%)
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 SSTSITVGERLLSTLLTEMDGL 424
             +     +R +  LL ++DG 
Sbjct: 294 EKSGDREVQRTMLELLNQLDGF 315

>pdb|3CF0|A Chain A, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP Length = 301

Iteration: 1
 Score =  137 bits (346), Expect = 9e-33,   Method: Compositional matrix adjust.
 Identities = 62/154 (40%), Positives = 92/154 (59%)
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 KRGGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
            RGG+        +R+++ +LTEMDG+   K + 
Sbjct: 123 ARGGNIGDGGGAADRVINQILTEMDGMSTKKNVF 156

>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score =  131 bits (330), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 78/253 (30%), Positives = 135/253 (53%), Gaps = 14/253 (5%)
Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           IGG  + ++ ++E +  PL +    +++G+K P+G++LYG PGTGKT L +AV  +  A 
Sbjct: 184 IGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSAT 243
Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-DHRREQD 139
              I    + + ++G+  +  R+ F  A  +A    PS+VFIDEIDA+  +R D     +
Sbjct: 244 FLRIVGSELIQKYLGDGPRLCRQIFKVAGENA----PSIVFIDEIDAIGTKRYDSNSGGE 299
Query: 140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXR 199
             I   +  L++           V V+ +TN+++ +DPAL R GR D            +
Sbjct: 300 REIQRTMLELLNQLD-GFDDRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTK 358
Query: 200 FEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLS 259
            +IL ++T K+ L  +V+LE + T+ +   GAD++A+C EA + A++           + 
Sbjct: 359 KKILGIHTSKMNLSEDVNLETLVTTKDDLSGADIQAMCTEAGLLALRERR--------MQ 410
Query: 260 VTMEDWRHARSVV 272
           VT ED++ A+  V
Sbjct: 411 VTAEDFKQAKERV 423

>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score = 89.7 bits (221), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 48/150 (32%), Positives = 75/150 (50%), Gaps = 3/150 (2%)
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 TSITVGERLLSTLLTEMDGLE---QAKVII 431
                 +R +  LL ++DG +     KVI+
Sbjct: 297 GGEREIQRTMLELLNQLDGFDDRGDVKVIM 326

>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh Length = 257

Iteration: 1
 Score =  129 bits (325), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 84/233 (36%), Positives = 122/233 (52%), Gaps = 19/233 (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  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD------- 133
              IS     +  VG     +R+ F QA   A    P ++FIDEIDA+  +R        
Sbjct: 73  FFTISGSDFVEMFVGVGASRVRDMFEQAKKAA----PCIIFIDEIDAVGRQRGAGLGGGH 128
Query: 134 HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXX 193
             REQ +   +Q+   MD  + ++     ++V+A+TNR D +DPAL R GRFD       
Sbjct: 129 DEREQTL---NQMLVEMDGFEGNE----GIIVIAATNRPDVLDPALLRPGRFDRQVVVGL 181
Query: 194 XXXXXRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVK 246
                R +ILK++ ++VPL  ++D   IA    G+ GADL  L  EA + A +
Sbjct: 182 PDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAAR 234

>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh Length = 257

Iteration: 1
 Score = 82.0 bits (201), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 46/146 (31%), Positives = 74/146 (50%), Gaps = 1/146 (0%)
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 SITVGERLLSTLLTEMDGLEQAKVII 431
                E+ L+ +L EMDG E  + II
Sbjct: 127 GHDEREQTLNQMLVEMDGFEGNEGII 152

>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent Protease, Ftsh Length = 268

Iteration: 1
 Score =  127 bits (318), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 87/236 (36%), Positives = 118/236 (50%), Gaps = 27/236 (11%)
Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           + GN  A E + E++ F L Y  +   LG K P+G+LL GPPGTGKT L +AV  E    
Sbjct: 13  MAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVP 71
Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-------- 132
              +   S  +  VG     +R+ F  A   A    PS++FIDEIDA+   R        
Sbjct: 72  FFSMGGSSFIEMFVGLGASRVRDLFETAKKQA----PSIIFIDEIDAIGKSRAAGGVVSG 127
Query: 133 DHRREQDVRIASQLFTLMDS----NKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXX 188
           +  REQ +   +QL   MD     N P       V+V+A+TNR + +DPAL R GRFD  
Sbjct: 128 NDEREQTL---NQLLAEMDGFGSENAP-------VIVLAATNRPEILDPALMRPGRFDRQ 177
Query: 189 XXXXXXXXXXRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSA 244
                     R EILK++ K V L  +V+L+ +A    G  GADL  +  EA + A
Sbjct: 178 VLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANIINEAALLA 233

>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent Protease, Ftsh Length = 268

Iteration: 1
 Score = 76.3 bits (186), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 48/155 (30%), Positives = 76/155 (49%), Gaps = 4/155 (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 -GGSSSTSITVGERLLSTLLTEMDGL--EQAKVII 431
             G   +     E+ L+ LL EMDG   E A VI+
Sbjct: 120 AAGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIV 154

>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 467

Iteration: 1
 Score =  123 bits (308), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 76/230 (33%), Positives = 117/230 (50%), Gaps = 12/230 (5%)
Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           +GG +  +E LRE++  PLL   +   LG+  P+G+LLYGPPGTGKT   RAV     A 
Sbjct: 211 VGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDAT 270
Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDAL-CPRRDHRREQD 139
              +    + + +VGE  + +RE F  A +     K  ++F DEIDA+   R D     D
Sbjct: 271 FIRVIGSELVQKYVGEGARMVRELFEMARTK----KACIIFFDEIDAVGGARFDDGAGGD 326
Query: 140 ---VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXX 196
               R   +L T +D   P      ++ V+ +TNR + +DPAL R GR D          
Sbjct: 327 NEVQRTMLELITQLDGFDPRG----NIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDL 382
Query: 197 XXRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVK 246
             R  I ++++K + ++  +  E I+  C    GA+L ++C EA M A++
Sbjct: 383 EGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIR 432

>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 467

Iteration: 1
 Score =  103 bits (256), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 54/154 (35%), Positives = 77/154 (50%)
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 ADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE 425
            D VG  R    +      +R +  L+T++DG +
Sbjct: 311 IDAVGGARFDDGAGGDNEVQRTMLELITQLDGFD 344

>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 428

Iteration: 1
 Score =  119 bits (298), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 86/249 (34%), Positives = 130/249 (52%), Gaps = 17/249 (6%)
Query: 7   IMSEHNEKWKAEEA-IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTG 65
           +M E NEK     A +GG     + +RE +  PL+ +   +++G+  PRG+LLYGPPGTG
Sbjct: 160 VMGE-NEKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTG 218
Query: 66  KTSLVRAVVREC-GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDE 124
           KT LV+AV      A + V     VHK ++GE  + +R+ F  A  +A    PS++FIDE
Sbjct: 219 KTMLVKAVANSTKAAFIRVNGSEFVHK-YLGEGPRMVRDVFRLARENA----PSIIFIDE 273
Query: 125 IDALCPRR-DHRREQD---VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALR 180
           +D++  +R D +   D    RI  +L T MD    S     +V V+ +TNR D +DPAL 
Sbjct: 274 VDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQST----NVKVIMATNRADTLDPALL 329
Query: 181 RSGRFDXXXXX-XXXXXXXRFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCRE 239
           R GR D             R  I      K+ L    DL+++    +   GA + A+ +E
Sbjct: 330 RPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQE 389
Query: 240 ATMSAVKRS 248
           A + AV+++
Sbjct: 390 AGLRAVRKN 398

>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 428

Iteration: 1
 Score =  114 bits (284), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 79/230 (34%), Positives = 118/230 (51%), Gaps = 24/230 (10%)
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 SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQA---KVII 431
           SIIF DE D +  KR  + + S    +R+L  LLT+MDG +Q+   KVI+
Sbjct: 267 SIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIM 316

>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 254

Iteration: 1
 Score =  114 bits (285), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 74/201 (36%), Positives = 102/201 (50%), Gaps = 18/201 (8%)
Query: 39  LLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESE 98
           L   S+  ++G + P+G+LL GPPG GKT L RAV  E        S     +  VG   
Sbjct: 35  LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGA 94
Query: 99  KALREAFSQASSHALSGKPSVVFIDEIDALCPRR-------DHRREQDVRIASQLFTLMD 151
             +R+ F  A  HA    P +VFIDEIDA+  +R       +  REQ +   +QL   MD
Sbjct: 95  ARVRDLFETAKRHA----PCIVFIDEIDAVGRKRGSGVGGGNDEREQTL---NQLLVEMD 147
Query: 152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXRFEILKLYTKKVP 211
             +        +VV+A+TNR D +DPAL R GRFD            R +IL+++ +  P
Sbjct: 148 GFEKDTA----IVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKP 203
Query: 212 LDANVDLEAIATSCNGYVGAD 232
           L  +VDL  +A    G+VGAD
Sbjct: 204 LAEDVDLALLAKRTPGFVGAD 224

>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 254

Iteration: 1
 Score = 85.1 bits (209), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 78/152 (51%), Gaps = 1/152 (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 GGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
           G          E+ L+ LL EMDG E+   I+
Sbjct: 125 GSGVGGGNDEREQTLNQLLVEMDGFEKDTAIV 156

>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 278

Iteration: 1
 Score =  114 bits (285), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 74/201 (36%), Positives = 102/201 (50%), Gaps = 18/201 (8%)
Query: 39  LLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESE 98
           L   S+  ++G + P+G+LL GPPG GKT L RAV  E        S     +  VG   
Sbjct: 59  LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGA 118
Query: 99  KALREAFSQASSHALSGKPSVVFIDEIDALCPRR-------DHRREQDVRIASQLFTLMD 151
             +R+ F  A  HA    P +VFIDEIDA+  +R       +  REQ +   +QL   MD
Sbjct: 119 ARVRDLFETAKRHA----PCIVFIDEIDAVGRKRGSGVGGGNDEREQTL---NQLLVEMD 171
Query: 152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXRFEILKLYTKKVP 211
             +        +VV+A+TNR D +DPAL R GRFD            R +IL+++ +  P
Sbjct: 172 GFEKDTA----IVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKP 227
Query: 212 LDANVDLEAIATSCNGYVGAD 232
           L  +VDL  +A    G+VGAD
Sbjct: 228 LAEDVDLALLAKRTPGFVGAD 248

>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 278

Iteration: 1
 Score = 85.1 bits (209), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 78/152 (51%), Gaps = 1/152 (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 GGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
           G          E+ L+ LL EMDG E+   I+
Sbjct: 149 GSGVGGGNDEREQTLNQLLVEMDGFEKDTAIV 180

>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 508

Iteration: 1
 Score =  114 bits (285), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 73/197 (37%), Positives = 101/197 (51%), Gaps = 18/197 (9%)
Query: 43  SQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALR 102
           S+  ++G + P+G+LL GPPG GKT L RAV  E        S     +  VG     +R
Sbjct: 63  SRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVR 122
Query: 103 EAFSQASSHALSGKPSVVFIDEIDALCPRR-------DHRREQDVRIASQLFTLMDSNKP 155
           + F  A  HA    P +VFIDEIDA+  +R       +  REQ +   +QL   MD  + 
Sbjct: 123 DLFETAKRHA----PCIVFIDEIDAVGRKRGSGVGGGNDEREQTL---NQLLVEMDGFEK 175
Query: 156 SKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXRFEILKLYTKKVPLDAN 215
                  +VV+A+TNR D +DPAL R GRFD            R +IL+++ +  PL  +
Sbjct: 176 DTA----IVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAED 231
Query: 216 VDLEAIATSCNGYVGAD 232
           VDL  +A    G+VGAD
Sbjct: 232 VDLALLAKRTPGFVGAD 248

>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 508

Iteration: 1
 Score = 85.1 bits (209), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 78/152 (51%), Gaps = 1/152 (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 GGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
           G          E+ L+ LL EMDG E+   I+
Sbjct: 149 GSGVGGGNDEREQTLNQLLVEMDGFEKDTAIV 180

>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 499

Iteration: 1
 Score =  114 bits (284), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 73/197 (37%), Positives = 101/197 (51%), Gaps = 18/197 (9%)
Query: 43  SQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALR 102
           S+  ++G + P+G+LL GPPG GKT L RAV  E        S     +  VG     +R
Sbjct: 54  SRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVR 113
Query: 103 EAFSQASSHALSGKPSVVFIDEIDALCPRR-------DHRREQDVRIASQLFTLMDSNKP 155
           + F  A  HA    P +VFIDEIDA+  +R       +  REQ +   +QL   MD  + 
Sbjct: 114 DLFETAKRHA----PCIVFIDEIDAVGRKRGSGVGGGNDEREQTL---NQLLVEMDGFEK 166
Query: 156 SKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXRFEILKLYTKKVPLDAN 215
                  +VV+A+TNR D +DPAL R GRFD            R +IL+++ +  PL  +
Sbjct: 167 DTA----IVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAED 222
Query: 216 VDLEAIATSCNGYVGAD 232
           VDL  +A    G+VGAD
Sbjct: 223 VDLALLAKRTPGFVGAD 239

>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 499

Iteration: 1
 Score = 85.1 bits (209), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 52/152 (34%), Positives = 78/152 (51%), Gaps = 1/152 (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 GGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
           G          E+ L+ LL EMDG E+   I+
Sbjct: 140 GSGVGGGNDEREQTLNQLLVEMDGFEKDTAIV 171

>pdb|3D8B|A Chain A, Crystal Structure Of Human Fidgetin-Like Protein 1 In Complex With Adp Length = 357

Iteration: 1
 Score =  110 bits (274), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 82/266 (30%), Positives = 132/266 (49%), Gaps = 17/266 (6%)
Query: 19  EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWP-RGLLLYGPPGTGKTSLVRAVVREC 77
           E I G   A   ++E++ +P+L        GL+ P +G+LL+GPPGTGKT + + +  + 
Sbjct: 84  EDIAGVEFAKATIKEIVVWPMLRPDIF--TGLRGPPKGILLFGPPGTGKTLIGKCIASQS 141
Query: 78  GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR-DHRR 136
           GA    IS  S+    VGE EK +R  F+ A       +P+V+FIDEID+L  +R D   
Sbjct: 142 GATFFSISASSLTSKWVGEGEKMVRALFAVARCQ----QPAVIFIDEIDSLLSQRGDGEH 197
Query: 137 EQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXX 196
           E   RI ++    +D    + +S   ++VV +TNR   ID A RR  R            
Sbjct: 198 ESSRRIKTEFLVQLDGA--TTSSEDRILVVGATNRPQEIDEAARR--RLVKRLYIPLPEA 253
Query: 197 XXRFEI-LKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECA 255
             R +I + L +K+    +  ++E I    + + GAD+  LCREA++  ++    A+   
Sbjct: 254 SARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCREASLGPIRSLQTADIAT 313
Query: 256 ----GVLSVTMEDWRHARSVVGPSIT 277
                V  +   D+ +A   V PS++
Sbjct: 314 ITPDQVRPIAYIDFENAFRTVRPSVS 339

>pdb|3D8B|A Chain A, Crystal Structure Of Human Fidgetin-Like Protein 1 In Complex With Adp Length = 357

Iteration: 1
 Score = 75.1 bits (183), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 44/139 (31%), Positives = 64/139 (46%), Gaps = 4/139 (2%)
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 TSITVGERLLSTLLTEMDG 423
            S     R+ +  L ++DG
Sbjct: 198 ES---SRRIKTEFLVQLDG 213

>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b Length = 322

Iteration: 1
 Score =  102 bits (254), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 85/292 (29%), Positives = 132/292 (45%), Gaps = 19/292 (6%)
Query: 7   IMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGK 66
           ++   N KW     + G   A EAL+E +  P+ +          W RG+LL+GPPGTGK
Sbjct: 3   VIERPNVKW---SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPW-RGILLFGPPGTGK 58
Query: 67  TSLVRAVVREC-GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEI 125
           + L +AV  E   +    IS   +    +GESEK ++  F  A  +    KPS++FIDEI
Sbjct: 59  SYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLAREN----KPSIIFIDEI 114
Query: 126 DALC-PRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGR 184
           D+LC  R ++  E   RI ++    M            ++V+ +TN    +D A+RR  R
Sbjct: 115 DSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDG---ILVLGATNIPWVLDSAIRR--R 169
Query: 185 FDXXXXXXXXXXXXRFEILKLY--TKKVPLDANVDLEAIATSCNGYVGADLEALCREATM 242
           F+            R  + KL+  T +  L    D   +    +GY GAD+  + R+A M
Sbjct: 170 FEKRIYIPLPEPHARAAMFKLHLGTTQNSL-TEADFRELGRKTDGYSGADISIIVRDALM 228
Query: 243 SAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGG 294
             V++   A     V   +  D  H    +    + G    I ++TW D+ G
Sbjct: 229 QPVRKVQSATHFKKVRGPSRADPNHLVDDLLTPCSPGDPGAI-EMTWMDVPG 279

>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b Length = 322

Iteration: 1
 Score = 79.7 bits (195), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 50/146 (34%), Positives = 71/146 (48%), Gaps = 5/146 (3%)
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 RGGSSSTSITVGERLLSTLLTEMDGL 424
           R  + S +     R+ +  L +M G+
Sbjct: 121 RSENESEA---ARRIKTEFLVQMQGV 143

>pdb|3B9P|A Chain A, Spastin Length = 297

Iteration: 1
 Score =  100 bits (250), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 77/229 (33%), Positives = 111/229 (48%), Gaps = 12/229 (5%)
Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWP-RGLLLYGPPGTGKTSLVRAVVRECGA 79
           I G   A +AL+E++  P +        GL+ P +GLLL+GPPG GKT L RAV  EC A
Sbjct: 23  IAGQDVAKQALQEMVILPSVRPELFT--GLRAPAKGLLLFGPPGNGKTLLARAVATECSA 80
Query: 80  HLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQD 139
               IS  S+   +VG+ EK +R  F+ A       +PS++FIDE+D+L   R     + 
Sbjct: 81  TFLNISAASLTSKYVGDGEKLVRALFAVARHM----QPSIIFIDEVDSLLSERSSSEHEA 136
Query: 140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXXR 199
            R     F +     P       +VV+A+TNR   +D A  R  RF             R
Sbjct: 137 SRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALR--RFTKRVYVSLPDEQTR 194
Query: 200 FEILK--LYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVK 246
             +L   L  +  PLD    L  +A   +GY G+DL AL ++A +  ++
Sbjct: 195 ELLLNRLLQKQGSPLDTEA-LRRLAKITDGYSGSDLTALAKDAALEPIR 242

>pdb|3B9P|A Chain A, Spastin Length = 297

Iteration: 1
 Score = 67.4 bits (163), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 50/139 (35%), Positives = 62/139 (44%), Gaps = 4/139 (2%)
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 424
           +     RL +  L E DGL
Sbjct: 136 A---SRRLKTEFLVEFDGL 151

>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer Length = 331

Iteration: 1
 Score =  100 bits (248), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 74/256 (28%), Positives = 120/256 (46%), Gaps = 15/256 (5%)
Query: 4   KGRIMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPG 63
           +G +  + N KW   E + G   A EAL+E +  P+ +     K   K   G+LLYGPPG
Sbjct: 15  RGSLSEKPNVKW---EDVAGLEGAKEALKEAVILPVKFP-HLFKGNRKPTSGILLYGPPG 70
Query: 64  TGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFID 123
           TGK+ L +AV  E  +    +S   +    +GESEK +++ F+ A  +    KPS++FID
Sbjct: 71  TGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMAREN----KPSIIFID 126
Query: 124 EIDALCPRR-DHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRS 182
           E+DAL   R +   E   RI ++L   M+           V+V+ +TN    +D A+RR 
Sbjct: 127 EVDALTGTRGEGESEASRRIKTELLVQMNG---VGNDSQGVLVLGATNIPWQLDSAIRR- 182
Query: 183 GRFDXXXXXXXXXXXXRFEILKLYTKKVP-LDANVDLEAIATSCNGYVGADLEALCREAT 241
            RF+            R  + ++     P +    D   +     GY G+D+  + ++A 
Sbjct: 183 -RFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDAL 241
Query: 242 MSAVKRSSDANECAGV 257
           M  +++   A     V
Sbjct: 242 MQPIRKIQSATHFKDV 257

>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer Length = 331

Iteration: 1
 Score = 86.3 bits (212), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 51/149 (34%), Positives = 72/149 (48%), Gaps = 4/149 (2%)
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 GAKRGGSSSTSITVGERLLSTLLTEMDGL 424
              RG   S +     R+ + LL +M+G+
Sbjct: 132 TGTRGEGESEA---SRRIKTELLVQMNGV 157

>pdb|2ZAM|A Chain A, Crystal Structure Of Mouse Skd1VPS4B APO-Form Length = 444

Iteration: 1
 Score = 99.4 bits (246), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 80/274 (29%), Positives = 125/274 (45%), Gaps = 34/274 (12%)
Query: 7   IMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGK 66
           ++   N KW     + G   A EAL+E +  P+ +          W RG+LL+GPPGTGK
Sbjct: 125 VIERPNVKWSD---VAGLEGAKEALKEAVILPIKFPHLFTGKRTPW-RGILLFGPPGTGK 180
Query: 67  TSLVRAVVREC-GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEI 125
           + L +AV  E   +    IS   +    +GESEK ++  F  A  +    KPS++FIDEI
Sbjct: 181 SYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLAREN----KPSIIFIDEI 236
Query: 126 DALC-PRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGR 184
           D+LC  R ++  E   RI ++    M            ++V+ +TN    +D A+RR  R
Sbjct: 237 DSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDG---ILVLGATNIPWVLDSAIRR--R 291
Query: 185 FDXXXXXXXXXXXXRFEILKLY---TKKVPLDANVDLEAIATSCNGYVGADLEALCREAT 241
           F+            R  + +L+   T+    +A  D + +    +GY GAD+  + R+A 
Sbjct: 292 FEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEA--DFQELGRKTDGYSGADISIIVRDAL 349
Query: 242 MSAVKRSSDANECAGVLSVTMEDWRHARSVVGPS 275
           M  V++   A               H + V GPS
Sbjct: 350 MQPVRKVQSAT--------------HFKKVRGPS 369

>pdb|2ZAM|A Chain A, Crystal Structure Of Mouse Skd1VPS4B APO-Form Length = 444

Iteration: 1
 Score = 80.1 bits (196), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 50/146 (34%), Positives = 71/146 (48%), Gaps = 5/146 (3%)
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 RGGSSSTSITVGERLLSTLLTEMDGL 424
           R  + S +     R+ +  L +M G+
Sbjct: 243 RSENESEA---ARRIKTEFLVQMQGV 265

>pdb|3VFD|A Chain A, Human Spastin Aaa Domain Length = 389

Iteration: 1
 Score = 98.6 bits (244), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 77/230 (33%), Positives = 116/230 (50%), Gaps = 15/230 (6%)
Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWP-RGLLLYGPPGTGKTSLVRAVVRECGA 79
           I G   A +AL+E++  P L        GL+ P RGLLL+GPPG GKT L +AV  E  A
Sbjct: 117 IAGQDLAKQALQEIVILPSLRPELFT--GLRAPARGLLLFGPPGNGKTMLAKAVAAESNA 174
Query: 80  HLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA-LCPRRDHRREQ 138
               IS  S+   +VGE EK +R  F+ A       +PS++FID++D+ LC RR+   + 
Sbjct: 175 TFFNISAASLTSKYVGEGEKLVRALFAVAREL----QPSIIFIDQVDSLLCERREGEHDA 230
Query: 139 DVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXXXXX 198
             R+ ++     D  + +      V+V+ +TNR   +D A+ R  RF             
Sbjct: 231 SRRLKTEFLIEFDGVQSAGDD--RVLVMGATNRPQELDEAVLR--RFIKRVYVSLPNEET 286
Query: 199 RFEILKLYTKK--VPLDANVDLEAIATSCNGYVGADLEALCREATMSAVK 246
           R  +LK    K   PL    +L  +A   +GY G+DL AL ++A +  ++
Sbjct: 287 RLLLLKNLLCKQGSPL-TQKELAQLARMTDGYSGSDLTALAKDAALGPIR 335

>pdb|3VFD|A Chain A, Human Spastin Aaa Domain Length = 389

Iteration: 1
 Score = 70.1 bits (170), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 53/167 (31%), Positives = 74/167 (44%), Gaps = 6/167 (3%)
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-VVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQA 427
             PSIIF D+ D ++  +R G    S     RL +  L E DG++ A
Sbjct: 206 LQPSIIFIDQVDSLLCERREGEHDAS----RRLKTEFLIEFDGVQSA 248

>pdb|2QP9|X Chain X, Crystal Structure Of S.Cerevisiae Vps4 Length = 355

Iteration: 1
 Score = 98.6 bits (244), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 73/244 (29%), Positives = 118/244 (48%), Gaps = 16/244 (6%)
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  +    KPS++FID++
Sbjct: 97  KSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMAREN----KPSIIFIDQV 152
Query: 126 DALCPRR-DHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGR 184
           DAL   R +   E   RI ++L   M+           V+V+ +TN    +D A+RR  R
Sbjct: 153 DALTGTRGEGESEASRRIKTELLVQMNG---VGNDSQGVLVLGATNIPWQLDSAIRR--R 207
Query: 185 FDXXXXXXXXXXXXRFEILKLYTKKVP-LDANVDLEAIATSCNGYVGADLEALCREATMS 243
           F+            R  + ++     P +    D   +     GY G+D+  + ++A M 
Sbjct: 208 FERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQ 267
Query: 244 AVKR 247
            +++
Sbjct: 268 PIRK 271

>pdb|2QP9|X Chain X, Crystal Structure Of S.Cerevisiae Vps4 Length = 355

Iteration: 1
 Score = 82.8 bits (203), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 50/151 (33%), Positives = 74/151 (49%), Gaps = 6/151 (3%)
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 424
           +   RG G S  S     R+ + LL +M+G+
Sbjct: 155 LTGTRGEGESEAS----RRIKTELLVQMNGV 181

>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound State Length = 322

Iteration: 1
 Score = 98.2 bits (243), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 75/254 (29%), Positives = 120/254 (47%), Gaps = 16/254 (6%)
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  +    KPS++FID++
Sbjct: 64  KSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMAREN----KPSIIFIDQV 119
Query: 126 DALCPRR-DHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGR 184
           DAL   R +   E   RI ++L   M+           V+V+ +TN    +D A+RR  R
Sbjct: 120 DALTGTRGEGESEASRRIKTELLVQMNG---VGNDSQGVLVLGATNIPWQLDSAIRR--R 174
Query: 185 FDXXXXXXXXXXXXRFEILKLYTKKVP-LDANVDLEAIATSCNGYVGADLEALCREATMS 243
           F+            R  + ++     P +    D   +     GY G+D+  + ++A M 
Sbjct: 175 FERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQ 234
Query: 244 AVKRSSDANECAGV 257
            +++   A     V
Sbjct: 235 PIRKIQSATHFKDV 248

>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound State Length = 322

Iteration: 1
 Score = 82.4 bits (202), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 48/142 (33%), Positives = 69/142 (48%), Gaps = 4/142 (2%)
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 XXXXXXXXXXXXXXGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGS 402
                          ++L S ++GESE L++  F  AR   PSIIF D+ D +   RG  
Sbjct: 70  AVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG 129
Query: 403 SSTSITVGERLLSTLLTEMDGL 424
            S +     R+ + LL +M+G+
Sbjct: 130 ESEA---SRRIKTELLVQMNGV 148

>pdb|3EIH|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of Atpgammas Length = 340

Iteration: 1
 Score = 98.2 bits (243), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 73/244 (29%), Positives = 118/244 (48%), Gaps = 16/244 (6%)
Query: 7   IMSEH-NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTG 65
           I+SE  N KW   E + G   A EAL+E +  P+ +     K   K   G+LLYGPPGTG
Sbjct: 26  ILSEKPNVKW---EDVAGLEGAKEALKEAVILPVKFP-HLFKGNRKPTSGILLYGPPGTG 81
Query: 66  KTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEI 125
           K+ L +AV  E  +    +S   +    +GESEK +++ F+ A  +    KPS++FID++
Sbjct: 82  KSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMAREN----KPSIIFIDQV 137
Query: 126 DALCPRR-DHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGR 184
           DAL   R +   E   RI ++L   M+           V+V+ +TN    +D A+RR  R
Sbjct: 138 DALTGTRGEGESEASRRIKTELLVQMNG---VGNDSQGVLVLGATNIPWQLDSAIRR--R 192
Query: 185 FDXXXXXXXXXXXXRFEILKLYTKKVP-LDANVDLEAIATSCNGYVGADLEALCREATMS 243
           F+            R  + ++     P +    D   +     GY G+D+  + ++A M 
Sbjct: 193 FERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQ 252
Query: 244 AVKR 247
            +++
Sbjct: 253 PIRK 256

>pdb|3EIH|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of Atpgammas Length = 340

Iteration: 1
 Score = 82.4 bits (202), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 50/151 (33%), Positives = 74/151 (49%), Gaps = 6/151 (3%)
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 424
           +   RG G S  S     R+ + LL +M+G+
Sbjct: 140 LTGTRGEGESEAS----RRIKTELLVQMNGV 166

>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp Length = 262

Iteration: 1
 Score = 95.9 bits (237), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 71/233 (30%), Positives = 108/233 (46%), Gaps = 16/233 (6%)
Query: 21  IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH 80
           + G   A   +RE + + L    +  +LG K P+G LL GPPG GKT L +AV  E    
Sbjct: 8   VAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVP 66
Query: 81  LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-----HR 135
              ++     +   G     +R  F +A + A    P +V+IDEIDA+  +R        
Sbjct: 67  FLAMAGAEFVEVIGGLGAARVRSLFKEARARA----PCIVYIDEIDAVGKKRSTTMSGFS 122
Query: 136 REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDXXXXXXXXX 195
             ++ +  +QL   MD       +  HV+V+ASTNR D +D AL R GR D         
Sbjct: 123 NTEEEQTLNQLLVEMDG----MGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPT 178
Query: 196 XXXRFEILKLYTKKVPLDANVDL--EAIATSCNGYVGADLEALCREATMSAVK 246
              R EI + + K + L  +     + +A    G+ GAD+  +C EA + A +
Sbjct: 179 LQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAAR 231

>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp Length = 262

Iteration: 1
 Score = 79.7 bits (195), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 48/139 (34%), Positives = 73/139 (52%), Gaps = 2/139 (1%)
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 SITVGERLLSTLLTEMDGL 424
           S T  E+ L+ LL EMDG+
Sbjct: 122 SNTEEEQTLNQLLVEMDGM 140

>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli Mgsa Length = 447

Iteration: 1
 Score = 48.1 bits (113), Expect = 9e-06,   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|3T15|A Chain A, Structure Of Green-Type Rubisco Activase From Tobacco Length = 293

Iteration: 1
 Score = 45.8 bits (107), Expect = 5e-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 = 42.7 bits (99), Expect = 4e-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|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii Length = 318

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-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|1HQC|A Chain A, Structure Of Ruvb From Thermus Thermophilus Hb8 Length = 324

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-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|1IXR|C Chain C, Ruva-Ruvb Complex Length = 312

Iteration: 1
 Score = 41.6 bits (96), Expect = 8e-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	441
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	0.0
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	6e-99
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	3e-51
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	1e-117
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	4e-55
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	6e-87
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	8e-80
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	6e-85
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	1e-73
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	2e-79
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	7e-56
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	1e-65
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	9e-50
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	5e-64
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	5e-49
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	4e-62
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	8e-54
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	6e-62
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	1e-50
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	9e-62
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	7e-50
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	2e-58
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	2e-49
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	1e-57
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	1e-37
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	2e-56
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	3e-47
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	2e-51
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	1e-30
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	3e-51
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	4e-31
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	3e-51
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	4e-31
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	7e-51
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	3e-31
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	5e-49
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	6e-32
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	4e-46
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	2e-25
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	8e-46
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	2e-35
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	3e-45
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	7e-26
2krk_A	86	26S protease regulatory subunit 8; structural geno	1e-19
3kw6_A	78	26S protease regulatory subunit 8; structural geno	3e-18
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	5e-16
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	9e-12
3aji_B	83	S6C, proteasome (prosome, macropain) 26S subunit,	5e-16
3vlf_B	88	26S protease regulatory subunit 7 homolog; heat re	3e-15
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	3e-15
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	2e-08
2dzn_B	82	26S protease regulatory subunit 6B homolog; ankyri	5e-15
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-08
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	3e-11
3pvs_A	447	Replication-associated recombination protein A; ma	7e-11
3pvs_A	447	Replication-associated recombination protein A; ma	1e-05
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	3e-09
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	7e-06
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	3e-09
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	4e-09
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	1e-07
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	4e-07
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	5e-06
2chg_A	226	Replication factor C small subunit; DNA-binding pr	8e-06
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	1e-05
2qgz_A	308	Helicase loader, putative primosome component; str	1e-05
2chq_A	319	Replication factor C small subunit; DNA-binding pr	2e-05
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	2e-05
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	5e-05
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	1e-04
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	2e-04
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	2e-04
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	4e-04
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	5e-04

>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 =  349 bits (898), Expect = e-117
 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 =  189 bits (482), Expect = 4e-55
 Identities = 65/173 (37%), Positives = 94/173 (54%), Gaps = 4/173 (2%)

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 RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ-AKVII 431
              AP+IIF DE D +  KR  +      V  R++S LLT MDGL+Q A VI+
Sbjct: 294 EKNAPAIIFIDELDAIAPKREKTHG---EVERRIVSQLLTLMDGLKQRAHVIV 343

>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 =  266 bits (682), Expect = 6e-87
 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

>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 =  248 bits (635), Expect = 8e-80
 Identities = 74/156 (47%), Positives = 107/156 (68%), Gaps = 2/156 (1%)

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 KRGGSSSTSITVGERLLSTLLTEMDGLEQAK--VII 431
            RGG+        +R+++ +LTEMDG+   K   II
Sbjct: 123 ARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFII 158

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score =  260 bits (666), Expect = 6e-85
 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

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score =  231 bits (592), Expect = 1e-73
 Identities = 67/153 (43%), Positives = 96/153 (62%), Gaps = 5/153 (3%)

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 GSSSTSITVGERLLSTLLTEMDGLEQAK--VII 431
              +       R+++ LLTEMDGLE  +   I+
Sbjct: 121 DRET---GASVRVVNQLLTEMDGLEARQQVFIM 150

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Length = 285

 Score =  246 bits (630), Expect = 2e-79
 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

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Length = 285

 Score =  185 bits (472), Expect = 7e-56
 Identities = 64/152 (42%), Positives = 92/152 (60%), Gaps = 3/152 (1%)

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 SSSTSITVGERLLSTLLTEMDGLE---QAKVI 430
           + +      +R L  LL EMDG +     K+I
Sbjct: 129 ALTGGDREVQRTLMQLLAEMDGFDARGDVKII 160

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Length = 297

 Score =  211 bits (539), Expect = 1e-65
 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

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Length = 297

 Score =  170 bits (432), Expect = 9e-50
 Identities = 60/155 (38%), Positives = 77/155 (49%), Gaps = 4/155 (2%)

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 VVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK 428
            + ++R  S   +     RL +  L E DGL    
Sbjct: 124 SLLSERSSSEHEAS---RRLKTEFLVEFDGLPGNP 155

>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 =  209 bits (533), Expect = 5e-64
 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

>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 =  169 bits (431), Expect = 5e-49
 Identities = 59/212 (27%), Positives = 95/212 (44%), Gaps = 16/212 (7%)

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 VVGAKRGGSSSTSITVGERLLSTLLTEMDGLE 425
            + ++RG     S     R+ +  L ++DG  
Sbjct: 187 SLLSQRGDGEHESS---RRIKTEFLVQLDGAT 215

>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 =  203 bits (518), Expect = 4e-62
 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

>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 =  181 bits (461), Expect = 8e-54
 Identities = 60/152 (39%), Positives = 85/152 (55%), Gaps = 4/152 (2%)

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 424
           D +   RG   S +     R+ + LL +M+G+
Sbjct: 120 DALTGTRGEGESEA---SRRIKTELLVQMNGV 148

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Length = 322

 Score =  202 bits (516), Expect = 6e-62
 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

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Length = 322

 Score =  173 bits (440), Expect = 1e-50
 Identities = 61/151 (40%), Positives = 85/151 (56%), Gaps = 5/151 (3%)

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 428
            R  + S       R+ +  L +M G+    
Sbjct: 120 SRSENES---EAARRIKTEFLVQMQGVGVDN 147

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Length = 389

 Score =  204 bits (520), Expect = 9e-62
 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

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Length = 389

 Score =  173 bits (439), Expect = 7e-50
 Identities = 70/242 (28%), Positives = 102/242 (42%), Gaps = 20/242 (8%)

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 GL 424
           G+
Sbjct: 244 GV 245

>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 =  194 bits (494), Expect = 2e-58
 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

>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 =  171 bits (434), Expect = 2e-49
 Identities = 60/178 (33%), Positives = 93/178 (52%), Gaps = 4/178 (2%)

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 424
           ESE L++  F  AR   PSIIF D+ D +   RG   S +     R+ + LL +M+G+
Sbjct: 127 ESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEA---SRRIKTELLVQMNGV 181

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A Length = 293

 Score =  190 bits (484), Expect = 1e-57
 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

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A Length = 293

 Score =  138 bits (348), Expect = 1e-37
 Identities = 24/137 (17%), Positives = 47/137 (34%), Gaps = 8/137 (5%)

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 ITVGERLLSTLLTEMDG 423
            TV  ++++  L  +  
Sbjct: 122 -TVNNQMVNATLMNIAD 137

>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 =  192 bits (488), Expect = 2e-56
 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

>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 =  167 bits (424), Expect = 3e-47
 Identities = 61/156 (39%), Positives = 87/156 (55%), Gaps = 5/156 (3%)

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 DVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK 428
           D +   R  + S +     R+ +  L +M G+    
Sbjct: 237 DSLCGSRSENESEA---ARRIKTEFLVQMQGVGVDN 269

>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 (442), Expect = 2e-51
 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

>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 =  118 bits (297), Expect = 1e-30
 Identities = 57/160 (35%), Positives = 85/160 (53%), Gaps = 14/160 (8%)

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--VII 431
                    V       E+ L+ LL EMDG       VI+
Sbjct: 120 AAGG-----VVSGNDEREQTLNQLLAEMDGFGSENAPVIV 154

>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 (439), Expect = 3e-51
 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

>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 =  118 bits (299), Expect = 4e-31
 Identities = 61/154 (39%), Positives = 89/154 (57%), Gaps = 1/154 (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 KRGGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
           KRG          E+ L+ LL EMDG E+   I+
Sbjct: 123 KRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIV 156

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20 Length = 278

 Score =  173 bits (441), Expect = 3e-51
 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

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20 Length = 278

 Score =  119 bits (301), Expect = 4e-31
 Identities = 60/149 (40%), Positives = 88/149 (59%), Gaps = 1/149 (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 SSTSITVGERLLSTLLTEMDGLEQAKVII 431
                   E+ L+ LL EMDG E+   I+
Sbjct: 152 VGGGNDEREQTLNQLLVEMDGFEKDTAIV 180

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20 Length = 257

 Score =  171 bits (436), Expect = 7e-51
 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

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20 Length = 257

 Score =  119 bits (301), Expect = 3e-31
 Identities = 58/152 (38%), Positives = 91/152 (59%), Gaps = 1/152 (0%)

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 GGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
           G          E+ L+ +L EMDG E  + II
Sbjct: 121 GAGLGGGHDEREQTLNQMLVEMDGFEGNEGII 152

>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 =  167 bits (424), Expect = 5e-49
 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

>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 =  121 bits (306), Expect = 6e-32
 Identities = 58/147 (39%), Positives = 87/147 (59%), Gaps = 2/147 (1%)

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 TSITVGERLLSTLLTEMDGLEQAKVII 431
            S T  E+ L+ LL EMDG+     +I
Sbjct: 121 FSNTEEEQTLNQLLVEMDGMGTTDHVI 147

>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 =  165 bits (419), Expect = 4e-46
 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

>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 =  107 bits (269), Expect = 2e-25
 Identities = 58/153 (37%), Positives = 89/153 (58%), Gaps = 13/153 (8%)

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------ERLLSTLLTEMDGLEQAKVII 431
               +G      E+ L+ LL EMDG +  + II
Sbjct: 128 ----LGGGHDEREQTLNQLLVEMDGFDSKEGII 156

>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 (402), Expect = 8e-46
 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

>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 =  131 bits (330), Expect = 2e-35
 Identities = 29/179 (16%), Positives = 58/179 (32%), Gaps = 14/179 (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 TFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQA--KVII 431
            F  A  +  S +  D+ + +          S      +L  LL  +        K++I
Sbjct: 116 IFDDAYKSQLSCVVVDDIERLLDYVPIGPRFS----NLVLQALLVLLKKAPPQGRKLLI 170

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus} Length = 499

 Score =  163 bits (414), Expect = 3e-45
 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

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus} Length = 499

 Score =  108 bits (273), Expect = 7e-26
 Identities = 62/155 (40%), Positives = 90/155 (58%), Gaps = 13/155 (8%)

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------ERLLSTLLTEMDGLEQAKVII 431
                 VG      E+ L+ LL EMDG E+   I+
Sbjct: 143 ------VGGGNDEREQTLNQLLVEMDGFEKDTAIV 171

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens} Length = 86

 Score = 82.2 bits (204), Expect = 1e-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 = 77.9 bits (193), Expect = 3e-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

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A* Length = 309

 Score = 77.5 bits (190), Expect = 5e-16
 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

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A* Length = 309

 Score = 64.8 bits (157), Expect = 9e-12
 Identities = 32/159 (20%), Positives = 62/159 (38%), Gaps = 19/159 (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 DVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
             +              G+  +  LL  M+      V+I
Sbjct: 140 YYLYRPDNER-----DYGQEAIEILLQVMENNRDDLVVI 173

>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 = 71.6 bits (176), Expect = 5e-16
 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

>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 = 69.9 bits (172), Expect = 3e-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

>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 = 76.6 bits (188), Expect = 3e-15
 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 = 55.0 bits (132), Expect = 2e-08
 Identities = 31/137 (22%), Positives = 56/137 (40%), Gaps = 17/137 (12%)

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 APSIIFFDEADVVGAKR 399
               ++  E   +    
Sbjct: 126 ETKEVYEGEVTELTPCE 142

>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 = 69.3 bits (170), Expect = 5e-15
 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

>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 = 2e-12
 Identities = 73/498 (14%), Positives = 144/498 (28%), Gaps = 147/498 (29%)

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++ +L  +  
Sbjct: 502 -------FLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPK 554

Query: 424 LEQAKVIIYPISFIFQLS 441
           +E+  +I    + + +++
Sbjct: 555 IEE-NLICSKYTDLLRIA 571

>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 = 54.9 bits (131), Expect = 4e-08
 Identities = 21/188 (11%), Positives = 44/188 (23%), Gaps = 71/188 (37%)

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 345
           T +A    
Sbjct: 164 TWVALDVC 171

>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 = 63.5 bits (154), Expect = 3e-11
 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 = 62.9 bits (154), Expect = 7e-11
 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 = 46.4 bits (111), Expect = 1e-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 = 58.0 bits (140), Expect = 3e-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 = 47.2 bits (112), Expect = 7e-06
 Identities = 34/145 (23%), Positives = 47/145 (32%), Gaps = 32/145 (22%)

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-VVGAKRGGSSST 405
               +I  DE D + G  RGG    
Sbjct: 147 GKHFVIIMDEVDGMSGGDRGGVGQL 171

>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 = 57.5 bits (138), Expect = 3e-09
 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 = 57.1 bits (137), Expect = 4e-09
 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 = 52.6 bits (125), Expect = 1e-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 = 51.0 bits (121), Expect = 4e-07
 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 = 45.8 bits (109), Expect = 5e-06
 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 = 8e-06
 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 = 46.1 bits (108), Expect = 1e-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

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3} Length = 308

 Score = 46.0 bits (109), Expect = 1e-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 = 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

>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 = 2e-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 = 5e-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 = 42.5 bits (100), Expect = 1e-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 = 41.2 bits (97), Expect = 2e-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 = 2e-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 = 4e-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 = 41.2 bits (96), Expect = 5e-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	441
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_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
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	100.0
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	100.0
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	100.0
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	100.0
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	100.0
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	100.0
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.98
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.98
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.97
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.97
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	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
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	99.97
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.97
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	99.97
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.97
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	99.97
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	99.97
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.96
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.96
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.96
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
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.95
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.95
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.95
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.94
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	99.94
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.93
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.93
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	99.91
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	99.91
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	99.89
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	99.88
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	99.88
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.87
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	99.87
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	99.87
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	99.87
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.86
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	99.85
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.85
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	99.85
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.84
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	99.84
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	99.84
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.82
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	99.82
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	99.82
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	99.81
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	99.81
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.8
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.79
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	99.79
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.79
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.77
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.77
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.75
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.74
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.74
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.74
3pvs_A	447	Replication-associated recombination protein A; ma	99.73
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.73
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.71
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.7
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.69
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.69
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.69
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.68
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.68
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.67
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.67
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.67
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.65
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.65
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.64
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	99.63
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.63
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.63
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.62
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.62
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.62
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.62
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.61
3bos_A	242	Putative DNA replication factor; P-loop containing	99.61
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.61
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.61
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.61
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.6
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.6
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.6
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.59
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	99.58
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.57
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.57
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	99.56
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.56
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	99.55
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.54
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.54
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.53
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.52
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	99.5
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.49
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.49
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.49
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	99.49
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.48
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.48
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.45
3co5_A	143	Putative two-component system transcriptional RES	99.44
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.43
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.41
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	99.4
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.4
3co5_A	143	Putative two-component system transcriptional RES	99.36
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.36
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	99.32
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.31
3pvs_A	447	Replication-associated recombination protein A; ma	99.3
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.29
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.26
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.26
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.26
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.24
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.23
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.21
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.2
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.16
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.14
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.14
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.12
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.11
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	99.08
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.08
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.08
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.07
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.07
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.07
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.05
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.04
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.04
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	99.04
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.03
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.02
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.02
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.01
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	99.0
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	98.99
3bos_A	242	Putative DNA replication factor; P-loop containing	98.97
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.96
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.95
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.93
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.93
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	98.93
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.92
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	98.91
2r44_A	331	Uncharacterized protein; putative ATPase, structur	98.9
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	98.87
3f8t_A	506	Predicted ATPase involved in replication control,	98.85
2fna_A	357	Conserved hypothetical protein; structural genomic	98.84
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	98.81
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	98.8
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	98.79
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.79
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.74
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	98.73
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.73
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.73
1tue_A	212	Replication protein E1; helicase, replication, E1E	98.71
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	98.69
2qgz_A	308	Helicase loader, putative primosome component; str	98.63
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.56
2qgz_A	308	Helicase loader, putative primosome component; str	98.56
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	98.55
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	98.52
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.49
3kw6_A	78	26S protease regulatory subunit 8; structural geno	98.49
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.48
1tue_A	212	Replication protein E1; helicase, replication, E1E	98.48
2krk_A	86	26S protease regulatory subunit 8; structural geno	98.48
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	98.37
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	98.33
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	98.33
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	98.3
1xp8_A	366	RECA protein, recombinase A; recombination, radior	98.22
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	98.21
3vlf_B	88	26S protease regulatory subunit 7 homolog; heat re	98.18
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	98.16
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	98.16
2cvh_A	220	DNA repair and recombination protein RADB; filamen	98.15
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	98.14
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	98.13
2cvh_A	220	DNA repair and recombination protein RADB; filamen	98.12
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	98.11
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	98.1
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	98.09
1u94_A	356	RECA protein, recombinase A; homologous recombinat	98.09
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	98.09
3aji_B	83	S6C, proteasome (prosome, macropain) 26S subunit,	98.07
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	98.06
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	98.04
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	98.03
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	98.02
4a74_A	231	DNA repair and recombination protein RADA; hydrola	98.01
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.99
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.96
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.94
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.94
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.93
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	97.93
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	97.93
2fna_A	357	Conserved hypothetical protein; structural genomic	97.92
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	97.92
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.91
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	97.91
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	97.91
3io5_A	333	Recombination and repair protein; storage dimer, i	97.91
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.91
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.91
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	97.9
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.9
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	97.89
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.89
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	97.88
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	97.87
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	97.86
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	97.85
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.85
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.85
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.85
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	97.85
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	97.84
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.83
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	97.83
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	97.83
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	97.82
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.82
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	97.82
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.81
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.81
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.8
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.8
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	97.8
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.8
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.79
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.79
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	97.79
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.78
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	97.77
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.77
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	97.77
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.76
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	97.75
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	97.75
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.74
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	97.74
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	97.73
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	97.73
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	97.72
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	97.72
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.72
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	97.72
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.72
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	97.72
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	97.71
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	97.71
1ji0_A	240	ABC transporter; ATP binding protein, structural g	97.71
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.7
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.7
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	97.7
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	97.7
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	97.7
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	97.69
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	97.69
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.69
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	97.69
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.69
3io5_A	333	Recombination and repair protein; storage dimer, i	97.68
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.68
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	97.68
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.68
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	97.67
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	97.67
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	97.66
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.66
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.66
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	97.65
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.65
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	97.65
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	97.65
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	97.64
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.64
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.63
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	97.63
2ewv_A	372	Twitching motility protein PILT; pilus retraction	97.63
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	97.63
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.63
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.63
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.62
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.62
3f8t_A	506	Predicted ATPase involved in replication control,	97.62
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	97.62
1via_A	175	Shikimate kinase; structural genomics, transferase	97.62
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	97.61
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	97.61
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.61
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.61
2r6a_A	454	DNAB helicase, replicative helicase; replication,	97.6
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.6
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.6
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.59
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	97.58
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	97.58
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.58
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.58
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.57
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.56
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.56
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.55
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.55
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.55
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	97.54
2ewv_A	372	Twitching motility protein PILT; pilus retraction	97.54
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.54
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.54
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.53
1via_A	175	Shikimate kinase; structural genomics, transferase	97.53
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.51
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	97.51
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	97.51
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.5
2dzn_B	82	26S protease regulatory subunit 6B homolog; ankyri	97.5
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.5
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	97.5
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.5
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.5
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.49
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.49
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.49
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.48
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.47
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	97.47
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	97.47
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.47
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.47
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.47
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	97.46
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.46
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.45
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.45
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	97.45
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	97.44
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.44
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	97.44
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.44
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.43
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.43
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.43
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.43
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.43
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.43
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	97.42
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	97.41
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	97.41
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	97.41
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.41
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.41
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	97.41
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.41
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	97.4
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	97.4
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	97.4
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.4
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.39
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.39
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.39
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.39
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.38
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	97.38
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	97.38
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	97.37
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.37
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.37
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.37
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.37
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.36
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	97.36
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.36
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	97.36
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	97.36
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.36
3b6e_A	216	Interferon-induced helicase C domain-containing P;	97.36
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	97.35
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	97.35
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.35
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	97.35
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	97.35
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	97.35
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	97.34
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.34
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.34
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.34
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.34
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.33
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.33
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.33
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.33
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	97.33
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.33
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.32
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.32
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.32
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	97.32
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	97.31
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	97.3
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.3
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.3
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	97.3
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.3
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.3
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.29
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	97.29
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	97.29
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.28
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	97.28
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	97.28
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	97.28
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	97.28
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	97.28
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.28
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	97.27
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	97.26
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	97.26
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.26
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	97.25
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	97.25
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.25
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	97.25
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	97.25
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.25
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	97.24
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.24
2og2_A	359	Putative signal recognition particle receptor; nuc	97.24
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	97.24
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	97.23
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.23
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	97.23
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.23
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.23
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.23
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.22
2xxa_A	433	Signal recognition particle protein; protein trans	97.22
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	97.21
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	97.21
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	97.21
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.21
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.21
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	97.21
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	97.21
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	97.21
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.2
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.2
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	97.2
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	97.2
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	97.19
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	97.19
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	97.19
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	97.18
2r6a_A	454	DNAB helicase, replicative helicase; replication,	97.18
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	97.17
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	97.17
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.17
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.16
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.16
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	97.16
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.16
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.16
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	97.16
1p9r_A	418	General secretion pathway protein E; bacterial typ	97.15
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	97.14
2og2_A	359	Putative signal recognition particle receptor; nuc	97.14
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.14
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	97.14
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.14
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	97.13
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.13
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.13
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.13
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	97.13
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	97.13
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.13

>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=1.4e-68  Score=529.99  Aligned_cols=412  Identities=46%  Similarity=0.788  Sum_probs=363.0

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~   96 (441)
                      .+++|+|++++|+.|++.+.+|+.+++.+.++++.++++|||+||||||||++|+++|++++.+++.+++.++.+.+.++
T Consensus       202 ~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~sk~~ge  281 (806)
T 3cf2_A          202 GYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGE  281 (806)
T ss_dssp             CGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHSSCTTH
T ss_pred             ChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhhcccchH
Confidence            34899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCcc
Q 013506           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (441)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l  175 (441)
                      ..+.++.+|..+...    .|+||||||+|.+++..+. .++...+.+.+|+..++.....    .++++|++||.++.+
T Consensus       282 se~~lr~lF~~A~~~----~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~----~~V~VIaaTN~~d~L  353 (806)
T 3cf2_A          282 SESNLRKAFEEAEKN----APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQR----AHVIVMAATNRPNSI  353 (806)
T ss_dssp             HHHHHHHHHHHHTTS----CSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGG----GCEEEEEECSSTTTS
T ss_pred             HHHHHHHHHHHHHHc----CCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhccccc----CCEEEEEecCChhhc
Confidence            999999999988654    5999999999999987653 3445667888999999876532    268999999999999


Q ss_pred             CHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccc--
Q 013506          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE--  253 (441)
Q Consensus       176 ~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~--  253 (441)
                      |++++|++||+..++++.|+.++|.+|++.++.......+.++..++..+.||+++++..++++|...+.++......  
T Consensus       354 D~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvdl~~lA~~T~GfsgaDL~~Lv~eA~~~A~~r~~~~i~~~  433 (806)
T 3cf2_A          354 DPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLE  433 (806)
T ss_dssp             CTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHHHHHGGGT
T ss_pred             CHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcccccccc
Confidence            999999999999999999999999999999999888888889999999999999999999999999888777543211  


Q ss_pred             -------cccceeeeHhhHHhhhhhcccccccCcccccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCce
Q 013506          254 -------CAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRG  326 (441)
Q Consensus       254 -------~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~  326 (441)
                             ......++.+|+..+.....|+..+......+...|++++|++++++.+.+.+.+++.+...+.+.+..++.+
T Consensus       434 ~~~~~~e~~~~~~v~~~Df~~Al~~~~ps~~r~~~~~~p~v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~g  513 (806)
T 3cf2_A          434 DETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKG  513 (806)
T ss_dssp             CCCCSHHHHHHCEECTTHHHHHHSSSSCCCCCCCCCBCCCCCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSC
T ss_pred             ccccchhhhccceeeHHHHHHHHHhCCCcccccccccCCCCCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCce
Confidence                   1123567889999999999998887777888899999999999999999999999999999999999999999


Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCC
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTS  406 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~  406 (441)
                      +||+||||||||.+|+++|..++.+++.++++++.++|+|++++.++++|+.|+...||||||||+|++++.|+...+++
T Consensus       514 vLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~~vGese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~  593 (806)
T 3cf2_A          514 VLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDG  593 (806)
T ss_dssp             CEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTTTCSSCHHHHHHHHHHHHTTCSEEEECSCGGGCC----------
T ss_pred             EEEecCCCCCchHHHHHHHHHhCCceEEeccchhhccccchHHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999998765566


Q ss_pred             cchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          407 ITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       407 ~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ++..+|++++||++|||++....|+|+|||
T Consensus       594 ~~~~~rv~~~lL~~mdg~~~~~~V~vi~aT  623 (806)
T 3cf2_A          594 GGAADRVINQILTEMDGMSTKKNVFIIGAT  623 (806)
T ss_dssp             ----CHHHHHHHHHHHSSCSSSSEEEECC-
T ss_pred             chHHHHHHHHHHHHHhCCCCCCCEEEEEeC
Confidence            677899999999999999998777777665

>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=6.4e-41  Score=305.62  Aligned_cols=248  Identities=33%  Similarity=0.584  Sum_probs=220.1

Q ss_pred             cccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccC
Q 013506            8 MSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH   87 (441)
Q Consensus         8 ~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~   87 (441)
                      ...|++.|   ++|+|++++|+.|++.+.+|+.+|+.|.++|+++++++||+||||||||++|+++|++++.+++.++++
T Consensus       140 ~~~p~v~~---~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s  216 (405)
T 4b4t_J          140 EKVPDSTY---DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGA  216 (405)
T ss_dssp             ECSCSCCG---GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGG
T ss_pred             cCCCCCCH---HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhH
Confidence            34566777   899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCc----hhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           88 SVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR----EQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ++...+.|+..+.++.+|..+...    .|+|+||||+|.+++......    ....+.+.+++..++.....    .++
T Consensus       217 ~l~sk~vGese~~vr~lF~~Ar~~----aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~----~~V  288 (405)
T 4b4t_J          217 ELVQKYIGEGSRMVRELFVMAREH----APSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETS----KNI  288 (405)
T ss_dssp             GGSCSSTTHHHHHHHHHHHHHHHT----CSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCC----CCE
T ss_pred             HhhccccchHHHHHHHHHHHHHHh----CCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCC----CCe
Confidence            999999999999999999998865    499999999999987654222    23346678888888876532    369


Q ss_pred             EEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHH
Q 013506          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMS  243 (441)
Q Consensus       164 ~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~  243 (441)
                      ++|+|||.++.+|+++.|+|||+..++++.|+.++|.+||+.++++.....+.++..++..+.||++++|+.+|++|...
T Consensus       289 ~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvdl~~lA~~t~G~SGADi~~l~~eA~~~  368 (405)
T 4b4t_J          289 KIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGINLRKVAEKMNGCSGADVKGVCTEAGMY  368 (405)
T ss_dssp             EEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCCHHHHHHHCCSCCHHHHHHHHHHHHHH
T ss_pred             EEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHHCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999888888999999999999999999999999988


Q ss_pred             HHHhcccccccccceeeeHhhHHhhhhhccc
Q 013506          244 AVKRSSDANECAGVLSVTMEDWRHARSVVGP  274 (441)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~  274 (441)
                      +.++..        ..++.+|+..++..+.+
T Consensus       369 Air~~~--------~~vt~~Df~~Al~~v~~  391 (405)
T 4b4t_J          369 ALRERR--------IHVTQEDFELAVGKVMN  391 (405)
T ss_dssp             HHHTTC--------SBCCHHHHHHHHHHHHH
T ss_pred             HHHcCC--------CCcCHHHHHHHHHHHhC
Confidence            877632        35788888887765543

>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=3.5e-40  Score=301.02  Aligned_cols=249  Identities=32%  Similarity=0.549  Sum_probs=220.6

Q ss_pred             cccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccC
Q 013506            8 MSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH   87 (441)
Q Consensus         8 ~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~   87 (441)
                      ...+++.|   ++|+|++++|+.|.+.+.+|+.+++.+.++|+++++++|||||||||||++|+++|.+++.+++.+++.
T Consensus       174 ~~~p~v~~---~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s  250 (437)
T 4b4t_I          174 DKSPTESY---SDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGS  250 (437)
T ss_dssp             ESSCCCCG---GGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESG
T ss_pred             ccCCCCcc---eecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHH
Confidence            45667777   899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCc----hhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           88 SVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR----EQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ++.+.+.++.++.++.+|..+...    .|+||||||+|.+++......    ......+.+++..++.....    .++
T Consensus       251 ~l~sk~vGesek~ir~lF~~Ar~~----aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~----~~V  322 (437)
T 4b4t_I          251 ELIQKYLGDGPRLCRQIFKVAGEN----APSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDR----GDV  322 (437)
T ss_dssp             GGCCSSSSHHHHHHHHHHHHHHHT----CSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCS----SSE
T ss_pred             HhhhccCchHHHHHHHHHHHHHhc----CCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCC----CCE
Confidence            999999999999999999988765    499999999999988763222    23346677788888865432    369


Q ss_pred             EEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHH
Q 013506          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMS  243 (441)
Q Consensus       164 ~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~  243 (441)
                      +||+|||.++.||+++.|+|||+..|+++.|+.++|.+||+.++.......+.+++.++..+.||++++|+.+|++|...
T Consensus       323 iVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvdl~~LA~~T~GfSGADI~~l~~eA~~~  402 (437)
T 4b4t_I          323 KVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVNLETLVTTKDDLSGADIQAMCTEAGLL  402 (437)
T ss_dssp             EEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCCHHHHHHHCCSCCHHHHHHHHHHHHHH
T ss_pred             EEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999888888999999999999999999999999998


Q ss_pred             HHHhcccccccccceeeeHhhHHhhhhhcccc
Q 013506          244 AVKRSSDANECAGVLSVTMEDWRHARSVVGPS  275 (441)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~  275 (441)
                      ++++..        ..++.+|+..+...+.+.
T Consensus       403 Air~~~--------~~It~eDf~~Al~rv~~~  426 (437)
T 4b4t_I          403 ALRERR--------MQVTAEDFKQAKERVMKN  426 (437)
T ss_dssp             HHHTTC--------SCBCHHHHHHHHHHHHHH
T ss_pred             HHHcCC--------CccCHHHHHHHHHHHhCC
Confidence            887643        347888988887765543

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.1e-39  Score=302.67  Aligned_cols=253  Identities=33%  Similarity=0.569  Sum_probs=222.7

Q ss_pred             cccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccC
Q 013506            8 MSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH   87 (441)
Q Consensus         8 ~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~   87 (441)
                      ...|++.|   ++|+|++++|+.|.+.+.+|+.+++.+.++|+++++++|||||||||||++|+++|++++.+++.+++.
T Consensus       173 ~~~p~~t~---~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s  249 (434)
T 4b4t_M          173 DEKPTETY---SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAP  249 (434)
T ss_dssp             ESSCSCCG---GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGG
T ss_pred             CCCCCCCh---HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehh
Confidence            34455666   899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCch----hhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           88 SVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRRE----QDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ++...+.++..+.++.+|..+....    |+||||||+|.+++.......    .....+..++..++.....    .++
T Consensus       250 ~l~~~~vGese~~ir~lF~~A~~~a----P~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~----~~V  321 (434)
T 4b4t_M          250 QLVQMYIGEGAKLVRDAFALAKEKA----PTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSD----DRV  321 (434)
T ss_dssp             GGCSSCSSHHHHHHHHHHHHHHHHC----SEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSS----CSS
T ss_pred             hhhhcccchHHHHHHHHHHHHHhcC----CeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCC----CCE
Confidence            9999999999999999999887664    999999999999876643322    2334567778888776532    368


Q ss_pred             EEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHH
Q 013506          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMS  243 (441)
Q Consensus       164 ~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~  243 (441)
                      +||+|||.++.+|+++.|+|||+..++++.|+.++|.+||+.++.......+.++..++..+.||++++|+.+|++|...
T Consensus       322 iVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvdl~~lA~~t~G~sGADi~~l~~eA~~~  401 (434)
T 4b4t_M          322 KVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDINWQELARSTDEFNGAQLKAVTVEAGMI  401 (434)
T ss_dssp             EEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCCHHHHHHHCSSCCHHHHHHHHHHHHHH
T ss_pred             EEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999888888999999999999999999999999988


Q ss_pred             HHHhcccccccccceeeeHhhHHhhhhhcccccccC
Q 013506          244 AVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRG  279 (441)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~  279 (441)
                      +.++..        ..++.+|+..++....+...+.
T Consensus       402 a~r~~~--------~~i~~~Df~~Al~~v~~~~~~~  429 (434)
T 4b4t_M          402 ALRNGQ--------SSVKHEDFVEGISEVQARKSKS  429 (434)
T ss_dssp             HHHHTC--------SSBCHHHHHHHHHSCSSSCCCC
T ss_pred             HHHcCC--------CCcCHHHHHHHHHHHhCCCCcC
Confidence            877643        3578899999988877765443

>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=4e-39  Score=297.05  Aligned_cols=247  Identities=33%  Similarity=0.549  Sum_probs=217.4

Q ss_pred             cccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccC
Q 013506            8 MSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH   87 (441)
Q Consensus         8 ~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~   87 (441)
                      ...|++.|   ++|+|++++|+.|.+.+.+|+.+++.+.++|+++++++||+||||||||++|+++|++++.+++.+++.
T Consensus       201 ~e~P~vt~---~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s  277 (467)
T 4b4t_H          201 EEKPDVTY---SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGS  277 (467)
T ss_dssp             ESSCSCCC---SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGG
T ss_pred             cCCCCCCH---HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhH
Confidence            45677777   899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCc----hhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           88 SVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR----EQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ++.+.+.++..+.++.+|..+...    .|+||||||+|.++.......    ........+++..++....    ..++
T Consensus       278 ~L~sk~vGesek~ir~lF~~Ar~~----aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~----~~~V  349 (467)
T 4b4t_H          278 ELVQKYVGEGARMVRELFEMARTK----KACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDP----RGNI  349 (467)
T ss_dssp             GGCCCSSSHHHHHHHHHHHHHHHT----CSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCC----TTTE
T ss_pred             HhhcccCCHHHHHHHHHHHHHHhc----CCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCC----CCcE
Confidence            999999999999999999988765    499999999999987654222    2233556677777776543    2368


Q ss_pred             EEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHH
Q 013506          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMS  243 (441)
Q Consensus       164 ~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~  243 (441)
                      ++|+|||.++.+|++++|+|||+..++++.|+.++|.+||+.++.......+.+++.++..+.||++++|+.+|++|...
T Consensus       350 iVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvdl~~LA~~T~GfSGADI~~l~~eAa~~  429 (467)
T 4b4t_H          350 KVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMF  429 (467)
T ss_dssp             EEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHHHCCSCCHHHHHHHHHHHHHH
T ss_pred             EEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999888888999999999999999999999999988


Q ss_pred             HHHhcccccccccceeeeHhhHHhhhhhcc
Q 013506          244 AVKRSSDANECAGVLSVTMEDWRHARSVVG  273 (441)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~  273 (441)
                      ++++..        ..++.+|+..++..+.
T Consensus       430 Air~~~--------~~it~~Df~~Al~kV~  451 (467)
T 4b4t_H          430 AIRARR--------KVATEKDFLKAVDKVI  451 (467)
T ss_dssp             HHHHTC--------SSBCHHHHHHHHHHHH
T ss_pred             HHHcCC--------CccCHHHHHHHHHHHh
Confidence            877643        2467888887766543

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=3e-39  Score=299.98  Aligned_cols=249  Identities=35%  Similarity=0.566  Sum_probs=219.7

Q ss_pred             cccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccC
Q 013506            8 MSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH   87 (441)
Q Consensus         8 ~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~   87 (441)
                      ...|++.|   ++|+|++++|+.|.+.+.+|+.+++.|.++|+++++++|||||||||||++|+++|++++.+++.++++
T Consensus       173 ~~~p~v~~---~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s  249 (437)
T 4b4t_L          173 FEQGEITF---DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPAS  249 (437)
T ss_dssp             EESCSSCS---GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGG
T ss_pred             ccCCCCCh---hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehh
Confidence            34566777   899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCc----hhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           88 SVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR----EQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ++.+.+.++..+.++.+|..+...    .|+||||||+|.+++......    ......+.+|+..++.....    .++
T Consensus       250 ~l~sk~~Gese~~ir~~F~~A~~~----~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~----~~v  321 (437)
T 4b4t_L          250 GIVDKYIGESARIIREMFAYAKEH----EPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNL----GQT  321 (437)
T ss_dssp             GTCCSSSSHHHHHHHHHHHHHHHS----CSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCT----TSS
T ss_pred             hhccccchHHHHHHHHHHHHHHhc----CCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCC----CCe
Confidence            999999999999999999988765    499999999999987653221    22345677888888876532    368


Q ss_pred             EEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHH
Q 013506          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMS  243 (441)
Q Consensus       164 ~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~  243 (441)
                      +||+|||.++.+||+++|+|||+..|+++.|+.++|.+||+.++.......+.++..++..+.||++++|..+|++|...
T Consensus       322 ivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~dl~~lA~~t~G~sGADi~~l~~eA~~~  401 (437)
T 4b4t_L          322 KIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDFEAAVKMSDGFNGADIRNCATEAGFF  401 (437)
T ss_dssp             EEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCCHHHHHHTCCSCCHHHHHHHHHHHHHH
T ss_pred             EEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccCHHHHHHhCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999998888888999999999999999999999999988


Q ss_pred             HHHhcccccccccceeeeHhhHHhhhhhcccc
Q 013506          244 AVKRSSDANECAGVLSVTMEDWRHARSVVGPS  275 (441)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~  275 (441)
                      ++++..        ..++.+|+..+...+.+.
T Consensus       402 air~~~--------~~i~~~d~~~Al~~v~~~  425 (437)
T 4b4t_L          402 AIRDDR--------DHINPDDLMKAVRKVAEV  425 (437)
T ss_dssp             HHHTTC--------SSBCHHHHHHHHHHHHHT
T ss_pred             HHHcCC--------CCCCHHHHHHHHHHHHhc
Confidence            877643        247888888887766543

>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=2.7e-38  Score=293.28  Aligned_cols=245  Identities=31%  Similarity=0.534  Sum_probs=218.0

Q ss_pred             cccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccC
Q 013506            8 MSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH   87 (441)
Q Consensus         8 ~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~   87 (441)
                      ...|++.|   ++|+|++++|+.|.+.+..|+.+++.+.++|+++++++||+||||||||++|+++|++++.+++.+++.
T Consensus       164 ~~~p~v~~---~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~  240 (428)
T 4b4t_K          164 NEKPDVTY---ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGS  240 (428)
T ss_dssp             ESSCSCCG---GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGG
T ss_pred             CCCCCCCH---HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEecc
Confidence            34566667   899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           88 SVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ++.+.+.|+....++.+|..+...    .|+|+||||+|.+++....    ......+.+.+|+..+++....    .++
T Consensus       241 ~l~~~~~Ge~e~~ir~lF~~A~~~----aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~----~~v  312 (428)
T 4b4t_K          241 EFVHKYLGEGPRMVRDVFRLAREN----APSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQS----TNV  312 (428)
T ss_dssp             GTCCSSCSHHHHHHHHHHHHHHHT----CSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSS----CSE
T ss_pred             hhhccccchhHHHHHHHHHHHHHc----CCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCC----CCE
Confidence            999999999999999999988765    4999999999999876532    2223457788899999986533    368


Q ss_pred             EEEEEcCCCCccCHHHhhCCccceEEEec-CCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHH
Q 013506          164 VVVASTNRVDAIDPALRRSGRFDAEVEVT-VPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       164 ~vi~~~~~~~~l~~~l~~~~r~~~~i~~~-~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                      +||+|||.++.+||++.|+|||+..|++| .|+.++|..|++.++.+.....+.++..++..+.||++++|..+|++|..
T Consensus       313 ~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~dl~~lA~~t~G~sgadi~~l~~eA~~  392 (428)
T 4b4t_K          313 KVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGL  392 (428)
T ss_dssp             EEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCCHHHHHHHTTTCCHHHHHHHHHHHHH
T ss_pred             EEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHHCCCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999996 79999999999999999888888899999999999999999999999999


Q ss_pred             HHHHhcccccccccceeeeHhhHHhhhhh
Q 013506          243 SAVKRSSDANECAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~e~~~~~~~~  271 (441)
                      .+.++..        ..++.+|+..++..
T Consensus       393 ~a~r~~~--------~~i~~~d~~~A~~~  413 (428)
T 4b4t_K          393 RAVRKNR--------YVILQSDLEEAYAT  413 (428)
T ss_dssp             HHHHTTC--------SSBCHHHHHHHHHH
T ss_pred             HHHHCCC--------CCCCHHHHHHHHHH
Confidence            8887643        24788888887764

>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=9.9e-36  Score=295.40  Aligned_cols=258  Identities=33%  Similarity=0.574  Sum_probs=186.8

Q ss_pred             ccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCc
Q 013506            9 SEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (441)
Q Consensus         9 ~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~   88 (441)
                      ..+++.|   ++++|++++|+.|.+.+.+|+.+++.+.++++.+++++||+||||||||++|+++|.+++.+++.+++.+
T Consensus       470 ~~p~v~w---~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~  546 (806)
T 3cf2_A          470 EVPQVTW---EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPE  546 (806)
T ss_dssp             BCCCCCS---TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHH
T ss_pred             cCCCCCH---HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCceEEeccch
Confidence            4466777   8899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC----chhhHHHHHHHHHHHhcCCCCCCCCCeEE
Q 013506           89 VHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (441)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  164 (441)
                      +.+.+.++.++.++.+|..+...    .|+||||||+|.+++.....    +....+++.+|+..++.....    .+++
T Consensus       547 l~s~~vGese~~vr~lF~~Ar~~----~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~----~~V~  618 (806)
T 3cf2_A          547 LLTMWFGESEANVREIFDKARQA----APCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTK----KNVF  618 (806)
T ss_dssp             HHTTTCSSCHHHHHHHHHHHHTT----CSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSS----SSEE
T ss_pred             hhccccchHHHHHHHHHHHHHHc----CCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCCC----CCEE
Confidence            99999999999999999998765    49999999999998765421    223457889999999986543    3689


Q ss_pred             EEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q 013506          165 VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSA  244 (441)
Q Consensus       165 vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~  244 (441)
                      ||++||.++.||++++|+|||+..++++.|+.++|.+||+.++++.+...+.++..++..+.||++++|..+|++|...+
T Consensus       619 vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~~~~dl~~la~~t~g~SGadi~~l~~~A~~~a  698 (806)
T 3cf2_A          619 IIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLA  698 (806)
T ss_dssp             EECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--CCC----------------CHHHHHHHHHHHH
T ss_pred             EEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999888888889999999999999999999999999988


Q ss_pred             HHhccccccc-----------------ccceeeeHhhHHhhhhhcccccc
Q 013506          245 VKRSSDANEC-----------------AGVLSVTMEDWRHARSVVGPSIT  277 (441)
Q Consensus       245 ~~~~~~~~~~-----------------~~~~~~~~e~~~~~~~~~~~~~~  277 (441)
                      +++.......                 ...+.++.+||..++...+|+.+
T Consensus       699 ~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~df~~al~~~~pSvs  748 (806)
T 3cf2_A          699 IRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVS  748 (806)
T ss_dssp             HHHHHC-----------------------CCC----CCTTTC--------
T ss_pred             HHHHHHhhhhhhhhhccCccccccccccccCccCHHHHHHHHHhCCCCCC
Confidence            8775432110                 11234566666666666666544

>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=2.5e-31  Score=253.60  Aligned_cols=272  Identities=47%  Similarity=0.780  Sum_probs=224.1

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~   96 (441)
                      .+++++|++.+++.|.+.+..++..++.+..++..++.++||+||||||||++|+++++.++.+++.+++..+...+.++
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            45889999999999999999999999999999999999999999999999999999999999999999999998888888


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCcc
Q 013506           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (441)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l  175 (441)
                      ....+..+|..+...    .|++|||||+|.+.+.... ..+...+.+..|+..++....    ..++++|++||.++.+
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            888888888877643    4899999999999876543 244566788889999986543    2368999999999999


Q ss_pred             CHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhccccccc-
Q 013506          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANEC-  254 (441)
Q Consensus       176 ~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~-  254 (441)
                      ++++.+++||...++++.|+.++|.+|++.++.......+.++..++..+.|++++++..+++.+...+.++....... 
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            9999999999999999999999999999999988888878889999999999999999999999999888776442111 


Q ss_pred             --------ccceeeeHhhHHhhhhhcccccccCcccccCccccccccCch
Q 013506          255 --------AGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLR  296 (441)
Q Consensus       255 --------~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~g~~  296 (441)
                              .....++.+++..++....|+..+....+.|...|++++|..
T Consensus       434 ~~~~~~~~~~~~~vt~edf~~Al~~~~ps~~re~~~e~p~v~W~dig~~~  483 (489)
T 3hu3_A          434 DETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGRS  483 (489)
T ss_dssp             CSSCCHHHHHHCCBCHHHHHHHHTSHHHHHHHGGGC--------------
T ss_pred             ccccchhhcccCcCCHHHHHHHHHhCCchhhhcccccCCCCCHHHcCCCc
Confidence                    123457889999999999888878888889999999999864

>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=2.2e-32  Score=249.52  Aligned_cols=160  Identities=38%  Similarity=0.633  Sum_probs=147.3

Q ss_pred             ccCcccccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          277 TRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       277 ~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      ......+.|..+|++++|++++++.+.+.+.+|+.+...+.+++..|+.++||+||||||||++|+++|..++.+++.++
T Consensus       135 ~~~~~~~~p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~  214 (405)
T 4b4t_J          135 SLMMVEKVPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVS  214 (405)
T ss_dssp             TSCEEECSCSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEE
T ss_pred             hhccccCCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEE
Confidence            34445567889999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          357 GAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       357 ~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ++++.++|+|++++.++.+|..|+...||||||||+|++++.|+.++++.+....+++++||++|||+.....|+|+|||
T Consensus       215 ~s~l~sk~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~vIaAT  294 (405)
T 4b4t_J          215 GAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMAT  294 (405)
T ss_dssp             GGGGSCSSTTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEEEEEEE
T ss_pred             hHHhhccccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCCCCCeEEEecc
Confidence            99999999999999999999999999999999999999999998776666667789999999999999887766666555

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=100.00  E-value=5.8e-31  Score=233.71  Aligned_cols=257  Identities=42%  Similarity=0.639  Sum_probs=199.4

Q ss_pred             cccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcc
Q 013506           10 EHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (441)
Q Consensus        10 ~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~   89 (441)
                      .+++.|   ++|+|++++|+.|.+.+..|+..+..+.++++..+.+++|+||||||||++++++++.++..++.+++.++
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   89999999999999999999999999999999999999999999999999999999999999999999888


Q ss_pred             ccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC-chhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEE
Q 013506           90 HKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-REQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (441)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~  168 (441)
                      ...+.++..+.+..+|+.+...    .|+++|+||++.+....... .....+...+++..++.....    ..++++++
T Consensus        81 ~~~~~~~~~~~i~~vf~~a~~~----~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~----~~~i~ia~  152 (274)
T 2x8a_A           81 LNMYVGESERAVRQVFQRAKNS----APCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEAR----QQVFIMAA  152 (274)
T ss_dssp             CSSTTHHHHHHHHHHHHHHHHT----CSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCST----TCEEEEEE
T ss_pred             HhhhhhHHHHHHHHHHHHHHhc----CCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhccccc----CCEEEEee
Confidence            8777777778888888876533    38999999999876543211 111224566777777765432    25889999


Q ss_pred             cCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhcc---CCCCCcccHHHHHHHC--CCCCHHHHHHHHHHHHHH
Q 013506          169 TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK---VPLDANVDLEAIATSC--NGYVGADLEALCREATMS  243 (441)
Q Consensus       169 ~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~---~~~~~~~~~~~l~~~~--~g~~~~~i~~l~~~a~~~  243 (441)
                      +|.++.+|+++.|++||+..++++.|+.++|.+|++.++..   .....+.+++.++..+  .||+++++..++++|...
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            99999999999999999999999999999999999998754   2345577899999875  599999999999999988


Q ss_pred             HHHhccccc---ccccceeeeHhhHHhhhhhcccccc
Q 013506          244 AVKRSSDAN---ECAGVLSVTMEDWRHARSVVGPSIT  277 (441)
Q Consensus       244 ~~~~~~~~~---~~~~~~~~~~e~~~~~~~~~~~~~~  277 (441)
                      +.++.....   .......++.+|+..++....|+..
T Consensus       233 a~~~~~~~~~~~~~~~~~~i~~~df~~al~~~~ps~~  269 (274)
T 2x8a_A          233 ALRQEMARQKSGNEKGELKVSHKHFEEAFKKVRSSIS  269 (274)
T ss_dssp             HHHHHC-----------CCBCHHHHHHHHTTCCCCC-
T ss_pred             HHHHHHhhccccccccCCeecHHHHHHHHHHhcCCCC
Confidence            887643221   1122346889999999988887654

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=100.00  E-value=1.7e-30  Score=236.77  Aligned_cols=230  Identities=32%  Similarity=0.556  Sum_probs=195.3

Q ss_pred             ccccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh-CCcEEEEc
Q 013506            7 IMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-GAHLTVIS   85 (441)
Q Consensus         7 ~~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l-~~~~~~v~   85 (441)
                      +...+++.|   ++|+|++++|+.|.+.+.+|+.+++.+.. +..+++++||+||||||||++|+++++.+ +.+++.++
T Consensus         3 ~~~~~~~~~---~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~   78 (322)
T 1xwi_A            3 VIERPNVKW---SDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSIS   78 (322)
T ss_dssp             EEECCCCCG---GGSCSCHHHHHHHHHHHHHHHHCGGGSCT-TCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEE
T ss_pred             eecCCCCCH---HHhcCHHHHHHHHHHHHHHHHhCHHHHhC-CCCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEE
Confidence            345567778   89999999999999999999988888764 35677999999999999999999999999 88899999


Q ss_pred             cCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC-chhhHHHHHHHHHHHhcCCCCCCCCCeEE
Q 013506           86 PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-REQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (441)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  164 (441)
                      +.++...+.+.....+..+|..+...    +|++|||||+|.+.+..... .....+...+++..++.....   ..+++
T Consensus        79 ~~~l~~~~~g~~~~~~~~lf~~a~~~----~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~---~~~v~  151 (322)
T 1xwi_A           79 SSDLVSKWLGESEKLVKNLFQLAREN----KPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVD---NDGIL  151 (322)
T ss_dssp             CCSSCCSSCCSCHHHHHHHHHHHHHT----SSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSC---CTTEE
T ss_pred             hHHHHhhhhhHHHHHHHHHHHHHHhc----CCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhccccc---CCCEE
Confidence            99998888898888888888877643    58999999999998765432 334556778888888875421   23689


Q ss_pred             EEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCC-CcccHHHHHHHCCCCCHHHHHHHHHHHHHH
Q 013506          165 VVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMS  243 (441)
Q Consensus       165 vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~  243 (441)
                      +|++||.++.+++++.|  ||+..++++.|+.++|.+|++.++...... .+.++..++..+.||+++++..+++.+...
T Consensus       152 vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~~A~~~  229 (322)
T 1xwi_A          152 VLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDALMQ  229 (322)
T ss_dssp             EEEEESCTTTSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTCCBCCCHHHHHHHHHTCTTCCHHHHHHHHHHHHTH
T ss_pred             EEEecCCcccCCHHHHh--hcCeEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999  999999999999999999999998877654 456789999999999999999999999988


Q ss_pred             HHHhcc
Q 013506          244 AVKRSS  249 (441)
Q Consensus       244 ~~~~~~  249 (441)
                      +.++..
T Consensus       230 a~r~~~  235 (322)
T 1xwi_A          230 PVRKVQ  235 (322)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            877653

>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=2.9e-31  Score=240.12  Aligned_cols=257  Identities=33%  Similarity=0.570  Sum_probs=208.2

Q ss_pred             cccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccC
Q 013506            8 MSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPH   87 (441)
Q Consensus         8 ~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~   87 (441)
                      ...++..|   ++++|++++++.|.+.+..|+.+++.+.++++.++.+++|+||||||||++++++++.++.+++.+++.
T Consensus         7 ~~~~~~~~---~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~   83 (301)
T 3cf0_A            7 VEVPQVTW---EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGP   83 (301)
T ss_dssp             EECCCCCG---GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHH
T ss_pred             ccCCCCCH---HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhH
Confidence            44556667   789999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             ccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC----chhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           88 SVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ++...+.+.....+..+|..+...    .|+++||||+|.+.+.....    .....+.+..++..++....    ..++
T Consensus        84 ~l~~~~~g~~~~~~~~~f~~a~~~----~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~----~~~v  155 (301)
T 3cf0_A           84 ELLTMWFGESEANVREIFDKARQA----APCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST----KKNV  155 (301)
T ss_dssp             HHHHHHHTTCTTHHHHHHHHHHHT----CSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCT----TSSE
T ss_pred             HHHhhhcCchHHHHHHHHHHHHhc----CCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccC----CCCE
Confidence            877766677777778888777643    48999999999987543211    12233567788888886432    2368


Q ss_pred             EEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHH
Q 013506          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMS  243 (441)
Q Consensus       164 ~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~  243 (441)
                      +||++||.++.+++++.+++||...++++.|+.++|.+|++.++.......+.++..++..+.||++++++.+++.+...
T Consensus       156 ~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~~~~la~~~~g~sg~dl~~l~~~a~~~  235 (301)
T 3cf0_A          156 FIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKL  235 (301)
T ss_dssp             EEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHHTCSSCCHHHHHHHHHHHHHH
T ss_pred             EEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccchHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999888777777899999999999999999999999887


Q ss_pred             HHHhccccccc-----------------ccceeeeHhhHHhhhhhcccc
Q 013506          244 AVKRSSDANEC-----------------AGVLSVTMEDWRHARSVVGPS  275 (441)
Q Consensus       244 ~~~~~~~~~~~-----------------~~~~~~~~e~~~~~~~~~~~~  275 (441)
                      +..+.......                 .....++.+|+..++....++
T Consensus       236 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~al~~~~~s  284 (301)
T 3cf0_A          236 AIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRS  284 (301)
T ss_dssp             HHHHHHHHHC--------------------CCCBCHHHHHHHHTTCCCS
T ss_pred             HHHHHHHhhhhhhhhcccccccccccccccCCccCHHHHHHHHHHcCCC
Confidence            77654321100                 011346666777766666554

>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=99.98  E-value=1.4e-30  Score=265.52  Aligned_cols=369  Identities=19%  Similarity=0.217  Sum_probs=235.7

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~v~   85 (441)
                      ..+++++|.++.++.+.+.+..             ..+.+++|+||||||||++++.++..+          +..++.++
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            5678999999999998887743             256789999999999999999999887          45566666


Q ss_pred             cCccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        86 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ...+.  ..+.+.....+..++.....    ..+.+|||||+|.+.+...... ...+....+...++.        +.+
T Consensus       250 ~~~l~~~~~~~g~~e~~l~~~~~~~~~----~~~~iL~IDEi~~l~~~~~~~~-~~~~~~~~L~~~l~~--------~~~  316 (758)
T 1r6b_X          250 IGSLLAGTKYRGDFEKRFKALLKQLEQ----DTNSILFIDEIHTIIGAGAASG-GQVDAANLIKPLLSS--------GKI  316 (758)
T ss_dssp             CC---CCCCCSSCHHHHHHHHHHHHSS----SSCEEEEETTTTTTTTSCCSSS-CHHHHHHHHSSCSSS--------CCC
T ss_pred             HHHHhccccccchHHHHHHHHHHHHHh----cCCeEEEEechHHHhhcCCCCc-chHHHHHHHHHHHhC--------CCe
Confidence            65554  34556777777777766543    2479999999999976554321 122333333333322        246


Q ss_pred             EEEEEcCCCC-----ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccC----CCCC-cccHHHHHHHCC-----CC
Q 013506          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV----PLDA-NVDLEAIATSCN-----GY  228 (441)
Q Consensus       164 ~vi~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~----~~~~-~~~~~~l~~~~~-----g~  228 (441)
                      .+|++++.++     .+++++.+  ||. .+.++.|+.+++.+|+..+...+    .... +..+..++..+.     .+
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            7888887643     56788988  997 79999999999999998766442    2221 222444444332     34


Q ss_pred             CHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhhcccccccCccc-------ccCccccccccCchhHHHH
Q 013506          229 VGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTV-------EIPKVTWEDIGGLRDLKKK  301 (441)
Q Consensus       229 ~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~i~g~~~~k~~  301 (441)
                      .+..+..+++++..........    .....++.+++..+..............       .....-...+.|++...+.
T Consensus       394 lp~~~i~lld~a~~~~~~~~~~----~~~~~v~~~di~~~~~~~~~ip~~~~~~~~~~~l~~l~~~l~~~v~g~~~~~~~  469 (758)
T 1r6b_X          394 LPDKAIDVIDEAGARARLMPVS----KRKKTVNVADIESVVARIARIPEKSVSQSDRDTLKNLGDRLKMLVFGQDKAIEA  469 (758)
T ss_dssp             TTHHHHHHHHHHHHHHHHSSSC----CCCCSCCHHHHHHHHHHHSCCCCCCSSSSHHHHHHHHHHHHTTTSCSCHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhccccc----ccCCccCHHHHHHHHHHhcCCCccccchhHHHHHHHHHHHHHhhccCHHHHHHH
Confidence            4556666676665443321110    1123466777776655432211100000       0001112345677776666


Q ss_pred             HHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh------------ccCchH
Q 013506          302 LQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM------------YVGESE  369 (441)
Q Consensus       302 l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~------------~~g~~~  369 (441)
                      +...+.....    .......|.+++||+||||||||++|+++|..++.+++.++++++...            |+|..+
T Consensus       470 l~~~i~~~~~----g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s~~~~~~~~~~l~g~~~g~~g~~~  545 (758)
T 1r6b_X          470 LTEAIKMARA----GLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYVGFDQ  545 (758)
T ss_dssp             HHHHHHHHHT----TCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSSCCCCSCSHHHHH
T ss_pred             HHHHHHHHhc----ccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEechhhcchhhHhhhcCCCCCCcCccc
Confidence            6655432110    001122455689999999999999999999999999999999887553            444332


Q ss_pred             HHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCC----------CCCeEEEEeeee
Q 013506          370 ALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE----------QAKVIIYPISFI  437 (441)
Q Consensus       370 ~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~----------~~~~v~~~~~~~  437 (441)
                      .  ..+....+..+++||||||+|++.+              .+++.|++.||.-.          ..+.+||++||.
T Consensus       546 ~--~~l~~~~~~~~~~vl~lDEi~~~~~--------------~~~~~Ll~~le~~~~~~~~g~~~~~~~~~iI~tsN~  607 (758)
T 1r6b_X          546 G--GLLTDAVIKHPHAVLLLDEIEKAHP--------------DVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTTNA  607 (758)
T ss_dssp             T--THHHHHHHHCSSEEEEEETGGGSCH--------------HHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEECS
T ss_pred             c--chHHHHHHhCCCcEEEEeCccccCH--------------HHHHHHHHHhcCcEEEcCCCCEEecCCeEEEEecCc
Confidence            2  2344555567788999999999853              68999999998522          145678888885

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.97  E-value=1.1e-30  Score=265.50  Aligned_cols=355  Identities=18%  Similarity=0.243  Sum_probs=214.7

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~v~   85 (441)
                      ..+++++|.++.++.+.+++..             ..+.++||+||||||||++|+.++..+          +..++.++
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            4678999999999999988754             345789999999999999999999997          56666666


Q ss_pred             cCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEE
Q 013506           86 PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVV  165 (441)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v  165 (441)
                      +   ...+.++....+..++..+..    ..+.|||||.              .......|+..++.        ..+.+
T Consensus       244 ~---g~~~~G~~e~~l~~~~~~~~~----~~~~iLfiD~--------------~~~~~~~L~~~l~~--------~~v~~  294 (758)
T 3pxi_A          244 M---GTKYRGEFEDRLKKVMDEIRQ----AGNIILFIDA--------------AIDASNILKPSLAR--------GELQC  294 (758)
T ss_dssp             ------------CTTHHHHHHHHHT----CCCCEEEECC----------------------CCCTTS--------SSCEE
T ss_pred             c---cccccchHHHHHHHHHHHHHh----cCCEEEEEcC--------------chhHHHHHHHHHhc--------CCEEE
Confidence            5   233445555567777776654    3588999991              11233344444432        24789


Q ss_pred             EEEcCCCC-----ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCC----CCc-ccHHHHHHHC-----CCCCH
Q 013506          166 VASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPL----DAN-VDLEAIATSC-----NGYVG  230 (441)
Q Consensus       166 i~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~----~~~-~~~~~l~~~~-----~g~~~  230 (441)
                      |++||...     .+++++.+  ||. .+.++.|+.+++.+|++.+...+..    ... ..+..++..+     .++.+
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            99999887     78999999  995 7999999999999999977665322    111 1133333332     23444


Q ss_pred             HHHHHHHHHHHHHHHHhcccccc-----------------------------------------------------cccc
Q 013506          231 ADLEALCREATMSAVKRSSDANE-----------------------------------------------------CAGV  257 (441)
Q Consensus       231 ~~i~~l~~~a~~~~~~~~~~~~~-----------------------------------------------------~~~~  257 (441)
                      .....++..+......+......                                                     ....
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            55555555544332211110000                                                     0001


Q ss_pred             eeeeHhhHHhhhhhcccccccCc-c------cccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEE
Q 013506          258 LSVTMEDWRHARSVVGPSITRGV-T------VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLH  330 (441)
Q Consensus       258 ~~~~~e~~~~~~~~~~~~~~~~~-~------~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~  330 (441)
                      ..++.+++............... .      ......-...+.|++...+.+...+.......    ..+..|.+++||+
T Consensus       452 ~~v~~~~i~~~v~~~~~ip~~~~~~~~~~~l~~l~~~l~~~viGq~~a~~~l~~~i~~~~~~~----~~~~~p~~~~Ll~  527 (758)
T 3pxi_A          452 SEVTVDDIAMVVSSWTGVPVSKIAQTETDKLLNMENILHSRVIGQDEAVVAVAKAVRRARAGL----KDPKRPIGSFIFL  527 (758)
T ss_dssp             --CCTHHHHHHHHTTC-------CHHHHSCC-CHHHHHHTTSCSCHHHHHHHHHHHHHHTTTC----SCTTSCSEEEEEE
T ss_pred             cccCHHHHHHHHHHHhCCChHHhhHHHHHHHHHHHHHHhCcCcChHHHHHHHHHHHHHHHccc----CCCCCCceEEEEE
Confidence            11222222222221110000000 0      00000112346677777777666655321110    1123444589999


Q ss_pred             CCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCc
Q 013506          331 GPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSI  407 (441)
Q Consensus       331 Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~  407 (441)
                      ||||||||++|+++|..+   +.+++.++++++.+.+...    ...++...+..+++||||||||++.           
T Consensus       528 Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~~~~~~----~~~l~~~~~~~~~~vl~lDEi~~~~-----------  592 (758)
T 3pxi_A          528 GPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHSTS----GGQLTEKVRRKPYSVVLLDAIEKAH-----------  592 (758)
T ss_dssp             SCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCSSCCCC-------CHHHHHHCSSSEEEEECGGGSC-----------
T ss_pred             CCCCCCHHHHHHHHHHHhcCCCcceEEEechhcccccccc----cchhhHHHHhCCCeEEEEeCccccC-----------
Confidence            999999999999999997   6789999999988876554    2234444555677899999999985           


Q ss_pred             chhhHHHHHHHHHhcCC----------CCCCeEEEEeeee
Q 013506          408 TVGERLLSTLLTEMDGL----------EQAKVIIYPISFI  437 (441)
Q Consensus       408 ~~~~~~~~~ll~~l~~~----------~~~~~v~~~~~~~  437 (441)
                         ..+.+.||+.||+-          ...+.+||++||.
T Consensus       593 ---~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~  629 (758)
T 3pxi_A          593 ---PDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNV  629 (758)
T ss_dssp             ---HHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESS
T ss_pred             ---HHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCC
Confidence               37789999999862          2345688888884

>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=2.9e-30  Score=236.03  Aligned_cols=230  Identities=30%  Similarity=0.547  Sum_probs=193.1

Q ss_pred             ccccccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc
Q 013506            7 IMSEHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP   86 (441)
Q Consensus         7 ~~~~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~   86 (441)
                      +...++..|   ++++|++.+|+.|.+.+..|..++..+.. +..++.++||+||||||||++|+++++.++.+++.+++
T Consensus         9 ~~~~~~~~~---~di~G~~~~~~~l~~~i~~~~~~~~~~~~-~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~   84 (322)
T 3eie_A            9 LSEKPNVKW---EDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSS   84 (322)
T ss_dssp             EEECCCCCG---GGSCSCHHHHHHHHHHTHHHHHCGGGCCT-TCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEH
T ss_pred             eecCCCCCH---HHhcChHHHHHHHHHHHHHHHhCHHHHhc-CCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEch
Confidence            345566667   89999999999999999998888887766 45677899999999999999999999999999999999


Q ss_pred             CccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCCeEEE
Q 013506           87 HSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVPHVVV  165 (441)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v  165 (441)
                      .++...+.+.....+..+|..+...    +|+||||||+|.+.+... .......+....++..++.....   ..++++
T Consensus        85 ~~l~~~~~g~~~~~~~~~f~~a~~~----~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~---~~~v~v  157 (322)
T 3eie_A           85 SDLVSKWMGESEKLVKQLFAMAREN----KPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGND---SQGVLV  157 (322)
T ss_dssp             HHHHTTTGGGHHHHHHHHHHHHHHT----SSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTS---CCCEEE
T ss_pred             HHHhhcccchHHHHHHHHHHHHHhc----CCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhcccccc---CCceEE
Confidence            9998888899888888888877654    589999999999987543 22333456778888888765322   236899


Q ss_pred             EEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCC-CcccHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q 013506          166 VASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSA  244 (441)
Q Consensus       166 i~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~  244 (441)
                      |++||.++.+++++.+  ||...++++.|+.++|.+|++.++...... .+.++..++..+.||+++++..+++.+...+
T Consensus       158 i~atn~~~~ld~al~~--Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~l~~la~~t~g~sg~di~~l~~~a~~~a  235 (322)
T 3eie_A          158 LGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQP  235 (322)
T ss_dssp             EEEESCGGGSCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHTTCCCCCCHHHHHHHHHTTTTCCHHHHHHHHHHHTTHH
T ss_pred             EEecCChhhCCHHHHc--ccCeEEEeCCCCHHHHHHHHHHHhccCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999  999999999999999999999998877654 4567899999999999999999999998887


Q ss_pred             HHhcc
Q 013506          245 VKRSS  249 (441)
Q Consensus       245 ~~~~~  249 (441)
                      .++..
T Consensus       236 ~r~~~  240 (322)
T 3eie_A          236 IRKIQ  240 (322)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            77654

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.97  E-value=7.4e-31  Score=239.72  Aligned_cols=156  Identities=35%  Similarity=0.599  Sum_probs=144.5

Q ss_pred             ccccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhh
Q 013506          281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (441)
Q Consensus       281 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~  360 (441)
                      ..+.|..+|++++|++++++.+.+.+.+++.+...+.+.+.+++.++||+||||||||++|+++|..++.+++.++++++
T Consensus       173 ~~~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s~l  252 (437)
T 4b4t_I          173 MDKSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSEL  252 (437)
T ss_dssp             EESSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESGGG
T ss_pred             eccCCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHHHh
Confidence            34567889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .++|+|++++.++.+|..|+...||||||||+|.+++.|+.++++.+....+.+++||++||++.....|+|+|||
T Consensus       253 ~sk~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaAT  328 (437)
T 4b4t_I          253 IQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMAT  328 (437)
T ss_dssp             CCSSSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEE
T ss_pred             hhccCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCCCCCEEEEEeC
Confidence            9999999999999999999999999999999999999998776666667789999999999999887666655554

>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=1.5e-29  Score=233.75  Aligned_cols=222  Identities=30%  Similarity=0.527  Sum_probs=183.8

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~   96 (441)
                      .+++|+|++.+++.|.+.+..|+.+++.+.. +..++.++||+||||||||++|+++++.++.+++.+++.++...+.+.
T Consensus        49 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~~~~~g~  127 (355)
T 2qp9_X           49 KWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGE  127 (355)
T ss_dssp             CGGGSCCGGGHHHHHHHHTHHHHHCGGGGCS-SCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHHSCC---
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHHhCHHHHhc-CCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHhhhhcch
Confidence            4489999999999999999998888888776 556778999999999999999999999999999999999888888888


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCC-CCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCcc
Q 013506           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRD-HRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (441)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l  175 (441)
                      ....+..+|..+...    .|+||||||+|.+.+... .......+....++..++.....   ..+++||++||.++.+
T Consensus       128 ~~~~~~~~f~~a~~~----~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~---~~~v~vI~atn~~~~l  200 (355)
T 2qp9_X          128 SEKLVKQLFAMAREN----KPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGND---SQGVLVLGATNIPWQL  200 (355)
T ss_dssp             CHHHHHHHHHHHHHT----SSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC------CCEEEEEEESCGGGS
T ss_pred             HHHHHHHHHHHHHHc----CCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhccccc---CCCeEEEeecCCcccC
Confidence            888888888776543    589999999999976543 22334456778888888765321   2368999999999999


Q ss_pred             CHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCC-CcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhc
Q 013506          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSAVKRS  248 (441)
Q Consensus       176 ~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~  248 (441)
                      ++++.+  ||+..++++.|+.++|.+|++.++...... .+.++..++..+.||++++|..+++.+...+.++.
T Consensus       201 d~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~~~~l~~la~~t~G~sg~dl~~l~~~A~~~a~~~~  272 (355)
T 2qp9_X          201 DSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKI  272 (355)
T ss_dssp             CHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHc--ccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHH
Confidence            999999  999999999999999999999998877643 45678999999999999999999999998888764

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.97  E-value=6.6e-29  Score=223.95  Aligned_cols=242  Identities=39%  Similarity=0.646  Sum_probs=202.4

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~   96 (441)
                      .+++++|++++++.|.+.+..+...++.+.++++.++.+++|+||||||||++++++++.++.+++.+++..+...+.+.
T Consensus        15 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~~~   94 (285)
T 3h4m_A           15 RYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGE   94 (285)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGCCCSTTH
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHHHhccch
Confidence            44899999999999999999999999999999999999999999999999999999999999999999999988888888


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC----chhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCC
Q 013506           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRV  172 (441)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~  172 (441)
                      ....+...|..+...    .|++|||||+|.+.+.....    .......+..++..++....    ..++++|+++|.+
T Consensus        95 ~~~~~~~~~~~~~~~----~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~----~~~~~vI~ttn~~  166 (285)
T 3h4m_A           95 GASLVKDIFKLAKEK----APSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDA----RGDVKIIGATNRP  166 (285)
T ss_dssp             HHHHHHHHHHHHHHT----CSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCS----SSSEEEEEECSCG
T ss_pred             HHHHHHHHHHHHHHc----CCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCC----CCCEEEEEeCCCc
Confidence            888888888776543    48999999999997654322    12223444445555543322    2368999999999


Q ss_pred             CccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhccccc
Q 013506          173 DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN  252 (441)
Q Consensus       173 ~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~  252 (441)
                      +.+++++.+++||...+.++.|+.+++.+|++.++.......+.++..++..+.|+++++++.+++.+...+..+...  
T Consensus       167 ~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~a~~~~~~--  244 (285)
T 3h4m_A          167 DILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVGAELKAICTEAGMNAIRELRD--  244 (285)
T ss_dssp             GGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHHCTTCCHHHHHHHHHHHHHHHHHTTCS--
T ss_pred             hhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCcCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhccC--
Confidence            999999999999999999999999999999999998887777778999999999999999999999998888776432  


Q ss_pred             ccccceeeeHhhHHhhhhhccc
Q 013506          253 ECAGVLSVTMEDWRHARSVVGP  274 (441)
Q Consensus       253 ~~~~~~~~~~e~~~~~~~~~~~  274 (441)
                            .++.+++..++....+
T Consensus       245 ------~I~~~d~~~al~~~~~  260 (285)
T 3h4m_A          245 ------YVTMDDFRKAVEKIME  260 (285)
T ss_dssp             ------SBCHHHHHHHHHHHHH
T ss_pred             ------cCCHHHHHHHHHHHHh
Confidence                  4778888877765543

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.97  E-value=1.5e-30  Score=241.65  Aligned_cols=156  Identities=35%  Similarity=0.604  Sum_probs=144.2

Q ss_pred             ccccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhh
Q 013506          281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (441)
Q Consensus       281 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~  360 (441)
                      ..+.|..+|++++|++.+++.+.+.+.+++.+...+.+++..|+.++||+||||||||++|+++|..++.+++.++++++
T Consensus       172 ~~~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l  251 (437)
T 4b4t_L          172 SFEQGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGI  251 (437)
T ss_dssp             EEESCSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGT
T ss_pred             eccCCCCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhh
Confidence            34567889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .++|+|++++.++.+|..|+...||||||||+|.+++.|..++.+.+....+++++||++|||+.+.+.|+|+|||
T Consensus       252 ~sk~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~vivI~AT  327 (437)
T 4b4t_L          252 VDKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMAT  327 (437)
T ss_dssp             CCSSSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEEEEEE
T ss_pred             ccccchHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccCCCCeEEEEec
Confidence            9999999999999999999999999999999999999998877767777889999999999999986655555444

>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=1.1e-28  Score=233.04  Aligned_cols=241  Identities=39%  Similarity=0.603  Sum_probs=200.6

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      ..|++++|++++|+.+.+.+.. +..+..+.+++...+.+++|+||||||||+++++++++++.+++.+++.++...+.+
T Consensus        13 ~~f~di~G~~~~~~~l~e~v~~-l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~~~g   91 (476)
T 2ce7_A           13 VTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVG   91 (476)
T ss_dssp             CCGGGCCSCHHHHHHHHHHHHH-HHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTCCTT
T ss_pred             CCHHHhCCcHHHHHHHHHHHHH-hhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHHHhc
Confidence            4568999999999999998866 567788889999999999999999999999999999999999999999999888888


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCC
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~  171 (441)
                      .....++.+|..+...    .|+||||||+|.+.+....    ........+.+++..++....    ..+++||++||.
T Consensus        92 ~~~~~~r~lf~~A~~~----~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~----~~~viVIaaTn~  163 (476)
T 2ce7_A           92 VGAARVRDLFAQAKAH----APCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDS----KEGIIVMAATNR  163 (476)
T ss_dssp             HHHHHHHHHHHHHHHT----CSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCG----GGTEEEEEEESC
T ss_pred             ccHHHHHHHHHHHHhc----CCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCC----CCCEEEEEecCC
Confidence            8888888888877643    4999999999999765431    222334667888888875432    125899999999


Q ss_pred             CCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccc
Q 013506          172 VDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA  251 (441)
Q Consensus       172 ~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~  251 (441)
                      ++.+++++.+++||+..+.++.|+.++|.+|++.++.......+.++..++..+.|++++++.++++++...+..+..  
T Consensus       164 ~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v~l~~la~~t~G~sgadL~~lv~~Aal~A~~~~~--  241 (476)
T 2ce7_A          164 PDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREGR--  241 (476)
T ss_dssp             GGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTC--
T ss_pred             hhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchhhHHHHHHhcCCCcHHHHHHHHHHHHHHHHHcCC--
Confidence            999999999999999999999999999999999999888777777899999999999999999999999887765432  


Q ss_pred             cccccceeeeHhhHHhhhhhcc
Q 013506          252 NECAGVLSVTMEDWRHARSVVG  273 (441)
Q Consensus       252 ~~~~~~~~~~~e~~~~~~~~~~  273 (441)
                            ..++.+++..+.....
T Consensus       242 ------~~I~~~dl~~al~~v~  257 (476)
T 2ce7_A          242 ------DKITMKDFEEAIDRVI  257 (476)
T ss_dssp             ------SSBCHHHHHHHHHHHC
T ss_pred             ------CeecHHHHHHHHHHHh
Confidence                  2477778777766554

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.97  E-value=1.7e-30  Score=241.12  Aligned_cols=156  Identities=36%  Similarity=0.603  Sum_probs=143.4

Q ss_pred             ccccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhh
Q 013506          281 TVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (441)
Q Consensus       281 ~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~  360 (441)
                      ..+.|..+|++++|++.+++.+.+.+.+++.+...+.+.+.+++.++||+||||||||++|+++|..++.+++.++++++
T Consensus       172 ~~~~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l  251 (434)
T 4b4t_M          172 VDEKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQL  251 (434)
T ss_dssp             EESSCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGG
T ss_pred             cCCCCCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhh
Confidence            34567889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .++|+|++++.++.+|..|+...||||||||+|.+++.|..++++.+....+.++.||++||++.....|+|+|||
T Consensus       252 ~~~~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVIaaT  327 (434)
T 4b4t_M          252 VQMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAAT  327 (434)
T ss_dssp             CSSCSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEEEEC
T ss_pred             hhcccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCCCCCEEEEEeC
Confidence            9999999999999999999999999999999999999998766555556788999999999999987766666554

>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=99.97  E-value=3e-29  Score=257.63  Aligned_cols=165  Identities=23%  Similarity=0.363  Sum_probs=109.4

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~v~   85 (441)
                      ..+++++|.++.++.+.+++..             ..+.+++|+||||||||++++.++..+          +.+++.++
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            5678999999999998887744             245689999999999999999999987          67888888


Q ss_pred             cCccc--cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           86 PHSVH--KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        86 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      +..+.  ..+.++....+..++......   ..+.||||||+|.+.+......  .......+...+...        .+
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            87765  345566677777777766532   3478999999999875543221  123444555555542        35


Q ss_pred             EEEEEcCCCC----ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhcc
Q 013506          164 VVVASTNRVD----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK  209 (441)
Q Consensus       164 ~vi~~~~~~~----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~  209 (441)
                      .+|++++.++    .+++++.+  ||. .+.+++|+.+++.+|++.++..
T Consensus       301 ~~I~at~~~~~~~~~~d~aL~r--Rf~-~i~l~~p~~~e~~~iL~~~~~~  347 (854)
T 1qvr_A          301 RLIGATTLDEYREIEKDPALER--RFQ-PVYVDEPTVEETISILRGLKEK  347 (854)
T ss_dssp             CEEEEECHHHHHHHTTCTTTCS--CCC-CEEECCCCHHHHHHHHHHHHHH
T ss_pred             EEEEecCchHHhhhccCHHHHh--CCc-eEEeCCCCHHHHHHHHHhhhhh
Confidence            6778777654    47899998  998 5999999999999999876553

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.97  E-value=3.3e-30  Score=239.13  Aligned_cols=155  Identities=40%  Similarity=0.673  Sum_probs=143.8

Q ss_pred             cccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhh
Q 013506          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (441)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~  361 (441)
                      .+.|..+|++++|++.+++.+.+.+.+++.+...+.++|..++.++||+||||||||++|+++|..++.+++.++++++.
T Consensus       164 ~~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~~l~  243 (428)
T 4b4t_K          164 NEKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFV  243 (428)
T ss_dssp             ESSCSCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGGGTC
T ss_pred             CCCCCCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEecchhh
Confidence            35677899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ++|+|++++.++.+|..|+...|||+||||+|.+++.|+....+.+....+++++||++|||+.....|+|+|||
T Consensus       244 ~~~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~vI~aT  318 (428)
T 4b4t_K          244 HKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMAT  318 (428)
T ss_dssp             CSSCSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEEEEEE
T ss_pred             ccccchhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCCCCCEEEEEec
Confidence            999999999999999999999999999999999999998777667777889999999999999886665555554

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=99.97  E-value=3.8e-30  Score=237.42  Aligned_cols=154  Identities=38%  Similarity=0.630  Sum_probs=144.3

Q ss_pred             ccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh
Q 013506          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (441)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~  362 (441)
                      +.|..+|++++|++++++.+.+.+.+++.+...+.++++.++.++||+||||||||++|+++|..++.+++.++++++.+
T Consensus       202 e~P~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~s  281 (467)
T 4b4t_H          202 EKPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQ  281 (467)
T ss_dssp             SSCSCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGCC
T ss_pred             CCCCCCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhhc
Confidence            56788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      +|+|++++.++.+|..|+...||||||||+|.+++.|+.++.+......+.+++||++||++.....|+|+|||
T Consensus       282 k~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaAT  355 (467)
T 4b4t_H          282 KYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFAT  355 (467)
T ss_dssp             CSSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEEC
T ss_pred             ccCCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCCCCcEEEEeCC
Confidence            99999999999999999999999999999999999998877766777788999999999999887776666554

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.96  E-value=6.6e-28  Score=213.76  Aligned_cols=241  Identities=36%  Similarity=0.562  Sum_probs=194.0

Q ss_pred             ccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccc
Q 013506           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (441)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~   94 (441)
                      ...+++++|++.+++.+.+.+.. +..+..+.+++...+.+++|+||||||||++++++++.++.+++.+++..+...+.
T Consensus         8 ~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~~~~~~   86 (257)
T 1lv7_A            8 KTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFV   86 (257)
T ss_dssp             CCCGGGSCSCHHHHHHTHHHHHH-HHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTTSCC
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHH-HhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHHHHHhh
Confidence            45569999999999999998765 56667777788888899999999999999999999999999999999999888888


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcC
Q 013506           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (441)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~  170 (441)
                      +.....+..+|+.+..    ..|+++||||+|.+.+....    ......+.+..++..++....    ..++++|+++|
T Consensus        87 ~~~~~~~~~~~~~a~~----~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~----~~~~~vI~~tn  158 (257)
T 1lv7_A           87 GVGASRVRDMFEQAKK----AAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG----NEGIIVIAATN  158 (257)
T ss_dssp             CCCHHHHHHHHHHHHT----TCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCS----SSCEEEEEEES
T ss_pred             hhhHHHHHHHHHHHHH----cCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCccc----CCCEEEEEeeC
Confidence            8888888888887653    34899999999998765432    112233567777777776432    23689999999


Q ss_pred             CCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhccc
Q 013506          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD  250 (441)
Q Consensus       171 ~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~  250 (441)
                      .++.+++++.+++||+..+.++.|+.++|.+|++.++.......+.+...++..+.|++++++..+++.+...+..+.. 
T Consensus       159 ~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~~~~~~la~~~~G~~~~dl~~l~~~a~~~a~~~~~-  237 (257)
T 1lv7_A          159 RPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGNK-  237 (257)
T ss_dssp             CTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTC-
T ss_pred             CchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCccccHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhCC-
Confidence            9999999999999999999999999999999999998887777777788999999999999999999999887766432 


Q ss_pred             ccccccceeeeHhhHHhhhhhc
Q 013506          251 ANECAGVLSVTMEDWRHARSVV  272 (441)
Q Consensus       251 ~~~~~~~~~~~~e~~~~~~~~~  272 (441)
                             ..++.+++..+....
T Consensus       238 -------~~i~~~~~~~a~~~~  252 (257)
T 1lv7_A          238 -------RVVSMVEFEKAKDKI  252 (257)
T ss_dssp             -------SSBCHHHHHHHHHHH
T ss_pred             -------CcccHHHHHHHHHHH
Confidence                   247777877766543

>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=1.8e-28  Score=232.97  Aligned_cols=227  Identities=32%  Similarity=0.559  Sum_probs=179.5

Q ss_pred             cccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh-CCcEEEEccCc
Q 013506           10 EHNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-GAHLTVISPHS   88 (441)
Q Consensus        10 ~~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l-~~~~~~v~~~~   88 (441)
                      .++..|   ++|+|++.+++.|.+.+..|+.++..+.. +..+++++||+||||||||++|+++++.+ +.+++.+++.+
T Consensus       128 ~~~~~~---~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~~  203 (444)
T 2zan_A          128 RPNVKW---SDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSD  203 (444)
T ss_dssp             CCCCCG---GGSCSCHHHHHHHHHHHTHHHHCTTTTSG-GGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC-
T ss_pred             CCCCCH---HHhcCHHHHHHHHHHHHHHHhhCHHHhhc-cCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHHH
Confidence            344455   89999999999999999888888777654 34567899999999999999999999999 88899999998


Q ss_pred             cccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEE
Q 013506           89 VHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVA  167 (441)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~  167 (441)
                      +...+.+.....+..+|..+..    ..|+||||||+|.+.+.... ......+....++..++....   ...+++||+
T Consensus       204 l~~~~~g~~~~~~~~~f~~a~~----~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~---~~~~v~vI~  276 (444)
T 2zan_A          204 LVSKWLGESEKLVKNLFQLARE----NKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGV---DNDGILVLG  276 (444)
T ss_dssp             --------CCCTHHHHHHHHHH----SCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSC---CCSSCEEEE
T ss_pred             HHhhhcchHHHHHHHHHHHHHH----cCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCccc---CCCCEEEEe
Confidence            8877777776677777776654    35899999999999765432 233455677777777766432   223689999


Q ss_pred             EcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCC-CcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q 013506          168 STNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSAVK  246 (441)
Q Consensus       168 ~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~  246 (441)
                      +||.++.+++++.|  ||+..++++.|+.++|..|++.++...+.. .+.++..++..+.||+++++..+++.+...+++
T Consensus       277 atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~~a~~~a~r  354 (444)
T 2zan_A          277 ATNIPWVLDSAIRR--RFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVRDALMQPVR  354 (444)
T ss_dssp             EESCGGGSCHHHHT--TCCEEEECCCCCHHHHHHHHHHHHTTSCEECCHHHHHHHHHHTTTCCHHHHHHHHHHHHTHHHH
T ss_pred             cCCCccccCHHHHh--hcceEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHH
Confidence            99999999999999  999999999999999999999998776543 456789999999999999999999999988877


Q ss_pred             hcc
Q 013506          247 RSS  249 (441)
Q Consensus       247 ~~~  249 (441)
                      +..
T Consensus       355 ~~~  357 (444)
T 2zan_A          355 KVQ  357 (444)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            653

>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=99.96  E-value=2.1e-27  Score=211.55  Aligned_cols=238  Identities=33%  Similarity=0.504  Sum_probs=173.9

Q ss_pred             cccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccch
Q 013506           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGES   97 (441)
Q Consensus        18 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~   97 (441)
                      +++++|++++|+.|.+.+.. +..+..+..++...+.+++|+||||||||++++++++.++.+++.+++..+...+.+..
T Consensus         5 ~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~~~~   83 (262)
T 2qz4_A            5 FKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLG   83 (262)
T ss_dssp             TTSSCSCHHHHHHHHHHHHH-HHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSSTTHH
T ss_pred             HHHhCCHHHHHHHHHHHHHH-HHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhccChh
Confidence            48999999999999998866 56677788888899999999999999999999999999999999999998887777777


Q ss_pred             HHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC-----chhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCC
Q 013506           98 EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-----REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRV  172 (441)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~  172 (441)
                      ...+..+|..+...    .|++|||||+|.+.......     .......+..++..++....    ..++++|+++|.+
T Consensus        84 ~~~~~~~~~~a~~~----~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~----~~~~~vi~~tn~~  155 (262)
T 2qz4_A           84 AARVRSLFKEARAR----APCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGT----TDHVIVLASTNRA  155 (262)
T ss_dssp             HHHHHHHHHHHHHT----CSEEEEEECC-------------------CHHHHHHHHHHHTCCT----TCCEEEEEEESCG
T ss_pred             HHHHHHHHHHHHhc----CCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCC----CCCEEEEecCCCh
Confidence            77777777776543    48999999999986544221     11122445566666665332    2368999999999


Q ss_pred             CccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc--HHHHHHHCCCCCHHHHHHHHHHHHHHHHHhccc
Q 013506          173 DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD--LEAIATSCNGYVGADLEALCREATMSAVKRSSD  250 (441)
Q Consensus       173 ~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~--~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~  250 (441)
                      +.+++++.+++||+..++++.|+.++|.+|++.++..........  ...++..+.|++++++..+++.+...+..+.. 
T Consensus       156 ~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~l~~~a~~~a~~~~~-  234 (262)
T 2qz4_A          156 DILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAAREGH-  234 (262)
T ss_dssp             GGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHHHHHHHHTC-------
T ss_pred             hhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHcCC-
Confidence            999999999899999999999999999999999988776654433  47889999999999999999988766554321 


Q ss_pred             ccccccceeeeHhhHHhhhhhc
Q 013506          251 ANECAGVLSVTMEDWRHARSVV  272 (441)
Q Consensus       251 ~~~~~~~~~~~~e~~~~~~~~~  272 (441)
                             ..++.+++..++...
T Consensus       235 -------~~i~~~d~~~a~~~~  249 (262)
T 2qz4_A          235 -------TSVHTLNFEYAVERV  249 (262)
T ss_dssp             ---------CCBCCHHHHHHHH
T ss_pred             -------CCCCHHHHHHHHHHh
Confidence                   235556666555543

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.95  E-value=7.3e-27  Score=221.93  Aligned_cols=242  Identities=36%  Similarity=0.565  Sum_probs=196.5

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      ..|++++|++++|+.+.+++.. +..+..+.+++...+.+++|+||||||||++++++++.++.+++.+++.++...+.+
T Consensus        28 ~~f~dv~G~~~~k~~l~~lv~~-l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i~i~g~~~~~~~~g  106 (499)
T 2dhr_A           28 VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVG  106 (499)
T ss_dssp             CCTTSSCSCHHHHHHHHHHHHH-HHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCCEEEEEGGGGTSSCTT
T ss_pred             CCHHHcCCcHHHHHHHHHHHHH-hhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEehhHHHHhhhh
Confidence            4569999999999999998765 556777888888888999999999999999999999999999999999998887777


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCC
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~  171 (441)
                      .....+..+|+.+..    ..|+++||||+|.+......    ........+.+++..++....    ...+++++++|.
T Consensus       107 ~~~~~v~~lfq~a~~----~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~----~~~viviAatn~  178 (499)
T 2dhr_A          107 VGAARVRDLFETAKR----HAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK----DTAIVVMAATNR  178 (499)
T ss_dssp             HHHHHHHHHTTTSSS----SSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCS----SCCCEEEECCSC
T ss_pred             hHHHHHHHHHHHHHh----cCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhccccc----CccEEEEEecCC
Confidence            777777777765432    24799999999998754432    122334566777777775432    225799999999


Q ss_pred             CCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccc
Q 013506          172 VDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA  251 (441)
Q Consensus       172 ~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~  251 (441)
                      ++.+|+++.|++||+..+.++.|+.++|.+|++.++.......+.++..++..+.|+++++++++++++...+.++.   
T Consensus       179 p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~dv~l~~lA~~t~G~~gadL~~lv~~Aa~~A~~~~---  255 (499)
T 2dhr_A          179 PDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREG---  255 (499)
T ss_dssp             GGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCSSTTHHHHTTSCSCCHHHHHHHHHHHHHHHTTTC---
T ss_pred             hhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhC---
Confidence            99999999999999999999999999999999998887777777789999999999999999999999887665432   


Q ss_pred             cccccceeeeHhhHHhhhhhccc
Q 013506          252 NECAGVLSVTMEDWRHARSVVGP  274 (441)
Q Consensus       252 ~~~~~~~~~~~e~~~~~~~~~~~  274 (441)
                           ...++.+++..+.....+
T Consensus       256 -----~~~It~~dl~~al~~v~~  273 (499)
T 2dhr_A          256 -----RRKITMKDLEEAADRVMM  273 (499)
T ss_dssp             -----CSSCCSHHHHHHHHHHTT
T ss_pred             -----CCccCHHHHHHHHHHHhc
Confidence                 124777888877765543

>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=1.7e-26  Score=213.68  Aligned_cols=251  Identities=33%  Similarity=0.535  Sum_probs=195.7

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~   96 (441)
                      .+++++|++++++.|.+.+..|+..+..+...+ .++.++||+||||||||++|++++..++.+++.+++..+...+.+.
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            448999999999999999998877777665543 5678999999999999999999999999999999999998888888


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC-CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCcc
Q 013506           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH-RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (441)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l  175 (441)
                      ....+..+|..+..    .++++|||||+|.+.+.... ......+.+..++..++.....  ...++++|++||.++.+
T Consensus       161 ~~~~~~~~~~~a~~----~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~--~~~~v~vI~atn~~~~l  234 (357)
T 3d8b_A          161 GEKMVRALFAVARC----QQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTS--SEDRILVVGATNRPQEI  234 (357)
T ss_dssp             HHHHHHHHHHHHHH----TCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC------CCCCEEEEEEESCGGGB
T ss_pred             HHHHHHHHHHHHHh----cCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhccccc--CCCCEEEEEecCChhhC
Confidence            77777777776653    34899999999999765432 2233456677788888764322  12368999999999999


Q ss_pred             CHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCC-CcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhccccc--
Q 013506          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDAN--  252 (441)
Q Consensus       176 ~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~--  252 (441)
                      ++++.+  ||...++++.|+.+++.+++..++...... .+..+..++..+.|++++++..+++.+...+.++.....  
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  999899999999999999999988765443 344588899999999999999999998887776543211  


Q ss_pred             --ccccceeeeHhhHHhhhhhccccc
Q 013506          253 --ECAGVLSVTMEDWRHARSVVGPSI  276 (441)
Q Consensus       253 --~~~~~~~~~~e~~~~~~~~~~~~~  276 (441)
                        .......++.+|+..++....|+.
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              112234678888888887776654

>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=4.3e-26  Score=201.70  Aligned_cols=236  Identities=37%  Similarity=0.604  Sum_probs=186.1

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      ..+++++|+++++..+.+.... +..+..+..+++..+.+++|+|||||||||+++++++.++..++.+++..+.....+
T Consensus        13 ~~~~~i~g~~~~~~~l~~l~~~-~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~~~~~~~   91 (254)
T 1ixz_A           13 VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVG   91 (254)
T ss_dssp             CCGGGCCSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSCTT
T ss_pred             CCHHHhCCcHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHHHHHHhh
Confidence            3458999999999999987765 456677888888888889999999999999999999999989999988777666666


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCC
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~  171 (441)
                      .....+..+|+.+...    .|+++++||+|.+......    ........+..++..++.....    ..+++++++|.
T Consensus        92 ~~~~~i~~~~~~~~~~----~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~----~~~i~~a~t~~  163 (254)
T 1ixz_A           92 VGAARVRDLFETAKRH----APCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKD----TAIVVMAATNR  163 (254)
T ss_dssp             HHHHHHHHHHHHHTTS----SSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTT----CCEEEEEEESC
T ss_pred             HHHHHHHHHHHHHHhc----CCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCC----CCEEEEEccCC
Confidence            6666677777765422    3799999999988654321    1222345566777777654322    24788999999


Q ss_pred             CCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccc
Q 013506          172 VDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDA  251 (441)
Q Consensus       172 ~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~  251 (441)
                      ++.+++++.+++||+..+.++.|+.++|.+|++.+........+.++..++..+.|++++++..+++.+...+..+..  
T Consensus       164 p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~G~~~~dl~~~~~~a~~~a~~~~~--  241 (254)
T 1ixz_A          164 PDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGR--  241 (254)
T ss_dssp             GGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTC--
T ss_pred             chhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhcC--
Confidence            999999999999999999999999999999999888877777777799999999999999999999998877765421  


Q ss_pred             cccccceeeeHhhHHhh
Q 013506          252 NECAGVLSVTMEDWRHA  268 (441)
Q Consensus       252 ~~~~~~~~~~~e~~~~~  268 (441)
                            ..++.+++..+
T Consensus       242 ------~~I~~~dl~~a  252 (254)
T 1ixz_A          242 ------RKITMKDLEEA  252 (254)
T ss_dssp             ------SSBCHHHHHHH
T ss_pred             ------CCcCHHHHHHH
Confidence                  23666666554

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.95  E-value=6.2e-26  Score=205.68  Aligned_cols=251  Identities=31%  Similarity=0.483  Sum_probs=193.4

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~   96 (441)
                      .+++++|++++++.|.+.+..+..+++.+...+ .++.+++|+||||||||++++++++.++.+++.+++..+...+.+.
T Consensus        19 ~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~~~~~~~   97 (297)
T 3b9p_A           19 EWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYVGD   97 (297)
T ss_dssp             CGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGG-CCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTSSSSCSC
T ss_pred             CHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCC-CCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHhhcccch
Confidence            348999999999999999988877777766554 4578999999999999999999999999999999999988888887


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC-chhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCcc
Q 013506           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (441)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l  175 (441)
                      .......++..+..    ..|++|||||+|.+.+..... ..........++..++...... ...++++|++||.++.+
T Consensus        98 ~~~~~~~~~~~~~~----~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~-~~~~v~vi~~tn~~~~l  172 (297)
T 3b9p_A           98 GEKLVRALFAVARH----MQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNP-DGDRIVVLAATNRPQEL  172 (297)
T ss_dssp             HHHHHHHHHHHHHH----TCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC-------CEEEEEEESCGGGB
T ss_pred             HHHHHHHHHHHHHH----cCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccC-CCCcEEEEeecCChhhC
Confidence            77777777766653    358999999999997654322 1223456667777777654321 11358999999999999


Q ss_pred             CHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCC-CcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccc-
Q 013506          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE-  253 (441)
Q Consensus       176 ~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~-  253 (441)
                      ++++.+  ||...++++.|+.+++..|+..++...... .+..+..++..+.|++++++..+++.+...+.++...... 
T Consensus       173 ~~~l~~--R~~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~~la~~~~g~~~~~l~~l~~~a~~~a~r~~~~~~~~  250 (297)
T 3b9p_A          173 DEAALR--RFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAKDAALEPIRELNVEQVK  250 (297)
T ss_dssp             CHHHHH--HCCEEEECCCCCHHHHHHHHHHHHGGGSCCSCHHHHHHHHHHTTTCCHHHHHHHHHHHTTHHHHTCC-----
T ss_pred             CHHHHh--hCCeEEEeCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHhhhhcc
Confidence            999999  999899999999999999999988765543 3445888999999999999999999988877766532211 


Q ss_pred             ---cccceeeeHhhHHhhhhhcccc
Q 013506          254 ---CAGVLSVTMEDWRHARSVVGPS  275 (441)
Q Consensus       254 ---~~~~~~~~~e~~~~~~~~~~~~  275 (441)
                         ......++.+|+..++....++
T Consensus       251 ~~~~~~~~~i~~~d~~~a~~~~~~s  275 (297)
T 3b9p_A          251 CLDISAMRAITEQDFHSSLKRIRRS  275 (297)
T ss_dssp             ---CCCCCCCCHHHHHHHTTSCCCS
T ss_pred             cccccccCCcCHHHHHHHHHHcCCC
Confidence               1123457788888777766554

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.95  E-value=6.8e-26  Score=212.67  Aligned_cols=250  Identities=31%  Similarity=0.486  Sum_probs=188.7

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~   96 (441)
                      .+++++|++.+++.|.+++..+..+++.+...+ .++.++||+||||||||++|++++..++.+++.+++..+...+.+.
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            468999999999999999988888777776655 4568999999999999999999999999999999999998888888


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC-chhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCcc
Q 013506           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (441)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l  175 (441)
                      ....+..+|..+...    .+++|||||+|.+....... .....+.+..++..++.....  ...+++||++||.++.+
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            888888888776643    47999999999997654322 233456777788777754332  12368999999999999


Q ss_pred             CHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCC-CcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccc-
Q 013506          176 DPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLD-ANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANE-  253 (441)
Q Consensus       176 ~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~-~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~-  253 (441)
                      ++++.+  ||...++++.|+.+++.+|+..++...... .+..+..++..+.|++++++..+++.+...+.++...... 
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  998889999999999999999988776543 3345889999999999999999999988887776433211 


Q ss_pred             ---cccceeeeHhhHHhhhhhcccc
Q 013506          254 ---CAGVLSVTMEDWRHARSVVGPS  275 (441)
Q Consensus       254 ---~~~~~~~~~e~~~~~~~~~~~~  275 (441)
                         ......++.+|+..++....++
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               1223457777887776655543

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.94  E-value=4.7e-25  Score=197.47  Aligned_cols=237  Identities=37%  Similarity=0.591  Sum_probs=185.2

Q ss_pred             ccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccc
Q 013506           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (441)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~   94 (441)
                      ...+++++|++++++.+.+.... +..+..+..+++..+.+++|+|||||||||+++++++.++..++.+++..+.....
T Consensus        36 ~~~~~~i~g~~~~~~~l~~l~~~-~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~~~~~~  114 (278)
T 1iy2_A           36 KVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFV  114 (278)
T ss_dssp             CCCGGGSSSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHHSTT
T ss_pred             CCCHHHhCChHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcCCCEEEecHHHHHHHHh
Confidence            34568999999999999987755 45567788888888888999999999999999999999998999998877766666


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcC
Q 013506           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (441)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~  170 (441)
                      +.....+..+|+.+...    .|+++++||++.+......    ........+..++..++....    ...+++++++|
T Consensus       115 ~~~~~~i~~~~~~~~~~----~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~----~~~~i~~a~t~  186 (278)
T 1iy2_A          115 GVGAARVRDLFETAKRH----APCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK----DTAIVVMAATN  186 (278)
T ss_dssp             THHHHHHHHHHHHHHTS----CSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCT----TCCEEEEEEES
T ss_pred             hHHHHHHHHHHHHHHhc----CCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCC----CCCEEEEEecC
Confidence            66666677777776532    3799999999987654321    112223455566666654332    22478899999


Q ss_pred             CCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhccc
Q 013506          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD  250 (441)
Q Consensus       171 ~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~  250 (441)
                      .++.+++++.+++||+..+.++.|+.++|.+|++.+........+.++..++..+.|+++++++.+++.+...+..+.. 
T Consensus       187 ~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~G~~~~dl~~l~~~a~~~a~~~~~-  265 (278)
T 1iy2_A          187 RPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREGR-  265 (278)
T ss_dssp             CTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTC-
T ss_pred             CchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhCC-
Confidence            9999999999999999999999999999999999988877766777799999999999999999999998877655321 


Q ss_pred             ccccccceeeeHhhHHhh
Q 013506          251 ANECAGVLSVTMEDWRHA  268 (441)
Q Consensus       251 ~~~~~~~~~~~~e~~~~~  268 (441)
                             ..++.+++..+
T Consensus       266 -------~~I~~~dl~~a  276 (278)
T 1iy2_A          266 -------RKITMKDLEEA  276 (278)
T ss_dssp             -------CSBCHHHHHHH
T ss_pred             -------CCcCHHHHHHH
Confidence                   23666776554

>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=99.94  E-value=3.5e-26  Score=251.42  Aligned_cols=330  Identities=15%  Similarity=0.178  Sum_probs=203.3

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh-CCcEEEEccCccccccccchHHHHHHHHHHHHhh----------h-hcCCCeE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC-GAHLTVISPHSVHKAHVGESEKALREAFSQASSH----------A-LSGKPSV  119 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l-~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~-~~~~~~i  119 (441)
                      .++++||+||||||||++|+.++... +..++.++.+....      ...+...+......          . ..+++.|
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            46899999999999999996555444 55566666554332      12233333332110          0 1345689


Q ss_pred             EEEccccccccCCCCCchhhHHHHHHHHHH---HhcCCCCCCCCCeEEEEEEcCCCC-----ccCHHHhhCCccceEEEe
Q 013506          120 VFIDEIDALCPRRDHRREQDVRIASQLFTL---MDSNKPSKTSVPHVVVVASTNRVD-----AIDPALRRSGRFDAEVEV  191 (441)
Q Consensus       120 l~iDe~~~l~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~~~~~~~vi~~~~~~~-----~l~~~l~~~~r~~~~i~~  191 (441)
                      +||||+|....+. .+.+...+.+++++..   ++..........++.+|++||++.     .+++++.|  || .++++
T Consensus      1340 lFiDEinmp~~d~-yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllR--rf-~vi~i 1415 (2695)
T 4akg_A         1340 LFCDEINLPKLDK-YGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTR--HA-AILYL 1415 (2695)
T ss_dssp             EEEETTTCSCCCS-SSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHT--TE-EEEEC
T ss_pred             EEecccccccccc-cCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhh--ee-eEEEe
Confidence            9999999643322 2334455555555532   111111122234689999999994     89999999  99 58999


Q ss_pred             cCCCHHHHHHHHHHHhccCCCCC-cc--cHHHH-----------HHH-------CCCCCHHHHHHHHHHH----------
Q 013506          192 TVPTAEERFEILKLYTKKVPLDA-NV--DLEAI-----------ATS-------CNGYVGADLEALCREA----------  240 (441)
Q Consensus       192 ~~p~~~~~~~il~~~~~~~~~~~-~~--~~~~l-----------~~~-------~~g~~~~~i~~l~~~a----------  240 (441)
                      +.|+.+++.+|+..++....... +.  ....+           ...       ..-|+.||+.++++..          
T Consensus      1416 ~~P~~~~l~~I~~~il~~~l~~~~~v~~~~~~lv~ati~~y~~v~~~~~~~~k~HY~FnlRDLsrv~qGll~~~~~~~~~ 1495 (2695)
T 4akg_A         1416 GYPSGKSLSQIYEIYYKAIFKLVPEFRSYTEPFARASVHLYNECKARYSTGLQSHYLFSPRELTRLVRGVYTAINTGPRQ 1495 (2695)
T ss_dssp             CCCTTTHHHHHHHHHHHHHTTSSGGGGGGHHHHHHHHHHHHHHHHHHSCTTTCTTCCCCHHHHHHHHHHHHHHHHTSSCC
T ss_pred             CCCCHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHHHHHcCCccCCCcccCHHHHHHHHHHHHhcCchhhhc
Confidence            99999999999988765432111 10  01111           111       1245667766555543          


Q ss_pred             ---------HHHHHHhcccccccccceeeeHhhHHhhhhhcccccc------cCcc-cccCccccccccCchhHHHHHHH
Q 013506          241 ---------TMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSIT------RGVT-VEIPKVTWEDIGGLRDLKKKLQQ  304 (441)
Q Consensus       241 ---------~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~------~~~~-~~~~~~~~~~i~g~~~~k~~l~~  304 (441)
                               .+++.+.+.|......++..-.+-+........+...      .... .+.....|.++.. +.+++.+.+
T Consensus      1496 ~~~~l~rLw~HE~~Rvf~DRLv~~~D~~~f~~~l~~~~~~~f~~~~~~~~~~~~~~f~df~~~~Y~~v~~-~~l~~~l~~ 1574 (2695)
T 4akg_A         1496 TLRSLIRLWAYEAWRIFADRLVGVKEKNSFEQLLYETVDKYLPNQDLGNISSTSLLFSGLLSLDFKEVNK-TDLVNFIEE 1574 (2695)
T ss_dssp             CHHHHHHHHHHHHHHHHTTTCCSSHHHHHHHHHHHHHHHHHSCCSCCCCCSTTTCCEESSSSSSCEECCH-HHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcccchhhhccCCceeeecCCCcceecCH-HHHHHHHHH
Confidence                     3333444433322111111111111111111111000      0000 0111223555543 556666665


Q ss_pred             HHh---------------cccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCchH
Q 013506          305 AVE---------------WPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESE  369 (441)
Q Consensus       305 ~~~---------------~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~~  369 (441)
                      .+.               .++.|..++.|+..+|++|+||+|++||||+|++|++|.++++.++++..+..|+  ..++.
T Consensus      1575 ~l~~yn~~~~~m~LVlF~dai~Hi~RI~Ril~~p~G~~LLvGvgGsGkqSltrLaa~i~~~~~fqi~~~~~Y~--~~~f~ 1652 (2695)
T 4akg_A         1575 RFKTFCDEELEVPMVIHESMVDHILRIDRALKQVQGHMMLIGASRTGKTILTRFVAWLNGLKIVQPKIHRHSN--LSDFD 1652 (2695)
T ss_dssp             HHHHHHHHSCCCCCCCCHHHHHHHHHHHHHHHSSSEEEEEECTTTSCHHHHHHHHHHHTTCEEECCCCCTTCC--HHHHH
T ss_pred             HHHHHHhhcCCceeeeHHHHHHHHHHHHHHHcCCCCCEEEECCCCCcHHHHHHHHHHHhCCeeEEEEeeCCCC--HHHHH
Confidence            553               4677889999999999999999999999999999999999999999999999888  78899


Q ss_pred             HHHHHHHHHHHhc-CCeEEEEecccc
Q 013506          370 ALLRNTFQRARLA-APSIIFFDEADV  394 (441)
Q Consensus       370 ~~~~~~~~~a~~~-~~~vl~iDE~d~  394 (441)
                      ++++.++.+|+.. .+.|++|+|..-
T Consensus      1653 eDLk~l~~~aG~~~~~~vFL~tD~qi 1678 (2695)
T 4akg_A         1653 MILKKAISDCSLKESRTCLIIDESNI 1678 (2695)
T ss_dssp             HHHHHHHHHHHHSCCCEEEEEETTTC
T ss_pred             HHHHHHHHHcCCCCCceEEEEecccc
Confidence            9999999999764 567888887754

>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=99.93  E-value=8.9e-28  Score=214.47  Aligned_cols=244  Identities=35%  Similarity=0.513  Sum_probs=184.2

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      ..+++++|++++++.|.+.+.. +..++.+.+++...+.+++|+||||||||++++++++.++.+++.+++..+...+.+
T Consensus         8 ~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~~~~   86 (268)
T 2r62_A            8 VRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVG   86 (268)
T ss_dssp             CCSTTSSSCTTTHHHHHHHHHH-HHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTTSCSS
T ss_pred             CCHHHhCCcHHHHHHHHHHHHH-HHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHHhhcc
Confidence            4458999999999999998765 667888888899999999999999999999999999999999999998887766655


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC-----chhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcC
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-----REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~  170 (441)
                      .....+..+|..+...    .|++|||||+|.+.......     .......+..++..++....   ...++++|+++|
T Consensus        87 ~~~~~~~~~~~~a~~~----~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~---~~~~v~vi~ttn  159 (268)
T 2r62_A           87 LGASRVRDLFETAKKQ----APSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGS---ENAPVIVLAATN  159 (268)
T ss_dssp             SCSSSSSTTHHHHHHS----CSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSC---SCSCCEEEECBS
T ss_pred             hHHHHHHHHHHHHHhc----CCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCccc---CCCCEEEEEecC
Confidence            5444445556555432    47899999999987643111     00011223344444443221   223589999999


Q ss_pred             CCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhccc
Q 013506          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD  250 (441)
Q Consensus       171 ~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~  250 (441)
                      .++.+++++.+++||...+.++.|+.++|.++++.++.......+.++..++..+.|++++++..+++.+...+..+.  
T Consensus       160 ~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~~g~dl~~l~~~a~~~a~~~~--  237 (268)
T 2r62_A          160 RPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANIINEAALLAGRNN--  237 (268)
T ss_dssp             CCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCCSSCCTTTTTSSSCSSCHHHHHHHHHHHHHTTSSSC--
T ss_pred             CchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCCCccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhc--
Confidence            999999999999999989999999999999999999888776666678888999999999999999998876553321  


Q ss_pred             ccccccceeeeHhhHHhhhhhcccc
Q 013506          251 ANECAGVLSVTMEDWRHARSVVGPS  275 (441)
Q Consensus       251 ~~~~~~~~~~~~e~~~~~~~~~~~~  275 (441)
                            ...++.+++..++....+.
T Consensus       238 ------~~~i~~~~~~~a~~~~~~~  256 (268)
T 2r62_A          238 ------QKEVRQQHLKEAVERGIAG  256 (268)
T ss_dssp             ------CCSCCHHHHHTSCTTCCCC
T ss_pred             ------cCCcCHHHHHHHHHHHhhc
Confidence                  2246777777665554443

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=99.91  E-value=8.7e-24  Score=233.32  Aligned_cols=323  Identities=20%  Similarity=0.247  Sum_probs=198.0

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh-CCcEEEEccCccccccccchHHHHHHHHHHHHh-----------hhh-cCCCe
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC-GAHLTVISPHSVHKAHVGESEKALREAFSQASS-----------HAL-SGKPS  118 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l-~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~-~~~~~  118 (441)
                      .++++||+||||||||++++..+..+ +.+++.++.+....      ...+...+.....           .+. .++..
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            46789999999999998887665554 44556666654322      2233333332110           011 24457


Q ss_pred             EEEEccccccccCCCCCchhhHHHHHHHHHHH---hcCCCCCCCCCeEEEEEEcCCCC-----ccCHHHhhCCccceEEE
Q 013506          119 VVFIDEIDALCPRRDHRREQDVRIASQLFTLM---DSNKPSKTSVPHVVVVASTNRVD-----AIDPALRRSGRFDAEVE  190 (441)
Q Consensus       119 il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~~~~~~~vi~~~~~~~-----~l~~~l~~~~r~~~~i~  190 (441)
                      |+||||+|...++. .+.+...+.+.+++..-   +..........++.+|+|+|++.     .+++++.|  ||. +++
T Consensus      1377 VlFiDDiNmp~~D~-yGtQ~~ielLrqlld~~g~yd~~~~~~~~i~d~~~vaamnPp~~gGr~~l~~Rf~r--~F~-vi~ 1452 (3245)
T 3vkg_A         1377 VVFCDEINLPSTDK-YGTQRVITFIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLR--HAP-ILL 1452 (3245)
T ss_dssp             EEEETTTTCCCCCT-TSCCHHHHHHHHHHHHSEEEETTTTEEEEESSEEEEEEECCTTSTTCCCCCHHHHT--TCC-EEE
T ss_pred             EEEecccCCCCccc-cccccHHHHHHHHHHcCCeEECCCCeEEEecCeEEEEEcCCCCCCCCccCCHHHHh--hce-EEE
Confidence            99999999543322 33445556666665532   22222233456789999999883     68999999  996 799


Q ss_pred             ecCCCHHHHHHHHHHHhccCCCC-Cccc--HHHHH-----------HH-------CCCCCHHHHHHHHHHHH--------
Q 013506          191 VTVPTAEERFEILKLYTKKVPLD-ANVD--LEAIA-----------TS-------CNGYVGADLEALCREAT--------  241 (441)
Q Consensus       191 ~~~p~~~~~~~il~~~~~~~~~~-~~~~--~~~l~-----------~~-------~~g~~~~~i~~l~~~a~--------  241 (441)
                      ++.|+.+++..|+..++...... ....  ...++           ..       ..-|+.||+.++++...        
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            99999999999987665432211 0100  01111           11       13467777776655433        


Q ss_pred             -----------HHHHHhcccccccccceeeeHhhHHhhhh-------hcccccc-----cCccc-ccCccccccccCchh
Q 013506          242 -----------MSAVKRSSDANECAGVLSVTMEDWRHARS-------VVGPSIT-----RGVTV-EIPKVTWEDIGGLRD  297 (441)
Q Consensus       242 -----------~~~~~~~~~~~~~~~~~~~~~e~~~~~~~-------~~~~~~~-----~~~~~-~~~~~~~~~i~g~~~  297 (441)
                                 +++.+.+.|..       ++.+|......       ...+...     ....+ ......|..+ ..++
T Consensus      1533 ~~~~~lvrLW~HE~~RVF~DRL-------v~~~Dr~~f~~~l~~~~~~~F~~~~~~~~~~pllf~~f~~~~Y~~v-~~~~ 1604 (3245)
T 3vkg_A         1533 CTLEGLVRLWAHEALRLFQDRL-------VETEEKEWTDKKIDEVALKHFPSVNLDALKRPILYSNWLTKDYQPV-NRSD 1604 (3245)
T ss_dssp             CCTTHHHHHHHHHHHHHHTTTC-------SSHHHHHHHHHHHHHHHHHHCTTSCGGGGCSSCCCCSSCC----CC-CHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHc-------CCHHHHHHHHHHHHHHHHHhcCcchhhhcccCcchhhhccccCccC-CHHH
Confidence                       33334333322       33333222211       1111100     00000 1111234444 3455


Q ss_pred             HHHHHHHHHh---------------cccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh
Q 013506          298 LKKKLQQAVE---------------WPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (441)
Q Consensus       298 ~k~~l~~~~~---------------~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~  362 (441)
                      +++.+.+.+.               .++.|..++.|+..+|++|+||+|++||||++++|++|.+.++.++++..+.-|+
T Consensus      1605 l~~~l~~~L~~yn~~~~~m~LVlF~daleHv~RI~RIL~qp~GhaLLVGvgGSGkqSLtrLAa~i~~~~vfqi~i~k~Y~ 1684 (3245)
T 3vkg_A         1605 LREYVKARLKVFYEEELDVPLVLFNEVLDHILRIDRVFRQPQGHALLIGVSGGGKSVLSRFVAWMNGLSIYTIKVNNNYK 1684 (3245)
T ss_dssp             HHHHHHHHHHTTC------CCCCCHHHHHHHHHHHHHHTSTTCCEEEEESTTSSHHHHHHHHHHHTTCEEECCC----CC
T ss_pred             HHHHHHHHHHHHHhcccCceEEeHHHHHHHHHHHHHHHccCCCCeEEecCCCCcHHHHHHHHHHHhCCeeEEEeeeCCCC
Confidence            6666655543               4667889999999999999999999999999999999999999999999999888


Q ss_pred             hccCchHHHHHHHHHHHHh-cCCeEEEEecccc
Q 013506          363 MYVGESEALLRNTFQRARL-AAPSIIFFDEADV  394 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~-~~~~vl~iDE~d~  394 (441)
                        ..++.++++.++.+|+. +.+.|++|+|..-
T Consensus      1685 --~~~f~eDLk~l~~~aG~~~~~~vFL~tD~qi 1715 (3245)
T 3vkg_A         1685 --SSDFDDDLRMLLKRAGCKEEKICFIFDESNV 1715 (3245)
T ss_dssp             --HHHHHHHHHHHHHHHHTSCCCEEEEEEGGGC
T ss_pred             --HHHHHHHHHHHHHHHhcCCCCEEEEEecccc
Confidence              78899999999999975 4567888887653

>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=99.91  E-value=5.1e-24  Score=192.61  Aligned_cols=155  Identities=46%  Similarity=0.853  Sum_probs=137.6

Q ss_pred             cccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhh
Q 013506          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (441)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~  361 (441)
                      ...+...|++++|++.+++.+.+.+.+++.+...+...+..++.+++|+||||||||++|+++|..++.+++.++++++.
T Consensus         7 ~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~   86 (301)
T 3cf0_A            7 VEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELL   86 (301)
T ss_dssp             EECCCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHH
T ss_pred             ccCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHH
Confidence            34566789999999999999999999999999888888999999999999999999999999999999999999999999


Q ss_pred             hhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      +.|.|++++.++.+|..+....|+++||||+|.+.+.|+......++...+++++||+.|+++.....|+|++||
T Consensus        87 ~~~~g~~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~v~vi~at  161 (301)
T 3cf0_A           87 TMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGAT  161 (301)
T ss_dssp             HHHHTTCTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCTTSSEEEEEEE
T ss_pred             hhhcCchHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccCCCCEEEEEec
Confidence            999999999999999999988999999999999999887655445566789999999999998766555555544

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=99.89  E-value=1.1e-22  Score=185.07  Aligned_cols=151  Identities=40%  Similarity=0.665  Sum_probs=129.8

Q ss_pred             ccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc-CCceEEechhhhh
Q 013506          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-EASFFSLSGAELY  361 (441)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~-~~~~~~i~~~~~~  361 (441)
                      +.+...|++++|++.+++.+.+.+.+++.+...+.. ...|+.++||+||||||||++|+++|..+ +.+++.++++++.
T Consensus         5 ~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l~   83 (322)
T 1xwi_A            5 ERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLV   83 (322)
T ss_dssp             ECCCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCT-TCCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSSC
T ss_pred             cCCCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhC-CCCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHHH
Confidence            345678999999999999999999988888777654 35677899999999999999999999999 8899999999999


Q ss_pred             hhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCC--CCeEEEEeeee
Q 013506          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ--AKVIIYPISFI  437 (441)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~--~~~v~~~~~~~  437 (441)
                      ++|.|++++.++.+|..+....|+||||||+|.+.+.|+..   ..+...+++++||+.|+++..  .++++|.+||.
T Consensus        84 ~~~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~ld~~~~~~~~v~vI~atn~  158 (322)
T 1xwi_A           84 SKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSEN---ESEAARRIKTEFLVQMQGVGVDNDGILVLGATNI  158 (322)
T ss_dssp             CSSCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSC---CTTHHHHHHHHHHHHHHCSSSCCTTEEEEEEESC
T ss_pred             hhhhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccc---cchHHHHHHHHHHHHHhcccccCCCEEEEEecCC
Confidence            99999999999999999999999999999999999887653   335578999999999999853  44455555553

>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=99.88  E-value=3.4e-22  Score=182.56  Aligned_cols=152  Identities=39%  Similarity=0.674  Sum_probs=127.1

Q ss_pred             cccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhh
Q 013506          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (441)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~  361 (441)
                      ...+...|++++|++.+++.+.+.+.+++.+...+.. +..++.++||+||||||||++|+++|..++.+++.++++++.
T Consensus        10 ~~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~-~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~   88 (322)
T 3eie_A           10 SEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLV   88 (322)
T ss_dssp             EECCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCT-TCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHH
T ss_pred             ecCCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhc-CCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHh
Confidence            3456778999999999999999999888777766655 456778999999999999999999999999999999999999


Q ss_pred             hhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCC-CCC-eEEEEeeee
Q 013506          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-QAK-VIIYPISFI  437 (441)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~-~~~-~v~~~~~~~  437 (441)
                      +.|.|++++.++.+|..+....|+||||||+|.+.+.|+..   ......++.+.||..|++.. ... ++||.+||.
T Consensus        89 ~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~atn~  163 (322)
T 3eie_A           89 SKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG---ESEASRRIKTELLVQMNGVGNDSQGVLVLGATNI  163 (322)
T ss_dssp             TTTGGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC---------CCTHHHHHHHHHHHGGGGTSCCCEEEEEEESC
T ss_pred             hcccchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCC---cchHHHHHHHHHHHHhccccccCCceEEEEecCC
Confidence            99999999999999999999999999999999999887543   33456899999999999984 333 444445553

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=99.88  E-value=2.7e-22  Score=177.93  Aligned_cols=150  Identities=44%  Similarity=0.774  Sum_probs=124.2

Q ss_pred             cCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh
Q 013506          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (441)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~  363 (441)
                      .+...|++++|++++++.+.+.+.+++.+...+..+++.++.+++|+|||||||||+++++|..++..++.+++.++.+.
T Consensus         4 ~~~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l~~~   83 (274)
T 2x8a_A            4 VPNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNM   83 (274)
T ss_dssp             --------CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTTCSS
T ss_pred             CCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHHHhh
Confidence            45678999999999999999999999999999999999998999999999999999999999999999999999999999


Q ss_pred             ccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      |.+++++.++.+|+.+....|+++|+||+|.+++.|+...   .+...++++.++.+|++.+....++++|++
T Consensus        84 ~~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~---~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~t  153 (274)
T 2x8a_A           84 YVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRE---TGASVRVVNQLLTEMDGLEARQQVFIMAAT  153 (274)
T ss_dssp             TTHHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC------------CTTHHHHHHHHHHTCCSTTCEEEEEEE
T ss_pred             hhhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCc---chHHHHHHHHHHHhhhcccccCCEEEEeec
Confidence            9999999999999999888899999999999987765421   223568899999999999888777777765

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.87  E-value=2.4e-21  Score=174.06  Aligned_cols=181  Identities=22%  Similarity=0.357  Sum_probs=131.7

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccccc
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDAL  128 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l  128 (441)
                      +.+++.++||+||||||||++|+++|+.++.+++.+++..+...+.+.....+...|..+........|+||||||+|.+
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            56678899999999999999999999999999999999999888888888888888888754433556899999999998


Q ss_pred             ccCCCCCch---hhHHHHHHHHHHHhcCCC-------CCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHH
Q 013506          129 CPRRDHRRE---QDVRIASQLFTLMDSNKP-------SKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEE  198 (441)
Q Consensus       129 ~~~~~~~~~---~~~~~~~~l~~~~~~~~~-------~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~  198 (441)
                      .+.......   ....+...|+..++....       ......++++|+|||.++.+++++.|++||+..+.  .|+.++
T Consensus       112 ~~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~ld~al~R~~R~d~~i~--~P~~~~  189 (293)
T 3t15_A          112 AGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW--APTRED  189 (293)
T ss_dssp             ------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC--CHHHHHHHEEEEEE--CCCHHH
T ss_pred             cCCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcccCCHHHhCCCCCceeEe--CcCHHH
Confidence            874432222   344667888888874320       11123468999999999999999998889987665  579999


Q ss_pred             HHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHH
Q 013506          199 RFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEA  235 (441)
Q Consensus       199 ~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~  235 (441)
                      |.+|++.++...    ..+...++..+.+|++.++..
T Consensus       190 r~~Il~~~~~~~----~~~~~~l~~~~~~~~~~~l~~  222 (293)
T 3t15_A          190 RIGVCTGIFRTD----NVPAEDVVKIVDNFPGQSIDF  222 (293)
T ss_dssp             HHHHHHHHHGGG----CCCHHHHHHHHHHSCSCCHHH
T ss_pred             HHHHHHHhccCC----CCCHHHHHHHhCCCCcccHHH
Confidence            999999877643    345777777777787777653

>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=99.87  E-value=7e-22  Score=182.37  Aligned_cols=152  Identities=39%  Similarity=0.665  Sum_probs=121.7

Q ss_pred             cccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhh
Q 013506          282 VEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (441)
Q Consensus       282 ~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~  361 (441)
                      ...+...|++++|++.+++.+.+.+.+++.+...+.. +..++.++||+||||||||++|+++|..++.+++.++++++.
T Consensus        43 ~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~-~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~~~l~  121 (355)
T 2qp9_X           43 SEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLV  121 (355)
T ss_dssp             ----CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCS-SCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEHHHHH
T ss_pred             ccCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhc-CCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeHHHHh
Confidence            3455678999999999999999999888777776665 556778999999999999999999999999999999999999


Q ss_pred             hhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCC--CCeEEEEeeee
Q 013506          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ--AKVIIYPISFI  437 (441)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~--~~~v~~~~~~~  437 (441)
                      +.|.|++++.++.+|..+....|+||||||+|.+.+.|+..   ......++.++||+.|+++..  ..++||.+||.
T Consensus       122 ~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~---~~~~~~~~~~~ll~~l~~~~~~~~~v~vI~atn~  196 (355)
T 2qp9_X          122 SKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEG---ESEASRRIKTELLVQMNGVGNDSQGVLVLGATNI  196 (355)
T ss_dssp             SCC---CHHHHHHHHHHHHHTSSEEEEEECGGGGTC---------CTHHHHHHHHHHHHHHHCC---CCEEEEEEESC
T ss_pred             hhhcchHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCC---cchHHHHHHHHHHHHhhcccccCCCeEEEeecCC
Confidence            99999999999999999998899999999999999887643   345678999999999998754  34555555653

>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=99.87  E-value=1.3e-21  Score=184.94  Aligned_cols=152  Identities=37%  Similarity=0.657  Sum_probs=124.6

Q ss_pred             CccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhc
Q 013506          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (441)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~  364 (441)
                      +...|++++|++..++.+.+.+.. +.....+.+++..++.+++|+||||||||++|+++|..++.+++.++++++...|
T Consensus        11 ~~~~f~di~G~~~~~~~l~e~v~~-l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~~~~~~~~   89 (476)
T 2ce7_A           11 KRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELF   89 (476)
T ss_dssp             CCCCGGGCCSCHHHHHHHHHHHHH-HHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGTTTCC
T ss_pred             CCCCHHHhCCcHHHHHHHHHHHHH-hhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCHHHHHHHH
Confidence            345789999999999999998875 4555667778888888999999999999999999999999999999999999999


Q ss_pred             cCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCe-EEEEeeee
Q 013506          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKV-IIYPISFI  437 (441)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~-v~~~~~~~  437 (441)
                      +|.....++.+|..|....|+||||||+|.+.+.|+....+.+....+.++.||.+||++..... +||.+||.
T Consensus        90 ~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~~~viVIaaTn~  163 (476)
T 2ce7_A           90 VGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNR  163 (476)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGGGTEEEEEEESC
T ss_pred             hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCCCCEEEEEecCC
Confidence            99999999999999999999999999999999888654334445567889999999998876544 55555553

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=99.87  E-value=1.9e-21  Score=175.10  Aligned_cols=153  Identities=40%  Similarity=0.655  Sum_probs=135.1

Q ss_pred             cCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh
Q 013506          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (441)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~  363 (441)
                      .+...|++++|++.+++.+.+++..++.+...+...+..++.+++|+||||||||++|+++|..++.+++.++.+++.+.
T Consensus        11 ~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~   90 (285)
T 3h4m_A           11 RPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKK   90 (285)
T ss_dssp             SCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGCCC
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHHHh
Confidence            34567999999999999999999888888888888888999999999999999999999999999999999999999999


Q ss_pred             ccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      |.|+.+..++.+|..+....|+||||||+|.+.++|.....+.+....+.+..+++.++++.....++|++|+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vI~tt  163 (285)
T 3h4m_A           91 FIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGAT  163 (285)
T ss_dssp             STTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCSSSSEEEEEEC
T ss_pred             ccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEeC
Confidence            9999999999999999999999999999999998887655555556678899999999988776555555544

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.86  E-value=1.4e-20  Score=171.49  Aligned_cols=217  Identities=21%  Similarity=0.273  Sum_probs=162.2

Q ss_pred             cccc-cccchHHHHHHHHHHHHhhccCchHHHhcCCCC---CcEEEEEcCCCCcHHHHHHHHHHHh-------CCcEEEE
Q 013506           16 KAEE-AIGGNRAAVEALRELITFPLLYSSQAQKLGLKW---PRGLLLYGPPGTGKTSLVRAVVREC-------GAHLTVI   84 (441)
Q Consensus        16 ~~~~-~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~---~~~vll~Gp~GtGKT~l~~~l~~~l-------~~~~~~v   84 (441)
                      ..++ +++|++++|+.|.+.+..+. .+..+...|+..   +.+++|+||||||||++++.+++.+       ..+++.+
T Consensus        27 ~~l~~~i~G~~~~~~~l~~~~~~~~-~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~  105 (309)
T 3syl_A           27 EELDRELIGLKPVKDRIRETAALLL-VERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSV  105 (309)
T ss_dssp             HHHHHHSSSCHHHHHHHHHHHHHHH-HHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEE
T ss_pred             HHHHHHccChHHHHHHHHHHHHHHH-hHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEE
Confidence            4455 79999999999999887644 355565666543   4579999999999999999999887       3378999


Q ss_pred             ccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEE
Q 013506           85 SPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVV  164 (441)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  164 (441)
                      ++..+...+.+.....+...+..+.       +++|||||+|.+...... .......+..|+..++....      +++
T Consensus       106 ~~~~l~~~~~g~~~~~~~~~~~~~~-------~~vl~iDEid~l~~~~~~-~~~~~~~~~~Ll~~l~~~~~------~~~  171 (309)
T 3syl_A          106 TRDDLVGQYIGHTAPKTKEVLKRAM-------GGVLFIDEAYYLYRPDNE-RDYGQEAIEILLQVMENNRD------DLV  171 (309)
T ss_dssp             CGGGTCCSSTTCHHHHHHHHHHHHT-------TSEEEEETGGGSCCCC----CCTHHHHHHHHHHHHHCTT------TCE
T ss_pred             cHHHhhhhcccccHHHHHHHHHhcC-------CCEEEEEChhhhccCCCc-ccccHHHHHHHHHHHhcCCC------CEE
Confidence            9999888888887777777776652       679999999998754322 22345778888888886432      467


Q ss_pred             EEEEcCCCC-----ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHH-------CCCCCHH
Q 013506          165 VVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATS-------CNGYVGA  231 (441)
Q Consensus       165 vi~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~-------~~g~~~~  231 (441)
                      +|++++...     .++|++.+  ||...+.|++|+.+++.+|++.++.......+.+ +..++..       ....+.+
T Consensus       172 ~i~~~~~~~~~~~~~~~~~l~~--R~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~gn~r  249 (309)
T 3syl_A          172 VILAGYADRMENFFQSNPGFRS--RIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALRAYIGLRRNQPHFANAR  249 (309)
T ss_dssp             EEEEECHHHHHHHHHHSTTHHH--HEEEEEEECCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHTTSSSCCHHH
T ss_pred             EEEeCChHHHHHHHhhCHHHHH--hCCeEEEcCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhccCCCCCcHH
Confidence            788887643     35789998  9988999999999999999999888765543322 4444444       3334688


Q ss_pred             HHHHHHHHHHHHHHHhcc
Q 013506          232 DLEALCREATMSAVKRSS  249 (441)
Q Consensus       232 ~i~~l~~~a~~~~~~~~~  249 (441)
                      ++.++++.+...+..+..
T Consensus       250 ~l~~~l~~a~~~~~~r~~  267 (309)
T 3syl_A          250 SIRNALDRARLRQANRLF  267 (309)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            999999888876655543

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=99.85  E-value=6e-21  Score=168.92  Aligned_cols=151  Identities=38%  Similarity=0.636  Sum_probs=122.2

Q ss_pred             CccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhc
Q 013506          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (441)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~  364 (441)
                      +...|++++|++.+++.+.+.+.. +.+...+...+..++.+++|+||||||||++|+++|..++.+++.++++++.+.+
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            456789999999999999887764 5555556666777788999999999999999999999999999999999999999


Q ss_pred             cCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .++.++.++.+|+.+....|+++||||+|.+.+.++....+......+.++.+|+.|+++.....++|++++
T Consensus        86 ~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~vI~~t  157 (257)
T 1lv7_A           86 VGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAAT  157 (257)
T ss_dssp             CCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEE
T ss_pred             hhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccCCCEEEEEee
Confidence            999999999999999888899999999999998776433333344467899999999998766555555543

>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=99.85  E-value=2.4e-22  Score=192.07  Aligned_cols=176  Identities=23%  Similarity=0.324  Sum_probs=123.7

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC--CcEEEEccCccccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG--AHLTVISPHSVHKAHV   94 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~--~~~~~v~~~~~~~~~~   94 (441)
                      .+++++|++++++.+..++...        ..+..+++++||+||||||||++|+++++.++  .+++.+++..+...+.
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            4589999999999998877431        22455778999999999999999999999998  8999999999998888


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhH--------------------HHHHHHHHHHhcCC
Q 013506           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDV--------------------RIASQLFTLMDSNK  154 (441)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~--------------------~~~~~l~~~~~~~~  154 (441)
                      ++... +...|..+.. .....|++|||||+|.+.+..........                    +....++..++...
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            88776 7778877621 11234899999999999876543211000                    01122444444322


Q ss_pred             CCCCCCCeEEEEEEcCCCCccCHHHhhCCccce--EEEecCCCH--HHHHHHHH
Q 013506          155 PSKTSVPHVVVVASTNRVDAIDPALRRSGRFDA--EVEVTVPTA--EERFEILK  204 (441)
Q Consensus       155 ~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~--~i~~~~p~~--~~~~~il~  204 (441)
                      ..  ....++++++||.++.+++++.+++||+.  .+.++.|+.  ++|.+|++
T Consensus       185 ~~--~~~~v~i~attn~~~~ld~a~~r~~rfd~~~~~~v~~p~~~~~~R~~il~  236 (456)
T 2c9o_A          185 VE--AGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPKGDVHKKKEIIQ  236 (456)
T ss_dssp             CC--TTEEEEEETTTCCEEEEEEETTSCCTTSCSSSSEECCCCSCSEEEEEEEE
T ss_pred             CC--CCCEEEEEcCCCCcccCChhhcCCcccCcceeEecCCCchhHHHHHHHHH
Confidence            21  12245666889999999999999999986  456677743  55555543

>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=99.85  E-value=3.4e-21  Score=182.96  Aligned_cols=154  Identities=40%  Similarity=0.670  Sum_probs=121.3

Q ss_pred             cccccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc-CCceEEechh
Q 013506          280 VTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-EASFFSLSGA  358 (441)
Q Consensus       280 ~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~-~~~~~~i~~~  358 (441)
                      .....+...|++++|++.+++.+.+.+.+++.+...+.. +..++.++||+||||||||++|+++|..+ +.+++.++++
T Consensus       124 i~~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~-~~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~~~  202 (444)
T 2zan_A          124 IVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSS  202 (444)
T ss_dssp             CBCCCCCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSG-GGCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEECCC
T ss_pred             eeccCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhc-cCCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEeHH
Confidence            344556778999999999999999999887777665543 34567899999999999999999999999 8899999999


Q ss_pred             hhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCC--CCCeEEEEeee
Q 013506          359 ELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE--QAKVIIYPISF  436 (441)
Q Consensus       359 ~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~--~~~~v~~~~~~  436 (441)
                      ++.+.|+|+++..++.+|..+....|+||||||+|.+++.|+..   ..+...++++.||+.|+++.  ..+++||.+||
T Consensus       203 ~l~~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~---~~~~~~~~~~~lL~~l~~~~~~~~~v~vI~atn  279 (444)
T 2zan_A          203 DLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSEN---ESEAARRIKTEFLVQMQGVGVDNDGILVLGATN  279 (444)
T ss_dssp             ---------CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCC---CCGGGHHHHHHHHTTTTCSSCCCSSCEEEEEES
T ss_pred             HHHhhhcchHHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCc---cccHHHHHHHHHHHHHhCcccCCCCEEEEecCC
Confidence            99999999999999999999999999999999999999887653   34557899999999999975  34455555665


Q ss_pred             e
Q 013506          437 I  437 (441)
Q Consensus       437 ~  437 (441)
                      .
T Consensus       280 ~  280 (444)
T 2zan_A          280 I  280 (444)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.84  E-value=3.8e-21  Score=203.55  Aligned_cols=154  Identities=18%  Similarity=0.176  Sum_probs=111.8

Q ss_pred             CccccccccCchhHHHHHHHHHhcccCC----------chhhhh------------------cCCCCCceEEEECCCCCc
Q 013506          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKH----------STAFSR------------------LGISPVRGALLHGPPGCS  336 (441)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~----------~~~~~~------------------~~~~~~~~~ll~Gp~GtG  336 (441)
                      ....|.+++++..+|+.+.+.+.|++.+          ......                  -|.+.++.++++||||||
T Consensus      1015 ~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tG~~glD~~lg~GG~p~g~~~l~~G~~g~G 1094 (1706)
T 3cmw_A         1015 SGSSTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSG 1094 (1706)
T ss_dssp             ---------CTTHHHHHHHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSS
T ss_pred             CCceeeecCCccHHHHHHHHHHHHHHhhccCcccchhchhhhhccccccccCchhHHHHhccCCCCCCCEEEEEcCCCCC
Confidence            3478999999999999999988887743          112222                  124445569999999999


Q ss_pred             HHHHHHHHHHHc---CCceEEechhh----hh--------hhccCc----hHHHHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          337 KTTLAKAAAHAA---EASFFSLSGAE----LY--------SMYVGE----SEALLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       337 KTtla~~la~~~---~~~~~~i~~~~----~~--------~~~~g~----~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      ||++|++++...   +.+.+-++..+    ++        ++|+++    +|+.++.+|..|+...|+++|+||++.++|
T Consensus      1095 KT~la~~~~~~~~~~g~~~~fi~~~~~~~~~~~~~~G~d~~~~~~~~~~~~e~~l~~~~~~ar~~~~~~i~~d~~~al~~ 1174 (1706)
T 3cmw_A         1095 KTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAALTP 1174 (1706)
T ss_dssp             HHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCGGGCCC
T ss_pred             hHHHHHHHHHHhhhcCCceeEEEcccchHHHHHHHhCCCHHHHhhccccchHHHHHHHHHHHHhcCCeEEEeCchHhcCc
Confidence            999999998765   44444444433    33        567778    899999999999999999999999999999


Q ss_pred             cc---CCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeeee
Q 013506          398 KR---GGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFIF  438 (441)
Q Consensus       398 ~r---~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~~  438 (441)
                      .+   |..++...+...|+++++|.+|++......|+|+++|-.
T Consensus      1175 ~~~~~g~~~~~~~~~~~r~~~q~l~~~~~~~~~~~v~v~~~n~~ 1218 (1706)
T 3cmw_A         1175 KAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQI 1218 (1706)
T ss_dssp             HHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHHTTCEEEEEECE
T ss_pred             ccccccccccccccHHHHHHHHHHHHHHhhhccCCeEEEEeccc
Confidence            84   333333336788999999999999888888888888854

>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=99.84  E-value=1.2e-20  Score=180.06  Aligned_cols=148  Identities=42%  Similarity=0.686  Sum_probs=133.0

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhcc
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYV  365 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~  365 (441)
                      ...|.+++|+...++.+.+.+..++.+...+..++..++.++||+||||||||++|+++|..++.+++.++++++.+.|.
T Consensus       200 ~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~~  279 (489)
T 3hu3_A          200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA  279 (489)
T ss_dssp             CCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSCT
T ss_pred             CCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhhhc
Confidence            34688999999999999999999899999999999999999999999999999999999999999999999999999999


Q ss_pred             CchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          366 GESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       366 g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      |+.+..++.+|..|....|++|||||+|.+.+.|+..   .++...++++.||..|++......|+|++||
T Consensus       280 g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~---~~~~~~~~~~~LL~~ld~~~~~~~v~vIaaT  347 (489)
T 3hu3_A          280 GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKT---HGEVERRIVSQLLTLMDGLKQRAHVIVMAAT  347 (489)
T ss_dssp             THHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSC---CCHHHHHHHHHHHHHHHHSCTTSCEEEEEEE
T ss_pred             chhHHHHHHHHHHHHhcCCcEEEecchhhhccccccc---cchHHHHHHHHHHHHhhccccCCceEEEEec
Confidence            9999999999999999999999999999999887542   3456789999999999998776666666554

>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=99.84  E-value=2.3e-20  Score=165.96  Aligned_cols=150  Identities=39%  Similarity=0.635  Sum_probs=110.7

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhcc
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYV  365 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~  365 (441)
                      ...|++++|++.+++.+.+.+.. +.+...+...+..++.+++|+||||||||++|+++|..++.+++.++++++.+.|.
T Consensus         2 ~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~~~   80 (262)
T 2qz4_A            2 GVSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIG   80 (262)
T ss_dssp             CCCTTSSCSCHHHHHHHHHHHHH-HHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSSST
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHH-HHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhhcc
Confidence            35688999999999999988765 55555666677788889999999999999999999999999999999999999999


Q ss_pred             CchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCC-CcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          366 GESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSST-SITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       366 g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      +.+...++.+|..+....|+||||||+|.+.+.|+....+ .+....+.++.||..+++......++|++|+
T Consensus        81 ~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~vi~~t  152 (262)
T 2qz4_A           81 GLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLAST  152 (262)
T ss_dssp             THHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCTTCCEEEEEEE
T ss_pred             ChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCCCCCEEEEecC
Confidence            9999999999999998889999999999998877542211 1233467899999999987765555555554

>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=99.82  E-value=7.8e-20  Score=170.04  Aligned_cols=170  Identities=21%  Similarity=0.241  Sum_probs=78.5

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCC-CCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc-ccccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGL-KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-AHVGE   96 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~-~~~~~   96 (441)
                      +.|+|++.+|+.|..++..++.+...+..+.. .++.+++|+||||||||++++++|+.++.+++.+++..+.. .+.+.
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            36999999999999998776544433333322 25678999999999999999999999999999999988776 47774


Q ss_pred             -hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEE-cCCCCc
Q 013506           97 -SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS-TNRVDA  174 (441)
Q Consensus        97 -~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~-~~~~~~  174 (441)
                       ....++.+|..+...        +++||++.+....  ......+++..|+..++......    .+  +++ ||.++.
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             677888888776543        3488888764332  22334577888888887654321    22  444 999999


Q ss_pred             cCHHHhhCCccceEEEecCCCHH-HHHHHHH
Q 013506          175 IDPALRRSGRFDAEVEVTVPTAE-ERFEILK  204 (441)
Q Consensus       175 l~~~l~~~~r~~~~i~~~~p~~~-~~~~il~  204 (441)
                      +++++++++||+..++++.|+.. .+.+|+.
T Consensus       159 ld~aL~rggr~D~~i~i~lP~~~~~~~ei~~  189 (444)
T 1g41_A          159 FRKKLREGQLDDKEIEIDVSAGVSMGVEIMA  189 (444)
T ss_dssp             -------------------------------
T ss_pred             HHHHHHcCCCcceEEEEcCCCCccchhhhhc
Confidence            99999999999999999999987 6666654

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=99.82  E-value=7.7e-20  Score=171.50  Aligned_cols=151  Identities=39%  Similarity=0.575  Sum_probs=113.6

Q ss_pred             ccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh
Q 013506          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (441)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~  362 (441)
                      ..+...|++++|.+.+++.+.+++..+..+...+...+ .++.++||+||||||||++|+++|..++.+++.++++++.+
T Consensus       108 ~~~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~vLL~GppGtGKT~la~aia~~~~~~~~~v~~~~l~~  186 (389)
T 3vfd_A          108 NGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLR-APARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTS  186 (389)
T ss_dssp             CSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG-CCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEECSCCC--
T ss_pred             cCCCCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccC-CCCceEEEECCCCCCHHHHHHHHHHhhcCcEEEeeHHHhhc
Confidence            44566799999999999999999887766655555544 45679999999999999999999999999999999999999


Q ss_pred             hccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCC--CC-eEEEEeeee
Q 013506          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ--AK-VIIYPISFI  437 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~--~~-~v~~~~~~~  437 (441)
                      .|.|+++..++.+|..+....++||||||||.+++.|...   ......++.+.||..|++...  .. ++||.+||.
T Consensus       187 ~~~g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~  261 (389)
T 3vfd_A          187 KYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREG---EHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNR  261 (389)
T ss_dssp             -----CHHHHHHHHHHHHHSSSEEEEEETGGGGC-----------CTHHHHHHHHHHHHHHHC-----CEEEEEEESC
T ss_pred             cccchHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCc---cchHHHHHHHHHHHHhhcccccCCCCEEEEEecCC
Confidence            9999999999999999999999999999999999876542   334568999999999998765  23 444555553

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=99.82  E-value=1.4e-19  Score=163.82  Aligned_cols=149  Identities=40%  Similarity=0.619  Sum_probs=121.1

Q ss_pred             cCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh
Q 013506          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (441)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~  363 (441)
                      .+...|++++|.+.+++.+.+.+..+..+...+.... .++.+++|+||||||||++|+++|..++.+++.++++++.+.
T Consensus        15 ~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~~~   93 (297)
T 3b9p_A           15 GAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSK   93 (297)
T ss_dssp             SSCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGG-CCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTSSS
T ss_pred             CCCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCC-CCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHhhc
Confidence            3456789999999999999999887766655554443 456799999999999999999999999999999999999999


Q ss_pred             ccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCC----CeEEEEeee
Q 013506          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQA----KVIIYPISF  436 (441)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~----~~v~~~~~~  436 (441)
                      |.++.++.++.+|..+....|++|||||+|.+.+.+....   .....++.+.||..+++....    .+++|.+||
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~---~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn  167 (297)
T 3b9p_A           94 YVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSE---HEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATN  167 (297)
T ss_dssp             SCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC--------CCSHHHHHHHHHHHHHCC------CEEEEEEES
T ss_pred             ccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCc---chHHHHHHHHHHHHHhcccccCCCCcEEEEeecC
Confidence            9999999999999999989999999999999998775422   334578899999999987653    345555555

>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=99.81  E-value=1.2e-19  Score=167.77  Aligned_cols=149  Identities=35%  Similarity=0.653  Sum_probs=120.5

Q ss_pred             CccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhc
Q 013506          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (441)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~  364 (441)
                      +...|++++|++.+++.+.+.+.+++.+...+.+.. .++.++||+||||||||++|+++|..++.+++.++++++.+.|
T Consensus        79 ~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~-~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~~~~  157 (357)
T 3d8b_A           79 PPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKW  157 (357)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGG-SCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEEEEGGGGCCSS
T ss_pred             CCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhcc-CCCceEEEECCCCCCHHHHHHHHHHHcCCeEEEEehHHhhccc
Confidence            355789999999999999999887766665554443 5567899999999999999999999999999999999999999


Q ss_pred             cCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCC---CCeEEEEeeee
Q 013506          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ---AKVIIYPISFI  437 (441)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~---~~~v~~~~~~~  437 (441)
                      .|+.+..++.+|..+....++||||||+|.+.+.|+..   ......++++.||..|++...   ..++||.+||.
T Consensus       158 ~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~---~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~  230 (357)
T 3d8b_A          158 VGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDG---EHESSRRIKTEFLVQLDGATTSSEDRILVVGATNR  230 (357)
T ss_dssp             TTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC---------CHHHHHHHHHHHHHHC----CCCCEEEEEEESC
T ss_pred             cchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCC---cchHHHHHHHHHHHHHhcccccCCCCEEEEEecCC
Confidence            99999999999999998899999999999999877542   344567899999999998653   34455555553

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=99.81  E-value=1.1e-19  Score=172.69  Aligned_cols=151  Identities=39%  Similarity=0.669  Sum_probs=127.1

Q ss_pred             CccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhc
Q 013506          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (441)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~  364 (441)
                      +...|+++.|++..+..+.+.+.. +.....+..++...+.+++|+||||||||++|+++|..++.+++.++++++.+.|
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            456789999999999999988765 4455566777888888899999999999999999999999999999999999999


Q ss_pred             cCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ++.....++.+|+.+....|+++||||+|.+.+.|+....+......+.++.||++|++.+....++++|++
T Consensus       105 ~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~~~~viviAat  176 (499)
T 2dhr_A          105 VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAAT  176 (499)
T ss_dssp             TTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCSSCCCEEEECC
T ss_pred             hhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcccccCccEEEEEec
Confidence            999999999999998777889999999999988776432223344568899999999998876666666654

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.80  E-value=2.4e-17  Score=152.03  Aligned_cols=214  Identities=19%  Similarity=0.219  Sum_probs=152.3

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      ..+++++|++.+++.+..++.....        .-.+..+++|+||||||||++|+.++..++.+++.+++..+.     
T Consensus        26 ~~~~~iiG~~~~~~~l~~~l~~~~~--------~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~-----   92 (338)
T 3pfi_A           26 SNFDGYIGQESIKKNLNVFIAAAKK--------RNECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIE-----   92 (338)
T ss_dssp             CSGGGCCSCHHHHHHHHHHHHHHHH--------TTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCC-----
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHh--------cCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhcc-----
Confidence            5679999999999999998865311        112456899999999999999999999999999999886542     


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC------------CCCCCeE
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS------------KTSVPHV  163 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~------------~~~~~~~  163 (441)
                       ....+...+..      ...+++|||||++.+.          ...+..|+..++.....            ....+++
T Consensus        93 -~~~~~~~~~~~------~~~~~vl~lDEi~~l~----------~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~  155 (338)
T 3pfi_A           93 -KSGDLAAILTN------LSEGDILFIDEIHRLS----------PAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKF  155 (338)
T ss_dssp             -SHHHHHHHHHT------CCTTCEEEEETGGGCC----------HHHHHHHHHHHHTSCC---------CCCCCCCCCCC
T ss_pred             -chhHHHHHHHh------ccCCCEEEEechhhcC----------HHHHHHHHHHHHhccchhhcccCccccceecCCCCe
Confidence             12222222221      2357899999999873          35677777777664311            1122358


Q ss_pred             EEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCHHHHHHHHHHHHH
Q 013506          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       164 ~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                      .+|++||....+++++.+  ||...+.+++|+.+++.+++...+.......+ ..++.++..+. .+.+.+.++++.+..
T Consensus       156 ~~i~atn~~~~l~~~L~~--R~~~~i~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~l~~~~~-G~~r~l~~~l~~~~~  232 (338)
T 3pfi_A          156 TLIGATTRAGMLSNPLRD--RFGMQFRLEFYKDSELALILQKAALKLNKTCEEKAALEIAKRSR-STPRIALRLLKRVRD  232 (338)
T ss_dssp             EEEEEESCGGGSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHTTT-TCHHHHHHHHHHHHH
T ss_pred             EEEEeCCCccccCHHHHh--hcCEEeeCCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHC-cCHHHHHHHHHHHHH
Confidence            999999999999999999  99889999999999999999988877654432 23566666444 467788887777654


Q ss_pred             HHHHhcccccccccceeeeHhhHHhhhh
Q 013506          243 SAVKRSSDANECAGVLSVTMEDWRHARS  270 (441)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~e~~~~~~~  270 (441)
                      .+....        ...++.+++.....
T Consensus       233 ~a~~~~--------~~~i~~~~~~~~~~  252 (338)
T 3pfi_A          233 FADVND--------EEIITEKRANEALN  252 (338)
T ss_dssp             HHHHTT--------CSEECHHHHHHHHH
T ss_pred             HHHhhc--------CCccCHHHHHHHHH
Confidence            443221        12356666655544

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.79  E-value=7.3e-18  Score=157.45  Aligned_cols=220  Identities=21%  Similarity=0.273  Sum_probs=149.5

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC--cEEEEccCccccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA--HLTVISPHSVHKAHV   94 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~--~~~~v~~~~~~~~~~   94 (441)
                      .+++++|++.+++.+..+....        ..+..+++++||+||||||||++++.+++.++.  +++.+++..+.....
T Consensus        42 ~~~~ivG~~~~~~~l~~l~~~~--------~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~~  113 (368)
T 3uk6_A           42 ASQGMVGQLAARRAAGVVLEMI--------REGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEM  113 (368)
T ss_dssp             EETTEESCHHHHHHHHHHHHHH--------HTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEEEEGGGGSCSSS
T ss_pred             chhhccChHHHHHHHHHHHHHH--------HcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCcccccchhhhhccc
Confidence            3789999999999877655331        113345689999999999999999999999975  667776554332221


Q ss_pred             cc-------------------------------------------------hHHHHHHHHHHHHhhhh-cC----CCeEE
Q 013506           95 GE-------------------------------------------------SEKALREAFSQASSHAL-SG----KPSVV  120 (441)
Q Consensus        95 ~~-------------------------------------------------~~~~~~~~~~~~~~~~~-~~----~~~il  120 (441)
                      +.                                                 ....+...+........ .+    .|+||
T Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl  193 (368)
T 3uk6_A          114 SKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVL  193 (368)
T ss_dssp             CHHHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEE
T ss_pred             chhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceE
Confidence            11                                                 12233333333322111 11    25799


Q ss_pred             EEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEc-----------CCCCccCHHHhhCCccceEE
Q 013506          121 FIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST-----------NRVDAIDPALRRSGRFDAEV  189 (441)
Q Consensus       121 ~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~-----------~~~~~l~~~l~~~~r~~~~i  189 (441)
                      ||||+|.+.          ......|+..++....      .++++++.           |.+..+++.+.+  ||. .+
T Consensus       194 ~IDEi~~l~----------~~~~~~L~~~le~~~~------~~~ii~t~~~~~~i~~t~~~~~~~l~~~l~s--R~~-~i  254 (368)
T 3uk6_A          194 FIDEVHMLD----------IESFSFLNRALESDMA------PVLIMATNRGITRIRGTSYQSPHGIPIDLLD--RLL-IV  254 (368)
T ss_dssp             EEESGGGSB----------HHHHHHHHHHTTCTTC------CEEEEEESCSEEECBTSSCEEETTCCHHHHT--TEE-EE
T ss_pred             EEhhccccC----------hHHHHHHHHHhhCcCC------CeeeeecccceeeeeccCCCCcccCCHHHHh--hcc-EE
Confidence            999999873          3566777777755322      34555544           346788999999  997 48


Q ss_pred             EecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhh
Q 013506          190 EVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHA  268 (441)
Q Consensus       190 ~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~  268 (441)
                      .+++|+.+++.++++..+.......+ ..++.++..+.+.+.+.+..+++.+...+..+..        ..++.+++..+
T Consensus       255 ~~~~~~~~e~~~il~~~~~~~~~~~~~~~l~~l~~~~~~G~~r~~~~ll~~a~~~A~~~~~--------~~It~~~v~~a  326 (368)
T 3uk6_A          255 STTPYSEKDTKQILRIRCEEEDVEMSEDAYTVLTRIGLETSLRYAIQLITAASLVCRKRKG--------TEVQVDDIKRV  326 (368)
T ss_dssp             EECCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTTC--------SSBCHHHHHHH
T ss_pred             EecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCC--------CCCCHHHHHHH
Confidence            99999999999999988776554433 3367777777756889999999988777655432        34777777776


Q ss_pred             hhh
Q 013506          269 RSV  271 (441)
Q Consensus       269 ~~~  271 (441)
                      +..
T Consensus       327 ~~~  329 (368)
T 3uk6_A          327 YSL  329 (368)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>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=99.79  E-value=1.1e-18  Score=154.02  Aligned_cols=153  Identities=39%  Similarity=0.666  Sum_probs=122.5

Q ss_pred             ccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh
Q 013506          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (441)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~  362 (441)
                      ..+...|++++|.+..+..+.+.... ......+..+++..+.+++|+|||||||||++++++..++..++.+++.++..
T Consensus         9 ~~~~~~~~~i~g~~~~~~~l~~l~~~-~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~~~   87 (254)
T 1ixz_A            9 EAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVE   87 (254)
T ss_dssp             CCCSCCGGGCCSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHH
T ss_pred             CCCCCCHHHhCCcHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHHHH
Confidence            34567899999999999999887664 34455666777777788999999999999999999999999999999999988


Q ss_pred             hccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .+.+...+.++.+|+.+....|+++|+||+|.+.+.|+...........+.++.++..|++.+....++++|++
T Consensus        88 ~~~~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~~~~~i~~a~t  161 (254)
T 1ixz_A           88 MFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAAT  161 (254)
T ss_dssp             SCTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEE
T ss_pred             HHhhHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCCCCCEEEEEcc
Confidence            88888889999999999877889999999999987765322223344578899999999998887777776664

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.79  E-value=2.9e-19  Score=160.48  Aligned_cols=117  Identities=21%  Similarity=0.212  Sum_probs=85.8

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCchHHHHHHHHHHH----HhcCCeEEEEeccccc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRA----RLAAPSIIFFDEADVV  395 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a----~~~~~~vl~iDE~d~~  395 (441)
                      +..++.++||+||||||||++|+++|..++.+++.++++++.+.|+|+++..++.+|..|    +...|+||||||+|++
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            456677999999999999999999999999999999999999999999999999999999    4678899999999999


Q ss_pred             ccccCCCCCCCcchhhHHHHHHHHHhcCCC-----------C-CCeEEEEeeee
Q 013506          396 GAKRGGSSSTSITVGERLLSTLLTEMDGLE-----------Q-AKVIIYPISFI  437 (441)
Q Consensus       396 ~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~-----------~-~~~v~~~~~~~  437 (441)
                      ++.+++.. .......++.++|++.||+..           . ..++||++||-
T Consensus       112 ~~~~~~~~-~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~  164 (293)
T 3t15_A          112 AGRMGGTT-QYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGND  164 (293)
T ss_dssp             -------------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSS
T ss_pred             cCCCCCCc-cccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCC
Confidence            98655422 222345678899999998543           2 34566666663

>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=99.77  E-value=4.3e-20  Score=164.61  Aligned_cols=153  Identities=36%  Similarity=0.615  Sum_probs=120.2

Q ss_pred             cCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh
Q 013506          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (441)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~  363 (441)
                      .+...|++++|.+.+++.+.+.+.. +.+...+..++..++.+++|+||||||||++|+++|..++.+++.++++++.+.
T Consensus         5 ~~~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~~~   83 (268)
T 2r62_A            5 KPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEM   83 (268)
T ss_dssp             CCCCCSTTSSSCTTTHHHHHHHHHH-HHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCTTTTS
T ss_pred             CCCCCHHHhCCcHHHHHHHHHHHHH-HHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHHHHHh
Confidence            3456788999999999999988765 556666777788888889999999999999999999999999999999999998


Q ss_pred             ccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCC-CCCcchhhHHHHHHHHHhcCCCCC--CeEEEEeeee
Q 013506          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSS-STSITVGERLLSTLLTEMDGLEQA--KVIIYPISFI  437 (441)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~-~~~~~~~~~~~~~ll~~l~~~~~~--~~v~~~~~~~  437 (441)
                      |.|.....++.+|..+....|+||||||+|.+.+.|..++ .+.+....++++.||+.|++....  .+++|.+||.
T Consensus        84 ~~~~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~ttn~  160 (268)
T 2r62_A           84 FVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNR  160 (268)
T ss_dssp             CSSSCSSSSSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSCSCSCCEEEECBSC
T ss_pred             hcchHHHHHHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCcccCCCCEEEEEecCC
Confidence            9888888888999999888899999999999998764321 112233456788999999987643  2455555553

>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=99.77  E-value=1.3e-17  Score=151.95  Aligned_cols=249  Identities=20%  Similarity=0.259  Sum_probs=153.7

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhc-CCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc-ccccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKL-GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-AHVGE   96 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~-~~~~~   96 (441)
                      +.++|++++++.|...+..+.......... .-..+.+++|+||||||||++++.+++.++.+++.+++..+.. .+.+.
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            459999999999998886532221111100 0124578999999999999999999999999999999887764 33332


Q ss_pred             h-HHHHHHHHHHHHhhhh-cCCCeEEEEccccccccCCCCCch--hhHHHHHHHHHHHhcCCCC----CCCCCeEEEEEE
Q 013506           97 S-EKALREAFSQASSHAL-SGKPSVVFIDEIDALCPRRDHRRE--QDVRIASQLFTLMDSNKPS----KTSVPHVVVVAS  168 (441)
Q Consensus        97 ~-~~~~~~~~~~~~~~~~-~~~~~il~iDe~~~l~~~~~~~~~--~~~~~~~~l~~~~~~~~~~----~~~~~~~~vi~~  168 (441)
                      . ...+..++........ ...+++|||||+|.+.+.......  .....+..|+..++.....    .....++++|++
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            1 2234444432110000 012679999999999765532211  1223466777777753100    001124677777


Q ss_pred             ----cCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHH-----------hccCCCC---CcccHHHHHHHCC----
Q 013506          169 ----TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLY-----------TKKVPLD---ANVDLEAIATSCN----  226 (441)
Q Consensus       169 ----~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~-----------~~~~~~~---~~~~~~~l~~~~~----  226 (441)
                          ++.+..+++++.+  ||...+.+++|+.+++.+|++..           +......   .+..++.++..+.    
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                4567789999999  99888999999999999999831           1112211   1222555555542    


Q ss_pred             ---CCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhh
Q 013506          227 ---GYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       227 ---g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~  271 (441)
                         ..+.+.+..+++.+...........  ......++.+++..+...
T Consensus       253 ~~~~g~~R~l~~~l~~~~~~~~~~~~~~--~~~~~~i~~~~v~~~l~~  298 (310)
T 1ofh_A          253 KTENIGARRLHTVMERLMDKISFSASDM--NGQTVNIDAAYVADALGE  298 (310)
T ss_dssp             HSCCCTTHHHHHHHHHHSHHHHHHGGGC--TTCEEEECHHHHHHHTCS
T ss_pred             cccccCcHHHHHHHHHHHHhhhcCCccc--cCCEEEEeeHHHHHHHHh
Confidence               4677888888887765543222211  112234777777766553

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.75  E-value=1.2e-17  Score=149.28  Aligned_cols=151  Identities=39%  Similarity=0.669  Sum_probs=121.3

Q ss_pred             CccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhc
Q 013506          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (441)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~  364 (441)
                      +...|++++|.+.+++.+.+.... ......+..+++..+.+++|+|||||||||++++++..++..++.+++.++...+
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            567899999999999999887764 3444566677777777899999999999999999999999999999999998888


Q ss_pred             cCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .+.....++.+|+.+....|+++|+||+|.+.+.++...........+.++.++.+|++.+....+++++++
T Consensus       114 ~~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~~~~~i~~a~t  185 (278)
T 1iy2_A          114 VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAAT  185 (278)
T ss_dssp             TTHHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCTTCCEEEEEEE
T ss_pred             hhHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCCCCCEEEEEec
Confidence            888888999999999877889999999999887664321122334578899999999998877666666654

>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=99.74  E-value=1.8e-18  Score=165.26  Aligned_cols=143  Identities=24%  Similarity=0.309  Sum_probs=109.3

Q ss_pred             CccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcC--CceEEechhhhhh
Q 013506          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE--ASFFSLSGAELYS  362 (441)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~--~~~~~i~~~~~~~  362 (441)
                      +...|++++|++.+++.+..++...        ..+..++.++||+||||||||++|+++|..++  .+++.++++++++
T Consensus        32 ~~~~~~~iiG~~~~~~~l~~~~~~~--------~~~~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~~~~  103 (456)
T 2c9o_A           32 AKQAASGLVGQENAREACGVIVELI--------KSKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYS  103 (456)
T ss_dssp             BCSEETTEESCHHHHHHHHHHHHHH--------HTTCCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGGGCC
T ss_pred             hhhchhhccCHHHHHHHHHHHHHHH--------HhCCCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHHHHH
Confidence            4456789999999999888776531        22556778999999999999999999999999  8999999999999


Q ss_pred             hccCchHHHHHHHHHHH---HhcCCeEEEEecccccccccCCCCCCC----------------cchhhHHHHHHHHHhc-
Q 013506          363 MYVGESEALLRNTFQRA---RLAAPSIIFFDEADVVGAKRGGSSSTS----------------ITVGERLLSTLLTEMD-  422 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a---~~~~~~vl~iDE~d~~~~~r~~~~~~~----------------~~~~~~~~~~ll~~l~-  422 (441)
                      +|+|+++. ++++|+.|   +...|+||||||+|++++.|+....+.                .+...++.++++..|+ 
T Consensus       104 ~~~~~~~~-~~~~f~~a~~~~~~~~~il~iDEid~l~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ll~~l~~  182 (456)
T 2c9o_A          104 TEIKKTEV-LMENFRRAIGLRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSIFESLQK  182 (456)
T ss_dssp             SSSCHHHH-HHHHHHHTEEEEEEEEEEEEEEEEEEEEEC--------------CEEEEEEETTEEEEEEECHHHHHHHHH
T ss_pred             HhhhhhHH-HHHHHHHHHhhhhcCCcEEEEechhhcccccCCCCCCCcchHHHHHHHHHhccccchhHhhhHHHHHHHhh
Confidence            99999998 99999999   778899999999999999987542211                1111244456777775 


Q ss_pred             -CCCCCCeEEEEeee
Q 013506          423 -GLEQAKVIIYPISF  436 (441)
Q Consensus       423 -~~~~~~~v~~~~~~  436 (441)
                       ++...++|+|+|||
T Consensus       183 ~~~~~~~~v~i~att  197 (456)
T 2c9o_A          183 ERVEAGDVIYIEANS  197 (456)
T ss_dssp             TTCCTTEEEEEETTT
T ss_pred             ccCCCCCEEEEEcCC
Confidence             45566667776665

>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=99.74  E-value=1.8e-17  Score=161.05  Aligned_cols=229  Identities=23%  Similarity=0.253  Sum_probs=141.5

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc-------
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-------   91 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~-------   91 (441)
                      ++++|++++++.+.+.+......      ..+ ++.+++|+||||||||++++++++.++.++..+++.....       
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~------~~~-~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~~~g~  153 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLT------KSL-KGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGH  153 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHS------SSC-CSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC----------
T ss_pred             HHhccHHHHHHHHHHHHHHHHhc------ccC-CCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhhhhhH
Confidence            45999999999998876442211      112 5779999999999999999999999999999988765432       


Q ss_pred             --ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC---------CCCC
Q 013506           92 --AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS---------KTSV  160 (441)
Q Consensus        92 --~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~---------~~~~  160 (441)
                        .+.+.....+...|..+.     ....++||||++.+.+...      ...+..|+..++.....         ....
T Consensus       154 ~~~~ig~~~~~~~~~~~~a~-----~~~~vl~lDEid~l~~~~~------~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~  222 (543)
T 3m6a_A          154 RRTYVGAMPGRIIQGMKKAG-----KLNPVFLLDEIDKMSSDFR------GDPSSAMLEVLDPEQNSSFSDHYIEETFDL  222 (543)
T ss_dssp             ----------CHHHHHHTTC-----SSSEEEEEEESSSCC---------------CCGGGTCTTTTTBCCCSSSCCCCBC
T ss_pred             HHHHhccCchHHHHHHHHhh-----ccCCEEEEhhhhhhhhhhc------cCHHHHHHHHHhhhhcceeecccCCeeecc
Confidence              122222222333333221     1245999999999865321      12345566666532211         1112


Q ss_pred             CeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhc-----cCCCC---C---cccHHHHHH-HCCCC
Q 013506          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTK-----KVPLD---A---NVDLEAIAT-SCNGY  228 (441)
Q Consensus       161 ~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~-----~~~~~---~---~~~~~~l~~-~~~g~  228 (441)
                      .++++|+|+|.++.+++++++  ||. ++.++.|+.+++.+|+..++.     .....   .   +..+..++. .+...
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 799999999999999987652     22221   1   122445444 33345


Q ss_pred             CHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhh
Q 013506          229 VGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARS  270 (441)
Q Consensus       229 ~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~  270 (441)
                      +.+.+++.++.++..+.......  ......++.+++...+.
T Consensus       300 ~vR~L~~~i~~~~~~aa~~~~~~--~~~~~~It~~~l~~~Lg  339 (543)
T 3m6a_A          300 GVRSLERQLAAICRKAAKAIVAE--ERKRITVTEKNLQDFIG  339 (543)
T ss_dssp             SSHHHHHHHHHHHHHHHHHHHTT--CCSCCEECTTTTHHHHC
T ss_pred             chhHHHHHHHHHHHHHHHHHHhc--CCcceecCHHHHHHHhC
Confidence            66777777666665544332221  12345677777776654

>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=99.74  E-value=5.1e-17  Score=144.83  Aligned_cols=206  Identities=19%  Similarity=0.204  Sum_probs=132.7

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccc-cccccch
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH-KAHVGES   97 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~-~~~~~~~   97 (441)
                      +.++|.....+.+.......   .......+..++.++||+||||||||++|++++..++.+++.+++.+.. .......
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            56888877766666532110   1123333446678999999999999999999999999999988765422 1111122


Q ss_pred             HHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCH
Q 013506           98 EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDP  177 (441)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~  177 (441)
                      ...+...+..+.    ..++++|||||+|.+..............+..+...++....   ...++++|+++|.++.+++
T Consensus       110 ~~~~~~~~~~~~----~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~---~~~~~~ii~ttn~~~~l~~  182 (272)
T 1d2n_A          110 CQAMKKIFDDAY----KSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPP---QGRKLLIIGTTSRKDVLQE  182 (272)
T ss_dssp             HHHHHHHHHHHH----TSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCS---TTCEEEEEEEESCHHHHHH
T ss_pred             HHHHHHHHHHHH----hcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccC---CCCCEEEEEecCChhhcch
Confidence            234455555443    234789999999998665433333344566666666654321   2236889999999888877


Q ss_pred             -HHhhCCccceEEEecCCCH-HHHHHHHHHHhccCCCCCcccHHHHHHHCCCC----CHHHHHHHHHHH
Q 013506          178 -ALRRSGRFDAEVEVTVPTA-EERFEILKLYTKKVPLDANVDLEAIATSCNGY----VGADLEALCREA  240 (441)
Q Consensus       178 -~l~~~~r~~~~i~~~~p~~-~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~----~~~~i~~l~~~a  240 (441)
                       .+.+  ||...+.+|+++. ++..+++...   .. ..+..+..++..+.|+    +.+.+.++++.+
T Consensus       183 ~~l~~--rf~~~i~~p~l~~r~~i~~i~~~~---~~-~~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a  245 (272)
T 1d2n_A          183 MEMLN--AFSTTIHVPNIATGEQLLEALELL---GN-FKDKERTTIAQQVKGKKVWIGIKKLLMLIEMS  245 (272)
T ss_dssp             TTCTT--TSSEEEECCCEEEHHHHHHHHHHH---TC-SCHHHHHHHHHHHTTSEEEECHHHHHHHHHHH
T ss_pred             hhhhc--ccceEEcCCCccHHHHHHHHHHhc---CC-CCHHHHHHHHHHhcCCCccccHHHHHHHHHHH
Confidence             5565  9988889988776 5555555542   11 2334577778887775    455665555544

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.73  E-value=8.4e-17  Score=152.10  Aligned_cols=208  Identities=19%  Similarity=0.229  Sum_probs=142.6

Q ss_pred             cccccccchHHHH---HHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccc
Q 013506           16 KAEEAIGGNRAAV---EALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA   92 (441)
Q Consensus        16 ~~~~~i~G~~~~~---~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~   92 (441)
                      .++++++|++.++   ..|...+...             ...+++|+||||||||++++.+++.++.+++.+++...   
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             22689999999999999999999999999998876432   


Q ss_pred             cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEc--C
Q 013506           93 HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST--N  170 (441)
Q Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~--~  170 (441)
                          ....+...+..+......+++.+|||||+|.+..          ..+..|+..++..        .+++|+++  |
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                2334555565555444456789999999998832          3455677777752        24556555  4


Q ss_pred             CCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCC-------CC-CcccHHHHHHHCCCCCHHHHHHHHHHHHH
Q 013506          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVP-------LD-ANVDLEAIATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       171 ~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~-------~~-~~~~~~~l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                      +...+++++.+  |+. ++.+++|+.+++..++...+....       .. .+..++.++..+. .+.+.+.++++.+..
T Consensus       145 ~~~~l~~aL~s--R~~-v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~-Gd~R~lln~Le~a~~  220 (447)
T 3pvs_A          145 PSFELNSALLS--RAR-VYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVN-GDARRALNTLEMMAD  220 (447)
T ss_dssp             GGGSSCHHHHT--TEE-EEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHC-SCHHHHHHHHHHHHH
T ss_pred             cccccCHHHhC--cee-EEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCC-CCHHHHHHHHHHHHH
Confidence            45688999999  886 788999999999999998877632       11 1222666777755 456777777776654


Q ss_pred             HHHHhcccccccccceeeeHhhHHhhhhh
Q 013506          243 SAVKRSSDANECAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~e~~~~~~~~  271 (441)
                      .+...      ..+...++.+++......
T Consensus       221 ~a~~~------~~~~~~It~e~v~~~l~~  243 (447)
T 3pvs_A          221 MAEVD------DSGKRVLKPELLTEIAGE  243 (447)
T ss_dssp             HSCBC------TTSCEECCHHHHHHHHTC
T ss_pred             hcccc------cCCCCccCHHHHHHHHhh
Confidence            33110      012235777777766553

>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=1e-17  Score=155.71  Aligned_cols=228  Identities=19%  Similarity=0.285  Sum_probs=144.2

Q ss_pred             cccchHHHHHHHHHHHHhhccCchHHHh-cCC-CCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccc-cccc
Q 013506           20 AIGGNRAAVEALRELITFPLLYSSQAQK-LGL-KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA-HVGE   96 (441)
Q Consensus        20 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~-~~~-~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~-~~~~   96 (441)
                      .++|++.+++.|...+............ ... .++.+++|+||||||||++|+++++.++.+++.+++..+... +.+.
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            3799999999999988543221111000 011 256799999999999999999999999999999998876543 3333


Q ss_pred             h-HHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCc----hhhHHHHHHHHHHHhcCCC-------C--------
Q 013506           97 S-EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR----EQDVRIASQLFTLMDSNKP-------S--------  156 (441)
Q Consensus        97 ~-~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~----~~~~~~~~~l~~~~~~~~~-------~--------  156 (441)
                      . ...+...+...........+++|||||+|.+.+......    .....++..|+..++....       .        
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            2 233444544431111112368999999999876643221    1122478888888883210       0        


Q ss_pred             CCCCCeEEEEEEcCCC----------Cc-----------------------------------cCHHHhhCCccceEEEe
Q 013506          157 KTSVPHVVVVASTNRV----------DA-----------------------------------IDPALRRSGRFDAEVEV  191 (441)
Q Consensus       157 ~~~~~~~~vi~~~~~~----------~~-----------------------------------l~~~l~~~~r~~~~i~~  191 (441)
                      .....++++|++++..          ..                                   +.|.+.+  ||+..+.+
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            0011244555555532          11                                   6788888  99988999


Q ss_pred             cCCCHHHHHHHHHH----Hhc-------cCCCCCcc---cHHHHHH--HCCCCCHHHHHHHHHHHHHHHHHhcc
Q 013506          192 TVPTAEERFEILKL----YTK-------KVPLDANV---DLEAIAT--SCNGYVGADLEALCREATMSAVKRSS  249 (441)
Q Consensus       192 ~~p~~~~~~~il~~----~~~-------~~~~~~~~---~~~~l~~--~~~g~~~~~i~~l~~~a~~~~~~~~~  249 (441)
                      ++|+.+++.+|+..    +..       ........   .++.++.  ....+..|.++++++.+....+.+..
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            99999999998875    211       11221111   2455554  23456678999999998887776554

>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=99.71  E-value=2.4e-16  Score=144.45  Aligned_cols=195  Identities=23%  Similarity=0.278  Sum_probs=138.4

Q ss_pred             ccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccc
Q 013506           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (441)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~   94 (441)
                      ...+++++|.+..++.+.+.+....       .. -..+.+++|+||||||||++++.++..++.+++.+++..+..   
T Consensus         8 p~~~~~~ig~~~~~~~l~~~l~~~~-------~~-~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~---   76 (324)
T 1hqc_A            8 PKTLDEYIGQERLKQKLRVYLEAAK-------AR-KEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK---   76 (324)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHHH-------HH-CSCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCS---
T ss_pred             cccHHHhhCHHHHHHHHHHHHHHHH-------cc-CCCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCC---
Confidence            3567999999999999998875421       00 124578999999999999999999999999999888766432   


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----C---C----CCCe
Q 013506           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----K---T----SVPH  162 (441)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~---~----~~~~  162 (441)
                         ...+...+..     ....+++|||||++.+.          ...+..++..++.....     .   .    ..++
T Consensus        77 ---~~~l~~~l~~-----~~~~~~~l~lDEi~~l~----------~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~  138 (324)
T 1hqc_A           77 ---PGDLAAILAN-----SLEEGDILFIDEIHRLS----------RQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPR  138 (324)
T ss_dssp             ---HHHHHHHHTT-----TCCTTCEEEETTTTSCC----------HHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCC
T ss_pred             ---hHHHHHHHHH-----hccCCCEEEEECCcccc----------cchHHHHHHHHHhhhhHHhccccccccccccCCCC
Confidence               1222222221     12357899999999873          24456666666643200     0   0    1135


Q ss_pred             EEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCHHHHHHHHHHHH
Q 013506          163 VVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREAT  241 (441)
Q Consensus       163 ~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~~~i~~l~~~a~  241 (441)
                      +.+|+++|.+..+++.+.+  ||...+.+++|+.+++.+++..++.......+ ..++.++..+.| +++.+..+++.+.
T Consensus       139 ~~~i~~t~~~~~~~~~l~~--R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G-~~r~l~~~l~~~~  215 (324)
T 1hqc_A          139 FTLIGATTRPGLITAPLLS--RFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRG-TMRVAKRLFRRVR  215 (324)
T ss_dssp             CEEEEEESCCSSCSCSTTT--TCSCEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHSCS-CHHHHHHHHHHHT
T ss_pred             EEEEEeCCCcccCCHHHHh--cccEEEecCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHccC-CHHHHHHHHHHHH
Confidence            7899999999999999988  99779999999999999999988876554433 236777777754 5677777766553

>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=99.70  E-value=2.5e-15  Score=129.91  Aligned_cols=187  Identities=19%  Similarity=0.204  Sum_probs=127.9

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEccCccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVH   90 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l-----~~~~~~v~~~~~~   90 (441)
                      ..+++++|.++.++.+.+++...             ...+++|+||+|||||++++.+++.+     ...++.+++....
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            45689999999999999987541             23459999999999999999999876     2346666654322


Q ss_pred             cccccchHHHHHHHHHHHHhh--hhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEE
Q 013506           91 KAHVGESEKALREAFSQASSH--ALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (441)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~  168 (441)
                      .      ...+...+......  ....++.+|+|||++.+.+          .....+...++...      .++.+|++
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      11222222222211  1124578999999998732          34556666666532      24678888


Q ss_pred             cCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCHHHHHHHHHHHH
Q 013506          169 TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREAT  241 (441)
Q Consensus       169 ~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~~~i~~l~~~a~  241 (441)
                      ++.+..+++.+.+  |+. .+.+++|+.++..+++...+.......+ ..++.++..+.| +.+.+.++++.+.
T Consensus       139 ~~~~~~~~~~l~~--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~l~~~l~~~~  208 (226)
T 2chg_A          139 CNYVSRIIEPIQS--RCA-VFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGG-DFRKAINALQGAA  208 (226)
T ss_dssp             ESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTT-CHHHHHHHHHHHH
T ss_pred             eCChhhcCHHHHH--hCc-eeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHH
Confidence            8998899999998  886 8999999999999999987765444322 235666666654 5565555555544

>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=99.69  E-value=2.2e-15  Score=132.34  Aligned_cols=188  Identities=18%  Similarity=0.233  Sum_probs=131.3

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcE--------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL--------------   81 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~--------------   81 (441)
                      ..+++++|.+..++.|.+++...            ..+..++|+||+|+|||++++.+++.+....              
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            55689999999999999887541            2345899999999999999999998874321              


Q ss_pred             ----------EEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           82 ----------TVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        82 ----------~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                                +.++...      ......+..++.........+++.+|+|||++.+          +......++..++
T Consensus        88 ~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l----------~~~~~~~l~~~l~  151 (250)
T 1njg_A           88 EIEQGRFVDLIEIDAAS------RTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHML----------SRHSFNALLKTLE  151 (250)
T ss_dssp             HHHTTCCSSEEEEETTC------GGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGS----------CHHHHHHHHHHHH
T ss_pred             HHhccCCcceEEecCcc------cccHHHHHHHHHHhhhchhcCCceEEEEECcccc----------cHHHHHHHHHHHh
Confidence                      1111110      1122233444433322222345789999999986          2345667777776


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~  230 (441)
                      ...      .++.+|.+++.+..+++.+.+  |+ ..+.+++++.++..+++...+.......+ ..++.++..+.| ++
T Consensus       152 ~~~------~~~~~i~~t~~~~~~~~~l~~--r~-~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G-~~  221 (250)
T 1njg_A          152 EPP------EHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEG-SL  221 (250)
T ss_dssp             SCC------TTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHTT-CH
T ss_pred             cCC------CceEEEEEeCChHhCCHHHHH--Hh-hhccCCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCC-CH
Confidence            532      257888888888889999888  76 58999999999999999988766544322 336778888866 78


Q ss_pred             HHHHHHHHHHH
Q 013506          231 ADLEALCREAT  241 (441)
Q Consensus       231 ~~i~~l~~~a~  241 (441)
                      +.+..+++.+.
T Consensus       222 ~~~~~~~~~~~  232 (250)
T 1njg_A          222 RDALSLTDQAI  232 (250)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            88888777664

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.69  E-value=1.8e-16  Score=144.38  Aligned_cols=209  Identities=16%  Similarity=0.225  Sum_probs=138.2

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCcccccccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~   95 (441)
                      ++++|++.+++.+...+.......    .-.-.+..+++|+||||||||++|+++++.+   +.+++.+++..+..... 
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~~~----~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~~-   91 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARAGL----KDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHA-   91 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTC----SCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTTH-
T ss_pred             hhcCCHHHHHHHHHHHHHHHhcCC----CCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeeccccccccc-
Confidence            468999999999999885421100    0011234689999999999999999999987   44588888766543210 


Q ss_pred             chHHHH-----------HHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----CCC
Q 013506           96 ESEKAL-----------REAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTS  159 (441)
Q Consensus        96 ~~~~~~-----------~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~~  159 (441)
                       ....+           ...+.....   ...+++|||||++.+          +...+..|+..++.....     ...
T Consensus        92 -~~~l~g~~~~~~~~~~~~~~~~~~~---~~~~~vl~lDEi~~l----------~~~~~~~Ll~~le~~~~~~~~~~~~~  157 (311)
T 4fcw_A           92 -VSRLIGAPPGYVGYEEGGQLTEAVR---RRPYSVILFDAIEKA----------HPDVFNILLQMLDDGRLTDSHGRTVD  157 (311)
T ss_dssp             -HHHHHCCCTTSTTTTTCCHHHHHHH---HCSSEEEEEETGGGS----------CHHHHHHHHHHHHHSEEECTTSCEEE
T ss_pred             -HHHhcCCCCccccccccchHHHHHH---hCCCeEEEEeChhhc----------CHHHHHHHHHHHhcCEEEcCCCCEEE
Confidence             00000           011111111   123589999999987          336677888887753311     112


Q ss_pred             CCeEEEEEEcCC--------------------------CCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccC---
Q 013506          160 VPHVVVVASTNR--------------------------VDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV---  210 (441)
Q Consensus       160 ~~~~~vi~~~~~--------------------------~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~---  210 (441)
                      ..++++|+++|.                          ...+++.+.+  ||+..+.+++|+.+++..|+..++...   
T Consensus       158 ~~~~iiI~ttn~~~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~--R~~~~~~~~p~~~~~~~~i~~~~l~~~~~~  235 (311)
T 4fcw_A          158 FRNTVIIMTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQIRQIVEIQMSYLRAR  235 (311)
T ss_dssp             CTTEEEEEEESTTHHHHHTTTTSCCCSSTHHHHTHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHTHHHHHH
T ss_pred             CCCcEEEEecccCHHHHHhhhcccccHHHHHHHHHHHHHHhCCHHHHh--cCCeEEEeCCCCHHHHHHHHHHHHHHHHHH
Confidence            235679999998                          4467888888  998899999999999999998766542   


Q ss_pred             ----CCCC---cccHHHHHHHCC--CCCHHHHHHHHHHHHHHHHHhc
Q 013506          211 ----PLDA---NVDLEAIATSCN--GYVGADLEALCREATMSAVKRS  248 (441)
Q Consensus       211 ----~~~~---~~~~~~l~~~~~--g~~~~~i~~l~~~a~~~~~~~~  248 (441)
                          ....   +..++.++....  ..+.++++++++.+...+..+.
T Consensus       236 ~~~~~~~~~~~~~~~~~l~~~~~~~~gn~R~L~~~i~~~~~~~~~~~  282 (311)
T 4fcw_A          236 LAEKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQK  282 (311)
T ss_dssp             HHTTTCEEEECHHHHHHHHHHSCBTTTBTTTHHHHHHHHTHHHHHHH
T ss_pred             HHhCCcEEEeCHHHHHHHHHhCCCccCCchhHHHHHHHHHHHHHHHH
Confidence                1111   122566666655  5778899999888776655443

>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=99.69  E-value=5.8e-16  Score=144.64  Aligned_cols=248  Identities=16%  Similarity=0.200  Sum_probs=144.7

Q ss_pred             cccc-cccchHHHHHHHHHHHHhhccCchHHH-----------------hcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           16 KAEE-AIGGNRAAVEALRELITFPLLYSSQAQ-----------------KLGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        16 ~~~~-~i~G~~~~~~~l~~~~~~~~~~~~~~~-----------------~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      ..|+ .++|++.+|+.|..++..++...+...                 .-...++.+++|+||||||||++|+.+++.+
T Consensus        17 ~~L~~~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           17 AVLDNYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             HHHHTTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHHhhHccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHh
Confidence            3344 489999999999988853322211100                 0112356789999999999999999999999


Q ss_pred             CCcEEEEccCcccc-ccccch-HHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC----chhhHHHHHHHHHHHh
Q 013506           78 GAHLTVISPHSVHK-AHVGES-EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMD  151 (441)
Q Consensus        78 ~~~~~~v~~~~~~~-~~~~~~-~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~----~~~~~~~~~~l~~~~~  151 (441)
                      +.+++.+++..+.. .+.+.. ...+...+...........+++|||||++.+.......    .......+..|+..++
T Consensus        97 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~Ll~~le  176 (376)
T 1um8_A           97 DIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVE  176 (376)
T ss_dssp             TCCEEEEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHH
T ss_pred             CCCEEEecchhhhhcCcCCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHHHhhhcCCCceecccchHHHHHHHHHHhh
Confidence            99999998877642 222221 22333333322111112247899999999987652211    0111236788888887


Q ss_pred             cCCCC-------C--------CCCCeEEEEEEcCC-----------------------------------------CCcc
Q 013506          152 SNKPS-------K--------TSVPHVVVVASTNR-----------------------------------------VDAI  175 (441)
Q Consensus       152 ~~~~~-------~--------~~~~~~~vi~~~~~-----------------------------------------~~~l  175 (441)
                      .....       .        ....++++|+++|.                                         ...+
T Consensus       177 ~~~~~~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~~~l~~~l~~R~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~  256 (376)
T 1um8_A          177 GSLVNIPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGL  256 (376)
T ss_dssp             CCEEC---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTC
T ss_pred             ccceecccccccccCCcceEEEecCCeEEEecCCHHHHHHHHHHHhcccccCCCchhhhccchhHHHhhcCHHHHhhcCC
Confidence            53100       0        00124566766652                                         1135


Q ss_pred             CHHHhhCCccceEEEecCCCHHHHHHHHHH----Hhc-------cCCCCC---cccHHHHHHHCC--CCCHHHHHHHHHH
Q 013506          176 DPALRRSGRFDAEVEVTVPTAEERFEILKL----YTK-------KVPLDA---NVDLEAIATSCN--GYVGADLEALCRE  239 (441)
Q Consensus       176 ~~~l~~~~r~~~~i~~~~p~~~~~~~il~~----~~~-------~~~~~~---~~~~~~l~~~~~--g~~~~~i~~l~~~  239 (441)
                      .+.+.+  |++.++.|++++.++..+|+..    ++.       ......   +..++.++....  ..+.+.+.++++.
T Consensus       257 ~p~l~~--R~~~~i~~~~l~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~le~  334 (376)
T 1um8_A          257 IPELIG--RLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIED  334 (376)
T ss_dssp             CHHHHT--TCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHHHHH
T ss_pred             ChHHhc--CCCceeeccCCCHHHHHHHHhhhHHHHHHHHHHHHhhcCceEEECHHHHHHHHHHhcccccCcHHHHHHHHH
Confidence            677887  8988899999999999998862    111       111111   112455555533  3567899999988


Q ss_pred             HHHHHHHhcccccccccceeeeHhhHHh
Q 013506          240 ATMSAVKRSSDANECAGVLSVTMEDWRH  267 (441)
Q Consensus       240 a~~~~~~~~~~~~~~~~~~~~~~e~~~~  267 (441)
                      +...++.+....  ......++.+++..
T Consensus       335 ~~~~~~~~~~~~--~~~~~~i~~~~v~~  360 (376)
T 1um8_A          335 FCLDIMFDLPKL--KGSEVRITKDCVLK  360 (376)
T ss_dssp             HHHHHHHTGGGG--TTSEEEECHHHHTT
T ss_pred             HHHHHHhhccCC--CCCEEEEeHHHhcC
Confidence            887776654432  11234566666654

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.68  E-value=1.5e-16  Score=134.36  Aligned_cols=159  Identities=21%  Similarity=0.339  Sum_probs=108.6

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~v~   85 (441)
                      ..+++++|.++.++.+.+.+..             ..+.+++|+||||||||++++.+++.+          +.+++.++
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            4578999999999998887643             245789999999999999999999886          56777777


Q ss_pred             cCcccc--ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           86 PHSVHK--AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        86 ~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      +..+..  ...+.....+..++.....   ...+.+|+|||+|.+.+......  .......+...++..        ++
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            665442  2233334445555544332   24578999999999865432111  111233334444332        35


Q ss_pred             EEEEEcCCCC-----ccCHHHhhCCccceEEEecCCCHHHHHHHH
Q 013506          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEIL  203 (441)
Q Consensus       164 ~vi~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il  203 (441)
                      .+|++++.+.     .+++++.+  ||. .+.+++|+.+++.+|+
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            6777777665     67899998  997 7999999999998764

>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=99.68  E-value=9.6e-16  Score=140.33  Aligned_cols=177  Identities=19%  Similarity=0.283  Sum_probs=125.7

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      .++++++|++++++.|.+++..            -..++.+|++||||||||++++++++.++.+++++++....     
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            6789999999999999998853            12446788889999999999999999999999999876532     


Q ss_pred             chHHHHHHHHHHHH-hhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCc
Q 013506           96 ESEKALREAFSQAS-SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDA  174 (441)
Q Consensus        96 ~~~~~~~~~~~~~~-~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~  174 (441)
                        ...+...+.... .....+.+.++||||+|.+..         ......|+..++...      .++.+|+++|.+..
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              223333333322 222233578999999998830         345666777776532      14688889999999


Q ss_pred             cCHHHhhCCccceEEEecCCCHHHHHHHHHHH-------hccCCCCC-c-ccHHHHHHHCCCCC
Q 013506          175 IDPALRRSGRFDAEVEVTVPTAEERFEILKLY-------TKKVPLDA-N-VDLEAIATSCNGYV  229 (441)
Q Consensus       175 l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~-------~~~~~~~~-~-~~~~~l~~~~~g~~  229 (441)
                      +++++.+  ||. .+.|++|+.+++.+++..+       +....... + ..+..++..+.|..
T Consensus       149 l~~~l~s--R~~-~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~gd~  209 (324)
T 3u61_B          149 IIKPLQS--RCR-VITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDF  209 (324)
T ss_dssp             SCTTHHH--HSE-EEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHHHTCSCT
T ss_pred             cCHHHHh--hCc-EEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHhCCCCH
Confidence            9999999  885 7999999999876665433       22223332 2 34667777766543

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.67  E-value=1.2e-15  Score=136.38  Aligned_cols=167  Identities=12%  Similarity=0.085  Sum_probs=115.0

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC----------CcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG----------AHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~----------~~~~~v~   85 (441)
                      ..-+-+.|.|+..+.|..++...+.         -..+.+++|+||||||||++++.+++++.          ..+++++
T Consensus        17 ~~~~~L~~Re~E~~~i~~~L~~~i~---------~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~IN   87 (318)
T 3te6_A           17 QKRELLKSQVEDFTRIFLPIYDSLM---------SSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHID   87 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH---------TTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEE
T ss_pred             CCccccCCHHHHHHHHHHHHHHHhc---------CCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEe
Confidence            3334488999999998887754221         24678999999999999999999999882          3567888


Q ss_pred             cCcccccc----------------ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHH
Q 013506           86 PHSVHKAH----------------VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (441)
Q Consensus        86 ~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~  149 (441)
                      +....+..                .+.....+...|....  .....+.|+++||+|.+.         ..+++..++++
T Consensus        88 c~~~~t~~~~~~~I~~~L~g~~~~~~~~~~~L~~~f~~~~--~~~~~~~ii~lDE~d~l~---------~q~~L~~l~~~  156 (318)
T 3te6_A           88 ALELAGMDALYEKIWFAISKENLCGDISLEALNFYITNVP--KAKKRKTLILIQNPENLL---------SEKILQYFEKW  156 (318)
T ss_dssp             TTCCC--HHHHHHHHHHHSCCC--CCCCHHHHHHHHHHSC--GGGSCEEEEEEECCSSSC---------CTHHHHHHHHH
T ss_pred             ccccCCHHHHHHHHHHHhcCCCCCchHHHHHHHHHHHHhh--hccCCceEEEEecHHHhh---------cchHHHHHHhc
Confidence            76543321                1122334555554421  113457899999999986         12456666665


Q ss_pred             HhcCCCCCCCCCeEEEEEEcCCCCc----cCHHHhhCCccc-eEEEecCCCHHHHHHHHHHHhccC
Q 013506          150 MDSNKPSKTSVPHVVVVASTNRVDA----IDPALRRSGRFD-AEVEVTVPTAEERFEILKLYTKKV  210 (441)
Q Consensus       150 ~~~~~~~~~~~~~~~vi~~~~~~~~----l~~~l~~~~r~~-~~i~~~~p~~~~~~~il~~~~~~~  210 (441)
                      ....      ..++.+|+++|..+.    +++++.+  ||. ..+.|++|+.++..+|++..+...
T Consensus       157 ~~~~------~s~~~vI~i~n~~d~~~~~L~~~v~S--R~~~~~i~F~pYt~~el~~Il~~Rl~~~  214 (318)
T 3te6_A          157 ISSK------NSKLSIICVGGHNVTIREQINIMPSL--KAHFTEIKLNKVDKNELQQMIITRLKSL  214 (318)
T ss_dssp             HHCS------SCCEEEEEECCSSCCCHHHHHTCHHH--HTTEEEEECCCCCHHHHHHHHHHHHHHH
T ss_pred             cccc------CCcEEEEEEecCcccchhhcchhhhc--cCCceEEEeCCCCHHHHHHHHHHHHHhh
Confidence            4321      225889999988753    4556677  775 579999999999999999877653

>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=99.67  E-value=4.5e-17  Score=151.36  Aligned_cols=133  Identities=28%  Similarity=0.326  Sum_probs=98.1

Q ss_pred             ccCchhHHHHHHHHHhcccCCchhhhh--cCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh-ccCch
Q 013506          292 IGGLRDLKKKLQQAVEWPIKHSTAFSR--LGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM-YVGES  368 (441)
Q Consensus       292 i~g~~~~k~~l~~~~~~~~~~~~~~~~--~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~-~~g~~  368 (441)
                      +.|++.+++.+...+............  ....++.++||+||||||||++|+++|..++.+++.++++++... |+|+.
T Consensus        17 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~~~~l~~~~~~g~~   96 (363)
T 3hws_A           17 VIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGED   96 (363)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHTTCHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEechHHhccccccccc
Confidence            578888888887776422211111000  011256789999999999999999999999999999999998754 77776


Q ss_pred             -HHHHHHHHHHH----HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCC
Q 013506          369 -EALLRNTFQRA----RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL  424 (441)
Q Consensus       369 -~~~~~~~~~~a----~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~  424 (441)
                       ...++.+|..+    ....++||||||+|++.+.|.+.+.+.+....++.+.||+.||+.
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~  157 (363)
T 3hws_A           97 VENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGT  157 (363)
T ss_dssp             HTHHHHHHHHHTTTCHHHHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHhhhhHHhcCCcEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCc
Confidence             55677777765    345577999999999999887665555555667999999999953

>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=99.67  E-value=2.3e-15  Score=137.66  Aligned_cols=195  Identities=21%  Similarity=0.303  Sum_probs=125.2

Q ss_pred             ccccccc-c--hHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCcc
Q 013506           16 KAEEAIG-G--NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSV   89 (441)
Q Consensus        16 ~~~~~i~-G--~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~   89 (441)
                      .+|++++ |  +......+..++..+           -..+.+++|+||||||||++++.+++.+   +.+++++++..+
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            4678876 4  555566666655432           1245789999999999999999999988   788999987665


Q ss_pred             ccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEc
Q 013506           90 HKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST  169 (441)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~  169 (441)
                      ...............|....     .++++|||||++.+....        .....++..++.....    ...++++++
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            33222211111111121111     137899999999874311        2233344433321111    125666666


Q ss_pred             CCCC---ccCHHHhhCCccc--eEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCHHHHHHHHHHHHHH
Q 013506          170 NRVD---AIDPALRRSGRFD--AEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREATMS  243 (441)
Q Consensus       170 ~~~~---~l~~~l~~~~r~~--~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~~~i~~l~~~a~~~  243 (441)
                      +.+.   .+++++.+  ||.  ..+.+++ +.+++.+++...+.......+ ..++.++..+  .+.+.+..++..+...
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--KNVREIEGKIKLIKLK  214 (324)
T ss_dssp             SCGGGCTTSCHHHHH--HHHTSEEEECCC-CHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC--SSHHHHHHHHHHHHHH
T ss_pred             CChHHHHHhhhHhhh--cccCceEEEeCC-CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhC--CCHHHHHHHHHHHHHc
Confidence            6665   67899998  885  6799999 999999999998876554433 2367778777  5677777777766544

>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=99.65  E-value=5.9e-15  Score=135.37  Aligned_cols=186  Identities=21%  Similarity=0.248  Sum_probs=127.0

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC-----cEEEEccCccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HLTVISPHSVH   90 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~-----~~~~v~~~~~~   90 (441)
                      ..+++++|++++++.|..++...             ...+++|+||||||||++++.+++.+..     .++.+++.+..
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            55789999999999999887541             2236999999999999999999988632     35666654321


Q ss_pred             cccccchHHHHHHHHHHHH-hhhhc-CCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEE
Q 013506           91 KAHVGESEKALREAFSQAS-SHALS-GKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (441)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~-~~~~~-~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~  168 (441)
                      .      ...+........ ..... +++.+++|||+|.+.          ......|+..++...      .++.+|.+
T Consensus        89 ~------~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~----------~~~~~~L~~~le~~~------~~~~~i~~  146 (327)
T 1iqp_A           89 G------INVIREKVKEFARTKPIGGASFKIIFLDEADALT----------QDAQQALRRTMEMFS------SNVRFILS  146 (327)
T ss_dssp             H------HHTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSC----------HHHHHHHHHHHHHTT------TTEEEEEE
T ss_pred             c------hHHHHHHHHHHHhhCCcCCCCCeEEEEeCCCcCC----------HHHHHHHHHHHHhcC------CCCeEEEE
Confidence            1      111111121111 11112 457899999999872          245667777777632      24678888


Q ss_pred             cCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCHHHHHHHHHHH
Q 013506          169 TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREA  240 (441)
Q Consensus       169 ~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~~~i~~l~~~a  240 (441)
                      ++.+..+.+.+.+  |+. .+.+++++.++..+++...+.......+ ..++.++..+.| +.+.+.++++.+
T Consensus       147 ~~~~~~l~~~l~s--r~~-~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~  215 (327)
T 1iqp_A          147 CNYSSKIIEPIQS--RCA-IFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEG-DMRRAINILQAA  215 (327)
T ss_dssp             ESCGGGSCHHHHH--TEE-EEECCCCCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTT-CHHHHHHHHHHH
T ss_pred             eCCccccCHHHHh--hCc-EEEecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHCCC-CHHHHHHHHHHH
Confidence            8988899999998  886 8999999999999999988776554322 235666766654 455554554433

>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=99.65  E-value=2.5e-15  Score=142.37  Aligned_cols=217  Identities=18%  Similarity=0.206  Sum_probs=134.7

Q ss_pred             ccccccc-c--hHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEccC
Q 013506           16 KAEEAIG-G--NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPH   87 (441)
Q Consensus        16 ~~~~~i~-G--~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l-----~~~~~~v~~~   87 (441)
                      .+|++++ |  ...+...+..+...+          + . +.+++|+||||||||++++++++.+     +.+++++++.
T Consensus       102 ~tfd~fv~g~~n~~a~~~~~~~a~~~----------~-~-~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~  169 (440)
T 2z4s_A          102 YTFENFVVGPGNSFAYHAALEVAKHP----------G-R-YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSE  169 (440)
T ss_dssp             CSGGGCCCCTTTHHHHHHHHHHHHST----------T-S-SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHH
T ss_pred             CChhhcCCCCchHHHHHHHHHHHhCC----------C-C-CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHH
Confidence            3678877 5  333444444443321          1 1 5789999999999999999999987     6778888876


Q ss_pred             ccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEE
Q 013506           88 SVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVA  167 (441)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~  167 (441)
                      .+...............|....    ..++++|||||++.+....        .....++..++.....    +..++++
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~----~~~~~vL~IDEi~~l~~~~--------~~q~~l~~~l~~l~~~----~~~iIit  233 (440)
T 2z4s_A          170 KFLNDLVDSMKEGKLNEFREKY----RKKVDILLIDDVQFLIGKT--------GVQTELFHTFNELHDS----GKQIVIC  233 (440)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHH----TTTCSEEEEECGGGGSSCH--------HHHHHHHHHHHHHHTT----TCEEEEE
T ss_pred             HHHHHHHHHHHcccHHHHHHHh----cCCCCEEEEeCcccccCCh--------HHHHHHHHHHHHHHHC----CCeEEEE
Confidence            6432211111100001111111    1258899999999885321        2334444444332111    1346666


Q ss_pred             EcCCCCc---cCHHHhhCCccc--eEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCHHHHHHHHHHHH
Q 013506          168 STNRVDA---IDPALRRSGRFD--AEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREAT  241 (441)
Q Consensus       168 ~~~~~~~---l~~~l~~~~r~~--~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~~~i~~l~~~a~  241 (441)
                      +.+++..   +++++.+  ||.  ..+.+++|+.+++.+|+...+.......+ ..+..++..+. .+.+++..+++.+.
T Consensus       234 t~~~~~~l~~l~~~L~s--R~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~~e~l~~la~~~~-gn~R~l~~~L~~~~  310 (440)
T 2z4s_A          234 SDREPQKLSEFQDRLVS--RFQMGLVAKLEPPDEETRKSIARKMLEIEHGELPEEVLNFVAENVD-DNLRRLRGAIIKLL  310 (440)
T ss_dssp             ESSCGGGCSSCCHHHHH--HHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHCC-SCHHHHHHHHHHHH
T ss_pred             ECCCHHHHHHHHHHHHh--hccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcC-CCHHHHHHHHHHHH
Confidence            6665554   7899998  885  67899999999999999988765443322 23677887776 47888888888877


Q ss_pred             HHHHHhcccccccccceeeeHhhHHhhhhhc
Q 013506          242 MSAVKRSSDANECAGVLSVTMEDWRHARSVV  272 (441)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~  272 (441)
                      ..+....         ..++.+++..++...
T Consensus       311 ~~a~~~~---------~~It~~~~~~~l~~~  332 (440)
T 2z4s_A          311 VYKETTG---------KEVDLKEAILLLKDF  332 (440)
T ss_dssp             HHHHHSS---------SCCCHHHHHHHTSTT
T ss_pred             HHHHHhC---------CCCCHHHHHHHHHHH
Confidence            6554321         136677776665543

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.64  E-value=5.8e-15  Score=150.16  Aligned_cols=204  Identities=17%  Similarity=0.228  Sum_probs=137.3

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCcccccccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~   95 (441)
                      +.++|++.+++.+.+.+.......    ...-.+..++||+||||||||++|++++..+   +.+++.+++..+......
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~----~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~~~~~  566 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGL----KDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHST  566 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTC----SCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCSSCCC
T ss_pred             CcCcChHHHHHHHHHHHHHHHccc----CCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEechhccccccc
Confidence            569999999999999886522110    0001222479999999999999999999987   578999999888766544


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCCeEEEEEEcC
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVPHVVVVASTN  170 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~~~~~~~vi~~~~  170 (441)
                      . ...+..   ....    ..+++|||||++.+          +...+..|+..++.....     .....++++|+|+|
T Consensus       567 ~-~~~l~~---~~~~----~~~~vl~lDEi~~~----------~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn  628 (758)
T 3pxi_A          567 S-GGQLTE---KVRR----KPYSVVLLDAIEKA----------HPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSN  628 (758)
T ss_dssp             C----CHH---HHHH----CSSSEEEEECGGGS----------CHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEES
T ss_pred             c-cchhhH---HHHh----CCCeEEEEeCcccc----------CHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCC
Confidence            3 111111   1111    23689999999977          346788888888763321     12234678899998


Q ss_pred             CCCc------------cCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccC-------CCCCcc---cHHHHHHHC--C
Q 013506          171 RVDA------------IDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV-------PLDANV---DLEAIATSC--N  226 (441)
Q Consensus       171 ~~~~------------l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~-------~~~~~~---~~~~l~~~~--~  226 (441)
                      .+..            +.|.+.+  ||+.++.|++|+.+++.+|+..++...       ......   ..+.++...  .
T Consensus       629 ~~~~~~~~~~~~~~~~f~p~l~~--Rl~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~  706 (758)
T 3pxi_A          629 VGASEKDKVMGELKRAFRPEFIN--RIDEIIVFHSLEKKHLTEIVSLMSDQLTKRLKEQDLSIELTDAAKAKVAEEGVDL  706 (758)
T ss_dssp             SSTTCCHHHHHHHHHHSCHHHHT--TSSEEEECC--CHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHHHHHHHGGGCCT
T ss_pred             CChhhHHHHHHHHHhhCCHHHHh--hCCeEEecCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEEECHHHHHHHHHhCCCC
Confidence            6543            7888988  998899999999999999988765442       111112   245555432  3


Q ss_pred             CCCHHHHHHHHHHHHHHHHH
Q 013506          227 GYVGADLEALCREATMSAVK  246 (441)
Q Consensus       227 g~~~~~i~~l~~~a~~~~~~  246 (441)
                      .++.+.++++++.+....+.
T Consensus       707 ~~~~R~L~~~i~~~v~~~l~  726 (758)
T 3pxi_A          707 EYGARPLRRAIQKHVEDRLS  726 (758)
T ss_dssp             TTTTTTHHHHHHHHTHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHH
Confidence            46778888888876655544

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=99.63  E-value=1.5e-14  Score=155.26  Aligned_cols=119  Identities=18%  Similarity=0.194  Sum_probs=88.5

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhh----hhcc------------CchHHHHHHHHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELY----SMYV------------GESEALLRNTFQRAR  380 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~----~~~~------------g~~~~~~~~~~~~a~  380 (441)
                      ++.++.+++|+||||||||++|.+++...   |..+..++..+..    .+..            ...++.++.++..++
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            57788899999999999999999887665   4455555544321    1112            245667777888888


Q ss_pred             hcCCeEEEEeccccccccc---CCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeeee
Q 013506          381 LAAPSIIFFDEADVVGAKR---GGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFIF  438 (441)
Q Consensus       381 ~~~~~vl~iDE~d~~~~~r---~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~~  438 (441)
                      ...+++|||||++.+.|.+   +..+++..+...|+++++|.+|.+...+..|+++.+|.-
T Consensus      1503 ~~~~~lVVIDsi~al~p~~~~~g~~~~~~~~~~~R~lsqlL~~L~~~~~~~~v~VI~tNq~ 1563 (2050)
T 3cmu_A         1503 SGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQI 1563 (2050)
T ss_dssp             HTCCSEEEESCGGGCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHTTTCEEEEEECE
T ss_pred             cCCCCEEEEcChhHhcccccccccccccccchHHHHHHHHHHHHHHHHHhCCcEEEEEccc
Confidence            8999999999999988853   332222222357899999999999999999999999863

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.63  E-value=6.6e-15  Score=135.13  Aligned_cols=161  Identities=19%  Similarity=0.258  Sum_probs=109.9

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc--cc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK--AH   93 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~--~~   93 (441)
                      ..+++++|++.+++.+...+..               +.+++|+||||||||++++.+++.++.+++.+++.....  ..
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            4457899999999988877643               368999999999999999999999999988877632110  00


Q ss_pred             ccchHHHHHHHHHHHHh--hhhcC--CCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCCeEE
Q 013506           94 VGESEKALREAFSQASS--HALSG--KPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVPHVV  164 (441)
Q Consensus        94 ~~~~~~~~~~~~~~~~~--~~~~~--~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~~~~~~~  164 (441)
                      .+..      .+.....  ....+  ..++|||||+|.+          +...+..|+..++.....     ......++
T Consensus        89 ~g~~------~~~~~~~~~~~~~g~l~~~vl~iDEi~~~----------~~~~~~~Ll~~l~~~~~~~~g~~~~~~~~~~  152 (331)
T 2r44_A           89 IGTM------IYNQHKGNFEVKKGPVFSNFILADEVNRS----------PAKVQSALLECMQEKQVTIGDTTYPLDNPFL  152 (331)
T ss_dssp             HEEE------EEETTTTEEEEEECTTCSSEEEEETGGGS----------CHHHHHHHHHHHHHSEEEETTEEEECCSSCE
T ss_pred             CCce------eecCCCCceEeccCcccccEEEEEccccC----------CHHHHHHHHHHHhcCceeeCCEEEECCCCEE
Confidence            0000      0000000  00000  1369999999986          335566777777643110     01122467


Q ss_pred             EEEEcCCCC-----ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhcc
Q 013506          165 VVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKK  209 (441)
Q Consensus       165 vi~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~  209 (441)
                      +++|+|+.+     .+++++.+  ||...+.++.|+.+++.+|++.....
T Consensus       153 viat~np~~~~~~~~l~~~l~~--Rf~~~i~i~~p~~~~~~~il~~~~~~  200 (331)
T 2r44_A          153 VLATQNPVEQEGTYPLPEAQVD--RFMMKIHLTYLDKESELEVMRRVSNM  200 (331)
T ss_dssp             EEEEECTTCCSCCCCCCHHHHT--TSSEEEECCCCCHHHHHHHHHHHHCT
T ss_pred             EEEecCCCcccCcccCCHHHHh--heeEEEEcCCCCHHHHHHHHHhcccc
Confidence            888888654     38999999  99878999999999999999987664

>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=99.63  E-value=5.8e-14  Score=128.50  Aligned_cols=216  Identities=21%  Similarity=0.249  Sum_probs=142.8

Q ss_pred             ccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccc
Q 013506           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHV   94 (441)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~   94 (441)
                      ..++++++|++.+++.+...+....       ..+ .++.+++|+|||||||||+++++++.++.++...++..+..   
T Consensus        21 ~~~l~~~~g~~~~~~~l~~~i~~~~-------~~~-~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~~~---   89 (334)
T 1in4_A           21 PKSLDEFIGQENVKKKLSLALEAAK-------MRG-EVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVK---   89 (334)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHHHH-------HHT-CCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCS---
T ss_pred             CccHHHccCcHHHHHHHHHHHHHHH-------hcC-CCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHhcC---
Confidence            3577899999999999887764310       001 23478999999999999999999999988877666543321   


Q ss_pred             cchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-------C-----CCCCe
Q 013506           95 GESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-------K-----TSVPH  162 (441)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-------~-----~~~~~  162 (441)
                         ...+...+..      .....|+||||++.+.+          ...+.++..++.....       .     ...+.
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      12367999999998742          2334444444332110       0     01134


Q ss_pred             EEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCHHHHHHHHHHHH
Q 013506          163 VVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVGADLEALCREAT  241 (441)
Q Consensus       163 ~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~~~i~~l~~~a~  241 (441)
                      +.++.+++.+..+++.+++  ||...+.+++++.+++.++++..........+. .+..++..+.| +++.+..+++.+.
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--RFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRG-TPRIAIRLTKRVR  227 (334)
T ss_dssp             CEEEEEESCGGGSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTT-CHHHHHHHHHHHH
T ss_pred             eEEEEecCCcccCCHHHHH--hcCceeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHhcCC-ChHHHHHHHHHHH
Confidence            6777889999999999999  998789999999999999999887665544332 36777777775 4577777777665


Q ss_pred             HHHHHhcccccccccceeeeHhhHHhhhhh
Q 013506          242 MSAVKRSSDANECAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~  271 (441)
                      ..+.....        ..++.+++..+...
T Consensus       228 ~~a~~~~~--------~~It~~~v~~al~~  249 (334)
T 1in4_A          228 DMLTVVKA--------DRINTDIVLKTMEV  249 (334)
T ss_dssp             HHHHHHTC--------SSBCHHHHHHHHHH
T ss_pred             HHHHHcCC--------CCcCHHHHHHHHHH
Confidence            54433211        23566666665554

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.62  E-value=2.2e-14  Score=134.88  Aligned_cols=222  Identities=21%  Similarity=0.181  Sum_probs=139.9

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---------CCcEEEEccCcc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---------GAHLTVISPHSV   89 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---------~~~~~~v~~~~~   89 (441)
                      ++++|.++.++.+..++.....         -..+.+++|+||||||||++++.+++.+         +..++++++...
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~---------~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~   89 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALR---------GEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHR   89 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTS---------SCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTS
T ss_pred             CCCCCHHHHHHHHHHHHHHHHc---------CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcC
Confidence            7899999999999987743211         1346789999999999999999999988         677888887653


Q ss_pred             cccc----------------ccchHHH-HHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhc
Q 013506           90 HKAH----------------VGESEKA-LREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDS  152 (441)
Q Consensus        90 ~~~~----------------~~~~~~~-~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~  152 (441)
                      ....                .+..... ...++....   ..+++.+|||||+|.+....     .....+..++...+.
T Consensus        90 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~---~~~~~~vlilDEi~~l~~~~-----~~~~~l~~l~~~~~~  161 (387)
T 2v1u_A           90 ETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLS---RLRGIYIIVLDEIDFLPKRP-----GGQDLLYRITRINQE  161 (387)
T ss_dssp             CSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHT---TSCSEEEEEEETTTHHHHST-----THHHHHHHHHHGGGC
T ss_pred             CCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHh---ccCCeEEEEEccHhhhcccC-----CCChHHHhHhhchhh
Confidence            2210                0111111 222222111   13447899999999884321     022444555554443


Q ss_pred             CCCCCCCCCeEEEEEEcCCC---CccCHHHhhCCccce-EEEecCCCHHHHHHHHHHHhcc--CCCC-CcccHHHHHHHC
Q 013506          153 NKPSKTSVPHVVVVASTNRV---DAIDPALRRSGRFDA-EVEVTVPTAEERFEILKLYTKK--VPLD-ANVDLEAIATSC  225 (441)
Q Consensus       153 ~~~~~~~~~~~~vi~~~~~~---~~l~~~l~~~~r~~~-~i~~~~p~~~~~~~il~~~~~~--~~~~-~~~~~~~l~~~~  225 (441)
                      ...    ..++.+|+++|.+   ..+++++.+  ||.. .+.+++|+.+++.+++...+..  .... .+..++.++..+
T Consensus       162 ~~~----~~~~~~I~~t~~~~~~~~l~~~l~~--r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~  235 (387)
T 2v1u_A          162 LGD----RVWVSLVGITNSLGFVENLEPRVKS--SLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALA  235 (387)
T ss_dssp             C---------CEEEEECSCSTTSSSSCHHHHT--TTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHH
T ss_pred             cCC----CceEEEEEEECCCchHhhhCHHHHh--cCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHH
Confidence            210    2257888888876   678899988  8864 8999999999999999987654  2222 222356666666


Q ss_pred             C--CCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhh
Q 013506          226 N--GYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       226 ~--g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~  271 (441)
                      .  ..+++.+..+++.+...+....        ...++.+++..+...
T Consensus       236 ~~~~G~~r~~~~~l~~a~~~a~~~~--------~~~i~~~~v~~a~~~  275 (387)
T 2v1u_A          236 AREHGDARRALDLLRVAGEIAERRR--------EERVRREHVYSARAE  275 (387)
T ss_dssp             HSSSCCHHHHHHHHHHHHHHHHHTT--------CSCBCHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHHHHHHcC--------CCCcCHHHHHHHHHH
Confidence            5  1356667777777765443321        123666676665543

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.62  E-value=2.2e-15  Score=144.12  Aligned_cols=150  Identities=19%  Similarity=0.360  Sum_probs=105.3

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~v~   85 (441)
                      ..+++++|.++.++.+.+.+..             ....++||+||||||||++++.++..+          +.+++.++
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            4678999999999999988754             245789999999999999999999987          56677776


Q ss_pred             cCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEE
Q 013506           86 PHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVV  165 (441)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v  165 (441)
                      +.   ..+.+.....+..++..+..    ..+.|||||  .            .......|+..++.        +.+.+
T Consensus       244 ~~---~~~~g~~e~~~~~~~~~~~~----~~~~iLfiD--~------------~~~a~~~L~~~L~~--------g~v~v  294 (468)
T 3pxg_A          244 MG---TKYRGEFEDRLKKVMDEIRQ----AGNIILFID--A------------AIDASNILKPSLAR--------GELQC  294 (468)
T ss_dssp             ------------CTTHHHHHHHHHT----CCCCEEEEC--C--------------------CCCTTS--------SSCEE
T ss_pred             CC---ccccchHHHHHHHHHHHHHh----cCCeEEEEe--C------------chhHHHHHHHhhcC--------CCEEE
Confidence            65   33344444556666666553    347899999  0            11233334444432        25789


Q ss_pred             EEEcCCCC-----ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccC
Q 013506          166 VASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV  210 (441)
Q Consensus       166 i~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~  210 (441)
                      |++||...     .+++++.+  ||. .+.++.|+.+++.+|++.+...+
T Consensus       295 I~at~~~e~~~~~~~~~al~~--Rf~-~i~v~~p~~e~~~~iL~~~~~~~  341 (468)
T 3pxg_A          295 IGATTLDEYRKYIEKDAALER--RFQ-PIQVDQPSVDESIQILQGLRDRY  341 (468)
T ss_dssp             EEECCTTTTHHHHTTCSHHHH--SEE-EEECCCCCHHHHHHHHHHTTTTS
T ss_pred             EecCCHHHHHHHhhcCHHHHH--hCc-cceeCCCCHHHHHHHHHHHHHHH
Confidence            99998876     68999999  997 69999999999999999877653

>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=99.62  E-value=1e-14  Score=133.24  Aligned_cols=187  Identities=20%  Similarity=0.218  Sum_probs=126.0

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEccCccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVH   90 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l-----~~~~~~v~~~~~~   90 (441)
                      ..+++++|++.+++.|.+++..             ....+++|+||||||||++++.+++.+     ..+++.+++....
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            5678999999999999887643             122349999999999999999999986     2346777765532


Q ss_pred             cccccchHHHHHHHHHHHHhhhh-cCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEc
Q 013506           91 KAHVGESEKALREAFSQASSHAL-SGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST  169 (441)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~  169 (441)
                      ..  ......+....   ..... .+++.+++|||+|.+.          ......|+..++..      .+++.+|.++
T Consensus        81 ~~--~~~~~~~~~~~---~~~~~~~~~~~vliiDe~~~l~----------~~~~~~L~~~le~~------~~~~~~i~~~  139 (319)
T 2chq_A           81 GI--DVVRHKIKEFA---RTAPIGGAPFKIIFLDEADALT----------ADAQAALRRTMEMY------SKSCRFILSC  139 (319)
T ss_dssp             CT--TTSSHHHHHHH---HSCCSSSCCCEEEEEETGGGSC----------HHHHHTTGGGTSSS------SSSEEEEEEE
T ss_pred             Ch--HHHHHHHHHHH---hcCCCCCCCceEEEEeCCCcCC----------HHHHHHHHHHHHhc------CCCCeEEEEe
Confidence            21  11111111111   11111 2457899999999873          23455555555542      2357888889


Q ss_pred             CCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCHHHHHHHHHHH
Q 013506          170 NRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVGADLEALCREA  240 (441)
Q Consensus       170 ~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~~~i~~l~~~a  240 (441)
                      |.+..+.+.+.+  |+. .+.+++|+.+++.+++...+.......+. .+..++..+.| +.+.+.+.++.+
T Consensus       140 ~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G-~~r~~~~~l~~~  207 (319)
T 2chq_A          140 NYVSRIIEPIQS--RCA-VFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGG-DFRKAINALQGA  207 (319)
T ss_dssp             SCGGGSCHHHHT--TCE-EEECCCCCHHHHHHHHHHHHHTTCCCBCHHHHHHHHHTTTT-CHHHHHHHHHHH
T ss_pred             CChhhcchHHHh--hCe-EEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Confidence            999999999998  886 89999999999999999888766554332 35666665544 445554544443

>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=2.7e-15  Score=125.77  Aligned_cols=152  Identities=21%  Similarity=0.349  Sum_probs=102.3

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~v~   85 (441)
                      ..+++++|.++..+.+.+.+..             ..+.+++|+||||||||++++.+++.+          +.+++.++
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            4678999999999888887633             245789999999999999999999987          56677776


Q ss_pred             cCcccc--ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           86 PHSVHK--AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        86 ~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      +..+..  ...+.....+..++......   ..+.+|||||++.+.+..... .........+...++..        ++
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~vl~iDe~~~l~~~~~~~-~~~~~~~~~l~~~~~~~--------~~  153 (187)
T 2p65_A           86 LSSLIAGAKYRGDFEERLKSILKEVQDA---EGQVVMFIDEIHTVVGAGAVA-EGALDAGNILKPMLARG--------EL  153 (187)
T ss_dssp             HHHHHHHCCSHHHHHHHHHHHHHHHHHT---TTSEEEEETTGGGGSSSSSSC-TTSCCTHHHHHHHHHTT--------CS
T ss_pred             HHHhhcCCCchhHHHHHHHHHHHHHHhc---CCceEEEEeCHHHhccccccc-ccchHHHHHHHHHHhcC--------Ce
Confidence            654431  12233333444444444322   357899999999986443211 10112344444444432        36


Q ss_pred             EEEEEcCCCC-----ccCHHHhhCCccceEEEecCCC
Q 013506          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPT  195 (441)
Q Consensus       164 ~vi~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~  195 (441)
                      .+|++++.+.     .+++++.+  ||. .+.++.|+
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            7788887654     68999999  998 58898885

>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=99.61  E-value=2e-14  Score=133.37  Aligned_cols=188  Identities=20%  Similarity=0.229  Sum_probs=128.7

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC------CcEEEEccCcc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG------AHLTVISPHSV   89 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~------~~~~~v~~~~~   89 (441)
                      ..+++++|++++++.|..++...             ...+++|+||||||||++++.+++.++      ..++.+++.+.
T Consensus        34 ~~~~~i~g~~~~~~~l~~~l~~~-------------~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~  100 (353)
T 1sxj_D           34 KNLDEVTAQDHAVTVLKKTLKSA-------------NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDE  100 (353)
T ss_dssp             SSTTTCCSCCTTHHHHHHHTTCT-------------TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSC
T ss_pred             CCHHHhhCCHHHHHHHHHHHhcC-------------CCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccc
Confidence            56799999999999999887431             123599999999999999999998864      35677776543


Q ss_pred             ccccccchHHHHHHHHHHHHh------------hhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCC
Q 013506           90 HKAHVGESEKALREAFSQASS------------HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK  157 (441)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  157 (441)
                      ..      ...+.........            ......+.+++|||+|.+.          ......++..++....  
T Consensus       101 ~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~----------~~~~~~Ll~~le~~~~--  162 (353)
T 1sxj_D          101 RG------ISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMT----------ADAQSALRRTMETYSG--  162 (353)
T ss_dssp             CC------HHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSC----------HHHHHHHHHHHHHTTT--
T ss_pred             cc------hHHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccC----------HHHHHHHHHHHHhcCC--
Confidence            11      1112221111111            0112345799999999873          2455677777776432  


Q ss_pred             CCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCC-cccHHHHHHHCCCCCHHHHHHH
Q 013506          158 TSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEAL  236 (441)
Q Consensus       158 ~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~-~~~~~~l~~~~~g~~~~~i~~l  236 (441)
                          +..+|.++|.+..+.+.+.+  |+. .+.+++|+.++...++...+....... +..++.++..+.|. .+.+.++
T Consensus       163 ----~~~~il~~~~~~~l~~~l~s--R~~-~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G~-~r~~~~~  234 (353)
T 1sxj_D          163 ----VTRFCLICNYVTRIIDPLAS--QCS-KFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAGD-LRRGITL  234 (353)
T ss_dssp             ----TEEEEEEESCGGGSCHHHHH--HSE-EEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSSC-HHHHHHH
T ss_pred             ----CceEEEEeCchhhCcchhhc--cCc-eEEeCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCC-HHHHHHH
Confidence                35666778888899999998  886 899999999999999998876554433 23367778877754 5555555


Q ss_pred             HHHHHH
Q 013506          237 CREATM  242 (441)
Q Consensus       237 ~~~a~~  242 (441)
                      ++.+..
T Consensus       235 l~~~~~  240 (353)
T 1sxj_D          235 LQSASK  240 (353)
T ss_dssp             HHHTHH
T ss_pred             HHHHHH
Confidence            555443

>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=99.61  E-value=2e-14  Score=125.73  Aligned_cols=188  Identities=13%  Similarity=0.105  Sum_probs=122.2

Q ss_pred             cccccccc---hHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC---CcEEEEccCcc
Q 013506           16 KAEEAIGG---NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---AHLTVISPHSV   89 (441)
Q Consensus        16 ~~~~~i~G---~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~---~~~~~v~~~~~   89 (441)
                      .+|++++|   .+.+.+.+..++..             ..+.+++|+||||||||++++.++..+.   .+++++++..+
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            56788886   34666666665532             2467999999999999999999998774   56778877665


Q ss_pred             ccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE-EEEEE
Q 013506           90 HKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV-VVVAS  168 (441)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~-~vi~~  168 (441)
                      ........        .      ...++.+|+|||++.+....        .....++..++.....    ..+ +++++
T Consensus        92 ~~~~~~~~--------~------~~~~~~vliiDe~~~~~~~~--------~~~~~l~~~l~~~~~~----~~~~ii~~~  145 (242)
T 3bos_A           92 ASISTALL--------E------GLEQFDLICIDDVDAVAGHP--------LWEEAIFDLYNRVAEQ----KRGSLIVSA  145 (242)
T ss_dssp             GGSCGGGG--------T------TGGGSSEEEEETGGGGTTCH--------HHHHHHHHHHHHHHHH----CSCEEEEEE
T ss_pred             HHHHHHHH--------H------hccCCCEEEEeccccccCCH--------HHHHHHHHHHHHHHHc----CCCeEEEEc
Confidence            44321110        0      01237899999999874311        1233344433321110    023 44444


Q ss_pred             cCCCC---ccCHHHhhCCccc--eEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCCHHHHHHHHHHHHH
Q 013506          169 TNRVD---AIDPALRRSGRFD--AEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       169 ~~~~~---~l~~~l~~~~r~~--~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                      +..+.   .+.+.+.+  ||.  ..+.+++|+.+++.+++...+.......+ ..++.++..+.| +.+.+..+++.+..
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   45588888  774  68999999999999999988876554333 236677777654 77888888887776


Q ss_pred             HHH
Q 013506          243 SAV  245 (441)
Q Consensus       243 ~~~  245 (441)
                      .+.
T Consensus       223 ~a~  225 (242)
T 3bos_A          223 ASM  225 (242)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            653

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.61  E-value=3.3e-15  Score=135.88  Aligned_cols=136  Identities=21%  Similarity=0.395  Sum_probs=103.3

Q ss_pred             cccCchhHHHHHHHHHhcccCCchhhhhcCC---CCCceEEEECCCCCcHHHHHHHHHHHc-------CCceEEechhhh
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGI---SPVRGALLHGPPGCSKTTLAKAAAHAA-------EASFFSLSGAEL  360 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~---~~~~~~ll~Gp~GtGKTtla~~la~~~-------~~~~~~i~~~~~  360 (441)
                      +++|++.+++.+.+.+..... .....+.++   .++.+++|+||||||||++|+++|..+       ..+++.++.+++
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~-~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l  110 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLV-ERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDL  110 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHH-HHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGT
T ss_pred             HccChHHHHHHHHHHHHHHHh-HHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHh
Confidence            689999999999988775332 222223332   345579999999999999999999988       348999999999


Q ss_pred             hhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          361 YSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .+.|.|.+...+..+|..+   .++||||||+|.+++.++.     .....++++.|++.|+.... ..++|+++|
T Consensus       111 ~~~~~g~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~-----~~~~~~~~~~Ll~~l~~~~~-~~~~i~~~~  177 (309)
T 3syl_A          111 VGQYIGHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNE-----RDYGQEAIEILLQVMENNRD-DLVVILAGY  177 (309)
T ss_dssp             CCSSTTCHHHHHHHHHHHH---TTSEEEEETGGGSCCCC--------CCTHHHHHHHHHHHHHCTT-TCEEEEEEC
T ss_pred             hhhcccccHHHHHHHHHhc---CCCEEEEEChhhhccCCCc-----ccccHHHHHHHHHHHhcCCC-CEEEEEeCC
Confidence            9999999999999999887   3569999999999865442     23356889999999996443 344455543

>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=99.61  E-value=2e-14  Score=134.94  Aligned_cols=215  Identities=19%  Similarity=0.151  Sum_probs=133.6

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh-----------CCcEEEEccC
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-----------GAHLTVISPH   87 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l-----------~~~~~~v~~~   87 (441)
                      ++++|.++.++.+.+++.....         -..+.+++|+||||||||++++.+++.+           +..++.+++.
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            7899999999999988754221         1345689999999999999999999987           7888888865


Q ss_pred             ccc-ccc--ccchHHHH------------HHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHH-HHHHHHHHh
Q 013506           88 SVH-KAH--VGESEKAL------------REAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRI-ASQLFTLMD  151 (441)
Q Consensus        88 ~~~-~~~--~~~~~~~~------------~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~-~~~l~~~~~  151 (441)
                      ... ...  .......+            ..++....... ...+.+|+|||+|.+.....      ... +..+.... 
T Consensus        91 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~~~~vlilDEi~~l~~~~~------~~~~l~~l~~~~-  162 (384)
T 2qby_B           91 EVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGT-RNIRAIIYLDEVDTLVKRRG------GDIVLYQLLRSD-  162 (384)
T ss_dssp             HHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHH-SSSCEEEEEETTHHHHHSTT------SHHHHHHHHTSS-
T ss_pred             cCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHh-ccCCCEEEEECHHHhccCCC------CceeHHHHhcCC-
Confidence            432 100  00000000            11122221111 12234999999998843210      122 33333222 


Q ss_pred             cCCCCCCCCCeEEEEEEcCCC---CccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCC--CC-CcccHHHHHHHC
Q 013506          152 SNKPSKTSVPHVVVVASTNRV---DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVP--LD-ANVDLEAIATSC  225 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~---~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~--~~-~~~~~~~l~~~~  225 (441)
                               .++.+|++++.+   ..+++++.+  ||...+.+++|+.++..+++...+....  .. .+..++.++..+
T Consensus       163 ---------~~~~iI~~t~~~~~~~~l~~~l~s--r~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~  231 (384)
T 2qby_B          163 ---------ANISVIMISNDINVRDYMEPRVLS--SLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAIS  231 (384)
T ss_dssp             ---------SCEEEEEECSSTTTTTTSCHHHHH--TCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHH
T ss_pred             ---------cceEEEEEECCCchHhhhCHHHHh--cCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHH
Confidence                     257888888876   678899988  8866999999999999999998776311  11 222356666665


Q ss_pred             CC--CCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhh
Q 013506          226 NG--YVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       226 ~g--~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~  271 (441)
                      ..  -+.+.+..+++.+...+.          +...++.+++..+...
T Consensus       232 ~~~~G~~r~a~~~l~~a~~~a~----------~~~~i~~~~v~~~~~~  269 (384)
T 2qby_B          232 AKEHGDARKAVNLLFRAAQLAS----------GGGIIRKEHVDKAIVD  269 (384)
T ss_dssp             HTTCCCHHHHHHHHHHHHHHTT----------SSSCCCHHHHHHHHHH
T ss_pred             HhccCCHHHHHHHHHHHHHHhc----------CCCccCHHHHHHHHHH
Confidence            51  345555566665543332          1224666776665543

>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=99.61  E-value=3.7e-14  Score=132.55  Aligned_cols=188  Identities=18%  Similarity=0.241  Sum_probs=131.5

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---------------
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---------------   80 (441)
                      ..+++++|++..++.|.+.+...            ..++.++|+||+|||||++++.+++.++..               
T Consensus        13 ~~~~~~vg~~~~~~~L~~~l~~~------------~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~   80 (373)
T 1jr3_A           13 QTFADVVGQEHVLTALANGLSLG------------RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCR   80 (373)
T ss_dssp             CSTTTSCSCHHHHHHHHHHHHHT------------CCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHH
T ss_pred             CchhhccCcHHHHHHHHHHHHhC------------CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHH
Confidence            45689999999999999987531            234679999999999999999999988542               


Q ss_pred             ---------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHh
Q 013506           81 ---------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMD  151 (441)
Q Consensus        81 ---------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~  151 (441)
                               ++.++....      .....+..++.........+++.+++|||+|.+          +......|+..++
T Consensus        81 ~~~~~~~~~~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l----------~~~~~~~Ll~~le  144 (373)
T 1jr3_A           81 EIEQGRFVDLIEIDAASR------TKVEDTRDLLDNVQYAPARGRFKVYLIDEVHML----------SRHSFNALLKTLE  144 (373)
T ss_dssp             HHHTSCCSSCEEEETTCS------CCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGS----------CHHHHHHHHHHHH
T ss_pred             HHhccCCCceEEeccccc------CCHHHHHHHHHHHhhccccCCeEEEEEECcchh----------cHHHHHHHHHHHh
Confidence                     222222110      011123444444433333455789999999987          2345677777777


Q ss_pred             cCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCH
Q 013506          152 SNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVG  230 (441)
Q Consensus       152 ~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~  230 (441)
                      ...      .++++|.+++.+..+.+.+.+  |+ ..+.+++|+.++..+++...+.......+. .+..++..+.| +.
T Consensus       145 ~~~------~~~~~Il~~~~~~~l~~~l~s--r~-~~i~~~~l~~~~~~~~l~~~~~~~~~~~~~~a~~~l~~~~~G-~~  214 (373)
T 1jr3_A          145 EPP------EHVKFLLATTDPQKLPVTILS--RC-LQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEG-SL  214 (373)
T ss_dssp             SCC------SSEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHSSS-CH
T ss_pred             cCC------CceEEEEEeCChHhCcHHHHh--he-eEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHCCC-CH
Confidence            532      257888888888888999988  77 489999999999999999887665444332 36677777765 66


Q ss_pred             HHHHHHHHHHH
Q 013506          231 ADLEALCREAT  241 (441)
Q Consensus       231 ~~i~~l~~~a~  241 (441)
                      +.+..+++.+.
T Consensus       215 r~~~~~l~~~~  225 (373)
T 1jr3_A          215 RDALSLTDQAI  225 (373)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77777766654

>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=99.60  E-value=5.9e-15  Score=136.76  Aligned_cols=165  Identities=28%  Similarity=0.336  Sum_probs=100.2

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEE----EccCcccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV----ISPHSVHK   91 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~----v~~~~~~~   91 (441)
                      .+|++++|+++.++.+......+             ...++||+||||||||+++++++..++.....    +++.....
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            45789999999887765443221             23469999999999999999999988631110    11111000


Q ss_pred             ---------------------ccccchHHHH------HHHHHHHHhhh-----hcCCCeEEEEccccccccCCCCCchhh
Q 013506           92 ---------------------AHVGESEKAL------REAFSQASSHA-----LSGKPSVVFIDEIDALCPRRDHRREQD  139 (441)
Q Consensus        92 ---------------------~~~~~~~~~~------~~~~~~~~~~~-----~~~~~~il~iDe~~~l~~~~~~~~~~~  139 (441)
                                           ...+.....+      ...+.......     ....+++|||||++.+.          
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~g~~~~~~~~~~~~~~~~~g~~~~a~~~vl~iDEi~~l~----------  157 (350)
T 1g8p_A           88 IPDWATVLSTNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLE----------  157 (350)
T ss_dssp             SCTTCCCSCCCEEEECCCEEEECTTCCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSC----------
T ss_pred             ccchhhhhccccccCCCcccccCCCcchhhheeechhhhhhcCCceeecCceeeecCCCEEEEeChhhCC----------
Confidence                                 0011111111      11111110000     01136899999999873          


Q ss_pred             HHHHHHHHHHHhcCC----CCCC---CCCeEEEEEEcCCCC-ccCHHHhhCCccceEEEecCC-CHHHHHHHHHH
Q 013506          140 VRIASQLFTLMDSNK----PSKT---SVPHVVVVASTNRVD-AIDPALRRSGRFDAEVEVTVP-TAEERFEILKL  205 (441)
Q Consensus       140 ~~~~~~l~~~~~~~~----~~~~---~~~~~~vi~~~~~~~-~l~~~l~~~~r~~~~i~~~~p-~~~~~~~il~~  205 (441)
                      ...+..|+..++...    ....   ...++++|+++|+.. .+++++.+  ||...+.+++| +.+++.+|+..
T Consensus       158 ~~~~~~Ll~~le~~~~~~~~~g~~~~~~~~~~li~~~n~~~~~l~~~L~~--R~~~~~~l~~~~~~~~~~~il~~  230 (350)
T 1g8p_A          158 DHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLD--RFGLSVEVLSPRDVETRVEVIRR  230 (350)
T ss_dssp             HHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHT--TCSEEEECCCCCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCceEEEecceEEeeCCceEEEEEeCCCCCCCCHHHHh--hcceEEEcCCCCcHHHHHHHHHH
Confidence            345667777766421    1100   112588999999754 89999999  99877999999 57777677765

>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=99.60  E-value=2.6e-14  Score=130.78  Aligned_cols=186  Identities=18%  Similarity=0.204  Sum_probs=128.0

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC-----CcEEEEccCccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG-----AHLTVISPHSVH   90 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~-----~~~~~v~~~~~~   90 (441)
                      ..+++++|++..++.|.+++...             ...+++|+||+|+|||++++.+++.+.     ..++.+++.+..
T Consensus        18 ~~~~~~~g~~~~~~~l~~~l~~~-------------~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   84 (323)
T 1sxj_B           18 QVLSDIVGNKETIDRLQQIAKDG-------------NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDR   84 (323)
T ss_dssp             SSGGGCCSCTHHHHHHHHHHHSC-------------CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCC
T ss_pred             CCHHHHHCCHHHHHHHHHHHHcC-------------CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCcccc
Confidence            56789999999999999887431             123499999999999999999998862     346677665421


Q ss_pred             cccccchHHHHHHHHHHHHh--hhh-cCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEE
Q 013506           91 KAHVGESEKALREAFSQASS--HAL-SGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVA  167 (441)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~--~~~-~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~  167 (441)
                            ....+...+.....  ... .+++.+++|||+|.+.          ......|+..++...      +++.+|.
T Consensus        85 ------~~~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~----------~~~~~~L~~~le~~~------~~~~~il  142 (323)
T 1sxj_B           85 ------GIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMT----------AGAQQALRRTMELYS------NSTRFAF  142 (323)
T ss_dssp             ------SHHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSC----------HHHHHTTHHHHHHTT------TTEEEEE
T ss_pred             ------ChHHHHHHHHHHHhccccCCCCCceEEEEECcccCC----------HHHHHHHHHHHhccC------CCceEEE
Confidence                  12334444443331  111 3347899999999873          234566677776532      2467778


Q ss_pred             EcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCC-cccHHHHHHHCCCCCHHHHHHHHHHH
Q 013506          168 STNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEALCREA  240 (441)
Q Consensus       168 ~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~-~~~~~~l~~~~~g~~~~~i~~l~~~a  240 (441)
                      +++.+..+.+.+.+  |+. .+.+++|+.+++.+++...+....... +..+..++..+.| +.+.+..+++..
T Consensus       143 ~~~~~~~l~~~l~s--r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G-~~r~a~~~l~~~  212 (323)
T 1sxj_B          143 ACNQSNKIIEPLQS--QCA-ILRYSKLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEG-DMRQAINNLQST  212 (323)
T ss_dssp             EESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTT-CHHHHHHHHHHH
T ss_pred             EeCChhhchhHHHh--hce-EEeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Confidence            88888899999998  875 899999999999999998776544332 2235677777765 344444444443

>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=3e-14  Score=151.42  Aligned_cols=117  Identities=17%  Similarity=0.156  Sum_probs=80.9

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH---cCCceEEechhhh----------------hhhccCchHHHHHHHHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHA---AEASFFSLSGAEL----------------YSMYVGESEALLRNTFQRAR  380 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~---~~~~~~~i~~~~~----------------~~~~~g~~~~~~~~~~~~a~  380 (441)
                      |+++++.+.++||+||||||+|-.++..   .|..+..++...-                +-.+....|+.+.-+...++
T Consensus      1427 G~prg~~iei~g~~~sGkttl~~~~~a~~~~~g~~~~~i~~e~~~~~~~~~~~Gv~~~~l~~~~p~~~e~~l~~~~~~~~ 1506 (1706)
T 3cmw_A         1427 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR 1506 (1706)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEecCCCCCHHHHHHcCCCHHHeEEeCCCcHHHHHHHHHHHHH
Confidence            5566677899999999999998766532   3555555555321                11134445777888888888


Q ss_pred             hcCCeEEEEecccccccccCCC---CCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          381 LAAPSIIFFDEADVVGAKRGGS---SSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       381 ~~~~~vl~iDE~d~~~~~r~~~---~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ...++++++|.+..+.|...-.   +++.-+...|+.++-|..|.+.-....++++-.|
T Consensus      1507 s~~~~~vvvDsv~al~~~~e~~~~~~~~~~~~~ar~m~~~lr~l~~~~~~~~~~~i~~~ 1565 (1706)
T 3cmw_A         1507 SGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFIN 1565 (1706)
T ss_dssp             HTCCSEEEESCSTTCCCTTTTC-------CCHHHHHHHHHHHHHHHHHHHHTCEEEEEE
T ss_pred             cCCCCEEEEccHHhCCccccccccccccchhHHHHHHHHHHHHHHHHHHhCCcEEEEee
Confidence            8999999999999999875322   3445556678888888888887665555554444

>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=99.59  E-value=1.5e-14  Score=147.34  Aligned_cols=204  Identities=19%  Similarity=0.253  Sum_probs=137.1

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCC----CCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccc--
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGL----KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA--   92 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~----~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~--   92 (441)
                      +.++|++.+++.+.+.+...        ..|+    .+..++||+||||||||++|+++++.++.+++.+++.++...  
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~--------~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s~~~~~~~  529 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMA--------RAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHT  529 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHH--------HTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSC
T ss_pred             hhccCHHHHHHHHHHHHHHH--------hcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEechhhcchhh
Confidence            45899999999998877542        1122    234589999999999999999999999999999998776542  


Q ss_pred             ---ccc----chHHHH-HHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----CCC
Q 013506           93 ---HVG----ESEKAL-REAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTS  159 (441)
Q Consensus        93 ---~~~----~~~~~~-~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~~  159 (441)
                         ..+    ...... ..+.....    ...++||||||++.+          +.+++..|+..++.....     ...
T Consensus       530 ~~~l~g~~~g~~g~~~~~~l~~~~~----~~~~~vl~lDEi~~~----------~~~~~~~Ll~~le~~~~~~~~g~~~~  595 (758)
T 1r6b_X          530 VSRLIGAPPGYVGFDQGGLLTDAVI----KHPHAVLLLDEIEKA----------HPDVFNILLQVMDNGTLTDNNGRKAD  595 (758)
T ss_dssp             CSSSCCCCSCSHHHHHTTHHHHHHH----HCSSEEEEEETGGGS----------CHHHHHHHHHHHHHSEEEETTTEEEE
T ss_pred             HhhhcCCCCCCcCccccchHHHHHH----hCCCcEEEEeCcccc----------CHHHHHHHHHHhcCcEEEcCCCCEEe
Confidence               111    111000 11111111    123789999999987          336788888888753211     111


Q ss_pred             CCeEEEEEEcCCCC-------------------------ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccC----
Q 013506          160 VPHVVVVASTNRVD-------------------------AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV----  210 (441)
Q Consensus       160 ~~~~~vi~~~~~~~-------------------------~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~----  210 (441)
                      ..++++|+|+|...                         .++|++.+  ||+..+.|++|+.+++.+|+..++...    
T Consensus       596 ~~~~~iI~tsN~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~--R~~~~i~~~~l~~~~~~~i~~~~l~~~~~~~  673 (758)
T 1r6b_X          596 FRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRN--RLDNIIWFDHLSTDVIHQVVDKFIVELQVQL  673 (758)
T ss_dssp             CTTEEEEEEECSSCC-----------------CHHHHHHHSCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCeEEEEecCcchhhhhhcccCccccchHHHHHHHHHHhcCHHHHh--hCCcceeeCCCCHHHHHHHHHHHHHHHHHHH
Confidence            23578999999743                         56788888  998889999999999999998876532    


Q ss_pred             ---CC--C-CcccHHHHHHHC--CCCCHHHHHHHHHHHHHHHHH
Q 013506          211 ---PL--D-ANVDLEAIATSC--NGYVGADLEALCREATMSAVK  246 (441)
Q Consensus       211 ---~~--~-~~~~~~~l~~~~--~g~~~~~i~~l~~~a~~~~~~  246 (441)
                         ..  . .+..++.++...  ..+..+.+.++++.+....+.
T Consensus       674 ~~~~~~~~~~~~a~~~l~~~~~~~~~g~R~l~~~i~~~~~~~l~  717 (758)
T 1r6b_X          674 DQKGVSLEVSQEARNWLAEKGYDRAMGARPMARVIQDNLKKPLA  717 (758)
T ss_dssp             HHTTEEEEECHHHHHHHHHHHCBTTTBTTTHHHHHHHHHTHHHH
T ss_pred             HHCCcEEEeCHHHHHHHHHhCCCcCCCchHHHHHHHHHHHHHHH
Confidence               11  1 111245555544  235578888888877655433

>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=99.58  E-value=3.5e-14  Score=131.71  Aligned_cols=189  Identities=19%  Similarity=0.232  Sum_probs=122.6

Q ss_pred             cccccccchHHHHHHHHHHH-HhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc--------------
Q 013506           16 KAEEAIGGNRAAVEALRELI-TFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--------------   80 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~-~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~--------------   80 (441)
                      ..+++++|++.+++.|..++ ..             ....+++|+||+|+||||+++.+++.+..+              
T Consensus        11 ~~~~~~vg~~~~~~~l~~~~~~~-------------~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~   77 (354)
T 1sxj_E           11 KSLNALSHNEELTNFLKSLSDQP-------------RDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVT   77 (354)
T ss_dssp             CSGGGCCSCHHHHHHHHTTTTCT-------------TCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC----------
T ss_pred             CCHHHhcCCHHHHHHHHHHHhhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecc
Confidence            56799999999999988766 22             112239999999999999999999965211              


Q ss_pred             ---------------EEEEccCccccccccchHHHHHHHHHHHHhhh----------hcCCCeEEEEccccccccCCCCC
Q 013506           81 ---------------LTVISPHSVHKAHVGESEKALREAFSQASSHA----------LSGKPSVVFIDEIDALCPRRDHR  135 (441)
Q Consensus        81 ---------------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~il~iDe~~~l~~~~~~~  135 (441)
                                     ++.++.....    ......+...........          ...++.+++|||++.+       
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L-------  146 (354)
T 1sxj_E           78 ASNRKLELNVVSSPYHLEITPSDMG----NNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSL-------  146 (354)
T ss_dssp             --------CCEECSSEEEECCC--------CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSS-------
T ss_pred             cccccceeeeecccceEEecHhhcC----CcchHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCcccc-------
Confidence                           1122211100    000012333333322110          1236789999999875       


Q ss_pred             chhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCC-
Q 013506          136 REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-  214 (441)
Q Consensus       136 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~-  214 (441)
                         +......++..++....      +..+|.+++.+..+.+.+.+  |+ ..+.|++|+.+++.+++...+....... 
T Consensus       147 ---~~~~~~~L~~~le~~~~------~~~~Il~t~~~~~l~~~l~s--R~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  214 (354)
T 1sxj_E          147 ---TKDAQAALRRTMEKYSK------NIRLIMVCDSMSPIIAPIKS--QC-LLIRCPAPSDSEISTILSDVVTNERIQLE  214 (354)
T ss_dssp             ---CHHHHHHHHHHHHHSTT------TEEEEEEESCSCSSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHHHHHTCEEC
T ss_pred             ---CHHHHHHHHHHHHhhcC------CCEEEEEeCCHHHHHHHHHh--hc-eEEecCCcCHHHHHHHHHHHHHHcCCCCC
Confidence               33556777777776432      46777888888889999998  88 5899999999999999998876554432 


Q ss_pred             -cccHHHHHHHCCCCCHHHHHHHHHHHH
Q 013506          215 -NVDLEAIATSCNGYVGADLEALCREAT  241 (441)
Q Consensus       215 -~~~~~~l~~~~~g~~~~~i~~l~~~a~  241 (441)
                       +..+..++..+.| +.+.+..+++.+.
T Consensus       215 ~~~~l~~i~~~~~G-~~r~a~~~l~~~~  241 (354)
T 1sxj_E          215 TKDILKRIAQASNG-NLRVSLLMLESMA  241 (354)
T ss_dssp             CSHHHHHHHHHHTT-CHHHHHHHHTHHH
T ss_pred             cHHHHHHHHHHcCC-CHHHHHHHHHHHH
Confidence             2346777777765 4555555555443

>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=99.57  E-value=2.5e-13  Score=127.74  Aligned_cols=220  Identities=17%  Similarity=0.115  Sum_probs=139.8

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCc--EEEEEcCCCCcHHHHHHHHHHHh----CCcEEEEccCccccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPR--GLLLYGPPGTGKTSLVRAVVREC----GAHLTVISPHSVHKA   92 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~--~vll~Gp~GtGKT~l~~~l~~~l----~~~~~~v~~~~~~~~   92 (441)
                      ++++|.++.++.|..++......         ..+.  +++|+||||||||++++.+++.+    +..++++++......
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            78999999999999987542111         2334  89999999999999999999988    456778876543210


Q ss_pred             ----------------cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC
Q 013506           93 ----------------HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS  156 (441)
Q Consensus        93 ----------------~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~  156 (441)
                                      ..+.....+...+.....  ..+++.+|+|||++.+          +...+..+...++.....
T Consensus        88 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~--~~~~~~vlilDE~~~l----------~~~~~~~L~~~~~~~~~~  155 (389)
T 1fnn_A           88 TAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLR--ERDLYMFLVLDDAFNL----------APDILSTFIRLGQEADKL  155 (389)
T ss_dssp             HHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHH--HTTCCEEEEEETGGGS----------CHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHhCccCCCCCCCHHHHHHHHHHHHh--hcCCeEEEEEECcccc----------chHHHHHHHHHHHhCCCC
Confidence                            001111111111111111  1245789999999987          235566676666432110


Q ss_pred             CCCCCeEEEEEEcCCC---CccCHHHhhCCccce-EEEecCCCHHHHHHHHHHHhccC---CCCCcccHHHHHHHCC---
Q 013506          157 KTSVPHVVVVASTNRV---DAIDPALRRSGRFDA-EVEVTVPTAEERFEILKLYTKKV---PLDANVDLEAIATSCN---  226 (441)
Q Consensus       157 ~~~~~~~~vi~~~~~~---~~l~~~l~~~~r~~~-~i~~~~p~~~~~~~il~~~~~~~---~~~~~~~~~~l~~~~~---  226 (441)
                        ...++.+|++++.+   ..+++.+.+  ||.. .+.+++++.++..+++...+...   ....+..++.++..+.   
T Consensus       156 --~~~~~~iI~~~~~~~~~~~l~~~~~~--r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  231 (389)
T 1fnn_A          156 --GAFRIALVIVGHNDAVLNNLDPSTRG--IMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQT  231 (389)
T ss_dssp             --SSCCEEEEEEESSTHHHHTSCHHHHH--HHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSS
T ss_pred             --CcCCEEEEEEECCchHHHHhCHHhhh--cCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcc
Confidence              00147888888877   567888887  7764 79999999999999998876541   1122334667777773   


Q ss_pred             -----CCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhh
Q 013506          227 -----GYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       227 -----g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~  271 (441)
                           +-.++.+..+++.+...+.....        ..++.+++..+...
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                 33567777777777655543321        23556666655443

>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=99.57  E-value=1.2e-13  Score=133.91  Aligned_cols=205  Identities=18%  Similarity=0.255  Sum_probs=123.2

Q ss_pred             cccccccchHHHHHHHHHHHHhhccC-chHHHhcCC---CCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLY-SSQAQKLGL---KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK   91 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~-~~~~~~~~~---~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~   91 (441)
                      ..+++++|++.+++.|.+++...... +..+...+.   .+.++++|+||||||||++|+++++.++.+++.+++.+...
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            57799999999999999998642110 111122222   24579999999999999999999999999999999876543


Q ss_pred             ccccchH-H------HHHHHHHHHH-hhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           92 AHVGESE-K------ALREAFSQAS-SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        92 ~~~~~~~-~------~~~~~~~~~~-~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ....... .      .+...|.... ......++.||||||+|.+.....       ..+..+...++....      .+
T Consensus       116 ~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~-------~~l~~L~~~l~~~~~------~i  182 (516)
T 1sxj_A          116 KTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDR-------GGVGQLAQFCRKTST------PL  182 (516)
T ss_dssp             HHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTST-------THHHHHHHHHHHCSS------CE
T ss_pred             HHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhH-------HHHHHHHHHHHhcCC------CE
Confidence            2110000 0      0000111100 001124578999999999864321       234556666655321      24


Q ss_pred             EEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCC-cccHHHHHHHCCCCCHHHHHHHHH
Q 013506          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEALCR  238 (441)
Q Consensus       164 ~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~-~~~~~~l~~~~~g~~~~~i~~l~~  238 (441)
                      +++++......++ .+.   |+...+.|++|+.+++.+++...+....... +..+..++..+.|- .+.+.++++
T Consensus       183 Ili~~~~~~~~l~-~l~---~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~~~l~~la~~s~Gd-iR~~i~~L~  253 (516)
T 1sxj_A          183 ILICNERNLPKMR-PFD---RVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGD-IRQVINLLS  253 (516)
T ss_dssp             EEEESCTTSSTTG-GGT---TTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHTTTC-HHHHHHHHT
T ss_pred             EEEEcCCCCccch-hhH---hceEEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCc-HHHHHHHHH
Confidence            4444333223343 344   3445899999999999999987765543322 22377788877653 344333333

>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=2.2e-13  Score=125.32  Aligned_cols=174  Identities=21%  Similarity=0.280  Sum_probs=119.3

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC-----cEEEEccCccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HLTVISPHSVH   90 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~-----~~~~v~~~~~~   90 (441)
                      ..+++++|++.+++.|...+...            .. .+++|+||||||||++++++++.+..     .+..+++.+..
T Consensus        22 ~~~~~~~g~~~~~~~L~~~i~~g------------~~-~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~   88 (340)
T 1sxj_C           22 ETLDEVYGQNEVITTVRKFVDEG------------KL-PHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDR   88 (340)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTT------------CC-CCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCC
T ss_pred             CcHHHhcCcHHHHHHHHHHHhcC------------CC-ceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccc
Confidence            67899999999999999887531            11 24999999999999999999998743     25556654321


Q ss_pred             cccccchHHHHHHHHHHHHh--hhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEE
Q 013506           91 KAHVGESEKALREAFSQASS--HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (441)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~  168 (441)
                          +  ...++........  ....+.+.+++|||+|.+.          ......|+..++....      ++.++.+
T Consensus        89 ----~--~~~ir~~i~~~~~~~~~~~~~~~viiiDe~~~l~----------~~~~~~L~~~le~~~~------~~~~il~  146 (340)
T 1sxj_C           89 ----G--IDVVRNQIKDFASTRQIFSKGFKLIILDEADAMT----------NAAQNALRRVIERYTK------NTRFCVL  146 (340)
T ss_dssp             ----S--HHHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSC----------HHHHHHHHHHHHHTTT------TEEEEEE
T ss_pred             ----c--HHHHHHHHHHHHhhcccCCCCceEEEEeCCCCCC----------HHHHHHHHHHHhcCCC------CeEEEEE
Confidence                1  1223333322221  1112347899999999872          2456677777776432      4667778


Q ss_pred             cCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCC
Q 013506          169 TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNG  227 (441)
Q Consensus       169 ~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g  227 (441)
                      +|.+..+.+.+.+  |+. .+.+++++.++..+++...+.......+. ..+.++..+.|
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            8999999999998  886 78999999999999988877544433222 24555555544

>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=99.56  E-value=1.9e-14  Score=128.07  Aligned_cols=113  Identities=18%  Similarity=0.230  Sum_probs=83.8

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhh-hhccCchHHHHHHHHHHHHhcCCeEEEEecccccccc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY-SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAK  398 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~-~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~  398 (441)
                      ...++.++||+||||||||++|+++|..++.+++.++.++.+ +...+.....++.+|..+....+++|||||+|.+++.
T Consensus        60 ~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~  139 (272)
T 1d2n_A           60 DRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDY  139 (272)
T ss_dssp             SSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTC
T ss_pred             CCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHHhcCCchHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhcc
Confidence            356677899999999999999999999999999999876532 2111223367888999988788899999999999876


Q ss_pred             cCCCCCCCcchhhHHHHHHHHHhcCCCC-CCeE-EEEeee
Q 013506          399 RGGSSSTSITVGERLLSTLLTEMDGLEQ-AKVI-IYPISF  436 (441)
Q Consensus       399 r~~~~~~~~~~~~~~~~~ll~~l~~~~~-~~~v-~~~~~~  436 (441)
                      +..+    ......+++.|+..+++... ...+ +|.+||
T Consensus       140 ~~~~----~~~~~~~l~~L~~~~~~~~~~~~~~~ii~ttn  175 (272)
T 1d2n_A          140 VPIG----PRFSNLVLQALLVLLKKAPPQGRKLLIIGTTS  175 (272)
T ss_dssp             BTTT----TBCCHHHHHHHHHHTTCCCSTTCEEEEEEEES
T ss_pred             CCCC----hhHHHHHHHHHHHHhcCccCCCCCEEEEEecC
Confidence            5432    23456788888888887643 3344 444554

>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=99.55  E-value=1.9e-13  Score=151.59  Aligned_cols=131  Identities=21%  Similarity=0.283  Sum_probs=91.8

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCC
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR  132 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~  132 (441)
                      ..++++.||+|||||++++.+|+.++.+++.+++.+-.+      ...+...|..+...     +.++++||+|.+-+. 
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            468999999999999999999999999999999976432      23455566555443     689999999987321 


Q ss_pred             CCCchhhHHHHHH----HHHHHhcCC-------CCCCCCCeEEEEEEcCCC----CccCHHHhhCCccceEEEecCCCHH
Q 013506          133 DHRREQDVRIASQ----LFTLMDSNK-------PSKTSVPHVVVVASTNRV----DAIDPALRRSGRFDAEVEVTVPTAE  197 (441)
Q Consensus       133 ~~~~~~~~~~~~~----l~~~~~~~~-------~~~~~~~~~~vi~~~~~~----~~l~~~l~~~~r~~~~i~~~~p~~~  197 (441)
                            ...++.+    +...+....       ....-++.+.+++|+|+.    ..+++.+++  || ..+.+..|+.+
T Consensus       713 ------vLs~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NPgy~g~~eLP~~Lk~--~F-r~v~m~~Pd~~  783 (2695)
T 4akg_A          713 ------VLSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKK--SF-REFSMKSPQSG  783 (2695)
T ss_dssp             ------HHHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEECCCSSSSCCCCHHHHT--TE-EEEECCCCCHH
T ss_pred             ------HHHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEeCCCccCcccccHHHHh--he-EEEEeeCCCHH
Confidence                  1122211    122222111       111234567788899863    478999998  88 47999999999


Q ss_pred             HHHHHHH
Q 013506          198 ERFEILK  204 (441)
Q Consensus       198 ~~~~il~  204 (441)
                      ...+|+.
T Consensus       784 ~i~ei~l  790 (2695)
T 4akg_A          784 TIAEMIL  790 (2695)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9888864

>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=99.54  E-value=3.4e-14  Score=126.01  Aligned_cols=201  Identities=13%  Similarity=0.179  Sum_probs=114.3

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC---CcEEEEccCcccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---AHLTVISPHSVHKAH   93 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~---~~~~~v~~~~~~~~~   93 (441)
                      +|++++|.+..++.+.+.+....           ..+.+++|+||||||||++|++++....   .+++.+++..+....
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            56889999999888887664421           2357899999999999999999998875   578999887653211


Q ss_pred             ccchHHHH----HHHHHHHH----hhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCC-----CCCCC
Q 013506           94 VGESEKAL----REAFSQAS----SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP-----SKTSV  160 (441)
Q Consensus        94 ~~~~~~~~----~~~~~~~~----~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~-----~~~~~  160 (441)
                      .   ...+    ...+....    .......+++|||||++.+.          ...+..|+..++....     .....
T Consensus        73 ~---~~~l~g~~~~~~~g~~~~~~~~l~~a~~~~l~lDEi~~l~----------~~~q~~Ll~~l~~~~~~~~g~~~~~~  139 (265)
T 2bjv_A           73 L---DSELFGHEAGAFTGAQKRHPGRFERADGGTLFLDELATAP----------MMVQEKLLRVIEYGELERVGGSQPLQ  139 (265)
T ss_dssp             H---HHHHHCCC---------CCCCHHHHTTTSEEEEESGGGSC----------HHHHHHHHHHHHHCEECCCCC--CEE
T ss_pred             H---HHHhcCCcccccccccccccchhhhcCCcEEEEechHhcC----------HHHHHHHHHHHHhCCeecCCCccccc
Confidence            0   0000    00000000    00001236799999999873          2456677777765311     01112


Q ss_pred             CeEEEEEEcCCC-------CccCHHHhhCCccc-eEEEecCCCH--HHHHHHHHHHhc----cCCCCC--ccc---HHHH
Q 013506          161 PHVVVVASTNRV-------DAIDPALRRSGRFD-AEVEVTVPTA--EERFEILKLYTK----KVPLDA--NVD---LEAI  221 (441)
Q Consensus       161 ~~~~vi~~~~~~-------~~l~~~l~~~~r~~-~~i~~~~p~~--~~~~~il~~~~~----~~~~~~--~~~---~~~l  221 (441)
                      .++.+|+++|..       ..+.+++.+  ||. ..+.+|+...  ++...++..++.    ......  ..+   ++.+
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            246788888874       246788888  885 3566666654  455555444332    222211  222   3444


Q ss_pred             HHHCCCCCHHHHHHHHHHHHHH
Q 013506          222 ATSCNGYVGADLEALCREATMS  243 (441)
Q Consensus       222 ~~~~~g~~~~~i~~l~~~a~~~  243 (441)
                      .......+.++++++++.+...
T Consensus       218 ~~~~~~gn~reL~~~l~~~~~~  239 (265)
T 2bjv_A          218 LNYRWPGNIRELKNVVERSVYR  239 (265)
T ss_dssp             HHSCCTTHHHHHHHHHHHHHHH
T ss_pred             HhCCCCCCHHHHHHHHHHHHHh
Confidence            4444445677888887776543

>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=99.54  E-value=3.6e-13  Score=126.46  Aligned_cols=221  Identities=19%  Similarity=0.203  Sum_probs=136.8

Q ss_pred             cccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh------CCcEEEEccCcccc
Q 013506           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC------GAHLTVISPHSVHK   91 (441)
Q Consensus        18 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l------~~~~~~v~~~~~~~   91 (441)
                      .++++|.++.++.|.+++.....         -..+..++|+||+|||||++++.+++.+      +..++++++.....
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            37899999999999987743211         1346789999999999999999999988      77788887643211


Q ss_pred             c----------------cccchHHH-HHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCC
Q 013506           92 A----------------HVGESEKA-LREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK  154 (441)
Q Consensus        92 ~----------------~~~~~~~~-~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~  154 (441)
                      .                ..+..... ...++.... .  .+.+.+|+|||++.+....+      ...+..++..++...
T Consensus        90 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~-~--~~~~~vlilDE~~~l~~~~~------~~~l~~l~~~~~~~~  160 (386)
T 2qby_A           90 PYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVR-D--YGSQVVIVLDEIDAFVKKYN------DDILYKLSRINSEVN  160 (386)
T ss_dssp             HHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHH-T--CCSCEEEEEETHHHHHHSSC------STHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHh-c--cCCeEEEEEcChhhhhccCc------CHHHHHHhhchhhcC
Confidence            0                00111112 222222221 1  23488999999998854321      135666666665431


Q ss_pred             CCCCCCCeEEEEEEcCCC---CccCHHHhhCCccc-eEEEecCCCHHHHHHHHHHHhccCC--CC-CcccHHHHHHHCCC
Q 013506          155 PSKTSVPHVVVVASTNRV---DAIDPALRRSGRFD-AEVEVTVPTAEERFEILKLYTKKVP--LD-ANVDLEAIATSCNG  227 (441)
Q Consensus       155 ~~~~~~~~~~vi~~~~~~---~~l~~~l~~~~r~~-~~i~~~~p~~~~~~~il~~~~~~~~--~~-~~~~~~~l~~~~~g  227 (441)
                           ..++.+|++++.+   ..+++.+.+  ||. ..+.+++++.++..+++...+....  .. .+..++.++..+..
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                 1257778888776   467788888  764 4899999999999999988765321  11 22224555555541


Q ss_pred             --CCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhh
Q 013506          228 --YVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       228 --~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~  271 (441)
                        .+++.+..+++.+...+....        ...++.+++..+...
T Consensus       234 ~~G~~r~~~~ll~~a~~~a~~~~--------~~~i~~~~v~~a~~~  271 (386)
T 2qby_A          234 EHGDARRALDLLRVSGEIAERMK--------DTKVKEEYVYMAKEE  271 (386)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTT--------CSSCCHHHHHHHHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHHhcC--------CCccCHHHHHHHHHH
Confidence              345555566666654443321        123566666655443

>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=99.53  E-value=3.8e-14  Score=132.34  Aligned_cols=134  Identities=27%  Similarity=0.280  Sum_probs=83.0

Q ss_pred             cccCchhHHHHHHHHHhcccCCchhhh-----------------hcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceE
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTAFS-----------------RLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~-----------------~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~  353 (441)
                      .+.|++.+++.+...+...........                 .....+..+++|+||||||||++|+++|..++.+++
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            467899999988877632222111100                 012235668999999999999999999999999999


Q ss_pred             Eechhhhh-hhccCch-HHHHHHHHHHH----HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCC
Q 013506          354 SLSGAELY-SMYVGES-EALLRNTFQRA----RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL  424 (441)
Q Consensus       354 ~i~~~~~~-~~~~g~~-~~~~~~~~~~a----~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~  424 (441)
                      .++++.+. ..|.|+. +..+..++..+    ....++|+||||+|++.+.|++.....+....++.+.||+.|++.
T Consensus       102 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~Ll~~le~~  178 (376)
T 1um8_A          102 ISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGS  178 (376)
T ss_dssp             EEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCC
T ss_pred             EecchhhhhcCcCCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHHHhhhcCCCceecccchHHHHHHHHHHhhcc
Confidence            99988865 3455554 44455665543    234677999999999988765543333333456899999999964

>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=99.52  E-value=1.1e-13  Score=142.17  Aligned_cols=210  Identities=17%  Similarity=0.230  Sum_probs=137.7

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccc-
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHV-   94 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~-   94 (441)
                      ++++|++.+++.+...+.......    .-.-.+..+++|+||||||||++|++++..+   +.+++.+++..+..... 
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~----~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~~~~~~~~  633 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGL----KDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAV  633 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGC----SCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGG
T ss_pred             cccCCcHHHHHHHHHHHHHHhccc----CCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechhccchhHH
Confidence            568999999999998875421100    0001233689999999999999999999988   67899999887654311 


Q ss_pred             ----cchHHHH----HHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCC
Q 013506           95 ----GESEKAL----REAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVP  161 (441)
Q Consensus        95 ----~~~~~~~----~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~~~~  161 (441)
                          +.....+    ...+.....   ...+++|||||++.+          +..++..|+..++.....     .....
T Consensus       634 s~l~g~~~~~~G~~~~g~l~~~~~---~~~~~vl~lDEi~~l----------~~~~~~~Ll~~l~~~~~~~~~g~~vd~~  700 (854)
T 1qvr_A          634 SRLIGAPPGYVGYEEGGQLTEAVR---RRPYSVILFDEIEKA----------HPDVFNILLQILDDGRLTDSHGRTVDFR  700 (854)
T ss_dssp             GGC--------------CHHHHHH---HCSSEEEEESSGGGS----------CHHHHHHHHHHHTTTEECCSSSCCEECT
T ss_pred             HHHcCCCCCCcCccccchHHHHHH---hCCCeEEEEeccccc----------CHHHHHHHHHHhccCceECCCCCEeccC
Confidence                1000000    011111111   123689999999977          346788888888754211     11223


Q ss_pred             eEEEEEEcCCC--------------------------CccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccC-----
Q 013506          162 HVVVVASTNRV--------------------------DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV-----  210 (441)
Q Consensus       162 ~~~vi~~~~~~--------------------------~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~-----  210 (441)
                      ++++|+|+|..                          ..+.|.+.+  |++..+.+.+|+.+++..|+..++...     
T Consensus       701 ~~iiI~tsn~~~~~~~~~~~~~~~~~~l~~~v~~~~~~~f~~~l~~--Rl~~~i~~~pl~~edi~~i~~~~l~~~~~~~~  778 (854)
T 1qvr_A          701 NTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQIRQIVEIQLSYLRARLA  778 (854)
T ss_dssp             TEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHH--TCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEecCcChHHHhhhcccccchHHHHHHHHHHHHhhCCHHHHH--hcCeEEeCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            67899999972                          245678888  998888899999999999988766532     


Q ss_pred             --CCC---CcccHHHHHHHCC--CCCHHHHHHHHHHHHHHHHHh
Q 013506          211 --PLD---ANVDLEAIATSCN--GYVGADLEALCREATMSAVKR  247 (441)
Q Consensus       211 --~~~---~~~~~~~l~~~~~--g~~~~~i~~l~~~a~~~~~~~  247 (441)
                        ...   .+..++.++....  .++.+.++++++.+.......
T Consensus       779 ~~~~~~~~~~~a~~~L~~~~~~~~gn~R~L~~~i~~~~~~~~~~  822 (854)
T 1qvr_A          779 EKRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQ  822 (854)
T ss_dssp             TTTCEEEECHHHHHHHHHHHCBTTTBTSTHHHHHHHHTHHHHHH
T ss_pred             hCCceEEECHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHH
Confidence              111   1122566666655  678899999988877655544

>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=99.50  E-value=2.5e-12  Score=117.62  Aligned_cols=174  Identities=19%  Similarity=0.176  Sum_probs=117.6

Q ss_pred             chHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc----------------------
Q 013506           23 GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH----------------------   80 (441)
Q Consensus        23 G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~----------------------   80 (441)
                      .+++..+.|...+...            ..++.+||+||+|+|||++++.+++.+...                      
T Consensus         6 w~~~~~~~l~~~i~~~------------~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~   73 (334)
T 1a5t_A            6 WLRPDFEKLVASYQAG------------RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTH   73 (334)
T ss_dssp             GGHHHHHHHHHHHHTT------------CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCC
T ss_pred             chHHHHHHHHHHHHcC------------CcceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCC
Confidence            4567777777766431            245679999999999999999999987532                      


Q ss_pred             --EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCC
Q 013506           81 --LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKT  158 (441)
Q Consensus        81 --~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  158 (441)
                        +..+++..-   ........++.+.+........++..|++|||+|.+          +....+.|+..++...    
T Consensus        74 ~d~~~~~~~~~---~~~~~i~~ir~l~~~~~~~~~~~~~kvviIdead~l----------~~~a~naLLk~lEep~----  136 (334)
T 1a5t_A           74 PDYYTLAPEKG---KNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALL----------TDAAANALLKTLEEPP----  136 (334)
T ss_dssp             TTEEEECCCTT---CSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGB----------CHHHHHHHHHHHTSCC----
T ss_pred             CCEEEEecccc---CCCCCHHHHHHHHHHHhhccccCCcEEEEECchhhc----------CHHHHHHHHHHhcCCC----
Confidence              233332210   011223345566555444433456789999999988          3356778888887632    


Q ss_pred             CCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHH
Q 013506          159 SVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEA  235 (441)
Q Consensus       159 ~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~  235 (441)
                        +++++|.+++.+..+.+.+++  |+. .+.|++|+.++..+++....   .. .+..+..++..+.|. .+.+..
T Consensus       137 --~~~~~Il~t~~~~~l~~ti~S--Rc~-~~~~~~~~~~~~~~~L~~~~---~~-~~~~~~~l~~~s~G~-~r~a~~  203 (334)
T 1a5t_A          137 --AETWFFLATREPERLLATLRS--RCR-LHYLAPPPEQYAVTWLSREV---TM-SQDALLAALRLSAGS-PGAALA  203 (334)
T ss_dssp             --TTEEEEEEESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHC---CC-CHHHHHHHHHHTTTC-HHHHHH
T ss_pred             --CCeEEEEEeCChHhCcHHHhh--cce-eeeCCCCCHHHHHHHHHHhc---CC-CHHHHHHHHHHcCCC-HHHHHH
Confidence              257888888888999999998  885 79999999999999988765   11 222356667666654 343333

>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=99.49  E-value=1.7e-14  Score=134.27  Aligned_cols=131  Identities=22%  Similarity=0.262  Sum_probs=79.0

Q ss_pred             ccccCchhHHHHHHHHHhcccCCchhhhhcCC-CCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh-hccCc
Q 013506          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGI-SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MYVGE  367 (441)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~-~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~-~~~g~  367 (441)
                      ..++|++++++.+...+..+..+......+.. .++.++||+||||||||++|+++|..++.+++.++++.+.+ .|+|+
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            45789999999998877554333222222221 24678999999999999999999999999999999999988 49995


Q ss_pred             -hHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeE
Q 013506          368 -SEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVI  430 (441)
Q Consensus       368 -~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v  430 (441)
                       .+..++.+|..+...    +++||++.+...      ......++++++||++||++.+...|
T Consensus        95 d~e~~lr~lf~~a~~~----~~~De~d~~~~~------~~~~~e~rvl~~LL~~~dg~~~~~~v  148 (444)
T 1g41_A           95 EVDSIIRDLTDSAMKL----VRQQEIAKNRAR------AEDVAEERILDALLPPAKNQWGEVEN  148 (444)
T ss_dssp             CTHHHHHHHHHHHHHH----HHHHHHHSCC----------------------------------
T ss_pred             cHHHHHHHHHHHHHhc----chhhhhhhhhcc------chhhHHHHHHHHHHHHhhcccccccc
Confidence             799999999998654    458998876422      23345689999999999999877665

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.49  E-value=2.9e-13  Score=128.97  Aligned_cols=161  Identities=18%  Similarity=0.198  Sum_probs=97.0

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC--cEEEEccCccc-ccccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA--HLTVISPHSVH-KAHVG   95 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~--~~~~v~~~~~~-~~~~~   95 (441)
                      ..++|++++++.+...+..               +.++||+||||||||++|++++..++.  ++..+++.... ....+
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            4688999999888776533               468999999999999999999998843  44444443210 11011


Q ss_pred             c-hHHHH--HHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC----CCCCCeEEEEEE
Q 013506           96 E-SEKAL--REAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS----KTSVPHVVVVAS  168 (441)
Q Consensus        96 ~-~~~~~--~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~~~~~~~vi~~  168 (441)
                      . .....  ...+....... ...++||||||++.+          +...+..|+..++.....    ....+..++|++
T Consensus        87 ~~~~~~~~~~g~~~~~~~g~-l~~~~IL~IDEI~r~----------~~~~q~~LL~~lee~~v~i~G~~~~~~~~~iI~A  155 (500)
T 3nbx_X           87 PLSIQALKDEGRYERLTSGY-LPEAEIVFLDEIWKA----------GPAILNTLLTAINERQFRNGAHVEKIPMRLLVAA  155 (500)
T ss_dssp             CBC----------CBCCTTS-GGGCSEEEEESGGGC----------CHHHHHHHHHHHHSSEEECSSSEEECCCCEEEEE
T ss_pred             cccHHHHhhchhHHhhhccC-CCcceeeeHHhHhhh----------cHHHHHHHHHHHHHHhccCCCCcCCcchhhhhhc
Confidence            0 00000  01111000000 003569999999876          346778888888643211    111122245666


Q ss_pred             cCCCC---ccCHHHhhCCccceEEEecCCCH-HHHHHHHHHHh
Q 013506          169 TNRVD---AIDPALRRSGRFDAEVEVTVPTA-EERFEILKLYT  207 (441)
Q Consensus       169 ~~~~~---~l~~~l~~~~r~~~~i~~~~p~~-~~~~~il~~~~  207 (441)
                      ||++.   ...+++.+  ||...+.+++|+. +++..|+....
T Consensus       156 TN~lpe~~~~~~aLld--RF~~~i~v~~p~~~ee~~~IL~~~~  196 (500)
T 3nbx_X          156 SNELPEADSSLEALYD--RMLIRLWLDKVQDKANFRSMLTSQQ  196 (500)
T ss_dssp             ESSCCCTTCTTHHHHT--TCCEEEECCSCCCHHHHHHHHTCCC
T ss_pred             cccCCCccccHHHHHH--HHHHHHHHHHhhhhhhHHHHHhccc
Confidence            67532   24468888  9988899999987 67788887543

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.49  E-value=2e-13  Score=122.96  Aligned_cols=194  Identities=17%  Similarity=0.200  Sum_probs=118.2

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccc-
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHV-   94 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~-   94 (441)
                      ++++|.+...+.+.+.+...           .....+++|+||||||||++|++++...   +.+++.+++..+..... 
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            46899999988888877542           1345789999999999999999999865   46788888876532110 


Q ss_pred             ----cc----hHH---HHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----CC
Q 013506           95 ----GE----SEK---ALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KT  158 (441)
Q Consensus        95 ----~~----~~~---~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~  158 (441)
                          +.    ...   .....+..+       .+++|||||++.+.          ...+..|+..++.....     ..
T Consensus        71 ~~lfg~~~g~~tg~~~~~~g~~~~a-------~~g~L~LDEi~~l~----------~~~q~~Ll~~l~~~~~~~~g~~~~  133 (304)
T 1ojl_A           71 SELFGHEKGAFTGADKRREGRFVEA-------DGGTLFLDEIGDIS----------PLMQVRLLRAIQEREVQRVGSNQT  133 (304)
T ss_dssp             HHHTCCCSSCCC---CCCCCHHHHH-------TTSEEEEESCTTCC----------HHHHHHHHHHHHSSBCCBTTBCCC
T ss_pred             HHhcCccccccCchhhhhcCHHHhc-------CCCEEEEeccccCC----------HHHHHHHHHHHhcCEeeecCCccc
Confidence                00    000   000112221       25799999999873          34567778877754311     11


Q ss_pred             CCCeEEEEEEcCCC-------CccCHHHhhCCccc-eEEEecCCC--HHHHHHHHHHHhcc----CCC---CCc-ccHHH
Q 013506          159 SVPHVVVVASTNRV-------DAIDPALRRSGRFD-AEVEVTVPT--AEERFEILKLYTKK----VPL---DAN-VDLEA  220 (441)
Q Consensus       159 ~~~~~~vi~~~~~~-------~~l~~~l~~~~r~~-~~i~~~~p~--~~~~~~il~~~~~~----~~~---~~~-~~~~~  220 (441)
                      ...++.+|++||..       ..+.+.+..  |+. ..+.+|++.  .++...++..++..    ...   ..+ ..+..
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            12357888888875       235677777  774 346666665  34555555544332    221   111 22455


Q ss_pred             HHHHCCCCCHHHHHHHHHHHHH
Q 013506          221 IATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       221 l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                      +.......+.+++.++++.+..
T Consensus       212 L~~~~wpGnvReL~~~l~~~~~  233 (304)
T 1ojl_A          212 LIHYDWPGNIRELENAIERAVV  233 (304)
T ss_dssp             HHHCCCSSHHHHHHHHHHHHHH
T ss_pred             HHcCCCCCCHHHHHHHHHHHHH
Confidence            5555545567788888877664

>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=99.49  E-value=7.7e-13  Score=118.54  Aligned_cols=146  Identities=14%  Similarity=0.172  Sum_probs=107.6

Q ss_pred             chHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh------CCcEEEEccCccccccccc
Q 013506           23 GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC------GAHLTVISPHSVHKAHVGE   96 (441)
Q Consensus        23 G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l------~~~~~~v~~~~~~~~~~~~   96 (441)
                      |++++.+.|.+.+...             ...++||+||||+|||++++.+++.+      ...+..+++...     ..
T Consensus         1 g~~~~~~~L~~~i~~~-------------~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~-----~~   62 (305)
T 2gno_A            1 GAKDQLETLKRIIEKS-------------EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGE-----NI   62 (305)
T ss_dssp             ---CHHHHHHHHHHTC-------------SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSS-----CB
T ss_pred             ChHHHHHHHHHHHHCC-------------CCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcC-----CC
Confidence            6788888888877541             14689999999999999999999864      335666765420     12


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccC
Q 013506           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAID  176 (441)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~  176 (441)
                      ....++.+.+.+......++..|+||||+|.+          .....+.|+..++...      +++++|.+|+.+..+.
T Consensus        63 ~id~ir~li~~~~~~p~~~~~kvviIdead~l----------t~~a~naLLk~LEep~------~~t~fIl~t~~~~kl~  126 (305)
T 2gno_A           63 GIDDIRTIKDFLNYSPELYTRKYVIVHDCERM----------TQQAANAFLKALEEPP------EYAVIVLNTRRWHYLL  126 (305)
T ss_dssp             CHHHHHHHHHHHTSCCSSSSSEEEEETTGGGB----------CHHHHHHTHHHHHSCC------TTEEEEEEESCGGGSC
T ss_pred             CHHHHHHHHHHHhhccccCCceEEEeccHHHh----------CHHHHHHHHHHHhCCC------CCeEEEEEECChHhCh
Confidence            23346666666655444455789999999988          3356788999998643      2577777788888999


Q ss_pred             HHHhhCCccceEEEecCCCHHHHHHHHHHHh
Q 013506          177 PALRRSGRFDAEVEVTVPTAEERFEILKLYT  207 (441)
Q Consensus       177 ~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~  207 (441)
                      +.+++  |   .+.|++++.++..+++...+
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   68999999999999988776

>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=99.48  E-value=8.7e-14  Score=126.54  Aligned_cols=132  Identities=25%  Similarity=0.343  Sum_probs=90.5

Q ss_pred             cccCchhHHHHHHHHHhcccCCchhhhhc-CCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh-hccCch
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRL-GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-MYVGES  368 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~-~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~-~~~g~~  368 (441)
                      .+.|++.+++.+...+............. ...++.+++|+||||||||++|+++|..++.+++.++++++.. .|+|..
T Consensus        16 ~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~~~~~~~~~~~   95 (310)
T 1ofh_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKE   95 (310)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGS
T ss_pred             hcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchhcccCCccCcc
Confidence            46788888888877665321111100000 1134568999999999999999999999999999999998876 466543


Q ss_pred             -HHHHHHHHHHH-----HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCC
Q 013506          369 -EALLRNTFQRA-----RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL  424 (441)
Q Consensus       369 -~~~~~~~~~~a-----~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~  424 (441)
                       ...++.++..+     ....++||||||+|++.+.+...  +.+.....+.+.|++.|++.
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~--~~~~~~~~~~~~Ll~~le~~  155 (310)
T 1ofh_A           96 VDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYS--GADVSREGVQRDLLPLVEGS  155 (310)
T ss_dssp             TTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCC--SSHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHhhHHHhhccCCCEEEEEChhhcCcccccc--ccchhHHHHHHHHHHHhcCC
Confidence             34566666532     11235699999999998765432  23333455689999999974

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.48  E-value=1.2e-13  Score=110.06  Aligned_cols=131  Identities=15%  Similarity=0.166  Sum_probs=85.9

Q ss_pred             cccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccc
Q 013506           20 AIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGE   96 (441)
Q Consensus        20 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~   96 (441)
                      +++|.....+.+.+.+...           ...+.+++|+||||||||++|++++...   +.+++ +++..+...    
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            5788888888888776431           1345789999999999999999999876   56788 888765543    


Q ss_pred             hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCC---
Q 013506           97 SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD---  173 (441)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~---  173 (441)
                        ......+..+       .+++|||||+|.+          +...+..++..+.....      ++.+|+++|.+-   
T Consensus        66 --~~~~~~~~~a-------~~g~l~ldei~~l----------~~~~q~~Ll~~l~~~~~------~~~~I~~t~~~~~~~  120 (145)
T 3n70_A           66 --PQLNDFIALA-------QGGTLVLSHPEHL----------TREQQYHLVQLQSQEHR------PFRLIGIGDTSLVEL  120 (145)
T ss_dssp             --SCHHHHHHHH-------TTSCEEEECGGGS----------CHHHHHHHHHHHHSSSC------SSCEEEEESSCHHHH
T ss_pred             --hhhhcHHHHc-------CCcEEEEcChHHC----------CHHHHHHHHHHHhhcCC------CEEEEEECCcCHHHH
Confidence              1122333333       2579999999988          33556677777744322      356777787642   


Q ss_pred             ----ccCHHHhhCCccc-eEEEecC
Q 013506          174 ----AIDPALRRSGRFD-AEVEVTV  193 (441)
Q Consensus       174 ----~l~~~l~~~~r~~-~~i~~~~  193 (441)
                          .+.+.+..  |+. ..+.+|+
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

>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=99.45  E-value=6.6e-14  Score=136.04  Aligned_cols=120  Identities=24%  Similarity=0.312  Sum_probs=78.3

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh-----
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS-----  362 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~-----  362 (441)
                      ...++.|++++++.+.+.+.....      ... .++.+++|+|||||||||+|+++|..++.++..++......     
T Consensus        79 l~~di~G~~~vk~~i~~~~~l~~~------~~~-~~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~~~  151 (543)
T 3m6a_A           79 LDEEHHGLEKVKERILEYLAVQKL------TKS-LKGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIR  151 (543)
T ss_dssp             HHHHCSSCHHHHHHHHHHHHHHHH------SSS-CCSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC--------
T ss_pred             HHHHhccHHHHHHHHHHHHHHHHh------ccc-CCCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhhhh
Confidence            345688999999888765532110      111 15678999999999999999999999999999888765433     


Q ss_pred             ----hccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCC
Q 013506          363 ----MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE  425 (441)
Q Consensus       363 ----~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~  425 (441)
                          .|+|.....+...|..+...+| |+||||+|++.+.+.+          ...+.||+.||...
T Consensus       152 g~~~~~ig~~~~~~~~~~~~a~~~~~-vl~lDEid~l~~~~~~----------~~~~~LL~~ld~~~  207 (543)
T 3m6a_A          152 GHRRTYVGAMPGRIIQGMKKAGKLNP-VFLLDEIDKMSSDFRG----------DPSSAMLEVLDPEQ  207 (543)
T ss_dssp             ------------CHHHHHHTTCSSSE-EEEEEESSSCC-------------------CCGGGTCTTT
T ss_pred             hHHHHHhccCchHHHHHHHHhhccCC-EEEEhhhhhhhhhhcc----------CHHHHHHHHHhhhh
Confidence                5677777778888888765555 9999999999865432          24677888887543

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.44  E-value=6.2e-14  Score=111.51  Aligned_cols=132  Identities=16%  Similarity=0.178  Sum_probs=85.7

Q ss_pred             cccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccchHH
Q 013506           20 AIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEK   99 (441)
Q Consensus        20 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~   99 (441)
                      +++|.+..++.+.+.+....           ..+.+++|+||||||||++|++++.... +++.+++..+....      
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            57899999888888775421           2457899999999999999999998877 88888887654322      


Q ss_pred             HHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCC-Cc----
Q 013506          100 ALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRV-DA----  174 (441)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~-~~----  174 (441)
                       ....+..+       .+++|||||++.+.          ...+..++..++...     ..++.+|+++|.. ..    
T Consensus        67 -~~~~~~~a-------~~~~l~lDei~~l~----------~~~q~~Ll~~l~~~~-----~~~~~iI~~tn~~~~~~~~~  123 (143)
T 3co5_A           67 -PMELLQKA-------EGGVLYVGDIAQYS----------RNIQTGITFIIGKAE-----RCRVRVIASCSYAAGSDGIS  123 (143)
T ss_dssp             -HHHHHHHT-------TTSEEEEEECTTCC----------HHHHHHHHHHHHHHT-----TTTCEEEEEEEECTTTC--C
T ss_pred             -hhhHHHhC-------CCCeEEEeChHHCC----------HHHHHHHHHHHHhCC-----CCCEEEEEecCCCHHHHHhC
Confidence             22333322       25799999999873          245666777776532     1135677777653 33    


Q ss_pred             cCHHHhhCCccc-eEEEecCC
Q 013506          175 IDPALRRSGRFD-AEVEVTVP  194 (441)
Q Consensus       175 l~~~l~~~~r~~-~~i~~~~p  194 (441)
                      +.+.+..  |+. ..+.+|+.
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            3445554  543 34666653

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.43  E-value=1.2e-12  Score=109.50  Aligned_cols=128  Identities=17%  Similarity=0.195  Sum_probs=87.7

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCceEEech
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLSG  357 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~----------~~~~~~i~~  357 (441)
                      .+.++.|.+...+.+.+.+..             ....+++|+||||||||++|+.++..+          +.+++.++.
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~-------------~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (187)
T 2p65_A           20 KLDPVIGRDTEIRRAIQILSR-------------RTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDL   86 (187)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECH
T ss_pred             ccchhhcchHHHHHHHHHHhC-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeH
Confidence            455667776665655555432             335689999999999999999999987          778888888


Q ss_pred             hhhhh--hccCchHHHHHHHHHHHHhc-CCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEe
Q 013506          358 AELYS--MYVGESEALLRNTFQRARLA-APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPI  434 (441)
Q Consensus       358 ~~~~~--~~~g~~~~~~~~~~~~a~~~-~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~  434 (441)
                      ..+..  .+.+.....++.++..+... .+.+|||||++.+.+.+....     ....+.+.|+..++.   ...++|++
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~-----~~~~~~~~l~~~~~~---~~~~ii~~  158 (187)
T 2p65_A           87 SSLIAGAKYRGDFEERLKSILKEVQDAEGQVVMFIDEIHTVVGAGAVAE-----GALDAGNILKPMLAR---GELRCIGA  158 (187)
T ss_dssp             HHHHHHCCSHHHHHHHHHHHHHHHHHTTTSEEEEETTGGGGSSSSSSCT-----TSCCTHHHHHHHHHT---TCSCEEEE
T ss_pred             HHhhcCCCchhHHHHHHHHHHHHHHhcCCceEEEEeCHHHhcccccccc-----cchHHHHHHHHHHhc---CCeeEEEe
Confidence            77653  35566677788888887654 678999999999986554211     113445555555542   33455555


Q ss_pred             ee
Q 013506          435 SF  436 (441)
Q Consensus       435 ~~  436 (441)
                      +|
T Consensus       159 ~~  160 (187)
T 2p65_A          159 TT  160 (187)
T ss_dssp             EC
T ss_pred             cC
Confidence            55

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.41  E-value=4e-14  Score=138.71  Aligned_cols=169  Identities=20%  Similarity=0.204  Sum_probs=100.7

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc----cCccccccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS----PHSVHKAHV   94 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~----~~~~~~~~~   94 (441)
                      ..++|++.+|+.+...+...  .........+....++||+||||||||++|+++++.++...+...    +..+.....
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            46899999888775433211  000000011233348999999999999999999998876544321    111111111


Q ss_pred             cchHH-H---HHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-------CCCCCeE
Q 013506           95 GESEK-A---LREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-------KTSVPHV  163 (441)
Q Consensus        95 ~~~~~-~---~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-------~~~~~~~  163 (441)
                      ..... .   ....+..+       .++++||||+|.+.+          ..+..|+..++.....       .....++
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            10000 0   00011111       257999999998732          4567788888754321       1112357


Q ss_pred             EEEEEcCCCC-------------ccCHHHhhCCccce-EEEecCCCHHHHHHHHHHHhcc
Q 013506          164 VVVASTNRVD-------------AIDPALRRSGRFDA-EVEVTVPTAEERFEILKLYTKK  209 (441)
Q Consensus       164 ~vi~~~~~~~-------------~l~~~l~~~~r~~~-~i~~~~p~~~~~~~il~~~~~~  209 (441)
                      .+|+|+|+..             .+++++.+  ||+. .+..+.|+.+ ...|.++.+..
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            8999999986             88999999  9974 4555666666 77777766654

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=99.40  E-value=1.1e-11  Score=138.32  Aligned_cols=128  Identities=20%  Similarity=0.249  Sum_probs=89.4

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCC
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRR  132 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~  132 (441)
                      ..+..+.||+|||||++++.+|+.++.+++.++|.+-.+      ...+..+|..+...     +.+.++||||.+-.  
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            345779999999999999999999999999999876332      23455555554433     78999999998732  


Q ss_pred             CCCchhhHHHHHHHHH-------HHhcC--------CCCCCCCCeEEEEEEcCCC----CccCHHHhhCCccceEEEecC
Q 013506          133 DHRREQDVRIASQLFT-------LMDSN--------KPSKTSVPHVVVVASTNRV----DAIDPALRRSGRFDAEVEVTV  193 (441)
Q Consensus       133 ~~~~~~~~~~~~~l~~-------~~~~~--------~~~~~~~~~~~vi~~~~~~----~~l~~~l~~~~r~~~~i~~~~  193 (441)
                              +++..+..       .+...        .....-.+.+.+++|+|+-    .++++.++.  +|- .+.+..
T Consensus       671 --------~vLSvv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~gr~eLP~nLk~--lFr-~v~m~~  739 (3245)
T 3vkg_A          671 --------RILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYAGRSNLPDNLKK--LFR-SMAMIK  739 (3245)
T ss_dssp             --------HHHHHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCEEEECBCCCGGGCCCSCHHHHT--TEE-EEECCS
T ss_pred             --------HHHHHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCccCcccChHHHHh--hcE-EEEEeC
Confidence                    22222222       11111        1111233567888899863    479999998  884 799999


Q ss_pred             CCHHHHHHHHH
Q 013506          194 PTAEERFEILK  204 (441)
Q Consensus       194 p~~~~~~~il~  204 (441)
                      |+.+...+|+-
T Consensus       740 Pd~~~i~ei~L  750 (3245)
T 3vkg_A          740 PDREMIAQVML  750 (3245)
T ss_dssp             CCHHHHHHHHH
T ss_pred             CCHHHHHHHHH
Confidence            99999888864

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.40  E-value=3.6e-12  Score=107.13  Aligned_cols=99  Identities=20%  Similarity=0.301  Sum_probs=74.2

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCceEEech
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLSG  357 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~----------~~~~~~i~~  357 (441)
                      .++++.|.+...+.+.+.+..             ..+.+++|+||||||||++|+.++..+          +.+++.++.
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (195)
T 1jbk_A           20 KLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDM   86 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECH
T ss_pred             cccccccchHHHHHHHHHHhc-------------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeH
Confidence            455667777666666555432             335679999999999999999999986          678888888


Q ss_pred             hhhh--hhccCchHHHHHHHHHHHH-hcCCeEEEEeccccccccc
Q 013506          358 AELY--SMYVGESEALLRNTFQRAR-LAAPSIIFFDEADVVGAKR  399 (441)
Q Consensus       358 ~~~~--~~~~g~~~~~~~~~~~~a~-~~~~~vl~iDE~d~~~~~r  399 (441)
                      .++.  ..+.+.....++.++..+. ...+.+|||||+|.+.+.+
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~  131 (195)
T 1jbk_A           87 GALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAG  131 (195)
T ss_dssp             HHHHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT--
T ss_pred             HHHhccCCccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccC
Confidence            8776  3456667778888888764 3557799999999998654

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.36  E-value=6.5e-13  Score=105.57  Aligned_cols=89  Identities=12%  Similarity=0.159  Sum_probs=66.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCC
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSS  403 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~  403 (441)
                      ..+++|+||||||||++|++++.... +++.++++++...+       ...++..+.   .+++||||+|.+.+      
T Consensus        27 ~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~~~~~~~~~-------~~~~~~~a~---~~~l~lDei~~l~~------   89 (143)
T 3co5_A           27 TSPVFLTGEAGSPFETVARYFHKNGT-PWVSPARVEYLIDM-------PMELLQKAE---GGVLYVGDIAQYSR------   89 (143)
T ss_dssp             SSCEEEEEETTCCHHHHHGGGCCTTS-CEECCSSTTHHHHC-------HHHHHHHTT---TSEEEEEECTTCCH------
T ss_pred             CCcEEEECCCCccHHHHHHHHHHhCC-CeEEechhhCChHh-------hhhHHHhCC---CCeEEEeChHHCCH------
Confidence            45799999999999999999999887 89999988765533       345566543   45999999999853      


Q ss_pred             CCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          404 STSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       404 ~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                              .....|+..|+.-...+..+|++||.
T Consensus        90 --------~~q~~Ll~~l~~~~~~~~~iI~~tn~  115 (143)
T 3co5_A           90 --------NIQTGITFIIGKAERCRVRVIASCSY  115 (143)
T ss_dssp             --------HHHHHHHHHHHHHTTTTCEEEEEEEE
T ss_pred             --------HHHHHHHHHHHhCCCCCEEEEEecCC
Confidence                    33455666676544555667777764

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.36  E-value=4.3e-12  Score=118.27  Aligned_cols=127  Identities=20%  Similarity=0.316  Sum_probs=86.3

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC--ceEEechhhhhhh
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA--SFFSLSGAELYSM  363 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~--~~~~i~~~~~~~~  363 (441)
                      ...++++.|.+..++.+.......        ..+..++.++||+||||||||++|+++|..++.  +++.+++..+++.
T Consensus        40 ~~~~~~ivG~~~~~~~l~~l~~~~--------~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~~~~~~~~~~  111 (368)
T 3uk6_A           40 RQASQGMVGQLAARRAAGVVLEMI--------REGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSL  111 (368)
T ss_dssp             CSEETTEESCHHHHHHHHHHHHHH--------HTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEEEEGGGGSCS
T ss_pred             CcchhhccChHHHHHHHHHHHHHH--------HcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCcccccchhhhhc
Confidence            344888999998888766544321        124455678999999999999999999999975  6777776664443


Q ss_pred             ccCc-------------------------------------------------hHHHHHHHHHHHHh-----c----CCe
Q 013506          364 YVGE-------------------------------------------------SEALLRNTFQRARL-----A----APS  385 (441)
Q Consensus       364 ~~g~-------------------------------------------------~~~~~~~~~~~a~~-----~----~~~  385 (441)
                      +.+.                                                 ....++..+..+..     .    .|+
T Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~  191 (368)
T 3uk6_A          112 EMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPG  191 (368)
T ss_dssp             SSCHHHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBC
T ss_pred             ccchhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCc
Confidence            3222                                                 23445555544432     1    157


Q ss_pred             EEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          386 IIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       386 vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ||||||+|.+.              ....+.|++.++....  .+++++++
T Consensus       192 vl~IDEi~~l~--------------~~~~~~L~~~le~~~~--~~~ii~t~  226 (368)
T 3uk6_A          192 VLFIDEVHMLD--------------IESFSFLNRALESDMA--PVLIMATN  226 (368)
T ss_dssp             EEEEESGGGSB--------------HHHHHHHHHHTTCTTC--CEEEEEES
T ss_pred             eEEEhhccccC--------------hHHHHHHHHHhhCcCC--Ceeeeecc
Confidence            99999999884              3668899999986443  35666664

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=99.32  E-value=6.8e-11  Score=127.40  Aligned_cols=118  Identities=19%  Similarity=0.182  Sum_probs=75.6

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhh----ccC------------chHHHHHHHHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM----YVG------------ESEALLRNTFQRAR  380 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~----~~g------------~~~~~~~~~~~~a~  380 (441)
                      +++++.+++++||||||||++|.+++...   |..+..++..+....    ..|            ..+...+-+....+
T Consensus      1077 gi~~g~~vll~G~~GtGKT~la~~~~~ea~k~Ge~~~Fit~ee~~~~L~a~~~G~dl~~l~~~~pd~~e~~~~i~~~l~~ 1156 (2050)
T 3cmu_A         1077 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR 1156 (2050)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHH
T ss_pred             CcCCCcEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEccccHHHHHHHHcCCChhHheeecCcchHHHHHHHHHHHH
Confidence            57788899999999999999999887644   666666666553222    111            12222232333334


Q ss_pred             hcCCeEEEEecccccccccCCC---CCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          381 LAAPSIIFFDEADVVGAKRGGS---SSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       381 ~~~~~vl~iDE~d~~~~~r~~~---~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      ...+++|++|++..+.+.+...   ++..-+...|.+..+|..|.+...+..++++.+|.
T Consensus      1157 ~~~~dlvVIDsl~~L~~~~e~~~~~g~~~~gl~aR~~~~~L~~L~~~l~e~~stiI~tN~ 1216 (2050)
T 3cmu_A         1157 SGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQ 1216 (2050)
T ss_dssp             HTCCSEEEESCGGGCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHTTTCEEEEEEC
T ss_pred             hCCCCEEEECCcccccccccccccccccchhHHHHHHHHHHHHHHHHHHhCCeEEEEecC
Confidence            5678999999999997754321   22233455677777666666655556666666664

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.31  E-value=5.4e-12  Score=100.48  Aligned_cols=89  Identities=12%  Similarity=0.092  Sum_probs=63.4

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEeccccccccc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKR  399 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r  399 (441)
                      .+.+++|+||||||||++|++++...   +.+++ ++++.+.+.      ......+..+.   .++|||||+|.+.+  
T Consensus        23 ~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~~~~~------~~~~~~~~~a~---~g~l~ldei~~l~~--   90 (145)
T 3n70_A           23 TDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YRELTPDNA------PQLNDFIALAQ---GGTLVLSHPEHLTR--   90 (145)
T ss_dssp             CCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEECCTTTS------SCHHHHHHHHT---TSCEEEECGGGSCH--
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECCCCCcc------hhhhcHHHHcC---CcEEEEcChHHCCH--
Confidence            34579999999999999999999987   67888 888776543      22344555553   35999999998853  


Q ss_pred             CCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          400 GGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       400 ~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                                  .....|+..|..... +..+|++||
T Consensus        91 ------------~~q~~Ll~~l~~~~~-~~~~I~~t~  114 (145)
T 3n70_A           91 ------------EQQYHLVQLQSQEHR-PFRLIGIGD  114 (145)
T ss_dssp             ------------HHHHHHHHHHHSSSC-SSCEEEEES
T ss_pred             ------------HHHHHHHHHHhhcCC-CEEEEEECC
Confidence                        345667777754333 344556665

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.30  E-value=1.1e-11  Score=117.09  Aligned_cols=112  Identities=27%  Similarity=0.395  Sum_probs=76.9

Q ss_pred             cccccccCchhHH---HHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh
Q 013506          287 VTWEDIGGLRDLK---KKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (441)
Q Consensus       287 ~~~~~i~g~~~~k---~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~  363 (441)
                      ..++++.|++.+.   ..+...+..           +  ...+++|+||||||||++|++++..++.+++.++...    
T Consensus        23 ~~l~~ivGq~~~~~~~~~L~~~i~~-----------~--~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~~----   85 (447)
T 3pvs_A           23 ENLAQYIGQQHLLAAGKPLPRAIEA-----------G--HLHSMILWGPPGTGKTTLAEVIARYANADVERISAVT----   85 (447)
T ss_dssp             CSTTTCCSCHHHHSTTSHHHHHHHH-----------T--CCCEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETTT----
T ss_pred             CCHHHhCCcHHHHhchHHHHHHHHc-----------C--CCcEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEecc----
Confidence            4577788888777   556555542           1  1247999999999999999999999999999888633    


Q ss_pred             ccCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEee
Q 013506          364 YVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPIS  435 (441)
Q Consensus       364 ~~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~  435 (441)
                         ...+.++.++..+.    ...+.+|||||++.+..              ...+.||..|+.   ..+++|.+|
T Consensus        86 ---~~~~~ir~~~~~a~~~~~~~~~~iLfIDEI~~l~~--------------~~q~~LL~~le~---~~v~lI~at  141 (447)
T 3pvs_A           86 ---SGVKEIREAIERARQNRNAGRRTILFVDEVHRFNK--------------SQQDAFLPHIED---GTITFIGAT  141 (447)
T ss_dssp             ---CCHHHHHHHHHHHHHHHHTTCCEEEEEETTTCC--------------------CCHHHHHT---TSCEEEEEE
T ss_pred             ---CCHHHHHHHHHHHHHhhhcCCCcEEEEeChhhhCH--------------HHHHHHHHHHhc---CceEEEecC
Confidence               23445666666654    34678999999999853              234668888874   334444444

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.29  E-value=1.3e-11  Score=113.51  Aligned_cols=110  Identities=21%  Similarity=0.271  Sum_probs=81.3

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhcc
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYV  365 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~  365 (441)
                      ...++++.|.+..++.+...+.....        .-.+..+++|+||||||||++|+++|..++.+++.++++.+.    
T Consensus        25 p~~~~~iiG~~~~~~~l~~~l~~~~~--------~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~----   92 (338)
T 3pfi_A           25 PSNFDGYIGQESIKKNLNVFIAAAKK--------RNECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIE----   92 (338)
T ss_dssp             CCSGGGCCSCHHHHHHHHHHHHHHHH--------TTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCC----
T ss_pred             CCCHHHhCChHHHHHHHHHHHHHHHh--------cCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhcc----
Confidence            34688899999999888887764211        123456799999999999999999999999999999886642    


Q ss_pred             CchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCC
Q 013506          366 GESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE  425 (441)
Q Consensus       366 g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~  425 (441)
                        ....+..++..  ...+++|||||++.+.              ....+.|+..|+...
T Consensus        93 --~~~~~~~~~~~--~~~~~vl~lDEi~~l~--------------~~~~~~Ll~~l~~~~  134 (338)
T 3pfi_A           93 --KSGDLAAILTN--LSEGDILFIDEIHRLS--------------PAIEEVLYPAMEDYR  134 (338)
T ss_dssp             --SHHHHHHHHHT--CCTTCEEEEETGGGCC--------------HHHHHHHHHHHHTSC
T ss_pred             --chhHHHHHHHh--ccCCCEEEEechhhcC--------------HHHHHHHHHHHHhcc
Confidence              22334444443  3567799999999985              255677888887643

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.26  E-value=4.1e-11  Score=118.36  Aligned_cols=49  Identities=33%  Similarity=0.436  Sum_probs=42.7

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      ..+++++|++.+++.+...+.               .+.+++|+|||||||||+++++++.+..
T Consensus        38 ~~l~~i~G~~~~l~~l~~~i~---------------~g~~vll~Gp~GtGKTtlar~ia~~l~~   86 (604)
T 3k1j_A           38 KLIDQVIGQEHAVEVIKTAAN---------------QKRHVLLIGEPGTGKSMLGQAMAELLPT   86 (604)
T ss_dssp             SHHHHCCSCHHHHHHHHHHHH---------------TTCCEEEECCTTSSHHHHHHHHHHTSCC
T ss_pred             cccceEECchhhHhhcccccc---------------CCCEEEEEeCCCCCHHHHHHHHhccCCc
Confidence            677999999999998887764               3468999999999999999999998753

>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=99.26  E-value=3e-12  Score=124.15  Aligned_cols=139  Identities=18%  Similarity=0.182  Sum_probs=88.9

Q ss_pred             CccccccccCchhHHHHHHHHHhcccCC-chhhhhcC---CCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhh
Q 013506          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKH-STAFSRLG---ISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (441)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~-~~~~~~~~---~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~  360 (441)
                      ....++++.|.+...+.+..++...... ...+...+   ..+..+++|+||||||||++|+++|..++.+++.+++++.
T Consensus        34 rP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~~~i~in~s~~  113 (516)
T 1sxj_A           34 APTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDV  113 (516)
T ss_dssp             CCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSC
T ss_pred             CCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCCCEEEEeCCCc
Confidence            3446888999999999888887642111 01111112   2245689999999999999999999999999999999886


Q ss_pred             hhhccCchH-------HHHHHHHHHH-----HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCC
Q 013506          361 YSMYVGESE-------ALLRNTFQRA-----RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAK  428 (441)
Q Consensus       361 ~~~~~g~~~-------~~~~~~~~~a-----~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  428 (441)
                      .+.+.....       ..+..+|..+     ....++||||||+|.+....           ...++.|++.++.  ...
T Consensus       114 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~-----------~~~l~~L~~~l~~--~~~  180 (516)
T 1sxj_A          114 RSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGD-----------RGGVGQLAQFCRK--TST  180 (516)
T ss_dssp             CCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTS-----------TTHHHHHHHHHHH--CSS
T ss_pred             chHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhh-----------HHHHHHHHHHHHh--cCC
Confidence            553321110       0022233333     22567899999999997421           1235667766663  334


Q ss_pred             eEEEEeee
Q 013506          429 VIIYPISF  436 (441)
Q Consensus       429 ~v~~~~~~  436 (441)
                      .+|+++++
T Consensus       181 ~iIli~~~  188 (516)
T 1sxj_A          181 PLILICNE  188 (516)
T ss_dssp             CEEEEESC
T ss_pred             CEEEEEcC
Confidence            46666554

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.26  E-value=1.8e-11  Score=111.24  Aligned_cols=127  Identities=21%  Similarity=0.279  Sum_probs=81.9

Q ss_pred             cccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhh----
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM----  363 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~----  363 (441)
                      .+.|...+.+.+...+.......    .-...|..+++|+||||||||++|+++|..+   +.+++.++++.+...    
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~----~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~~~~   93 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGL----KDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVS   93 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTC----SCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTTHHH
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCC----CCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeecccccccccHH
Confidence            45677777777776664321110    1122345689999999999999999999988   456888887764321    


Q ss_pred             -cc-------CchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCC---------
Q 013506          364 -YV-------GESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQ---------  426 (441)
Q Consensus       364 -~~-------g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~---------  426 (441)
                       ++       +....  ..+.......+.+++||||+|++.              ..+.+.|++.|+...-         
T Consensus        94 ~l~g~~~~~~~~~~~--~~~~~~~~~~~~~vl~lDEi~~l~--------------~~~~~~Ll~~le~~~~~~~~~~~~~  157 (311)
T 4fcw_A           94 RLIGAPPGYVGYEEG--GQLTEAVRRRPYSVILFDAIEKAH--------------PDVFNILLQMLDDGRLTDSHGRTVD  157 (311)
T ss_dssp             HHHCCCTTSTTTTTC--CHHHHHHHHCSSEEEEEETGGGSC--------------HHHHHHHHHHHHHSEEECTTSCEEE
T ss_pred             HhcCCCCcccccccc--chHHHHHHhCCCeEEEEeChhhcC--------------HHHHHHHHHHHhcCEEEcCCCCEEE
Confidence             11       11110  123333344566899999999984              2667888888875331         


Q ss_pred             -CCeEEEEeeee
Q 013506          427 -AKVIIYPISFI  437 (441)
Q Consensus       427 -~~~v~~~~~~~  437 (441)
                       ...++|++||.
T Consensus       158 ~~~~iiI~ttn~  169 (311)
T 4fcw_A          158 FRNTVIIMTSNL  169 (311)
T ss_dssp             CTTEEEEEEEST
T ss_pred             CCCcEEEEeccc
Confidence             25667777775

>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=99.24  E-value=2.8e-11  Score=110.52  Aligned_cols=74  Identities=18%  Similarity=0.224  Sum_probs=55.8

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      .+.+++|+||||||||++|++++..+   +.+++.+++.++...+.+.........|.... ..+++|||||++.+.+
T Consensus        36 ~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~vL~iDEi~~l~~  112 (324)
T 1l8q_A           36 LYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLKKGTINEFRNMY-KSVDLLLLDDVQFLSG  112 (324)
T ss_dssp             SCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHHHTCHHHHHHHH-HTCSEEEEECGGGGTT
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEHHHHHHHHHHHHHcCcHHHHHHHh-cCCCEEEEcCcccccC
Confidence            34679999999999999999999988   88999999988866555444332223333333 3467999999999863

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.23  E-value=3.9e-11  Score=107.17  Aligned_cols=101  Identities=13%  Similarity=0.109  Sum_probs=70.8

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc----------CCceEEechhhhhhh----------c------cCchHHHHHHH
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLSGAELYSM----------Y------VGESEALLRNT  375 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~----------~~~~~~i~~~~~~~~----------~------~g~~~~~~~~~  375 (441)
                      .++.+++++||||||||++++.++..+          ...++.+++..+.+.          .      .+++.+.++.+
T Consensus        43 ~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~~~~~~~~~~~L~~~  122 (318)
T 3te6_A           43 SQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKENLCGDISLEALNFY  122 (318)
T ss_dssp             TCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHHHHHHSCCC--CCCCHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHHHHHhcCCCCCchHHHHHHHHH
Confidence            456789999999999999999999988          346778887553321          2      23356778888


Q ss_pred             HHHH--HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          376 FQRA--RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       376 ~~~a--~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      |...  ....+.|+||||+|.+.             .+.++-.|+.+.+. .....++|+.+|
T Consensus       123 f~~~~~~~~~~~ii~lDE~d~l~-------------~q~~L~~l~~~~~~-~~s~~~vI~i~n  171 (318)
T 3te6_A          123 ITNVPKAKKRKTLILIQNPENLL-------------SEKILQYFEKWISS-KNSKLSIICVGG  171 (318)
T ss_dssp             HHHSCGGGSCEEEEEEECCSSSC-------------CTHHHHHHHHHHHC-SSCCEEEEEECC
T ss_pred             HHHhhhccCCceEEEEecHHHhh-------------cchHHHHHHhcccc-cCCcEEEEEEec
Confidence            8875  34567899999999996             13677778876643 333344444444

>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=99.21  E-value=6.2e-11  Score=108.26  Aligned_cols=118  Identities=21%  Similarity=0.184  Sum_probs=84.6

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhcc
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYV  365 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~  365 (441)
                      ...++++.|.+.+.+.+..++..           + ..+..+|++||||||||++|+++|..++.+++.+++++.     
T Consensus        22 P~~~~~ivg~~~~~~~l~~~l~~-----------~-~~~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i~~~~~-----   84 (324)
T 3u61_B           22 PSTIDECILPAFDKETFKSITSK-----------G-KIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDC-----   84 (324)
T ss_dssp             CCSTTTSCCCHHHHHHHHHHHHT-----------T-CCCSEEEECSSTTSSHHHHHHHHHHHTTEEEEEEETTTC-----
T ss_pred             CCCHHHHhCcHHHHHHHHHHHHc-----------C-CCCeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEEccccc-----
Confidence            34678889999988888887762           1 223456788889999999999999999999999998662     


Q ss_pred             CchHHHHHHHHHHHHhc-----CCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          366 GESEALLRNTFQRARLA-----APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       366 g~~~~~~~~~~~~a~~~-----~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      +  ...++..+......     .+.++||||+|.+.+             ....+.|++.|+.... ..++|+++|
T Consensus        85 ~--~~~i~~~~~~~~~~~~~~~~~~vliiDEi~~l~~-------------~~~~~~L~~~le~~~~-~~~iI~~~n  144 (324)
T 3u61_B           85 K--IDFVRGPLTNFASAASFDGRQKVIVIDEFDRSGL-------------AESQRHLRSFMEAYSS-NCSIIITAN  144 (324)
T ss_dssp             C--HHHHHTHHHHHHHBCCCSSCEEEEEEESCCCGGG-------------HHHHHHHHHHHHHHGG-GCEEEEEES
T ss_pred             C--HHHHHHHHHHHHhhcccCCCCeEEEEECCcccCc-------------HHHHHHHHHHHHhCCC-CcEEEEEeC
Confidence            1  34455544443222     567999999998851             2456788888876543 345555665

>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=99.20  E-value=6.2e-10  Score=105.26  Aligned_cols=208  Identities=15%  Similarity=0.158  Sum_probs=122.6

Q ss_pred             ccccchHHHHHHHHHHH-HhhccCchHHHhcCC-CCCcEEEE--EcCCCCcHHHHHHHHHHHh---------CCcEEEEc
Q 013506           19 EAIGGNRAAVEALRELI-TFPLLYSSQAQKLGL-KWPRGLLL--YGPPGTGKTSLVRAVVREC---------GAHLTVIS   85 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~-~~~~~~~~~~~~~~~-~~~~~vll--~Gp~GtGKT~l~~~l~~~l---------~~~~~~v~   85 (441)
                      +.++|.++..+.|.+.+ .....        +. ..+..++|  +||+|+|||++++.+++.+         +..+++++
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~--------~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~   93 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLS--------GAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVN   93 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHT--------SSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEE
T ss_pred             CCCCChHHHHHHHHHHHhHHHhc--------CCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEE
Confidence            67999999999999887 43111        00 13568999  9999999999999998876         34566776


Q ss_pred             cCcccccc----------------ccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHH
Q 013506           86 PHSVHKAH----------------VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTL  149 (441)
Q Consensus        86 ~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~  149 (441)
                      +.......                .+.....+...+.....  ..+++.+|+|||++.+.....    .....+..++..
T Consensus        94 ~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~--~~~~~~llvlDe~~~l~~~~~----~~~~~l~~l~~~  167 (412)
T 1w5s_A           94 AFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLY--VENHYLLVILDEFQSMLSSPR----IAAEDLYTLLRV  167 (412)
T ss_dssp             GGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHH--HHTCEEEEEEESTHHHHSCTT----SCHHHHHHHHTH
T ss_pred             CCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHH--hcCCeEEEEEeCHHHHhhccC----cchHHHHHHHHH
Confidence            53211100                01001111111111111  124578999999998843210    022455555565


Q ss_pred             HhcCCCCCCCCCeEEEEEEcCCCC---ccC---HHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCC---CCcccHHH
Q 013506          150 MDSNKPSKTSVPHVVVVASTNRVD---AID---PALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPL---DANVDLEA  220 (441)
Q Consensus       150 ~~~~~~~~~~~~~~~vi~~~~~~~---~l~---~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~---~~~~~~~~  220 (441)
                      +....... ...++.+|++++.+.   .++   +.+.+  ++...+.+++++.++..+++...+.....   ..+..+..
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            55432100 013577887776554   334   55666  56555999999999999999876543211   12223666


Q ss_pred             HHHHCC------CCCHHHHHHHHHHHHHHH
Q 013506          221 IATSCN------GYVGADLEALCREATMSA  244 (441)
Q Consensus       221 l~~~~~------g~~~~~i~~l~~~a~~~~  244 (441)
                      +...+.      | +++.+..+++.+...+
T Consensus       245 i~~~~~~~~~~~G-~p~~~~~l~~~a~~~a  273 (412)
T 1w5s_A          245 ISDVYGEDKGGDG-SARRAIVALKMACEMA  273 (412)
T ss_dssp             HHHHHCGGGTSCC-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCC-cHHHHHHHHHHHHHHH
Confidence            777777      5 4666667766655444

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.16  E-value=4.3e-11  Score=114.35  Aligned_cols=88  Identities=23%  Similarity=0.366  Sum_probs=65.0

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCceEEec
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLS  356 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~----------~~~~~~i~  356 (441)
                      ..++++.|.+...+.+...+..             ....++||+||||||||++|+.+|..+          +.+++.++
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            3567788888777776666542             334589999999999999999999986          77888888


Q ss_pred             hhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEe
Q 013506          357 GAELYSMYVGESEALLRNTFQRARLAAPSIIFFD  390 (441)
Q Consensus       357 ~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iD  390 (441)
                      ++   ..|.|+++..++.+|..+....+.|||||
T Consensus       244 ~~---~~~~g~~e~~~~~~~~~~~~~~~~iLfiD  274 (468)
T 3pxg_A          244 MG---TKYRGEFEDRLKKVMDEIRQAGNIILFID  274 (468)
T ss_dssp             ------------CTTHHHHHHHHHTCCCCEEEEC
T ss_pred             CC---ccccchHHHHHHHHHHHHHhcCCeEEEEe
Confidence            87   67888998999999999988888999999

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.14  E-value=2.4e-10  Score=107.11  Aligned_cols=130  Identities=18%  Similarity=0.160  Sum_probs=84.1

Q ss_pred             ccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc---------CCceEEechhhh
Q 013506          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---------EASFFSLSGAEL  360 (441)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~---------~~~~~~i~~~~~  360 (441)
                      +.+.|.+...+.+...+...+.         ...+.+++|+||||||||++++.++..+         +..++.+++...
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~---------~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~   89 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALR---------GEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHR   89 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTS---------SCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTS
T ss_pred             CCCCCHHHHHHHHHHHHHHHHc---------CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcC
Confidence            4567777777777665543211         1345689999999999999999999988         778888887643


Q ss_pred             hhh----------------ccCchH-HHHHHHHHHHHh-cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhc
Q 013506          361 YSM----------------YVGESE-ALLRNTFQRARL-AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (441)
Q Consensus       361 ~~~----------------~~g~~~-~~~~~~~~~a~~-~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~  422 (441)
                      .+.                +.+.+. ..+..++..... ..+++|||||++.+...+         ....++..++..++
T Consensus        90 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~---------~~~~~l~~l~~~~~  160 (387)
T 2v1u_A           90 ETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRP---------GGQDLLYRITRINQ  160 (387)
T ss_dssp             CSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHST---------THHHHHHHHHHGGG
T ss_pred             CCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccC---------CCChHHHhHhhchh
Confidence            221                112222 334555555433 347799999999996432         13467888888887


Q ss_pred             CCC-CCCeEEEEeeee
Q 013506          423 GLE-QAKVIIYPISFI  437 (441)
Q Consensus       423 ~~~-~~~~v~~~~~~~  437 (441)
                      ..+ ....++|++||-
T Consensus       161 ~~~~~~~~~~I~~t~~  176 (387)
T 2v1u_A          161 ELGDRVWVSLVGITNS  176 (387)
T ss_dssp             CC-----CEEEEECSC
T ss_pred             hcCCCceEEEEEEECC
Confidence            665 556666666654

>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=99.14  E-value=1.7e-10  Score=109.32  Aligned_cols=101  Identities=15%  Similarity=0.174  Sum_probs=66.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc-----CCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccccc
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAK  398 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~-----~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~  398 (441)
                      +.+++|+||||||||++|++++..+     +.+++.+++.++...+.+.........|.......+.+|||||++.+...
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vL~IDEi~~l~~~  209 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKEGKLNEFREKYRKKVDILLIDDVQFLIGK  209 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHHHHHHHHHHHHTTCHHHHHHHHTTTCSEEEEECGGGGSSC
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHcccHHHHHHHhcCCCCEEEEeCcccccCC
Confidence            4579999999999999999999988     78889999888765444332222122344333336789999999998632


Q ss_pred             cCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          399 RGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       399 r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      +            ...+.|+..++.....+..+|++|+
T Consensus       210 ~------------~~q~~l~~~l~~l~~~~~~iIitt~  235 (440)
T 2z4s_A          210 T------------GVQTELFHTFNELHDSGKQIVICSD  235 (440)
T ss_dssp             H------------HHHHHHHHHHHHHHTTTCEEEEEES
T ss_pred             h------------HHHHHHHHHHHHHHHCCCeEEEEEC
Confidence            1            1223444444433344556666665

>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=99.12  E-value=2.3e-10  Score=98.38  Aligned_cols=116  Identities=24%  Similarity=0.320  Sum_probs=74.9

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc-----CCceEEechhhhh
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELY  361 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~-----~~~~~~i~~~~~~  361 (441)
                      ..+.++.|.+...+.+...+..             ....+++|+||+|||||++++.++..+     ...++.++.++..
T Consensus        14 ~~~~~~~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~~~   80 (226)
T 2chg_A           14 RTLDEVVGQDEVIQRLKGYVER-------------KNIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDER   80 (226)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHT-------------TCCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTCTT
T ss_pred             CCHHHHcCcHHHHHHHHHHHhC-------------CCCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEecccccc
Confidence            3566778888888888777653             122359999999999999999999876     3446666654432


Q ss_pred             hhccCchHHHHHHHHHHHH------hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEee
Q 013506          362 SMYVGESEALLRNTFQRAR------LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPIS  435 (441)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~------~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~  435 (441)
                      +      ...+...+....      ...+.+|||||++.+.+              ...+.|++.++.... ..++|+++
T Consensus        81 ~------~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--------------~~~~~l~~~l~~~~~-~~~~i~~~  139 (226)
T 2chg_A           81 G------IDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTA--------------DAQAALRRTMEMYSK-SCRFILSC  139 (226)
T ss_dssp             C------HHHHHHHHHHHHTSCCSTTCSCEEEEEETGGGSCH--------------HHHHHHHHHHHHTTT-TEEEEEEE
T ss_pred             C------hHHHHHHHHHHhcccCCCccCceEEEEeChhhcCH--------------HHHHHHHHHHHhcCC-CCeEEEEe
Confidence            2      122222222221      25678999999999853              335667777775433 44555555


Q ss_pred             e
Q 013506          436 F  436 (441)
Q Consensus       436 ~  436 (441)
                      |
T Consensus       140 ~  140 (226)
T 2chg_A          140 N  140 (226)
T ss_dssp             S
T ss_pred             C
Confidence            5

>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=99.11  E-value=2.3e-10  Score=104.46  Aligned_cols=107  Identities=29%  Similarity=0.385  Sum_probs=74.3

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCc
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGE  367 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~  367 (441)
                      .++++.|.+...+.+...+.....        ...+..+++|+||||||||++|++++..++.+++.++++.+..     
T Consensus        10 ~~~~~ig~~~~~~~l~~~l~~~~~--------~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~-----   76 (324)
T 1hqc_A           10 TLDEYIGQERLKQKLRVYLEAAKA--------RKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK-----   76 (324)
T ss_dssp             STTTCCSCHHHHHHHHHHHHHHHH--------HCSCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCS-----
T ss_pred             cHHHhhCHHHHHHHHHHHHHHHHc--------cCCCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCC-----
Confidence            567788888888877776653210        1123467999999999999999999999999998888766422     


Q ss_pred             hHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          368 SEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       368 ~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                       ...+...+..+ ...+++|||||++.+.+              ...+.|+..|+.
T Consensus        77 -~~~l~~~l~~~-~~~~~~l~lDEi~~l~~--------------~~~~~L~~~l~~  116 (324)
T 1hqc_A           77 -PGDLAAILANS-LEEGDILFIDEIHRLSR--------------QAEEHLYPAMED  116 (324)
T ss_dssp             -HHHHHHHHTTT-CCTTCEEEETTTTSCCH--------------HHHHHHHHHHHH
T ss_pred             -hHHHHHHHHHh-ccCCCEEEEECCccccc--------------chHHHHHHHHHh
Confidence             22333333321 24567999999998852              335666666664

>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=99.08  E-value=7.9e-10  Score=98.98  Aligned_cols=93  Identities=6%  Similarity=0.077  Sum_probs=66.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc------CCceEEechhhhhhhccCchHHHHHHHHHHHHhc----CCeEEEEecccc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA------EASFFSLSGAELYSMYVGESEALLRNTFQRARLA----APSIIFFDEADV  394 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~------~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~----~~~vl~iDE~d~  394 (441)
                      .++||+||||+|||++|+++|..+      ..+++.++.++     .....+.++.+.+.+...    ...|+||||+|.
T Consensus        19 ~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~-----~~~~id~ir~li~~~~~~p~~~~~kvviIdead~   93 (305)
T 2gno_A           19 ISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEG-----ENIGIDDIRTIKDFLNYSPELYTRKYVIVHDCER   93 (305)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSS-----SCBCHHHHHHHHHHHTSCCSSSSSEEEEETTGGG
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCc-----CCCCHHHHHHHHHHHhhccccCCceEEEeccHHH
Confidence            478999999999999999999863      34666666532     012345678888888543    347999999999


Q ss_pred             cccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          395 VGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       395 ~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      +.              ....+.||+.|+..+...++|+++++
T Consensus        94 lt--------------~~a~naLLk~LEep~~~t~fIl~t~~  121 (305)
T 2gno_A           94 MT--------------QQAANAFLKALEEPPEYAVIVLNTRR  121 (305)
T ss_dssp             BC--------------HHHHHHTHHHHHSCCTTEEEEEEESC
T ss_pred             hC--------------HHHHHHHHHHHhCCCCCeEEEEEECC
Confidence            84              35579999999975544444444433

>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=99.08  E-value=1.4e-10  Score=102.55  Aligned_cols=122  Identities=20%  Similarity=0.190  Sum_probs=71.0

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcC---CceEEechhhhhhh-
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE---ASFFSLSGAELYSM-  363 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~---~~~~~i~~~~~~~~-  363 (441)
                      +++.+.|.....+.+.+.+....           ..+.+++|+||||||||++|++++..+.   .+++.++++++... 
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            34556666655555554443211           1235799999999999999999999875   67999998775321 


Q ss_pred             ----ccCchHH-------HHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCC-------
Q 013506          364 ----YVGESEA-------LLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-------  425 (441)
Q Consensus       364 ----~~g~~~~-------~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~-------  425 (441)
                          ..|....       .....+..   ...++|||||++.+.+              .+.+.|++.|+.-.       
T Consensus        73 ~~~~l~g~~~~~~~g~~~~~~~~l~~---a~~~~l~lDEi~~l~~--------------~~q~~Ll~~l~~~~~~~~g~~  135 (265)
T 2bjv_A           73 LDSELFGHEAGAFTGAQKRHPGRFER---ADGGTLFLDELATAPM--------------MVQEKLLRVIEYGELERVGGS  135 (265)
T ss_dssp             HHHHHHCCC---------CCCCHHHH---TTTSEEEEESGGGSCH--------------HHHHHHHHHHHHCEECCCCC-
T ss_pred             HHHHhcCCcccccccccccccchhhh---cCCcEEEEechHhcCH--------------HHHHHHHHHHHhCCeecCCCc
Confidence                1111000       00112332   2356999999999853              44567777776421       


Q ss_pred             ---CCCeEEEEeeee
Q 013506          426 ---QAKVIIYPISFI  437 (441)
Q Consensus       426 ---~~~~v~~~~~~~  437 (441)
                         ..+..+|++||.
T Consensus       136 ~~~~~~~~iI~atn~  150 (265)
T 2bjv_A          136 QPLQVNVRLVCATNA  150 (265)
T ss_dssp             -CEECCCEEEEEESS
T ss_pred             ccccCCeEEEEecCc
Confidence               234566666664

>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=99.08  E-value=1e-09  Score=102.84  Aligned_cols=128  Identities=16%  Similarity=0.199  Sum_probs=83.2

Q ss_pred             ccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc------CCceEEechhhhhh-
Q 013506          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA------EASFFSLSGAELYS-  362 (441)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~------~~~~~~i~~~~~~~-  362 (441)
                      +.+.|.+...+.+...+...+.         ...+.+++++||+|||||++++.++..+      +..++.+++..... 
T Consensus        20 ~~~~gr~~e~~~l~~~l~~~~~---------~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~   90 (386)
T 2qby_A           20 DELPHREDQIRKIASILAPLYR---------EEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTP   90 (386)
T ss_dssp             SCCTTCHHHHHHHHHSSGGGGG---------TCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSH
T ss_pred             CCCCChHHHHHHHHHHHHHHHc---------CCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCH
Confidence            4567777666666665442111         1345679999999999999999999988      78888888754321 


Q ss_pred             -----h----------ccCch-HHHHHHHHHHHHhc-CCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCC
Q 013506          363 -----M----------YVGES-EALLRNTFQRARLA-APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE  425 (441)
Q Consensus       363 -----~----------~~g~~-~~~~~~~~~~a~~~-~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~  425 (441)
                           .          ..+.+ ......++...... .+.+|||||++.+...++          ..++..|+..++...
T Consensus        91 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~----------~~~l~~l~~~~~~~~  160 (386)
T 2qby_A           91 YRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYN----------DDILYKLSRINSEVN  160 (386)
T ss_dssp             HHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSC----------STHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCc----------CHHHHHHhhchhhcC
Confidence                 1          11222 23344555554433 388999999999874321          256888888887765


Q ss_pred             CCCeEEEEeee
Q 013506          426 QAKVIIYPISF  436 (441)
Q Consensus       426 ~~~~v~~~~~~  436 (441)
                      ....++|++++
T Consensus       161 ~~~~~~I~~~~  171 (386)
T 2qby_A          161 KSKISFIGITN  171 (386)
T ss_dssp             C--EEEEEEES
T ss_pred             CCeEEEEEEEC
Confidence            55566666665

>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=99.07  E-value=2.5e-10  Score=94.54  Aligned_cols=63  Identities=21%  Similarity=0.330  Sum_probs=42.0

Q ss_pred             cccccccc----hHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----CCcEEEEccC
Q 013506           16 KAEEAIGG----NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----GAHLTVISPH   87 (441)
Q Consensus        16 ~~~~~i~G----~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----~~~~~~v~~~   87 (441)
                      .+|++.++    ++.+++.+.+++.          ++.+..+.+++|+|||||||||+++++++.+    +..++.++..
T Consensus         7 ~~f~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~   76 (180)
T 3ec2_A            7 ANLDTYHPKNVSQNRALLTIRVFVH----------NFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTK   76 (180)
T ss_dssp             CCSSSCCCCSHHHHHHHHHHHHHHH----------SCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHH
T ss_pred             CccccccCCCHHHHHHHHHHHHHHH----------hccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHH
Confidence            35667665    4444444444443          2334457899999999999999999999877    4455555543


Q ss_pred             c
Q 013506           88 S   88 (441)
Q Consensus        88 ~   88 (441)
                      +
T Consensus        77 ~   77 (180)
T 3ec2_A           77 D   77 (180)
T ss_dssp             H
T ss_pred             H
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=99.07  E-value=1.7e-10  Score=106.66  Aligned_cols=120  Identities=18%  Similarity=0.201  Sum_probs=75.5

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcC------CceEEechhh
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE------ASFFSLSGAE  359 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~------~~~~~i~~~~  359 (441)
                      ...+.++.|.+.+.+.+...+..             ....+++|+||||||||++|++++..++      ..++.+++++
T Consensus        33 p~~~~~i~g~~~~~~~l~~~l~~-------------~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~   99 (353)
T 1sxj_D           33 PKNLDEVTAQDHAVTVLKKTLKS-------------ANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASD   99 (353)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTC-------------TTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSS
T ss_pred             CCCHHHhhCCHHHHHHHHHHHhc-------------CCCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEcccc
Confidence            34577888988888887776542             1123599999999999999999999864      3567777665


Q ss_pred             hhhhccCchHHHHHHHHHH------------HHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCC
Q 013506          360 LYSMYVGESEALLRNTFQR------------ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQA  427 (441)
Q Consensus       360 ~~~~~~g~~~~~~~~~~~~------------a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~  427 (441)
                      ..+  ++...+.+......            .....+.|+||||++.+.+              ...+.|++.|+.....
T Consensus       100 ~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~--------------~~~~~Ll~~le~~~~~  163 (353)
T 1sxj_D          100 ERG--ISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTA--------------DAQSALRRTMETYSGV  163 (353)
T ss_dssp             CCC--HHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCH--------------HHHHHHHHHHHHTTTT
T ss_pred             ccc--hHHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCH--------------HHHHHHHHHHHhcCCC
Confidence            321  11111111111110            0013456999999998853              3457788888876555


Q ss_pred             CeEEEEe
Q 013506          428 KVIIYPI  434 (441)
Q Consensus       428 ~~v~~~~  434 (441)
                      .++|+++
T Consensus       164 ~~~il~~  170 (353)
T 1sxj_D          164 TRFCLIC  170 (353)
T ss_dssp             EEEEEEE
T ss_pred             ceEEEEe
Confidence            4444443

>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=99.07  E-value=1.7e-10  Score=95.62  Aligned_cols=103  Identities=15%  Similarity=0.081  Sum_probs=64.8

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc----CCceEEechhhhhhhccCchHH-HHHHHHHHHHhcCCeEEEEeccccc
Q 013506          321 ISPVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGAELYSMYVGESEA-LLRNTFQRARLAAPSIIFFDEADVV  395 (441)
Q Consensus       321 ~~~~~~~ll~Gp~GtGKTtla~~la~~~----~~~~~~i~~~~~~~~~~g~~~~-~~~~~~~~a~~~~~~vl~iDE~d~~  395 (441)
                      ..++.+++|+|||||||||++++++..+    +..++.++..++...+...... ....+++..  ..+.+|+|||++..
T Consensus        35 ~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~llilDE~~~~  112 (180)
T 3ec2_A           35 PEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFRLKHLMDEGKDTKFLKTV--LNSPVLVLDDLGSE  112 (180)
T ss_dssp             GGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHHHHHHHHHHHHHHTCCSHHHHHH--HTCSEEEEETCSSS
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHhcCchHHHHHHHh--cCCCEEEEeCCCCC
Confidence            3446789999999999999999999877    5677777777765543211111 011222222  35679999999854


Q ss_pred             ccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          396 GAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       396 ~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      .         .+......+..++...   ...+..+|++||.
T Consensus       113 ~---------~~~~~~~~l~~ll~~~---~~~~~~ii~tsn~  142 (180)
T 3ec2_A          113 R---------LSDWQRELISYIITYR---YNNLKSTIITTNY  142 (180)
T ss_dssp             C---------CCHHHHHHHHHHHHHH---HHTTCEEEEECCC
T ss_pred             c---------CCHHHHHHHHHHHHHH---HHcCCCEEEEcCC
Confidence            2         1233445555555554   2345667777775

>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=99.05  E-value=5.9e-10  Score=101.88  Aligned_cols=120  Identities=26%  Similarity=0.314  Sum_probs=77.0

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC-----ceEEechhhhh
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA-----SFFSLSGAELY  361 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~-----~~~~i~~~~~~  361 (441)
                      ..+.++.|.+.+.+.+...+..           +  ...+++|+||||||||++|+.++..+..     .++.+++++..
T Consensus        22 ~~~~~~~g~~~~~~~l~~~l~~-----------~--~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~~   88 (327)
T 1iqp_A           22 QRLDDIVGQEHIVKRLKHYVKT-----------G--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDER   88 (327)
T ss_dssp             CSTTTCCSCHHHHHHHHHHHHH-----------T--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHH
T ss_pred             CCHHHhhCCHHHHHHHHHHHHc-----------C--CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeeccccC
Confidence            4577788998888888877653           1  2236999999999999999999998632     36666665543


Q ss_pred             hhccCchHHHHHHHHHHH--HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          362 SMYVGESEALLRNTFQRA--RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a--~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      +  .......+.......  ....+.++||||+|.+.+              ...+.|++.|+.... ..++|+++|
T Consensus        89 ~--~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--------------~~~~~L~~~le~~~~-~~~~i~~~~  148 (327)
T 1iqp_A           89 G--INVIREKVKEFARTKPIGGASFKIIFLDEADALTQ--------------DAQQALRRTMEMFSS-NVRFILSCN  148 (327)
T ss_dssp             H--HHTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCH--------------HHHHHHHHHHHHTTT-TEEEEEEES
T ss_pred             c--hHHHHHHHHHHHhhCCcCCCCCeEEEEeCCCcCCH--------------HHHHHHHHHHHhcCC-CCeEEEEeC
Confidence            2  111112222221110  114578999999998842              446788888886444 444555554

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.04  E-value=3e-10  Score=102.09  Aligned_cols=97  Identities=21%  Similarity=0.319  Sum_probs=64.3

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhh-------------ccCchHHHHHHHHHHHHhcCCeE
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM-------------YVGESEALLRNTFQRARLAAPSI  386 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~-------------~~g~~~~~~~~~~~~a~~~~~~v  386 (441)
                      ...++||+|+||||||++|++++...   +.+++.++++.+...             |.|... .....|..+.   .++
T Consensus        24 ~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~~~l~~~~lfg~~~g~~tg~~~-~~~g~~~~a~---~g~   99 (304)
T 1ojl_A           24 SDATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALNESLLESELFGHEKGAFTGADK-RREGRFVEAD---GGT   99 (304)
T ss_dssp             TTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCCHHHHHHHHTCCCSSCCC---C-CCCCHHHHHT---TSE
T ss_pred             CCCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCChHHHHHHhcCccccccCchhh-hhcCHHHhcC---CCE
Confidence            35579999999999999999999976   567888887654321             111111 1223455443   359


Q ss_pred             EEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCC----------CCCeEEEEeeee
Q 013506          387 IFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE----------QAKVIIYPISFI  437 (441)
Q Consensus       387 l~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~----------~~~~v~~~~~~~  437 (441)
                      |||||++.+.+              .+...|+..|+...          ..+..||++||-
T Consensus       100 L~LDEi~~l~~--------------~~q~~Ll~~l~~~~~~~~g~~~~~~~~~riI~atn~  146 (304)
T 1ojl_A          100 LFLDEIGDISP--------------LMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHR  146 (304)
T ss_dssp             EEEESCTTCCH--------------HHHHHHHHHHHSSBCCBTTBCCCCBCCCEEEEEESS
T ss_pred             EEEeccccCCH--------------HHHHHHHHHHhcCEeeecCCcccccCCeEEEEecCc
Confidence            99999999853              45677888887643          234566666663

>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=99.04  E-value=8.1e-10  Score=100.78  Aligned_cols=116  Identities=22%  Similarity=0.255  Sum_probs=78.9

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc-----CCceEEechhhhh
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELY  361 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~-----~~~~~~i~~~~~~  361 (441)
                      ..+.++.|.+...+.+...+..           +  ...+++|+||+|+|||++|+.++..+     ...++.++.++..
T Consensus        18 ~~~~~~~g~~~~~~~l~~~l~~-----------~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~   84 (323)
T 1sxj_B           18 QVLSDIVGNKETIDRLQQIAKD-----------G--NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDR   84 (323)
T ss_dssp             SSGGGCCSCTHHHHHHHHHHHS-----------C--CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCC
T ss_pred             CCHHHHHCCHHHHHHHHHHHHc-----------C--CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecCcccc
Confidence            3567788888888888877652           1  12349999999999999999999986     3346666665432


Q ss_pred             hhccCchHHHHHHHHHHHH-------hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEe
Q 013506          362 SMYVGESEALLRNTFQRAR-------LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPI  434 (441)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~-------~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~  434 (441)
                            ....++.++....       ...+.++||||+|.+..              ...+.|++.++.... ..++|++
T Consensus        85 ------~~~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~~--------------~~~~~L~~~le~~~~-~~~~il~  143 (323)
T 1sxj_B           85 ------GIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTA--------------GAQQALRRTMELYSN-STRFAFA  143 (323)
T ss_dssp             ------SHHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCH--------------HHHHTTHHHHHHTTT-TEEEEEE
T ss_pred             ------ChHHHHHHHHHHHhccccCCCCCceEEEEECcccCCH--------------HHHHHHHHHHhccCC-CceEEEE
Confidence                  1344555555544       33478999999999852              346778888876444 4445555


Q ss_pred             ee
Q 013506          435 SF  436 (441)
Q Consensus       435 ~~  436 (441)
                      +|
T Consensus       144 ~~  145 (323)
T 1sxj_B          144 CN  145 (323)
T ss_dssp             ES
T ss_pred             eC
Confidence            44

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=99.04  E-value=3.1e-10  Score=90.36  Aligned_cols=58  Identities=21%  Similarity=0.363  Sum_probs=44.9

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccccc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDAL  128 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l  128 (441)
                      ++..++|+||+|+|||++++++++.+   +...++++..++...                   ....++.+|+|||++.+
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~~~-------------------~~~~~~~lLilDE~~~~   95 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMPLT-------------------DAAFEAEYLAVDQVEKL   95 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSCCC-------------------GGGGGCSEEEEESTTCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhhHH-------------------HHHhCCCEEEEeCcccc
Confidence            56789999999999999999999987   555777777665433                   00123789999999865

>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=99.03  E-value=3.2e-10  Score=103.26  Aligned_cols=120  Identities=23%  Similarity=0.298  Sum_probs=78.0

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc-----CCceEEechhhhh
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELY  361 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~-----~~~~~~i~~~~~~  361 (441)
                      ..+.++.|.+...+.+...+..             ....+++|+||||||||++|+.++..+     +.+++.++.++..
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            4577788888888777665432             122359999999999999999999986     3356777776643


Q ss_pred             hhccCchHHHHHHHHHHH--HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          362 SMYVGESEALLRNTFQRA--RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a--~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      +  .......+.......  ....+.|+||||+|.+.+              ...+.|++.|+.... ..++|+++|
T Consensus        81 ~--~~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~--------------~~~~~L~~~le~~~~-~~~~i~~~~  140 (319)
T 2chq_A           81 G--IDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTA--------------DAQAALRRTMEMYSK-SCRFILSCN  140 (319)
T ss_dssp             C--TTTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCH--------------HHHHTTGGGTSSSSS-SEEEEEEES
T ss_pred             C--hHHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCH--------------HHHHHHHHHHHhcCC-CCeEEEEeC
Confidence            3  222222222222111  124578999999999842              456788888887544 445555554

>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=99.02  E-value=4.9e-10  Score=97.83  Aligned_cols=122  Identities=16%  Similarity=0.215  Sum_probs=75.7

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEech----------
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSG----------  357 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~----------  357 (441)
                      .+.++.|.+...+.+...+..           + ..+..++|+||+|+|||++++.++..+.........          
T Consensus        21 ~~~~~~g~~~~~~~l~~~l~~-----------~-~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (250)
T 1njg_A           21 TFADVVGQEHVLTALANGLSL-----------G-RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCRE   88 (250)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHH-----------T-CCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHH
T ss_pred             cHHHHhCcHHHHHHHHHHHHc-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccHHHHH
Confidence            466778888888877776642           1 123468999999999999999999877542110000          


Q ss_pred             ------hhhhhhc--cCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCC
Q 013506          358 ------AELYSMY--VGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE  425 (441)
Q Consensus       358 ------~~~~~~~--~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~  425 (441)
                            .+++...  .......++.++..+.    ...+.+|||||++.+.              ....+.|++.++...
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~--------------~~~~~~l~~~l~~~~  154 (250)
T 1njg_A           89 IEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLS--------------RHSFNALLKTLEEPP  154 (250)
T ss_dssp             HHTTCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSC--------------HHHHHHHHHHHHSCC
T ss_pred             HhccCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECccccc--------------HHHHHHHHHHHhcCC
Confidence                  0001000  0122345666666543    2346899999999873              245788888888653


Q ss_pred             CCCeEEEEeee
Q 013506          426 QAKVIIYPISF  436 (441)
Q Consensus       426 ~~~~v~~~~~~  436 (441)
                       ...++|++|+
T Consensus       155 -~~~~~i~~t~  164 (250)
T 1njg_A          155 -EHVKFLLATT  164 (250)
T ss_dssp             -TTEEEEEEES
T ss_pred             -CceEEEEEeC
Confidence             3455555554

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.02  E-value=2.5e-10  Score=108.85  Aligned_cols=98  Identities=23%  Similarity=0.325  Sum_probs=59.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCC--ceEEe-----chhhhhhhccCchHHHHHHHHHHHHhc---CCeEEEEeccc
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEA--SFFSL-----SGAELYSMYVGESEALLRNTFQRARLA---APSIIFFDEAD  393 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~--~~~~i-----~~~~~~~~~~g~~~~~~~~~~~~a~~~---~~~vl~iDE~d  393 (441)
                      +.++||+||||||||++|+++|..++.  ++..+     ..+++++.+.+...... ..|..+..+   .++|+||||++
T Consensus        41 ~~~VLL~GpPGtGKT~LAraLa~~l~~~~~f~~~~~~~~t~~dL~G~~~~~~~~~~-g~~~~~~~g~l~~~~IL~IDEI~  119 (500)
T 3nbx_X           41 GESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGPLSIQALKDE-GRYERLTSGYLPEAEIVFLDEIW  119 (500)
T ss_dssp             TCEEEEECCSSSSHHHHHHHGGGGBSSCCEEEEECCTTCCHHHHHCCBC-----------CBCCTTSGGGCSEEEEESGG
T ss_pred             CCeeEeecCchHHHHHHHHHHHHHHhhhhHHHHHHHhcCCHHHhcCcccHHHHhhc-hhHHhhhccCCCcceeeeHHhHh
Confidence            458999999999999999999998853  22222     22445443333222111 223222222   46699999998


Q ss_pred             ccccccCCCCCCCcchhhHHHHHHHHHhcC---------CCCCCeEEEEeee
Q 013506          394 VVGAKRGGSSSTSITVGERLLSTLLTEMDG---------LEQAKVIIYPISF  436 (441)
Q Consensus       394 ~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~---------~~~~~~v~~~~~~  436 (441)
                      ++.              ..+.+.|+..|+.         ......++|+|||
T Consensus       120 r~~--------------~~~q~~LL~~lee~~v~i~G~~~~~~~~~iI~ATN  157 (500)
T 3nbx_X          120 KAG--------------PAILNTLLTAINERQFRNGAHVEKIPMRLLVAASN  157 (500)
T ss_dssp             GCC--------------HHHHHHHHHHHHSSEEECSSSEEECCCCEEEEEES
T ss_pred             hhc--------------HHHHHHHHHHHHHHhccCCCCcCCcchhhhhhccc
Confidence            763              3667889988863         1223346688887

>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=99.01  E-value=1e-09  Score=102.23  Aligned_cols=116  Identities=16%  Similarity=0.271  Sum_probs=76.6

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc----------------
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS----------------  351 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~----------------  351 (441)
                      .+.++.|.+...+.+...+..           + ..+..++|+||+|||||++|+.++..+.+.                
T Consensus        14 ~~~~~vg~~~~~~~L~~~l~~-----------~-~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~~   81 (373)
T 1jr3_A           14 TFADVVGQEHVLTALANGLSL-----------G-RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCRE   81 (373)
T ss_dssp             STTTSCSCHHHHHHHHHHHHH-----------T-CCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSHHHHH
T ss_pred             chhhccCcHHHHHHHHHHHHh-----------C-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHH
Confidence            466788888888888776642           1 122357999999999999999999988642                


Q ss_pred             --------eEEechhhhhhhccCchHHHHHHHHHHHH----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHH
Q 013506          352 --------FFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLT  419 (441)
Q Consensus       352 --------~~~i~~~~~~~~~~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~  419 (441)
                              ++.++....      .....++.++..+.    ...+.|+||||+|.+.              ....+.|++
T Consensus        82 ~~~~~~~~~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~--------------~~~~~~Ll~  141 (373)
T 1jr3_A           82 IEQGRFVDLIEIDAASR------TKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLS--------------RHSFNALLK  141 (373)
T ss_dssp             HHTSCCSSCEEEETTCS------CCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSC--------------HHHHHHHHH
T ss_pred             HhccCCCceEEeccccc------CCHHHHHHHHHHHhhccccCCeEEEEEECcchhc--------------HHHHHHHHH
Confidence                    222222110      11223556666654    2346799999999884              245788999


Q ss_pred             HhcCCCCCCeEEEEeee
Q 013506          420 EMDGLEQAKVIIYPISF  436 (441)
Q Consensus       420 ~l~~~~~~~~v~~~~~~  436 (441)
                      .++.... ..++|++++
T Consensus       142 ~le~~~~-~~~~Il~~~  157 (373)
T 1jr3_A          142 TLEEPPE-HVKFLLATT  157 (373)
T ss_dssp             HHHSCCS-SEEEEEEES
T ss_pred             HHhcCCC-ceEEEEEeC
Confidence            9987544 455555554

>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=99.00  E-value=7.6e-10  Score=101.62  Aligned_cols=116  Identities=19%  Similarity=0.258  Sum_probs=76.4

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC-----ceEEechhhhh
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA-----SFFSLSGAELY  361 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~-----~~~~i~~~~~~  361 (441)
                      ..+.++.|.+.+.+.+...+..           +.  ..|++|+|||||||||+|+++|..+..     .+..++.++..
T Consensus        22 ~~~~~~~g~~~~~~~L~~~i~~-----------g~--~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~~~~   88 (340)
T 1sxj_C           22 ETLDEVYGQNEVITTVRKFVDE-----------GK--LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDR   88 (340)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHT-----------TC--CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCC
T ss_pred             CcHHHhcCcHHHHHHHHHHHhc-----------CC--CceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCcccc
Confidence            4567778888888877776652           21  125999999999999999999998743     35556655422


Q ss_pred             hhccCchHHHHHHHHHHHH------hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEee
Q 013506          362 SMYVGESEALLRNTFQRAR------LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPIS  435 (441)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~------~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~  435 (441)
                      +      ...++.......      ...+.|+++||+|.+..              ...+.|++.|+..... .++++++
T Consensus        89 ~------~~~ir~~i~~~~~~~~~~~~~~~viiiDe~~~l~~--------------~~~~~L~~~le~~~~~-~~~il~~  147 (340)
T 1sxj_C           89 G------IDVVRNQIKDFASTRQIFSKGFKLIILDEADAMTN--------------AAQNALRRVIERYTKN-TRFCVLA  147 (340)
T ss_dssp             S------HHHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCH--------------HHHHHHHHHHHHTTTT-EEEEEEE
T ss_pred             c------HHHHHHHHHHHHhhcccCCCCceEEEEeCCCCCCH--------------HHHHHHHHHHhcCCCC-eEEEEEe
Confidence            1      223333333322      12367999999998842              4467888888875544 4555555


Q ss_pred             e
Q 013506          436 F  436 (441)
Q Consensus       436 ~  436 (441)
                      |
T Consensus       148 n  148 (340)
T 1sxj_C          148 N  148 (340)
T ss_dssp             S
T ss_pred             c
Confidence            5

>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=98.99  E-value=1.9e-09  Score=100.97  Aligned_cols=98  Identities=18%  Similarity=0.176  Sum_probs=66.1

Q ss_pred             ccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc-----------CCceEEechh
Q 013506          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA-----------EASFFSLSGA  358 (441)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~-----------~~~~~~i~~~  358 (441)
                      +++.|.+...+.+...+.....         ...+.+++|+||||||||++|+.++..+           +..++.+++.
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            4567777777777666543211         1334589999999999999999999987           8889999876


Q ss_pred             hhh-hh-----------------ccCch-HHHHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          359 ELY-SM-----------------YVGES-EALLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       359 ~~~-~~-----------------~~g~~-~~~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      +.. +.                 +.+.+ ...+..++..+... +.+|||||+|.+..
T Consensus        91 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~-~~vlilDEi~~l~~  147 (384)
T 2qby_B           91 EVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNI-RAIIYLDEVDTLVK  147 (384)
T ss_dssp             HHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSS-CEEEEEETTHHHHH
T ss_pred             cCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccC-CCEEEEECHHHhcc
Confidence            543 11                 01221 23345555544433 34999999999864

>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=98.97  E-value=1.3e-09  Score=94.99  Aligned_cols=64  Identities=25%  Similarity=0.295  Sum_probs=48.0

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcC---CceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAAE---ASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVG  396 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~~---~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~  396 (441)
                      .+.+++|+||||||||++|+.++..+.   ..++.++..++...+..        .+..  ...+.+|||||++.+.
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~--~~~~~vliiDe~~~~~  117 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLGIHASISTA--------LLEG--LEQFDLICIDDVDAVA  117 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGGGGGGSCGG--------GGTT--GGGSSEEEEETGGGGT
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHH--------HHHh--ccCCCEEEEecccccc
Confidence            456899999999999999999998774   67888888776553321        1111  1446799999999885

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.96  E-value=3.5e-08  Score=90.95  Aligned_cols=191  Identities=21%  Similarity=0.196  Sum_probs=108.9

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc-----
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK-----   91 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~-----   91 (441)
                      ..+.++|.++..+.|.+.+..               +..++++||+|+|||++++.+++..+  .+++++.....     
T Consensus        10 ~~~~~~gR~~el~~L~~~l~~---------------~~~v~i~G~~G~GKT~Ll~~~~~~~~--~~~~~~~~~~~~~~~~   72 (350)
T 2qen_A           10 RREDIFDREEESRKLEESLEN---------------YPLTLLLGIRRVGKSSLLRAFLNERP--GILIDCRELYAERGHI   72 (350)
T ss_dssp             SGGGSCSCHHHHHHHHHHHHH---------------CSEEEEECCTTSSHHHHHHHHHHHSS--EEEEEHHHHHHTTTCB
T ss_pred             ChHhcCChHHHHHHHHHHHhc---------------CCeEEEECCCcCCHHHHHHHHHHHcC--cEEEEeecccccccCC
Confidence            336799999999999987743               25899999999999999999998875  55665432210     


Q ss_pred             c----------cccc---------------------hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhH
Q 013506           92 A----------HVGE---------------------SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDV  140 (441)
Q Consensus        92 ~----------~~~~---------------------~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~  140 (441)
                      .          ....                     .......++...........+.+|+|||++.+.....   ....
T Consensus        73 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~---~~~~  149 (350)
T 2qen_A           73 TREELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGS---RGGK  149 (350)
T ss_dssp             CHHHHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTT---TTTH
T ss_pred             CHHHHHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCc---cchh
Confidence            0          0000                     0001112222211111111288999999998743100   0122


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccC---------HHHhhCCccceEEEecCCCHHHHHHHHHHHhccCC
Q 013506          141 RIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAID---------PALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVP  211 (441)
Q Consensus       141 ~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~---------~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~  211 (441)
                      .....+...++...       ++.+|.++.....+.         ..+.  +|+...+.+++.+.++..+++...+....
T Consensus       150 ~~~~~L~~~~~~~~-------~~~~il~g~~~~~l~~~l~~~~~~~~l~--~~~~~~i~l~pl~~~e~~~~l~~~~~~~~  220 (350)
T 2qen_A          150 ELLALFAYAYDSLP-------NLKIILTGSEVGLLHDFLKITDYESPLY--GRIAGEVLVKPFDKDTSVEFLKRGFREVN  220 (350)
T ss_dssp             HHHHHHHHHHHHCT-------TEEEEEEESSHHHHHHHHCTTCTTSTTT--TCCCEEEECCCCCHHHHHHHHHHHHHTTT
T ss_pred             hHHHHHHHHHHhcC-------CeEEEEECCcHHHHHHHHhhcCCCCccc--cCccceeeCCCCCHHHHHHHHHHHHHHcC
Confidence            34444444444421       345555544321111         1122  25555899999999999999987665443


Q ss_pred             CC-CcccHHHHHHHCCCCCHHHHHHHH
Q 013506          212 LD-ANVDLEAIATSCNGYVGADLEALC  237 (441)
Q Consensus       212 ~~-~~~~~~~l~~~~~g~~~~~i~~l~  237 (441)
                      .. .......+...+.|+. ..+..+.
T Consensus       221 ~~~~~~~~~~i~~~tgG~P-~~l~~~~  246 (350)
T 2qen_A          221 LDVPENEIEEAVELLDGIP-GWLVVFG  246 (350)
T ss_dssp             CCCCHHHHHHHHHHHTTCH-HHHHHHH
T ss_pred             CCCCHHHHHHHHHHhCCCH-HHHHHHH
Confidence            32 2234566777777753 4454443

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.95  E-value=7e-10  Score=88.26  Aligned_cols=59  Identities=15%  Similarity=0.130  Sum_probs=46.4

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccccc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVG  396 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~  396 (441)
                      ++..++|+||+|+|||+++++++..+   |...+.++..++...               +....+.+|+|||++.+.
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~~~---------------~~~~~~~lLilDE~~~~~   96 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMPLT---------------DAAFEAEYLAVDQVEKLG   96 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSCCC---------------GGGGGCSEEEEESTTCCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhhHH---------------HHHhCCCEEEEeCccccC
Confidence            56679999999999999999999988   666778887766542               112356799999999764

>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=98.93  E-value=5e-10  Score=98.88  Aligned_cols=114  Identities=15%  Similarity=0.082  Sum_probs=68.6

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEech--hhhhhhccCchHHHHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSG--AELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~--~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      ++.++..++++||||||||++|..+|...+.++..++.  .+..+.+..+.++.++.+++......  +|||||++.+.+
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            55566678999999999999999999875555333333  33334344455666666766665443  999999999876


Q ss_pred             ccCCCCCCCcchhhHHHHHHHHHhcCCCC-CCeEEEEeeee
Q 013506          398 KRGGSSSTSITVGERLLSTLLTEMDGLEQ-AKVIIYPISFI  437 (441)
Q Consensus       398 ~r~~~~~~~~~~~~~~~~~ll~~l~~~~~-~~~v~~~~~~~  437 (441)
                      .+.+.+  ..+...+.+..+|..|+++.. .+..+++++|.
T Consensus       197 ~~~~~s--~~G~v~~~lrqlL~~L~~~~k~~gvtVIlttnp  235 (331)
T 2vhj_A          197 AAGGNT--TSGGISRGAFDLLSDIGAMAASRGCVVIASLNP  235 (331)
T ss_dssp             ------------CCHHHHHHHHHHHHHHHHHTCEEEEECCC
T ss_pred             cccccc--ccchHHHHHHHHHHHHHHHHhhCCCEEEEEeCC
Confidence            543211  111224556666666665544 34555666664

>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=98.93  E-value=4.5e-09  Score=97.14  Aligned_cols=49  Identities=20%  Similarity=0.199  Sum_probs=36.2

Q ss_pred             cccccccCchhHHHHHHHHH-hcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          287 VTWEDIGGLRDLKKKLQQAV-EWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~-~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ..++++.|.+.+.+.+...+ ..           +  ...|++|+||||+||||+++++++.+
T Consensus        11 ~~~~~~vg~~~~~~~l~~~~~~~-----------~--~~~~~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E           11 KSLNALSHNEELTNFLKSLSDQP-----------R--DLPHLLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             CSGGGCCSCHHHHHHHHTTTTCT-----------T--CCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             CCHHHhcCCHHHHHHHHHHHhhC-----------C--CCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            35677888887777666554 21           1  22349999999999999999999943

>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=98.93  E-value=2e-09  Score=99.34  Aligned_cols=52  Identities=25%  Similarity=0.285  Sum_probs=38.1

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA  350 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~  350 (441)
                      ...|+++.|.+.+++.+......             ....++||+||||||||++|++++..++.
T Consensus        20 ~~~f~~i~G~~~~~~~l~~~~~~-------------~~~~~vLl~G~~GtGKT~la~~la~~~~~   71 (350)
T 1g8p_A           20 VFPFSAIVGQEDMKLALLLTAVD-------------PGIGGVLVFGDRGTGKSTAVRALAALLPE   71 (350)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHHC-------------GGGCCEEEECCGGGCTTHHHHHHHHHSCC
T ss_pred             CCCchhccChHHHHHHHHHHhhC-------------CCCceEEEECCCCccHHHHHHHHHHhCcc
Confidence            44677888888776654332211             12346999999999999999999998863

>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=98.92  E-value=2.9e-09  Score=97.23  Aligned_cols=94  Identities=11%  Similarity=0.182  Sum_probs=63.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCce------------------------EEechhhhhhhccCchHHHHHHHHHHHH
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASF------------------------FSLSGAELYSMYVGESEALLRNTFQRAR  380 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~------------------------~~i~~~~~~~~~~g~~~~~~~~~~~~a~  380 (441)
                      ..+||+||+|+|||++|+.+|+.+.+..                        +.+...+- +  ..-..+.++.+.+.+.
T Consensus        25 ~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~-~--~~~~i~~ir~l~~~~~  101 (334)
T 1a5t_A           25 HALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKG-K--NTLGVDAVREVTEKLN  101 (334)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTT-C--SSBCHHHHHHHHHHTT
T ss_pred             eeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEecccc-C--CCCCHHHHHHHHHHHh
Confidence            3589999999999999999999876432                        22222100 0  1123456777877764


Q ss_pred             h----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          381 L----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       381 ~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .    +.+.|++|||+|.+.              ....+.||+.|+..+. ..++|+.||
T Consensus       102 ~~~~~~~~kvviIdead~l~--------------~~a~naLLk~lEep~~-~~~~Il~t~  146 (334)
T 1a5t_A          102 EHARLGGAKVVWVTDAALLT--------------DAAANALLKTLEEPPA-ETWFFLATR  146 (334)
T ss_dssp             SCCTTSSCEEEEESCGGGBC--------------HHHHHHHHHHHTSCCT-TEEEEEEES
T ss_pred             hccccCCcEEEEECchhhcC--------------HHHHHHHHHHhcCCCC-CeEEEEEeC
Confidence            3    346799999999984              2557899999997444 455555544

>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=98.91  E-value=1.2e-08  Score=95.46  Aligned_cols=124  Identities=16%  Similarity=0.158  Sum_probs=78.3

Q ss_pred             ccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCc--eEEEECCCCCcHHHHHHHHHHHc----CCceEEechhhhhh-
Q 013506          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVR--GALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGAELYS-  362 (441)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~--~~ll~Gp~GtGKTtla~~la~~~----~~~~~~i~~~~~~~-  362 (441)
                      +.+.|.+...+.+...+.....        + ..+.  +++|+||||||||++++.++..+    +..++.+++..... 
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~--------~-~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~~~~   87 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLR--------N-PGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNF   87 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHH--------S-TTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSH
T ss_pred             CCCCChHHHHHHHHHHHHHHHc--------C-CCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccCCCH
Confidence            4567777777777666543211        1 2233  79999999999999999999988    56778887544321 


Q ss_pred             -----h---c-------cCch-HHHHHHHHHHHH-hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCC
Q 013506          363 -----M---Y-------VGES-EALLRNTFQRAR-LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE  425 (441)
Q Consensus       363 -----~---~-------~g~~-~~~~~~~~~~a~-~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~  425 (441)
                           .   .       .+.. ......+..... ...+.+|||||++.+.              ...+..|+..++...
T Consensus        88 ~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~--------------~~~~~~L~~~~~~~~  153 (389)
T 1fnn_A           88 TAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLA--------------PDILSTFIRLGQEAD  153 (389)
T ss_dssp             HHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSC--------------HHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccc--------------hHHHHHHHHHHHhCC
Confidence                 0   0       1112 222222322222 2457899999999881              356788888887665


Q ss_pred             C---CCeEEEEeee
Q 013506          426 Q---AKVIIYPISF  436 (441)
Q Consensus       426 ~---~~~v~~~~~~  436 (441)
                      .   ....+|+++|
T Consensus       154 ~~~~~~~~iI~~~~  167 (389)
T 1fnn_A          154 KLGAFRIALVIVGH  167 (389)
T ss_dssp             HHSSCCEEEEEEES
T ss_pred             CCCcCCEEEEEEEC
Confidence            4   4555665554

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=98.90  E-value=3.1e-09  Score=97.24  Aligned_cols=100  Identities=20%  Similarity=0.256  Sum_probs=64.6

Q ss_pred             ccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechh------hhhhh
Q 013506          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA------ELYSM  363 (441)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~------~~~~~  363 (441)
                      ..+.|.+.+++.+...+..               +.+++|+||||||||++|+++|..++.+++.++.+      ++.+.
T Consensus        27 ~~i~g~~~~~~~l~~~l~~---------------~~~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~~~~~~~~l~g~   91 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICT---------------GGHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFTPDLLPSDLIGT   91 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHH---------------TCCEEEESCCCHHHHHHHHHHHHHTTCCEEEEECCTTCCHHHHHEE
T ss_pred             cceeCcHHHHHHHHHHHHc---------------CCeEEEECCCCCcHHHHHHHHHHHhCCCeEEEecCCCCChhhcCCc
Confidence            4566777777666554431               35899999999999999999999999998887763      22222


Q ss_pred             ccCchHHHHHHHHHHHHhcC---CeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          364 YVGESEALLRNTFQRARLAA---PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~---~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                      .......   ..|.  ....   .+|+||||++.+.              ....+.|++.|+.
T Consensus        92 ~~~~~~~---~~~~--~~~g~l~~~vl~iDEi~~~~--------------~~~~~~Ll~~l~~  135 (331)
T 2r44_A           92 MIYNQHK---GNFE--VKKGPVFSNFILADEVNRSP--------------AKVQSALLECMQE  135 (331)
T ss_dssp             EEEETTT---TEEE--EEECTTCSSEEEEETGGGSC--------------HHHHHHHHHHHHH
T ss_pred             eeecCCC---CceE--eccCcccccEEEEEccccCC--------------HHHHHHHHHHHhc
Confidence            1100000   0000  0111   2699999999874              2456777777774

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=98.87  E-value=6.5e-09  Score=101.55  Aligned_cols=28  Identities=21%  Similarity=0.255  Sum_probs=25.0

Q ss_pred             CCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           50 LKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        50 ~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.++..+.|+||+|+||||+++.+++.+
T Consensus       100 ~~~Gei~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          100 PRPGQVLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             CCTTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            4567899999999999999999999865

>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=98.85  E-value=7.1e-09  Score=95.88  Aligned_cols=217  Identities=17%  Similarity=0.115  Sum_probs=117.7

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHH-HHHhCCcEEEEccCc-----cccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAV-VRECGAHLTVISPHS-----VHKA   92 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l-~~~l~~~~~~v~~~~-----~~~~   92 (441)
                      ..|.|++.+|..|.-.+.....  +      ....-|+||.|+||| ||.+++.+ +..+.... ++....     +...
T Consensus       213 apI~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          213 APLPGAEEVGKMLALQLFSCVG--K------NSERLHVLLAGYPVV-CSEILHHVLDHLAPRGV-YVDLRRTELTDLTAV  282 (506)
T ss_dssp             CCSTTCHHHHHHHHHHHTTCCS--S------GGGCCCEEEESCHHH-HHHHHHHHHHHTCSSEE-EEEGGGCCHHHHSEE
T ss_pred             cccCCCHHHHHHHHHHHcCCcc--c------cCCceeEEEECCCCh-HHHHHHHHHHHhCCCeE-EecCCCCCccCceEE
Confidence            3488999888887765532100  0      111238999999999 99999999 76654433 222110     1000


Q ss_pred             cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCC---CCCCeEEEEEEc
Q 013506           93 HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK---TSVPHVVVVAST  169 (441)
Q Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~---~~~~~~~vi~~~  169 (441)
                       ....    .. +..-..........+||+||++.+          +...+..|+..|+......   .-..++.+++|+
T Consensus       283 -~r~~----tG-~~~~~G~l~LAdgGvl~lDEIn~~----------~~~~qsaLlEaMEe~~VtI~G~~lparf~VIAA~  346 (506)
T 3f8t_A          283 -LKED----RG-WALRAGAAVLADGGILAVDHLEGA----------PEPHRWALMEAMDKGTVTVDGIALNARCAVLAAI  346 (506)
T ss_dssp             -EEES----SS-EEEEECHHHHTTTSEEEEECCTTC----------CHHHHHHHHHHHHHSEEEETTEEEECCCEEEEEE
T ss_pred             -EEcC----CC-cccCCCeeEEcCCCeeehHhhhhC----------CHHHHHHHHHHHhCCcEEECCEEcCCCeEEEEEe
Confidence             0000    00 000000000113579999999977          4467788888887532111   112357899999


Q ss_pred             CCCC-----------ccCHHHhhCCccceEEE-ecCCCH-------------HHHHHHHHHHhc--cCCCCCccc-----
Q 013506          170 NRVD-----------AIDPALRRSGRFDAEVE-VTVPTA-------------EERFEILKLYTK--KVPLDANVD-----  217 (441)
Q Consensus       170 ~~~~-----------~l~~~l~~~~r~~~~i~-~~~p~~-------------~~~~~il~~~~~--~~~~~~~~~-----  217 (441)
                      |+.+           .+++++++  ||+..+. ...|+.             +...+++. +.+  .........     
T Consensus       347 NP~~~yd~~~s~~~~~Lp~alLD--RFDLi~i~~d~pd~e~d~e~~~~~ls~e~L~~yi~-~ar~~~~~p~ls~ea~~yI  423 (506)
T 3f8t_A          347 NPGEQWPSDPPIARIDLDQDFLS--HFDLIAFLGVDPRPGEPEEQDTEVPSYTLLRRYLL-YAIREHPAPELTEEARKRL  423 (506)
T ss_dssp             CCCC--CCSCGGGGCCSCHHHHT--TCSEEEETTC--------------CCHHHHHHHHH-HHHHHCSCCEECHHHHHHH
T ss_pred             CcccccCCCCCccccCCChHHhh--heeeEEEecCCCChhHhhcccCCCCCHHHHHHHHH-HHHhcCCCceeCHHHHHHH
Confidence            9875           78899999  9975443 333332             22332222 222  111111111     


Q ss_pred             ------HHHHHH-------HCCCCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhhc
Q 013506          218 ------LEAIAT-------SCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVV  272 (441)
Q Consensus       218 ------~~~l~~-------~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~  272 (441)
                            .+.-..       ...+.+++.+..+++.+...+..+..+        .++.+|+..+..-+
T Consensus       424 ~~~y~~tR~~~~~~~~~~~~~~giSpR~leaLiRlA~A~A~L~gR~--------~V~~eDV~~Ai~L~  483 (506)
T 3f8t_A          424 EHWYETRREEVEERLGMGLPTLPVTRRQLESVERLAKAHARMRLSD--------DVEPEDVDIAAELV  483 (506)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCCCCCCHHHHHHHHHHHHHHHHHTTCS--------EECHHHHHHHHHHH
T ss_pred             HHHHHHHhcCcccccccccccccccHHHHHHHHHHHHHHHHHcCcC--------CCCHHHHHHHHHHH
Confidence                  111000       234678888888888887777666544        46677776665533

>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=98.84  E-value=1.2e-07  Score=87.57  Aligned_cols=185  Identities=17%  Similarity=0.180  Sum_probs=107.6

Q ss_pred             cccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccc---cccc
Q 013506           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH---KAHV   94 (441)
Q Consensus        18 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~---~~~~   94 (441)
                      .+.++|.++..+.|.+ +..                ..++|+||+|+|||++++.+++......+++++....   ....
T Consensus        12 ~~~~~gR~~el~~L~~-l~~----------------~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~   74 (357)
T 2fna_A           12 RKDFFDREKEIEKLKG-LRA----------------PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISY   74 (357)
T ss_dssp             GGGSCCCHHHHHHHHH-TCS----------------SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTCSCCCH
T ss_pred             HHHhcChHHHHHHHHH-hcC----------------CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEchhhccccCCCH
Confidence            3679999999998887 521                4799999999999999999999887777777765421   0000


Q ss_pred             cchH-------------------------------------------HHHHHHHHHHHhhhhcCCCeEEEEccccccccC
Q 013506           95 GESE-------------------------------------------KALREAFSQASSHALSGKPSVVFIDEIDALCPR  131 (441)
Q Consensus        95 ~~~~-------------------------------------------~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~  131 (441)
                      ....                                           ..+..++....... . ++.+|+|||++.+...
T Consensus        75 ~~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-~-~~~vlvlDe~~~~~~~  152 (357)
T 2fna_A           75 KDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQAS-K-DNVIIVLDEAQELVKL  152 (357)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTC-S-SCEEEEEETGGGGGGC
T ss_pred             HHHHHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcC-C-CCeEEEEECHHHhhcc
Confidence            0000                                           01122222221111 1 3889999999987542


Q ss_pred             CCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccC---------HHHhhCCccceEEEecCCCHHHHHHH
Q 013506          132 RDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAID---------PALRRSGRFDAEVEVTVPTAEERFEI  202 (441)
Q Consensus       132 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~---------~~l~~~~r~~~~i~~~~p~~~~~~~i  202 (441)
                      ...      .....+...++...       ++.+|.+++....+.         ..+.  +|+...+.+++++.++..++
T Consensus       153 ~~~------~~~~~l~~~~~~~~-------~~~~i~~g~~~~~l~~~l~~~~~~~~l~--~r~~~~i~l~~l~~~e~~~~  217 (357)
T 2fna_A          153 RGV------NLLPALAYAYDNLK-------RIKFIMSGSEMGLLYDYLRVEDPESPLF--GRAFSTVELKPFSREEAIEF  217 (357)
T ss_dssp             TTC------CCHHHHHHHHHHCT-------TEEEEEEESSHHHHHHHTTTTCTTSTTT--TCCCEEEEECCCCHHHHHHH
T ss_pred             Cch------hHHHHHHHHHHcCC-------CeEEEEEcCchHHHHHHHhccCCCCccc--cCccceeecCCCCHHHHHHH
Confidence            111      12233333333321       345555554322111         1122  25556899999999999999


Q ss_pred             HHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHH
Q 013506          203 LKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCR  238 (441)
Q Consensus       203 l~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~  238 (441)
                      +...+.......+ ....+...+.|+. ..+..+..
T Consensus       218 l~~~~~~~~~~~~-~~~~i~~~t~G~P-~~l~~~~~  251 (357)
T 2fna_A          218 LRRGFQEADIDFK-DYEVVYEKIGGIP-GWLTYFGF  251 (357)
T ss_dssp             HHHHHHHHTCCCC-CHHHHHHHHCSCH-HHHHHHHH
T ss_pred             HHHHHHHcCCCCC-cHHHHHHHhCCCH-HHHHHHHH
Confidence            9876543332222 2377777787754 44544433

>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=98.81  E-value=5.3e-08  Score=88.87  Aligned_cols=93  Identities=28%  Similarity=0.378  Sum_probs=61.3

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCc
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGE  367 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~  367 (441)
                      .++...|.+.+.+.+...+.....        .-.++.+++|+|||||||||+++++|..++.++...+++.+.      
T Consensus        23 ~l~~~~g~~~~~~~l~~~i~~~~~--------~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~~------   88 (334)
T 1in4_A           23 SLDEFIGQENVKKKLSLALEAAKM--------RGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLV------   88 (334)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHH--------HTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCC------
T ss_pred             cHHHccCcHHHHHHHHHHHHHHHh--------cCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHhc------
Confidence            455566666666666655432100        113446799999999999999999999999887666554322      


Q ss_pred             hHHHHHHHHHHHHhcCCeEEEEecccccc
Q 013506          368 SEALLRNTFQRARLAAPSIIFFDEADVVG  396 (441)
Q Consensus       368 ~~~~~~~~~~~a~~~~~~vl~iDE~d~~~  396 (441)
                      ...++..++..  ....+|+|+||++.+.
T Consensus        89 ~~~~l~~~~~~--~~~~~v~~iDE~~~l~  115 (334)
T 1in4_A           89 KQGDMAAILTS--LERGDVLFIDEIHRLN  115 (334)
T ss_dssp             SHHHHHHHHHH--CCTTCEEEEETGGGCC
T ss_pred             CHHHHHHHHHH--ccCCCEEEEcchhhcC
Confidence            12334444432  2345799999999886

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=98.80  E-value=1.5e-07  Score=91.41  Aligned_cols=108  Identities=15%  Similarity=0.055  Sum_probs=65.1

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhh----hhh------------------hc----c--Cch
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAE----LYS------------------MY----V--GES  368 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~----~~~------------------~~----~--g~~  368 (441)
                      ++.++..++++||||+||||+++.++...   |..++.+...+    +..                  .+    .  -..
T Consensus       277 ~i~~G~i~~i~G~~GsGKSTLl~~l~g~~~~~G~~vi~~~~ee~~~~l~~~~~~~g~~~~~~~~~g~~~~~~~~p~~LS~  356 (525)
T 1tf7_A          277 GFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAYEESRAQLLRNAYSWGMDFEEMERQNLLKIVCAYPESAGL  356 (525)
T ss_dssp             SEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESSSCHHHHHHHHHTTSCCHHHHHHTTSEEECCCCGGGSCH
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEEEeCCHHHHHHHHHHcCCCHHHHHhCCCEEEEEeccccCCH
Confidence            66778889999999999999999998765   33333332211    000                  00    0  023


Q ss_pred             HHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEee
Q 013506          369 EALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPIS  435 (441)
Q Consensus       369 ~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~  435 (441)
                      .+..+.++..+....|.+|++|=+-.+...  .    .+....+.+..|+..+..  ....|++++.
T Consensus       357 g~~q~~~~a~~l~~~p~llilDp~~~Ld~~--~----~~~~~~~~i~~ll~~l~~--~g~tvilvsh  415 (525)
T 1tf7_A          357 EDHLQIIKSEINDFKPARIAIDSLSALARG--V----SNNAFRQFVIGVTGYAKQ--EEITGLFTNT  415 (525)
T ss_dssp             HHHHHHHHHHHHTTCCSEEEEECHHHHTSS--S----CHHHHHHHHHHHHHHHHH--TTCEEEEEEE
T ss_pred             HHHHHHHHHHHHhhCCCEEEEcChHHHHhh--C----ChHHHHHHHHHHHHHHHh--CCCEEEEEEC
Confidence            456677888888889999999944444321  1    111145566677777752  2334444443

>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=98.79  E-value=3.9e-08  Score=91.49  Aligned_cols=196  Identities=18%  Similarity=0.197  Sum_probs=110.8

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC---CcEEEEccCcccccccc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---AHLTVISPHSVHKAHVG   95 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~---~~~~~v~~~~~~~~~~~   95 (441)
                      ..++|.....+.+.+.+...           .....+++++|++||||+++++.+.....   .+++.+++..+..... 
T Consensus       137 ~~~ig~s~~m~~l~~~i~~~-----------a~~~~~vli~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~~~~~~~~~~-  204 (387)
T 1ny5_A          137 EEYVFESPKMKEILEKIKKI-----------SCAECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIF-  204 (387)
T ss_dssp             CCCCCCSHHHHHHHHHHHHH-----------TTCCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHH-
T ss_pred             hhhhhccHHhhHHHHHHHHh-----------cCCCCCeEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCCCCHHHH-
Confidence            45666665555555544321           12456799999999999999999987653   6899999876532110 


Q ss_pred             chHHHHHHHHHHHH-----------hhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCC-----CCCCC
Q 013506           96 ESEKALREAFSQAS-----------SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNK-----PSKTS  159 (441)
Q Consensus        96 ~~~~~~~~~~~~~~-----------~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~~  159 (441)
                           -..+|....           .......++.||+||++.+          +...+..|+..++...     .....
T Consensus       205 -----~~elfg~~~g~~tga~~~~~g~~~~a~~gtlfldei~~l----------~~~~q~~Ll~~l~~~~~~~~g~~~~~  269 (387)
T 1ny5_A          205 -----EAELFGYEKGAFTGAVSSKEGFFELADGGTLFLDEIGEL----------SLEAQAKLLRVIESGKFYRLGGRKEI  269 (387)
T ss_dssp             -----HHHHHCBCTTSSTTCCSCBCCHHHHTTTSEEEEESGGGC----------CHHHHHHHHHHHHHSEECCBTCCSBE
T ss_pred             -----HHHhcCCCCCCCCCcccccCCceeeCCCcEEEEcChhhC----------CHHHHHHHHHHHhcCcEEeCCCCcee
Confidence                 111221100           0000123579999999988          4467788888877532     11111


Q ss_pred             CCeEEEEEEcCCC-------CccCHHHhhCCccc-eEEEecCCCH--HHHHHHHHHHhc----cCCCC-Cccc---HHHH
Q 013506          160 VPHVVVVASTNRV-------DAIDPALRRSGRFD-AEVEVTVPTA--EERFEILKLYTK----KVPLD-ANVD---LEAI  221 (441)
Q Consensus       160 ~~~~~vi~~~~~~-------~~l~~~l~~~~r~~-~~i~~~~p~~--~~~~~il~~~~~----~~~~~-~~~~---~~~l  221 (441)
                      ..++.+|++||..       ..+.+.+..  |+. ..+.+|+...  ++...++..++.    ..... ...+   +..+
T Consensus       270 ~~~~rii~at~~~l~~~~~~g~fr~dl~~--rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~l  347 (387)
T 1ny5_A          270 EVNVRILAATNRNIKELVKEGKFREDLYY--RLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELL  347 (387)
T ss_dssp             ECCCEEEEEESSCHHHHHHTTSSCHHHHH--HHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHH
T ss_pred             eccEEEEEeCCCCHHHHHHcCCccHHHHH--hhcCCeecCCcchhccccHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHH
Confidence            2357788988863       234455444  443 3455555532  444444444432    22222 1122   4444


Q ss_pred             HHHCCCCCHHHHHHHHHHHHHH
Q 013506          222 ATSCNGYVGADLEALCREATMS  243 (441)
Q Consensus       222 ~~~~~g~~~~~i~~l~~~a~~~  243 (441)
                      .......+.++++++++.++..
T Consensus       348 ~~~~wpGNvreL~~~i~~~~~~  369 (387)
T 1ny5_A          348 LSYPWYGNVRELKNVIERAVLF  369 (387)
T ss_dssp             HHSCCTTHHHHHHHHHHHHHHH
T ss_pred             HhCCCCcHHHHHHHHHHHHHHh
Confidence            4444445667888888877653

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.79  E-value=6.8e-09  Score=87.63  Aligned_cols=100  Identities=17%  Similarity=0.211  Sum_probs=58.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCch-HHHHHHHHHHHHhcCCeEEEEecccccccccC
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGES-EALLRNTFQRARLAAPSIIFFDEADVVGAKRG  400 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~-~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~  400 (441)
                      .+++|+||||||||++|++++..+   +.+++.++.+++...+.... ...+..++....  .+.+|||||++.....  
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~lilDei~~~~~~--  130 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRELKHSLQDQTMNEKLDYIK--KVPVLMLDDLGAEAMS--  130 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEHHHHHHHHHHC---CCCHHHHHHHH--HSSEEEEEEECCC-----
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEhHHHHHHHHHHhccchHHHHHHHhc--CCCEEEEcCCCCCcCC--
Confidence            689999999999999999999887   56777788777654322111 011222333332  2349999999765421  


Q ss_pred             CCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          401 GSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       401 ~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                            ......++..++...-   .....+|++||.
T Consensus       131 ------~~~~~~ll~~~l~~~~---~~~~~~i~tsn~  158 (202)
T 2w58_A          131 ------SWVRDDVFGPILQYRM---FENLPTFFTSNF  158 (202)
T ss_dssp             ------CCGGGTTHHHHHHHHH---HTTCCEEEEESS
T ss_pred             ------HHHHHHHHHHHHHHHH---hCCCCEEEEcCC
Confidence                  1112234554554331   223457777763

>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=98.74  E-value=2.1e-08  Score=88.59  Aligned_cols=77  Identities=14%  Similarity=0.094  Sum_probs=46.5

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc--CccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccc
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP--HSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEID  126 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~  126 (441)
                      |++++..++|+||||||||+++..++...+.++.+++.  .+....+.......+..+.+....     .+ ++|||+++
T Consensus       119 Gi~~gsviLI~GpPGsGKTtLAlqlA~~~G~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~-----~~-LLVIDsI~  192 (331)
T 2vhj_A          119 HRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ-----HR-VIVIDSLK  192 (331)
T ss_dssp             EEEESEEEEEECSCSSSHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH-----CS-EEEEECCT
T ss_pred             CCCCCcEEEEEcCCCCCHHHHHHHHHHhCCCCEEEEEecchhhhhhhhcCHHHHHHHHHHHHhh-----CC-EEEEeccc
Confidence            45566778999999999999999998765544334433  222222222333333333333322     13 99999999


Q ss_pred             ccccC
Q 013506          127 ALCPR  131 (441)
Q Consensus       127 ~l~~~  131 (441)
                      .+.+.
T Consensus       193 aL~~~  197 (331)
T 2vhj_A          193 NVIGA  197 (331)
T ss_dssp             TTC--
T ss_pred             ccccc
Confidence            88543

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=98.73  E-value=1.9e-09  Score=105.75  Aligned_cols=114  Identities=21%  Similarity=0.202  Sum_probs=64.7

Q ss_pred             ccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEe----chhhhhhhcc
Q 013506          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL----SGAELYSMYV  365 (441)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i----~~~~~~~~~~  365 (441)
                      ..+.|++.+++.+...+...  ..........+...|+||+||||||||++|+++|..++...+..    ...++.....
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            34677777776653322211  00000001223344899999999999999999999987655432    2222222111


Q ss_pred             -----CchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          366 -----GESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       366 -----g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                           |..... ...+..|   ..+|+||||+|++.+              ...+.|+..|+.
T Consensus       373 ~~~~~g~~~~~-~G~l~~A---~~gil~IDEid~l~~--------------~~q~~Ll~~le~  417 (595)
T 3f9v_A          373 REKGTGEYYLE-AGALVLA---DGGIAVIDEIDKMRD--------------EDRVAIHEAMEQ  417 (595)
T ss_dssp             SGGGTSSCSEE-ECHHHHH---SSSEECCTTTTCCCS--------------HHHHHHHHHHHS
T ss_pred             ecccccccccc-CCeeEec---CCCcEEeehhhhCCH--------------hHhhhhHHHHhC
Confidence                 111000 0122222   345999999999853              456888888875

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.73  E-value=2.6e-08  Score=82.96  Aligned_cols=127  Identities=15%  Similarity=0.253  Sum_probs=73.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH--------hC-CcEEEEccCccccccc----------cchHH--HHHHHHHHHHhhhh
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE--------CG-AHLTVISPHSVHKAHV----------GESEK--ALREAFSQASSHAL  113 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~--------l~-~~~~~v~~~~~~~~~~----------~~~~~--~~~~~~~~~~~~~~  113 (441)
                      ..+++|+||||||+++...+..        .+ .+++..+...+.....          .....  .....+ ... ...
T Consensus         7 i~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~gL~~~~~~~~~~k~~~~~~~~~~~~~~~~~-~~~-~~~   84 (199)
T 2r2a_A            7 ICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKSTDEQLSAHDMY-EWI-KKP   84 (199)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCTTBCSCCEEEECCTTTCSSCCSSCEEGGGHH-HHT-TSG
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCCCccccccccchhhhhccccCcccccHHHHH-HHh-hcc
Confidence            5799999999999998876433        23 5565666554432211          00000  001111 110 012


Q ss_pred             cCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecC
Q 013506          114 SGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTV  193 (441)
Q Consensus       114 ~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~  193 (441)
                      .+++.+|+|||++.+.+......+..     .++..+....     ...+.+|.+++++..++..++.  |+...+++..
T Consensus        85 ~~~~~vliIDEAq~l~~~~~~~~e~~-----rll~~l~~~r-----~~~~~iil~tq~~~~l~~~lr~--ri~~~~~l~~  152 (199)
T 2r2a_A           85 ENIGSIVIVDEAQDVWPARSAGSKIP-----ENVQWLNTHR-----HQGIDIFVLTQGPKLLDQNLRT--LVRKHYHIAS  152 (199)
T ss_dssp             GGTTCEEEETTGGGTSBCCCTTCCCC-----HHHHGGGGTT-----TTTCEEEEEESCGGGBCHHHHT--TEEEEEEEEE
T ss_pred             ccCceEEEEEChhhhccCccccchhH-----HHHHHHHhcC-----cCCeEEEEECCCHHHHhHHHHH--HhheEEEEcC
Confidence            24578999999999875442211111     2334443322     1135667777788999999988  9988888877


Q ss_pred             CC
Q 013506          194 PT  195 (441)
Q Consensus       194 p~  195 (441)
                      +.
T Consensus       153 ~~  154 (199)
T 2r2a_A          153 NK  154 (199)
T ss_dssp             CS
T ss_pred             cc
Confidence            53

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.73  E-value=2.9e-08  Score=83.69  Aligned_cols=36  Identities=31%  Similarity=0.453  Sum_probs=29.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCcc
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSV   89 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~   89 (441)
                      .+++|+||+|||||+++++++..+   +.+++.+++..+
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~~   93 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPEL   93 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEEHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEhHHH
Confidence            789999999999999999999887   456666666543

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=98.71  E-value=9.2e-08  Score=78.51  Aligned_cols=32  Identities=19%  Similarity=0.250  Sum_probs=27.5

Q ss_pred             CCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 013506           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (441)
Q Consensus        50 ~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~   81 (441)
                      ++..++++|+||||||||++|.++++.+...+
T Consensus        55 iPkkn~ili~GPPGtGKTt~a~ala~~l~g~i   86 (212)
T 1tue_A           55 TPKKNCLVFCGPANTGKSYFGMSFIHFIQGAV   86 (212)
T ss_dssp             CTTCSEEEEESCGGGCHHHHHHHHHHHHTCEE
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHhCCCe
Confidence            45567899999999999999999999986543

>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=98.69  E-value=6.6e-08  Score=89.15  Aligned_cols=194  Identities=18%  Similarity=0.258  Sum_probs=109.5

Q ss_pred             cccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc--EEEEccCccccccccch
Q 013506           20 AIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--LTVISPHSVHKAHVGES   97 (441)
Q Consensus        20 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~--~~~v~~~~~~~~~~~~~   97 (441)
                      .++|.......+.+.+...       .    ....+++++|++||||+.+++.+....+..  ++.++|..+.....   
T Consensus       130 ~~ig~s~~~~~~~~~~~~~-------a----~~~~~vli~GesGtGKe~lAr~ih~~s~r~~~fv~vnc~~~~~~~~---  195 (368)
T 3dzd_A          130 EFVGEHPKILEIKRLIPKI-------A----KSKAPVLITGESGTGKEIVARLIHRYSGRKGAFVDLNCASIPQELA---  195 (368)
T ss_dssp             CCCCCSHHHHHHHHHHHHH-------H----TSCSCEEEECCTTSSHHHHHHHHHHHHCCCSCEEEEESSSSCTTTH---
T ss_pred             cccccchHHHHHHhhhhhh-------h----ccchhheEEeCCCchHHHHHHHHHHhccccCCcEEEEcccCChHHH---
Confidence            4666666555555544221       0    234679999999999999999998776543  89999987643221   


Q ss_pred             HHHHHHHHHHHH-----------hhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCC-----CCCCC
Q 013506           98 EKALREAFSQAS-----------SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPS-----KTSVP  161 (441)
Q Consensus        98 ~~~~~~~~~~~~-----------~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~~~~  161 (441)
                      .   ..+|....           .......++.||+||++.|          +...+..|+..++.....     .....
T Consensus       196 ~---~~lfg~~~g~~tga~~~~~g~~~~a~~gtlfldei~~l----------~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~  262 (368)
T 3dzd_A          196 E---SELFGHEKGAFTGALTRKKGKLELADQGTLFLDEVGEL----------DQRVQAKLLRVLETGSFTRLGGNQKIEV  262 (368)
T ss_dssp             H---HHHHEECSCSSSSCCCCEECHHHHTTTSEEEEETGGGS----------CHHHHHHHHHHHHHSEECCBTCCCBEEC
T ss_pred             H---HHhcCccccccCCcccccCChHhhcCCCeEEecChhhC----------CHHHHHHHHHHHHhCCcccCCCCcceee
Confidence            1   11111000           0000113568999999988          446788888888753211     11122


Q ss_pred             eEEEEEEcCCCC-------ccCHHHhhCCccc-eEEEecCCCH--HHHHHHHHHHhcc----CCCC-Cccc---HHHHHH
Q 013506          162 HVVVVASTNRVD-------AIDPALRRSGRFD-AEVEVTVPTA--EERFEILKLYTKK----VPLD-ANVD---LEAIAT  223 (441)
Q Consensus       162 ~~~vi~~~~~~~-------~l~~~l~~~~r~~-~~i~~~~p~~--~~~~~il~~~~~~----~~~~-~~~~---~~~l~~  223 (441)
                      ++.+|++||..-       .+.+.+..  |+. ..+.+|+...  ++...++..++..    .... ...+   ++.+..
T Consensus       263 ~~rii~at~~~l~~~v~~g~fr~dL~~--rl~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~~~~~a~~~L~~  340 (368)
T 3dzd_A          263 DIRVISATNKNLEEEIKKGNFREDLYY--RLSVFQIYLPPLRERGKDVILLAEYFLKKFAKEYKKNCFELSEETKEYLMK  340 (368)
T ss_dssp             CCEEEEEESSCHHHHHHTTSSCHHHHH--HHTSEEEECCCGGGSTTHHHHHHHHHHHHHHHHTTCCCCCBCHHHHHHHHT
T ss_pred             eeEEEEecCCCHHHHHHcCCccHHHHH--HhCCeEEeCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCcCHHHHHHHHh
Confidence            467888888631       33445544  444 2466777655  4555555444332    2221 1122   344444


Q ss_pred             HCCCCCHHHHHHHHHHHHH
Q 013506          224 SCNGYVGADLEALCREATM  242 (441)
Q Consensus       224 ~~~g~~~~~i~~l~~~a~~  242 (441)
                      ....-+.++++++++.+..
T Consensus       341 ~~wpGNvreL~n~i~~~~~  359 (368)
T 3dzd_A          341 QEWKGNVRELKNLIERAVI  359 (368)
T ss_dssp             CCCTTHHHHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHHHH
Confidence            4444566777777776653

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.63  E-value=2.1e-08  Score=90.07  Aligned_cols=101  Identities=17%  Similarity=0.130  Sum_probs=58.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc----CCceEEechhhhhhhccCch-HHHHHHHHHHHHhcCCeEEEEecccccccc
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGAELYSMYVGES-EALLRNTFQRARLAAPSIIFFDEADVVGAK  398 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~----~~~~~~i~~~~~~~~~~g~~-~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~  398 (441)
                      ..+++|+||||||||++|+++|..+    +.+++.+..+++...+.... ...+..++...  ....+|||||++.....
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~~~l~~~l~~~~~~~~~~~~~~~~--~~~~lLiiDdig~~~~~  229 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAIDVKNAISNGSVKEEIDAV--KNVPVLILDDIGAEQAT  229 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEHHHHHHHHHCCCC----CCTTHHH--HTSSEEEEETCCC----
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEHHHHHHHHHHHhccchHHHHHHHh--cCCCEEEEcCCCCCCCC
Confidence            5689999999999999999999855    46777788777655432211 11122233332  23459999999765321


Q ss_pred             cCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          399 RGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       399 r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                              ......++..++...-   .....+|++||.
T Consensus       230 --------~~~~~~ll~~ll~~r~---~~~~~~IitSN~  257 (308)
T 2qgz_A          230 --------SWVRDEVLQVILQYRM---LEELPTFFTSNY  257 (308)
T ss_dssp             ----------CTTTTHHHHHHHHH---HHTCCEEEEESS
T ss_pred             --------HHHHHHHHHHHHHHHH---HCCCcEEEECCC
Confidence                    0111234555554431   123467888874

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.56  E-value=9.8e-08  Score=79.48  Aligned_cols=101  Identities=16%  Similarity=0.087  Sum_probs=59.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc--------C-CceEEechhhhhhhcc----------Cch-----HHHHHHHHHHHHh
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA--------E-ASFFSLSGAELYSMYV----------GES-----EALLRNTFQRARL  381 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~--------~-~~~~~i~~~~~~~~~~----------g~~-----~~~~~~~~~~a~~  381 (441)
                      ..+++|+||||||++|..++...        | .+++..+..++...++          ..+     ...+...+..+ .
T Consensus         7 i~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~gL~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~-~   85 (199)
T 2r2a_A            7 ICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKSTDEQLSAHDMYEWIKKP-E   85 (199)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCTTBCSCCEEEECCTTTCSSCCSSCEEGGGHHHHTTSG-G
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCCCccccccccchhhhhccccCcccccHHHHHHHhhcc-c
Confidence            57899999999999988765442        3 4454444443321111          111     12222222112 3


Q ss_pred             cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          382 AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       382 ~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ...+||+|||++.+++.|....    + .    ..+|..++..+..+.-||+.++
T Consensus        86 ~~~~vliIDEAq~l~~~~~~~~----e-~----~rll~~l~~~r~~~~~iil~tq  131 (199)
T 2r2a_A           86 NIGSIVIVDEAQDVWPARSAGS----K-I----PENVQWLNTHRHQGIDIFVLTQ  131 (199)
T ss_dssp             GTTCEEEETTGGGTSBCCCTTC----C-C----CHHHHGGGGTTTTTCEEEEEES
T ss_pred             cCceEEEEEChhhhccCccccc----h-h----HHHHHHHHhcCcCCeEEEEECC
Confidence            4577999999999987664211    1 0    2477788877777766666554

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.56  E-value=9.3e-08  Score=85.92  Aligned_cols=37  Identities=35%  Similarity=0.533  Sum_probs=30.0

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhC----CcEEEEccCcc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECG----AHLTVISPHSV   89 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~----~~~~~v~~~~~   89 (441)
                      +.+++|+||||||||+++++++..+.    .++..+++..+
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~~~l  192 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSF  192 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEHHHH
Confidence            57999999999999999999988654    56666665543

>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=98.55  E-value=5e-07  Score=85.17  Aligned_cols=132  Identities=14%  Similarity=0.122  Sum_probs=73.3

Q ss_pred             ccccCchhHHHHHHHHH-hcccCCchhhhhcCCCCCceEEE--ECCCCCcHHHHHHHHHHHc---------CCceEEech
Q 013506          290 EDIGGLRDLKKKLQQAV-EWPIKHSTAFSRLGISPVRGALL--HGPPGCSKTTLAKAAAHAA---------EASFFSLSG  357 (441)
Q Consensus       290 ~~i~g~~~~k~~l~~~~-~~~~~~~~~~~~~~~~~~~~~ll--~Gp~GtGKTtla~~la~~~---------~~~~~~i~~  357 (441)
                      ..+.|.+...+.+...+ ......       ....+.++++  +||+|+|||++++.++..+         +..++.+++
T Consensus        22 ~~l~gR~~el~~l~~~l~~~~~~~-------~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (412)
T 1w5s_A           22 PELRVRRGEAEALARIYLNRLLSG-------AGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNA   94 (412)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTS-------SCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEG
T ss_pred             CCCCChHHHHHHHHHHHhHHHhcC-------CCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEEC
Confidence            44566666666666555 321111       0023457888  9999999999999999876         445666665


Q ss_pred             hhh------hhhc---c-------CchH-HHHHHHHHHHH-hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHH
Q 013506          358 AEL------YSMY---V-------GESE-ALLRNTFQRAR-LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLT  419 (441)
Q Consensus       358 ~~~------~~~~---~-------g~~~-~~~~~~~~~a~-~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~  419 (441)
                      ...      +...   +       +.+. .....+..... ...+.+|+|||++.+...++        ....++..|+.
T Consensus        95 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~--------~~~~~l~~l~~  166 (412)
T 1w5s_A           95 FNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPR--------IAAEDLYTLLR  166 (412)
T ss_dssp             GGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTT--------SCHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccC--------cchHHHHHHHH
Confidence            321      1110   0       1111 22223332222 24578999999999864211        02356666777


Q ss_pred             HhcCCC--C--CCeEEEEeee
Q 013506          420 EMDGLE--Q--AKVIIYPISF  436 (441)
Q Consensus       420 ~l~~~~--~--~~~v~~~~~~  436 (441)
                      .++...  +  ...++|++++
T Consensus       167 ~~~~~~~~~~~~~v~lI~~~~  187 (412)
T 1w5s_A          167 VHEEIPSRDGVNRIGFLLVAS  187 (412)
T ss_dssp             HHHHSCCTTSCCBEEEEEEEE
T ss_pred             HHHhcccCCCCceEEEEEEec
Confidence            776544  3  3444554554

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=98.52  E-value=3.7e-07  Score=90.11  Aligned_cols=52  Identities=25%  Similarity=0.381  Sum_probs=40.9

Q ss_pred             cCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC
Q 013506          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA  350 (441)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~  350 (441)
                      .+...+.++.|...+.+.+...+.               .+.+++|+|||||||||+|++++..+..
T Consensus        35 ~rp~~l~~i~G~~~~l~~l~~~i~---------------~g~~vll~Gp~GtGKTtlar~ia~~l~~   86 (604)
T 3k1j_A           35 VPEKLIDQVIGQEHAVEVIKTAAN---------------QKRHVLLIGEPGTGKSMLGQAMAELLPT   86 (604)
T ss_dssp             CCSSHHHHCCSCHHHHHHHHHHHH---------------TTCCEEEECCTTSSHHHHHHHHHHTSCC
T ss_pred             ccccccceEECchhhHhhcccccc---------------CCCEEEEEeCCCCCHHHHHHHHhccCCc
Confidence            344567788888888777766554               2357999999999999999999998853

>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=98.49  E-value=1.2e-06  Score=71.76  Aligned_cols=25  Identities=40%  Similarity=0.816  Sum_probs=22.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      .+.|+||+|+||||+++.+++.++.
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~i   26 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5789999999999999999998753

>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Homo sapiens}

Probab=98.49  E-value=6.4e-07  Score=62.15  Aligned_cols=74  Identities=34%  Similarity=0.532  Sum_probs=64.7

Q ss_pred             cCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhh
Q 013506          192 TVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       192 ~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~  271 (441)
                      |.|+.++|.+||+.++.......+.++..++..+.||++.+|..+++++...++++..        ..++.+|+..++..
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            6899999999999999998887888999999999999999999999999999988743        35888888877765


Q ss_pred             cc
Q 013506          272 VG  273 (441)
Q Consensus       272 ~~  273 (441)
                      ..
T Consensus        73 v~   74 (78)
T 3kw6_A           73 VM   74 (78)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.48  E-value=9.1e-07  Score=72.44  Aligned_cols=25  Identities=32%  Similarity=0.480  Sum_probs=22.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCC
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEA  350 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~  350 (441)
                      ++.|+||||+||||+++.++..++.
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~i   26 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            5789999999999999999998753

>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=1.2e-07  Score=77.79  Aligned_cols=34  Identities=15%  Similarity=0.230  Sum_probs=28.0

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          321 ISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       321 ~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      .+...+++|+||||||||++|.++|..+...++.
T Consensus        55 iPkkn~ili~GPPGtGKTt~a~ala~~l~g~i~~   88 (212)
T 1tue_A           55 TPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVIS   88 (212)
T ss_dssp             CTTCSEEEEESCGGGCHHHHHHHHHHHHTCEECC
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHhCCCeee
Confidence            4445679999999999999999999998765543

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens}

Probab=98.48  E-value=4.5e-07  Score=63.90  Aligned_cols=76  Identities=33%  Similarity=0.513  Sum_probs=66.8

Q ss_pred             ecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhh
Q 013506          191 VTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARS  270 (441)
Q Consensus       191 ~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~  270 (441)
                      -.+|+.++|.+||+.++++.....+++++.++..+.||++.+|..+|++|...++++..        ..++.+||..++.
T Consensus         8 ~~~Pd~~~R~~IL~~~l~~~~l~~dvdl~~LA~~T~G~SGADL~~l~~eAa~~alr~~~--------~~I~~~df~~Al~   79 (86)
T 2krk_A            8 HSHPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERR--------VHVTQEDFEMAVA   79 (86)
T ss_dssp             CCCCCHHHHHHHHHHHTTTSEECTTCCCHHHHHTCSSCCHHHHHHHHHHHHHHHHHTTC--------SEECHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHHHHHcCCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHcC--------CCCCHHHHHHHHH
Confidence            46899999999999999998887888999999999999999999999999999888752        4688899988877


Q ss_pred             hccc
Q 013506          271 VVGP  274 (441)
Q Consensus       271 ~~~~  274 (441)
                      ...+
T Consensus        80 ~v~p   83 (86)
T 2krk_A           80 KVMQ   83 (86)
T ss_dssp             HHHC
T ss_pred             HHcc
Confidence            6654

>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=98.37  E-value=1.3e-06  Score=79.32  Aligned_cols=115  Identities=18%  Similarity=0.172  Sum_probs=67.5

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhh-------------c---cCchHHHHHHHHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM-------------Y---VGESEALLRNTFQRAR  380 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~-------------~---~g~~~~~~~~~~~~a~  380 (441)
                      |++++.-++++||||+||||++..++..+   +..++.++..+....             +   ....++.+..+-..++
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            66777788999999999999999998764   556666655432110             0   1112333333322333


Q ss_pred             hcCCeEEEEeccccccccc---CCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEe
Q 013506          381 LAAPSIIFFDEADVVGAKR---GGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPI  434 (441)
Q Consensus       381 ~~~~~vl~iDE~d~~~~~r---~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~  434 (441)
                      ...+.++++|.+..+++..   +..++..-....|.+..+|..|..+..+..+.|+.
T Consensus       137 ~~~~dlvVIDSi~~l~~~~el~g~~G~~q~~~qar~la~~L~~L~~lak~~~~tVI~  193 (356)
T 3hr8_A          137 SGVVDLIVVDSVAALVPRAEIEGAMGDMQVGLQARLMSQALRKIAGSVNKSKAVVIF  193 (356)
T ss_dssp             TSCCSEEEEECTTTCCCHHHHTTCCCSSCSSHHHHHHHHHHHHHHHHHHTSSCEEEE
T ss_pred             hcCCCeEEehHhhhhcChhhhcccchhhHHHHHHHHHHHHHHHHHHHHHhcCCEEEE
Confidence            4678899999999988621   11111111123466777777666654443333333

>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=98.33  E-value=5.6e-06  Score=75.81  Aligned_cols=161  Identities=16%  Similarity=0.108  Sum_probs=102.4

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhC---C-cEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECG---A-HLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~---~-~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~  127 (441)
                      ..+.++|+||+|.||++.++.++..+.   . +...+...   .      ...++.+...+......+...|++|||+|.
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            356899999999999999999987652   1 21112111   0      012445555555555566788999999987


Q ss_pred             -cccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCC------CccCHHHhhCCccceEEEecCCCHHHHH
Q 013506          128 -LCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRV------DAIDPALRRSGRFDAEVEVTVPTAEERF  200 (441)
Q Consensus       128 -l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~------~~l~~~l~~~~r~~~~i~~~~p~~~~~~  200 (441)
                       +.          ....+.|+..++....      ++++|.+++.+      ..+.+.+.+  |.. ++.+.+++..+..
T Consensus        88 kl~----------~~~~~aLl~~le~p~~------~~~~il~~~~~~~~~~~~k~~~~i~s--r~~-~~~~~~l~~~~l~  148 (343)
T 1jr3_D           88 GPN----------AAINEQLLTLTGLLHD------DLLLIVRGNKLSKAQENAAWFTALAN--RSV-QVTCQTPEQAQLP  148 (343)
T ss_dssp             CCC----------TTHHHHHHHHHTTCBT------TEEEEEEESCCCTTTTTSHHHHHHTT--TCE-EEEECCCCTTHHH
T ss_pred             CCC----------hHHHHHHHHHHhcCCC------CeEEEEEcCCCChhhHhhHHHHHHHh--Cce-EEEeeCCCHHHHH
Confidence             52          1345667777775322      34444444442      345667777  764 7999999999999


Q ss_pred             HHHHHHhccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHHHH
Q 013506          201 EILKLYTKKVPLDANVD-LEAIATSCNGYVGADLEALCREAT  241 (441)
Q Consensus       201 ~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~a~  241 (441)
                      ..+...+...+...+.+ +..++..+.| +.+.+.+.++...
T Consensus       149 ~~l~~~~~~~g~~i~~~a~~~l~~~~~g-dl~~~~~elekl~  189 (343)
T 1jr3_D          149 RWVAARAKQLNLELDDAANQVLCYCYEG-NLLALAQALERLS  189 (343)
T ss_dssp             HHHHHHHHHTTCEECHHHHHHHHHSSTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHhch-HHHHHHHHHHHHH
Confidence            99998887776554433 5555655543 5555555555443

>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=98.33  E-value=2.7e-06  Score=73.32  Aligned_cols=29  Identities=28%  Similarity=0.455  Sum_probs=25.1

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      ++.++++|+||||||||+++.+++..+..
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            34578999999999999999999997643

>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=98.30  E-value=2.6e-07  Score=84.73  Aligned_cols=115  Identities=18%  Similarity=0.230  Sum_probs=68.1

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDA  127 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~  127 (441)
                      ++++++..++|+||||+||||+++.+++.++..++.+....      ......+.        .  ..+..++++||++.
T Consensus       164 ~~i~~~~~i~l~G~~GsGKSTl~~~l~~~~~g~~~~~~~~~------~~~~~~lg--------~--~~q~~~~l~dd~~~  227 (377)
T 1svm_A          164 YNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPL------DRLNFELG--------V--AIDQFLVVFEDVKG  227 (377)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCT------TTHHHHHG--------G--GTTCSCEEETTCCC
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHhhcCCcEEEEeccc------hhHHHHHH--------H--hcchhHHHHHHHHH
Confidence            47888999999999999999999999998876654432211      00010111        1  11345789999987


Q ss_pred             cccC-CCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceE
Q 013506          128 LCPR-RDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAE  188 (441)
Q Consensus       128 l~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~  188 (441)
                      +... ..............+...+++.         +.++.++|.++.+ +.+.++++++..
T Consensus       228 ~~~~~r~l~~~~~~~~~~~l~~~ldG~---------v~v~~~tn~~~~l-~alf~pg~ld~~  279 (377)
T 1svm_A          228 TGGESRDLPSGQGINNLDNLRDYLDGS---------VKVNLEKKHLNKR-TQIFPPGIVTMN  279 (377)
T ss_dssp             STTTTTTCCCCSHHHHHHTTHHHHHCS---------SCEEECCSSSCCE-EECCCCEEEEEC
T ss_pred             HHHHHhhccccCcchHHHHHHHHhcCC---------CeEeeccCchhhH-HHhhcCcccChh
Confidence            7541 1110101111223444455542         3556778888887 566666666543

>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=98.22  E-value=3.9e-06  Score=76.78  Aligned_cols=117  Identities=17%  Similarity=0.152  Sum_probs=65.3

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhc----cC-----------chHHHHHHHHHHH-H
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMY----VG-----------ESEALLRNTFQRA-R  380 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~----~g-----------~~~~~~~~~~~~a-~  380 (441)
                      |++++.-++++|+||+|||++|..++...   +.+++.++........    .|           .+.+.+...+... +
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            66777788999999999999998887654   4566555543321110    01           1222232333332 3


Q ss_pred             hcCCeEEEEecccccccccCCCCC---CCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          381 LAAPSIIFFDEADVVGAKRGGSSS---TSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       381 ~~~~~vl~iDE~d~~~~~r~~~~~---~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ...+.+|+||.+..+.+....++.   ...+...+.+..++..|...-.+..|.|+.+|
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            456789999999999863322111   00112235667777777554343334444433

>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=98.21  E-value=1.4e-06  Score=79.52  Aligned_cols=78  Identities=23%  Similarity=0.187  Sum_probs=49.6

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhh----ccC------------chHHHHHHHHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM----YVG------------ESEALLRNTFQRAR  380 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~----~~g------------~~~~~~~~~~~~a~  380 (441)
                      +++++.-++++||||+||||+|..++...   +..++.++.......    ..|            ..++.+..+...+.
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            66777788999999999999999887654   455555554321111    011            11222222222333


Q ss_pred             hcCCeEEEEeccccccc
Q 013506          381 LAAPSIIFFDEADVVGA  397 (441)
Q Consensus       381 ~~~~~vl~iDE~d~~~~  397 (441)
                      ...+.+|++|++..+.+
T Consensus       137 ~~~~~lIVIDsl~~l~~  153 (349)
T 2zr9_A          137 SGALDIIVIDSVAALVP  153 (349)
T ss_dssp             TTCCSEEEEECGGGCCC
T ss_pred             cCCCCEEEEcChHhhcc
Confidence            45688999999999985

>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=98.18  E-value=5e-06  Score=58.94  Aligned_cols=74  Identities=26%  Similarity=0.403  Sum_probs=63.4

Q ss_pred             CHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhhccc
Q 013506          195 TAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGP  274 (441)
Q Consensus       195 ~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~  274 (441)
                      +.++|.+||+.++.+.+...+.++..++..|.||++.+|..+|++|...++++..        ..++.+|+..++..+.+
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            4578999999999999888889999999999999999999999999999988753        24888999988887765


Q ss_pred             cc
Q 013506          275 SI  276 (441)
Q Consensus       275 ~~  276 (441)
                      ..
T Consensus        74 ~~   75 (88)
T 3vlf_B           74 GY   75 (88)
T ss_dssp             --
T ss_pred             Cc
Confidence            43

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=98.16  E-value=7.3e-06  Score=81.99  Aligned_cols=205  Identities=15%  Similarity=0.125  Sum_probs=0.0

Q ss_pred             hcCCCCCcEEEEEcCCCCcHHHHH---------------------HHHHHHhCCc---------EEEEccCcc-------
Q 013506           47 KLGLKWPRGLLLYGPPGTGKTSLV---------------------RAVVRECGAH---------LTVISPHSV-------   89 (441)
Q Consensus        47 ~~~~~~~~~vll~Gp~GtGKT~l~---------------------~~l~~~l~~~---------~~~v~~~~~-------   89 (441)
                      ++.+..+..+.|+||+|+|||||+                     +.++......         .+.++....       
T Consensus        38 sl~i~~Ge~~~liGpNGaGKSTLl~~~~~~~~~~~~~~~l~~~~~~~l~~l~~~~~~~i~~~~~~i~~~~~~~~~~~~~~  117 (670)
T 3ux8_A           38 DVEIPRGKLVVLTGLSGSGKSSLAFDTIYAEGQRRYVESLSAYARQFLGQMEKPDVDAIEGLSPAISIDQKTTSRNPRST  117 (670)
T ss_dssp             EEEEETTSEEEEECSTTSSHHHHHTTTHHHHHHHHHHTC--------------CCCSEEESCCCEEEESSCC-----CCB
T ss_pred             EEEECCCCEEEEECCCCCCHHHHhcccccccccccccccchhhhhhhhcccccCCccceeccccceEecCchhhccchhc


Q ss_pred             ------------------------------------------------------------------------------cc
Q 013506           90 ------------------------------------------------------------------------------HK   91 (441)
Q Consensus        90 ------------------------------------------------------------------------------~~   91 (441)
                                                                                                    ..
T Consensus       118 ig~v~q~~~~~~~~~~~~~~~~~~~~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~gL~~~~~~  197 (670)
T 3ux8_A          118 VGTVTEIYDYLRLLFARIGRLVGGKHIGEVTAMSVTEALAFFDGLELTEKEAQIARLILREIRDRLGFLQNVGLDYLTLS  197 (670)
T ss_dssp             HHHHTTCC-------------------------CC--------------------------CHHHHHHHHHTTCTTCCTT
T ss_pred             eeeeechhhhHHHHHhhhcccccccccccccCCcHHHHHHHhhccccchhhhHHHHHHHHHHHHHHHHHHHcCCchhhhc


Q ss_pred             ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCC
Q 013506           92 AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNR  171 (441)
Q Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~  171 (441)
                      ........--++...-+..-....+|.+|++||         +.+..+......+...+......     ...+|.+++ 
T Consensus       198 ~~~~~LSGGe~QRv~iArAL~~~p~~~lLlLDE---------PtsgLD~~~~~~l~~~l~~l~~~-----g~tvi~vtH-  262 (670)
T 3ux8_A          198 RSAGTLSGGEAQRIRLATQIGSRLTGVLYVLDE---------PSIGLHQRDNDRLIATLKSMRDL-----GNTLIVVEH-  262 (670)
T ss_dssp             CBGGGSCHHHHHHHHHHHHHHTCCCSCEEEEEC---------TTTTCCGGGHHHHHHHHHHHHHT-----TCEEEEECC-
T ss_pred             CCcccCCHHHHHHHHHHHHHhhCCCCCEEEEEC---------CccCCCHHHHHHHHHHHHHHHHc-----CCEEEEEeC-


Q ss_pred             CCccCHHHhhCCccceEEEe------------cCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHH
Q 013506          172 VDAIDPALRRSGRFDAEVEV------------TVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCRE  239 (441)
Q Consensus       172 ~~~l~~~l~~~~r~~~~i~~------------~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~  239 (441)
                          +..+..  ..+.++.+            ..-+.++...                                      
T Consensus       263 ----d~~~~~--~~d~ii~l~~g~~~~~G~i~~~g~~~~~~~--------------------------------------  298 (670)
T 3ux8_A          263 ----DEDTML--AADYLIDIGPGAGIHGGEVVAAGTPEEVMN--------------------------------------  298 (670)
T ss_dssp             ----CHHHHH--HCSEEEEECSSSGGGCCSEEEEECHHHHHT--------------------------------------
T ss_pred             ----CHHHHh--hCCEEEEecccccccCCEEEEecCHHHHhc--------------------------------------


Q ss_pred             HHHHHHHhcccccccccceeeeHhhHHhhhhhcccccccCcccccCccccccccCchhHHHHHHHHHhcccCCchhhhhc
Q 013506          240 ATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRL  319 (441)
Q Consensus       240 a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~  319 (441)
                                           ....+...+..-............+...+-.+.+.              -.+.-....+
T Consensus       299 ---------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~L~~vsl  343 (670)
T 3ux8_A          299 ---------------------DPNSLTGQYLSGKKFIPIPAERRRPDGRWLEVVGA--------------REHNLKNVSV  343 (670)
T ss_dssp             ---------------------CTTCHHHHHHTTSSCCCCCSSCCCCCSCEEEEEEE--------------CSTTCCSEEE
T ss_pred             ---------------------CchhHHHHHhccccccccccccccccccceeecCc--------------ccccccccee


Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAA  345 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la  345 (441)
                      .+.++..+.++||+|+||||+++++.
T Consensus       344 ~I~~Ge~vaIiGpnGsGKSTLl~~i~  369 (670)
T 3ux8_A          344 KIPLGTFVAVTGVSGSGKSTLVNEVL  369 (670)
T ss_dssp             EEETTSEEEEECSTTSSHHHHHTTTH
T ss_pred             EecCCCEEEEEeeCCCCHHHHHHHHH

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=98.16  E-value=1e-05  Score=69.60  Aligned_cols=29  Identities=28%  Similarity=0.260  Sum_probs=24.8

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +++++..++++||||+||||+++.++...
T Consensus        19 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~   47 (235)
T 2w0m_A           19 GIPQGFFIALTGEPGTGKTIFSLHFIAKG   47 (235)
T ss_dssp             SEETTCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCcCCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            45667788999999999999999998654

>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=98.15  E-value=9.8e-06  Score=68.99  Aligned_cols=40  Identities=23%  Similarity=0.292  Sum_probs=33.5

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCc
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~   88 (441)
                      |++++.-++|+||||+|||+++..++...+..+++++...
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            4778899999999999999999999885566777776654

>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=98.14  E-value=5.7e-06  Score=75.89  Aligned_cols=67  Identities=21%  Similarity=0.192  Sum_probs=47.1

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      .+.+++..++++||||+||||++++++...+..++.+..++-.      ..-.+..+|      ...++|+||++....
T Consensus       164 ~~i~~~~~i~l~G~~GsGKSTl~~~l~~~~~g~~~~~~~~~~~------~~~~lg~~~------q~~~~l~dd~~~~~~  230 (377)
T 1svm_A          164 YNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDR------LNFELGVAI------DQFLVVFEDVKGTGG  230 (377)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTTT------HHHHHGGGT------TCSCEEETTCCCSTT
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHhhcCCcEEEEeccchh------HHHHHHHhc------chhHHHHHHHHHHHH
Confidence            3677788999999999999999999999988776654433211      011122222      334789999998875

>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=98.12  E-value=4.3e-06  Score=71.23  Aligned_cols=38  Identities=24%  Similarity=0.218  Sum_probs=30.9

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEech
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSG  357 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~  357 (441)
                      +++++.-++++||||+||||+++.++...+..++.++.
T Consensus        16 gi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~v~~i~~   53 (220)
T 2cvh_A           16 GFAPGVLTQVYGPYASGKTTLALQTGLLSGKKVAYVDT   53 (220)
T ss_dssp             SBCTTSEEEEECSTTSSHHHHHHHHHHHHCSEEEEEES
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHHHcCCcEEEEEC
Confidence            56777788999999999999999999855666665554

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=98.11  E-value=1.5e-05  Score=68.56  Aligned_cols=37  Identities=27%  Similarity=0.357  Sum_probs=29.2

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEc
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVIS   85 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~   85 (441)
                      +++++..++|+||||+||||+++.++..+   +..+++++
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            46678899999999999999999998654   44555544

>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=98.10  E-value=2.6e-06  Score=79.13  Aligned_cols=82  Identities=20%  Similarity=0.319  Sum_probs=56.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC---CceEEechhhhhhh-------------ccCchHHHHHHHHHHHHhcCCeEE
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAE---ASFFSLSGAELYSM-------------YVGESEALLRNTFQRARLAAPSII  387 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~---~~~~~i~~~~~~~~-------------~~g~~~~~~~~~~~~a~~~~~~vl  387 (441)
                      ..++++.|++||||+++|+++.....   .+++.++++.+...             |.|.... -...|..|.   ..+|
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-KEGFFELAD---GGTL  235 (387)
T ss_dssp             CSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCBCTTSSTTCCSC-BCCHHHHTT---TSEE
T ss_pred             CCCeEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCCCCHHHHHHHhcCCCCCCCCCcccc-cCCceeeCC---CcEE
Confidence            34689999999999999999998874   68999998764321             1111111 123445443   3499


Q ss_pred             EEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          388 FFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       388 ~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                      |||||+.+.+              .+...||..|+.
T Consensus       236 fldei~~l~~--------------~~q~~Ll~~l~~  257 (387)
T 1ny5_A          236 FLDEIGELSL--------------EAQAKLLRVIES  257 (387)
T ss_dssp             EEESGGGCCH--------------HHHHHHHHHHHH
T ss_pred             EEcChhhCCH--------------HHHHHHHHHHhc
Confidence            9999999853              556777777764

>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=98.09  E-value=4e-06  Score=72.67  Aligned_cols=78  Identities=15%  Similarity=0.112  Sum_probs=50.0

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH--c-------CCceEEechhhh------h---hh-------------cc-Cc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHA--A-------EASFFSLSGAEL------Y---SM-------------YV-GE  367 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~--~-------~~~~~~i~~~~~------~---~~-------------~~-g~  367 (441)
                      +++++.-++++||||+||||+++.++..  .       +..++.++..+.      .   ..             +. ..
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            5677778999999999999999999984  3       345555554331      0   00             00 01


Q ss_pred             hHH----HHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          368 SEA----LLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       368 ~~~----~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      +..    .+..+.+.+....+.+|+|||+..+..
T Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~lliiD~~~~~~~  133 (243)
T 1n0w_A          100 NTDHQTQLLYQASAMMVESRYALLIVDSATALYR  133 (243)
T ss_dssp             SHHHHHHHHHHHHHHHHHSCEEEEEEETSSGGGC
T ss_pred             CHHHHHHHHHHHHHHHhcCCceEEEEeCchHHHH
Confidence            111    123344444456788999999998874

>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=98.09  E-value=4.2e-06  Score=76.33  Aligned_cols=79  Identities=19%  Similarity=0.178  Sum_probs=51.3

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhh----cc-----------CchHHHHHHHHHHH-H
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM----YV-----------GESEALLRNTFQRA-R  380 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~----~~-----------g~~~~~~~~~~~~a-~  380 (441)
                      |++++.-++++|+||+|||++|..++..+   +..++.++.......    -.           ..+.+.+..++... +
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            56777788999999999999998888654   556666665321110    00           11223333343332 3


Q ss_pred             hcCCeEEEEecccccccc
Q 013506          381 LAAPSIIFFDEADVVGAK  398 (441)
Q Consensus       381 ~~~~~vl~iDE~d~~~~~  398 (441)
                      ...+.+|+||.+..+.+.
T Consensus       139 ~~~~~lVVIDsl~~l~~~  156 (356)
T 1u94_A          139 SGAVDVIVVDSVAALTPK  156 (356)
T ss_dssp             HTCCSEEEEECGGGCCCH
T ss_pred             ccCCCEEEEcCHHHhcch
Confidence            466889999999998853

>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=98.09  E-value=9.1e-06  Score=70.40  Aligned_cols=40  Identities=18%  Similarity=0.219  Sum_probs=32.2

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHH--h-------CCcEEEEccCc
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRE--C-------GAHLTVISPHS   88 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~--l-------~~~~~~v~~~~   88 (441)
                      |++++..++|+||||+|||++++.++..  +       +...++++...
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            4678899999999999999999999984  3       34567776554

>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=98.07  E-value=7.3e-06  Score=57.54  Aligned_cols=75  Identities=27%  Similarity=0.360  Sum_probs=63.5

Q ss_pred             CHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhhccc
Q 013506          195 TAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVGP  274 (441)
Q Consensus       195 ~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~  274 (441)
                      +.++|.+||+.++...+...+.++..++..+.||++.+|..++++|...++++..        ..++.+|+..++....|
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            6789999999999998887788999999999999999999999999988776542        45888999999888887


Q ss_pred             ccc
Q 013506          275 SIT  277 (441)
Q Consensus       275 ~~~  277 (441)
                      +..
T Consensus        74 s~~   76 (83)
T 3aji_B           74 KDE   76 (83)
T ss_dssp             ---
T ss_pred             Cch
Confidence            654

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=98.06  E-value=4.2e-06  Score=68.13  Aligned_cols=22  Identities=36%  Similarity=0.517  Sum_probs=19.1

Q ss_pred             CCCCceEEEECCCCCcHHHHHH
Q 013506          321 ISPVRGALLHGPPGCSKTTLAK  342 (441)
Q Consensus       321 ~~~~~~~ll~Gp~GtGKTtla~  342 (441)
                      +.++.-+.++|||||||||+++
T Consensus         6 i~~gei~~l~G~nGsGKSTl~~   27 (171)
T 4gp7_A            6 IPELSLVVLIGSSGSGKSTFAK   27 (171)
T ss_dssp             EESSEEEEEECCTTSCHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHH
Confidence            3456678999999999999999

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=98.04  E-value=7e-05  Score=68.60  Aligned_cols=51  Identities=22%  Similarity=0.171  Sum_probs=36.0

Q ss_pred             cccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechh
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA  358 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~  358 (441)
                      .+.|.+...+.+.+.+..               +..++++||+|+|||++++.+++..+  .+.+++.
T Consensus        13 ~~~gR~~el~~L~~~l~~---------------~~~v~i~G~~G~GKT~Ll~~~~~~~~--~~~~~~~   63 (350)
T 2qen_A           13 DIFDREEESRKLEESLEN---------------YPLTLLLGIRRVGKSSLLRAFLNERP--GILIDCR   63 (350)
T ss_dssp             GSCSCHHHHHHHHHHHHH---------------CSEEEEECCTTSSHHHHHHHHHHHSS--EEEEEHH
T ss_pred             hcCChHHHHHHHHHHHhc---------------CCeEEEECCCcCCHHHHHHHHHHHcC--cEEEEee
Confidence            455666655656555431               14789999999999999999998875  5555543

>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=98.02  E-value=2.3e-05  Score=66.15  Aligned_cols=76  Identities=20%  Similarity=0.246  Sum_probs=44.2

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCc-------cccccccch-----HHHHHHHHHHHHhhhhcCC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHS-------VHKAHVGES-----EKALREAFSQASSHALSGK  116 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~-------~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~  116 (441)
                      ++.-++++||+|+||||++..++..+   +..++.+....       +.+. .+..     ......++..........+
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~sr-lG~~~~~~~~~~~~~i~~~i~~~~~~~~   89 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSR-TGTSLPSVEVESAPEILNYIMSNSFNDE   89 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCC-CCCSSCCEEESSTHHHHHHHHSTTSCTT
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHh-cCCCccccccCCHHHHHHHHHHHhhCCC
Confidence            35678999999999999988777665   44555553211       1111 1100     0011234444443333345


Q ss_pred             CeEEEEcccccc
Q 013506          117 PSVVFIDEIDAL  128 (441)
Q Consensus       117 ~~il~iDe~~~l  128 (441)
                      +++++|||++.+
T Consensus        90 ~dvViIDEaQ~l  101 (223)
T 2b8t_A           90 TKVIGIDEVQFF  101 (223)
T ss_dssp             CCEEEECSGGGS
T ss_pred             CCEEEEecCccC
Confidence            789999999875

>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=98.01  E-value=4.8e-06  Score=71.54  Aligned_cols=29  Identities=31%  Similarity=0.290  Sum_probs=25.6

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ++.++.-+.++||||+||||+++.++...
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            66777788999999999999999999854

>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=97.99  E-value=2.2e-05  Score=64.27  Aligned_cols=34  Identities=12%  Similarity=0.271  Sum_probs=29.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEechh
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA  358 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~  358 (441)
                      ..++++|+|||||||+++.++..++.+++.++..
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~~~~~~~~~D   37 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVD   37 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCCeEEeccc
Confidence            4588999999999999999999999887765543

>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=97.96  E-value=1.1e-05  Score=73.54  Aligned_cols=78  Identities=14%  Similarity=0.138  Sum_probs=49.5

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---------CCceEEechhhhhh---------hc-----------------
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---------EASFFSLSGAELYS---------MY-----------------  364 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---------~~~~~~i~~~~~~~---------~~-----------------  364 (441)
                      +++++.-++++||||+|||++|..+|...         +..++.++....+.         .+                 
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            67777788999999999999999998862         44555555433110         00                 


Q ss_pred             cCc-hHHHHHHHHHHHHh--cCCeEEEEeccccccc
Q 013506          365 VGE-SEALLRNTFQRARL--AAPSIIFFDEADVVGA  397 (441)
Q Consensus       365 ~g~-~~~~~~~~~~~a~~--~~~~vl~iDE~d~~~~  397 (441)
                      ..+ ....+..+...+..  ..+.+|+||.+..++.
T Consensus       198 ~~e~~~~ll~~l~~~i~~~~~~~~lvVIDsl~~l~~  233 (343)
T 1v5w_A          198 TSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFR  233 (343)
T ss_dssp             STTHHHHHHHHHHHHHHHSCSSEEEEEEETSGGGHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCccEEEEechHHHHH
Confidence            011 01122223344444  6788999999999874

>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=97.94  E-value=2.5e-05  Score=70.86  Aligned_cols=82  Identities=21%  Similarity=0.309  Sum_probs=50.4

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCcccccc------------ccchHHHHHHHHHHHHhhhh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAH------------VGESEKALREAFSQASSHAL  113 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~  113 (441)
                      |++++.-++|+||||+||||++..++..+   +..+++++........            .-.........+........
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            46778899999999999999999998764   4567777765432100            00000011122222222122


Q ss_pred             cCCCeEEEEcccccccc
Q 013506          114 SGKPSVVFIDEIDALCP  130 (441)
Q Consensus       114 ~~~~~il~iDe~~~l~~  130 (441)
                      ...+++++||.+..+.+
T Consensus       137 ~~~~dlvVIDSi~~l~~  153 (356)
T 3hr8_A          137 SGVVDLIVVDSVAALVP  153 (356)
T ss_dssp             TSCCSEEEEECTTTCCC
T ss_pred             hcCCCeEEehHhhhhcC
Confidence            34588999999988775

>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=97.94  E-value=6.6e-06  Score=74.53  Aligned_cols=78  Identities=13%  Similarity=0.121  Sum_probs=50.3

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---------CCceEEechhhhh---------hhc------------cC---
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---------EASFFSLSGAELY---------SMY------------VG---  366 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---------~~~~~~i~~~~~~---------~~~------------~g---  366 (441)
                      +++++.-++++||||+|||++|..+|...         +..++.++....+         ..+            +.   
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            66777788999999999999999998764         4455555543310         000            00   


Q ss_pred             chH---HHHHHHHHHHHh-cCCeEEEEeccccccc
Q 013506          367 ESE---ALLRNTFQRARL-AAPSIIFFDEADVVGA  397 (441)
Q Consensus       367 ~~~---~~~~~~~~~a~~-~~~~vl~iDE~d~~~~  397 (441)
                      ..+   ..+..+...+.. ..+.+|+||.+..++.
T Consensus       183 ~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~l~~  217 (324)
T 2z43_A          183 NTDHQIAIVDDLQELVSKDPSIKLIVVDSVTSHFR  217 (324)
T ss_dssp             SHHHHHHHHHHHHHHHHHCTTEEEEEETTTTHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhccCCCEEEEeCcHHHhh
Confidence            011   122334444444 6788999999999874

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.93  E-value=4.3e-06  Score=72.94  Aligned_cols=72  Identities=19%  Similarity=0.256  Sum_probs=46.4

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcC----CceEEechhhh--hh----hc-----cCchHHHHHHHHHHHHhcCCe
Q 013506          321 ISPVRGALLHGPPGCSKTTLAKAAAHAAE----ASFFSLSGAEL--YS----MY-----VGESEALLRNTFQRARLAAPS  385 (441)
Q Consensus       321 ~~~~~~~ll~Gp~GtGKTtla~~la~~~~----~~~~~i~~~~~--~~----~~-----~g~~~~~~~~~~~~a~~~~~~  385 (441)
                      ..++..++++||+|+||||+.++++..+.    ..++ +...+.  ..    .+     ++.....++..+..+....|.
T Consensus        22 i~~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~-~~g~~i~~~~~~~~~~v~q~~~gl~~~~l~~~la~aL~~~p~  100 (261)
T 2eyu_A           22 HRKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHII-TIEDPIEYVFKHKKSIVNQREVGEDTKSFADALRAALREDPD  100 (261)
T ss_dssp             GCSSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEE-EEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHHHHCCS
T ss_pred             hCCCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEE-EcCCcceeecCCcceeeeHHHhCCCHHHHHHHHHHHHhhCCC
Confidence            46777889999999999999999998763    2222 211110  00    00     111112346677777667899


Q ss_pred             EEEEeccc
Q 013506          386 IIFFDEAD  393 (441)
Q Consensus       386 vl~iDE~d  393 (441)
                      ++++||.-
T Consensus       101 illlDEp~  108 (261)
T 2eyu_A          101 VIFVGEMR  108 (261)
T ss_dssp             EEEESCCC
T ss_pred             EEEeCCCC
Confidence            99999984

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=97.93  E-value=2.5e-05  Score=67.82  Aligned_cols=31  Identities=26%  Similarity=0.219  Sum_probs=26.5

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +.+.++..+.++||+|+|||||.++++....
T Consensus        36 l~i~~Gei~~l~G~NGsGKSTLlk~l~Gl~~   66 (256)
T 1vpl_A           36 FEIEEGEIFGLIGPNGAGKTTTLRIISTLIK   66 (256)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3456777889999999999999999998763

>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=97.93  E-value=2.1e-05  Score=71.33  Aligned_cols=30  Identities=33%  Similarity=0.521  Sum_probs=26.1

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++.-+.|+||+||||||+.+++|...
T Consensus        25 l~i~~Ge~~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           25 LSLDPGEILFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEECTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEcCCCEEEEECCCCchHHHHHHHHhcCC
Confidence            345667788999999999999999999877

>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=97.92  E-value=0.00011  Score=67.45  Aligned_cols=33  Identities=15%  Similarity=0.168  Sum_probs=28.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEechh
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA  358 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~  358 (441)
                      .++++||+|+|||++++.+++..+...+.+++.
T Consensus        32 ~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~   64 (357)
T 2fna_A           32 ITLVLGLRRTGKSSIIKIGINELNLPYIYLDLR   64 (357)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGG
T ss_pred             cEEEECCCCCCHHHHHHHHHHhcCCCEEEEEch
Confidence            789999999999999999999887666666654

>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=97.92  E-value=0.00011  Score=65.50  Aligned_cols=72  Identities=17%  Similarity=0.200  Sum_probs=45.0

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhh--------hc-------------cCchHHHHHHHHH
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYS--------MY-------------VGESEALLRNTFQ  377 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~--------~~-------------~g~~~~~~~~~~~  377 (441)
                      .++..++++||+|+||||++..+|..+   +..+..++. |.+.        .|             .++........+.
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~-D~~r~~a~eqL~~~~~~~gl~~~~~~s~~~~~~v~~~al~  180 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAA-DTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDAVA  180 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEE-CTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEcc-ccccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHH
Confidence            455678899999999999999999876   444443332 1110        00             0111222233455


Q ss_pred             HHHhcCCeEEEEecccc
Q 013506          378 RARLAAPSIIFFDEADV  394 (441)
Q Consensus       378 ~a~~~~~~vl~iDE~d~  394 (441)
                      .+....+.++++|+.-.
T Consensus       181 ~a~~~~~dvvIiDtpg~  197 (306)
T 1vma_A          181 HALARNKDVVIIDTAGR  197 (306)
T ss_dssp             HHHHTTCSEEEEEECCC
T ss_pred             HHHhcCCCEEEEECCCc
Confidence            56667888999998753

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.91  E-value=7.5e-06  Score=68.55  Aligned_cols=36  Identities=25%  Similarity=0.268  Sum_probs=29.4

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v   84 (441)
                      .+.++..++|+|||||||||+++.+++.++.+++..
T Consensus        21 ~~~~~~~i~l~G~~GsGKsTl~~~La~~l~~~~i~~   56 (199)
T 3vaa_A           21 QSNAMVRIFLTGYMGAGKTTLGKAFARKLNVPFIDL   56 (199)
T ss_dssp             ---CCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEH
T ss_pred             ecCCCCEEEEEcCCCCCHHHHHHHHHHHcCCCEEcc
Confidence            345678999999999999999999999998876543

>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=97.91  E-value=1.9e-05  Score=71.74  Aligned_cols=31  Identities=19%  Similarity=0.202  Sum_probs=26.7

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +.+.++.-+.++||+|+||||+.++++....
T Consensus        49 l~i~~Gei~~IiGpnGaGKSTLlr~i~GL~~   79 (366)
T 3tui_C           49 LHVPAGQIYGVIGASGAGKSTLIRCVNLLER   79 (366)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEcCCCEEEEEcCCCchHHHHHHHHhcCCC
Confidence            4556777889999999999999999998773

>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=97.91  E-value=1.5e-05  Score=69.65  Aligned_cols=30  Identities=27%  Similarity=0.314  Sum_probs=25.9

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++..+.++||+|+||||++++++...
T Consensus        32 l~i~~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           32 LHIASGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEEETTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            345667788999999999999999999876

>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=97.91  E-value=2.6e-05  Score=68.68  Aligned_cols=113  Identities=12%  Similarity=0.135  Sum_probs=60.8

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc-----CCceEEechhhhhhh-------------cc--CchHHHH-HHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSM-------------YV--GESEALL-RNTFQR  378 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~-----~~~~~~i~~~~~~~~-------------~~--g~~~~~~-~~~~~~  378 (441)
                      |++++ .++++||||+||||++-.++...     +..++.++..+-...             ++  -.+.+.+ -.+.+.
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            56666 68999999999999976665433     455666665332211             00  1112222 222222


Q ss_pred             ---HHhcCCeEEEEecccccccccCCCCC-CC--cc--hhhHHHHHHHHHhcCCCCCCeEEEE
Q 013506          379 ---ARLAAPSIIFFDEADVVGAKRGGSSS-TS--IT--VGERLLSTLLTEMDGLEQAKVIIYP  433 (441)
Q Consensus       379 ---a~~~~~~vl~iDE~d~~~~~r~~~~~-~~--~~--~~~~~~~~ll~~l~~~~~~~~v~~~  433 (441)
                         ++...|.++++|-+..+++.-..++. ++  -+  ...|.++..|..|.++-....|.++
T Consensus       104 l~~i~~~~~~lvVIDSI~aL~~~~eieg~~gd~~~gsv~qaR~~s~~LrkL~~~ak~~~i~vi  166 (333)
T 3io5_A          104 LDAIERGEKVVVFIDSLGNLASKKETEDALNEKVVSDMTRAKTMKSLFRIVTPYFSTKNIPCI  166 (333)
T ss_dssp             HHTCCTTCCEEEEEECSTTCBCC--------------CTHHHHHHHHHHHHHHHHHHTTCEEE
T ss_pred             HHHhhccCceEEEEecccccccchhccCccccccccHHHHHHHHHHHHHHHHHHHHHhCCEEE
Confidence               24567899999999999863221111 00  01  2346677777666544443333333

>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=97.91  E-value=6.9e-06  Score=74.90  Aligned_cols=100  Identities=21%  Similarity=0.320  Sum_probs=56.7

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHhC----CcEEEEcc-Ccccc---------ccccchHHHHHHHHHHHHhhhhcCC
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVRECG----AHLTVISP-HSVHK---------AHVGESEKALREAFSQASSHALSGK  116 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l~----~~~~~v~~-~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~  116 (441)
                      .++..++++||+||||||+++++++.++    ..++.+.- .++..         ...+...    ..|..+....+...
T Consensus       121 ~~~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~~~v~q~~~~~~~----~~~~~~La~aL~~~  196 (356)
T 3jvv_A          121 VPRGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKKCLVNQREVHRDT----LGFSEALRSALRED  196 (356)
T ss_dssp             CSSEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTB----SCHHHHHHHHTTSC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccccceeeeeecccc----CCHHHHHHHHhhhC
Confidence            3566899999999999999999988763    22333211 11110         0001000    11333445555667


Q ss_pred             CeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCcc
Q 013506          117 PSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAI  175 (441)
Q Consensus       117 ~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l  175 (441)
                      |++|++||+-            +.+....++......         ..++.+++..+..
T Consensus       197 PdvillDEp~------------d~e~~~~~~~~~~~G---------~~vl~t~H~~~~~  234 (356)
T 3jvv_A          197 PDIILVGEMR------------DLETIRLALTAAETG---------HLVFGTLHTTSAA  234 (356)
T ss_dssp             CSEEEESCCC------------SHHHHHHHHHHHHTT---------CEEEEEESCSSHH
T ss_pred             cCEEecCCCC------------CHHHHHHHHHHHhcC---------CEEEEEEccChHH
Confidence            9999999973            224444445544331         2466777766544

>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=97.91  E-value=4.2e-05  Score=65.55  Aligned_cols=29  Identities=24%  Similarity=0.354  Sum_probs=26.1

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +++++..+.|+||||+||||+++.++...
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            56788999999999999999999999854

>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=97.90  E-value=1.3e-06  Score=76.56  Aligned_cols=30  Identities=20%  Similarity=0.235  Sum_probs=26.4

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+.++..+.|+||+|+||||+++.+++.+.
T Consensus        30 ~i~~Ge~~~iiGpnGsGKSTLl~~l~Gl~~   59 (275)
T 3gfo_A           30 NIKRGEVTAILGGNGVGKSTLFQNFNGILK   59 (275)
T ss_dssp             EEETTSEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHcCCC
Confidence            456788999999999999999999998763

>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=97.90  E-value=1.5e-05  Score=72.85  Aligned_cols=30  Identities=30%  Similarity=0.232  Sum_probs=26.9

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .+++++.-+.++||||+||||+++.++...
T Consensus       126 ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          126 GGIETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             SSEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            367778888999999999999999999887

>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=97.89  E-value=1.8e-05  Score=69.34  Aligned_cols=30  Identities=20%  Similarity=0.176  Sum_probs=25.9

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++..+.++||||+||||++++++...
T Consensus        29 l~i~~Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           29 MNIKRGEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             EEEETTSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            345667778999999999999999999877

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.89  E-value=8.6e-06  Score=68.16  Aligned_cols=37  Identities=32%  Similarity=0.382  Sum_probs=30.2

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      ...++..++|+|||||||||+++.+|+.++..++..+
T Consensus        21 ~~~~~~~i~l~G~~GsGKsTl~~~La~~l~~~~i~~d   57 (199)
T 3vaa_A           21 QSNAMVRIFLTGYMGAGKTTLGKAFARKLNVPFIDLD   57 (199)
T ss_dssp             ---CCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEHH
T ss_pred             ecCCCCEEEEEcCCCCCHHHHHHHHHHHcCCCEEcch
Confidence            3345668999999999999999999999998887654

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=97.88  E-value=0.00023  Score=70.31  Aligned_cols=47  Identities=21%  Similarity=0.241  Sum_probs=37.8

Q ss_pred             cccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHH
Q 013506           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        18 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      ...++|.+...+.|.+.+...           -...+.++|+||+|+|||++|+.++.
T Consensus       123 ~~~~vGR~~~l~~L~~~L~~~-----------~~~~~~v~I~G~~GiGKTtLa~~~~~  169 (591)
T 1z6t_A          123 PVVFVTRKKLVNAIQQKLSKL-----------KGEPGWVTIHGMAGCGKSVLAAEAVR  169 (591)
T ss_dssp             CSSCCCCHHHHHHHHHHHTTS-----------TTSCEEEEEECCTTSSHHHHHHHHHC
T ss_pred             CCeecccHHHHHHHHHHHhcc-----------cCCCceEEEEcCCCCCHHHHHHHHHh
Confidence            467999999999999987431           02346799999999999999998864

>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=97.87  E-value=2.4e-06  Score=74.71  Aligned_cols=29  Identities=24%  Similarity=0.402  Sum_probs=26.0

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      .+.++..+.|+||+|+||||+++.+++.+
T Consensus        33 ~i~~Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           33 HIASGEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEETTCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            45678899999999999999999999865

>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=97.86  E-value=3.1e-05  Score=71.26  Aligned_cols=81  Identities=20%  Similarity=0.343  Sum_probs=55.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCc--eEEechhhhhhh-------------ccCchHHHHHHHHHHHHhcCCeEEEE
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEAS--FFSLSGAELYSM-------------YVGESEALLRNTFQRARLAAPSIIFF  389 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~--~~~i~~~~~~~~-------------~~g~~~~~~~~~~~~a~~~~~~vl~i  389 (441)
                      ..+++.|++||||+.+|+++....+..  ++.+++..+-..             |.|.... -...|..|.   ..+|||
T Consensus       153 ~~vli~GesGtGKe~lAr~ih~~s~r~~~fv~vnc~~~~~~~~~~~lfg~~~g~~tga~~~-~~g~~~~a~---~gtlfl  228 (368)
T 3dzd_A          153 APVLITGESGTGKEIVARLIHRYSGRKGAFVDLNCASIPQELAESELFGHEKGAFTGALTR-KKGKLELAD---QGTLFL  228 (368)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHCCCSCEEEEESSSSCTTTHHHHHHEECSCSSSSCCCC-EECHHHHTT---TSEEEE
T ss_pred             hhheEEeCCCchHHHHHHHHHHhccccCCcEEEEcccCChHHHHHHhcCccccccCCcccc-cCChHhhcC---CCeEEe
Confidence            458999999999999999999887543  888988764221             1111000 112445443   349999


Q ss_pred             ecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          390 DEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       390 DE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                      |||+.+.+              .+...||..|+.
T Consensus       229 dei~~l~~--------------~~Q~~Ll~~l~~  248 (368)
T 3dzd_A          229 DEVGELDQ--------------RVQAKLLRVLET  248 (368)
T ss_dssp             ETGGGSCH--------------HHHHHHHHHHHH
T ss_pred             cChhhCCH--------------HHHHHHHHHHHh
Confidence            99999853              566778888864

>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=97.85  E-value=2e-06  Score=78.63  Aligned_cols=30  Identities=23%  Similarity=0.400  Sum_probs=26.7

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+..+..+.|+||+||||||+++.+++...
T Consensus        25 ~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~   54 (381)
T 3rlf_A           25 DIHEGEFVVFVGPSGCGKSTLLRMIAGLET   54 (381)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EECCCCEEEEEcCCCchHHHHHHHHHcCCC
Confidence            456788999999999999999999998764

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.85  E-value=1.5e-05  Score=65.52  Aligned_cols=24  Identities=25%  Similarity=0.283  Sum_probs=19.3

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHH
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      +.-++++||+|+||||++..++..
T Consensus         3 g~i~vi~G~~gsGKTT~ll~~~~~   26 (184)
T 2orw_A            3 GKLTVITGPMYSGKTTELLSFVEI   26 (184)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHH
Confidence            456889999999999998655544

>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=97.85  E-value=6.1e-06  Score=75.23  Aligned_cols=72  Identities=21%  Similarity=0.266  Sum_probs=47.0

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcC----CceEEech-hhhhh---------hccCchHHHHHHHHHHHHhcCCeEE
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAAE----ASFFSLSG-AELYS---------MYVGESEALLRNTFQRARLAAPSII  387 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~~----~~~~~i~~-~~~~~---------~~~g~~~~~~~~~~~~a~~~~~~vl  387 (441)
                      .+++.++++||+||||||+.++++..+.    ..++.+.. .++..         ..++.....+...+..|....|.++
T Consensus       121 ~~~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~~~v~q~~~~~~~~~~~~~La~aL~~~Pdvi  200 (356)
T 3jvv_A          121 VPRGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKKCLVNQREVHRDTLGFSEALRSALREDPDII  200 (356)
T ss_dssp             CSSEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHTTSCCSEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccccceeeeeeccccCCHHHHHHHHhhhCcCEE
Confidence            4566789999999999999999988762    23322221 11100         0112112234557888888899999


Q ss_pred             EEeccc
Q 013506          388 FFDEAD  393 (441)
Q Consensus       388 ~iDE~d  393 (441)
                      ++||+-
T Consensus       201 llDEp~  206 (356)
T 3jvv_A          201 LVGEMR  206 (356)
T ss_dssp             EESCCC
T ss_pred             ecCCCC
Confidence            999984

>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=97.85  E-value=0.00013  Score=67.99  Aligned_cols=73  Identities=16%  Similarity=0.083  Sum_probs=47.7

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhh-------------------hhhhcc-CchHHHHHHHHHHH
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAE-------------------LYSMYV-GESEALLRNTFQRA  379 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~-------------------~~~~~~-g~~~~~~~~~~~~a  379 (441)
                      ++..++++|++|+||||++..+|..+   |..+..++.--                   ++..+. .+....++..+..+
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            35678999999999999999888766   44554443211                   011011 22344456777777


Q ss_pred             HhcCCeEEEEeccccc
Q 013506          380 RLAAPSIIFFDEADVV  395 (441)
Q Consensus       380 ~~~~~~vl~iDE~d~~  395 (441)
                      ....+.++++|.+-.+
T Consensus       179 ~~~~~DvVIIDTaGrl  194 (443)
T 3dm5_A          179 KSKGVDIIIVDTAGRH  194 (443)
T ss_dssp             HHTTCSEEEEECCCCS
T ss_pred             HhCCCCEEEEECCCcc
Confidence            7777889999977543

>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=97.85  E-value=2.2e-05  Score=72.63  Aligned_cols=78  Identities=17%  Similarity=0.116  Sum_probs=48.4

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---------CCceEEechhhhhh--------h-------------ccCc--
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---------EASFFSLSGAELYS--------M-------------YVGE--  367 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---------~~~~~~i~~~~~~~--------~-------------~~g~--  367 (441)
                      |+.++.-++++|||||||||+++.++-..         +..++.++..+.+.        .             ++..  
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            77788889999999999999999776332         23355554432110        0             0000  


Q ss_pred             -h---HHHHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          368 -S---EALLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       368 -~---~~~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                       .   ...+..+...+....+.+|++|++-.++.
T Consensus       254 ~~~~~~~~l~~~~~~l~~~~~~llVIDs~t~~~~  287 (400)
T 3lda_A          254 NADHQLRLLDAAAQMMSESRFSLIVVDSVMALYR  287 (400)
T ss_dssp             SHHHHHHHHHHHHHHHHHSCEEEEEEETGGGGCC
T ss_pred             ChHHHHHHHHHHHHHHHhcCCceEEecchhhhCc
Confidence             1   12223333444456788999999998875

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=97.84  E-value=3.2e-05  Score=68.79  Aligned_cols=32  Identities=22%  Similarity=0.360  Sum_probs=27.6

Q ss_pred             hcCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          318 RLGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       318 ~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      .+.+.++..+.++||+|+||||++++++..+.
T Consensus        74 sl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~~  105 (306)
T 3nh6_A           74 SFTVMPGQTLALVGPSGAGKSTILRLLFRFYD  105 (306)
T ss_dssp             EEEECTTCEEEEESSSCHHHHHHHHHHTTSSC
T ss_pred             eEEEcCCCEEEEECCCCchHHHHHHHHHcCCC
Confidence            34567788899999999999999999998773

>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=97.83  E-value=1.1e-05  Score=67.10  Aligned_cols=40  Identities=25%  Similarity=0.284  Sum_probs=32.4

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCc
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~   88 (441)
                      ++.++..++|+||||+||||+++.+++.++...+.++..+
T Consensus         5 ~i~~g~~i~l~G~~GsGKSTl~~~La~~~~~g~i~i~~d~   44 (191)
T 1zp6_A            5 DDLGGNILLLSGHPGSGKSTIAEALANLPGVPKVHFHSDD   44 (191)
T ss_dssp             -CCTTEEEEEEECTTSCHHHHHHHHHTCSSSCEEEECTTH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHhccCCCeEEEcccc
Confidence            3567788999999999999999999988766666666543

>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=97.83  E-value=2.6e-05  Score=71.32  Aligned_cols=31  Identities=32%  Similarity=0.487  Sum_probs=26.5

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +.+.++.-+.|+||+||||||+.+++|....
T Consensus        24 l~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~   54 (381)
T 3rlf_A           24 LDIHEGEFVVFVGPSGCGKSTLLRMIAGLET   54 (381)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEECCCCEEEEEcCCCchHHHHHHHHHcCCC
Confidence            3456677889999999999999999998873

>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=97.83  E-value=4.4e-05  Score=69.26  Aligned_cols=30  Identities=30%  Similarity=0.373  Sum_probs=26.6

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+.++..+.|.||+||||||+++.+++...
T Consensus        26 ~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~   55 (359)
T 3fvq_A           26 SLDPGEILFIIGASGCGKTTLLRCLAGFEQ   55 (359)
T ss_dssp             EECTTCEEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             EEcCCCEEEEECCCCchHHHHHHHHhcCCC
Confidence            456788999999999999999999998763

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=97.82  E-value=3.4e-05  Score=66.21  Aligned_cols=30  Identities=23%  Similarity=0.306  Sum_probs=26.3

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++..+.++||+|+||||+.++++...
T Consensus        26 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           26 FSIPEGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             EEECTTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            355677789999999999999999999876

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.82  E-value=5.6e-05  Score=65.85  Aligned_cols=28  Identities=21%  Similarity=0.410  Sum_probs=25.3

Q ss_pred             CCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           50 LKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        50 ~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.++..++|+||+|+||||+++.+++.+
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            4678899999999999999999999875

>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=97.82  E-value=0.00022  Score=63.34  Aligned_cols=97  Identities=12%  Similarity=0.067  Sum_probs=55.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc----CCceEEechhh-------hhhh---------ccCchHHHHHHHHHHHHhc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGAE-------LYSM---------YVGESEALLRNTFQRARLA  382 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~----~~~~~~i~~~~-------~~~~---------~~g~~~~~~~~~~~~a~~~  382 (441)
                      ++..++|+||+|+||||++..+|..+    |..+..++..-       .+..         +.......++..+..+  .
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~~~~~l~~al~~~--~  181 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDTYRIAAVEQLKTYAELLQAPLEVCYTKEEFQQAKELF--S  181 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCCSSTTHHHHHHHHHTTTTCCCCBCSSHHHHHHHHHHG--G
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCcccchHHHHHHHHHHhcCCCeEecCCHHHHHHHHHHh--c
Confidence            45678999999999999999998766    33444333211       0110         0112233455555543  5


Q ss_pred             CCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEE
Q 013506          383 APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYP  433 (441)
Q Consensus       383 ~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~  433 (441)
                      .+.++++|-.-..            ......+..+.+.+.......+++|+
T Consensus       182 ~~dlvIiDT~G~~------------~~~~~~~~el~~~l~~~~~~~~~lVl  220 (296)
T 2px0_A          182 EYDHVFVDTAGRN------------FKDPQYIDELKETIPFESSIQSFLVL  220 (296)
T ss_dssp             GSSEEEEECCCCC------------TTSHHHHHHHHHHSCCCTTEEEEEEE
T ss_pred             CCCEEEEeCCCCC------------hhhHHHHHHHHHHHhhcCCCeEEEEE
Confidence            6789999922211            11235566676666543344456666

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=97.81  E-value=2.7e-05  Score=66.78  Aligned_cols=30  Identities=23%  Similarity=0.299  Sum_probs=26.2

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++..+.++||+|+||||+.++++...
T Consensus        26 l~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           26 LNIKEGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             EEECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            355677789999999999999999999876

>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=97.81  E-value=1.4e-05  Score=66.44  Aligned_cols=40  Identities=28%  Similarity=0.287  Sum_probs=32.5

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhh
Q 013506          321 ISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (441)
Q Consensus       321 ~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~  360 (441)
                      +.++..++++|||||||||+++.++...+...+.++..++
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            3456678999999999999999999987777777766554

>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=97.80  E-value=5.9e-05  Score=68.98  Aligned_cols=82  Identities=28%  Similarity=0.385  Sum_probs=50.4

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccc----cc--------hHHHHHHHHHHHHhhhh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHV----GE--------SEKALREAFSQASSHAL  113 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~----~~--------~~~~~~~~~~~~~~~~~  113 (441)
                      |++++.-++|+||||+|||+++..++...   +.++++++.........    +.        .......++........
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            46778899999999999999999887654   56777777654221100    00        00011122222222222


Q ss_pred             cCCCeEEEEcccccccc
Q 013506          114 SGKPSVVFIDEIDALCP  130 (441)
Q Consensus       114 ~~~~~il~iDe~~~l~~  130 (441)
                      ...+++++||.+..+.+
T Consensus       150 ~~~~~lVVIDsl~~l~~  166 (366)
T 1xp8_A          150 SGAIDVVVVDSVAALTP  166 (366)
T ss_dssp             TTCCSEEEEECTTTCCC
T ss_pred             cCCCCEEEEeChHHhcc
Confidence            34578999999998875

>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=97.80  E-value=1.8e-05  Score=64.78  Aligned_cols=34  Identities=21%  Similarity=0.303  Sum_probs=29.4

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP   86 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~   86 (441)
                      +..|+|+|+||+||||+++.++..++.+++.++.
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l~~~~~~~~~   36 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGV   36 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCCeEEecc
Confidence            3579999999999999999999999887776544

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=97.80  E-value=3.1e-05  Score=65.92  Aligned_cols=30  Identities=17%  Similarity=0.123  Sum_probs=25.7

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      .+.++..+.++||+|+||||+.++++....
T Consensus        26 ~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~~   55 (224)
T 2pcj_A           26 SVKKGEFVSIIGASGSGKSTLLYILGLLDA   55 (224)
T ss_dssp             EEETTCEEEEEECTTSCHHHHHHHHTTSSC
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            445677789999999999999999998773

>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=97.80  E-value=9.6e-05  Score=68.83  Aligned_cols=73  Identities=18%  Similarity=0.019  Sum_probs=44.6

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhh----------hhh------ccC----chHHHHHHHHHHH
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAEL----------YSM------YVG----ESEALLRNTFQRA  379 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~----------~~~------~~g----~~~~~~~~~~~~a  379 (441)
                      ++..++++||+|+||||++..+|..+   +..+..+...-+          +..      |..    +........+..+
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            35677899999999999999998766   555544432100          000      111    1122234455555


Q ss_pred             HhcCCeEEEEeccccc
Q 013506          380 RLAAPSIIFFDEADVV  395 (441)
Q Consensus       380 ~~~~~~vl~iDE~d~~  395 (441)
                      ....+.++++|.+-.+
T Consensus       176 ~~~~~DvvIIDTaGr~  191 (433)
T 3kl4_A          176 VKNKMDIIIVDTAGRH  191 (433)
T ss_dssp             TTTTCSEEEEEECCCS
T ss_pred             HhcCCCEEEEECCCCc
Confidence            5557889999988543

>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=97.79  E-value=2.8e-05  Score=70.84  Aligned_cols=82  Identities=27%  Similarity=0.424  Sum_probs=50.0

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCcccccc----ccc--------hHHHHHHHHHHHHhhhh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAH----VGE--------SEKALREAFSQASSHAL  113 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~----~~~--------~~~~~~~~~~~~~~~~~  113 (441)
                      |++++..++|+||||+|||+++..++...   +..+++++........    .+.        ........+..+.....
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            46678899999999999999999887654   4567777665422110    000        00011122222222222


Q ss_pred             cCCCeEEEEcccccccc
Q 013506          114 SGKPSVVFIDEIDALCP  130 (441)
Q Consensus       114 ~~~~~il~iDe~~~l~~  130 (441)
                      ...+.+++||++..+.+
T Consensus       137 ~~~~~lIVIDsl~~l~~  153 (349)
T 2zr9_A          137 SGALDIIVIDSVAALVP  153 (349)
T ss_dssp             TTCCSEEEEECGGGCCC
T ss_pred             cCCCCEEEEcChHhhcc
Confidence            34589999999998874

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.79  E-value=7.1e-05  Score=64.81  Aligned_cols=38  Identities=29%  Similarity=0.383  Sum_probs=29.2

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcc
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISP   86 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~   86 (441)
                      |++++..++|+||||+|||+++..++...   +..+++++.
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            56788899999999999999988776543   445666544

>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=97.79  E-value=3.7e-05  Score=69.75  Aligned_cols=31  Identities=26%  Similarity=0.261  Sum_probs=27.1

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.+.++..+.|+||+|+|||||++++++...
T Consensus        49 l~i~~Gei~~IiGpnGaGKSTLlr~i~GL~~   79 (366)
T 3tui_C           49 LHVPAGQIYGVIGASGAGKSTLIRCVNLLER   79 (366)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEcCCCEEEEEcCCCchHHHHHHHHhcCCC
Confidence            3467889999999999999999999998763

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.78  E-value=8.5e-05  Score=64.62  Aligned_cols=39  Identities=21%  Similarity=0.346  Sum_probs=31.5

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhh
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAEL  360 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~  360 (441)
                      ..+..++|+|+|||||||+|+.++..++...+.++...+
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            345678999999999999999999999866666666544

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=97.77  E-value=4.4e-06  Score=74.34  Aligned_cols=30  Identities=30%  Similarity=0.488  Sum_probs=26.5

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .++++..+.|+||+|+|||||++.+++.+.
T Consensus        76 ~i~~Ge~vaivG~sGsGKSTLl~ll~gl~~  105 (306)
T 3nh6_A           76 TVMPGQTLALVGPSGAGKSTILRLLFRFYD  105 (306)
T ss_dssp             EECTTCEEEEESSSCHHHHHHHHHHTTSSC
T ss_pred             EEcCCCEEEEECCCCchHHHHHHHHHcCCC
Confidence            456788999999999999999999998763

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.77  E-value=1.7e-05  Score=65.51  Aligned_cols=33  Identities=18%  Similarity=0.282  Sum_probs=29.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      +..++|+|++||||||+++.+|+.++.+++..+
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            347899999999999999999999999887654

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=97.77  E-value=5.2e-05  Score=65.50  Aligned_cols=30  Identities=23%  Similarity=0.148  Sum_probs=26.0

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      .+.++..+.++||+|+||||+.++++..+.
T Consensus        31 ~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   60 (247)
T 2ff7_A           31 SIKQGEVIGIVGRSGSGKSTLTKLIQRFYI   60 (247)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            455677889999999999999999998873

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.76  E-value=0.00019  Score=62.02  Aligned_cols=28  Identities=32%  Similarity=0.446  Sum_probs=23.5

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      +++++..++++||||+||||++..++..
T Consensus        19 Gl~~G~~~~i~G~~GsGKTtl~~~~~~~   46 (247)
T 2dr3_A           19 GIPERNVVLLSGGPGTGKTIFSQQFLWN   46 (247)
T ss_dssp             SEETTCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            6677788899999999999998776543

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=97.75  E-value=6.6e-05  Score=65.35  Aligned_cols=31  Identities=19%  Similarity=0.324  Sum_probs=26.6

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +.+.++..+.++||||+|||||.++++....
T Consensus        45 l~i~~Gei~~liG~NGsGKSTLlk~l~Gl~~   75 (263)
T 2olj_A           45 VHIREGEVVVVIGPSGSGKSTFLRCLNLLED   75 (263)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEcCCCEEEEEcCCCCcHHHHHHHHHcCCC
Confidence            3456777889999999999999999998773

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=97.75  E-value=3.7e-05  Score=69.74  Aligned_cols=30  Identities=30%  Similarity=0.292  Sum_probs=25.7

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      .+.++..+.++||+||||||+.+++|....
T Consensus        37 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~   66 (355)
T 1z47_A           37 QIREGEMVGLLGPSGSGKTTILRLIAGLER   66 (355)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            445667789999999999999999998773

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.74  E-value=1.9e-05  Score=65.11  Aligned_cols=32  Identities=25%  Similarity=0.215  Sum_probs=28.4

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v   84 (441)
                      +..|+|+|+|||||||+++.+++.++.+++..
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            46799999999999999999999998877643

>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=97.74  E-value=4.7e-05  Score=69.23  Aligned_cols=29  Identities=31%  Similarity=0.316  Sum_probs=25.6

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .+.++..+.++||+||||||+.+++|...
T Consensus        25 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           25 EVKDGEFVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEcCCCEEEEEcCCCchHHHHHHHHHCCC
Confidence            45667778999999999999999999877

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=97.73  E-value=6.3e-06  Score=75.35  Aligned_cols=31  Identities=35%  Similarity=0.449  Sum_probs=26.9

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.+..+..+.|.||+||||||+++.+++...
T Consensus        32 l~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~   62 (372)
T 1v43_A           32 LTIKDGEFLVLLGPSGCGKTTTLRMIAGLEE   62 (372)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEECCCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            3456788999999999999999999998763

>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=97.73  E-value=9e-06  Score=73.69  Aligned_cols=30  Identities=20%  Similarity=0.317  Sum_probs=26.6

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+.++..+.|.||+||||||+++.+++...
T Consensus        22 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~   51 (348)
T 3d31_A           22 KVESGEYFVILGPTGAGKTLFLELIAGFHV   51 (348)
T ss_dssp             EECTTCEEEEECCCTHHHHHHHHHHHTSSC
T ss_pred             EEcCCCEEEEECCCCccHHHHHHHHHcCCC
Confidence            456788999999999999999999998763

>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=97.72  E-value=5.8e-06  Score=75.21  Aligned_cols=30  Identities=27%  Similarity=0.289  Sum_probs=26.5

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+..+..+.|.||+||||||+++.+++...
T Consensus        25 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~   54 (359)
T 2yyz_A           25 EVKDGEFVALLGPSGCGKTTTLLMLAGIYK   54 (359)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             EEcCCCEEEEEcCCCchHHHHHHHHHCCCC
Confidence            456788999999999999999999998763

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=97.72  E-value=7e-05  Score=64.91  Aligned_cols=29  Identities=21%  Similarity=0.237  Sum_probs=25.4

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .+.++..+.++||||+||||+.++++...
T Consensus        27 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           27 DLNKGDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EEETTCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44567788999999999999999999876

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.72  E-value=0.00011  Score=65.13  Aligned_cols=35  Identities=26%  Similarity=0.403  Sum_probs=28.0

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCceEEech
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSG  357 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~  357 (441)
                      .+..++|+|||||||||+|+.++..++...+.++.
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~~~~~~~Is~   66 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDN   66 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCCeEEEec
Confidence            34567899999999999999999988545555654

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=97.72  E-value=0.00011  Score=63.64  Aligned_cols=30  Identities=23%  Similarity=0.289  Sum_probs=26.5

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+.++..+.|+||+|+||||+++.+++.+.
T Consensus        27 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   56 (253)
T 2nq2_C           27 DLNKGDILAVLGQNGCGKSTLLDLLLGIHR   56 (253)
T ss_dssp             EEETTCEEEEECCSSSSHHHHHHHHTTSSC
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            456788999999999999999999998764

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.72  E-value=2.1e-05  Score=64.67  Aligned_cols=30  Identities=17%  Similarity=0.079  Sum_probs=21.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc---CCceEEe
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA---EASFFSL  355 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i  355 (441)
                      -.+++||+|+||||++..++..+   +..++.+
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            46899999999999985554433   5554443

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=97.72  E-value=5.2e-06  Score=75.35  Aligned_cols=30  Identities=27%  Similarity=0.411  Sum_probs=26.4

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+.++..+.|.||+||||||+++.+++...
T Consensus        37 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~   66 (355)
T 1z47_A           37 QIREGEMVGLLGPSGSGKTTILRLIAGLER   66 (355)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            456788999999999999999999998764

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=97.71  E-value=6.2e-06  Score=75.12  Aligned_cols=30  Identities=27%  Similarity=0.411  Sum_probs=26.6

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+..+..+.|.||+||||||+++.+++...
T Consensus        25 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~   54 (362)
T 2it1_A           25 KIKDGEFMALLGPSGSGKSTLLYTIAGIYK   54 (362)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EECCCCEEEEECCCCchHHHHHHHHhcCCC
Confidence            456788999999999999999999998764

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=97.71  E-value=4.9e-05  Score=69.19  Aligned_cols=30  Identities=30%  Similarity=0.257  Sum_probs=25.9

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      .+.++..+.++||+||||||+.+++|....
T Consensus        25 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~   54 (362)
T 2it1_A           25 KIKDGEFMALLGPSGSGKSTLLYTIAGIYK   54 (362)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EECCCCEEEEECCCCchHHHHHHHHhcCCC
Confidence            455677789999999999999999998873

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=97.71  E-value=6.7e-05  Score=64.54  Aligned_cols=29  Identities=28%  Similarity=0.193  Sum_probs=25.4

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .+.++..+.++||+|+||||+.++++...
T Consensus        28 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           28 KVPRGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44567788999999999999999999876

>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=97.70  E-value=3.4e-05  Score=64.06  Aligned_cols=33  Identities=30%  Similarity=0.412  Sum_probs=28.5

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      ..+..|+|+|+||+||||+++.++..++.+++.
T Consensus         3 ~~~~~I~l~G~~GsGKST~~~~L~~~l~~~~i~   35 (193)
T 2rhm_A            3 QTPALIIVTGHPATGKTTLSQALATGLRLPLLS   35 (193)
T ss_dssp             SCCEEEEEEESTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHcCCeEec
Confidence            456789999999999999999999999876554

>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=97.70  E-value=0.00015  Score=66.08  Aligned_cols=41  Identities=20%  Similarity=0.246  Sum_probs=32.9

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC---------CcEEEEccCc
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---------AHLTVISPHS   88 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~---------~~~~~v~~~~   88 (441)
                      .+++++.-+.|+||||+|||++++.++....         ..+++++...
T Consensus       126 ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~  175 (349)
T 1pzn_A          126 GGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTEN  175 (349)
T ss_dssp             SSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSS
T ss_pred             CCCCCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCC
Confidence            3677889999999999999999999998762         3456776644

>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=97.70  E-value=0.00017  Score=66.74  Aligned_cols=40  Identities=23%  Similarity=0.321  Sum_probs=30.7

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh---------CCcEEEEccCc
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---------GAHLTVISPHS   88 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---------~~~~~~v~~~~   88 (441)
                      |+.++..+.|+||||||||++++.++-..         +...++++...
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            57788999999999999999999776332         23467776654

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=97.70  E-value=4.1e-05  Score=65.74  Aligned_cols=29  Identities=21%  Similarity=0.338  Sum_probs=25.0

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      .+.+ ..+.++||||+||||+.++++....
T Consensus        21 ~i~~-e~~~liG~nGsGKSTLl~~l~Gl~~   49 (240)
T 2onk_A           21 EMGR-DYCVLLGPTGAGKSVFLELIAGIVK   49 (240)
T ss_dssp             EECS-SEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EECC-EEEEEECCCCCCHHHHHHHHhCCCC
Confidence            4456 6789999999999999999998773

>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=97.70  E-value=0.0004  Score=74.94  Aligned_cols=169  Identities=17%  Similarity=0.201  Sum_probs=95.7

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh-------CCcEEEEccCcc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC-------GAHLTVISPHSV   89 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l-------~~~~~~v~~~~~   89 (441)
                      ....++|.++.++.|.+.+...           -...+.+.|+|+.|+|||+||+.++...       ...++.++....
T Consensus       122 ~~~~~vgR~~~~~~l~~~l~~~-----------~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~  190 (1249)
T 3sfz_A          122 RPVIFVTRKKLVHAIQQKLWKL-----------NGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQ  190 (1249)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHTT-----------TTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSC
T ss_pred             CCceeccHHHHHHHHHHHHhhc-----------cCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCc
Confidence            3467999999999999987431           0234678999999999999999887542       223444543331


Q ss_pred             ccc---------------------cccchHHHHHHHHHHHHhhhhc--CCCeEEEEccccccccCCCCCchhhHHHHHHH
Q 013506           90 HKA---------------------HVGESEKALREAFSQASSHALS--GKPSVVFIDEIDALCPRRDHRREQDVRIASQL  146 (441)
Q Consensus        90 ~~~---------------------~~~~~~~~~~~~~~~~~~~~~~--~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l  146 (441)
                      ...                     ........+...+.    ..+.  .++.+|++|+++..            .   . 
T Consensus       191 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~----~~l~~~~~~~LlvlDd~~~~------------~---~-  250 (1249)
T 3sfz_A          191 DKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLR----VLMLRKHPRSLLILDDVWDP------------W---V-  250 (1249)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHH----HHTSSSSCSCEEEEESCCCH------------H---H-
T ss_pred             CchHHHHHHHHHHHHhhhhcccccCCCCCHHHHHHHHH----HHHhccCCCEEEEEecCCCH------------H---H-
Confidence            100                     00001111111111    1112  23789999998742            1   1 


Q ss_pred             HHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecC-CCHHHHHHHHHHHhccCCCCCcccHHHHHHHC
Q 013506          147 FTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTV-PTAEERFEILKLYTKKVPLDANVDLEAIATSC  225 (441)
Q Consensus       147 ~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~-p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~  225 (441)
                         +....      ++..||.||+.........    .....+.++. .+.++-.+++.................+++.+
T Consensus       251 ---~~~~~------~~~~ilvTtR~~~~~~~~~----~~~~~~~~~~~l~~~~a~~l~~~~~~~~~~~~~~~~~~i~~~~  317 (1249)
T 3sfz_A          251 ---LKAFD------NQCQILLTTRDKSVTDSVM----GPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAEAHSIIKEC  317 (1249)
T ss_dssp             ---HTTTC------SSCEEEEEESSTTTTTTCC----SCBCCEECCSSCCHHHHHHHHHHHHTSCSTTCCTHHHHHHHHT
T ss_pred             ---HHhhc------CCCEEEEEcCCHHHHHhhc----CCceEEEecCCCCHHHHHHHHHHhhCCChhhCcHHHHHHHHHh
Confidence               11111      1346666666543221111    1223577775 88888888888776544333334477888888


Q ss_pred             CCCC
Q 013506          226 NGYV  229 (441)
Q Consensus       226 ~g~~  229 (441)
                      .|..
T Consensus       318 ~glP  321 (1249)
T 3sfz_A          318 KGSP  321 (1249)
T ss_dssp             TTCH
T ss_pred             CCCH
Confidence            8763

>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=97.69  E-value=0.00011  Score=65.07  Aligned_cols=29  Identities=24%  Similarity=0.211  Sum_probs=24.8

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ++.++.-++++||||+||||++..++..+
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            56677788999999999999999998644

>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=97.69  E-value=0.00012  Score=62.81  Aligned_cols=33  Identities=21%  Similarity=0.208  Sum_probs=27.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEechh
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA  358 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~  358 (441)
                      +++++||+|+|||.++..++...+..++.+..+
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            589999999999999999988887776666554

>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=97.69  E-value=2.7e-05  Score=64.21  Aligned_cols=34  Identities=24%  Similarity=0.348  Sum_probs=28.7

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHH-cCCceEEec
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHA-AEASFFSLS  356 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~-~~~~~~~i~  356 (441)
                      .+..++|+|+|||||||+++.++.. ++.+++..+
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~l~g~~~id~d   43 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAELDGFQHLEVG   43 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHSTTEEEEEHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhcCCCEEeeHH
Confidence            3557899999999999999999999 687776644

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=97.69  E-value=8.5e-06  Score=75.02  Aligned_cols=30  Identities=27%  Similarity=0.419  Sum_probs=26.4

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.+.++..+.|.||+||||||+++.+++..
T Consensus        42 l~i~~Ge~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           42 FSISPGQRVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             EEECTTCEEEEEESTTSSHHHHHHHHHTCS
T ss_pred             EEEcCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            346788999999999999999999999754

>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=97.69  E-value=2.7e-05  Score=64.72  Aligned_cols=34  Identities=26%  Similarity=0.314  Sum_probs=28.9

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      .+..++|.|+|||||||+++.++..++..++..+
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~~l~~~~i~~D   37 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALATGLRLPLLSKD   37 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHcCCeEecHH
Confidence            3456889999999999999999999988776644

>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=97.68  E-value=8.3e-05  Score=65.52  Aligned_cols=81  Identities=22%  Similarity=0.242  Sum_probs=49.1

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh-----CCcEEEEccCcccccc----c-----------cchHHHH-HHHHHH
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC-----GAHLTVISPHSVHKAH----V-----------GESEKAL-REAFSQ  107 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l-----~~~~~~v~~~~~~~~~----~-----------~~~~~~~-~~~~~~  107 (441)
                      |++++ .++++||||+|||+++-.++...     +..+++++........    .           ......+ ..+...
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            46677 79999999999999987765443     5567788765432110    0           0011111 111111


Q ss_pred             HHhhhhcCCCeEEEEccccccccC
Q 013506          108 ASSHALSGKPSVVFIDEIDALCPR  131 (441)
Q Consensus       108 ~~~~~~~~~~~il~iDe~~~l~~~  131 (441)
                      . .......|.+++||-+..+.+.
T Consensus       104 l-~~i~~~~~~lvVIDSI~aL~~~  126 (333)
T 3io5_A          104 L-DAIERGEKVVVFIDSLGNLASK  126 (333)
T ss_dssp             H-HTCCTTCCEEEEEECSTTCBCC
T ss_pred             H-HHhhccCceEEEEecccccccc
Confidence            1 1123456899999999998754

>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=97.68  E-value=2.6e-05  Score=64.29  Aligned_cols=32  Identities=34%  Similarity=0.478  Sum_probs=27.1

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHH-hCCcEE
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVRE-CGAHLT   82 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~-l~~~~~   82 (441)
                      ..+..++|+|+|||||||+++.++.. ++.+++
T Consensus         8 ~~~~~I~l~G~~GsGKSTv~~~La~~l~g~~~i   40 (184)
T 1y63_A            8 PKGINILITGTPGTGKTSMAEMIAAELDGFQHL   40 (184)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHSTTEEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhcCCCEEe
Confidence            44678999999999999999999998 665544

>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=97.68  E-value=0.00015  Score=64.05  Aligned_cols=29  Identities=21%  Similarity=0.200  Sum_probs=25.5

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +++.+..++|+||||+||||++..++..+
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            56778899999999999999999988654

>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=5.5e-05  Score=68.93  Aligned_cols=79  Identities=27%  Similarity=0.412  Sum_probs=50.2

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCcccccc---------------ccchHHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAH---------------VGESEKALREAFSQASS  110 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~---------------~~~~~~~~~~~~~~~~~  110 (441)
                      |++++..++|+|+||+|||+++..++...   +..+++++........               .......+........ 
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            47788899999999999999999887654   5677777764322110               0001122222222221 


Q ss_pred             hhhcCCCeEEEEcccccccc
Q 013506          111 HALSGKPSVVFIDEIDALCP  130 (441)
Q Consensus       111 ~~~~~~~~il~iDe~~~l~~  130 (441)
                        ....+.+++||.+..+.+
T Consensus       138 --~~~~~~lVVIDsl~~l~~  155 (356)
T 1u94_A          138 --RSGAVDVIVVDSVAALTP  155 (356)
T ss_dssp             --HHTCCSEEEEECGGGCCC
T ss_pred             --hccCCCEEEEcCHHHhcc
Confidence              124578999999998864

>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=97.67  E-value=2.1e-05  Score=71.20  Aligned_cols=73  Identities=15%  Similarity=0.136  Sum_probs=49.8

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCC--ceEEechhhhhh-----h---ccCchHHHHHHHHHHHHhcCCeEEEEec
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEA--SFFSLSGAELYS-----M---YVGESEALLRNTFQRARLAAPSIIFFDE  391 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~~~--~~~~i~~~~~~~-----~---~~g~~~~~~~~~~~~a~~~~~~vl~iDE  391 (441)
                      .++..++++||+|+||||++++++..+..  ..+.++....+.     .   ++.......+..+..|....|.++++||
T Consensus       169 ~~g~~v~i~G~~GsGKTTll~~l~g~~~~~~g~i~i~~~~e~~~~~~~~~i~~~~ggg~~~r~~la~aL~~~p~ilildE  248 (330)
T 2pt7_A          169 AIGKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMRPDRIILGE  248 (330)
T ss_dssp             HHTCCEEEEESTTSCHHHHHHHGGGGSCTTSCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTSCCSEEEECC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCcCCCcEEEECCeeccccccchhEEEEEeCCChhHHHHHHHHhhhCCCEEEEcC
Confidence            45667999999999999999999998743  244444332111     0   2211223455677778778899999999


Q ss_pred             ccc
Q 013506          392 ADV  394 (441)
Q Consensus       392 ~d~  394 (441)
                      .-.
T Consensus       249 ~~~  251 (330)
T 2pt7_A          249 LRS  251 (330)
T ss_dssp             CCS
T ss_pred             CCh
Confidence            764

>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=97.67  E-value=0.00096  Score=63.95  Aligned_cols=74  Identities=14%  Similarity=0.241  Sum_probs=50.4

Q ss_pred             eEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCC--ccCHHHhhCCccceEEEecCCC
Q 013506          118 SVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD--AIDPALRRSGRFDAEVEVTVPT  195 (441)
Q Consensus       118 ~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~--~l~~~l~~~~r~~~~i~~~~p~  195 (441)
                      .+++|||++.++...      ..+....+..+......     ..+.+|.++.++.  .++..++.  .|...+.+...+
T Consensus       345 ivvVIDE~~~L~~~~------~~~~~~~L~~Iar~GRa-----~GIhLIlaTQRPs~d~I~~~Ira--n~~~RI~lrv~s  411 (574)
T 2iut_A          345 IVVVVDEFADMMMIV------GKKVEELIARIAQKARA-----AGIHLILATQRPSVDVITGLIKA--NIPTRIAFQVSS  411 (574)
T ss_dssp             EEEEESCCTTHHHHT------CHHHHHHHHHHHHHCTT-----TTEEEEEEESCCCTTTSCHHHHH--TCCEEEEECCSC
T ss_pred             EEEEEeCHHHHhhhh------hHHHHHHHHHHHHHHhh-----CCeEEEEEecCcccccccHHHHh--hhccEEEEEcCC
Confidence            589999999876432      11233333333332221     1478888888876  78888888  788889999999


Q ss_pred             HHHHHHHHH
Q 013506          196 AEERFEILK  204 (441)
Q Consensus       196 ~~~~~~il~  204 (441)
                      ..+...++.
T Consensus       412 ~~Dsr~ILd  420 (574)
T 2iut_A          412 KIDSRTILD  420 (574)
T ss_dssp             HHHHHHHHS
T ss_pred             HHHHHHhcC
Confidence            888877764

>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=97.66  E-value=8.2e-05  Score=70.85  Aligned_cols=24  Identities=29%  Similarity=0.617  Sum_probs=21.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      .+++|.|++|||||+++..++..+
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            389999999999999999988766

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.66  E-value=3.1e-05  Score=63.04  Aligned_cols=30  Identities=30%  Similarity=0.607  Sum_probs=26.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      ..+.|+|||||||||+++.+|..++..++.
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            458999999999999999999999876554

>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=97.66  E-value=5.5e-05  Score=73.76  Aligned_cols=32  Identities=34%  Similarity=0.535  Sum_probs=25.0

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVI   84 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v   84 (441)
                      ...++++||||||||+++..++..+   +..++.+
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            4679999999999999999987754   4444443

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=97.65  E-value=3.1e-05  Score=69.00  Aligned_cols=36  Identities=36%  Similarity=0.504  Sum_probs=31.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhh
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~  361 (441)
                      .++++||+||||||+++.+|..++..++..+....+
T Consensus         7 ~i~i~GptGsGKTtla~~La~~l~~~iis~Ds~qvy   42 (323)
T 3crm_A            7 AIFLMGPTAAGKTDLAMALADALPCELISVDSALIY   42 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSCEEEEEECTTTTB
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEEeccchhhh
Confidence            578999999999999999999999888888765444

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.65  E-value=6e-05  Score=66.78  Aligned_cols=39  Identities=38%  Similarity=0.600  Sum_probs=31.9

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcc
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~   89 (441)
                      ..+..++|+||||+||||+++.++..++...+.+++..+
T Consensus        31 ~~~~livl~G~sGsGKSTla~~L~~~~~~~~~~Is~D~~   69 (287)
T 1gvn_B           31 ESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTF   69 (287)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhCCCeEEEechHh
Confidence            346789999999999999999999988656677776444

>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=97.65  E-value=6.2e-05  Score=68.21  Aligned_cols=31  Identities=23%  Similarity=0.241  Sum_probs=26.4

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +.+.++..+.++||+||||||+.+++|....
T Consensus        21 l~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~   51 (348)
T 3d31_A           21 LKVESGEYFVILGPTGAGKTLFLELIAGFHV   51 (348)
T ss_dssp             EEECTTCEEEEECCCTHHHHHHHHHHHTSSC
T ss_pred             EEEcCCCEEEEECCCCccHHHHHHHHHcCCC
Confidence            3456677889999999999999999998773

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=97.65  E-value=0.00017  Score=62.24  Aligned_cols=30  Identities=20%  Similarity=0.242  Sum_probs=26.2

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++..+.++||+|+||||+.++++...
T Consensus        23 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           23 FEAQPNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEECTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            345677789999999999999999999876

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=97.64  E-value=0.00027  Score=61.52  Aligned_cols=29  Identities=34%  Similarity=0.642  Sum_probs=26.0

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.+. +..+.|+||+|+||||+++.+++.+
T Consensus        26 l~i~-Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           26 LEVN-GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EEEC-SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEC-CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            3567 8899999999999999999999876

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.64  E-value=3.6e-05  Score=62.68  Aligned_cols=30  Identities=27%  Similarity=0.576  Sum_probs=26.0

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      +..+.|+||+||||||+++.+++.++..++
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            456999999999999999999999886443

>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=97.63  E-value=0.0011  Score=54.23  Aligned_cols=113  Identities=12%  Similarity=0.175  Sum_probs=65.8

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCc---------ccccc-----------c--c----chHHHHHH
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHS---------VHKAH-----------V--G----ESEKALRE  103 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~---------~~~~~-----------~--~----~~~~~~~~  103 (441)
                      ...+++++++|.||||+|-.++-+.   +..+..+....         +....           .  .    ........
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            4579999999999999998876543   55665552211         11111           0  0    01234455


Q ss_pred             HHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhh
Q 013506          104 AFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRR  181 (441)
Q Consensus       104 ~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~  181 (441)
                      .+..+......++.++|++||+....+-+.-       -...++.++.....      +.-+|.|.+.+   ++.+..
T Consensus       108 ~l~~a~~~l~~~~yDlvILDEi~~al~~g~l-------~~~ev~~~l~~Rp~------~~~vIlTGr~a---p~~l~e  169 (196)
T 1g5t_A          108 VWQHGKRMLADPLLDMVVLDELTYMVAYDYL-------PLEEVISALNARPG------HQTVIITGRGC---HRDILD  169 (196)
T ss_dssp             HHHHHHHHTTCTTCSEEEEETHHHHHHTTSS-------CHHHHHHHHHTSCT------TCEEEEECSSC---CHHHHH
T ss_pred             HHHHHHHHHhcCCCCEEEEeCCCccccCCCC-------CHHHHHHHHHhCcC------CCEEEEECCCC---cHHHHH
Confidence            5666666666677899999999764332211       12345666654322      35666776653   444444

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=97.63  E-value=0.00019  Score=62.81  Aligned_cols=31  Identities=26%  Similarity=0.380  Sum_probs=26.8

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +.+.++..+.++||+|+|||||.++++..+.
T Consensus        40 l~i~~Ge~~~i~G~nGsGKSTLlk~l~Gl~~   70 (271)
T 2ixe_A           40 FTLYPGKVTALVGPNGSGKSTVAALLQNLYQ   70 (271)
T ss_dssp             EEECTTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            4566777899999999999999999998763

>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=97.63  E-value=3.5e-05  Score=70.96  Aligned_cols=75  Identities=19%  Similarity=0.278  Sum_probs=47.0

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC----CceEEechh-hhh-h---hccCc-----hHHHHHHHHHHHHhcCC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE----ASFFSLSGA-ELY-S---MYVGE-----SEALLRNTFQRARLAAP  384 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~----~~~~~i~~~-~~~-~---~~~g~-----~~~~~~~~~~~a~~~~~  384 (441)
                      +...++..++++||+|+||||++++++..+.    ..++.+... ++. .   .|+.+     ....+...+..+....|
T Consensus       131 l~~~~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~~~e~~~~~~~~~v~Q~~~g~~~~~~~~~l~~~L~~~p  210 (372)
T 2ewv_A          131 LCHRKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKKSIVNQREVGEDTKSFADALRAALREDP  210 (372)
T ss_dssp             HTTSSSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCSHHHHHHHTTSCC
T ss_pred             HhhcCCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecccHhhhhccCceEEEeeecCCCHHHHHHHHHHHhhhCc
Confidence            3456777899999999999999999998763    333222211 100 0   01111     11233456666666789


Q ss_pred             eEEEEeccc
Q 013506          385 SIIFFDEAD  393 (441)
Q Consensus       385 ~vl~iDE~d  393 (441)
                      .++++||+-
T Consensus       211 d~illdE~~  219 (372)
T 2ewv_A          211 DVIFVGEMR  219 (372)
T ss_dssp             SEEEESCCC
T ss_pred             CEEEECCCC
Confidence            999999984

>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=97.63  E-value=0.0002  Score=73.18  Aligned_cols=92  Identities=18%  Similarity=0.128  Sum_probs=49.0

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc-----CCc--------------eEEechhhhhhhccCchHHHHHHHHHHHH-h
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAA-----EAS--------------FFSLSGAELYSMYVGESEALLRNTFQRAR-L  381 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~-----~~~--------------~~~i~~~~~~~~~~g~~~~~~~~~~~~a~-~  381 (441)
                      .++..++++||||+||||+.|.++...     +..              +-.+...+.............+++...+. .
T Consensus       671 ~~g~i~~ItGPNGaGKSTlLr~i~~i~~~aq~g~~vpa~~~~i~~~d~i~~~ig~~d~l~~~~stfs~em~~~~~il~~a  750 (918)
T 3thx_B          671 DSERVMIITGPNMGGKSSYIKQVALITIMAQIGSYVPAEEATIGIVDGIFTRMGAADNIYKGRSTFMEELTDTAEIIRKA  750 (918)
T ss_dssp             TSCCEEEEESCCCHHHHHHHHHHHHHHHHHHHTCCBSSSEEEEECCSEEEEEC----------CCHHHHHHHHHHHHHHC
T ss_pred             CCCeEEEEECCCCCchHHHHHHHHHHHHHhhcCccccchhhhhhHHHHHHHhCChHHHHHHhHHHhhHHHHHHHHHHHhc
Confidence            345678999999999999999987543     211              11122222222222222222222222222 4


Q ss_pred             cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhc
Q 013506          382 AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (441)
Q Consensus       382 ~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~  422 (441)
                      ..|.++++||.-+..         +...+..+...++..+-
T Consensus       751 ~~p~LlLLDEP~~Gl---------D~~~~~~i~~~il~~L~  782 (918)
T 3thx_B          751 TSQSLVILDELGRGT---------STHDGIAIAYATLEYFI  782 (918)
T ss_dssp             CTTCEEEEESTTTTS---------CHHHHHHHHHHHHHHHH
T ss_pred             cCCCEEEEeCCCCCC---------CHHHHHHHHHHHHHHHH
Confidence            678899999988654         22223455557777763

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.63  E-value=3.6e-05  Score=62.38  Aligned_cols=32  Identities=22%  Similarity=0.259  Sum_probs=28.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      .+++|.|++||||||+++.||..++.+++..+
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~lg~~~id~D   39 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLALKLEVLDTD   39 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            36899999999999999999999999887654

>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=97.63  E-value=3.8e-05  Score=62.44  Aligned_cols=31  Identities=26%  Similarity=0.339  Sum_probs=27.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      .+++.|++||||||+++.++..++..++..+
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            4789999999999999999999988876554

>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=97.62  E-value=3.9e-05  Score=62.95  Aligned_cols=32  Identities=31%  Similarity=0.519  Sum_probs=27.9

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      .+..|+|+|+||+||||+++.++..++..++.
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            45679999999999999999999999876653

>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=97.62  E-value=4.3e-05  Score=62.70  Aligned_cols=34  Identities=32%  Similarity=0.512  Sum_probs=29.3

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      .+..++++|+|||||||+++.++..++..++..+
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~~~~~~~~~~~d   43 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELASKSGLKYINVG   43 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHhCCeEEEHH
Confidence            3456899999999999999999999998877654

>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=97.62  E-value=3.1e-05  Score=71.94  Aligned_cols=104  Identities=18%  Similarity=0.118  Sum_probs=60.1

Q ss_pred             ccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHH-HHHcCCceEEec-hh---hhhhhc--
Q 013506          292 IGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAA-AHAAEASFFSLS-GA---ELYSMY--  364 (441)
Q Consensus       292 i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~l-a~~~~~~~~~i~-~~---~~~~~~--  364 (441)
                      +.|++.+|..+.-.+......        .+...|+|++|+||| ||++|+.+ +..+....+... ++   .+....  
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            678888877776554321111        112338999999999 99999999 887654333211 11   111100  


Q ss_pred             -cCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          365 -VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       365 -~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                       .| +.-.-. .+..|   ...++|+||++++-              ....+.|+..|+.
T Consensus       286 ~tG-~~~~~G-~l~LA---dgGvl~lDEIn~~~--------------~~~qsaLlEaMEe  326 (506)
T 3f8t_A          286 DRG-WALRAG-AAVLA---DGGILAVDHLEGAP--------------EPHRWALMEAMDK  326 (506)
T ss_dssp             SSS-EEEEEC-HHHHT---TTSEEEEECCTTCC--------------HHHHHHHHHHHHH
T ss_pred             CCC-cccCCC-eeEEc---CCCeeehHhhhhCC--------------HHHHHHHHHHHhC
Confidence             11 100001 12222   23499999999974              3667888888873

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=97.62  E-value=9.2e-05  Score=68.14  Aligned_cols=30  Identities=33%  Similarity=0.349  Sum_probs=26.1

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++..+.|+||+||||||+.++++...
T Consensus        42 l~i~~Ge~~~llGpsGsGKSTLLr~iaGl~   71 (390)
T 3gd7_A           42 FSISPGQRVGLLGRTGSGKSTLLSAFLRLL   71 (390)
T ss_dssp             EEECTTCEEEEEESTTSSHHHHHHHHHTCS
T ss_pred             EEEcCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            355677889999999999999999999865

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.62  E-value=3.3e-05  Score=63.05  Aligned_cols=31  Identities=29%  Similarity=0.389  Sum_probs=27.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      .+++.|+|||||||+|+.+|..++.+++..+
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~~~~~d~d   36 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLDLVFLDSD   36 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEEHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCCCEEccc
Confidence            5889999999999999999999998876543

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=97.61  E-value=5.7e-05  Score=69.07  Aligned_cols=31  Identities=39%  Similarity=0.477  Sum_probs=26.3

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +.+.++..+.|+||+||||||+.+++|....
T Consensus        32 l~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~   62 (372)
T 1v43_A           32 LTIKDGEFLVLLGPSGCGKTTTLRMIAGLEE   62 (372)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEECCCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            3456677889999999999999999998773

>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=97.61  E-value=9.2e-05  Score=70.51  Aligned_cols=23  Identities=35%  Similarity=0.472  Sum_probs=21.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ++++.|+||||||+++..++..+
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            78999999999999999888766

>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=97.61  E-value=0.00019  Score=62.72  Aligned_cols=36  Identities=25%  Similarity=0.350  Sum_probs=28.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH---cCCceEEechhhh
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHA---AEASFFSLSGAEL  360 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~---~~~~~~~i~~~~~  360 (441)
                      ..++|+|+|||||||+|+.++..   .|..++.++...+
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~~D~~   43 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLI   43 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECTHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEECchHH
Confidence            35789999999999999999998   6777774554333

>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=97.61  E-value=0.00019  Score=62.71  Aligned_cols=37  Identities=19%  Similarity=0.392  Sum_probs=29.7

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHH---hCCcEEEEccCcc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRE---CGAHLTVISPHSV   89 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~---l~~~~~~v~~~~~   89 (441)
                      +..|+|+|+|||||||+++.++..   .+..++.++...+
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            457999999999999999999987   5667665665443

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=97.60  E-value=0.00024  Score=67.48  Aligned_cols=39  Identities=15%  Similarity=0.377  Sum_probs=32.0

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh----CCcEEEEccC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC----GAHLTVISPH   87 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----~~~~~~v~~~   87 (441)
                      |+.++.-++|.|+||+|||+++..++...    +.++++++..
T Consensus       199 Gl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~E  241 (454)
T 2r6a_A          199 GFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSLE  241 (454)
T ss_dssp             SBCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEESS
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEECC
Confidence            68889999999999999999999887653    4467776643

>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=97.60  E-value=0.00011  Score=66.37  Aligned_cols=40  Identities=20%  Similarity=0.311  Sum_probs=33.1

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh---------CCcEEEEccCc
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---------GAHLTVISPHS   88 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---------~~~~~~v~~~~   88 (441)
                      |++++..++|+||||+|||+++..++...         +..+++++...
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            57788899999999999999999998764         45677777655

>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=97.60  E-value=5.5e-05  Score=73.76  Aligned_cols=94  Identities=20%  Similarity=0.248  Sum_probs=52.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhc----cCchHHHHHHHHHHH---------HhcCCeEE
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMY----VGESEALLRNTFQRA---------RLAAPSII  387 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~----~g~~~~~~~~~~~~a---------~~~~~~vl  387 (441)
                      ...+++.|+|||||||+++.++..+   +..+..+..+.-....    .+.....+..++...         ......+|
T Consensus       204 ~~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~ApT~~Aa~~L~e~~~~~a~Tih~ll~~~~~~~~~~~~~~~~~dvl  283 (574)
T 3e1s_A          204 HRLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCAPTGKAARRLGEVTGRTASTVHRLLGYGPQGFRHNHLEPAPYDLL  283 (574)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESSHHHHHHHHHHHTSCEEEHHHHTTEETTEESCSSSSCCSCSEE
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEecCcHHHHHHhHhhhcccHHHHHHHHcCCcchhhhhhcccccCCEE
Confidence            3568999999999999999988765   4555544332211100    011111122222100         01134699


Q ss_pred             EEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEe
Q 013506          388 FFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPI  434 (441)
Q Consensus       388 ~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~  434 (441)
                      ++||+..+.              ...+..|++.+.   ...+++++|
T Consensus       284 IIDEasml~--------------~~~~~~Ll~~~~---~~~~lilvG  313 (574)
T 3e1s_A          284 IVDEVSMMG--------------DALMLSLLAAVP---PGARVLLVG  313 (574)
T ss_dssp             EECCGGGCC--------------HHHHHHHHTTSC---TTCEEEEEE
T ss_pred             EEcCccCCC--------------HHHHHHHHHhCc---CCCEEEEEe
Confidence            999998773              245666665553   455677665

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.59  E-value=9.3e-05  Score=64.37  Aligned_cols=40  Identities=33%  Similarity=0.483  Sum_probs=33.2

Q ss_pred             CCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcc
Q 013506           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSV   89 (441)
Q Consensus        50 ~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~   89 (441)
                      ...+..++|+|+|||||||+++.++..++...+.++...+
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            3456789999999999999999999999766667776654

>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=97.58  E-value=0.00073  Score=60.11  Aligned_cols=36  Identities=22%  Similarity=0.361  Sum_probs=28.3

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcc
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISP   86 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~   86 (441)
                      .++..++++||+|+||||++..+|..+   +..+..+++
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            456789999999999999999998766   445555544

>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=97.58  E-value=0.00063  Score=64.03  Aligned_cols=29  Identities=24%  Similarity=0.067  Sum_probs=25.2

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ...++..++|+||+|+||||+++.|+..+
T Consensus       289 ~i~~GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          289 EGKAPFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             CSCTTEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eccCCeEEEEECCCcccHHHHHHHHHHHh
Confidence            44566778999999999999999999876

>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=97.58  E-value=5.2e-05  Score=61.66  Aligned_cols=30  Identities=17%  Similarity=0.142  Sum_probs=26.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v   84 (441)
                      .|+|+|+|||||||+++.+++.++.+++..
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~~~~i~~   32 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELKYPIIKG   32 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHCCCEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeeecC
Confidence            589999999999999999999998776543

>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=97.58  E-value=4.1e-05  Score=69.34  Aligned_cols=28  Identities=18%  Similarity=0.235  Sum_probs=24.5

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      +++++.-++++|+||+|||++|..+|..
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            6677778899999999999999988865

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.57  E-value=4.9e-05  Score=61.58  Aligned_cols=30  Identities=27%  Similarity=0.305  Sum_probs=27.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      .+++|+|++||||||+++.+++.++.+++.
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            579999999999999999999999987764

>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=97.56  E-value=4.7e-05  Score=62.70  Aligned_cols=31  Identities=29%  Similarity=0.464  Sum_probs=27.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      .++|+|+|||||||+|+.++..++.+++..+
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            4899999999999999999999998877654

>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=97.56  E-value=6.3e-05  Score=61.36  Aligned_cols=33  Identities=27%  Similarity=0.342  Sum_probs=27.4

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      ++..++|+||||+||||+++.++..+|..++..
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~~~g~~~i~~   39 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAHQLHAAFLDG   39 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHHTCEEEEG
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHhhCcEEEeC
Confidence            345688999999999999999999887665543

>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=97.55  E-value=0.00015  Score=66.13  Aligned_cols=40  Identities=23%  Similarity=0.303  Sum_probs=32.8

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh---------CCcEEEEccCc
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---------GAHLTVISPHS   88 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---------~~~~~~v~~~~   88 (441)
                      |++++.-++|+||||+|||+++..++...         +..+++++...
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            57788899999999999999999998762         44677777655

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.55  E-value=5.8e-05  Score=63.09  Aligned_cols=33  Identities=30%  Similarity=0.475  Sum_probs=26.9

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      .++..++|+|||||||||+++.++..+|..++.
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~g~~~i~   59 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADETGLEFAE   59 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHHCCEEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhhCCeEEc
Confidence            345678999999999999999999998765443

>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=97.55  E-value=6e-05  Score=63.08  Aligned_cols=32  Identities=34%  Similarity=0.337  Sum_probs=28.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      +..++|+|+|||||||+|+.++..++.+++..
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i~~   51 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLGIPQIST   51 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence            34688999999999999999999999887665

>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=97.54  E-value=0.0011  Score=64.62  Aligned_cols=44  Identities=16%  Similarity=0.039  Sum_probs=35.8

Q ss_pred             cchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHH
Q 013506           22 GGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        22 ~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      +|.+..++.|.+.+...          +-.....+.++|+.|+|||+||+.+++
T Consensus       131 ~GR~~~~~~l~~~L~~~----------~~~~~~vv~I~G~gGvGKTtLA~~v~~  174 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEM----------CDLDSFFLFLHGRAGSGKSVIASQALS  174 (549)
T ss_dssp             CCCHHHHHHHHHHHHHH----------TTSSSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcc----------cCCCceEEEEEcCCCCCHHHHHHHHHH
Confidence            59999999999987431          012346789999999999999999996

>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=97.54  E-value=4.3e-05  Score=70.35  Aligned_cols=34  Identities=21%  Similarity=0.358  Sum_probs=28.2

Q ss_pred             HHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           45 AQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        45 ~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.++.+.++..++|+||+|+||||+++.+++.+.
T Consensus       128 l~~l~~~~g~~i~ivG~~GsGKTTll~~l~~~~~  161 (372)
T 2ewv_A          128 VLELCHRKMGLILVTGPTGSGKSTTIASMIDYIN  161 (372)
T ss_dssp             HHHHTTSSSEEEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             HHHHhhcCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            3444567788999999999999999999998763

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.54  E-value=7e-05  Score=62.59  Aligned_cols=36  Identities=25%  Similarity=0.458  Sum_probs=28.4

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCc
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~   88 (441)
                      .++..++|+||+||||||+++.+++.++..  .++...
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~g~~--~i~~d~   62 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADETGLE--FAEADA   62 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHHCCE--EEEGGG
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhhCCe--EEcccc
Confidence            356789999999999999999999998643  444433

>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=97.54  E-value=5.8e-05  Score=64.18  Aligned_cols=32  Identities=28%  Similarity=0.355  Sum_probs=28.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      +..++|.|+|||||||+|+.||..++..++..
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   35 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFHAAHLAT   35 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCceEEeh
Confidence            45689999999999999999999999877654

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.53  E-value=5.3e-05  Score=62.49  Aligned_cols=32  Identities=28%  Similarity=0.352  Sum_probs=27.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      +..++|+|+|||||||+++.+++.++..++..
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l~~~~i~~   35 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQELGFKKLST   35 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHHTCEEECH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCeEecH
Confidence            34588999999999999999999998776554

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.53  E-value=5.9e-05  Score=61.56  Aligned_cols=29  Identities=24%  Similarity=0.453  Sum_probs=25.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      .++|+|+|||||||+++.+++.++.+++.
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            58999999999999999999999876553

>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=97.51  E-value=8.1e-05  Score=60.71  Aligned_cols=31  Identities=23%  Similarity=0.303  Sum_probs=26.4

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      .+..++|+||+|+||||+++.+++.++..++
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~~~g~~~i   37 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAHQLHAAFL   37 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHHTCEEE
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHhhCcEEE
Confidence            4578999999999999999999998875433

>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=97.51  E-value=0.0011  Score=63.17  Aligned_cols=76  Identities=20%  Similarity=0.314  Sum_probs=47.6

Q ss_pred             CCe-EEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCC--ccCHHHhhCCccceEEEec
Q 013506          116 KPS-VVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD--AIDPALRRSGRFDAEVEVT  192 (441)
Q Consensus       116 ~~~-il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~--~l~~~l~~~~r~~~~i~~~  192 (441)
                      .|. +++|||+..++...      .......+..+......     ..+.+|.+|..+.  .++..++.  .+...+.+.
T Consensus       296 lP~ivlvIDE~~~ll~~~------~~~~~~~l~~Lar~gRa-----~GI~LIlaTQrp~~dvl~~~i~~--n~~~RI~lr  362 (512)
T 2ius_A          296 EPYIVVLVDEFADLMMTV------GKKVEELIARLAQKARA-----AGIHLVLATQRPSVDVITGLIKA--NIPTRIAFT  362 (512)
T ss_dssp             CCEEEEEEETHHHHHHHH------HHHHHHHHHHHHHHCGG-----GTEEEEEEESCCCTTTSCHHHHH--HCCEEEEEC
T ss_pred             CCcEEEEEeCHHHHHhhh------hHHHHHHHHHHHHHhhh-----CCcEEEEEecCCccccccHHHHh--hcCCeEEEE
Confidence            354 89999998775311      11222222222222111     1366667777765  68888887  788889999


Q ss_pred             CCCHHHHHHHHH
Q 013506          193 VPTAEERFEILK  204 (441)
Q Consensus       193 ~p~~~~~~~il~  204 (441)
                      ..+..+...++.
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            999999888775

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=97.51  E-value=5e-05  Score=64.39  Aligned_cols=31  Identities=23%  Similarity=0.297  Sum_probs=27.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      ..++|.|+|||||||+|+.||..++..++..
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            4689999999999999999999999877655

>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=97.50  E-value=0.00038  Score=58.74  Aligned_cols=71  Identities=15%  Similarity=0.115  Sum_probs=41.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhh-------hhhhccCch-----HHHHHHHHHHHHh----cCC
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAE-------LYSMYVGES-----EALLRNTFQRARL----AAP  384 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~-------~~~~~~g~~-----~~~~~~~~~~a~~----~~~  384 (441)
                      +.-.+++||+|+||||++..++..+   +..++.++...       +.+. .|-.     ......+++.+..    ..+
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            3446788999999999887777655   45555553211       1111 1110     0112345555543    357


Q ss_pred             eEEEEeccccc
Q 013506          385 SIIFFDEADVV  395 (441)
Q Consensus       385 ~vl~iDE~d~~  395 (441)
                      .+|+|||+..+
T Consensus        91 dvViIDEaQ~l  101 (223)
T 2b8t_A           91 KVIGIDEVQFF  101 (223)
T ss_dssp             CEEEECSGGGS
T ss_pred             CEEEEecCccC
Confidence            89999999865

>2dzn_B 26S protease regulatory subunit 6B homolog; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} PDB: 2dzo_B

Probab=97.50  E-value=6e-05  Score=52.57  Aligned_cols=69  Identities=23%  Similarity=0.308  Sum_probs=48.0

Q ss_pred             HHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhhcc
Q 013506          197 EERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSVVG  273 (441)
Q Consensus       197 ~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~  273 (441)
                      ++|.+||+.++.+.+...+.++..++..+.||++.+|..+|++|...++++..        ..++.+|+..++....
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            36788999998888777778899999999999999999999999999988743        3588899988887663

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.50  E-value=8.5e-05  Score=62.19  Aligned_cols=32  Identities=22%  Similarity=0.334  Sum_probs=27.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      ..++|+|++||||||+|+.|+..++..++..+
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~~lg~~~i~~d   50 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAEACGYPFIEGD   50 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHHHHTCCEEEGG
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCEEEeCC
Confidence            46899999999999999999999987776544

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=97.50  E-value=6.1e-05  Score=67.71  Aligned_cols=53  Identities=13%  Similarity=0.295  Sum_probs=36.7

Q ss_pred             cchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           22 GGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        22 ~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      +..+..++.+...+...+..         ....+++|+|++|+||||+++.+++.++.+++.
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            45666666666655432110         112469999999999999999999998766533

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.50  E-value=7.3e-05  Score=61.63  Aligned_cols=30  Identities=27%  Similarity=0.566  Sum_probs=26.2

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      +..|+|+|+|||||||+++.+++.++.+++
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            457999999999999999999999886543

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.50  E-value=7e-05  Score=65.08  Aligned_cols=32  Identities=25%  Similarity=0.262  Sum_probs=28.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEech
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSG  357 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~  357 (441)
                      -+++.|||||||||+|+.+|..++..++..+.
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            36899999999999999999999988877654

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.49  E-value=6.8e-05  Score=62.39  Aligned_cols=32  Identities=19%  Similarity=0.210  Sum_probs=27.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      +..++|.|+|||||||+|+.+|..++..++..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~~   40 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKYGYTHLST   40 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEcH
Confidence            44689999999999999999999998876644

>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=97.49  E-value=7.9e-05  Score=59.38  Aligned_cols=31  Identities=32%  Similarity=0.408  Sum_probs=27.6

Q ss_pred             hcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           47 KLGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        47 ~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      ++.+.++..+.|.||+|+||||+++.+++.+
T Consensus        27 sl~i~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           27 KLHTEKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             HHCCSSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ccccCCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            3456788899999999999999999999987

>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=97.49  E-value=6.1e-05  Score=62.02  Aligned_cols=29  Identities=31%  Similarity=0.541  Sum_probs=26.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      .|+|+|+|||||||+++.+++.++.+++.
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id   32 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKALGVGLLD   32 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCEEe
Confidence            48999999999999999999999987654

>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=97.48  E-value=0.0001  Score=60.36  Aligned_cols=38  Identities=24%  Similarity=0.307  Sum_probs=31.5

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhh
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAEL  360 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~  360 (441)
                      ++..+.|+|++||||||+++.++..+   |.+++.++...+
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~d~~~~   44 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDGDNI   44 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEECChHH
Confidence            45567899999999999999999987   888887775443

>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=97.47  E-value=8.7e-05  Score=62.08  Aligned_cols=32  Identities=28%  Similarity=0.461  Sum_probs=27.7

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v   84 (441)
                      +..|+|+|+|||||||+++.++..++.+++.+
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i~~   51 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLGIPQIST   51 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence            45799999999999999999999998776543

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=97.47  E-value=0.00014  Score=66.23  Aligned_cols=30  Identities=27%  Similarity=0.324  Sum_probs=25.9

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++..+.++||+||||||+.+++|...
T Consensus        26 l~i~~Ge~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           26 INIENGERFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EEECTTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEECCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            345667788999999999999999999876

>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=97.47  E-value=0.00027  Score=71.56  Aligned_cols=24  Identities=21%  Similarity=0.110  Sum_probs=19.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      +..++++||+|||||+++..+...
T Consensus       109 ~~~vii~gpTGSGKTtllp~ll~~  132 (773)
T 2xau_A          109 NQIMVFVGETGSGKTTQIPQFVLF  132 (773)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            456899999999999976666443

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.47  E-value=7.8e-05  Score=62.04  Aligned_cols=32  Identities=22%  Similarity=0.374  Sum_probs=27.8

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      .+..|+|+|+|||||||+++.+++.++.+++.
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~   39 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKYGYTHLS   39 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhCCeEEc
Confidence            45689999999999999999999999876554

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.47  E-value=6.9e-05  Score=61.59  Aligned_cols=29  Identities=28%  Similarity=0.324  Sum_probs=22.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceE
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~  353 (441)
                      ..++|.|+|||||||+|+.+++.++.+++
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            46889999999999999999999998877

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.47  E-value=8.7e-05  Score=64.50  Aligned_cols=32  Identities=28%  Similarity=0.513  Sum_probs=28.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVISP   86 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~   86 (441)
                      .++|+|||||||||+++.+++.++..++..+.
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            48999999999999999999999987766544

>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=97.46  E-value=0.00049  Score=70.47  Aligned_cols=24  Identities=17%  Similarity=0.162  Sum_probs=20.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      +..++++||||+||||+.|.+|..
T Consensus       662 g~i~~ItGpNGsGKSTlLr~ial~  685 (934)
T 3thx_A          662 QMFHIITGPNMGGKSTYIRQTGVI  685 (934)
T ss_dssp             BCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            456789999999999999998543

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.46  E-value=7.8e-05  Score=61.96  Aligned_cols=31  Identities=19%  Similarity=0.191  Sum_probs=26.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      ..++|.|+|||||||+|+.++..++..++..
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            4588999999999999999999998776543

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.45  E-value=0.00012  Score=61.57  Aligned_cols=33  Identities=21%  Similarity=0.376  Sum_probs=27.6

Q ss_pred             CCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        50 ~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      .+.++-|+|.||||+||+|.++.+++.++.+.+
T Consensus        26 ~~k~kiI~llGpPGsGKgTqa~~L~~~~g~~hI   58 (217)
T 3umf_A           26 LAKAKVIFVLGGPGSGKGTQCEKLVQKFHFNHL   58 (217)
T ss_dssp             TTSCEEEEEECCTTCCHHHHHHHHHHHHCCEEE
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHHCCceE
Confidence            345577899999999999999999999975543

>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=97.45  E-value=7.7e-05  Score=60.66  Aligned_cols=31  Identities=26%  Similarity=0.437  Sum_probs=27.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      .++|.|++||||||+|+.++..++.+++..+
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id~d   34 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELARALGYEFVDTD   34 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTCEEEEHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEEccc
Confidence            4789999999999999999999998776543

>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=97.45  E-value=2.8e-05  Score=70.33  Aligned_cols=72  Identities=13%  Similarity=0.230  Sum_probs=43.2

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHhCC--cEEEEccCcccc-----c---cccchHHHHHHHHHHHHhhhhcCCCeEE
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGA--HLTVISPHSVHK-----A---HVGESEKALREAFSQASSHALSGKPSVV  120 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l~~--~~~~v~~~~~~~-----~---~~~~~~~~~~~~~~~~~~~~~~~~~~il  120 (441)
                      .++..++++||+|+||||+++++++.+..  ..+.++......     .   .........+.    +....+..+|.++
T Consensus       169 ~~g~~v~i~G~~GsGKTTll~~l~g~~~~~~g~i~i~~~~e~~~~~~~~~i~~~~ggg~~~r~----~la~aL~~~p~il  244 (330)
T 2pt7_A          169 AIGKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSAD----CLKSCLRMRPDRI  244 (330)
T ss_dssp             HHTCCEEEEESTTSCHHHHHHHGGGGSCTTSCEEEEESSCCCCCSSCSSEEEEECBTTBCHHH----HHHHHTTSCCSEE
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCcCCCcEEEECCeeccccccchhEEEEEeCCChhHHH----HHHHHhhhCCCEE
Confidence            45778999999999999999999988743  234444322110     0   01000111222    2233334569999


Q ss_pred             EEcccc
Q 013506          121 FIDEID  126 (441)
Q Consensus       121 ~iDe~~  126 (441)
                      ++||.-
T Consensus       245 ildE~~  250 (330)
T 2pt7_A          245 ILGELR  250 (330)
T ss_dssp             EECCCC
T ss_pred             EEcCCC
Confidence            999964

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=97.44  E-value=0.00055  Score=67.16  Aligned_cols=31  Identities=23%  Similarity=0.273  Sum_probs=27.1

Q ss_pred             hcCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          318 RLGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       318 ~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .+.+.++..+.++||+|+||||+++++++.+
T Consensus       363 ~l~i~~G~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          363 SFSIPQGKTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             eEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3456778889999999999999999999877

>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=97.44  E-value=8.5e-05  Score=62.94  Aligned_cols=30  Identities=23%  Similarity=0.278  Sum_probs=26.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      .++|+|||||||||+|+.+++.++...+..
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            478999999999999999999998777655

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=97.44  E-value=4.5e-05  Score=75.10  Aligned_cols=31  Identities=32%  Similarity=0.530  Sum_probs=27.2

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.++++..+.++||+|+||||+++.+++.+.
T Consensus       376 l~i~~G~~~~ivG~sGsGKSTll~~l~g~~~  406 (598)
T 3qf4_B          376 FHIKPGQKVALVGPTGSGKTTIVNLLMRFYD  406 (598)
T ss_dssp             EECCTTCEEEEECCTTSSTTHHHHHHTTSSC
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHhcCcC
Confidence            3467889999999999999999999998764

>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=97.44  E-value=0.00012  Score=62.17  Aligned_cols=32  Identities=25%  Similarity=0.361  Sum_probs=27.6

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      .+..|+|+|+|||||||+++.++..++.+++.
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            35679999999999999999999999876544

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.43  E-value=0.00011  Score=61.83  Aligned_cols=30  Identities=17%  Similarity=0.256  Sum_probs=25.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceE
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~  353 (441)
                      +.-+++.|||||||+|.|+.|++.++...+
T Consensus        29 ~kiI~llGpPGsGKgTqa~~L~~~~g~~hI   58 (217)
T 3umf_A           29 AKVIFVLGGPGSGKGTQCEKLVQKFHFNHL   58 (217)
T ss_dssp             CEEEEEECCTTCCHHHHHHHHHHHHCCEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHCCceE
Confidence            445788999999999999999999986644

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.43  E-value=9.6e-05  Score=59.78  Aligned_cols=31  Identities=16%  Similarity=0.250  Sum_probs=27.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      .++|.|++||||||+|+.++..++.+++..+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~~~~i~~d   32 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLNIPFYDVD   32 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHTCCEEEHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEECc
Confidence            4789999999999999999999998877543

>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=97.43  E-value=8.2e-05  Score=60.67  Aligned_cols=29  Identities=28%  Similarity=0.411  Sum_probs=25.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      .++++|||||||||+|+.+ ..++.+++.+
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            4789999999999999999 8888887664

>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=97.43  E-value=0.00013  Score=60.93  Aligned_cols=39  Identities=23%  Similarity=0.227  Sum_probs=29.9

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhh
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAEL  360 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~  360 (441)
                      .++..+.++||+||||||++++++..+   |.-.+.++..++
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            456678899999999999999999988   443345555444

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.43  E-value=9.9e-05  Score=61.77  Aligned_cols=31  Identities=29%  Similarity=0.637  Sum_probs=26.8

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      +..|+|+|++|+||||+++.+++.++..++.
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            4579999999999999999999999866543

>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=97.43  E-value=0.0001  Score=61.58  Aligned_cols=29  Identities=34%  Similarity=0.391  Sum_probs=25.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      .++|.|||||||+|.|+.+|+.++...+.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g~~~is   30 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKGFVHIS   30 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCeEEc
Confidence            47899999999999999999999876543

>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=97.42  E-value=0.00061  Score=58.43  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=17.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAA  345 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la  345 (441)
                      +..+++.||+|||||++..++.
T Consensus        76 g~~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           76 NSVVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCcHHhHHHHH
Confidence            4578999999999998766553

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=97.41  E-value=8.9e-05  Score=63.37  Aligned_cols=32  Identities=25%  Similarity=0.353  Sum_probs=27.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      +..++|.|+|||||||+|+.||..++..++..
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            34689999999999999999999998877654

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=97.41  E-value=0.00019  Score=65.67  Aligned_cols=30  Identities=33%  Similarity=0.459  Sum_probs=25.8

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      .+.++..+.++||+||||||+.+++|....
T Consensus        25 ~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~   54 (372)
T 1g29_1           25 EVKDGEFMILLGPSGCGKTTTLRMIAGLEE   54 (372)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             EEcCCCEEEEECCCCcHHHHHHHHHHcCCC
Confidence            445677789999999999999999998873

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=97.41  E-value=0.00034  Score=68.86  Aligned_cols=31  Identities=29%  Similarity=0.424  Sum_probs=27.4

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +.+.++..+.++||+|+||||+++++++.+.
T Consensus       376 l~i~~G~~~~ivG~sGsGKSTll~~l~g~~~  406 (598)
T 3qf4_B          376 FHIKPGQKVALVGPTGSGKTTIVNLLMRFYD  406 (598)
T ss_dssp             EECCTTCEEEEECCTTSSTTHHHHHHTTSSC
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHhcCcC
Confidence            4567788899999999999999999998774

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.41  E-value=9.5e-05  Score=62.63  Aligned_cols=30  Identities=30%  Similarity=0.347  Sum_probs=26.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      .++|.|||||||||+|+.+++.++...+..
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            478999999999999999999998877654

>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=97.41  E-value=0.0001  Score=58.73  Aligned_cols=30  Identities=27%  Similarity=0.304  Sum_probs=26.4

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++..+.|+||+|+||||+++.++..+
T Consensus        28 l~i~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           28 LHTEKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             HCCSSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            355667778999999999999999999987

>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=97.41  E-value=0.00011  Score=63.04  Aligned_cols=31  Identities=32%  Similarity=0.379  Sum_probs=27.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      ..++|.|+|||||||+|+.||..++..++..
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            4689999999999999999999999877665

>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=97.41  E-value=0.00016  Score=59.13  Aligned_cols=35  Identities=23%  Similarity=0.221  Sum_probs=30.2

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISP   86 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~   86 (441)
                      .+..+.|+|++||||||+++.++..+   +.+++.++.
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            46789999999999999999999987   777776654

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=97.40  E-value=0.0013  Score=58.97  Aligned_cols=39  Identities=21%  Similarity=0.258  Sum_probs=31.6

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPH   87 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~   87 (441)
                      |+.++.-++|.|+||+|||+++..++...   +.++++++..
T Consensus        64 Gl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~slE  105 (315)
T 3bh0_A           64 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLE  105 (315)
T ss_dssp             SBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEESS
T ss_pred             CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEECC
Confidence            68899999999999999999999887654   3466666643

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=97.40  E-value=6.4e-05  Score=73.75  Aligned_cols=30  Identities=23%  Similarity=0.341  Sum_probs=26.5

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .++++..+.++||+|+||||+++.+++.+.
T Consensus       365 ~i~~Ge~~~ivG~sGsGKSTll~~l~g~~~  394 (587)
T 3qf4_A          365 SVKPGSLVAVLGETGSGKSTLMNLIPRLID  394 (587)
T ss_dssp             EECTTCEEEEECSSSSSHHHHHHTTTTSSC
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCcc
Confidence            456788999999999999999999998764

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=97.40  E-value=7.6e-05  Score=64.39  Aligned_cols=31  Identities=29%  Similarity=0.425  Sum_probs=28.1

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      +..+.|+|++||||||+++.+++.++.+++.
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg~~~~d   78 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLGYTFFD   78 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHTCEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCcEEe
Confidence            6789999999999999999999999876654

>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=97.40  E-value=0.00011  Score=63.50  Aligned_cols=33  Identities=21%  Similarity=0.241  Sum_probs=28.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      ++..++|.|||||||||+|+.+++.++...+..
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            456789999999999999999999998766544

>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=97.39  E-value=8.4e-05  Score=61.56  Aligned_cols=30  Identities=23%  Similarity=0.328  Sum_probs=25.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC-----CceEE
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAE-----ASFFS  354 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~-----~~~~~  354 (441)
                      ..++|.|+|||||||+++.|+..++     .+++.
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~i~   38 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVS   38 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTTTCCCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhcCcceEEEe
Confidence            4588999999999999999999887     66654

>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=97.39  E-value=8.7e-05  Score=60.50  Aligned_cols=28  Identities=36%  Similarity=0.708  Sum_probs=24.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      .|+|+|||||||||+++.+ ..++.+++.
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~g~~~i~   30 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KERGAKVIV   30 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHTTCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHH-HHCCCcEEE
Confidence            5899999999999999999 888877654

>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=97.39  E-value=0.0011  Score=54.29  Aligned_cols=101  Identities=16%  Similarity=0.109  Sum_probs=59.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCceEEe---ch------hhhhhhc-----------cCc------hHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSL---SG------AELYSMY-----------VGE------SEALLRN  374 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i---~~------~~~~~~~-----------~g~------~~~~~~~  374 (441)
                      .+.+++++++|.||||+|-.+|-.+   |..+..+   ++      .++....           ...      .....+.
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            4578999999999999998887655   6666555   32      1222222           101      1234455


Q ss_pred             HHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          375 TFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       375 ~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .+..+..    ....+|+|||+-.+.+.+-      -+     .+.++..+..-+...-| |++.+
T Consensus       108 ~l~~a~~~l~~~~yDlvILDEi~~al~~g~------l~-----~~ev~~~l~~Rp~~~~v-IlTGr  161 (196)
T 1g5t_A          108 VWQHGKRMLADPLLDMVVLDELTYMVAYDY------LP-----LEEVISALNARPGHQTV-IITGR  161 (196)
T ss_dssp             HHHHHHHHTTCTTCSEEEEETHHHHHHTTS------SC-----HHHHHHHHHTSCTTCEE-EEECS
T ss_pred             HHHHHHHHHhcCCCCEEEEeCCCccccCCC------CC-----HHHHHHHHHhCcCCCEE-EEECC
Confidence            6666543    4578999999976543211      11     45677777764444444 44443

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.39  E-value=0.00014  Score=60.34  Aligned_cols=30  Identities=27%  Similarity=0.483  Sum_probs=26.4

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      +..|+|+|+|||||||+++.+++.++.+++
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            457999999999999999999999986654

>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=97.38  E-value=0.00018  Score=60.12  Aligned_cols=27  Identities=22%  Similarity=0.254  Sum_probs=25.0

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      .++..+.|+||+||||||+++.+++.+
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            467889999999999999999999988

>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=97.38  E-value=0.00075  Score=56.50  Aligned_cols=42  Identities=17%  Similarity=0.188  Sum_probs=26.9

Q ss_pred             CCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          383 APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       383 ~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      ...++++||+|.+...         ++ ...+..++..   ......+++++||+
T Consensus       144 ~~~~iViDEah~~~~~---------~~-~~~~~~i~~~---~~~~~~~i~~SAT~  185 (207)
T 2gxq_A          144 RVEVAVLDEADEMLSM---------GF-EEEVEALLSA---TPPSRQTLLFSATL  185 (207)
T ss_dssp             TCSEEEEESHHHHHHT---------TC-HHHHHHHHHT---SCTTSEEEEECSSC
T ss_pred             hceEEEEEChhHhhcc---------ch-HHHHHHHHHh---CCccCeEEEEEEec
Confidence            3469999999987631         11 2334455544   34566788888886

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=97.38  E-value=9.5e-05  Score=63.16  Aligned_cols=32  Identities=16%  Similarity=0.270  Sum_probs=27.1

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      .+..|+|+|+|||||||+++.++..++..++.
T Consensus         6 ~~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~   37 (227)
T 1zd8_A            6 RLLRAVIMGAPGSGKGTVSSRITTHFELKHLS   37 (227)
T ss_dssp             -CCEEEEEECTTSSHHHHHHHHHHHSSSEEEE
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHcCCeEEe
Confidence            34679999999999999999999999866553

>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=97.37  E-value=0.00012  Score=63.06  Aligned_cols=29  Identities=31%  Similarity=0.383  Sum_probs=24.8

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCC
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEA  350 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~~~  350 (441)
                      ++..+++|+||||||||.+|.++|..+..
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            33567999999999999999999997654

>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=97.37  E-value=0.00011  Score=62.30  Aligned_cols=30  Identities=30%  Similarity=0.472  Sum_probs=26.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v   84 (441)
                      .|+|+|||||||||+++.+++.++..++..
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            488999999999999999999998766543

>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=97.37  E-value=0.00013  Score=60.54  Aligned_cols=31  Identities=19%  Similarity=0.177  Sum_probs=27.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      ..++|+|+|||||||+|+.++..++..++..
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            3578999999999999999999998776654

>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=97.37  E-value=0.00016  Score=59.15  Aligned_cols=28  Identities=32%  Similarity=0.685  Sum_probs=24.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~   81 (441)
                      ++|+|+||+|+|||||++.+....+..+
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            5699999999999999999998875444

>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=97.37  E-value=0.00013  Score=59.28  Aligned_cols=29  Identities=24%  Similarity=0.442  Sum_probs=25.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      .|+|+|++||||||+++.++..++.+++.
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id   32 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELARALGYEFVD   32 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEEc
Confidence            58999999999999999999999876553

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.36  E-value=0.00012  Score=62.04  Aligned_cols=30  Identities=20%  Similarity=0.416  Sum_probs=26.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v   84 (441)
                      .|+|+|||||||||+++.+++.++..++..
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            488999999999999999999998766543

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=97.36  E-value=0.012  Score=49.29  Aligned_cols=34  Identities=21%  Similarity=0.224  Sum_probs=25.7

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISP   86 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~   86 (441)
                      ..++++.|++|+||||++-.++..+   +..++.++.
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            3579999999999999988777654   555554443

>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=97.36  E-value=0.00013  Score=63.08  Aligned_cols=33  Identities=15%  Similarity=0.166  Sum_probs=28.2

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v   84 (441)
                      .+..|+|+|||||||||+++.+++.++..++.+
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            467899999999999999999999998665543

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=97.36  E-value=0.00011  Score=61.22  Aligned_cols=31  Identities=19%  Similarity=0.237  Sum_probs=27.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      ..++|.|+|||||||+|+.+++.++..++..
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            4589999999999999999999998776644

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=97.36  E-value=0.00027  Score=69.28  Aligned_cols=31  Identities=23%  Similarity=0.225  Sum_probs=27.1

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +.+.++..+.++||+|+||||+++++++.+.
T Consensus       362 l~i~~G~~~~ivG~sGsGKSTll~~l~g~~~  392 (578)
T 4a82_A          362 LSIEKGETVAFVGMSGGGKSTLINLIPRFYD  392 (578)
T ss_dssp             EEECTTCEEEEECSTTSSHHHHHTTTTTSSC
T ss_pred             EEECCCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            4567788899999999999999999998774

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.36  E-value=0.00013  Score=58.95  Aligned_cols=29  Identities=17%  Similarity=0.172  Sum_probs=25.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      .|+|+|++||||||+++.+++.++.+++.
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            48999999999999999999999877654

>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=97.36  E-value=0.00084  Score=56.55  Aligned_cols=23  Identities=26%  Similarity=0.359  Sum_probs=19.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      .++++.+|+|+|||.++-+++..
T Consensus        49 ~~~li~~~tGsGKT~~~~~~~~~   71 (216)
T 3b6e_A           49 KNIIICLPTGSGKTRVAVYIAKD   71 (216)
T ss_dssp             CCEEEECSCHHHHHHHHHHHHHH
T ss_pred             CCEEEEcCCCCCHHHHHHHHHHH
Confidence            46899999999999998777654

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=97.35  E-value=0.00012  Score=61.10  Aligned_cols=31  Identities=23%  Similarity=0.403  Sum_probs=26.8

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      +..|+|+|+|||||||+++.+++.++..++.
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            4579999999999999999999999865443

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=97.35  E-value=0.00044  Score=67.81  Aligned_cols=31  Identities=19%  Similarity=0.306  Sum_probs=27.2

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +.+.++..+.++||+|+||||+++++++.+.
T Consensus       364 l~i~~Ge~~~ivG~sGsGKSTll~~l~g~~~  394 (587)
T 3qf4_A          364 FSVKPGSLVAVLGETGSGKSTLMNLIPRLID  394 (587)
T ss_dssp             EEECTTCEEEEECSSSSSHHHHHHTTTTSSC
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCcc
Confidence            4567788899999999999999999998774

>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=97.35  E-value=0.00013  Score=60.30  Aligned_cols=26  Identities=19%  Similarity=0.369  Sum_probs=23.8

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +..|+|+|+|||||||+++.++..++
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            35799999999999999999999886

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=97.35  E-value=3.9e-05  Score=75.25  Aligned_cols=30  Identities=20%  Similarity=0.345  Sum_probs=26.6

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .++++..+.++||+|+||||+++.+++.+.
T Consensus       363 ~i~~G~~~~ivG~sGsGKSTll~~l~g~~~  392 (578)
T 4a82_A          363 SIEKGETVAFVGMSGGGKSTLINLIPRFYD  392 (578)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHTTTTTSSC
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            457888999999999999999999988764

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=97.35  E-value=9.2e-05  Score=63.01  Aligned_cols=30  Identities=17%  Similarity=0.244  Sum_probs=26.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      ..++|.|||||||||+++.||..++..++.
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~~l~~~~i~   35 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKTKYQLAHIS   35 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHHHHCCEECC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            468999999999999999999999876544

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=97.35  E-value=0.00056  Score=67.13  Aligned_cols=32  Identities=25%  Similarity=0.316  Sum_probs=27.6

Q ss_pred             hcCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          318 RLGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       318 ~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      .+.+.++..+.++||+|+||||+++++++.+.
T Consensus       363 ~~~i~~G~~~~ivG~sGsGKSTLl~~l~g~~~  394 (582)
T 3b60_A          363 NLKIPAGKTVALVGRSGSGKSTIASLITRFYD  394 (582)
T ss_dssp             EEEECTTCEEEEEECTTSSHHHHHHHHTTTTC
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHHHHHhhccC
Confidence            34567788899999999999999999998873

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=97.34  E-value=0.00029  Score=68.03  Aligned_cols=28  Identities=25%  Similarity=0.210  Sum_probs=24.9

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          321 ISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       321 ~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.++..+.++||+|+||||++++++...
T Consensus       291 i~~Gei~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          291 AKEGEIIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4567788999999999999999999876

>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=97.34  E-value=0.00032  Score=63.42  Aligned_cols=28  Identities=25%  Similarity=0.297  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHH
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      |++++.-++|+||||+|||+++..++..
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            5677889999999999999999998865

>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=97.34  E-value=0.00017  Score=60.28  Aligned_cols=28  Identities=32%  Similarity=0.576  Sum_probs=24.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      .|+|.||||+||+|.++.+++.++.+.+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g~~~i   29 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKGFVHI   29 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCeEE
Confidence            3789999999999999999999986544

>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=97.34  E-value=0.00014  Score=62.06  Aligned_cols=30  Identities=33%  Similarity=0.439  Sum_probs=26.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      ..+.|+||+||||||+++.+++.++.+++.
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~g~~~~d   35 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEALQWHLLD   35 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            368899999999999999999998876543

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.34  E-value=0.00014  Score=61.00  Aligned_cols=29  Identities=38%  Similarity=0.617  Sum_probs=25.0

Q ss_pred             CCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        50 ~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.++..+.|+||+|+||||+++.+++.+.
T Consensus         4 m~~g~ii~l~Gp~GsGKSTl~~~L~~~~~   32 (205)
T 3tr0_A            4 MNKANLFIISAPSGAGKTSLVRALVKALA   32 (205)
T ss_dssp             -CCCCEEEEECCTTSCHHHHHHHHHHHSS
T ss_pred             CCCCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            34677899999999999999999999864

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.33  E-value=0.00011  Score=60.10  Aligned_cols=25  Identities=32%  Similarity=0.615  Sum_probs=22.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHH-HhC
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVR-ECG   78 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~-~l~   78 (441)
                      ..|+|+|+|||||||+++.+++ .++
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~~~~~   28 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIAKNPG   28 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTT
T ss_pred             eEEEEecCCCCCHHHHHHHHHhhcCC
Confidence            4689999999999999999998 444

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.33  E-value=0.00011  Score=62.18  Aligned_cols=30  Identities=27%  Similarity=0.539  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+.++..+.|+||+|+||||+++.+++.+.
T Consensus        19 ~i~~G~~~~lvGpsGsGKSTLl~~L~g~~p   48 (218)
T 1z6g_A           19 SMNNIYPLVICGPSGVGKGTLIKKLLNEFP   48 (218)
T ss_dssp             ---CCCCEEEECSTTSSHHHHHHHHHHHST
T ss_pred             ecCCCCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            456788999999999999999999999873

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.33  E-value=0.00011  Score=60.29  Aligned_cols=28  Identities=25%  Similarity=0.169  Sum_probs=23.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHH-HcCCceE
Q 013506          326 GALLHGPPGCSKTTLAKAAAH-AAEASFF  353 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~-~~~~~~~  353 (441)
                      .+++.|+|||||||+|+.++. ..+..++
T Consensus         4 ~I~i~G~~GsGKST~a~~L~~~~~~~~~i   32 (181)
T 1ly1_A            4 IILTIGCPGSGKSTWAREFIAKNPGFYNI   32 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHSTTEEEE
T ss_pred             EEEEecCCCCCHHHHHHHHHhhcCCcEEe
Confidence            478999999999999999998 4554443

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.33  E-value=0.00011  Score=60.31  Aligned_cols=30  Identities=20%  Similarity=0.306  Sum_probs=22.9

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      +..|+|+|+|||||||+++.+++.++.+++
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            457999999999999999999999988765

>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=97.33  E-value=0.0018  Score=55.52  Aligned_cols=33  Identities=24%  Similarity=0.398  Sum_probs=26.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP   86 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~   86 (441)
                      ..++++||+|+|||.++..++..++...+.+..
T Consensus       109 ~~~ll~~~tG~GKT~~a~~~~~~~~~~~liv~P  141 (237)
T 2fz4_A          109 KRGCIVLPTGSGKTHVAMAAINELSTPTLIVVP  141 (237)
T ss_dssp             SEEEEEESSSTTHHHHHHHHHHHSCSCEEEEES
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHcCCCEEEEeC
Confidence            469999999999999999888887666655543

>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=97.33  E-value=0.00019  Score=59.45  Aligned_cols=31  Identities=29%  Similarity=0.522  Sum_probs=26.8

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      +..|+|+|+|||||||+++.++..++.+++.
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            4579999999999999999999999865543

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.32  E-value=0.00016  Score=60.60  Aligned_cols=32  Identities=19%  Similarity=0.202  Sum_probs=27.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      ..++|.|++||||||+++.+++.++..++..+
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            35789999999999999999999987666543

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.32  E-value=0.00016  Score=59.26  Aligned_cols=27  Identities=19%  Similarity=0.443  Sum_probs=24.1

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+..+.|+||+|+||||+++.+++.+.
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            457899999999999999999998764

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.32  E-value=0.00099  Score=54.75  Aligned_cols=37  Identities=30%  Similarity=0.232  Sum_probs=28.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcC---CceEEechhh
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAAE---ASFFSLSGAE  359 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~~---~~~~~i~~~~  359 (441)
                      ++..++|+|+|||||||+++.++..++   ..+..++...
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~~d~   51 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQKEGYRVEVLDGDW   51 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEeeHHH
Confidence            455688999999999999999998873   4455555433

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=97.32  E-value=0.00051  Score=59.49  Aligned_cols=39  Identities=26%  Similarity=0.377  Sum_probs=29.9

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHH----hCCcEEEEccC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRE----CGAHLTVISPH   87 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~----l~~~~~~v~~~   87 (441)
                      |++++.-++++|+||+|||+++..++..    .+.++++++..
T Consensus        26 Gl~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~E   68 (251)
T 2zts_A           26 GFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLE   68 (251)
T ss_dssp             SEETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEESS
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeeccc
Confidence            4678889999999999999999876532    35666666543

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=97.31  E-value=0.00018  Score=70.57  Aligned_cols=30  Identities=20%  Similarity=0.388  Sum_probs=26.6

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.++++..+.++||+|+||||+++.+++.+
T Consensus       364 l~i~~G~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          364 FSIPQGKTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            346788999999999999999999999875

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=97.30  E-value=0.00016  Score=62.40  Aligned_cols=33  Identities=33%  Similarity=0.396  Sum_probs=29.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      +..+.|+|++||||||+++.+|..++..++..+
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            557999999999999999999999998876544

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.30  E-value=0.00015  Score=60.64  Aligned_cols=31  Identities=19%  Similarity=0.342  Sum_probs=26.7

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      +..|+|+|++||||||+++.+++.++..++.
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~~~g~~~i~   45 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVKDYSFVHLS   45 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHSSCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCceEEe
Confidence            4579999999999999999999998865544

>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=97.30  E-value=0.00014  Score=61.54  Aligned_cols=30  Identities=23%  Similarity=0.160  Sum_probs=26.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      .++|.|+|||||||+|+.++..++..++..
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            478999999999999999999998877665

>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=97.30  E-value=0.0011  Score=65.38  Aligned_cols=24  Identities=33%  Similarity=0.404  Sum_probs=19.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ..+++.|+|||||||++..+...+
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            468999999999999877665443

>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=97.30  E-value=0.00018  Score=59.25  Aligned_cols=33  Identities=21%  Similarity=0.423  Sum_probs=25.8

Q ss_pred             HhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           46 QKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        46 ~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .++....++.++|+||+|+|||||++.+++...
T Consensus        12 ~~~~~~~g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           12 ENLYFQGRKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             ----CCSCCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             ccCCCCCCCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            344445678899999999999999999998865

>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=97.30  E-value=0.0002  Score=61.93  Aligned_cols=29  Identities=24%  Similarity=0.578  Sum_probs=26.0

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~   81 (441)
                      +..+.|+||||+||||+++.+++.++...
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~lg~~~   55 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNFGLQH   55 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeE
Confidence            57899999999999999999999987643

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.29  E-value=0.00013  Score=60.73  Aligned_cols=27  Identities=37%  Similarity=0.755  Sum_probs=23.1

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      ++..+.|+||+|+||||+++.+++.+.
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            467899999999999999999998764

>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=97.29  E-value=0.00024  Score=60.93  Aligned_cols=31  Identities=23%  Similarity=0.376  Sum_probs=27.1

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      +..|+|.|+|||||||+++.++..++..++.
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~   46 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFCVCHLA   46 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            4579999999999999999999999866544

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=97.29  E-value=0.00022  Score=63.50  Aligned_cols=29  Identities=28%  Similarity=0.250  Sum_probs=25.1

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ...++..++|+||+|+||||+++.+|..+
T Consensus        96 ~~~~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           96 GFRKPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             CSSSCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccCCCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            34566778999999999999999999886

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.28  E-value=0.00014  Score=60.99  Aligned_cols=28  Identities=21%  Similarity=0.355  Sum_probs=24.8

Q ss_pred             CCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           50 LKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        50 ~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.++..+.|+||+||||||+++.+++.+
T Consensus         3 i~~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            3 NEKGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             -CCCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            4567889999999999999999999887

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=97.28  E-value=0.00032  Score=62.65  Aligned_cols=34  Identities=18%  Similarity=0.166  Sum_probs=28.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEechh
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA  358 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~  358 (441)
                      ..++++||+|||||+++..||+.++..++..+..
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            3578999999999999999999998777665443

>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=97.28  E-value=0.00018  Score=63.74  Aligned_cols=32  Identities=31%  Similarity=0.517  Sum_probs=29.1

Q ss_pred             hcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           47 KLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        47 ~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      ++.++++..+.|+||+|+||||+++.+++.+.
T Consensus       120 sl~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~~  151 (305)
T 2v9p_A          120 LKGIPKKNCLAFIGPPNTGKSMLCNSLIHFLG  151 (305)
T ss_dssp             HHTCTTCSEEEEECSSSSSHHHHHHHHHHHHT
T ss_pred             eEEecCCCEEEEECCCCCcHHHHHHHHhhhcC
Confidence            45788999999999999999999999999883

>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=97.28  E-value=0.0014  Score=67.01  Aligned_cols=26  Identities=27%  Similarity=0.397  Sum_probs=22.6

Q ss_pred             CCCCcEEEEEcCCCCcHHHHHHHHHH
Q 013506           50 LKWPRGLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        50 ~~~~~~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      +..+..++|+||+|+||||+++.++.
T Consensus       670 ~~~g~i~~ItGPNGaGKSTlLr~i~~  695 (918)
T 3thx_B          670 EDSERVMIITGPNMGGKSSYIKQVAL  695 (918)
T ss_dssp             TTSCCEEEEESCCCHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCchHHHHHHHHH
Confidence            45678899999999999999998864

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=97.28  E-value=0.00018  Score=60.94  Aligned_cols=32  Identities=28%  Similarity=0.488  Sum_probs=27.4

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v   84 (441)
                      +..|+|.|+|||||||+++.++..++.+++..
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            35799999999999999999999998766543

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=97.28  E-value=0.00015  Score=61.70  Aligned_cols=29  Identities=17%  Similarity=0.359  Sum_probs=25.8

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~   81 (441)
                      +..|+|.|+|||||||+++.++..++..+
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~~~~   33 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQLAH   33 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHCCEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCce
Confidence            45799999999999999999999998644

>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=97.28  E-value=0.0002  Score=62.01  Aligned_cols=30  Identities=27%  Similarity=0.453  Sum_probs=25.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceE
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~  353 (441)
                      +..++|+|||||||||+++.+++.++...+
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            457899999999999999999988876544

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=97.27  E-value=0.0014  Score=62.04  Aligned_cols=39  Identities=18%  Similarity=0.231  Sum_probs=31.7

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh----CCcEEEEccC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC----GAHLTVISPH   87 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----~~~~~~v~~~   87 (441)
                      |+.++.-++|.|+||+|||+++..++...    +.++++++..
T Consensus       196 Gl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~slE  238 (444)
T 2q6t_A          196 TLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSLE  238 (444)
T ss_dssp             CCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEESS
T ss_pred             CcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEECC
Confidence            68889999999999999999999887643    4567776653

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=97.26  E-value=0.001  Score=65.10  Aligned_cols=27  Identities=30%  Similarity=0.209  Sum_probs=24.0

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .++..+.|+||||+||||+.++++..+
T Consensus       101 ~~Gei~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          101 RPGQVLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             CTTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            456678999999999999999999876

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=97.26  E-value=0.00011  Score=66.05  Aligned_cols=30  Identities=23%  Similarity=0.474  Sum_probs=26.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      .+++|+|+||+||||+++++|..++.+++.
T Consensus        25 ~~i~l~G~~G~GKTTl~~~la~~l~~~f~~   54 (359)
T 2ga8_A           25 VCVILVGSPGSGKSTIAEELCQIINEKYHT   54 (359)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHhCCCeee
Confidence            368999999999999999999999877754

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.26  E-value=0.0002  Score=58.69  Aligned_cols=27  Identities=11%  Similarity=0.183  Sum_probs=23.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      ++.-+.|+||+|+||||+++.++..+.
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            345688999999999999999998764

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=97.25  E-value=0.0014  Score=66.21  Aligned_cols=26  Identities=27%  Similarity=0.296  Sum_probs=22.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ++..++++||||+||||+.|.++...
T Consensus       606 ~g~i~~ItGpNGsGKSTlLr~iagl~  631 (800)
T 1wb9_A          606 QRRMLIITGPNMGGKSTYMRQTALIA  631 (800)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHH
Confidence            44568899999999999999998763

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=97.25  E-value=0.00068  Score=60.56  Aligned_cols=34  Identities=24%  Similarity=0.300  Sum_probs=29.0

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP   86 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~   86 (441)
                      +..++|+||+|||||+|+..+|+.++..++..+.
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~~eiIs~Ds   73 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFPLEVINSDK   73 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSCEEEEECCS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCCCcEEcccc
Confidence            3579999999999999999999999877666544

>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=97.25  E-value=0.00025  Score=60.50  Aligned_cols=30  Identities=30%  Similarity=0.483  Sum_probs=26.1

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      +..+.|+||+||||||+++.+++.++.+++
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            357999999999999999999999886554

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=97.25  E-value=0.00023  Score=61.78  Aligned_cols=31  Identities=29%  Similarity=0.354  Sum_probs=26.7

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCceE
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~  353 (441)
                      ++..+.++||+||||||+++++|+.+|..++
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~Lg~~~~   56 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESLNWRLL   56 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHTTCEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhcCCCcC
Confidence            3456889999999999999999999987654

>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=97.25  E-value=0.00068  Score=57.05  Aligned_cols=39  Identities=23%  Similarity=0.267  Sum_probs=30.2

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcC----CceEEechhhh
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAAE----ASFFSLSGAEL  360 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~~----~~~~~i~~~~~  360 (441)
                      .++..+++.|++|+||||+++.++..++    .+++.++...+
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~~d~~   65 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNI   65 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHhccccCCcEEEECChHH
Confidence            4455688999999999999999998774    45666665443

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.25  E-value=0.00019  Score=60.20  Aligned_cols=30  Identities=30%  Similarity=0.539  Sum_probs=26.0

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      ....+..++|+||||+||||+++.++..++
T Consensus         8 ~~~~~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A            8 HMARIPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             -CCCCCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             ccccCCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            345678899999999999999999999875

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=97.24  E-value=0.001  Score=64.41  Aligned_cols=98  Identities=17%  Similarity=0.135  Sum_probs=58.0

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHH--HHHHc--CCceEEechhhhhh------h---cc---------------------
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKA--AAHAA--EASFFSLSGAELYS------M---YV---------------------  365 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~--la~~~--~~~~~~i~~~~~~~------~---~~---------------------  365 (441)
                      ++.++..++++|||||||||+++.  ++...  +...+.++..+...      .   |+                     
T Consensus        35 ~i~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~~~~~g~i~v~g~~~~~~~~~~~~~~g~~~q~~~~~~~l~~~~~~~~~~~  114 (525)
T 1tf7_A           35 GLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEG  114 (525)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHHHHGGGTCCHHHHHHTTSEEEEECCCCSSC
T ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEeCCHHHHHHHHHHcCCChHHhhccCcEEEEecCcccch
Confidence            456778899999999999999999  45554  33344444322100      0   00                     


Q ss_pred             ----Cc--hHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhc
Q 013506          366 ----GE--SEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (441)
Q Consensus       366 ----g~--~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~  422 (441)
                          ..  ......+.........+.+|+|||+-.+.+.     .+.+....+.+-.++..+.
T Consensus       115 ~~~l~~~~l~~~~~~~~~~LS~g~~~~lilDe~t~~~~~-----~~lD~~~~~~l~~ll~~l~  172 (525)
T 1tf7_A          115 QEVVGGFDLSALIERINYAIQKYRARRVSIDSVTSVFQQ-----YDASSVVRRELFRLVARLK  172 (525)
T ss_dssp             CSCCSSHHHHHHHHHHHHHHHHHTCSEEEEECSTTTSTT-----TCCHHHHHHHHHHHHHHHH
T ss_pred             hhhhcccCHHHHHHHHHHHHHHcCCCEEEECCHHHHHHh-----cCCHHHHHHHHHHHHHHHH
Confidence                00  1122334444444567889999999887652     1122334555667777775

>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=97.24  E-value=0.00017  Score=60.44  Aligned_cols=30  Identities=27%  Similarity=0.326  Sum_probs=25.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      .+.++|++||||||+++.++. ++.+++..+
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            478999999999999999999 776665443

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=97.24  E-value=0.00026  Score=64.38  Aligned_cols=29  Identities=28%  Similarity=0.250  Sum_probs=25.3

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ...++..++++||+|+||||+++.+|..+
T Consensus       153 ~~~~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          153 GFRKPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             CSSSSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ecCCCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            34567788999999999999999999887

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=97.24  E-value=0.00023  Score=63.41  Aligned_cols=35  Identities=26%  Similarity=0.421  Sum_probs=30.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCc
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~   88 (441)
                      ..++|+||+|||||++++.+++.++..++.++...
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~~~iis~Ds~q   40 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALPCELISVDSAL   40 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSCEEEEEECTTT
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCcEEeccchh
Confidence            57999999999999999999999987777765543

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=97.23  E-value=0.0004  Score=61.81  Aligned_cols=29  Identities=24%  Similarity=0.480  Sum_probs=25.7

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      .+.++..+.|+||+|+||||+++.++..+
T Consensus        96 ~~~~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           96 GFRKPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             CSSSCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccCCCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            35577899999999999999999999876

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.23  E-value=0.00017  Score=60.57  Aligned_cols=27  Identities=26%  Similarity=0.271  Sum_probs=23.9

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .++..+.|+||+||||||+++.++..+
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            455678999999999999999999877

>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=97.23  E-value=0.0011  Score=60.53  Aligned_cols=87  Identities=16%  Similarity=0.092  Sum_probs=57.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC---C-c--eEEechhhhhhhccCchHHHHHHHHHHHH----hcCCeEEEEecccc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAE---A-S--FFSLSGAELYSMYVGESEALLRNTFQRAR----LAAPSIIFFDEADV  394 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~---~-~--~~~i~~~~~~~~~~g~~~~~~~~~~~~a~----~~~~~vl~iDE~d~  394 (441)
                      ..++|+||+|.||++.++.++..+.   . +  .+.++.           +.+++++.+.+.    -+...|+++||++.
T Consensus        19 ~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-----------~~~~~~l~~~~~~~plf~~~kvvii~~~~~   87 (343)
T 1jr3_D           19 AAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDP-----------NTDWNAIFSLCQAMSLFASRQTLLLLLPEN   87 (343)
T ss_dssp             SEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECCT-----------TCCHHHHHHHHHHHHHCCSCEEEEEECCSS
T ss_pred             cEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEecC-----------CCCHHHHHHHhcCcCCccCCeEEEEECCCC
Confidence            3689999999999999999988652   2 2  122221           123444554443    34567999999997


Q ss_pred             -cccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          395 -VGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       395 -~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                       +.              +...+.|++.|+..+....+|+.+++
T Consensus        88 kl~--------------~~~~~aLl~~le~p~~~~~~il~~~~  116 (343)
T 1jr3_D           88 GPN--------------AAINEQLLTLTGLLHDDLLLIVRGNK  116 (343)
T ss_dssp             CCC--------------TTHHHHHHHHHTTCBTTEEEEEEESC
T ss_pred             CCC--------------hHHHHHHHHHHhcCCCCeEEEEEcCC
Confidence             52              24578899999986655555555443

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=97.23  E-value=0.0002  Score=60.17  Aligned_cols=30  Identities=27%  Similarity=0.400  Sum_probs=25.3

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+.++..+.|+||+|+||||+++.+++.+.
T Consensus        16 ~i~~Gei~~l~GpnGsGKSTLl~~l~gl~~   45 (207)
T 1znw_A           16 PAAVGRVVVLSGPSAVGKSTVVRCLRERIP   45 (207)
T ss_dssp             ---CCCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            456788999999999999999999999874

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.23  E-value=0.00022  Score=59.72  Aligned_cols=29  Identities=17%  Similarity=0.315  Sum_probs=25.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      .++|.|++||||||+++.+++.++..++.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~~~~~~   30 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLGYEIFK   30 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCCEEEC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcCCcEEc
Confidence            47899999999999999999999886653

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=97.23  E-value=0.00022  Score=60.29  Aligned_cols=30  Identities=23%  Similarity=0.414  Sum_probs=25.3

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      ..+++..+.|+||+|+|||||++.+++...
T Consensus        12 ~~~~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           12 HMAQGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             ---CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cCCCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            456788999999999999999999999875

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.22  E-value=0.00021  Score=59.80  Aligned_cols=26  Identities=27%  Similarity=0.406  Sum_probs=23.0

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ++.-+.|+||+||||||+++.++..+
T Consensus         6 ~g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            6 KANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            45568899999999999999999986

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.22  E-value=0.0023  Score=59.90  Aligned_cols=70  Identities=19%  Similarity=0.286  Sum_probs=43.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc----CCceEEechhhhh----------hh------cc---Cch-HHHHHHHHHH
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGAELY----------SM------YV---GES-EALLRNTFQR  378 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~----~~~~~~i~~~~~~----------~~------~~---g~~-~~~~~~~~~~  378 (441)
                      ++..++++|++|+||||++-.+|..+    |..+..++.--..          ..      +.   +.. ...++..+..
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~~r~~a~~ql~~~~~~~~l~v~~~~~~~dp~~i~~~~l~~  178 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALKE  178 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCCSSTTHHHHHHHHHHHHTCEECCCCSSSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCCCCccHHHHHHhhcccCCeeEEeCCCCCCHHHHHHHHHHH
Confidence            45678899999999999998888665    5555544432100          00      11   111 2233566776


Q ss_pred             HHhcCCeEEEEecc
Q 013506          379 ARLAAPSIIFFDEA  392 (441)
Q Consensus       379 a~~~~~~vl~iDE~  392 (441)
                      +......++|+|=.
T Consensus       179 ~~~~~~D~VIIDTp  192 (433)
T 2xxa_A          179 AKLKFYDVLLVDTA  192 (433)
T ss_dssp             HHHTTCSEEEEECC
T ss_pred             HHhCCCCEEEEECC
Confidence            66556779999853

>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=97.21  E-value=0.00066  Score=59.83  Aligned_cols=34  Identities=18%  Similarity=0.160  Sum_probs=28.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEechhh
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAE  359 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~  359 (441)
                      -++++||+|||||++|..+|..++..++..+...
T Consensus         5 ~i~i~GptgsGKt~la~~La~~~~~~iis~Ds~Q   38 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKRLNGEVISGDSMQ   38 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTTTEEEEECCGGG
T ss_pred             EEEEECCCcCCHHHHHHHHHHhCccceeecCccc
Confidence            4678999999999999999999887666655543

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=97.21  E-value=0.0013  Score=63.52  Aligned_cols=26  Identities=27%  Similarity=0.115  Sum_probs=22.5

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ++..+.|+||||+||||+.++++..+
T Consensus        24 ~Gei~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           24 NNTILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            34467899999999999999999875

>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=97.21  E-value=0.00021  Score=60.03  Aligned_cols=29  Identities=28%  Similarity=0.434  Sum_probs=25.4

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      +++..++|+||+|+||||+++.+++.++.
T Consensus         6 ~~g~~i~l~GpsGsGKsTl~~~L~~~~~~   34 (208)
T 3tau_A            6 ERGLLIVLSGPSGVGKGTVREAVFKDPET   34 (208)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHSTTC
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhCCC
Confidence            35678999999999999999999998753

>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=97.21  E-value=0.00027  Score=59.67  Aligned_cols=30  Identities=20%  Similarity=0.390  Sum_probs=26.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v   84 (441)
                      .|+|.|+|||||||+++.++..++..++.+
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            489999999999999999999998766543

>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=97.21  E-value=0.00025  Score=59.33  Aligned_cols=32  Identities=16%  Similarity=0.041  Sum_probs=26.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc-CCceEEe
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA-EASFFSL  355 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~-~~~~~~i  355 (441)
                      +..+.|.|++||||||+++.+++.+ +.+++.+
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l~g~~~~~~   36 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESIPANTIKYL   36 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTSCGGGEEEE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHCCCceEEE
Confidence            4468999999999999999999998 4666544

>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=97.21  E-value=0.0002  Score=60.14  Aligned_cols=28  Identities=25%  Similarity=0.207  Sum_probs=24.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      .+.|+||+||||||+++.++. +|..++.
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            478999999999999999998 7776653

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=97.21  E-value=0.00023  Score=60.54  Aligned_cols=30  Identities=20%  Similarity=0.295  Sum_probs=26.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      .++|.|+|||||||+|+.++..++..++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~lg~~~i~~   31 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKYSLAHIES   31 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEch
Confidence            478999999999999999999998766554

>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=97.20  E-value=0.0016  Score=60.61  Aligned_cols=36  Identities=22%  Similarity=0.369  Sum_probs=28.1

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPH   87 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~   87 (441)
                      ++..++++||+|+||||++..++..+   +..+..+++.
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            46789999999999999999988765   5556555543

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.20  E-value=0.00018  Score=59.95  Aligned_cols=26  Identities=35%  Similarity=0.478  Sum_probs=21.9

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ++..+.|+||+|+||||++++++..+
T Consensus         3 ~g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            3 GPRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             --CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            45568999999999999999999865

>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=97.20  E-value=0.00083  Score=59.10  Aligned_cols=33  Identities=27%  Similarity=0.377  Sum_probs=28.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEechh
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGA  358 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~  358 (441)
                      -++++||+|||||++|..+|+.++..++..+..
T Consensus        12 ~i~i~GptgsGKt~la~~La~~~~~~iis~Ds~   44 (316)
T 3foz_A           12 AIFLMGPTASGKTALAIELRKILPVELISVDSA   44 (316)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSCEEEEECCTT
T ss_pred             EEEEECCCccCHHHHHHHHHHhCCCcEEecccc
Confidence            468899999999999999999998777766543

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=97.20  E-value=0.00065  Score=65.70  Aligned_cols=28  Identities=25%  Similarity=0.211  Sum_probs=25.0

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          321 ISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       321 ~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.++..+.|+||||+||||++++++..+
T Consensus        44 i~~Ge~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           44 VKEGMVVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             CCTTSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4667789999999999999999999866

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=97.19  E-value=0.0041  Score=55.72  Aligned_cols=35  Identities=20%  Similarity=0.065  Sum_probs=27.0

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEe
Q 013506          321 ISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSL  355 (441)
Q Consensus       321 ~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i  355 (441)
                      ..++..++++|++|+||||++..+|..+   +..+..+
T Consensus       102 ~~~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVlli  139 (320)
T 1zu4_A          102 ENRLNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIA  139 (320)
T ss_dssp             TTSCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            3456678999999999999999998876   4444443

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=97.19  E-value=0.00074  Score=72.56  Aligned_cols=33  Identities=21%  Similarity=0.367  Sum_probs=28.3

Q ss_pred             hcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC
Q 013506          318 RLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA  350 (441)
Q Consensus       318 ~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~  350 (441)
                      .+.++++..+.++||+||||||+++++.+.+..
T Consensus       438 sl~i~~G~~vaivG~sGsGKSTll~ll~~~~~~  470 (1321)
T 4f4c_A          438 NLRVNAGQTVALVGSSGCGKSTIISLLLRYYDV  470 (1321)
T ss_dssp             EEEECTTCEEEEEECSSSCHHHHHHHHTTSSCC
T ss_pred             EEeecCCcEEEEEecCCCcHHHHHHHhcccccc
Confidence            345678889999999999999999999988743

>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=97.19  E-value=0.00029  Score=58.93  Aligned_cols=33  Identities=12%  Similarity=0.190  Sum_probs=27.5

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh-CCcEEEE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC-GAHLTVI   84 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l-~~~~~~v   84 (441)
                      .+..|+|+|++||||||+++.+++.+ +.+++.+
T Consensus         3 ~~~~I~l~G~~GsGKsT~~~~L~~~l~g~~~~~~   36 (204)
T 2v54_A            3 RGALIVFEGLDKSGKTTQCMNIMESIPANTIKYL   36 (204)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHTSCGGGEEEE
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHCCCceEEE
Confidence            35679999999999999999999998 4555554

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=97.18  E-value=0.00032  Score=60.88  Aligned_cols=31  Identities=26%  Similarity=0.399  Sum_probs=27.2

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      .+..+.|.||+||||||+++.+++.++..++
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~Lg~~~~   56 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESLNWRLL   56 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHTTCEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhcCCCcC
Confidence            4578999999999999999999999986544

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=97.18  E-value=0.00075  Score=64.06  Aligned_cols=29  Identities=21%  Similarity=0.267  Sum_probs=25.4

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      |++++.-+++.|+||+||||++..+|...
T Consensus       199 Gl~~G~liiI~G~pG~GKTtl~l~ia~~~  227 (454)
T 2r6a_A          199 GFQRSDLIIVAARPSVGKTAFALNIAQNV  227 (454)
T ss_dssp             SBCTTCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            77888889999999999999999887744

>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=97.17  E-value=0.0023  Score=63.00  Aligned_cols=25  Identities=36%  Similarity=0.507  Sum_probs=21.2

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +..+++.|+||||||+++..+...+
T Consensus       164 ~~~~vi~G~pGTGKTt~l~~ll~~l  188 (608)
T 1w36_D          164 RRISVISGGPGTGKTTTVAKLLAAL  188 (608)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCHHHHHHHHHHHH
Confidence            4689999999999999988776554

>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=97.17  E-value=0.00028  Score=59.89  Aligned_cols=31  Identities=23%  Similarity=0.430  Sum_probs=26.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      +..+.+.||+||||||+++.+|+.++..++.
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg~~~~d   39 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALGARYLD   39 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            3468899999999999999999999876543

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.17  E-value=0.00023  Score=60.28  Aligned_cols=29  Identities=24%  Similarity=0.385  Sum_probs=23.9

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .+.++..+.|+||+|+||||++++++..+
T Consensus        19 ~i~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           19 SMNNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             ---CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             ecCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            44566778999999999999999999987

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.16  E-value=0.00031  Score=58.77  Aligned_cols=28  Identities=18%  Similarity=0.529  Sum_probs=25.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      .|+|.|++||||||+++.+++.++..++
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            4899999999999999999999987554

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=97.16  E-value=0.00025  Score=59.52  Aligned_cols=29  Identities=21%  Similarity=0.297  Sum_probs=23.8

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .+.++.-+.|+||+|+||||++++++..+
T Consensus        16 ~i~~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           16 PAAVGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             ---CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34556678999999999999999999987

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=97.16  E-value=0.0003  Score=58.27  Aligned_cols=31  Identities=23%  Similarity=0.013  Sum_probs=26.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc---CCceEEec
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA---EASFFSLS  356 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~  356 (441)
                      .+.|.|++||||||+++.++..+   +.+++..+
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            36899999999999999999988   88777654

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.16  E-value=0.00024  Score=58.85  Aligned_cols=35  Identities=14%  Similarity=0.226  Sum_probs=26.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcC---CceEEechhhh
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAE---ASFFSLSGAEL  360 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~---~~~~~i~~~~~  360 (441)
                      .++|.|+|||||||+++.|++.++   ..+..++..+.
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~~~g~~~~~~~~~~~   40 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILDNQGINNKIINYGDF   40 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTTTCCEEEEEHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCceEEEEECChH
Confidence            478999999999999999999876   23444554444

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.16  E-value=0.0019  Score=61.40  Aligned_cols=35  Identities=17%  Similarity=0.039  Sum_probs=26.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCceEEech
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSG  357 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~  357 (441)
                      ++..++++|+||+||||++..+|..+   |..+..++.
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~  137 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICA  137 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEec
Confidence            35578999999999999999998766   555555543

>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=97.16  E-value=0.0015  Score=58.65  Aligned_cols=106  Identities=15%  Similarity=0.102  Sum_probs=0.0

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechh--------------------hhhhhccCchHHHHHHHHHH
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGA--------------------ELYSMYVGESEALLRNTFQR  378 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~--------------------~~~~~~~g~~~~~~~~~~~~  378 (441)
                      .++.-+.|+||+|+||||+++.+|..+   +..+......                    -+...+.......+.+.+..
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~~g~V~l~g~D~~r~~a~eql~~~~~~~gv~~v~q~~~~~p~~~v~e~l~~  206 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNHGFSVVIAASDTFRAGAIEQLEEHAKRIGVKVIKHSYGADPAAVAYDAIQH  206 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSTTHHHHHHHHHHHTTCEEECCCTTCCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEeecccccchHHHHHHHHHHcCceEEeccccCCHHHHHHHHHHH


Q ss_pred             HHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeeeee
Q 013506          379 ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFIFQ  439 (441)
Q Consensus       379 a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~~~  439 (441)
                      +......++++|.+.....            ..+...+|-....-+..+..++++-++.-|
T Consensus       207 ~~~~~~d~vliDtaG~~~~------------~~~l~~eL~~i~ral~~de~llvLDa~t~~  255 (328)
T 3e70_C          207 AKARGIDVVLIDTAGRSET------------NRNLMDEMKKIARVTKPNLVIFVGDALAGN  255 (328)
T ss_dssp             HHHHTCSEEEEEECCSCCT------------TTCHHHHHHHHHHHHCCSEEEEEEEGGGTT
T ss_pred             HHhccchhhHHhhccchhH------------HHHHHHHHHHHHHHhcCCCCEEEEecHHHH

>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=97.15  E-value=0.00068  Score=63.09  Aligned_cols=28  Identities=29%  Similarity=0.418  Sum_probs=24.8

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      ++..++++||+|+||||+++++++.+..
T Consensus       166 ~ggii~I~GpnGSGKTTlL~allg~l~~  193 (418)
T 1p9r_A          166 PHGIILVTGPTGSGKSTTLYAGLQELNS  193 (418)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHCC
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHhhcCC
Confidence            5677999999999999999999998753

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=97.14  E-value=0.00038  Score=57.69  Aligned_cols=31  Identities=19%  Similarity=0.301  Sum_probs=26.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEc
Q 013506           55 GLLLYGPPGTGKTSLVRAVVREC---GAHLTVIS   85 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~   85 (441)
                      .|+|+|++||||||+++.+++.+   +.+++..+
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            48899999999999999999988   77766553

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=97.14  E-value=0.00055  Score=62.21  Aligned_cols=29  Identities=24%  Similarity=0.480  Sum_probs=25.8

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      .+.++..+.|+||+|+||||+++.++..+
T Consensus       153 ~~~~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          153 GFRKPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             CSSSSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ecCCCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            35577899999999999999999999876

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.14  E-value=0.00023  Score=59.80  Aligned_cols=28  Identities=32%  Similarity=0.399  Sum_probs=24.6

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      .++..+.++||+|+||||++++++..+.
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            4556788999999999999999999885

>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=97.14  E-value=0.00027  Score=62.63  Aligned_cols=36  Identities=25%  Similarity=0.346  Sum_probs=30.6

Q ss_pred             hcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceE
Q 013506          318 RLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (441)
Q Consensus       318 ~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~  353 (441)
                      .+.++++..+.|+||+|+||||++++|+..+...++
T Consensus       120 sl~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~~G~I~  155 (305)
T 2v9p_A          120 LKGIPKKNCLAFIGPPNTGKSMLCNSLIHFLGGSVL  155 (305)
T ss_dssp             HHTCTTCSEEEEECSSSSSHHHHHHHHHHHHTCEEE
T ss_pred             eEEecCCCEEEEECCCCCcHHHHHHHHhhhcCceEE
Confidence            346788889999999999999999999999855543

>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=97.14  E-value=0.00024  Score=59.48  Aligned_cols=29  Identities=24%  Similarity=0.287  Sum_probs=24.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v   84 (441)
                      .|.|+|++||||||+++.+++ ++.+++..
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            589999999999999999999 77665543

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=97.13  E-value=0.00037  Score=59.26  Aligned_cols=29  Identities=24%  Similarity=0.426  Sum_probs=25.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      .|+|.|+|||||||+++.++..++.+++.
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~lg~~~i~   30 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKYSLAHIE   30 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEc
Confidence            48999999999999999999999865443

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.13  E-value=0.00014  Score=59.06  Aligned_cols=23  Identities=22%  Similarity=0.445  Sum_probs=20.7

Q ss_pred             CCCCcEEEEEcCCCCcHHHHHHH
Q 013506           50 LKWPRGLLLYGPPGTGKTSLVRA   72 (441)
Q Consensus        50 ~~~~~~vll~Gp~GtGKT~l~~~   72 (441)
                      +.++.-+.|+|||||||||+++.
T Consensus         6 i~~gei~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A            6 IPELSLVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EESSEEEEEECCTTSCHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHH
Confidence            45778899999999999999995

>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=97.13  E-value=0.0073  Score=56.25  Aligned_cols=36  Identities=33%  Similarity=0.483  Sum_probs=28.3

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPH   87 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~   87 (441)
                      ++..++++|++|+||||++..++..+   +..+..+++.
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            36789999999999999999888765   4556655543

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=97.13  E-value=0.00045  Score=57.83  Aligned_cols=33  Identities=27%  Similarity=0.230  Sum_probs=25.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCceEEech
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSG  357 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~  357 (441)
                      .++++.|+||+||||++-.+|..+   |..++.+..
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~   42 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVV   42 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEe
Confidence            468999999999999988887765   666654443

>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=97.13  E-value=0.00028  Score=58.29  Aligned_cols=33  Identities=27%  Similarity=0.357  Sum_probs=24.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEechhh
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAE  359 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~  359 (441)
                      .++|+||||+||||+++.++...+.. +.++..+
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~~~~g~-~~i~~d~   36 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAAQLDNS-AYIEGDI   36 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSSE-EEEEHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhcccCCe-EEEcccc
Confidence            46899999999999999999866542 3344433

---

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	441
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	2e-76
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	1e-52
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	2e-74
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	5e-53
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	6e-57
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	2e-46
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	1e-49
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	7e-32
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	9e-38
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	3e-28
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	2e-31
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	5e-12
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	1e-30
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	5e-13
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	3e-30
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	9e-19
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	3e-21
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	3e-14
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	6e-20
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	9e-14
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	3e-15
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	7e-06
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	1e-13
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	9e-08
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	3e-11
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	9e-10
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	4e-09
d1njfa_	239	c.37.1.20 (A:) delta prime subunit of DNA polymera	2e-08
d2fnaa2	283	c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfo	3e-06
d1a5ta2	207	c.37.1.20 (A:1-207) delta prime subunit of DNA pol	7e-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	1e-04
d1gkya_	186	c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Sac	4e-04
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	5e-04
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	0.001
d1g41a_	443	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	0.001
d3adka_	194	c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [	0.001
d1sxjd2	237	c.37.1.20 (D:26-262) Replication factor C2 {Baker'	0.002
d1yj5a2	172	c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' p	0.004

>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 =  236 bits (604), Expect = 2e-76
 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

>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 =  175 bits (445), Expect = 1e-52
 Identities = 58/152 (38%), Positives = 91/152 (59%), Gaps = 1/152 (0%)

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 GGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
           G          E+ L+ +L EMDG E  + II
Sbjct: 121 GAGLGGGHDEREQTLNQMLVEMDGFEGNEGII 152

>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 =  231 bits (591), Expect = 2e-74
 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

>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 =  175 bits (446), Expect = 5e-53
 Identities = 60/149 (40%), Positives = 88/149 (59%), Gaps = 1/149 (0%)

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 SSTSITVGERLLSTLLTEMDGLEQAKVII 431
                   E+ L+ LL EMDG E+   I+
Sbjct: 121 VGGGNDEREQTLNQLLVEMDGFEKDTAIV 149

>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 = 6e-57
 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

>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 =  159 bits (402), Expect = 2e-46
 Identities = 69/148 (46%), Positives = 103/148 (69%)

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 STSITVGERLLSTLLTEMDGLEQAKVII 431
                  +R+++ +LTEMDG+   K + 
Sbjct: 121 GDGGGAADRVINQILTEMDGMSTKKNVF 148

>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 =  167 bits (423), Expect = 1e-49
 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

>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 =  120 bits (300), Expect = 7e-32
 Identities = 61/145 (42%), Positives = 88/145 (60%), Gaps = 3/145 (2%)

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 ITVGERLLSTLLTEMDGLEQAKVII 431
             V  R++S LLT MDGL+Q   +I
Sbjct: 119 -EVERRIVSQLLTLMDGLKQRAHVI 142

>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 =  137 bits (347), Expect = 9e-38
 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

>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 =  111 bits (279), Expect = 3e-28
 Identities = 31/231 (13%), Positives = 67/231 (29%), Gaps = 30/231 (12%)

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 LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVII 431
                +I  D    V    GG++++      R    LL+++  +  ++  +
Sbjct: 182 --QHRVIVIDSLKNVIGAAGGNTTSG--GISRGAFDLLSDIGAMAASRGCV 228

>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 =  119 bits (298), Expect = 2e-31
 Identities = 35/299 (11%), Positives = 83/299 (27%), Gaps = 46/299 (15%)

Query: 22  GGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL 81
                  + L ELI           K  ++ P   LL G PG+GKTSL  A+  E   ++
Sbjct: 10  QFENRLNDNLEELI---------QGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNV 60

Query: 82  TVISPHSVHKAH---VGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQ 138
            VI   +  + H       +   ++     + +       +             +   E 
Sbjct: 61  IVIDNDTFKQQHPNFDELVKLYEKDVVKHVTPY----SNRMTEAIISRLSDQGYNLVIEG 116

Query: 139 DVRIASQLFTLMDSNKPSKTSV--------PHVVVVASTNRVDAIDPALRRSGRFDAEVE 190
             R            +                   + +  R + +      + R   +  
Sbjct: 117 TGRTTDVPIQTATMLQAKGYETKMYVMAVPKINSYLGTIERYETMYADDPMTARATPKQA 176

Query: 191 VTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSSD 250
             +        +  L+   +  D  +           Y   +  ++  + T+        
Sbjct: 177 HDIVVKNLPTNLETLHKTGLFSDIRL---YNREGVKLYSSLETPSISPKETLEKELNR-- 231

Query: 251 ANECAGVLSVTMEDWRHARSVVGPSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWP 309
                    V+ ++ +     +   +      E P+         + +++KL ++++ P
Sbjct: 232 --------KVSGKEIQPTLERIEQKMVLNKHQETPE--------FKAIQQKL-ESLQPP 273

>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 = 63.8 bits (154), Expect = 5e-12
 Identities = 13/124 (10%), Positives = 37/124 (29%), Gaps = 8/124 (6%)

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 417
           + T 
Sbjct: 125 IQTA 128

>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 (291), Expect = 1e-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

>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 = 66.5 bits (161), Expect = 5e-13
 Identities = 21/144 (14%), Positives = 44/144 (30%), Gaps = 5/144 (3%)

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 ERLLSTLLTEMDGLEQAKVIIYPI 434
             +L  LL  +         +  I
Sbjct: 124 NLVLQALLVLLKKAPPQGRKLLII 147

>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 =  118 bits (296), Expect = 3e-30
 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

>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 = 85.1 bits (210), Expect = 9e-19
 Identities = 28/174 (16%), Positives = 45/174 (25%), Gaps = 13/174 (7%)

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------PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL 424
           +  +         PS    +  D +     GS   ++        T +     +
Sbjct: 208 EDVKGTGGESRDLPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIV 261

>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 = 90.0 bits (222), Expect = 3e-21
 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

>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 = 70.0 bits (170), Expect = 3e-14
 Identities = 33/144 (22%), Positives = 54/144 (37%), Gaps = 18/144 (12%)

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--ERLLSTLLTEMDGLEQ 426
            ++     + ++           +
Sbjct: 109 PAMEDFVMDIVIGQGPAARTIRLE 132

>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 = 87.6 bits (216), Expect = 6e-20
 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 = 69.5 bits (169), Expect = 9e-14
 Identities = 33/149 (22%), Positives = 57/149 (38%), Gaps = 10/149 (6%)

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 VGAKRGGSSSTSITVGERLLSTLLTEMDG 423
           +  K   S +      E +   LL  ++G
Sbjct: 127 ICKKGEYSGADV--SREGVQRDLLPLVEG 153

>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 = 73.7 bits (179), Expect = 3e-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

>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 = 45.2 bits (105), Expect = 7e-06
 Identities = 21/154 (13%), Positives = 39/154 (25%), Gaps = 11/154 (7%)

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 EADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL 424
                  +R       +     L   +L+    L
Sbjct: 114 LLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRL 147

>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 = 67.7 bits (164), Expect = 1e-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 = 50.7 bits (120), Expect = 9e-08
 Identities = 30/108 (27%), Positives = 45/108 (41%), Gaps = 11/108 (10%)

Query: 285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAA 344
           PK + ++  G  ++KKKL  A+E           +        LL GPPG  KTTLA   
Sbjct: 5   PK-SLDEFIGQENVKKKLSLALEAAKMRGEVLDHV--------LLAGPPGLGKTTLAHII 55

Query: 345 AHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEA 392
           A   + +    SG  L     G+  A+L +  +   L    I   ++A
Sbjct: 56  ASELQTNIHVTSGPVLVK--QGDMAAILTSLERGDVLFIDEIHRLNKA 101

>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 = 61.7 bits (148), Expect = 3e-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

>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 = 56.7 bits (135), Expect = 9e-10
 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 = 54.8 bits (130), Expect = 4e-09
 Identities = 24/120 (20%), Positives = 40/120 (33%), Gaps = 7/120 (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      +        +  ++ G    
Sbjct: 69  AHLVAQ--ELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFV 126

>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 = 52.4 bits (125), Expect = 2e-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 = 3e-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 = 44.7 bits (104), Expect = 7e-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 = 1e-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 = 4e-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 = 39.4 bits (90), Expect = 5e-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

>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 = 39.0 bits (90), Expect = 0.001
 Identities = 21/98 (21%), Positives = 34/98 (34%), Gaps = 8/98 (8%)

Query: 328 LLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSII 387
           L+ GP G  KT +A+  A  A A F  +   +     VG     + +  +    +A  ++
Sbjct: 53  LMIGPTGVGKTEIARRLAKLANAPFIKVEATKF--TEVGYVGKEVDSIIRDLTDSAMKLV 110

Query: 388 FFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE 425
              E     A+            ER+L  LL       
Sbjct: 111 RQQEIAKNRAR------AEDVAEERILDALLPPAKNQW 142

>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

>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

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 172

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]

 Score = 36.0 bits (82), Expect = 0.004
 Identities = 14/64 (21%), Positives = 26/64 (40%)

Query: 40  LYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEK 99
           LY  ++  L    P  ++  G PG GK++ ++  +   G            +  V   + 
Sbjct: 1   LYLPESSSLLSPNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNRDTLGSWQRCVSSCQA 60

Query: 100 ALRE 103
           ALR+
Sbjct: 61  ALRQ 64

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	441
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	99.96
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	99.96
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.93
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	99.93
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.88
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.86
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.85
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.84
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.84
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.82
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.82
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.81
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.76
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.75
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.75
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.74
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.72
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.72
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.69
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.66
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.66
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.6
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.59
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.57
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.56
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.56
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.52
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.51
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.5
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.5
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.5
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.49
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.48
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.45
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.45
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.44
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.39
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.36
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	99.35
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.35
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	99.34
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.33
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.3
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.23
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.21
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.12
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.06
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.0
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.0
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.98
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.95
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	98.94
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.94
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	98.92
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	98.91
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	98.85
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.71
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	98.64
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.63
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.63
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.63
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.55
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	98.29
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	98.26
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	98.25
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	98.23
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	98.21
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	98.21
d2awna2	232	Maltose transport protein MalK, N-terminal domain	98.21
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	98.21
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	98.21
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	98.2
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	98.2
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	98.19
d2awna2	232	Maltose transport protein MalK, N-terminal domain	98.17
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	98.17
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	98.17
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	98.16
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	98.15
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	98.13
d1g2912	240	Maltose transport protein MalK, N-terminal domain	98.11
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	98.11
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	98.09
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	98.09
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	98.09
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	98.07
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	98.07
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	98.06
d1g2912	240	Maltose transport protein MalK, N-terminal domain	98.06
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	98.05
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	98.05
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	98.04
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	98.04
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	98.04
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	98.03
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	98.02
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	98.02
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	98.02
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	98.01
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	98.01
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.01
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	98.0
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	98.0
d1okkd2	207	GTPase domain of the signal recognition particle r	97.99
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	97.99
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.98
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.98
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.95
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.94
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.94
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.94
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.93
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.93
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.92
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	97.91
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.91
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	97.91
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.9
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	97.9
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	97.89
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.88
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.88
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	97.88
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	97.87
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.87
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.87
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.87
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.87
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.85
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.85
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.85
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.84
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	97.84
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.81
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.81
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.8
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.8
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.8
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.8
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.79
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.79
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.79
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.78
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.78
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.78
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.77
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.76
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	97.76
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.75
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	97.75
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	97.74
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.74
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.73
d1okkd2	207	GTPase domain of the signal recognition particle r	97.73
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.73
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	97.73
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.73
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.72
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.72
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	97.7
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.69
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.68
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.68
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	97.68
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.67
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.67
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.66
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.66
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.65
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.63
d1tuea_	205	Replication protein E1 helicase domain {Human papi	97.63
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.63
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.63
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.62
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.6
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	97.6
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.57
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.57
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.57
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	97.55
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	97.54
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.5
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.47
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.44
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.44
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.44
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.43
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	97.42
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.42
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.42
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	97.41
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.41
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.38
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	97.38
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	97.35
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.34
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	97.34
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	97.34
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.32
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.32
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.29
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.27
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	97.26
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	97.24
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.22
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.2
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.18
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	97.18
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.14
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.13
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.12
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.09
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	97.07
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	97.01
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.98
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.96
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.96
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.93
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.92
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	96.9
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	96.88
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.88
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	96.88
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	96.88
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.88
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.85
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	96.79
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	96.76
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.75
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	96.74
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	96.73
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.73
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.71
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.67
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.67
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.63
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.62
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.6
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.6
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	96.59
d1tuea_	205	Replication protein E1 helicase domain {Human papi	96.57
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.54
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.54
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	96.53
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.53
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	96.5
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	96.48
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.46
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.42
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	96.42
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.4
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	96.34
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.33
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.33
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	96.32
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.3
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	96.28
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.25
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	96.25
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	96.25
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	96.25
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.23
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	96.2
d2fh5b1	207	Signal recognition particle receptor beta-subunit	96.17
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.15
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.14
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	96.11
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.07
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	96.05
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.05
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.04
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	96.02
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	96.01
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	96.0
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.97
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.95
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	95.95
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.9
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.89
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.89
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.88
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.84
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.84
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.84
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	95.83
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.82
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.81
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.8
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.8
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.79
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.79
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	95.78
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	95.77
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.73
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	95.73
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.72
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.71
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.71
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.67
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.63
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.63
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.63
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	95.63
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.62
d1nrjb_	209	Signal recognition particle receptor beta-subunit	95.6
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.59
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.58
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.55
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	95.53
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.52
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.51
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.49
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	95.49
d1nrjb_	209	Signal recognition particle receptor beta-subunit	95.48
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	95.46
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.43
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	95.43
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.43
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	95.41
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.4
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.38
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.37
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	95.37
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	95.35
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.35
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.33
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.32
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.3
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.3
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	95.29
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	95.29
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.29
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	95.24
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	95.22
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.22
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	95.22
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	95.21
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	95.21
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.2
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	95.17
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	95.16
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	95.16
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	95.16
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	95.15
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	95.14
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	95.11
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	95.1
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.1
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	95.1
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	95.07
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.07
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	95.02
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.01
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.99
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.98
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	94.96
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	94.96
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.94
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.94
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.92
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.92
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	94.92
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	94.9
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	94.9
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	94.9
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	94.89
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	94.89
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	94.89
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	94.88
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.87
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.86
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	94.81
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	94.81
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	94.8
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.78
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	94.78
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.78
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.77
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.74
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.73
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.73
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.72
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	94.71
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	94.7
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	94.69
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	94.67
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	94.67
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.62
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	94.6
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	94.58
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.56
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.56
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.54
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	94.54
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	94.53
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	94.47
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	94.47
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	94.44
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.4
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.4
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	94.38
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	94.37
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	94.33
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	94.3
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	94.28
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.27
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	94.27
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.26
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	94.26
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	94.26
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	94.21
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.21
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	94.18
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.13
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.13
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.12
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	94.11
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	94.1
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.07
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.05
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.02
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	94.01
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	94.01
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	94.01
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.01
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	94.0
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	93.99
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	93.99
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	93.98
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.97
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	93.95
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	93.95
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.95
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	93.95
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	93.94
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	93.93
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	93.93
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	93.9
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.9
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	93.85
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	93.85
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	93.84
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.81
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	93.8
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	93.71
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	93.68
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	93.65
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	93.62
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	93.51
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	93.51
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	93.48
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.47
d1xpua3	289	Transcription termination factor Rho, ATPase domai	93.43
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	93.41
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	93.31
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	93.29
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	93.24
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	93.2
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	93.18
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	93.16
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	93.02
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	93.0
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	92.95
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	92.9
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	92.8
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	92.74
d1xpua3	289	Transcription termination factor Rho, ATPase domai	92.64
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	92.6
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	92.58
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	92.52
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	92.51
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	92.47
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.35
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.3
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	92.21
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	92.16
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	92.07
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	91.9
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	91.84
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	91.73
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	91.68
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	91.62
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	91.61
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	91.32
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	91.14
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	91.12
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	90.85
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	90.77
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	90.67
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	90.66
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	90.49
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	90.46
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	90.45
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	90.45
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	90.33
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	90.2

>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=8.9e-37  Score=264.02  Aligned_cols=240  Identities=36%  Similarity=0.578  Sum_probs=202.1

Q ss_pred             cccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc
Q 013506           12 NEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK   91 (441)
Q Consensus        12 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~   91 (441)
                      ++.|   +|++|++++|++|.+.+.. +.+++.++++|..+++++||+||||||||++|+++|++++.+++.+++..+.+
T Consensus         8 ~~t~---~Di~Gl~~~k~~l~e~v~~-~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~~   83 (256)
T d1lv7a_           8 KTTF---ADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVE   83 (256)
T ss_dssp             CCCG---GGSCSCHHHHHHTHHHHHH-HHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTT
T ss_pred             CCCH---HHHhchHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhhh
Confidence            4446   9999999999999998865 67788889999999999999999999999999999999999999999999999


Q ss_pred             ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC----chhhHHHHHHHHHHHhcCCCCCCCCCeEEEEE
Q 013506           92 AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR----REQDVRIASQLFTLMDSNKPSKTSVPHVVVVA  167 (441)
Q Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~  167 (441)
                      .+.++....+..+|+.+...    .|+||||||+|.+++..+..    .....+....++..++.....    .++++|+
T Consensus        84 ~~~g~~~~~l~~~f~~A~~~----~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~----~~v~vIa  155 (256)
T d1lv7a_          84 MFVGVGASRVRDMFEQAKKA----APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN----EGIIVIA  155 (256)
T ss_dssp             SCCCCCHHHHHHHHHHHHTT----CSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSS----SCEEEEE
T ss_pred             cchhHHHHHHHHHHHHHHHc----CCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCC----CCEEEEE
Confidence            99999999999999888654    59999999999998754322    123345677888888865432    3689999


Q ss_pred             EcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHh
Q 013506          168 STNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKR  247 (441)
Q Consensus       168 ~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~  247 (441)
                      |||.++.+|+++.|++||+..+++++|+.++|.+|++.++.+.....+.++..++..+.||+++++..++++|...+.++
T Consensus       156 tTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t~G~s~adi~~l~~~A~~~a~~~  235 (256)
T d1lv7a_         156 ATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARG  235 (256)
T ss_dssp             EESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHT
T ss_pred             eCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcccCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999998888889999999999999999999999998777654


Q ss_pred             cccccccccceeeeHhhHHhhhhh
Q 013506          248 SSDANECAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       248 ~~~~~~~~~~~~~~~e~~~~~~~~  271 (441)
                      ..        ..++.+|+..+..+
T Consensus       236 ~~--------~~i~~~d~~~Al~r  251 (256)
T d1lv7a_         236 NK--------RVVSMVEFEKAKDK  251 (256)
T ss_dssp             TC--------SSBCHHHHHHHHHH
T ss_pred             CC--------CccCHHHHHHHHHH
Confidence            32        24677787777654

>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=6.8e-37  Score=263.88  Aligned_cols=238  Identities=37%  Similarity=0.603  Sum_probs=202.5

Q ss_pred             ccccccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccc
Q 013506           11 HNEKWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH   90 (441)
Q Consensus        11 ~~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~   90 (441)
                      |++.|   ++|+|++++|++|++++.. +.+++.+.++|..+++++||+||||||||++|++++++++.+++.+++..+.
T Consensus         4 p~~~~---~di~G~~~~k~~l~~~i~~-l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~   79 (247)
T d1ixza_           4 PKVTF---KDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFV   79 (247)
T ss_dssp             CSCCG---GGCCSCHHHHHHHHHHHHH-HHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHH
T ss_pred             CCCcH---HHHccHHHHHHHHHHHHHH-HHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhh
Confidence            55566   8999999999999997765 7788899999999999999999999999999999999999999999999999


Q ss_pred             cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCC----CchhhHHHHHHHHHHHhcCCCCCCCCCeEEEE
Q 013506           91 KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDH----RREQDVRIASQLFTLMDSNKPSKTSVPHVVVV  166 (441)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi  166 (441)
                      +.+.++..+.+..+|+.+...    .|+||||||+|.++.....    ........+..|+..++....    .+++++|
T Consensus        80 ~~~~g~~~~~l~~~f~~a~~~----~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~----~~~vivi  151 (247)
T d1ixza_          80 EMFVGVGAARVRDLFETAKRH----APCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK----DTAIVVM  151 (247)
T ss_dssp             HSCTTHHHHHHHHHHHHHTTS----SSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCT----TCCEEEE
T ss_pred             hccccHHHHHHHHHHHHHHHc----CCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCC----CCCEEEE
Confidence            999999999999999887643    4999999999999765432    122334567788888886542    2368999


Q ss_pred             EEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q 013506          167 ASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVK  246 (441)
Q Consensus       167 ~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~  246 (441)
                      +|||.++.+|+++.|++||+..++++.|+.++|.+|++.++.......+.++..++..+.||++++|..+++.|...+.+
T Consensus       152 ~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~~~~la~~t~g~s~~di~~lv~~A~l~a~~  231 (247)
T d1ixza_         152 AATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAR  231 (247)
T ss_dssp             EEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHH
T ss_pred             EeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccCHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Confidence            99999999999999989999999999999999999999999988888888899999999999999999999999877766


Q ss_pred             hcccccccccceeeeHhhHHhh
Q 013506          247 RSSDANECAGVLSVTMEDWRHA  268 (441)
Q Consensus       247 ~~~~~~~~~~~~~~~~e~~~~~  268 (441)
                      +..        ..++.+|+..+
T Consensus       232 ~~~--------~~i~~~d~~~A  245 (247)
T d1ixza_         232 EGR--------RKITMKDLEEA  245 (247)
T ss_dssp             TTC--------SSBCHHHHHHH
T ss_pred             cCC--------CCcCHHHHHHh
Confidence            532        24677777654

>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=1.9e-36  Score=264.49  Aligned_cols=224  Identities=46%  Similarity=0.788  Sum_probs=198.9

Q ss_pred             cccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccch
Q 013506           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGES   97 (441)
Q Consensus        18 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~   97 (441)
                      +++|+|++++|+.|++.+..|+.+++.+.+.|+++++++||+||||||||+++++++.+++.+++.+++..+...+.+..
T Consensus         3 ~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~g~~   82 (258)
T d1e32a2           3 YDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGES   82 (258)
T ss_dssp             GGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCTTHH
T ss_pred             hhhhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhcccccccH
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCC-chhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccC
Q 013506           98 EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHR-REQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAID  176 (441)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~  176 (441)
                      ...+..+|..+...    .|+||||||+|.+++..... ++........++..++...    ..+++++|+|||.++.+|
T Consensus        83 ~~~l~~~f~~A~~~----~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~----~~~~vlvi~tTn~~~~ld  154 (258)
T d1e32a2          83 ESNLRKAFEEAEKN----APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLK----QRAHVIVMAATNRPNSID  154 (258)
T ss_dssp             HHHHHHHHHHHHHT----CSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC----CSSCEEEEEEESCGGGSC
T ss_pred             HHHHHHHHHHHHhc----CCeEEEehhhhhhccCCCCCCCchHHHHHHHhcccccccc----ccCCccEEEeCCCccccc
Confidence            99999999887754    59999999999998765422 2334456666666666543    333699999999999999


Q ss_pred             HHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcc
Q 013506          177 PALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSS  249 (441)
Q Consensus       177 ~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~  249 (441)
                      ++++|+|||+..++++.|+.++|.+|++.+++......+.++..++..+.||++++|..+++.|...+.++..
T Consensus       155 ~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t~G~s~adl~~lv~~A~~~a~~~~~  227 (258)
T d1e32a2         155 PALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKM  227 (258)
T ss_dssp             GGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCCHHHHHHHCTTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhcccccceeECCCCCHHHHHHHhhhhccCcccccccchhhhhhcccCCCHHHHHHHHHHHHHHHHHhhc
Confidence            9999999999999999999999999999999988888888899999999999999999999999888776653

>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=4.7e-35  Score=256.18  Aligned_cols=224  Identities=36%  Similarity=0.614  Sum_probs=189.8

Q ss_pred             cccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccch
Q 013506           18 EEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGES   97 (441)
Q Consensus        18 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~   97 (441)
                      |++|+|++++|++|.+.+..|+.+++.+.++|+++++++||+||||||||++++++|++++.+++.+++..+...+.+..
T Consensus         6 f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~~~~~~   85 (265)
T d1r7ra3           6 WEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGES   85 (265)
T ss_dssp             CSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTSCTTTH
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhccccch
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCc----hhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCC
Q 013506           98 EKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR----EQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD  173 (441)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~  173 (441)
                      ...++.+|..+...    .|+||||||+|.++.......    ....+....++..++....    ..++++|+|||.++
T Consensus        86 ~~~l~~~f~~A~~~----~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~----~~~v~vi~ttn~~~  157 (265)
T d1r7ra3          86 EANVREIFDKARQA----APCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST----KKNVFIIGATNRPD  157 (265)
T ss_dssp             HHHHHHHHHHHHHT----CSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC----------CCEEEECCBSCT
T ss_pred             HHHHHHHHHHHHhc----CCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCC----CCCEEEEEeCCCch
Confidence            99999999887754    499999999999987542211    1223355666666654432    22589999999999


Q ss_pred             ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHHhcc
Q 013506          174 AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVKRSS  249 (441)
Q Consensus       174 ~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~~~~  249 (441)
                      .+|+++.|++||+..++++.|+.++|.+||+.++++.....+.++..++..+.||++++|..+++.|...+.++..
T Consensus       158 ~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~~~l~~la~~t~g~s~~di~~lv~~A~~~A~~~~~  233 (265)
T d1r7ra3         158 IIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESI  233 (265)
T ss_dssp             TTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC----CCCCHHHHHHHCSSCCHHHHHHHHHHHHHHHHHC-
T ss_pred             hCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCchhhhhHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999888777788899999999999999999999999888876653

>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=99.96  E-value=1.5e-29  Score=217.71  Aligned_cols=152  Identities=39%  Similarity=0.663  Sum_probs=131.0

Q ss_pred             cCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh
Q 013506          284 IPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (441)
Q Consensus       284 ~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~  363 (441)
                      .|..+|++++|++.+|+.+.+.+.. +.+...+.+.+..++.++||+||||||||++|+++|+.++.+++.++++++.++
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            4667899999999999999988764 667777888898889999999999999999999999999999999999999999


Q ss_pred             ccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          364 YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       364 ~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      |+|++++.++++|+.|+...||||||||+|++++.|+....+.+....+++++||++||++.....|+|+|||
T Consensus        82 ~~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tT  154 (247)
T d1ixza_          82 FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAAT  154 (247)
T ss_dssp             CTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEE
T ss_pred             cccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeC
Confidence            9999999999999999999999999999999999988766666667789999999999999887777777654

>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=99.96  E-value=2.4e-29  Score=217.15  Aligned_cols=153  Identities=37%  Similarity=0.630  Sum_probs=134.1

Q ss_pred             ccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh
Q 013506          283 EIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (441)
Q Consensus       283 ~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~  362 (441)
                      +.+..+|++++|++.+++.+.+.+.. +.+...+.+.+..++.++||+||||||||++|+++|+.++.+++.++++++.+
T Consensus         5 ~~~~~t~~Di~Gl~~~k~~l~e~v~~-~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~~l~~   83 (256)
T d1lv7a_           5 DQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVE   83 (256)
T ss_dssp             CSSCCCGGGSCSCHHHHHHTHHHHHH-HHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSSTT
T ss_pred             CCCCCCHHHHhchHHHHHHHHHHHHH-HHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhHHhhh
Confidence            34567899999999999999998865 66777788888889999999999999999999999999999999999999999


Q ss_pred             hccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          363 MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       363 ~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      +|+|+++++++++|+.|....||||||||+|++++.|+....+......+++++||++||++.+...|+|+|||
T Consensus        84 ~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatT  157 (256)
T d1lv7a_          84 MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAAT  157 (256)
T ss_dssp             SCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEE
T ss_pred             cchhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCCCCEEEEEeC
Confidence            99999999999999999999999999999999999988776666677789999999999999887777777654

>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=99.93  E-value=8.6e-27  Score=203.38  Aligned_cols=152  Identities=45%  Similarity=0.848  Sum_probs=133.2

Q ss_pred             CccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhc
Q 013506          285 PKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMY  364 (441)
Q Consensus       285 ~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~  364 (441)
                      |..+|++++|++++++.+.+.+..++.+...+.+.+..++.++||+||||||||++|+++|..++.+++.++.+++.+.|
T Consensus         2 p~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~~   81 (265)
T d1r7ra3           2 PQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMW   81 (265)
T ss_dssp             CCCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTSC
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhcc
Confidence            56789999999999999999998888888888899999999999999999999999999999999999999999999999


Q ss_pred             cCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          365 VGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       365 ~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .|+++..++.+|..|+...||+|||||+|.++..|+...++.....+++++.||++||++.....|+|+|||
T Consensus        82 ~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~tt  153 (265)
T d1r7ra3          82 FGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGAT  153 (265)
T ss_dssp             TTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECC
T ss_pred             ccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCCCCCEEEEEeC
Confidence            999999999999999999999999999999999887665555566788999999999998776655555554

>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=99.93  E-value=7.1e-26  Score=197.05  Aligned_cols=146  Identities=41%  Similarity=0.683  Sum_probs=135.1

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCc
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGE  367 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~  367 (441)
                      .|++++|++..|+.+.+.+..++.+...+.+.+..++.++||+||||||||++++++|..++.+++.++++++.+.|+|+
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            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          368 SEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       368 ~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ++..++.+|+.|....||||||||+|.++++|+..   .++...++++.++..+++......|+|+|||
T Consensus        82 ~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~---~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tT  147 (258)
T d1e32a2          82 SESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKT---HGEVERRIVSQLLTLMDGLKQRAHVIVMAAT  147 (258)
T ss_dssp             HHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHC---CCTTHHHHHHHHHHHHHTCCCSSCEEEEEEE
T ss_pred             HHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCC---CCchHHHHHHHhccccccccccCCccEEEeC
Confidence            99999999999999999999999999999988653   3344678999999999998888887777665

>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=99.88  E-value=5.1e-24  Score=186.83  Aligned_cols=118  Identities=16%  Similarity=0.131  Sum_probs=90.1

Q ss_pred             hhhhcCCCCC-ceEEEECCCCCcHHHHHHHHHHHcC--CceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEec
Q 013506          315 AFSRLGISPV-RGALLHGPPGCSKTTLAKAAAHAAE--ASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDE  391 (441)
Q Consensus       315 ~~~~~~~~~~-~~~ll~Gp~GtGKTtla~~la~~~~--~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE  391 (441)
                      ....++.+++ +++||+||||||||.+|+++|..++  .+++.+++++++++|+|++++.++.+|+.|+.  ||||||||
T Consensus       113 ~~~~~~~~~~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~--~~ilf~DE  190 (321)
T d1w44a_         113 VAEFGGHRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ--HRVIVIDS  190 (321)
T ss_dssp             EEEETTEEEESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH--CSEEEEEC
T ss_pred             HHHHhhcccCCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHhh--ccEEEeeh
Confidence            3344444444 4456689999999999999999986  67899999999999999999999999999974  78999999


Q ss_pred             ccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          392 ADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       392 ~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ||.+.+.|+.++  ..+..+|++++||++||++.....|+|+|||
T Consensus       191 id~~~~~r~~~~--~~~~~~r~v~~lL~e~dg~~~~~~v~viaat  233 (321)
T d1w44a_         191 LKNVIGAAGGNT--TSGGISRGAFDLLSDIGAMAASRGCVVIASL  233 (321)
T ss_dssp             CTTTC-------------CCHHHHHHHHHHHHHHHHHTCEEEEEC
T ss_pred             hhhhccccccCC--CCCcchhhhhhhhhhccccccCCCeEEEEeC
Confidence            999999987543  2344579999999999999885555555554

>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=99.86  E-value=1.6e-21  Score=167.49  Aligned_cols=167  Identities=20%  Similarity=0.273  Sum_probs=116.8

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccch-HHHHHHHHHHHHhhhhcCCCeEEEEccccc
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGES-EKALREAFSQASSHALSGKPSVVFIDEIDA  127 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~il~iDe~~~  127 (441)
                      ...+++++||+||||||||++|+++|++++.+++.+++.+....+.+.. .+.++.+|..+...    +|+||||||+|.
T Consensus        36 ~~~p~~~vLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~g~~~~~~~~~i~~if~~A~~~----~p~il~iDEid~  111 (246)
T d1d2na_          36 DRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKS----QLSCVVVDDIER  111 (246)
T ss_dssp             SSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHHHHHHHHHHHHHTS----SEEEEEECCHHH
T ss_pred             CCCCCeEEEEECcCCCCHHHHHHHHhhcccccccccccccccccccccchhhhhhhhhhhhhhc----ccceeehhhhhh
Confidence            3456789999999999999999999999999999998876544443333 35577778777643    589999999999


Q ss_pred             cccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHH-HhhCCccceEEEecCCC-HHHHHHHHHH
Q 013506          128 LCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPA-LRRSGRFDAEVEVTVPT-AEERFEILKL  205 (441)
Q Consensus       128 l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~-l~~~~r~~~~i~~~~p~-~~~~~~il~~  205 (441)
                      +++............+..++..++....   ...+++||+|||.++.+++. +.+  ||+..+++|.++ .+++.+++..
T Consensus       112 l~~~~~~~~~~~~~~~~~ll~~l~~~~~---~~~~v~vi~tTn~~~~ld~~~~~~--rF~~~i~~P~~~~r~~il~~l~~  186 (246)
T d1d2na_         112 LLDYVPIGPRFSNLVLQALLVLLKKAPP---QGRKLLIIGTTSRKDVLQEMEMLN--AFSTTIHVPNIATGEQLLEALEL  186 (246)
T ss_dssp             HTTCBTTTTBCCHHHHHHHHHHTTCCCS---TTCEEEEEEEESCHHHHHHTTCTT--TSSEEEECCCEEEHHHHHHHHHH
T ss_pred             HhhhcccccchhHHHHHHHHHHhcCCCc---cccceeeeeccCChhhccchhhcC--ccceEEecCCchhHHHHHHHHHh
Confidence            9876655444455677788888776543   23368999999999988865 444  999888886553 3333333332


Q ss_pred             HhccCCCCCcccHHHHHHHCCCC
Q 013506          206 YTKKVPLDANVDLEAIATSCNGY  228 (441)
Q Consensus       206 ~~~~~~~~~~~~~~~l~~~~~g~  228 (441)
                      .   . .....+...++..+.|.
T Consensus       187 ~---~-~~~~~~~~~i~~~~~g~  205 (246)
T d1d2na_         187 L---G-NFKDKERTTIAQQVKGK  205 (246)
T ss_dssp             H---T-CSCHHHHHHHHHHHTTS
T ss_pred             c---c-CCChHHHHHHHHHcCCC
Confidence            2   1 12233355556655553

>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=99.85  E-value=1.2e-19  Score=156.62  Aligned_cols=195  Identities=22%  Similarity=0.284  Sum_probs=139.4

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      .+|++++|++++++.|..++.....        .-....++||+||||||||++|++++++++.++..+++.....    
T Consensus         6 ~~~~divGqe~~~~~l~~~i~~~~~--------~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~~----   73 (238)
T d1in4a2           6 KSLDEFIGQENVKKKLSLALEAAKM--------RGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVK----   73 (238)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHHHHH--------HTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCS----
T ss_pred             CcHHHcCChHHHHHHHHHHHHHHHh--------cCCCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCccccc----
Confidence            4679999999999999999865311        1123468999999999999999999999999999888766432    


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCC------------CCCCeE
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK------------TSVPHV  163 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~------------~~~~~~  163 (441)
                        ...+...+..      ..+..++++||++.+.+          ...+.+...++......            ....++
T Consensus        74 --~~~~~~~~~~------~~~~~~~~ide~~~~~~----------~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  135 (238)
T d1in4a2          74 --QGDMAAILTS------LERGDVLFIDEIHRLNK----------AVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPF  135 (238)
T ss_dssp             --HHHHHHHHHH------CCTTCEEEEETGGGCCH----------HHHHHHHHHHHTSCCCC---------------CCC
T ss_pred             --HHHHHHHHHh------hccCCchHHHHHHHhhh----------HHHhhcccceeeeeeeeeecCcccccccccCCCCe
Confidence              1222222221      23468999999998732          33444555554322110            112357


Q ss_pred             EEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHHHHH
Q 013506          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVGADLEALCREATM  242 (441)
Q Consensus       164 ~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~a~~  242 (441)
                      ++|++|+.+..+++.+++  ||...+.++.|+.+++..+++............+ +..++..+.| ..+.+.++++.+..
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            889999999999999998  9988899999999999999998888777665444 6777777765 56666666665543


Q ss_pred             H
Q 013506          243 S  243 (441)
Q Consensus       243 ~  243 (441)
                      .
T Consensus       213 ~  213 (238)
T d1in4a2         213 M  213 (238)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.84  E-value=2.5e-21  Score=172.59  Aligned_cols=188  Identities=22%  Similarity=0.325  Sum_probs=136.2

Q ss_pred             ccccc-ccchHHHHHHHHHHHHhhccCchHHHhc-CCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccc-
Q 013506           16 KAEEA-IGGNRAAVEALRELITFPLLYSSQAQKL-GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA-   92 (441)
Q Consensus        16 ~~~~~-i~G~~~~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~-   92 (441)
                      ..|++ |+||+++|+.|..++..++.+....... .-.++.++||+||||||||.+|+++|+.++.+++.+++..+... 
T Consensus        10 ~~L~~~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~   89 (309)
T d1ofha_          10 SELDQHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVG   89 (309)
T ss_dssp             HHHHTTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCC
T ss_pred             HHhcCcccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccce
Confidence            34455 8999999999999886544333222111 11256899999999999999999999999999999999998744 


Q ss_pred             -cccchHHHHHHHHHHHHhhhh-cCCCeEEEEccccccccCCCCCchh--hHHHHHHHHHHHhcCCCCCC----CCCeEE
Q 013506           93 -HVGESEKALREAFSQASSHAL-SGKPSVVFIDEIDALCPRRDHRREQ--DVRIASQLFTLMDSNKPSKT----SVPHVV  164 (441)
Q Consensus        93 -~~~~~~~~~~~~~~~~~~~~~-~~~~~il~iDe~~~l~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~----~~~~~~  164 (441)
                       +.+.....++.+|..+..... ..+|+|+||||+|.+.+........  ....+..|+..++.......    ...++.
T Consensus        90 ~~~~~~~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~~~~~i~~s~il  169 (309)
T d1ofha_          90 YVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHIL  169 (309)
T ss_dssp             SGGGSTTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCE
T ss_pred             eEeeeccccccccchhhhcccccccCCceEEehhhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEecCCeEEEcccee
Confidence             567777778888876543211 1237899999999998876543322  33466778888886322111    012355


Q ss_pred             EEEE----cCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHH
Q 013506          165 VVAS----TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKL  205 (441)
Q Consensus       165 vi~~----~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~  205 (441)
                      ++++    ++.+..++|++..  ||+..+.+++|+..++.+|+..
T Consensus       170 fi~~ga~~~~~~~~~~p~l~~--R~~~~i~~~~~~~~~~~~Il~~  212 (309)
T d1ofha_         170 FIASGAFQVARPSDLIPELQG--RLPIRVELTALSAADFERILTE  212 (309)
T ss_dssp             EEEEECCSSSCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHS
T ss_pred             EEeccchhhcCcccchhhhhh--hhheeeeccCCCHHHHHHHHHH
Confidence            6665    4667788999987  9999999999999999999763

>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=99.84  E-value=3e-21  Score=165.72  Aligned_cols=113  Identities=17%  Similarity=0.206  Sum_probs=93.2

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCch-HHHHHHHHHHHHhcCCeEEEEecccccccc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGES-EALLRNTFQRARLAAPSIIFFDEADVVGAK  398 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~-~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~  398 (441)
                      ...|+.++||+||||||||++|+++|..++.+++.++.++.+..+.+.+ .+.++++|+.|....||||||||+|++++.
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            4456789999999999999999999999999999999988777666655 467999999999999999999999999877


Q ss_pred             cCCCCCCCcchhhHHHHHHHHHhcCCCCCC-eEEEEeee
Q 013506          399 RGGSSSTSITVGERLLSTLLTEMDGLEQAK-VIIYPISF  436 (441)
Q Consensus       399 r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~-~v~~~~~~  436 (441)
                      +..+    .....+++++|++.|++....+ .|+|+|||
T Consensus       116 ~~~~----~~~~~~~~~~ll~~l~~~~~~~~~v~vi~tT  150 (246)
T d1d2na_         116 VPIG----PRFSNLVLQALLVLLKKAPPQGRKLLIIGTT  150 (246)
T ss_dssp             BTTT----TBCCHHHHHHHHHHTTCCCSTTCEEEEEEEE
T ss_pred             cccc----cchhHHHHHHHHHHhcCCCccccceeeeecc
Confidence            6542    2335688999999999986543 45555443

>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=99.82  E-value=5.8e-23  Score=180.09  Aligned_cols=160  Identities=18%  Similarity=0.179  Sum_probs=122.3

Q ss_pred             cCchHHHhcCCCCCcEE-EEEcCCCCcHHHHHHHHHHHhC--CcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCC
Q 013506           40 LYSSQAQKLGLKWPRGL-LLYGPPGTGKTSLVRAVVRECG--AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGK  116 (441)
Q Consensus        40 ~~~~~~~~~~~~~~~~v-ll~Gp~GtGKT~l~~~l~~~l~--~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (441)
                      ..+..++.++...++++ ||+||||||||.+|+++|.+++  .+++.+++.++.+.+.|+.++.++.+|+.+..      
T Consensus       109 ~~~~~~~~~~~~~~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~------  182 (321)
T d1w44a_         109 CSPVVAEFGGHRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ------  182 (321)
T ss_dssp             BCCEEEEETTEEEESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH------
T ss_pred             cchHHHHHhhcccCCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHhh------
Confidence            35566667766656665 5589999999999999999986  57899999999999999999999999998863      


Q ss_pred             CeEEEEccccccccCCCCCc--hhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCC---CccCHHHhhCCccceEEEe
Q 013506          117 PSVVFIDEIDALCPRRDHRR--EQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRV---DAIDPALRRSGRFDAEVEV  191 (441)
Q Consensus       117 ~~il~iDe~~~l~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~---~~l~~~l~~~~r~~~~i~~  191 (441)
                      ++||||||+|.+.+......  ....+.+.+++..++.....    .++++|++||+.   ..+++++.+++||+..+.+
T Consensus       183 ~~ilf~DEid~~~~~r~~~~~~~~~~r~v~~lL~e~dg~~~~----~~v~viaatN~~~~~~~i~~~~~r~~Rf~~~v~v  258 (321)
T d1w44a_         183 HRVIVIDSLKNVIGAAGGNTTSGGISRGAFDLLSDIGAMAAS----RGCVVIASLNPTSNDDKIVELVKEASRSNSTSLV  258 (321)
T ss_dssp             CSEEEEECCTTTC-----------CCHHHHHHHHHHHHHHHH----HTCEEEEECCCCCCCHHHHHHHHHHHHHSCSEEE
T ss_pred             ccEEEeehhhhhccccccCCCCCcchhhhhhhhhhccccccC----CCeEEEEeCCCcccccchhhhhhccCcccceeec
Confidence            78999999999987764322  22346788888888754322    148999999963   2356667788999999999


Q ss_pred             cCCCHHHHHHHHHHHhcc
Q 013506          192 TVPTAEERFEILKLYTKK  209 (441)
Q Consensus       192 ~~p~~~~~~~il~~~~~~  209 (441)
                      +.|+.+.+.+|+..+...
T Consensus       259 ~~pd~~~r~~il~~~~~~  276 (321)
T d1w44a_         259 ISTDVDGEWQVLTRTGEG  276 (321)
T ss_dssp             EECSSTTEEEEEEECBTT
T ss_pred             CCCChHHHHHHHHHhccC
Confidence            999999998887655443

>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=99.82  E-value=5.5e-21  Score=170.32  Aligned_cols=131  Identities=24%  Similarity=0.290  Sum_probs=101.6

Q ss_pred             cccCchhHHHHHHHHHhcccCCch--hhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhh--hhccC
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHST--AFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY--SMYVG  366 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~--~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~--~~~~g  366 (441)
                      .+.|++++++.+...+.....+..  ...+ ...|++++||+||||||||++|+++|+.++.+++.++++++.  +.|.|
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~-~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~~~~~   93 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLR-HEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   93 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHH-HHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGG
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCc-cCCCCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccceeEee
Confidence            367999999999877632211111  1111 123668999999999999999999999999999999999997  45889


Q ss_pred             chHHHHHHHHHHHHhc-----CCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCC
Q 013506          367 ESEALLRNTFQRARLA-----APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGL  424 (441)
Q Consensus       367 ~~~~~~~~~~~~a~~~-----~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~  424 (441)
                      +++..++.+|..|+..     .|||+||||+|++++++.+..  .+...+.++++||+.|||.
T Consensus        94 ~~~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~~~~--~~~~~~gv~~~LL~~~dg~  154 (309)
T d1ofha_          94 EVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSG--ADVSREGVQRDLLPLVEGS  154 (309)
T ss_dssp             STTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCS--SHHHHHHHHHHHHHHHHCC
T ss_pred             eccccccccchhhhcccccccCCceEEehhhhhhhhhccCcc--cchhhhHHHHHhhHHhcCC
Confidence            9999999999998642     478999999999998765532  2333456899999999984

>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=99.81  E-value=7.3e-19  Score=151.60  Aligned_cols=194  Identities=23%  Similarity=0.292  Sum_probs=133.2

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVG   95 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~   95 (441)
                      .+|++++|++++++.|..++.....        +-.+..++||+||||||||++|++++++++.++..+++......   
T Consensus         6 ~~~ddivGq~~~~~~L~~~i~~~~~--------~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~~---   74 (239)
T d1ixsb2           6 KTLDEYIGQERLKQKLRVYLEAAKA--------RKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP---   74 (239)
T ss_dssp             CSGGGSCSCHHHHHHHHHHHHHHTT--------SSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCSH---
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHh--------cCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCccccc---
Confidence            4679999999999999999865321        11245789999999999999999999999999988887654321   


Q ss_pred             chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCC------------CCCCCCeE
Q 013506           96 ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP------------SKTSVPHV  163 (441)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~------------~~~~~~~~  163 (441)
                         .........     ......++++||+|.+.+          .....++..++....            .....+++
T Consensus        75 ---~~~~~~~~~-----~~~~~~i~~iDe~~~~~~----------~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~  136 (239)
T d1ixsb2          75 ---GDLAAILAN-----SLEEGDILFIDEIHRLSR----------QAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRF  136 (239)
T ss_dssp             ---HHHHHHHHT-----TCCTTCEEEEETGGGCCH----------HHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCC
T ss_pred             ---hhhHHHHHh-----hccCCCeeeeecccccch----------hHHHhhhhhhhhhhhhhhhccchhhhhcccCCCCE
Confidence               111111111     123467999999998732          334444444432110            00122456


Q ss_pred             EEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCHHHHHHHHHHHH
Q 013506          164 VVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVGADLEALCREAT  241 (441)
Q Consensus       164 ~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~~~i~~l~~~a~  241 (441)
                      +++++|+.+....+..++  ++...+.+..|+.+++.+++...+.......+. .+..++..+.| ..+...++++.+.
T Consensus       137 ~~i~~~~~~~~~~~~~l~--~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~~~~~l~~ia~~s~g-d~R~a~~~l~~~~  212 (239)
T d1ixsb2         137 TLIGATTRPGLITAPLLS--RFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRG-TMRVAKRLFRRVR  212 (239)
T ss_dssp             EEEEEESCCSSCSCGGGG--GCSEEEECCCCCHHHHHHHHHHHHGGGCCCBCHHHHHHHHHHTTS-SHHHHHHHHHHHH
T ss_pred             EEEeeccCcccccchhhc--ccceeeEeeccChhhhhHHHHHHHHHhCCccchHHHHHHHHHcCC-CHHHHHHHHHHHH
Confidence            788888888777766666  666789999999999999999888776655443 47788888887 4555555555443

>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=99.76  E-value=1e-17  Score=143.47  Aligned_cols=183  Identities=21%  Similarity=0.227  Sum_probs=129.7

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC-----cEEEEccCccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HLTVISPHSVH   90 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~-----~~~~v~~~~~~   90 (441)
                      ..+++++|++++++.|..++...             ...++||+||||+|||++|+.+++++..     .++++++.+..
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            57899999999999999998541             2357999999999999999999998743     56777765422


Q ss_pred             cccccchHHHHHHHHHHHHh--hhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEE
Q 013506           91 KAHVGESEKALREAFSQASS--HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAS  168 (441)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~  168 (441)
                      .      ...+...+.....  .....++.++++||++.+..          .....++..++....      ++.+|++
T Consensus        88 ~------~~~~~~~~~~~~~~~~~~~~~~~iilide~d~~~~----------~~~~~ll~~l~~~~~------~~~~i~~  145 (231)
T d1iqpa2          88 G------INVIREKVKEFARTKPIGGASFKIIFLDEADALTQ----------DAQQALRRTMEMFSS------NVRFILS  145 (231)
T ss_dssp             H------HHTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCH----------HHHHHHHHHHHHTTT------TEEEEEE
T ss_pred             c------hhHHHHHHHHHHhhhhccCCCceEEeehhhhhcch----------hHHHHHhhhcccCCc------ceEEEec
Confidence            1      1111222222211  11233568999999997732          345566666665332      5788899


Q ss_pred             cCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCC-cccHHHHHHHCCCCCHHHHHHHH
Q 013506          169 TNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA-NVDLEAIATSCNGYVGADLEALC  237 (441)
Q Consensus       169 ~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~-~~~~~~l~~~~~g~~~~~i~~l~  237 (441)
                      +|....+++.+.+  |+. .+.+++|+..+...+++..+.+..... +..++.++..+.| ..|.+-..+
T Consensus       146 ~n~~~~i~~~l~s--R~~-~i~~~~~~~~~~~~~l~~~~~~e~i~i~~~~l~~I~~~~~g-diR~ai~~L  211 (231)
T d1iqpa2         146 CNYSSKIIEPIQS--RCA-IFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEG-DMRRAINIL  211 (231)
T ss_dssp             ESCGGGSCHHHHH--TEE-EEECCCCCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTT-CHHHHHHHH
T ss_pred             cCChhhchHhHhC--ccc-cccccccchhhHHHHHHHHHHHhCCCCCHHHHHHHHHHcCC-CHHHHHHHH
Confidence            9999999999998  885 799999999999999999888776643 3346777877765 344433333

>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=99.75  E-value=4.5e-17  Score=139.76  Aligned_cols=187  Identities=18%  Similarity=0.225  Sum_probs=132.0

Q ss_pred             ccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc--------------
Q 013506           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH--------------   80 (441)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~--------------   80 (441)
                      +..|++++|++++++.|..++...            ..++.+||+||||+|||++|+.+++.+...              
T Consensus         8 P~~~~dlig~~~~~~~L~~~i~~~------------~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~   75 (239)
T d1njfa_           8 PQTFADVVGQEHVLTALANGLSLG------------RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNC   75 (239)
T ss_dssp             CSSGGGSCSCHHHHHHHHHHHHTT------------CCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHH
T ss_pred             CCCHHHccChHHHHHHHHHHHHcC------------CCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHH
Confidence            367899999999999999988541            245679999999999999999999887432              


Q ss_pred             ----------EEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHH
Q 013506           81 ----------LTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLM  150 (441)
Q Consensus        81 ----------~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~  150 (441)
                                +++++....      .....++.+.+........++..++||||+|.|          ....+..|+..+
T Consensus        76 ~~i~~~~~~~~~~~~~~~~------~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l----------~~~~q~~Llk~l  139 (239)
T d1njfa_          76 REIEQGRFVDLIEIDAASR------TKVEDTRDLLDNVQYAPARGRFKVYLIDEVHML----------SRHSFNALLKTL  139 (239)
T ss_dssp             HHHHHTCCTTEEEEETTCS------SSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGS----------CHHHHHHHHHHH
T ss_pred             HHHHcCCCCeEEEecchhc------CCHHHHHHHHHHHHhccccCCCEEEEEECcccC----------CHHHHHHHHHHH
Confidence                      233332211      112234444444333333345579999999987          345677888888


Q ss_pred             hcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCCCC
Q 013506          151 DSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNGYV  229 (441)
Q Consensus       151 ~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g~~  229 (441)
                      +...      .++.+|.+||.+..+.+.+++  |+. .+.+++|+.++..+++...+.......+ ..++.++..+.| +
T Consensus       140 E~~~------~~~~~il~tn~~~~i~~~i~S--Rc~-~i~~~~~~~~~i~~~l~~i~~~e~~~~~~~~l~~i~~~s~G-d  209 (239)
T d1njfa_         140 EEPP------EHVKFLLATTDPQKLPVTILS--RCL-QFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEG-S  209 (239)
T ss_dssp             HSCC------TTEEEEEEESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHTTT-C
T ss_pred             hcCC------CCeEEEEEcCCccccChhHhh--hhc-ccccccCcHHHhhhHHHHHHhhhccCCCHHHHHHHHHHcCC-C
Confidence            8632      257888889999999999999  884 8999999999999988887765544332 347777887776 4


Q ss_pred             HHHHHHHHHH
Q 013506          230 GADLEALCRE  239 (441)
Q Consensus       230 ~~~i~~l~~~  239 (441)
                      .|.+-++++.
T Consensus       210 ~R~ain~l~~  219 (239)
T d1njfa_         210 LRDALSLTDQ  219 (239)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>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=99.75  E-value=4.5e-17  Score=139.08  Aligned_cols=176  Identities=18%  Similarity=0.208  Sum_probs=123.4

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc-----EEEEccCccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH-----LTVISPHSVH   90 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~-----~~~v~~~~~~   90 (441)
                      ..+++++|++++++.|..++...             ...++||+||||+|||++++++++++...     +...+..+..
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            67899999999999999998541             12369999999999999999999987532     4455544322


Q ss_pred             cccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcC
Q 013506           91 KAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTN  170 (441)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~  170 (441)
                      ..    ...................+..+++|||+|.+.          ......++..++....      ++.++.+++
T Consensus        78 ~~----~~~~~~~~~~~~~~~~~~~~~kiiiiDe~d~~~----------~~~~~~Ll~~le~~~~------~~~~~~~~~  137 (227)
T d1sxjc2          78 GI----DVVRNQIKDFASTRQIFSKGFKLIILDEADAMT----------NAAQNALRRVIERYTK------NTRFCVLAN  137 (227)
T ss_dssp             SH----HHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSC----------HHHHHHHHHHHHHTTT------TEEEEEEES
T ss_pred             Ce----eeeecchhhccccccccCCCeEEEEEeccccch----------hhHHHHHHHHhhhccc------ceeeccccC
Confidence            11    111111111111112223345699999999873          3456677777776432      578888899


Q ss_pred             CCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCC
Q 013506          171 RVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNG  227 (441)
Q Consensus       171 ~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g  227 (441)
                      .+..+.+.+++  |+. .+.|++|+.++...++...+.......+. .++.++..+.|
T Consensus       138 ~~~~i~~~i~s--r~~-~i~~~~~~~~~i~~~l~~I~~~e~i~i~~~~l~~i~~~s~G  192 (227)
T d1sxjc2         138 YAHKLTPALLS--QCT-RFRFQPLPQEAIERRIANVLVHEKLKLSPNAEKALIELSNG  192 (227)
T ss_dssp             CGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHTTTCCBCHHHHHHHHHHHTT
T ss_pred             cHHHhHHHHHH--HHh-hhccccccccccccccccccccccccCCHHHHHHHHHHcCC
Confidence            99999999998  875 78999999999999999888776655433 36777777765

>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=99.74  E-value=2.4e-17  Score=140.29  Aligned_cols=176  Identities=19%  Similarity=0.229  Sum_probs=125.6

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC-----cEEEEccCccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----HLTVISPHSVH   90 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~-----~~~~v~~~~~~   90 (441)
                      ..+++++|++++++.|..++...             ...++||+||||||||++|+.++++++.     .++++++.+..
T Consensus        12 ~~~~d~ig~~~~~~~L~~~~~~~-------------~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~   78 (224)
T d1sxjb2          12 QVLSDIVGNKETIDRLQQIAKDG-------------NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDR   78 (224)
T ss_dssp             SSGGGCCSCTHHHHHHHHHHHSC-------------CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCC
T ss_pred             CCHHHhcCCHHHHHHHHHHHHcC-------------CCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccccC
Confidence            68899999999999999988541             2246999999999999999999998764     36666665432


Q ss_pred             cccccchHHHHHHHHHHHH---hhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEE
Q 013506           91 KAHVGESEKALREAFSQAS---SHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVA  167 (441)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~  167 (441)
                      .      ...+...+....   ......+..++++||+|.+.          ......++..++....      +..++.
T Consensus        79 ~------~~~i~~~~~~~~~~~~~~~~~~~kviiiDe~d~~~----------~~~~~~ll~~~e~~~~------~~~~i~  136 (224)
T d1sxjb2          79 G------IDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMT----------AGAQQALRRTMELYSN------STRFAF  136 (224)
T ss_dssp             S------HHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSC----------HHHHHTTHHHHHHTTT------TEEEEE
T ss_pred             C------ceehhhHHHHHHHhhccCCCcceEEEEEecccccc----------hhHHHHHhhhcccccc------ceeeee
Confidence            2      112222222211   11122345799999999873          2455666666665432      468888


Q ss_pred             EcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCC
Q 013506          168 STNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYV  229 (441)
Q Consensus       168 ~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~  229 (441)
                      +++....+.+.+++  |+. .+.|++|+.++...++...+.+.....+. .++.++..+.|-.
T Consensus       137 ~~~~~~~i~~~l~s--r~~-~i~~~~~~~~~i~~~l~~i~~~e~~~i~~~~l~~I~~~s~Gd~  196 (224)
T d1sxjb2         137 ACNQSNKIIEPLQS--QCA-ILRYSKLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEGDM  196 (224)
T ss_dssp             EESCGGGSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTCH
T ss_pred             ccCchhhhhhHHHH--HHH-HhhhcccchhhhHHHHHHHHHhcccCCCHHHHHHHHHHcCCcH
Confidence            88999999999998  885 79999999999999999887765554332 3677777777643

>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=99.72  E-value=6.7e-17  Score=138.12  Aligned_cols=163  Identities=23%  Similarity=0.351  Sum_probs=122.9

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~v~   85 (441)
                      ..++.++|.++..+.+.+++..             ....+++|+||||+|||++++.++..+          +..++.++
T Consensus        15 ~~ld~~igRd~Ei~~l~~iL~r-------------~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~   81 (268)
T d1r6bx2          15 GGIDPLIGREKELERAIQVLCR-------------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLD   81 (268)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECC
T ss_pred             CCCCcccChHHHHHHHHHHHhc-------------CccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEee
Confidence            4678899999999999998855             356799999999999999999999875          35688888


Q ss_pred             cCcccc--ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           86 PHSVHK--AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        86 ~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ...+..  .+.+++++.+..++......    ...||||||+|.++..+...+. +....+.|...+.+.        .+
T Consensus        82 ~~~liag~~~~g~~e~r~~~i~~~~~~~----~~iIlfiDeih~l~~~g~~~g~-~~d~a~~Lkp~L~rg--------~i  148 (268)
T d1r6bx2          82 IGSLLAGTKYRGDFEKRFKALLKQLEQD----TNSILFIDEIHTIIGAGAASGG-QVDAANLIKPLLSSG--------KI  148 (268)
T ss_dssp             CC---CCCCCSSCHHHHHHHHHHHHSSS----SCEEEEETTTTTTTTSCCSSSC-HHHHHHHHSSCSSSC--------CC
T ss_pred             echHhccCccchhHHHHHHHHHHHhhcc----CCceEEecchHHHhcCCCCCCc-cccHHHHhhHHHhCC--------CC
Confidence            888774  56888898888888876533    3689999999999876543322 223334443444432        57


Q ss_pred             EEEEEcCCCC-----ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHh
Q 013506          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYT  207 (441)
Q Consensus       164 ~vi~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~  207 (441)
                      .+|++|++.+     .-++++.+  ||. .+.++.|+.++..+|+....
T Consensus       149 ~vIgatT~eey~~~~e~d~al~r--rF~-~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         149 RVIGSTTYQEFSNIFEKDRALAR--RFQ-KIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             EEEEEECHHHHHCCCCCTTSSGG--GEE-EEECCCCCHHHHHHHHHHHH
T ss_pred             eEEEeCCHHHHHHHHhhcHHHHh--hhc-ccccCCCCHHHHHHHHHHhh
Confidence            8888887643     45788998  996 89999999999999997644

>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=99.72  E-value=1.4e-17  Score=134.18  Aligned_cols=159  Identities=21%  Similarity=0.342  Sum_probs=118.1

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEEEc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTVIS   85 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~v~   85 (441)
                      ..++.++|.++.++.+.++++.             +...+++|+||||+|||++++.+|..+          +..++.++
T Consensus        19 g~ld~~igRd~Ei~~l~~iL~r-------------~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld   85 (195)
T d1jbka_          19 GKLDPVIGRDEEIRRTIQVLQR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALD   85 (195)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHTS-------------SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEEC
T ss_pred             CCCCCCcCcHHHHHHHHHHHhc-------------cCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEee
Confidence            4568899999999999998865             356799999999999999999999865          45688888


Q ss_pred             cCcccc--ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeE
Q 013506           86 PHSVHK--AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHV  163 (441)
Q Consensus        86 ~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  163 (441)
                      ...+..  .+.++.+.++..++.+....   ....||||||+|.++..+...+.  .+..+.|...+.+.        .+
T Consensus        86 ~~~LiAg~~~rG~~E~rl~~il~e~~~~---~~~iILfIDeih~l~~~g~~~g~--~d~~~~Lkp~L~rg--------~l  152 (195)
T d1jbka_          86 MGALVAGAKYRGEFEERLKGVLNDLAKQ---EGNVILFIDELHTMVGAGKADGA--MDAGNMLKPALARG--------EL  152 (195)
T ss_dssp             HHHHHTTTCSHHHHHHHHHHHHHHHHHS---TTTEEEEEETGGGGTT------C--CCCHHHHHHHHHTT--------SC
T ss_pred             HHHHhccCCccHHHHHHHHHHHHHHhcC---CCcEEEEcchHHHHhcCCCCCCc--ccHHHHHHHHHhCC--------Cc
Confidence            887763  35567888888888776432   12569999999999865533221  13445566666653        36


Q ss_pred             EEEEEcCCCC-----ccCHHHhhCCccceEEEecCCCHHHHHHHH
Q 013506          164 VVVASTNRVD-----AIDPALRRSGRFDAEVEVTVPTAEERFEIL  203 (441)
Q Consensus       164 ~vi~~~~~~~-----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il  203 (441)
                      .+|++|.+.+     .-++++.+  ||. .+.+..|+.++..+|+
T Consensus       153 ~~IgatT~eey~~~~e~d~aL~r--rF~-~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         153 HCVGATTLDEYRQYIEKDAALER--RFQ-KVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             CEEEEECHHHHHHHTTTCHHHHT--TEE-EEECCCCCHHHHHTTC
T ss_pred             eEEecCCHHHHHHHHHcCHHHHh--cCC-EeecCCCCHHHHHHHh
Confidence            7788776543     45899999  996 8999999999987764

>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=99.69  E-value=1.7e-15  Score=130.07  Aligned_cols=192  Identities=18%  Similarity=0.202  Sum_probs=126.0

Q ss_pred             ccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh------CCcEEEEccCc
Q 013506           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC------GAHLTVISPHS   88 (441)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l------~~~~~~v~~~~   88 (441)
                      +.+|++++|++++++.|+.++...             ...+++|+||||||||++++++++++      ....+.++...
T Consensus         8 P~~~~diig~~~~~~~l~~~i~~~-------------~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~   74 (237)
T d1sxjd2           8 PKNLDEVTAQDHAVTVLKKTLKSA-------------NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASD   74 (237)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTCT-------------TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSS
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcC-------------CCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccc
Confidence            367899999999999999887431             22459999999999999999999986      34556665544


Q ss_pred             cccccccchHHHHHHHHHH--------HHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCC
Q 013506           89 VHKAHVGESEKALREAFSQ--------ASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSV  160 (441)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  160 (441)
                      .....  .....+......        ........+..+++|||++.+..          .....+...++....     
T Consensus        75 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~----------~~~~~l~~~~~~~~~-----  137 (237)
T d1sxjd2          75 ERGIS--IVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTA----------DAQSALRRTMETYSG-----  137 (237)
T ss_dssp             CCCHH--HHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCH----------HHHHHHHHHHHHTTT-----
T ss_pred             cccch--HHHHHHHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCH----------HHHHHHhhccccccc-----
Confidence            32110  000111111000        00111122345999999998732          334455555554322     


Q ss_pred             CeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcc-cHHHHHHHCCCCCHHHHHHHHHH
Q 013506          161 PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANV-DLEAIATSCNGYVGADLEALCRE  239 (441)
Q Consensus       161 ~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~-~~~~l~~~~~g~~~~~i~~l~~~  239 (441)
                       +..++.+++....+.+.+.+  |+. .+.|++|+.++...++...+.+.....+. .++.++..+.| ..|.+-..++.
T Consensus       138 -~~~~i~~~~~~~~~~~~l~s--r~~-~i~f~~~~~~~~~~~L~~i~~~e~i~i~~~~l~~ia~~s~g-d~R~ai~~L~~  212 (237)
T d1sxjd2         138 -VTRFCLICNYVTRIIDPLAS--QCS-KFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAG-DLRRGITLLQS  212 (237)
T ss_dssp             -TEEEEEEESCGGGSCHHHHH--HSE-EEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSS-CHHHHHHHHHH
T ss_pred             -cccccccccccccccccccc--hhh-hhccccccccccchhhhhhhhhhcCcCCHHHHHHHHHHcCC-CHHHHHHHHHH
Confidence             46777788888888999998  884 89999999999999999988876654433 36888888776 33443344444


Q ss_pred             HH
Q 013506          240 AT  241 (441)
Q Consensus       240 a~  241 (441)
                      +.
T Consensus       213 ~~  214 (237)
T d1sxjd2         213 AS  214 (237)
T ss_dssp             TH
T ss_pred             HH
Confidence            43

>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=99.66  E-value=7.4e-16  Score=133.76  Aligned_cols=193  Identities=19%  Similarity=0.279  Sum_probs=118.9

Q ss_pred             cccccccchHHHHHHHHHHHHhhccCc----hHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc
Q 013506           16 KAEEAIGGNRAAVEALRELITFPLLYS----SQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK   91 (441)
Q Consensus        16 ~~~~~i~G~~~~~~~l~~~~~~~~~~~----~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~   91 (441)
                      ..+++++|+++.++.|.+++.......    ......+.....+++|+||||||||++|+++|++++.+++.++......
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            578999999999999999885421100    0011223345579999999999999999999999999999998876443


Q ss_pred             ccccchHHHHHHH----------HHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCC
Q 013506           92 AHVGESEKALREA----------FSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVP  161 (441)
Q Consensus        92 ~~~~~~~~~~~~~----------~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  161 (441)
                      ....  ...+...          ...........+..++++||++.+.....       .....+.........      
T Consensus        91 ~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~-------~~~~~~~~~~~~~~~------  155 (253)
T d1sxja2          91 KTLL--NAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDR-------GGVGQLAQFCRKTST------  155 (253)
T ss_dssp             HHHH--HHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTST-------THHHHHHHHHHHCSS------
T ss_pred             hHHH--HHHHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchh-------hhhHHHhhhhccccc------
Confidence            2110  0000000          00011112234567999999998754321       223334444333221      


Q ss_pred             eEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCc-ccHHHHHHHCCC
Q 013506          162 HVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDAN-VDLEAIATSCNG  227 (441)
Q Consensus       162 ~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~-~~~~~l~~~~~g  227 (441)
                      .++++++++....++ .+.+  | ...+.|++|+.+++..+++..+.+.....+ ..+..++..+.|
T Consensus       156 ~ii~i~~~~~~~~~~-~l~~--~-~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~~~l~~i~~~s~G  218 (253)
T d1sxja2         156 PLILICNERNLPKMR-PFDR--V-CLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRG  218 (253)
T ss_dssp             CEEEEESCTTSSTTG-GGTT--T-SEEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHTTT
T ss_pred             ccccccccccccccc-cccc--e-eeeeeccccchhHHHHHHHHHHHHhCCCCCHHHHHHHHHhCCC
Confidence            244544444443444 4543  4 468999999999999999988765443322 347888888765

>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=99.66  E-value=7.6e-16  Score=133.62  Aligned_cols=182  Identities=20%  Similarity=0.277  Sum_probs=114.8

Q ss_pred             ccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc---EEEEccCcc--
Q 013506           15 WKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH---LTVISPHSV--   89 (441)
Q Consensus        15 ~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~---~~~v~~~~~--   89 (441)
                      +.+|++++|.+++++.|..++...            ....+++|+||||||||++|+++++.+..+   ...++....  
T Consensus         7 P~~~~diig~~~~~~~L~~~~~~~------------~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~   74 (252)
T d1sxje2           7 PKSLNALSHNEELTNFLKSLSDQP------------RDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVT   74 (252)
T ss_dssp             CCSGGGCCSCHHHHHHHHTTTTCT------------TCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC----------
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcC------------CCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccc
Confidence            357899999999999998776431            123469999999999999999999986211   011000000  


Q ss_pred             -------------------cccccc-chHHHHHHHHHHHH----------hhhhcCCCeEEEEccccccccCCCCCchhh
Q 013506           90 -------------------HKAHVG-ESEKALREAFSQAS----------SHALSGKPSVVFIDEIDALCPRRDHRREQD  139 (441)
Q Consensus        90 -------------------~~~~~~-~~~~~~~~~~~~~~----------~~~~~~~~~il~iDe~~~l~~~~~~~~~~~  139 (441)
                                         .....+ ..............          .........+++|||+|.+          .
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l----------~  144 (252)
T d1sxje2          75 ASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSL----------T  144 (252)
T ss_dssp             --------CCEECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------CCEEEEEECTTSS----------C
T ss_pred             cccchhhhhhccCCccceeeecccccCCcceeeehhhhhhhhhhhhhhhcccccCCCceEEEecccccc----------c
Confidence                               000000 00111111111110          0111223469999999987          2


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCC--CCccc
Q 013506          140 VRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPL--DANVD  217 (441)
Q Consensus       140 ~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~--~~~~~  217 (441)
                      ......++..++...      .++.+|++||.++.+++.+++  |+. .++|++|+.++..+++...+.....  ..+..
T Consensus       145 ~~~~~~l~~~~e~~~------~~~~~Il~tn~~~~i~~~l~s--R~~-~i~~~~~~~~~~~~~l~~i~~~e~~~~~~~~~  215 (252)
T d1sxje2         145 KDAQAALRRTMEKYS------KNIRLIMVCDSMSPIIAPIKS--QCL-LIRCPAPSDSEISTILSDVVTNERIQLETKDI  215 (252)
T ss_dssp             HHHHHHHHHHHHHST------TTEEEEEEESCSCSSCHHHHT--TSE-EEECCCCCHHHHHHHHHHHHHHHTCEECCSHH
T ss_pred             cccchhhhccccccc------ccccceeeeccccchhhhhhc--chh-eeeecccchhhHHHHHHHHHHHcCCCCCcHHH
Confidence            245666777776543      257888899999999999998  884 8999999999999999887765433  23334


Q ss_pred             HHHHHHHCCC
Q 013506          218 LEAIATSCNG  227 (441)
Q Consensus       218 ~~~l~~~~~g  227 (441)
                      ++.++..+.|
T Consensus       216 l~~i~~~s~G  225 (252)
T d1sxje2         216 LKRIAQASNG  225 (252)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHcCC
Confidence            6777887776

>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=99.60  E-value=4.3e-15  Score=134.27  Aligned_cols=168  Identities=23%  Similarity=0.345  Sum_probs=111.0

Q ss_pred             cccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh----------CCcEEE
Q 013506           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC----------GAHLTV   83 (441)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l----------~~~~~~   83 (441)
                      .+..++.++|.++.++.+.+++++             ..+.+++|+||||+|||++++.+|..+          +..++.
T Consensus        17 ~~g~ld~~~gr~~ei~~~~~~L~r-------------~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~   83 (387)
T d1qvra2          17 AEGKLDPVIGRDEEIRRVIQILLR-------------RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVS   83 (387)
T ss_dssp             HTTCSCCCCSCHHHHHHHHHHHHC-------------SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEE
T ss_pred             HcCCCCCCcCcHHHHHHHHHHHhc-------------CCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEE
Confidence            356688999999999999999876             356789999999999999999998765          346888


Q ss_pred             EccCcccc--ccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCC
Q 013506           84 ISPHSVHK--AHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVP  161 (441)
Q Consensus        84 v~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  161 (441)
                      ++...+..  .+.|+....+..++......   ..+.||||||+|.++..+...+  ..+..+.|...+.+.        
T Consensus        84 ld~~~l~ag~~~~g~~e~r~~~i~~~~~~~---~~~~ilfide~h~l~~~g~~~g--~~d~a~~Lkp~L~rg--------  150 (387)
T d1qvra2          84 LQMGSLLAGAKYRGEFEERLKAVIQEVVQS---QGEVILFIDELHTVVGAGKAEG--AVDAGNMLKPALARG--------  150 (387)
T ss_dssp             ECC-----------CHHHHHHHHHHHHHTT---CSSEEEEECCC---------------------HHHHHTT--------
T ss_pred             eeHhhhhcccCcchhHHHHHHHHHHHhccC---CCceEEEeccHHHHhcCCCCCC--cccHHHHHHHHHhCC--------
Confidence            99888774  45678888888888776543   1257899999999987654322  235566666777664        


Q ss_pred             eEEEEEEcCCCC----ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccC
Q 013506          162 HVVVVASTNRVD----AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKV  210 (441)
Q Consensus       162 ~~~vi~~~~~~~----~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~  210 (441)
                      .+.+|++|.+.+    .-|+++.|  ||. .+.++.|+.++...|++.....+
T Consensus       151 ~~~~I~~tT~~ey~~~e~d~al~r--rF~-~v~v~ep~~~~~~~il~~~~~~~  200 (387)
T d1qvra2         151 ELRLIGATTLDEYREIEKDPALER--RFQ-PVYVDEPTVEETISILRGLKEKY  200 (387)
T ss_dssp             CCCEEEEECHHHHHHHTTCTTTCS--CCC-CEEECCCCHHHHHHHHHHHHHHH
T ss_pred             CcceeeecCHHHHHHhcccHHHHH--hcc-cccCCCCcHHHHHHHHHHHHHHH
Confidence            367788776532    33788888  996 89999999999999998655443

>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=99.59  E-value=1.6e-14  Score=129.97  Aligned_cols=223  Identities=18%  Similarity=0.234  Sum_probs=130.3

Q ss_pred             cccchHHHHHHHHHHHHhhccCchHHHh-----------------cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           20 AIGGNRAAVEALRELITFPLLYSSQAQK-----------------LGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        20 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~-----------------~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      -|+||+++|+.+..++.......+....                 -.-.++.++||+||+|||||.+|+.+|+.++.+++
T Consensus        18 ~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~~~~~i   97 (364)
T d1um8a_          18 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIA   97 (364)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEE
T ss_pred             eecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhccccee
Confidence            4999999999999887432111111000                 01246788999999999999999999999999999


Q ss_pred             EEccCccccc-cccc-hHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCc----hhhHHHHHHHHHHHhcCCC-
Q 013506           83 VISPHSVHKA-HVGE-SEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRR----EQDVRIASQLFTLMDSNKP-  155 (441)
Q Consensus        83 ~v~~~~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~----~~~~~~~~~l~~~~~~~~~-  155 (441)
                      .+++..+... +.+. ....+..+...+.......+.+++++||++...+......    .....+.+.|+..++.... 
T Consensus        98 r~D~s~~~e~gyvg~dv~~~i~~l~~~~~~~v~~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~lLqild~~~~~  177 (364)
T d1um8a_          98 ISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVN  177 (364)
T ss_dssp             EEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCCEEC
T ss_pred             ehhhhhcccchhhHhhhccchhhhhhhchhHHHHhhcccchhhhhhhhccccccccccccccchHHHHhhhhhhcCceec
Confidence            9999887653 2221 1233444444433333334578999999998766542211    1344678888888884221 


Q ss_pred             ------CCCCCCeEEEEEEcCC-------------------------------------------------CCccCHHHh
Q 013506          156 ------SKTSVPHVVVVASTNR-------------------------------------------------VDAIDPALR  180 (441)
Q Consensus       156 ------~~~~~~~~~vi~~~~~-------------------------------------------------~~~l~~~l~  180 (441)
                            ......+.+++.|+|-                                                 ...+.|.|.
T Consensus       178 ~~~~~gr~~~~~~~i~i~t~~i~~~~~ga~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEf~  257 (364)
T d1um8a_         178 IPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELI  257 (364)
T ss_dssp             ---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHH
T ss_pred             cCCCCCCcCCcceeEEEeehhhhhhhcccchhhhhhhhhhcccccccccccccchhhhhhhhccccHHHHhhhhhHHHHH
Confidence                  1111223444444432                                                 012567787


Q ss_pred             hCCccceEEEecCCCHHHHHHHHHHH-----------hccCCCCCccc---HHHHHHHC--CCCCHHHHHHHHHHHHHHH
Q 013506          181 RSGRFDAEVEVTVPTAEERFEILKLY-----------TKKVPLDANVD---LEAIATSC--NGYVGADLEALCREATMSA  244 (441)
Q Consensus       181 ~~~r~~~~i~~~~p~~~~~~~il~~~-----------~~~~~~~~~~~---~~~l~~~~--~g~~~~~i~~l~~~a~~~~  244 (441)
                      .  |++.++.|.+.+.++..+|+...           +........++   ++.++...  ..+-+|.++.+++......
T Consensus       258 g--Ri~~iv~f~~L~~~~l~~Il~~~~~~l~kq~~~~l~~~gi~L~~td~a~~~la~~g~d~~~GAR~L~riie~~l~~~  335 (364)
T d1um8a_         258 G--RLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIEDFCLDI  335 (364)
T ss_dssp             T--TCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHHHHHHHHHH
T ss_pred             H--HhcchhhHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhccCCCCCchHHHHHHHHHHHHH
Confidence            7  99999999999999999998631           22222222222   44444432  4466677777766654443

>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=99.57  E-value=3.6e-14  Score=125.76  Aligned_cols=171  Identities=22%  Similarity=0.275  Sum_probs=117.3

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccccc-----
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAH-----   93 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~-----   93 (441)
                      +.++||+++++.|.+.+......-..    .-.+...++|+||||+|||.+|+.+|+.++.+++.+++..+....     
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~----~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~~~~~~~~~~l   97 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGH----EHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRL   97 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSC----TTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSS
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCC----CCCCceEEEEECCCcchhHHHHHHHHhhccCCeeEeccccccchhhhhhh
Confidence            45899999999999988543211000    112445799999999999999999999999999999988775431     


Q ss_pred             cc----chHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCC-----CCCCCCeEE
Q 013506           94 VG----ESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP-----SKTSVPHVV  164 (441)
Q Consensus        94 ~~----~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~-----~~~~~~~~~  164 (441)
                      .+    .........+.....   ..+.+|+++||+|..          +.++.+.++..++....     ......+++
T Consensus        98 ~g~~~gy~g~~~~~~l~~~~~---~~~~~vvl~DeieKa----------~~~V~~~lLqild~G~ltd~~Gr~vdf~n~i  164 (315)
T d1r6bx3          98 IGAPPGYVGFDQGGLLTDAVI---KHPHAVLLLDEIEKA----------HPDVFNILLQVMDNGTLTDNNGRKADFRNVV  164 (315)
T ss_dssp             CCCCSCSHHHHHTTHHHHHHH---HCSSEEEEEETGGGS----------CHHHHHHHHHHHHHSEEEETTTEEEECTTEE
T ss_pred             cccCCCccccccCChhhHHHH---hCccchhhhcccccc----------cchHhhhhHHhhccceecCCCCCccCccceE
Confidence            12    111111111111111   234689999999987          33678888888865321     112344688


Q ss_pred             EEEEcCCCC-------------------------ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhc
Q 013506          165 VVASTNRVD-------------------------AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTK  208 (441)
Q Consensus       165 vi~~~~~~~-------------------------~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~  208 (441)
                      +|+|+|--.                         .+.|.+..  |++.++.|.+.+.++..+|+...+.
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            888888421                         25678887  9999999999999999888765443

>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=99.56  E-value=3.5e-13  Score=112.00  Aligned_cols=168  Identities=19%  Similarity=0.186  Sum_probs=115.9

Q ss_pred             chHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC-----------------------
Q 013506           23 GNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA-----------------------   79 (441)
Q Consensus        23 G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~-----------------------   79 (441)
                      +++++.+.|.+.+...            +.++.+||+||+|+|||++|+.+++.+..                       
T Consensus         6 w~~~~~~~l~~~~~~~------------~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~   73 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAG------------RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTH   73 (207)
T ss_dssp             GGHHHHHHHHHHHHTT------------CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCC
T ss_pred             ccHHHHHHHHHHHHcC------------CcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccc
Confidence            5777788888776441            24577999999999999999999997732                       


Q ss_pred             -cEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCC
Q 013506           80 -HLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKT  158 (441)
Q Consensus        80 -~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  158 (441)
                       .++.+....-   ........++.+.+........++..|++|||+|.+          ....+..|+..++...    
T Consensus        74 ~~~~~~~~~~~---~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l----------~~~a~n~Llk~lEep~----  136 (207)
T d1a5ta2          74 PDYYTLAPEKG---KNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALL----------TDAAANALLKTLEEPP----  136 (207)
T ss_dssp             TTEEEECCCTT---CSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGB----------CHHHHHHHHHHHTSCC----
T ss_pred             cccchhhhhhc---ccccccchhhHHhhhhhhccccCccceEEechhhhh----------hhhhhHHHHHHHHhhc----
Confidence             1122221110   011123345555555444444456789999999988          4467889999998743    


Q ss_pred             CCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCCcccHHHHHHHCCCC
Q 013506          159 SVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDANVDLEAIATSCNGY  228 (441)
Q Consensus       159 ~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~g~  228 (441)
                        .++.+|.+|+.+..+.+.+++  |+ ..+.|++|+.++...++.....   . .+..+..++..+.|-
T Consensus       137 --~~~~fIl~t~~~~~ll~tI~S--Rc-~~i~~~~~~~~~~~~~L~~~~~---~-~~~~~~~i~~~s~Gs  197 (207)
T d1a5ta2         137 --AETWFFLATREPERLLATLRS--RC-RLHYLAPPPEQYAVTWLSREVT---M-SQDALLAALRLSAGS  197 (207)
T ss_dssp             --TTEEEEEEESCGGGSCHHHHT--TS-EEEECCCCCHHHHHHHHHHHCC---C-CHHHHHHHHHHTTTC
T ss_pred             --ccceeeeeecChhhhhhhhcc--ee-EEEecCCCCHHHHHHHHHHcCC---C-CHHHHHHHHHHcCCC
Confidence              268889999999999999999  88 4899999999998888764321   1 223466666666654

>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=7.1e-14  Score=116.45  Aligned_cols=190  Identities=23%  Similarity=0.337  Sum_probs=118.2

Q ss_pred             cccc-ccc--hHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccc
Q 013506           17 AEEA-IGG--NRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVH   90 (441)
Q Consensus        17 ~~~~-i~G--~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~   90 (441)
                      +|++ ++|  ++.+.+.+.+++..+          + ....+++|+||+|||||+|+++++.++   +..+++++..++.
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            4566 456  666677777766542          1 112469999999999999999999876   4456677665543


Q ss_pred             cccccchHHH-HHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEc
Q 013506           91 KAHVGESEKA-LREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVAST  169 (441)
Q Consensus        91 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~  169 (441)
                      .......... .........      ..++|+|||++.+...        ..+...++.+++......    .-+++++.
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~------~~dll~iDDi~~i~~~--------~~~~~~lf~lin~~~~~~----~~iiits~  138 (213)
T d1l8qa2          77 QAMVEHLKKGTINEFRNMYK------SVDLLLLDDVQFLSGK--------ERTQIEFFHIFNTLYLLE----KQIILASD  138 (213)
T ss_dssp             HHHHHHHHHTCHHHHHHHHH------TCSEEEEECGGGGTTC--------HHHHHHHHHHHHHHHHTT----CEEEEEES
T ss_pred             HHHHHHHHccchhhHHHHHh------hccchhhhhhhhhcCc--------hHHHHHHHHHHHHHhhcc----ceEEEecC
Confidence            3221111111 111111111      2579999999988432        234444555544432211    34666666


Q ss_pred             CCCCcc---CHHHhhCCccc--eEEEecCCCHHHHHHHHHHHhccCCCCCccc-HHHHHHHCCCCCHHHHHHHHHHH
Q 013506          170 NRVDAI---DPALRRSGRFD--AEVEVTVPTAEERFEILKLYTKKVPLDANVD-LEAIATSCNGYVGADLEALCREA  240 (441)
Q Consensus       170 ~~~~~l---~~~l~~~~r~~--~~i~~~~p~~~~~~~il~~~~~~~~~~~~~~-~~~l~~~~~g~~~~~i~~l~~~a  240 (441)
                      .+|..+   .+++.+  |+.  .++.++ |+.+++.++++.++.......+.+ ++.++.++.  +.|++..++...
T Consensus       139 ~~p~~l~~~~~dL~S--RL~~g~~~~i~-p~d~~~~~iL~~~a~~rgl~l~~~v~~yl~~~~~--~~R~L~~~l~~l  210 (213)
T d1l8qa2         139 RHPQKLDGVSDRLVS--RFEGGILVEIE-LDNKTRFKIIKEKLKEFNLELRKEVIDYLLENTK--NVREIEGKIKLI  210 (213)
T ss_dssp             SCGGGCTTSCHHHHH--HHHTSEEEECC-CCHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHCS--SHHHHHHHHHHH
T ss_pred             CcchhccccchHHHH--HhhCceEEEEC-CCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcC--cHHHHHHHHHHh
Confidence            667644   478888  554  667786 677899999999888777665443 677777763  577777766543

>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=99.52  E-value=2e-14  Score=127.51  Aligned_cols=129  Identities=18%  Similarity=0.206  Sum_probs=93.8

Q ss_pred             ccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh------
Q 013506          290 EDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM------  363 (441)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~------  363 (441)
                      ..+.|++++++.+...+.......    .-...|.+.+||+||||+|||.+|+.+|+.++.+++.++++++.+.      
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----GHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRL   97 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTC----SCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSS
T ss_pred             CeecChHHHHHHHHHHHHHHHccC----CCCCCCceEEEEECCCcchhHHHHHHHHhhccCCeeEeccccccchhhhhhh
Confidence            356889999998887764321111    1123456689999999999999999999999999999999987542      


Q ss_pred             ------ccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC----------CCCC
Q 013506          364 ------YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG----------LEQA  427 (441)
Q Consensus       364 ------~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~----------~~~~  427 (441)
                            |+|..+.  ..+.......+.+|++|||+|++++              .+.+.||+.||+          +...
T Consensus        98 ~g~~~gy~g~~~~--~~l~~~~~~~~~~vvl~DeieKa~~--------------~V~~~lLqild~G~ltd~~Gr~vdf~  161 (315)
T d1r6bx3          98 IGAPPGYVGFDQG--GLLTDAVIKHPHAVLLLDEIEKAHP--------------DVFNILLQVMDNGTLTDNNGRKADFR  161 (315)
T ss_dssp             CCCCSCSHHHHHT--THHHHHHHHCSSEEEEEETGGGSCH--------------HHHHHHHHHHHHSEEEETTTEEEECT
T ss_pred             cccCCCccccccC--ChhhHHHHhCccchhhhcccccccc--------------hHhhhhHHhhccceecCCCCCccCcc
Confidence                  2222222  2244445567788999999999974              578899998864          3446


Q ss_pred             CeEEEEeeeee
Q 013506          428 KVIIYPISFIF  438 (441)
Q Consensus       428 ~~v~~~~~~~~  438 (441)
                      ..++|++||+-
T Consensus       162 n~iiI~Tsnig  172 (315)
T d1r6bx3         162 NVVLVMTTNAG  172 (315)
T ss_dssp             TEEEEEEECSS
T ss_pred             ceEEEeccchh
Confidence            67899999863

>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=99.51  E-value=1.4e-14  Score=130.36  Aligned_cols=148  Identities=26%  Similarity=0.270  Sum_probs=90.0

Q ss_pred             ccccCchhHHHHHHHHHhcccCCch-----------------hhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCce
Q 013506          290 EDIGGLRDLKKKLQQAVEWPIKHST-----------------AFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASF  352 (441)
Q Consensus       290 ~~i~g~~~~k~~l~~~~~~~~~~~~-----------------~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~  352 (441)
                      ..+.|+++.++.+...+-.-..+..                 ....-...|++++||+||+|||||.+||.||+.++.++
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            3478999998888766531111100                 00011345788999999999999999999999999999


Q ss_pred             EEechhhhhhh-ccCch-HHHHHHHHHH----HHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCC-
Q 013506          353 FSLSGAELYSM-YVGES-EALLRNTFQR----ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLE-  425 (441)
Q Consensus       353 ~~i~~~~~~~~-~~g~~-~~~~~~~~~~----a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~-  425 (441)
                      +.++++.+... |+|.. +..+.++...    ++..+.+++++||+|+..+.........+.....+.+.||+.||+-. 
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            99999998763 66554 3445555554    35567789999999999876443333333344568999999999622 


Q ss_pred             -----------CCCeEEEEeeee
Q 013506          426 -----------QAKVIIYPISFI  437 (441)
Q Consensus       426 -----------~~~~v~~~~~~~  437 (441)
                                 ....+++..+|+
T Consensus       177 ~~~~~~gr~~~~~~~i~i~t~~i  199 (364)
T d1um8a_         177 NIPPKGGRKHPEGNFIQIDTSDI  199 (364)
T ss_dssp             C---------------CEECTTC
T ss_pred             ccCCCCCCcCCcceeEEEeehhh
Confidence                       233466666665

>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=99.50  E-value=1.2e-12  Score=114.65  Aligned_cols=221  Identities=18%  Similarity=0.133  Sum_probs=130.9

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC----CcEEEEccCccccc--
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG----AHLTVISPHSVHKA--   92 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~----~~~~~v~~~~~~~~--   92 (441)
                      +.++|.|++++.|.+++...+..+      + ..+.+++|+||||||||++++.+++.+.    ..++.+++......  
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~------~-~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~   88 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNP------G-HHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTA   88 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHST------T-SSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCC------C-CCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhhhh
Confidence            579999999999999885432221      1 3467999999999999999999999874    33455544322110  


Q ss_pred             --------------cccchHHH-HHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCC
Q 013506           93 --------------HVGESEKA-LREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSK  157 (441)
Q Consensus        93 --------------~~~~~~~~-~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  157 (441)
                                    ..+..... ...+......   .....+.++|+++.+..       ........+...+...    
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~d~~~~-------~~~~~~~~~~~~~~~~----  154 (276)
T d1fnna2          89 IIGEIARSLNIPFPRRGLSRDEFLALLVEHLRE---RDLYMFLVLDDAFNLAP-------DILSTFIRLGQEADKL----  154 (276)
T ss_dssp             HHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHH---TTCCEEEEEETGGGSCH-------HHHHHHHHHTTCHHHH----
T ss_pred             hhhhhHHhhhhhhhhhccchhHHHHHHHHHHhh---cccccccchhHHHHhhh-------hhhhhHHHHHhccccc----
Confidence                          11111111 1222222221   23466888999886632       1111122222222111    


Q ss_pred             CCCCeEEEEEEcCCC---CccCHHHhhCCccc-eEEEecCCCHHHHHHHHHHHhccCCCC---CcccHHHHHHHCC----
Q 013506          158 TSVPHVVVVASTNRV---DAIDPALRRSGRFD-AEVEVTVPTAEERFEILKLYTKKVPLD---ANVDLEAIATSCN----  226 (441)
Q Consensus       158 ~~~~~~~vi~~~~~~---~~l~~~l~~~~r~~-~~i~~~~p~~~~~~~il~~~~~~~~~~---~~~~~~~l~~~~~----  226 (441)
                       ....+.+|++++..   +.+++++.+  |+. ..+.|++|+.+++.+|+...+......   .+..++.++..+.    
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             11246777777764   357788776  543 468999999999999998876542222   2223555655431    


Q ss_pred             ----CCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhhh
Q 013506          227 ----GYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARSV  271 (441)
Q Consensus       227 ----g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~  271 (441)
                          +-+.+.+..+++.+...+.....        ..++.+|+..+.+.
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                23567777788887766655432        24778888776553

>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=99.50  E-value=4.3e-14  Score=121.11  Aligned_cols=95  Identities=27%  Similarity=0.363  Sum_probs=73.2

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccC
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVG  366 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g  366 (441)
                      .++++++|++++++.+..++.....        ...+..|+||+|||||||||+|+++|..+++++..+++++...    
T Consensus         6 ~~~~divGqe~~~~~l~~~i~~~~~--------~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~~----   73 (238)
T d1in4a2           6 KSLDEFIGQENVKKKLSLALEAAKM--------RGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVK----   73 (238)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHHHHH--------HTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCS----
T ss_pred             CcHHHcCChHHHHHHHHHHHHHHHh--------cCCCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCccccc----
Confidence            3688999999999999988764211        1123458999999999999999999999999999998877543    


Q ss_pred             chHHHHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          367 ESEALLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       367 ~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                        ..++..++..  ....+++|+||++.+.+
T Consensus        74 --~~~~~~~~~~--~~~~~~~~ide~~~~~~  100 (238)
T d1in4a2          74 --QGDMAAILTS--LERGDVLFIDEIHRLNK  100 (238)
T ss_dssp             --HHHHHHHHHH--CCTTCEEEEETGGGCCH
T ss_pred             --HHHHHHHHHh--hccCCchHHHHHHHhhh
Confidence              2344555544  34567999999999864

>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=7.3e-14  Score=123.44  Aligned_cols=170  Identities=19%  Similarity=0.265  Sum_probs=113.9

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCcccccc--
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAH--   93 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~--   93 (441)
                      +.++||+++++.|.+.+......-    .-.-+|...++|+||+|+|||.+|+.+|+.+   +.+++.+++.++....  
T Consensus        23 ~~v~GQ~~ai~~v~~~i~~~~~~l----~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~~~   98 (315)
T d1qvra3          23 KRVVGQDEAIRAVADAIRRARAGL----KDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAV   98 (315)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGC----SCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGG
T ss_pred             CeEeCHHHHHHHHHHHHHHHhcCC----CCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccccchhh
Confidence            358999999999998875432110    0011234478999999999999999999988   5688999888776431  


Q ss_pred             ---ccchHHHH----HHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCC-----CCCCCC
Q 013506           94 ---VGESEKAL----REAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP-----SKTSVP  161 (441)
Q Consensus        94 ---~~~~~~~~----~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~-----~~~~~~  161 (441)
                         .+.....+    ...+.....   ..+.+|+++||+|.+.          ..++..|+..++....     ......
T Consensus        99 ~~L~g~~~gyvG~~~~~~l~~~~~---~~p~~Vvl~DEieK~~----------~~v~~~ll~~l~~g~~~~~~gr~v~~~  165 (315)
T d1qvra3          99 SRLIGAPPGYVGYEEGGQLTEAVR---RRPYSVILFDEIEKAH----------PDVFNILLQILDDGRLTDSHGRTVDFR  165 (315)
T ss_dssp             GGC--------------CHHHHHH---HCSSEEEEESSGGGSC----------HHHHHHHHHHHTTTEECCSSSCCEECT
T ss_pred             hhhcCCCCCCcCcccCChHHHHHH---hCCCcEEEEehHhhcC----------HHHHHHHHHHhccCceeCCCCcEecCc
Confidence               11111111    111111111   1236899999999873          3677888888865321     223445


Q ss_pred             eEEEEEEcCCC--------------------------CccCHHHhhCCccceEEEecCCCHHHHHHHHHHHh
Q 013506          162 HVVVVASTNRV--------------------------DAIDPALRRSGRFDAEVEVTVPTAEERFEILKLYT  207 (441)
Q Consensus       162 ~~~vi~~~~~~--------------------------~~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~  207 (441)
                      ++++|+|+|--                          ..+.|.+..  |++.++.|.+.+.++..+|+...+
T Consensus       166 ~~i~i~tsnlG~~~i~~~~~~~~~~~~~~~~~~~~l~~~f~pEfln--Rid~Ii~F~~L~~~~~~~I~~~~l  235 (315)
T d1qvra3         166 NTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLN--RLDEIVVFRPLTKEQIRQIVEIQL  235 (315)
T ss_dssp             TEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHH--TCSBCCBCCCCCHHHHHHHHHHHH
T ss_pred             ceEEEEecccChHHHhhhcccccchhhhhHHHHHHHHhhcCHHHHh--cCCeeeeccchhhhhhHHHHHHHH
Confidence            78999999852                          247788888  999888999999999988876543

>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=99.49  E-value=4.5e-13  Score=118.09  Aligned_cols=231  Identities=15%  Similarity=0.100  Sum_probs=131.6

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC---------CcEEEEccCcc
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---------AHLTVISPHSV   89 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~---------~~~~~v~~~~~   89 (441)
                      +.+.|.+.+++.|.+++..+......    +-.....++|+||||||||++++.+++.+.         ..+.++++...
T Consensus        16 ~~~~~Re~e~~~l~~~l~~~~~~~~~----~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~   91 (287)
T d1w5sa2          16 PELRVRRGEAEALARIYLNRLLSGAG----LSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNA   91 (287)
T ss_dssp             SSCSSSCHHHHHHHHHHHHHHHTSSC----BCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGC
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHcCCC----CCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccc
Confidence            67999999999999887554332110    001122467789999999999999998863         22333433322


Q ss_pred             ccc----------------cccchHHHHHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcC
Q 013506           90 HKA----------------HVGESEKALREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSN  153 (441)
Q Consensus        90 ~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~  153 (441)
                      ...                ..+.....+...+......  ...+.++++||+|.+......    ..+....+...++..
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iide~d~l~~~~~~----~~~~~~~l~~l~~~l  165 (287)
T d1w5sa2          92 PNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYV--ENHYLLVILDEFQSMLSSPRI----AAEDLYTLLRVHEEI  165 (287)
T ss_dssp             CSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHH--HTCEEEEEEESTHHHHSCTTS----CHHHHHHHHTHHHHS
T ss_pred             cchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHh--ccCccccceeEEEEecccccc----chhHHHHHHHHHHhc
Confidence            111                1111122222222221111  223568899999988644432    223333444333322


Q ss_pred             CCCCCCCCeEEEEEEcCCCC------ccCHHHhhCCccceEEEecCCCHHHHHHHHHHHhccCCCCC---cccHHHHHHH
Q 013506          154 KPSKTSVPHVVVVASTNRVD------AIDPALRRSGRFDAEVEVTVPTAEERFEILKLYTKKVPLDA---NVDLEAIATS  224 (441)
Q Consensus       154 ~~~~~~~~~~~vi~~~~~~~------~l~~~l~~~~r~~~~i~~~~p~~~~~~~il~~~~~~~~~~~---~~~~~~l~~~  224 (441)
                      .... ......+|+.++.++      ...+++.+  |+...+.|++|+.+++.+|++..+.......   +..++.++..
T Consensus       166 ~~~~-~~~~~~~i~i~~~~~~~~~~~~~~~~~~~--r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~~  242 (287)
T d1w5sa2         166 PSRD-GVNRIGFLLVASDVRALSYMREKIPQVES--QIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDV  242 (287)
T ss_dssp             CCTT-SCCBEEEEEEEEETHHHHHHHHHCHHHHT--TCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHH
T ss_pred             chhh-cccceeEEeecccHHHHHHHHhhccchhc--ccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHHHHHH
Confidence            2111 222455566555443      23466666  8888999999999999999998765432221   2236666665


Q ss_pred             CC-----CCCHHHHHHHHHHHHHHHHHhcccccccccceeeeHhhHHhhhh
Q 013506          225 CN-----GYVGADLEALCREATMSAVKRSSDANECAGVLSVTMEDWRHARS  270 (441)
Q Consensus       225 ~~-----g~~~~~i~~l~~~a~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~  270 (441)
                      +.     ....+.+..+++.+...+.....        ..++.+++..+..
T Consensus       243 ~~~~~~~~gd~R~ai~~l~~a~~~A~~~~~--------~~It~~~V~~A~~  285 (287)
T d1w5sa2         243 YGEDKGGDGSARRAIVALKMACEMAEAMGR--------DSLSEDLVRKAVS  285 (287)
T ss_dssp             HCGGGTSCCCHHHHHHHHHHHHHHHHHTTC--------SSCCHHHHHHHHH
T ss_pred             HhccccCCCCHHHHHHHHHHHHHHHHHcCC--------CCCCHHHHHHHHh
Confidence            53     23566666777777766554432        3477777776643

>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=99.48  E-value=6.9e-14  Score=119.88  Aligned_cols=96  Identities=33%  Similarity=0.452  Sum_probs=71.9

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccC
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVG  366 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g  366 (441)
                      .++++++|++++++.+..++.+...        ...+..|+||+|||||||||+|+++|+.++.++..++.+....  .+
T Consensus         6 ~~~ddivGq~~~~~~L~~~i~~~~~--------~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~--~~   75 (239)
T d1ixsb2           6 KTLDEYIGQERLKQKLRVYLEAAKA--------RKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK--PG   75 (239)
T ss_dssp             CSGGGSCSCHHHHHHHHHHHHHHTT--------SSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCS--HH
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHh--------cCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCcccc--ch
Confidence            4688999999999999988764322        1234568999999999999999999999999999999877543  22


Q ss_pred             chHHHHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          367 ESEALLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       367 ~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      .....++.    . ....+++|+||+|.+.+
T Consensus        76 ~~~~~~~~----~-~~~~~i~~iDe~~~~~~  101 (239)
T d1ixsb2          76 DLAAILAN----S-LEEGDILFIDEIHRLSR  101 (239)
T ss_dssp             HHHHHHHT----T-CCTTCEEEEETGGGCCH
T ss_pred             hhHHHHHh----h-ccCCCeeeeecccccch
Confidence            22222222    1 23456999999998853

>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=99.45  E-value=1.4e-12  Score=117.34  Aligned_cols=161  Identities=27%  Similarity=0.356  Sum_probs=99.1

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccc------
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVH------   90 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~------   90 (441)
                      +|.+|+|++.+|+.|.-.+..+             .++|+||+||||||||++++.++..++. +..+....+.      
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            5899999999999877655331             2368999999999999999999987732 2111111100      


Q ss_pred             --------------------cccccchHHHH------HHHHHHHHhhhh-----cCCCeEEEEccccccccCCCCCchhh
Q 013506           91 --------------------KAHVGESEKAL------REAFSQASSHAL-----SGKPSVVFIDEIDALCPRRDHRREQD  139 (441)
Q Consensus        91 --------------------~~~~~~~~~~~------~~~~~~~~~~~~-----~~~~~il~iDe~~~l~~~~~~~~~~~  139 (441)
                                          ....+.....+      ...+........     .....|+|+||++.+          +
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~d~~~~~~~g~~~~~~G~l~~A~~gvl~iDEi~~~----------~  140 (333)
T d1g8pa_          71 IPDWATVLSTNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLL----------E  140 (333)
T ss_dssp             SCTTCCCSCCCEEEECCCEEEECTTCCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGS----------C
T ss_pred             ccchhhccccCcccccCceeeccCCCCcccccCcchhhhccccCcceeeccccccccccEeecccHHHH----------H
Confidence                                00001111111      111111110000     012579999999977          4


Q ss_pred             HHHHHHHHHHHhcCCCC-------CCCCCeEEEEEEcCCCC-ccCHHHhhCCccceEEEecCC-CHHHHHHHH
Q 013506          140 VRIASQLFTLMDSNKPS-------KTSVPHVVVVASTNRVD-AIDPALRRSGRFDAEVEVTVP-TAEERFEIL  203 (441)
Q Consensus       140 ~~~~~~l~~~~~~~~~~-------~~~~~~~~vi~~~~~~~-~l~~~l~~~~r~~~~i~~~~p-~~~~~~~il  203 (441)
                      ...++.|+..++.....       .....++++++|+|+.+ .+++++..  ||...+.++.| +...+.++.
T Consensus       141 ~~~~~aLl~~me~~~v~i~r~g~~~~~p~~f~liaa~Np~~~~l~~~llD--Rf~~~i~v~~~~~~~~~~~~~  211 (333)
T d1g8pa_         141 DHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLD--RFGLSVEVLSPRDVETRVEVI  211 (333)
T ss_dssp             HHHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHT--TCSEEEECCCCCSHHHHHHHH
T ss_pred             HHHHHHHhhhhcCCeEEecccCceecCCCCEEEEEecCccccccccchhh--hhcceeeccCcchhhHHHHHH
Confidence            47889999988753211       11123578899998854 78999999  99988888776 444444443

>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=1.2e-13  Score=122.07  Aligned_cols=127  Identities=24%  Similarity=0.330  Sum_probs=86.8

Q ss_pred             cccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhh----
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM----  363 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~----  363 (441)
                      .+.|++++.+.+...+......    .+-+..|...+||+||+|+|||.+|+.+|+.+   +.+++.++++++.+.    
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~----l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~~~~   99 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAG----LKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVS   99 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGG----CSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGG
T ss_pred             eEeCHHHHHHHHHHHHHHHhcC----CCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccccchhhh
Confidence            4678888888877766432111    11133455678999999999999999999987   668999998876542    


Q ss_pred             --------ccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC----------CC
Q 013506          364 --------YVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG----------LE  425 (441)
Q Consensus       364 --------~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~----------~~  425 (441)
                              |+|..+.  ..+.......+.+|++|||+|++++              .+.+.|++.||+          +.
T Consensus       100 ~L~g~~~gyvG~~~~--~~l~~~~~~~p~~Vvl~DEieK~~~--------------~v~~~ll~~l~~g~~~~~~gr~v~  163 (315)
T d1qvra3         100 RLIGAPPGYVGYEEG--GQLTEAVRRRPYSVILFDEIEKAHP--------------DVFNILLQILDDGRLTDSHGRTVD  163 (315)
T ss_dssp             GC----------------CHHHHHHHCSSEEEEESSGGGSCH--------------HHHHHHHHHHTTTEECCSSSCCEE
T ss_pred             hhcCCCCCCcCcccC--ChHHHHHHhCCCcEEEEehHhhcCH--------------HHHHHHHHHhccCceeCCCCcEec
Confidence                    4443322  2355556667789999999999974              578888888876          22


Q ss_pred             CCCeEEEEeeee
Q 013506          426 QAKVIIYPISFI  437 (441)
Q Consensus       426 ~~~~v~~~~~~~  437 (441)
                      ....++|++||+
T Consensus       164 ~~~~i~i~tsnl  175 (315)
T d1qvra3         164 FRNTVIILTSNL  175 (315)
T ss_dssp             CTTEEEEEECCT
T ss_pred             CcceEEEEeccc
Confidence            244577888776

>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=99.44  E-value=6.4e-16  Score=139.00  Aligned_cols=177  Identities=12%  Similarity=0.092  Sum_probs=105.5

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEcccccc
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEIDAL  128 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~~~l  128 (441)
                      +.+.+++++|+||||||||++|+++++.++.+++.+++++..+.+            .-..    .....+.++|+++..
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            667788999999999999999999999999999999877643211            0000    112345566766554


Q ss_pred             ccCCCCC-chhhHHHHHHHHHHHhcCCCC----CCCC----CeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCHHHH
Q 013506          129 CPRRDHR-REQDVRIASQLFTLMDSNKPS----KTSV----PHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTAEER  199 (441)
Q Consensus       129 ~~~~~~~-~~~~~~~~~~l~~~~~~~~~~----~~~~----~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~~~~  199 (441)
                      ....... ...-.+.++.+...+++....    ....    ....+|+|||..   +.+..+++||+..+.+..|+...+
T Consensus       214 ~~~~~~~~~~~~~DeiD~l~~~~dg~~~~~~~~~~~~~~~~~~~p~i~ttN~~---~~~~~r~~Rf~~~i~~~~~~~~~~  290 (362)
T d1svma_         214 GGESRDLPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNEY---SVPKTLQARFVKQIDFRPKDYLKH  290 (362)
T ss_dssp             TTTTTTCCCCSHHHHHHTTHHHHHCSSCEEECCSSSCCEEECCCCEEEEECSC---CCCHHHHTTEEEEEECCCCHHHHH
T ss_pred             hhhccCCCCeEEEehHhhcccccCCcchhhhhhhhhchhhhccCCceeecccc---cccccccccCceEEeecCCCcHHH
Confidence            3322211 111122333444444442110    0000    011367788853   334445679998898888876665


Q ss_pred             H-HHHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q 013506          200 F-EILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCREATMSAVK  246 (441)
Q Consensus       200 ~-~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~~~~  246 (441)
                      . .++..++.......  ..+.++..+.++++.++...++.+.....+
T Consensus       291 ~~~~l~~i~~~~~l~~--~~~~L~~li~~~s~~D~~~~i~~~~~~~~~  336 (362)
T d1svma_         291 CLERSEFLLEKRIIQS--GIALLLMLIWYRPVAEFAQSIQSRIVEWKE  336 (362)
T ss_dssp             HHHTCTHHHHTTCTTC--HHHHHHHHHHHSCGGGSCGGGHHHHHHHHH
T ss_pred             HHHHHHHHhcccCCCC--CHHHHHHHccCCCHHHHHHHHHHHHHHHHH
Confidence            4 44455555554443  355666767778888888777776654443

>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=99.39  E-value=1.7e-12  Score=104.14  Aligned_cols=115  Identities=18%  Similarity=0.244  Sum_probs=82.2

Q ss_pred             cccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCceEEechh
Q 013506          289 WEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLSGA  358 (441)
Q Consensus       289 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~----------~~~~~~i~~~  358 (441)
                      ++.+.|.++..+.+.+.+.             .....|++|+||||+|||++++.+|...          +..++.++.+
T Consensus        21 ld~~igRd~Ei~~l~~iL~-------------r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~   87 (195)
T d1jbka_          21 LDPVIGRDEEIRRTIQVLQ-------------RRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMG   87 (195)
T ss_dssp             SCCCCSCHHHHHHHHHHHT-------------SSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHH
T ss_pred             CCCCcCcHHHHHHHHHHHh-------------ccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHH
Confidence            3445566555555554443             2345589999999999999999999754          5779999999


Q ss_pred             hhhh--hccCchHHHHHHHHHHHHhc-CCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhc
Q 013506          359 ELYS--MYVGESEALLRNTFQRARLA-APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (441)
Q Consensus       359 ~~~~--~~~g~~~~~~~~~~~~a~~~-~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~  422 (441)
                      .+..  +|.|++++.++.+++.+... ...||||||++.++..-+.  .+    +..+.+.|...|.
T Consensus        88 ~LiAg~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~--~g----~~d~~~~Lkp~L~  148 (195)
T d1jbka_          88 ALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKA--DG----AMDAGNMLKPALA  148 (195)
T ss_dssp             HHHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------------CCCCHHHHHHHHH
T ss_pred             HHhccCCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCC--CC----cccHHHHHHHHHh
Confidence            9874  57899999999999987554 4679999999999853211  11    1234566676776

>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=99.36  E-value=4.5e-12  Score=107.86  Aligned_cols=97  Identities=22%  Similarity=0.305  Sum_probs=75.8

Q ss_pred             cccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCceEEechh
Q 013506          289 WEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLSGA  358 (441)
Q Consensus       289 ~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~----------~~~~~~i~~~  358 (441)
                      ++.+.|.+..-+.+.+.+.             .....+++|+||||+|||++++.+|+..          +..++.++.+
T Consensus        17 ld~~igRd~Ei~~l~~iL~-------------r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~   83 (268)
T d1r6bx2          17 IDPLIGREKELERAIQVLC-------------RRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIG   83 (268)
T ss_dssp             SCCCCSCHHHHHHHHHHHT-------------SSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC
T ss_pred             CCcccChHHHHHHHHHHHh-------------cCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeec
Confidence            4455666655555554442             2445689999999999999999999864          5679999999


Q ss_pred             hhhh--hccCchHHHHHHHHHHHHhcCCeEEEEecccccccc
Q 013506          359 ELYS--MYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAK  398 (441)
Q Consensus       359 ~~~~--~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~  398 (441)
                      .++.  +|.|++++.++.++..+......++|+||++.++..
T Consensus        84 ~liag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~  125 (268)
T d1r6bx2          84 SLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGA  125 (268)
T ss_dssp             ---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTS
T ss_pred             hHhccCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcC
Confidence            9986  689999999999999998888889999999999853

>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=99.35  E-value=3.1e-11  Score=110.99  Aligned_cols=72  Identities=21%  Similarity=0.282  Sum_probs=55.3

Q ss_pred             cccchHHHHHHHHHHHHhhccCchHHHhc-CCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCcccc
Q 013506           20 AIGGNRAAVEALRELITFPLLYSSQAQKL-GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHK   91 (441)
Q Consensus        20 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~   91 (441)
                      -++||+++|+.|.-+++.++.+.+..... .--.+.||||+||+|||||.+|+.+|+.++.||+.+++..+..
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            39999999999999986543221111111 0123579999999999999999999999999999999988764

>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=99.35  E-value=1.5e-12  Score=110.73  Aligned_cols=121  Identities=25%  Similarity=0.289  Sum_probs=80.5

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcC-----CceEEechhhh
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE-----ASFFSLSGAEL  360 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~-----~~~~~i~~~~~  360 (441)
                      +..++++.|.+.+++.+..+++.             ....|++|+|||||||||+|+++|..+.     .++++++.++.
T Consensus        20 P~~~~diig~~~~~~~l~~~i~~-------------~~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~   86 (231)
T d1iqpa2          20 PQRLDDIVGQEHIVKRLKHYVKT-------------GSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDE   86 (231)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHH-------------TCCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHc-------------CCCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcc
Confidence            34688999999999999988763             1234799999999999999999999874     36777777665


Q ss_pred             hhhccCchHHHHHHHHHH--HHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          361 YSMYVGESEALLRNTFQR--ARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~--a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      .+.  .............  .....+.|+++||+|.+..              ...+.|++.|+... ...++|+.+|
T Consensus        87 ~~~--~~~~~~~~~~~~~~~~~~~~~~iilide~d~~~~--------------~~~~~ll~~l~~~~-~~~~~i~~~n  147 (231)
T d1iqpa2          87 RGI--NVIREKVKEFARTKPIGGASFKIIFLDEADALTQ--------------DAQQALRRTMEMFS-SNVRFILSCN  147 (231)
T ss_dssp             HHH--HTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCH--------------HHHHHHHHHHHHTT-TTEEEEEEES
T ss_pred             cch--hHHHHHHHHHHhhhhccCCCceEEeehhhhhcch--------------hHHHHHhhhcccCC-cceEEEeccC
Confidence            442  1111122111111  1234567999999998863              34567888887533 3345555554

>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=99.34  E-value=1.2e-11  Score=101.38  Aligned_cols=121  Identities=14%  Similarity=0.146  Sum_probs=92.5

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhC------CcEEEEccCccccccccchHHHHHHHHHHHHhhhhcCCCeEEEEccc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECG------AHLTVISPHSVHKAHVGESEKALREAFSQASSHALSGKPSVVFIDEI  125 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~------~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~iDe~  125 (441)
                      .+.+++|+||||||||++|..+++...      ..++.+.+..-     .-....++.+..........++..|++|||+
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            567999999999999999999998763      23666665321     1223456666666655555566789999999


Q ss_pred             cccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHhhCCccceEEEecCCCH
Q 013506          126 DALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALRRSGRFDAEVEVTVPTA  196 (441)
Q Consensus       126 ~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~~~~r~~~~i~~~~p~~  196 (441)
                      |.|          ....++.|+..++....      +++++.+|+.+..+.|.+++  |+. .+.++.|..
T Consensus        89 d~l----------~~~aqNaLLK~LEEPp~------~t~fiLit~~~~~ll~TI~S--RC~-~i~~~~p~~  140 (198)
T d2gnoa2          89 ERM----------TQQAANAFLKALEEPPE------YAVIVLNTRRWHYLLPTIKS--RVF-RVVVNVPKE  140 (198)
T ss_dssp             GGB----------CHHHHHHTHHHHHSCCT------TEEEEEEESCGGGSCHHHHT--TSE-EEECCCCHH
T ss_pred             ccc----------chhhhhHHHHHHhCCCC------CceeeeccCChhhCHHHHhc--ceE-EEeCCCchH
Confidence            988          55788999999997432      57888889999999999999  985 788887754

>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=99.33  E-value=1.1e-12  Score=111.96  Aligned_cols=117  Identities=15%  Similarity=0.221  Sum_probs=80.1

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc---------------
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS---------------  351 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~---------------  351 (441)
                      ..++++.|++.+++.+..++..            ...+..+||+||||+|||++|++++..+...               
T Consensus         9 ~~~~dlig~~~~~~~L~~~i~~------------~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~   76 (239)
T d1njfa_           9 QTFADVVGQEHVLTALANGLSL------------GRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCR   76 (239)
T ss_dssp             SSGGGSCSCHHHHHHHHHHHHT------------TCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHH
T ss_pred             CCHHHccChHHHHHHHHHHHHc------------CCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccchHHH
Confidence            3688999999999998887753            1223458999999999999999999987432               


Q ss_pred             ---------eEEechhhhhhhccCchHHHHHHHHHHHHh----cCCeEEEEecccccccccCCCCCCCcchhhHHHHHHH
Q 013506          352 ---------FFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLL  418 (441)
Q Consensus       352 ---------~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll  418 (441)
                               +++++.++.      .....++.+++.+..    +...|+||||+|.+.              ....+.|+
T Consensus        77 ~i~~~~~~~~~~~~~~~~------~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~--------------~~~q~~Ll  136 (239)
T d1njfa_          77 EIEQGRFVDLIEIDAASR------TKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLS--------------RHSFNALL  136 (239)
T ss_dssp             HHHHTCCTTEEEEETTCS------SSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSC--------------HHHHHHHH
T ss_pred             HHHcCCCCeEEEecchhc------CCHHHHHHHHHHHHhccccCCCEEEEEECcccCC--------------HHHHHHHH
Confidence                     233333221      113446666666532    344699999999984              35578999


Q ss_pred             HHhcCCCCCCeEEEEeee
Q 013506          419 TEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       419 ~~l~~~~~~~~v~~~~~~  436 (441)
                      +.|+...... ++|+.||
T Consensus       137 k~lE~~~~~~-~~il~tn  153 (239)
T d1njfa_         137 KTLEEPPEHV-KFLLATT  153 (239)
T ss_dssp             HHHHSCCTTE-EEEEEES
T ss_pred             HHHhcCCCCe-EEEEEcC
Confidence            9999755444 4444443

>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=99.30  E-value=2e-12  Score=109.69  Aligned_cols=121  Identities=17%  Similarity=0.198  Sum_probs=76.7

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-----eEEechhhhh
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEAS-----FFSLSGAELY  361 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~-----~~~i~~~~~~  361 (441)
                      ..++++.|.+++++.+..++..           +  ...|+||+||||+||||+|+++|+.+...     +++.+.++..
T Consensus        11 ~~~~divg~~~~~~~L~~~i~~-----------~--~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~   77 (227)
T d1sxjc2          11 ETLDEVYGQNEVITTVRKFVDE-----------G--KLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDR   77 (227)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHT-----------T--CCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCC
T ss_pred             CCHHHccCcHHHHHHHHHHHHc-----------C--CCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecccccC
Confidence            4678899999999999888753           1  12369999999999999999999987533     4555555543


Q ss_pred             hhccCchHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEe
Q 013506          362 SMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPI  434 (441)
Q Consensus       362 ~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~  434 (441)
                      +.............+.........+++|||+|.+.+              ...+.|++.|+.......+++..
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~kiiiiDe~d~~~~--------------~~~~~Ll~~le~~~~~~~~~~~~  136 (227)
T d1sxjc2          78 GIDVVRNQIKDFASTRQIFSKGFKLIILDEADAMTN--------------AAQNALRRVIERYTKNTRFCVLA  136 (227)
T ss_dssp             SHHHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCH--------------HHHHHHHHHHHHTTTTEEEEEEE
T ss_pred             CeeeeecchhhccccccccCCCeEEEEEeccccchh--------------hHHHHHHHHhhhcccceeecccc
Confidence            311111111101111111223446999999998852              45678888888755544444433

>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=99.23  E-value=1e-11  Score=104.86  Aligned_cols=119  Identities=21%  Similarity=0.269  Sum_probs=81.2

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCC-----ceEEechhhh
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEA-----SFFSLSGAEL  360 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~-----~~~~i~~~~~  360 (441)
                      +..++++.|++.+.+.+..++..             ....|++|+||||+||||+|+++|+.++.     .+++++.++.
T Consensus        11 P~~~~d~ig~~~~~~~L~~~~~~-------------~~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~   77 (224)
T d1sxjb2          11 PQVLSDIVGNKETIDRLQQIAKD-------------GNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDD   77 (224)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHS-------------CCCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSC
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHc-------------CCCCeEEEECCCCCCchhhHHHHHHHHhcccccccccccccccc
Confidence            34678899999999999888763             11236999999999999999999998764     3777777665


Q ss_pred             hhhccCchHHHHHHHHHHH-------HhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEE
Q 013506          361 YSMYVGESEALLRNTFQRA-------RLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYP  433 (441)
Q Consensus       361 ~~~~~g~~~~~~~~~~~~a-------~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~  433 (441)
                      .+.      ..+...+...       ......++++||+|.+..              ...+.|+..|+........++.
T Consensus        78 ~~~------~~i~~~~~~~~~~~~~~~~~~~kviiiDe~d~~~~--------------~~~~~ll~~~e~~~~~~~~i~~  137 (224)
T d1sxjb2          78 RGI------DVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTA--------------GAQQALRRTMELYSNSTRFAFA  137 (224)
T ss_dssp             CSH------HHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCH--------------HHHHTTHHHHHHTTTTEEEEEE
T ss_pred             CCc------eehhhHHHHHHHhhccCCCcceEEEEEecccccch--------------hHHHHHhhhccccccceeeeec
Confidence            431      1122222211       112356999999998852              4467788888865555555555


Q ss_pred             eeee
Q 013506          434 ISFI  437 (441)
Q Consensus       434 ~~~~  437 (441)
                      ..++
T Consensus       138 ~~~~  141 (224)
T d1sxjb2         138 CNQS  141 (224)
T ss_dssp             ESCG
T ss_pred             cCch
Confidence            5444

>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=99.21  E-value=7.8e-12  Score=107.86  Aligned_cols=109  Identities=21%  Similarity=0.219  Sum_probs=72.3

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCc----hhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHS----TAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~----~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~  362 (441)
                      ..++++.|.+..++.|.+++.......    ......+..+..+++|+|||||||||+|+++|+.++.+++.++.++..+
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            468899999999999988875311110    0111224445568999999999999999999999999999999887654


Q ss_pred             hccCchHHHHHHH--------------HHHHHhcCCeEEEEeccccccc
Q 013506          363 MYVGESEALLRNT--------------FQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       363 ~~~g~~~~~~~~~--------------~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      .+...  ..++..              ..........++++||+|.+..
T Consensus        91 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~  137 (253)
T d1sxja2          91 KTLLN--AGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSG  137 (253)
T ss_dssp             HHHHH--HTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCT
T ss_pred             hHHHH--HHHHHHhhcchhhhhhhhhhhcccccccceEEEeeecccccc
Confidence            32110  000000              0001123456999999999863

>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=99.12  E-value=1.8e-10  Score=103.74  Aligned_cols=123  Identities=20%  Similarity=0.242  Sum_probs=70.7

Q ss_pred             ccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCceEEech
Q 013506          288 TWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA----------EASFFSLSG  357 (441)
Q Consensus       288 ~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~----------~~~~~~i~~  357 (441)
                      .++.+.|.+.-.+.+.+.+.             .+...+.+|+|+||+|||+++..+|...          +..++.++.
T Consensus        20 ~ld~~~gr~~ei~~~~~~L~-------------r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~   86 (387)
T d1qvra2          20 KLDPVIGRDEEIRRVIQILL-------------RRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQM   86 (387)
T ss_dssp             CSCCCCSCHHHHHHHHHHHH-------------CSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC
T ss_pred             CCCCCcCcHHHHHHHHHHHh-------------cCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeH
Confidence            34556676655555555543             2344578999999999999999998754          456999999


Q ss_pred             hhhhh--hccCchHHHHHHHHHHHHhcC-CeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEE
Q 013506          358 AELYS--MYVGESEALLRNTFQRARLAA-PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVII  431 (441)
Q Consensus       358 ~~~~~--~~~g~~~~~~~~~~~~a~~~~-~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~  431 (441)
                      ..+..  +|.|++++.++.++..+.... +.||||||++.+++.-+.+     + +..+.+-|.-.|.  +++-+||
T Consensus        87 ~~l~ag~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~-----g-~~d~a~~Lkp~L~--rg~~~~I  155 (387)
T d1qvra2          87 GSLLAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAE-----G-AVDAGNMLKPALA--RGELRLI  155 (387)
T ss_dssp             -----------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------------HHHHH--TTCCCEE
T ss_pred             hhhhcccCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCC-----C-cccHHHHHHHHHh--CCCccee
Confidence            99885  688999999999999987764 6789999999998532211     1 2345666777775  3444443

>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=99.06  E-value=2.3e-10  Score=97.36  Aligned_cols=122  Identities=19%  Similarity=0.233  Sum_probs=75.3

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc------CCceEEechhhh
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA------EASFFSLSGAEL  360 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~------~~~~~~i~~~~~  360 (441)
                      ..++++.|.+.+++.+..++..             ....+++|+|||||||||+++++|+.+      ....+.++.+..
T Consensus         9 ~~~~diig~~~~~~~l~~~i~~-------------~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~   75 (237)
T d1sxjd2           9 KNLDEVTAQDHAVTVLKKTLKS-------------ANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDE   75 (237)
T ss_dssp             SSTTTCCSCCTTHHHHHHHTTC-------------TTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSC
T ss_pred             CCHHHccCcHHHHHHHHHHHHc-------------CCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheecccc
Confidence            4677888999988888877652             112369999999999999999999986      455566665444


Q ss_pred             hhh-ccCchHHHHH---------HHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeE
Q 013506          361 YSM-YVGESEALLR---------NTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVI  430 (441)
Q Consensus       361 ~~~-~~g~~~~~~~---------~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v  430 (441)
                      .+. +.....++..         ............|+||||+|.+..              ...+.++..++.... ..+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~--------------~~~~~l~~~~~~~~~-~~~  140 (237)
T d1sxjd2          76 RGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTA--------------DAQSALRRTMETYSG-VTR  140 (237)
T ss_dssp             CCHHHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCH--------------HHHHHHHHHHHHTTT-TEE
T ss_pred             ccchHHHHHHHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCH--------------HHHHHHhhccccccc-ccc
Confidence            321 1111111110         111122233455999999999853              345667777765433 334


Q ss_pred             EEEeee
Q 013506          431 IYPISF  436 (441)
Q Consensus       431 ~~~~~~  436 (441)
                      +++.++
T Consensus       141 ~i~~~~  146 (237)
T d1sxjd2         141 FCLICN  146 (237)
T ss_dssp             EEEEES
T ss_pred             cccccc
Confidence            444433

>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=99.00  E-value=6.4e-10  Score=91.89  Aligned_cols=97  Identities=11%  Similarity=0.191  Sum_probs=63.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc------------------------eEEechhhhhhhccCchHHHHHHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEAS------------------------FFSLSGAELYSMYVGESEALLRNTFQRA  379 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~------------------------~~~i~~~~~~~~~~g~~~~~~~~~~~~a  379 (441)
                      +..+||+||+|+||||+|+.+|..+-+.                        ++.+...+- .  ..-..+.++++.+.+
T Consensus        24 ~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~-~--~~i~~~~ir~l~~~~  100 (207)
T d1a5ta2          24 HHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKG-K--NTLGVDAVREVTEKL  100 (207)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTT-C--SSBCHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhccccccchhhhhhc-c--cccccchhhHHhhhh
Confidence            4458999999999999999999976321                        111111100 0  011235566666654


Q ss_pred             H----hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          380 R----LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       380 ~----~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      .    .+...|++|||+|.+.              ....+.||+.|+..+....+|+++.++
T Consensus       101 ~~~~~~~~~kviIide~d~l~--------------~~a~n~Llk~lEep~~~~~fIl~t~~~  148 (207)
T d1a5ta2         101 NEHARLGGAKVVWVTDAALLT--------------DAAANALLKTLEEPPAETWFFLATREP  148 (207)
T ss_dssp             TSCCTTSSCEEEEESCGGGBC--------------HHHHHHHHHHHTSCCTTEEEEEEESCG
T ss_pred             hhccccCccceEEechhhhhh--------------hhhhHHHHHHHHhhcccceeeeeecCh
Confidence            3    3456699999999985              356899999999866555555555544

>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=99.00  E-value=9.1e-10  Score=98.38  Aligned_cols=90  Identities=20%  Similarity=0.153  Sum_probs=62.7

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEeccccccccc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADVVGAKR  399 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r  399 (441)
                      +.+.+.+++|+||||||||++|+++|..++.+++.+++++..+.|            .-.......+.+||+++.....+
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            556677999999999999999999999999999999998876543            11112344567788887766544


Q ss_pred             CCCCCCCcchhhHHHHHHHHHhcCC
Q 013506          400 GGSSSTSITVGERLLSTLLTEMDGL  424 (441)
Q Consensus       400 ~~~~~~~~~~~~~~~~~ll~~l~~~  424 (441)
                      ....  ..-+. .-++.|...+||.
T Consensus       218 ~~~~--~~~~~-DeiD~l~~~~dg~  239 (362)
T d1svma_         218 RDLP--SGQGI-NNLDNLRDYLDGS  239 (362)
T ss_dssp             TTCC--CCSHH-HHHHTTHHHHHCS
T ss_pred             cCCC--CeEEE-ehHhhcccccCCc
Confidence            3321  11222 2356677777764

>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=98.98  E-value=3.5e-08  Score=85.64  Aligned_cols=186  Identities=18%  Similarity=0.195  Sum_probs=110.6

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccccccc
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKAHVGE   96 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~~~~~   96 (441)
                      +.++++|.++..+.|.+.                 .+++++|+||+|+|||++++.++..++..+..+++..........
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            448999999998887652                 346899999999999999999999998888777665443222111


Q ss_pred             hHH---H-------------------------------------------HHHHHHHHHhhhhcCCCeEEEEcccccccc
Q 013506           97 SEK---A-------------------------------------------LREAFSQASSHALSGKPSVVFIDEIDALCP  130 (441)
Q Consensus        97 ~~~---~-------------------------------------------~~~~~~~~~~~~~~~~~~il~iDe~~~l~~  130 (441)
                      ...   .                                           +..+++...  ....++.++++||++.+..
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~--~~~~~~~~i~id~~~~~~~  150 (283)
T d2fnaa2          73 YKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFE--QASKDNVIIVLDEAQELVK  150 (283)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHH--HTCSSCEEEEEETGGGGGG
T ss_pred             HHHHHHHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHH--hhcccccccccchhhhhcc
Confidence            110   0                                           111111111  1234577899999988754


Q ss_pred             CCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCC-------c--cCHHHhhCCccceEEEecCCCHHHHHH
Q 013506          131 RRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVD-------A--IDPALRRSGRFDAEVEVTVPTAEERFE  201 (441)
Q Consensus       131 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~-------~--l~~~l~~~~r~~~~i~~~~p~~~~~~~  201 (441)
                      ....      .....+........       .+..+.+.....       .  ....+  .+|+...+.+++.+.++..+
T Consensus       151 ~~~~------~~~~~l~~~~~~~~-------~~~~i~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~i~L~~l~~~e~~~  215 (283)
T d2fnaa2         151 LRGV------NLLPALAYAYDNLK-------RIKFIMSGSEMGLLYDYLRVEDPESPL--FGRAFSTVELKPFSREEAIE  215 (283)
T ss_dssp             CTTC------CCHHHHHHHHHHCT-------TEEEEEEESSHHHHHHHTTTTCTTSTT--TTCCCEEEEECCCCHHHHHH
T ss_pred             cchH------HHHHHHHHHHHhhh-------hhhhhhccccchHHHHHHHhhhhcchh--cccceeEEeeCCCCHHHHHH
Confidence            3321      12333333333321       233333322211       0  11111  12555679999999999999


Q ss_pred             HHHHHhccCCCCCcccHHHHHHHCCCCCHHHHHHHHH
Q 013506          202 ILKLYTKKVPLDANVDLEAIATSCNGYVGADLEALCR  238 (441)
Q Consensus       202 il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~  238 (441)
                      ++...+.......+ ..+.+.+.+.|. +..+..+..
T Consensus       216 ~l~~~~~~~~~~~~-~~~~i~~~~~G~-P~~L~~~~~  250 (283)
T d2fnaa2         216 FLRRGFQEADIDFK-DYEVVYEKIGGI-PGWLTYFGF  250 (283)
T ss_dssp             HHHHHHHHHTCCCC-CHHHHHHHHCSC-HHHHHHHHH
T ss_pred             HHHhhhhhcCCCHH-HHHHHHHHhCCC-HHHHHHHHH
Confidence            99887766554433 367777878775 455554443

>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=98.95  E-value=1.5e-09  Score=93.12  Aligned_cols=50  Identities=22%  Similarity=0.273  Sum_probs=39.0

Q ss_pred             cccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          287 VTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       287 ~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ..++++.|.+++++.+..++...            ....+++|+|||||||||+|+++|+.+
T Consensus         8 ~~~~diig~~~~~~~L~~~~~~~------------~~~~~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2           8 KSLNALSHNEELTNFLKSLSDQP------------RDLPHLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             CSGGGCCSCHHHHHHHHTTTTCT------------TCCCCEEEECSTTSSHHHHHHTHHHHH
T ss_pred             CCHHHccCcHHHHHHHHHHHHcC------------CCCCeEEEECCCCCCHHHHHHHHHHhh
Confidence            36788999988888877655321            112369999999999999999999976

>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=98.94  E-value=3e-09  Score=90.04  Aligned_cols=193  Identities=18%  Similarity=0.183  Sum_probs=103.6

Q ss_pred             ccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC---CcEEEEccCccccccccch
Q 013506           21 IGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECG---AHLTVISPHSVHKAHVGES   97 (441)
Q Consensus        21 i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~---~~~~~v~~~~~~~~~~~~~   97 (441)
                      .||.....+.+.+.+...           .....+|+|+|++|||||++|+++.....   .+++.+++.......    
T Consensus         2 ~v~~S~~~~~~~~~~~~~-----------a~~~~pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~~~~----   66 (247)
T d1ny5a2           2 YVFESPKMKEILEKIKKI-----------SCAECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDI----   66 (247)
T ss_dssp             CCCCSHHHHHHHHHHHHH-----------TTCCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHH----
T ss_pred             eEecCHHHHHHHHHHHHH-----------hCCCCCEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhhhcc----
Confidence            467766666666655431           13457899999999999999999986542   356777765543211    


Q ss_pred             HHHHHHHHHHHHh-----------hhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCC-----CCCCCC
Q 013506           98 EKALREAFSQASS-----------HALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKP-----SKTSVP  161 (441)
Q Consensus        98 ~~~~~~~~~~~~~-----------~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~-----~~~~~~  161 (441)
                        ....+|.....           .....+++.|||||+|.|          +...+..++..++....     ......
T Consensus        67 --~~~~lfg~~~~~~~~~~~~~~g~l~~a~gGtL~l~~i~~L----------~~~~Q~~L~~~l~~~~~~~~~~~~~~~~  134 (247)
T d1ny5a2          67 --FEAELFGYEKGAFTGAVSSKEGFFELADGGTLFLDEIGEL----------SLEAQAKLLRVIESGKFYRLGGRKEIEV  134 (247)
T ss_dssp             --HHHHHHCBCTTSSTTCCSCBCCHHHHTTTSEEEEESGGGC----------CHHHHHHHHHHHHHSEECCBTCCSBEEC
T ss_pred             --cHHHhcCcccCCcCCcccccCCHHHccCCCEEEEeChHhC----------CHHHHHHHHHHHHhCCEEECCCCCceec
Confidence              11111210000           000123568999999988          34566777777754221     111112


Q ss_pred             eEEEEEEcCCCC-------ccCHHHhhCCccc-eEEEecCCC--HHHHHHHHHHHhcc----CCCCC-ccc---HHHHHH
Q 013506          162 HVVVVASTNRVD-------AIDPALRRSGRFD-AEVEVTVPT--AEERFEILKLYTKK----VPLDA-NVD---LEAIAT  223 (441)
Q Consensus       162 ~~~vi~~~~~~~-------~l~~~l~~~~r~~-~~i~~~~p~--~~~~~~il~~~~~~----~~~~~-~~~---~~~l~~  223 (441)
                      ++.+|++++.+-       .+++.+..  |+. ..+.+|+..  .++...++..++..    ..... ..+   +..+..
T Consensus       135 ~~RlI~~s~~~l~~l~~~~~f~~~L~~--~l~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~~~~~~~~ls~~al~~L~~  212 (247)
T d1ny5a2         135 NVRILAATNRNIKELVKEGKFREDLYY--RLGVIEIEIPPLRERKEDIIPLANHFLKKFSRKYAKEVEGFTKSAQELLLS  212 (247)
T ss_dssp             CCEEEEEESSCHHHHHHTTSSCHHHHH--HHTTEEEECCCGGGCHHHHHHHHHHHHHHHHHHTTCCCCEECHHHHHHHHH
T ss_pred             CeEEEEecCCCHHHHHHcCCCcHHHHh--hcCeeeecCCChhhchhhHhhhhhhhhhhhhhhcCCCCCCCCHHHHHHHHh
Confidence            356777776531       34555554  443 346666653  34454455544332    22221 122   333333


Q ss_pred             HCCCCCHHHHHHHHHHHHH
Q 013506          224 SCNGYVGADLEALCREATM  242 (441)
Q Consensus       224 ~~~g~~~~~i~~l~~~a~~  242 (441)
                      ....-+-++++++++.+..
T Consensus       213 ~~WPGNl~EL~~~l~~a~~  231 (247)
T d1ny5a2         213 YPWYGNVRELKNVIERAVL  231 (247)
T ss_dssp             SCCTTHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHH
Confidence            3333345677777776653

>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=98.94  E-value=6.8e-11  Score=103.07  Aligned_cols=44  Identities=20%  Similarity=0.340  Sum_probs=38.6

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM  363 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~  363 (441)
                      ....+.++||+|||||||||+|+++|..++.+++.++.+++...
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            33456789999999999999999999999999999999887654

>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=98.92  E-value=1.7e-09  Score=96.66  Aligned_cols=50  Identities=26%  Similarity=0.300  Sum_probs=39.2

Q ss_pred             ccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          286 KVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       286 ~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .+.|.++.|++.+|..+.-....             ..++|+||+||||||||++||.++.++
T Consensus         3 ~~~f~~I~Gq~~~kral~laa~~-------------~~~h~vLl~G~pG~GKT~lar~~~~iL   52 (333)
T d1g8pa_           3 VFPFSAIVGQEDMKLALLLTAVD-------------PGIGGVLVFGDRGTGKSTAVRALAALL   52 (333)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHHC-------------GGGCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             CCChhhccCcHHHHHHHHHHHhc-------------cCCCeEEEECCCCccHHHHHHHHHHhC
Confidence            34688999999999876543321             113479999999999999999999987

>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=98.91  E-value=7.2e-11  Score=108.51  Aligned_cols=89  Identities=25%  Similarity=0.399  Sum_probs=62.9

Q ss_pred             cccCchhHHHHHHHHHhcccCCch--hhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh-ccCc
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHST--AFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM-YVGE  367 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~--~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~-~~g~  367 (441)
                      .++|+++.|+.+.-.+-.-..+..  .-.+..+ .+.|+||+||||||||.+||.+|+.++.||+.++++.+... |+|+
T Consensus        15 yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei-~ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~daT~fTeaGYvG~   93 (443)
T d1g41a_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEV-TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   93 (443)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTC-CCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCC
T ss_pred             cccCcHHHHHHHHHHHHHHHHHhhccccccccc-ccccEEEECCCCCCHHHHHHHHHHHhCCCEEEeecceeeecceeec
Confidence            478999999988766531110000  0011112 35699999999999999999999999999999999998764 8888


Q ss_pred             h-HHHHHHHHHHHH
Q 013506          368 S-EALLRNTFQRAR  380 (441)
Q Consensus       368 ~-~~~~~~~~~~a~  380 (441)
                      . +..++++++.|.
T Consensus        94 DVesii~~L~~~a~  107 (443)
T d1g41a_          94 EVDSIIRDLTDSAM  107 (443)
T ss_dssp             CTHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHh
Confidence            7 556677777663

>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=98.85  E-value=1.6e-09  Score=88.44  Aligned_cols=96  Identities=7%  Similarity=0.056  Sum_probs=68.7

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcC------CceEEechhhhhhhccCchHHHHHHHHHHHHh----cCCeEEEEecc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAAE------ASFFSLSGAELYSMYVGESEALLRNTFQRARL----AAPSIIFFDEA  392 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~~------~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~----~~~~vl~iDE~  392 (441)
                      .+.+++|+||||||||++|+.++....      .+++.+....   .  .-.-+.+|.+.+.+..    +...|++|||+
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---E--NIGIDDIRTIKDFLNYSPELYTRKYVIVHDC   88 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSS---S--CBCHHHHHHHHHHHTSCCSSSSSEEEEETTG
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCc---C--CCCHHHHHHHHHHHhhCcccCCCEEEEEeCc
Confidence            355899999999999999999998662      2466665421   0  0124567777777643    34569999999


Q ss_pred             cccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          393 DVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       393 d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      |.+-              ....+.||+.|+..+.....|+++++.
T Consensus        89 d~l~--------------~~aqNaLLK~LEEPp~~t~fiLit~~~  119 (198)
T d2gnoa2          89 ERMT--------------QQAANAFLKALEEPPEYAVIVLNTRRW  119 (198)
T ss_dssp             GGBC--------------HHHHHHTHHHHHSCCTTEEEEEEESCG
T ss_pred             cccc--------------hhhhhHHHHHHhCCCCCceeeeccCCh
Confidence            9984              467899999999766655555555544

>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=98.71  E-value=5.9e-08  Score=83.89  Aligned_cols=99  Identities=17%  Similarity=0.119  Sum_probs=58.7

Q ss_pred             cccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHHHHHHHHHHcC----CceEEechhhhhh----
Q 013506          291 DIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTTLAKAAAHAAE----ASFFSLSGAELYS----  362 (441)
Q Consensus       291 ~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~----~~~~~i~~~~~~~----  362 (441)
                      .+++.+...+.+.+++...+..       .-.++.+++|+||||||||++++.+++.+.    ..++.++......    
T Consensus        17 ~l~~Re~ei~~l~~~l~~~l~~-------~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~   89 (276)
T d1fnna2          17 RLPHREQQLQQLDILLGNWLRN-------PGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAI   89 (276)
T ss_dssp             CCTTCHHHHHHHHHHHHHHHHS-------TTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHhC-------CCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhhhhh
Confidence            4566666556666655432111       224567899999999999999999999874    3444444332111    


Q ss_pred             ------------hccCch-HHHHHHHHHHHH-hcCCeEEEEecccccc
Q 013506          363 ------------MYVGES-EALLRNTFQRAR-LAAPSIIFFDEADVVG  396 (441)
Q Consensus       363 ------------~~~g~~-~~~~~~~~~~a~-~~~~~vl~iDE~d~~~  396 (441)
                                  .+.+.. ......+.+... .....+.++|++|.+.
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~  137 (276)
T d1fnna2          90 IGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLA  137 (276)
T ss_dssp             HHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSC
T ss_pred             hhhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhh
Confidence                        012222 222333444443 3356688899999875

>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=98.64  E-value=1.2e-08  Score=88.47  Aligned_cols=44  Identities=34%  Similarity=0.564  Sum_probs=38.3

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCccccc
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHSVHKA   92 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~~~~~   92 (441)
                      +...|.++||+||||||||++|+.+|+.++.+++.+++..+...
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            44567899999999999999999999999999999998766543

>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=98.63  E-value=6.7e-08  Score=77.64  Aligned_cols=87  Identities=18%  Similarity=0.265  Sum_probs=53.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEechhh---------------------h------------hhhccCc-----
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAE---------------------L------------YSMYVGE-----  367 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~---------------------~------------~~~~~g~-----  367 (441)
                      +++++|||||||||+++.++..+..+...+....                     .            ..++...     
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGKRAIGFWTEEVRDPETKKRTGFRIITTEGKKKIFSSKFFTSKKLVGSYGVNVQYFE   81 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGGGEEEEEEEEEC------CCEEEEEETTCCEEEEEETTCCCSSEETTEEECHHHHH
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCCCcceEEECCcchHHHHHhhhhhhhhhhHHHHHHhhhhhhhhhhhhhhhcCcchhh
Confidence            5899999999999999999998854321111000                     0            0001000     


Q ss_pred             --hHHHHHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcC
Q 013506          368 --SEALLRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDG  423 (441)
Q Consensus       368 --~~~~~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~  423 (441)
                        .....+..+..+....|+++++||+.....           ........+...+..
T Consensus        82 ~~~~~~~~~~l~~~~~~~~~vlllDE~~~~~~-----------~~~~~~~~l~~~l~~  128 (178)
T d1ye8a1          82 ELAIPILERAYREAKKDRRKVIIIDEIGKMEL-----------FSKKFRDLVRQIMHD  128 (178)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCEEEECCCSTTGG-----------GCHHHHHHHHHHHTC
T ss_pred             hhhhhhHHHHHHHHHhcCCCceeecCCCccch-----------hhHHHHHHHHHHhcc
Confidence              122345677777788999999999865431           124556677776653

>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=98.63  E-value=6.8e-08  Score=84.05  Aligned_cols=99  Identities=13%  Similarity=-0.001  Sum_probs=54.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcC---------CceEEechhhhhhh----------------ccCchHHHHHHHHHH-H
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAE---------ASFFSLSGAELYSM----------------YVGESEALLRNTFQR-A  379 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~---------~~~~~i~~~~~~~~----------------~~g~~~~~~~~~~~~-a  379 (441)
                      +++|+||||||||++++++++.+.         ..+..++.......                +.+.....+.+.+.. .
T Consensus        48 ~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  127 (287)
T d1w5sa2          48 IYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNL  127 (287)
T ss_dssp             EEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHH
T ss_pred             EEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchhhHHHHHhhhcccccccccchHHHHHHHHHHHH
Confidence            456789999999999999998862         22333333222111                223333333333333 3


Q ss_pred             H-hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCe
Q 013506          380 R-LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKV  429 (441)
Q Consensus       380 ~-~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  429 (441)
                      . ...+.++++||+|.+....+.     .......+..+...+........
T Consensus       128 ~~~~~~~~~iide~d~l~~~~~~-----~~~~~~~l~~l~~~l~~~~~~~~  173 (287)
T d1w5sa2         128 YVENHYLLVILDEFQSMLSSPRI-----AAEDLYTLLRVHEEIPSRDGVNR  173 (287)
T ss_dssp             HHHTCEEEEEEESTHHHHSCTTS-----CHHHHHHHHTHHHHSCCTTSCCB
T ss_pred             HhccCccccceeEEEEecccccc-----chhHHHHHHHHHHhcchhhcccc
Confidence            2 345668999999999754322     11122334444555555444433

>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=98.63  E-value=3.2e-08  Score=81.60  Aligned_cols=70  Identities=16%  Similarity=0.233  Sum_probs=49.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCchH-HHHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESE-ALLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~~-~~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      .++++||+|||||.|+++++..+   +..++.++..++...+..... .....+++..+  ...+|+||+++.+..
T Consensus        38 ~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~dll~iDDi~~i~~  111 (213)
T d1l8qa2          38 PIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSADDFAQAMVEHLKKGTINEFRNMYK--SVDLLLLDDVQFLSG  111 (213)
T ss_dssp             SEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHHHHHHTCHHHHHHHHH--TCSEEEEECGGGGTT
T ss_pred             cEEEECCCCCcHHHHHHHHHHHhccCccceEEechHHHHHHHHHHHHccchhhHHHHHh--hccchhhhhhhhhcC
Confidence            48999999999999999999877   567778888777654332221 11223333322  345999999999973

>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=98.55  E-value=3.9e-07  Score=72.95  Aligned_cols=25  Identities=40%  Similarity=0.816  Sum_probs=22.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      .|+|+||||||||||++.+++.+..
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCC
Confidence            4899999999999999999998854

>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=98.29  E-value=1.1e-07  Score=79.16  Aligned_cols=31  Identities=26%  Similarity=0.358  Sum_probs=27.3

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.++++..+.++||+|+||||+++.+++.+.
T Consensus        24 l~i~~Ge~vaIvG~sGsGKSTLl~ll~gl~~   54 (241)
T d2pmka1          24 LSIKQGEVIGIVGRSGSGKSTLTKLIQRFYI   54 (241)
T ss_dssp             EEEETTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            3467889999999999999999999998764

>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=98.26  E-value=5.8e-07  Score=70.94  Aligned_cols=32  Identities=28%  Similarity=0.553  Sum_probs=28.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      .+++|+|||||||||+|+.||..++++++...
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            36899999999999999999999999987544

>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=98.25  E-value=4.5e-07  Score=74.58  Aligned_cols=31  Identities=23%  Similarity=0.347  Sum_probs=27.1

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.+..+..+.|+||+||||||+++++++...
T Consensus        26 l~i~~Ge~~~iiG~sGsGKSTLl~~i~gl~~   56 (230)
T d1l2ta_          26 LNIKEGEFVSIMGPSGSGKSTMLNIIGCLDK   56 (230)
T ss_dssp             EEECTTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EEEcCCCEEEEECCCCCCcchhhHhccCCCC
Confidence            4567889999999999999999999988653

>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=98.23  E-value=1.2e-07  Score=77.79  Aligned_cols=31  Identities=23%  Similarity=0.350  Sum_probs=27.3

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.+.++..+.|.||+||||||+++++++.+.
T Consensus        21 ~~i~~Ge~~~liGpsGaGKSTll~~l~Gl~~   51 (229)
T d3d31a2          21 LKVESGEYFVILGPTGAGKTLFLELIAGFHV   51 (229)
T ss_dssp             EEECTTCEEEEECCCTHHHHHHHHHHHTSSC
T ss_pred             EEECCCCEEEEECCCCCcHHHHHHHHhcCcC
Confidence            3467889999999999999999999998764

>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=98.21  E-value=2.4e-07  Score=77.92  Aligned_cols=31  Identities=23%  Similarity=0.399  Sum_probs=27.2

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.++++..+.|+||+||||||+++.+++.+.
T Consensus        36 l~i~~Ge~iaivG~sGsGKSTLl~ll~gl~~   66 (253)
T d3b60a1          36 LKIPAGKTVALVGRSGSGKSTIASLITRFYD   66 (253)
T ss_dssp             EEECTTCEEEEEECTTSSHHHHHHHHTTTTC
T ss_pred             EEEcCCCEEEEECCCCChHHHHHHHHhcccC
Confidence            3467889999999999999999999988763

>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=98.21  E-value=2.7e-07  Score=77.53  Aligned_cols=31  Identities=23%  Similarity=0.314  Sum_probs=27.3

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.++++..+.|+||+||||||+++.+++.+.
T Consensus        35 l~i~~Ge~vaivG~sGsGKSTLl~li~gl~~   65 (251)
T d1jj7a_          35 FTLRPGEVTALVGPNGSGKSTVAALLQNLYQ   65 (251)
T ss_dssp             EEECTTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHhcccC
Confidence            3467889999999999999999999998764

>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=98.21  E-value=1.2e-06  Score=72.04  Aligned_cols=31  Identities=26%  Similarity=0.430  Sum_probs=27.1

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.+.++..+.|.||+||||||+++.+++.+.
T Consensus        21 l~i~~Gei~~liGpsGsGKSTLl~~i~Gl~~   51 (232)
T d2awna2          21 LDIHEGEFVVFVGPSGCGKSTLLRMIAGLET   51 (232)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEcCCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            3467889999999999999999999998763

>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=98.21  E-value=4e-07  Score=71.88  Aligned_cols=30  Identities=27%  Similarity=0.551  Sum_probs=27.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      ++|+|+|||||||||+++.+|+.++.+++.
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            579999999999999999999999988764

>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=98.21  E-value=8.8e-07  Score=74.52  Aligned_cols=70  Identities=20%  Similarity=0.276  Sum_probs=45.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC---CceEEechhhhhhhc-----cCch-------HHHHHHHHHHHHhcCCeEEE
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAE---ASFFSLSGAELYSMY-----VGES-------EALLRNTFQRARLAAPSIIF  388 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~---~~~~~i~~~~~~~~~-----~g~~-------~~~~~~~~~~a~~~~~~vl~  388 (441)
                      ..++++.|++|||||++|+++.....   .+++.+++..+....     .|..       ......+|..|.   ..+||
T Consensus        23 ~~pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~~~~~~~~lfg~~~~~~~~~~~~~~g~l~~a~---gGtL~   99 (247)
T d1ny5a2          23 ECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGYEKGAFTGAVSSKEGFFELAD---GGTLF   99 (247)
T ss_dssp             CSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHHHHHHCBCTTSSTTCCSCBCCHHHHTT---TSEEE
T ss_pred             CCCEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhhhcccHHHhcCcccCCcCCcccccCCHHHccC---CCEEE
Confidence            34699999999999999999987763   457777775543210     0000       000112444443   34999


Q ss_pred             Eecccccc
Q 013506          389 FDEADVVG  396 (441)
Q Consensus       389 iDE~d~~~  396 (441)
                      |||+|.+.
T Consensus       100 l~~i~~L~  107 (247)
T d1ny5a2         100 LDEIGELS  107 (247)
T ss_dssp             EESGGGCC
T ss_pred             EeChHhCC
Confidence            99999985

>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=98.20  E-value=1.4e-06  Score=68.29  Aligned_cols=31  Identities=29%  Similarity=0.389  Sum_probs=28.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      +++|+|+|||||||+++++|+.++.+++..+
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l~~~~~d~d   32 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDLDLVFLDSD   32 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEEHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCCCEEecC
Confidence            5889999999999999999999999998754

>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=98.20  E-value=1.3e-07  Score=78.21  Aligned_cols=31  Identities=35%  Similarity=0.449  Sum_probs=27.3

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.+.++..+.|.||+||||||+++.+++.+.
T Consensus        27 l~v~~Ge~~~liGpsGaGKSTLl~~i~Gl~~   57 (239)
T d1v43a3          27 LTIKDGEFLVLLGPSGCGKTTTLRMIAGLEE   57 (239)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEECCCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            3467889999999999999999999998764

>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=98.19  E-value=2.2e-07  Score=78.10  Aligned_cols=31  Identities=23%  Similarity=0.377  Sum_probs=27.0

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.++++..+.|+||+||||||+++.+++.+.
T Consensus        39 l~i~~Ge~vaivG~sGsGKSTLl~ll~gl~~   69 (255)
T d2hyda1          39 LSIEKGETVAFVGMSGGGKSTLINLIPRFYD   69 (255)
T ss_dssp             EEECTTCEEEEECSTTSSHHHHHTTTTTSSC
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHHhcCC
Confidence            3567889999999999999999999987664

>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=98.17  E-value=1.2e-06  Score=72.07  Aligned_cols=30  Identities=33%  Similarity=0.504  Sum_probs=26.5

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++..+.++||+||||||+.++++...
T Consensus        21 l~i~~Gei~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          21 LDIHEGEFVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEcCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            355677789999999999999999999887

>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=98.17  E-value=6e-07  Score=72.51  Aligned_cols=38  Identities=16%  Similarity=0.106  Sum_probs=32.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhh
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYS  362 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~  362 (441)
                      ..+++.|||||||||+|+.||..++.+++......+..
T Consensus         8 K~I~i~G~~GsGKTTla~~La~~~~~~~i~~~~~~~~~   45 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAAVFNTTSAWEYGREFVF   45 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHHTTCEEECCTTHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCeEeeehHHHhh
Confidence            46899999999999999999999999988777655543

>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=98.17  E-value=2.1e-06  Score=71.99  Aligned_cols=32  Identities=25%  Similarity=0.316  Sum_probs=27.7

Q ss_pred             hcCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          318 RLGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       318 ~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      .+.+.++..+.++||+||||||++++++..+.
T Consensus        35 sl~i~~Ge~iaivG~sGsGKSTLl~ll~gl~~   66 (253)
T d3b60a1          35 NLKIPAGKTVALVGRSGSGKSTIASLITRFYD   66 (253)
T ss_dssp             EEEECTTCEEEEEECTTSSHHHHHHHHTTTTC
T ss_pred             EEEEcCCCEEEEECCCCChHHHHHHHHhcccC
Confidence            34567788899999999999999999998873

>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=98.16  E-value=2e-06  Score=71.44  Aligned_cols=31  Identities=26%  Similarity=0.186  Sum_probs=27.3

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +.+.++..+.++||+|+||||++++++..+.
T Consensus        24 l~i~~Ge~vaIvG~sGsGKSTLl~ll~gl~~   54 (241)
T d2pmka1          24 LSIKQGEVIGIVGRSGSGKSTLTKLIQRFYI   54 (241)
T ss_dssp             EEEETTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            4567788899999999999999999998874

>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=98.15  E-value=5.4e-07  Score=71.65  Aligned_cols=31  Identities=35%  Similarity=0.576  Sum_probs=28.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      .++++|||||||||+|+.||+.++++++..+
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l~~~~i~~~   36 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKSGLKYINVG   36 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCcEEech
Confidence            5899999999999999999999999987644

>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=98.13  E-value=2.7e-06  Score=70.82  Aligned_cols=30  Identities=20%  Similarity=0.242  Sum_probs=26.9

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++..+.++||+|+||||++++++..+
T Consensus        23 l~i~~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          23 FEAQPNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             EEECTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            456778889999999999999999999887

>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=98.11  E-value=1.8e-06  Score=71.40  Aligned_cols=30  Identities=33%  Similarity=0.459  Sum_probs=26.0

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      .+.++..+.++||+||||||++++++....
T Consensus        25 ~i~~Ge~~~liG~sGaGKSTll~~i~gl~~   54 (240)
T d1g2912          25 EVKDGEFMILLGPSGCGKTTTLRMIAGLEE   54 (240)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            455677889999999999999999998873

>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=98.11  E-value=4.4e-05  Score=65.22  Aligned_cols=49  Identities=14%  Similarity=0.027  Sum_probs=38.4

Q ss_pred             ccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           19 EAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        19 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      .++.|.+..++.|.+.+...          .-.....|.|+|..|+||||+|+.+++..
T Consensus        20 ~~~~gR~~~~~~i~~~L~~~----------~~~~~~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          20 MTCYIREYHVDRVIKKLDEM----------CDLDSFFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             CCSCCCHHHHHHHHHHHHHH----------TTSSSEEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             CceeCcHHHHHHHHHHHHhc----------cCCCceEEEEECCCCCCHHHHHHHHHHhh
Confidence            56889999999998877431          11234578899999999999999998763

>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=98.09  E-value=2.7e-06  Score=69.69  Aligned_cols=31  Identities=23%  Similarity=0.241  Sum_probs=26.7

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +.+.++.-+.++||+||||||+.++++....
T Consensus        21 ~~i~~Ge~~~liGpsGaGKSTll~~l~Gl~~   51 (229)
T d3d31a2          21 LKVESGEYFVILGPTGAGKTLFLELIAGFHV   51 (229)
T ss_dssp             EEECTTCEEEEECCCTHHHHHHHHHHHTSSC
T ss_pred             EEECCCCEEEEECCCCCcHHHHHHHHhcCcC
Confidence            3456677899999999999999999999873

>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=98.09  E-value=7.2e-07  Score=70.89  Aligned_cols=29  Identities=34%  Similarity=0.617  Sum_probs=26.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      .|+|+|||||||||+++.++.+++.+++.
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l~~~~i~   34 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKSGLKYIN   34 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCcEEe
Confidence            58999999999999999999999988764

>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=98.09  E-value=7.7e-07  Score=70.95  Aligned_cols=37  Identities=27%  Similarity=0.361  Sum_probs=32.6

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEccCc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISPHS   88 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~~~   88 (441)
                      .++-|+|.|||||||||+++.+++.++.+++.++...
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~lg~~~~~~~~d~   39 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLPGVPKVHFHSDD   39 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCSSSCEEEECTTH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCCEEEecHHH
Confidence            3567999999999999999999999999999887644

>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=98.07  E-value=2.6e-06  Score=70.30  Aligned_cols=30  Identities=27%  Similarity=0.324  Sum_probs=26.4

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++..+.++||+||||||+.++++...
T Consensus        26 l~i~~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          26 INIENGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEECTTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEECCCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            455667789999999999999999999877

>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=98.07  E-value=1.1e-06  Score=70.90  Aligned_cols=34  Identities=15%  Similarity=0.181  Sum_probs=29.8

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP   86 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~   86 (441)
                      .+.|+|+|||||||||+|+.|+..++.+++....
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~~~~i~~~~   40 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFNTTSAWEYG   40 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCEEECCTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCCeEeeeh
Confidence            4789999999999999999999999988765543

>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=98.06  E-value=5.5e-06  Score=67.94  Aligned_cols=30  Identities=23%  Similarity=0.299  Sum_probs=26.4

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++..+.++||+||||||+.++++...
T Consensus        26 l~i~~Ge~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          26 LNIKEGEFVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             EEECTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCCCcchhhHhccCCC
Confidence            455677889999999999999999999877

>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=98.06  E-value=1.9e-06  Score=71.17  Aligned_cols=30  Identities=30%  Similarity=0.410  Sum_probs=26.5

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+.++..+-|+||+||||||+++++++...
T Consensus        25 ~i~~Ge~~~liG~sGaGKSTll~~i~gl~~   54 (240)
T d1g2912          25 EVKDGEFMILLGPSGCGKTTTLRMIAGLEE   54 (240)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHHTSSC
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhcCCC
Confidence            456788999999999999999999998764

>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=98.05  E-value=1.2e-06  Score=69.11  Aligned_cols=31  Identities=29%  Similarity=0.464  Sum_probs=28.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      .++|+|+|||||||+++++|..++.+++..+
T Consensus         3 ~IvliG~~G~GKSTig~~La~~l~~~fiD~D   33 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAKALGVGLLDTD   33 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCCCeEeec
Confidence            4788899999999999999999999998654

>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=98.05  E-value=2.2e-06  Score=70.70  Aligned_cols=31  Identities=39%  Similarity=0.477  Sum_probs=27.0

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +.+.++..+.++||+||||||+.++++....
T Consensus        27 l~v~~Ge~~~liGpsGaGKSTLl~~i~Gl~~   57 (239)
T d1v43a3          27 LTIKDGEFLVLLGPSGCGKTTTLRMIAGLEE   57 (239)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEECCCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            4556777899999999999999999999883

>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=98.04  E-value=1.2e-06  Score=69.82  Aligned_cols=37  Identities=30%  Similarity=0.443  Sum_probs=32.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhh
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~  361 (441)
                      .-++|.|||||||||+|+++++.++.+++.++..++.
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            3478999999999999999999999999988775544

>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=98.04  E-value=3.7e-06  Score=70.41  Aligned_cols=32  Identities=22%  Similarity=0.222  Sum_probs=27.6

Q ss_pred             hcCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          318 RLGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       318 ~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      .+.+.++..+.++||+||||||++++++..+.
T Consensus        38 sl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~~   69 (255)
T d2hyda1          38 NLSIEKGETVAFVGMSGGGKSTLINLIPRFYD   69 (255)
T ss_dssp             EEEECTTCEEEEECSTTSSHHHHHTTTTTSSC
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHHHHHHhcCC
Confidence            34567788899999999999999999988774

>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=98.04  E-value=1.3e-06  Score=69.25  Aligned_cols=31  Identities=26%  Similarity=0.437  Sum_probs=28.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      +++|+|+|||||||+|+.+|+.+|++++..+
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg~~~id~D   34 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALGYEFVDTD   34 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTCEEEEHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCCCEEehh
Confidence            5789999999999999999999999988654

>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=98.03  E-value=2.7e-06  Score=70.30  Aligned_cols=31  Identities=26%  Similarity=0.261  Sum_probs=27.1

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.+..+..+.|.||+||||||+++++++...
T Consensus        26 l~i~~Ge~~~iiG~sGsGKSTLl~~i~Gl~~   56 (240)
T d3dhwc1          26 LHVPAGQIYGVIGASGAGKSTLIRCVNLLER   56 (240)
T ss_dssp             EEECSSCEEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHcCCcc
Confidence            3567889999999999999999999988763

>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=98.02  E-value=1.6e-06  Score=67.90  Aligned_cols=30  Identities=23%  Similarity=0.418  Sum_probs=27.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v   84 (441)
                      +|+|+|+||+||||+++.+|..++.+++..
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l~~~~~d~   31 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDLDLVFLDS   31 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhCCCEEec
Confidence            589999999999999999999999988754

>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=98.02  E-value=3.1e-06  Score=69.93  Aligned_cols=31  Identities=19%  Similarity=0.202  Sum_probs=26.3

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +.+..+.-+.++||+||||||++++++....
T Consensus        26 l~i~~Ge~~~iiG~sGsGKSTLl~~i~Gl~~   56 (240)
T d3dhwc1          26 LHVPAGQIYGVIGASGAGKSTLIRCVNLLER   56 (240)
T ss_dssp             EEECSSCEEEEEESTTSSHHHHHHHHTTSSC
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHcCCcc
Confidence            3456677889999999999999999998773

>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=98.02  E-value=1.7e-06  Score=68.54  Aligned_cols=30  Identities=23%  Similarity=0.432  Sum_probs=27.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      ++|+|+|+|||||||+++.+|+.++.+++.
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            568999999999999999999999998774

>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=98.01  E-value=5.2e-06  Score=69.48  Aligned_cols=32  Identities=25%  Similarity=0.360  Sum_probs=27.7

Q ss_pred             hcCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          318 RLGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       318 ~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      .+.+.++..+.++||+||||||++++++..+.
T Consensus        34 sl~i~~Ge~vaivG~sGsGKSTLl~li~gl~~   65 (251)
T d1jj7a_          34 TFTLRPGEVTALVGPNGSGKSTVAALLQNLYQ   65 (251)
T ss_dssp             EEEECTTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHHHHHhcccC
Confidence            34567788899999999999999999998773

>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=98.01  E-value=1.9e-06  Score=69.58  Aligned_cols=33  Identities=30%  Similarity=0.317  Sum_probs=28.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      ++..++|+|||||||||+|+.||+.++...+..
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~~~g~~~i~~   34 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   34 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            455788999999999999999999998776554

>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=98.01  E-value=8.9e-06  Score=69.88  Aligned_cols=36  Identities=14%  Similarity=0.158  Sum_probs=29.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEEechhh
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAE  359 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~  359 (441)
                      +.+++++||+|+|||++++.++...+.....++...
T Consensus        29 ~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~~i~~~~   64 (283)
T d2fnaa2          29 APITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRK   64 (283)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGG
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHCCCCeEEEEecc
Confidence            357899999999999999999999888776665533

>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=98.00  E-value=7.3e-06  Score=67.90  Aligned_cols=31  Identities=26%  Similarity=0.219  Sum_probs=26.8

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +.+.++.-+.|+||+|+||||+.++++....
T Consensus        23 ~~v~~Gei~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          23 FEIEEGEIFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             eEEcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3556777889999999999999999998873

>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=98.00  E-value=2.2e-06  Score=68.10  Aligned_cols=29  Identities=28%  Similarity=0.423  Sum_probs=25.8

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCC
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEA  350 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~~~  350 (441)
                      +++.+++|.|||||||||+|+.||+.++.
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~l~~   31 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAELDG   31 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHSTT
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHhCC
Confidence            45668999999999999999999999864

>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=97.99  E-value=3.1e-05  Score=62.40  Aligned_cols=106  Identities=20%  Similarity=0.183  Sum_probs=55.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCceEEec-------hhhhhhh---------ccCch----HHHHHHHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLS-------GAELYSM---------YVGES----EALLRNTFQRAR  380 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~-------~~~~~~~---------~~g~~----~~~~~~~~~~a~  380 (441)
                      +.-++|+||+|+||||.+--||..+   +..+..+.       ..+-+..         |...+    ...+++....+.
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            4567899999999999755455444   33333222       2221111         22222    222333333444


Q ss_pred             hcCCeEEEEecccccccccCCCCCCCcchhhHH--HHHHHHHhcCCCCCCeEEEEeeee
Q 013506          381 LAAPSIIFFDEADVVGAKRGGSSSTSITVGERL--LSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       381 ~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~--~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      .....++|+|=+-....        .....+++  +...+...+...+...++|+.++.
T Consensus        86 ~~~~d~ilIDTaGr~~~--------d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~  136 (207)
T d1okkd2          86 ARGYDLLFVDTAGRLHT--------KHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVT  136 (207)
T ss_dssp             HHTCSEEEECCCCCCTT--------CHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTB
T ss_pred             HCCCCEEEcCccccchh--------hHHHHHHHHHHHHHhhhcccCCCceEEEEeeccc
Confidence            55667999996554431        11111221  333444455556677788887765

>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=97.99  E-value=1.5e-05  Score=65.66  Aligned_cols=30  Identities=23%  Similarity=0.458  Sum_probs=26.8

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.+..+..+.|.||+||||||+++++++..
T Consensus        26 l~i~~Ge~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          26 INIENGERFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEECTTCEEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEECCCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            346788999999999999999999999865

>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=97.98  E-value=1.4e-05  Score=67.30  Aligned_cols=116  Identities=18%  Similarity=0.150  Sum_probs=71.6

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhh--------------c--cCchHHHHHHHHHHH-
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM--------------Y--VGESEALLRNTFQRA-  379 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~--------------~--~g~~~~~~~~~~~~a-  379 (441)
                      |++.+.-..++||+|||||++|-.++...   +..++.++....++.              |  ....|+.++ +.+.. 
T Consensus        53 Gip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~~~~a~~~Gvd~d~i~~~~~~~~E~~~~-~~~~l~  131 (268)
T d1xp8a1          53 GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALE-IMELLV  131 (268)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHH-HHHHHH
T ss_pred             CccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccCCHHHHHHhCCCchhEEEEcCCCHHHHHH-HHHHHH
Confidence            55666677899999999999998776655   556666665332221              0  112333333 33333 


Q ss_pred             HhcCCeEEEEecccccccccCCCCC---CCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          380 RLAAPSIIFFDEADVVGAKRGGSSS---TSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       380 ~~~~~~vl~iDE~d~~~~~r~~~~~---~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ...++.++++|=+..++|+....+.   ..-+...++++.++..|...-....+.++.+|
T Consensus       132 ~~~~~~liIiDSi~al~~r~e~~~~~~~~~~~~~a~~l~~~lr~l~~~~~~~~~~vi~tN  191 (268)
T d1xp8a1         132 RSGAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQALRKLTAILSKTGTAAIFIN  191 (268)
T ss_dssp             TTTCCSEEEEECTTTCCCSTTC--------CCHHHHHHHHHHHHHHHHHTTTCCEEEEEE
T ss_pred             hcCCCcEEEEecccccccHHHHcccccchhHHHHHHHHHHHHHHHHhhhhhcCCeEEEEe
Confidence            3456889999999999876543322   12234567788888877766665555666555

>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=97.98  E-value=8.6e-06  Score=68.65  Aligned_cols=117  Identities=19%  Similarity=0.193  Sum_probs=64.0

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhh--------------c--cCchHHHHHHHHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM--------------Y--VGESEALLRNTFQRAR  380 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~--------------~--~g~~~~~~~~~~~~a~  380 (441)
                      |++++.-..|+||||||||++|-.++...   +..++.++...-++.              |  ....|+.+..+-.-.+
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            66677778999999999999987776655   455555554322111              1  1122333332222234


Q ss_pred             hcCCeEEEEecccccccc---cCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          381 LAAPSIIFFDEADVVGAK---RGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       381 ~~~~~vl~iDE~d~~~~~---r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ..++.++++|=+..+++.   ++..++..-+...+.++.++..+-..-....+.++.+|
T Consensus       130 ~~~~~liViDSi~al~~~~e~~~~~~~~~~~~~a~~l~~~~~~l~~~~~~~~~~vi~~N  188 (263)
T d1u94a1         130 SGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFIN  188 (263)
T ss_dssp             HTCCSEEEEECGGGCCCHHHHTTC------CHHHHHHHHHHHHHHHHHHHHTCEEEEEE
T ss_pred             cCCCCEEEEECccccccchhcccccccchHHHHHHHHHHHHHHHHHhhhccCceEEEEE
Confidence            567789999999888763   22212222222345566666665544333333444333

>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=97.95  E-value=5.5e-05  Score=60.89  Aligned_cols=105  Identities=17%  Similarity=0.111  Sum_probs=55.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCceEEech-------hhhhhh---------ccCc----hHHHHHHHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSG-------AELYSM---------YVGE----SEALLRNTFQRAR  380 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~-------~~~~~~---------~~g~----~~~~~~~~~~~a~  380 (441)
                      +.-++|+||+|+||||.+--||..+   +..+..+..       .+-...         +...    ....+++..+.+.
T Consensus         9 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~~~~a~   88 (211)
T d2qy9a2           9 PFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQAAK   88 (211)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHHHHHHH
Confidence            4457899999999999655555444   333333332       111111         2222    2344555666666


Q ss_pred             hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhc---CCCCCCeEEEEeeee
Q 013506          381 LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD---GLEQAKVIIYPISFI  437 (441)
Q Consensus       381 ~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~---~~~~~~~v~~~~~~~  437 (441)
                      .....++|||=+-....         +....+-+..+.+.+.   .......++++.++.
T Consensus        89 ~~~~d~ilIDTaGr~~~---------d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~  139 (211)
T d2qy9a2          89 ARNIDVLIADTAGRLQN---------KSHLMEELKKIVRVMKKLDVEAPHEVMLTIDAST  139 (211)
T ss_dssp             HTTCSEEEECCCCCGGG---------HHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGG
T ss_pred             HcCCCEEEeccCCCccc---------cHHHHHHHHHHHHHHhhhcccCcceeeeehhccc
Confidence            66778999996554331         1111222333444443   223455677776654

>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=97.94  E-value=3.9e-06  Score=66.75  Aligned_cols=34  Identities=21%  Similarity=0.303  Sum_probs=29.6

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP   86 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~   86 (441)
                      .+-|+|+|+||+||||+++.+++.++.+++.++.
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            4568999999999999999999999988776653

>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=97.94  E-value=2.2e-06  Score=67.41  Aligned_cols=30  Identities=30%  Similarity=0.516  Sum_probs=26.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v   84 (441)
                      .|+|+|+|||||||+++.++..++.+++..
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            377889999999999999999999998743

>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=97.94  E-value=3.3e-05  Score=62.28  Aligned_cols=100  Identities=23%  Similarity=0.199  Sum_probs=54.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc---CCceEEech-------hhhhhh---------ccCch----HHHHHHHHHHHHhc
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA---EASFFSLSG-------AELYSM---------YVGES----EALLRNTFQRARLA  382 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~-------~~~~~~---------~~g~~----~~~~~~~~~~a~~~  382 (441)
                      -++|+||+|+||||.+--||..+   +..+..+..       .+....         +...+    .+..+.....+...
T Consensus        12 vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~   91 (207)
T d1ls1a2          12 LWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARLE   91 (207)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccchHHHHHHHHHHhcCCccccccccchhhHHHHHHHHHHhhc
Confidence            46889999999998766666555   334333332       111111         12111    22222333344556


Q ss_pred             CCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          383 APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       383 ~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      ...++|+|=+-....            ....+.+|.+..+-......++++.++.
T Consensus        92 ~~d~vlIDTaGr~~~------------d~~~~~el~~~~~~~~~~~~llv~~a~~  134 (207)
T d1ls1a2          92 ARDLILVDTAGRLQI------------DEPLMGELARLKEVLGPDEVLLVLDAMT  134 (207)
T ss_dssp             TCCEEEEECCCCSSC------------CHHHHHHHHHHHHHHCCSEEEEEEEGGG
T ss_pred             cCcceeecccccchh------------hhhhHHHHHHHHhhcCCceEEEEecccc
Confidence            667999985554331            1244566655555555666777777664

>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=97.93  E-value=4.7e-06  Score=66.21  Aligned_cols=33  Identities=12%  Similarity=0.282  Sum_probs=28.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEech
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSG  357 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~  357 (441)
                      .-++|.|+|||||||+|+.|++.++.+++.++.
T Consensus         4 kiI~l~G~~GsGKsTva~~L~~~l~~~~~~~~~   36 (178)
T d1qhxa_           4 RMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGV   36 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCCeEEeec
Confidence            357889999999999999999999988877654

>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=97.93  E-value=1e-06  Score=73.51  Aligned_cols=30  Identities=20%  Similarity=0.300  Sum_probs=26.7

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.++++..+.|+||+|+||||+++.+++.+
T Consensus        23 l~i~~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          23 FEAQPNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             EEECTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            346788999999999999999999998876

>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=97.92  E-value=4e-06  Score=66.47  Aligned_cols=29  Identities=34%  Similarity=0.527  Sum_probs=25.7

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      +.+-+|+|+|||||||||+++.+++.++.
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~l~~   31 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAELDG   31 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHSTT
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHhCC
Confidence            34567999999999999999999999864

>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=97.91  E-value=4.8e-05  Score=61.24  Aligned_cols=30  Identities=23%  Similarity=0.359  Sum_probs=26.4

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .++++..+.|+||+|+||||+++.+++.+.
T Consensus        23 ~i~~Gei~~l~G~NGsGKSTLl~~i~gl~~   52 (200)
T d1sgwa_          23 TIEKGNVVNFHGPNGIGKTTLLKTISTYLK   52 (200)
T ss_dssp             EEETTCCEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhcccc
Confidence            456788999999999999999999998763

>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=97.91  E-value=4e-06  Score=66.32  Aligned_cols=33  Identities=21%  Similarity=0.210  Sum_probs=28.1

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v   84 (441)
                      .++-++|+|||||||||+++.+++.++.+++..
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~~l~~~~~~~   37 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAHQLHAAFLDG   37 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHHTCEEEEG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCCeech
Confidence            356688999999999999999999998766543

>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=97.91  E-value=7.4e-06  Score=66.13  Aligned_cols=30  Identities=33%  Similarity=0.387  Sum_probs=26.0

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++..+.++||+|+||||+.++++..+
T Consensus        22 ~~i~~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          22 MTIEKGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             EEEETTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCChHHHHHHHHhccc
Confidence            355667788999999999999999999877

>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=97.90  E-value=4.5e-06  Score=67.28  Aligned_cols=31  Identities=16%  Similarity=0.217  Sum_probs=27.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      |..++|.|||||||||+|+.||+.++...+.
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~~~~~is   33 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKYQLAHIS   33 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHCCEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHCCcEEe
Confidence            4568999999999999999999999877654

>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=97.90  E-value=7.6e-06  Score=67.28  Aligned_cols=24  Identities=25%  Similarity=0.375  Sum_probs=21.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .-+.++||+||||||+.+.++...
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC
Confidence            356789999999999999999988

>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=97.89  E-value=5.6e-06  Score=68.64  Aligned_cols=30  Identities=27%  Similarity=0.332  Sum_probs=26.8

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+.++.-+-|.||+|+||||+.+++++.+.
T Consensus        24 ~v~~Gei~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          24 EIEEGEIFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            467888999999999999999999998764

>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=97.88  E-value=3.5e-06  Score=66.82  Aligned_cols=28  Identities=29%  Similarity=0.425  Sum_probs=24.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceE
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFF  353 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~  353 (441)
                      -++++|||||||||+|+.||+.++...+
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            3789999999999999999999987644

>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=97.88  E-value=6e-06  Score=70.35  Aligned_cols=31  Identities=23%  Similarity=0.206  Sum_probs=27.3

Q ss_pred             hcCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          318 RLGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       318 ~~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .+.+.++..+.++||+|+||||++++++..+
T Consensus        56 sl~i~~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          56 NLNIEKGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             EEEECTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEcCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            3456778889999999999999999999877

>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=97.88  E-value=1.7e-06  Score=72.76  Aligned_cols=30  Identities=23%  Similarity=0.406  Sum_probs=26.5

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+.++..+-|.||+|+||||+++++++.+.
T Consensus        26 ~v~~Gei~~liG~nGaGKSTLl~~i~Gl~~   55 (254)
T d1g6ha_          26 SVNKGDVTLIIGPNGSGKSTLINVITGFLK   55 (254)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHHCCCc
Confidence            456788999999999999999999998764

>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=97.87  E-value=1.3e-05  Score=66.58  Aligned_cols=30  Identities=30%  Similarity=0.231  Sum_probs=26.0

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++.-+.|+||+|+||||+.++++...
T Consensus        27 ~~i~~Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          27 LKVPRGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEECCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            345667788999999999999999999877

>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=97.87  E-value=5.9e-06  Score=66.59  Aligned_cols=32  Identities=22%  Similarity=0.328  Sum_probs=27.2

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      .+-.|+|.|||||||||+++.+|..++..++.
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~~~g~~~i~   33 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAKNFCVCHLA   33 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            45678899999999999999999999866543

>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=97.87  E-value=4.4e-05  Score=61.62  Aligned_cols=27  Identities=26%  Similarity=0.078  Sum_probs=15.7

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ..+.-++|+||+|+||||.+--||..+
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            345568899999999999755445444

>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=97.87  E-value=4.2e-06  Score=66.18  Aligned_cols=32  Identities=28%  Similarity=0.325  Sum_probs=27.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEech
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSG  357 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~  357 (441)
                      -++|.|||||||||+|+.||+.++...+..+.
T Consensus         8 iivl~G~~GsGKsT~a~~La~~l~~~~~~~d~   39 (171)
T d1knqa_           8 IYVLMGVSGSGKSAVASEVAHQLHAAFLDGDF   39 (171)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHTCEEEEGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCeechhh
Confidence            36788999999999999999999887765553

>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=97.87  E-value=4.1e-06  Score=67.04  Aligned_cols=30  Identities=30%  Similarity=0.319  Sum_probs=26.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      ++++.|||||||||+|+.||+.++...+..
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~~~~i~~   31 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYGIPHIST   31 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceech
Confidence            488999999999999999999998876653

>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=97.85  E-value=4.7e-05  Score=64.70  Aligned_cols=31  Identities=32%  Similarity=0.449  Sum_probs=27.6

Q ss_pred             cCCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           48 LGLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        48 ~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.+.++..+.|+||+|+||||+++.+++.+.
T Consensus        57 l~i~~Ge~vaivG~nGsGKSTLl~~i~Gl~~   87 (281)
T d1r0wa_          57 LNIEKGEMLAITGSTGSGKTSLLMLILGELE   87 (281)
T ss_dssp             EEECTTCEEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             EEEcCCCEEEEECCCCChHHHHHHHHhCCCc
Confidence            4567889999999999999999999998774

>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=97.85  E-value=4.7e-06  Score=66.65  Aligned_cols=30  Identities=37%  Similarity=0.400  Sum_probs=27.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      +++|.|||||||||+|+.||+.+++..+.+
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            578999999999999999999999877654

>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=97.85  E-value=4.9e-06  Score=65.92  Aligned_cols=29  Identities=17%  Similarity=0.400  Sum_probs=25.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      +-|+|+|||||||||+|+.+++.++..++
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            45899999999999999999999876543

>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=97.84  E-value=6.4e-05  Score=60.72  Aligned_cols=26  Identities=27%  Similarity=0.199  Sum_probs=18.6

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ++.-++|+||+|+||||.+--+|..+
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLAa~~   35 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLAKMF   35 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45567899999999999644444433

>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=97.84  E-value=2.3e-05  Score=65.02  Aligned_cols=30  Identities=23%  Similarity=0.288  Sum_probs=26.6

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .++++..+.|.||+|+||||+++++++.+.
T Consensus        28 ~i~~Gei~~liGpnGaGKSTl~~~i~Gl~~   57 (240)
T d1ji0a_          28 KVPRGQIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            456789999999999999999999998763

>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=97.81  E-value=7.1e-06  Score=66.37  Aligned_cols=32  Identities=19%  Similarity=0.159  Sum_probs=27.0

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      .|.-++++|||||||||+|+.||+.++...+.
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~~~g~~~i~   36 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVRDFGWVHLS   36 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHCCceEc
Confidence            34567899999999999999999999876544

>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=97.81  E-value=7.7e-06  Score=65.71  Aligned_cols=31  Identities=26%  Similarity=0.323  Sum_probs=26.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      ..++|.|||||||||+|+.||+.+++..+..
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~g~~~is~   37 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHFELKHLSS   37 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHBCCEEEEH
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHHCCeEEcH
Confidence            4688999999999999999999998766543

>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=97.80  E-value=1.6e-05  Score=62.57  Aligned_cols=33  Identities=18%  Similarity=0.181  Sum_probs=26.4

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      +.+.-++++|+|||||||+|+.++...+...+.
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~~~~~i~   44 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVN   44 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGGTCEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhcCCEEEc
Confidence            345567899999999999999998877765443

>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=97.80  E-value=6.5e-06  Score=65.84  Aligned_cols=30  Identities=27%  Similarity=0.311  Sum_probs=26.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      .++|.|||||||||+|+.||+.+++..+..
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g~~~is~   31 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYGTPHIST   31 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceeeH
Confidence            478999999999999999999999877654

>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=97.80  E-value=8.1e-06  Score=65.23  Aligned_cols=29  Identities=31%  Similarity=0.511  Sum_probs=26.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      +|+|.|||||||||+++.++..++..++.
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            48999999999999999999999877654

>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=97.80  E-value=1.5e-05  Score=63.52  Aligned_cols=30  Identities=30%  Similarity=0.417  Sum_probs=26.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      .++|.|||||||||+|+.||+.++...+..
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~g~~~i~~   33 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERFHAAHLAT   33 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceEec
Confidence            578999999999999999999998775554

>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=97.79  E-value=5.2e-06  Score=66.57  Aligned_cols=24  Identities=42%  Similarity=0.761  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      ++|+|+|||||||||+++.+++.+
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            579999999999999999999876

>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=97.79  E-value=6.7e-05  Score=62.73  Aligned_cols=38  Identities=29%  Similarity=0.324  Sum_probs=30.4

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcc
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISP   86 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~   86 (441)
                      |++++.-++++||||+|||+++..++...   +...++++.
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            46788999999999999999999887765   445555543

>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=97.79  E-value=9.8e-06  Score=65.49  Aligned_cols=31  Identities=29%  Similarity=0.496  Sum_probs=26.9

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      .|.-|+|+|||||||||+++.+++.++...+
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~~~g~~~i   35 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVRDFGWVHL   35 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHCCEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHCCceE
Confidence            4567899999999999999999999986544

>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=97.78  E-value=2.7e-05  Score=58.69  Aligned_cols=99  Identities=20%  Similarity=0.188  Sum_probs=56.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhh-cc----------------Cc-----------hHHHHHHHH
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSM-YV----------------GE-----------SEALLRNTF  376 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~-~~----------------g~-----------~~~~~~~~~  376 (441)
                      ...++.+|+|+|||+++-.+....+..++.+..+..... +.                +.           +..... ..
T Consensus         9 ~~~ll~apTGsGKT~~~~~~~~~~~~~vli~~P~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~   87 (136)
T d1a1va1           9 QVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLNPSVAATLGFGAYMSKAHGVDPNIRTGVRTITTGSPITYSTYGKFL-AD   87 (136)
T ss_dssp             EEEEEECCTTSCTTTHHHHHHHTTTCCEEEEESCHHHHHHHHHHHHHHHSCCCEEECSSCEECCCCSEEEEEHHHHH-HT
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHcCCcEEEEcChHHHHHHHHHHHHHHhhccccccccccccccccceEEEeeeeec-cc
Confidence            457999999999999987666666766665555432211 00                00           001110 11


Q ss_pred             HHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          377 QRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       377 ~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ....-....++++||++.+..           .....+..++..+.. ...-.++.++||
T Consensus        88 ~~~~~~~~~~vIiDE~H~~~~-----------~~~~~~~~~l~~~~~-~~~~~~l~~TAT  135 (136)
T d1a1va1          88 GGCSGGAYDIIICDECHSTDA-----------TSILGIGTVLDQAET-AGARLVVLATAT  135 (136)
T ss_dssp             TGGGGCCCSEEEEETTTCCSH-----------HHHHHHHHHHHHTTT-TTCSEEEEEESS
T ss_pred             cchhhhcCCEEEEecccccCH-----------HHHHHHHHHHHHHHH-CCCCcEEEEeCC
Confidence            111224567999999997632           123556777777754 344456666655

>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=97.78  E-value=2.1e-05  Score=66.23  Aligned_cols=116  Identities=19%  Similarity=0.155  Sum_probs=68.4

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhh--------------c--cCchHHHHHHHHHHH-
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSM--------------Y--VGESEALLRNTFQRA-  379 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~--------------~--~g~~~~~~~~~~~~a-  379 (441)
                      |++.+.-..|+||+|||||++|-.++...   +..++.++.-.-++.              |  ....|+.+ ++.+.. 
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~~e~a~~~GvD~d~il~~~~~~~E~~~-~~~~~l~  134 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQAL-EIADMLI  134 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHH-HHHHHHH
T ss_pred             CcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCCHHHHHHhCCCHHHeEEecCCCHHHHH-HHHHHHH
Confidence            77778888999999999999986665544   555666654332211              1  11122222 222222 


Q ss_pred             HhcCCeEEEEecccccccccCCCC---CCCcchhhHHHHHHHHHhcCCCCCCeEEEEeee
Q 013506          380 RLAAPSIIFFDEADVVGAKRGGSS---STSITVGERLLSTLLTEMDGLEQAKVIIYPISF  436 (441)
Q Consensus       380 ~~~~~~vl~iDE~d~~~~~r~~~~---~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~  436 (441)
                      ...+++++++|=+..+.|+...++   ...-+...++++.++..+...-....+.++.+|
T Consensus       135 ~~~~~~liIiDSi~al~~~~E~e~~~~~~~~~~~a~~l~~~l~~l~~~~~~~~~~vi~~N  194 (269)
T d1mo6a1         135 RSGALDIVVIDSVAALVPRAELEGEMGDSHVGLQARLMSQALRKMTGALNNSGTTAIFIN  194 (269)
T ss_dssp             HTTCEEEEEEECSTTCCCHHHHC-------CCHHHHHHHHHHHHHHHHHHHHTCEEEEEE
T ss_pred             hcCCCCEEEEecccccccHHHhccccccchHHHHHHHHHHHHHHHHHHHhhcCchhhhhh
Confidence            345678999999999987432211   122233456788888777665544455555555

>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=97.78  E-value=7.1e-06  Score=65.40  Aligned_cols=28  Identities=21%  Similarity=0.229  Sum_probs=24.8

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      .|..|+|+|+|||||||+++.+++.++.
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~~   32 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLNQ   32 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4567899999999999999999999853

>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=97.77  E-value=6.5e-06  Score=66.27  Aligned_cols=30  Identities=17%  Similarity=0.340  Sum_probs=26.4

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      |-.|+|.|||||||||+++.+++.++.+.+
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~~~~~i   32 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKYQLAHI   32 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHCCEEC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHCCcEE
Confidence            456999999999999999999999986654

>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=97.76  E-value=6.8e-06  Score=65.54  Aligned_cols=26  Identities=19%  Similarity=0.134  Sum_probs=22.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +..++|+|+|||||||+|++||+.++
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~~L~   31 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQVTLN   31 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34578999999999999999999884

>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=97.76  E-value=2.1e-05  Score=65.93  Aligned_cols=30  Identities=17%  Similarity=0.253  Sum_probs=26.6

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .+..+..+-|+||+||||||+++++++...
T Consensus        24 ~i~~GEi~~iiG~sGsGKSTLl~~i~Gl~~   53 (258)
T d1b0ua_          24 QARAGDVISIIGSSGSGKSTFLRCINFLEK   53 (258)
T ss_dssp             EECTTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHHcCcc
Confidence            467889999999999999999999998653

>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=97.75  E-value=8.2e-06  Score=65.14  Aligned_cols=30  Identities=30%  Similarity=0.523  Sum_probs=26.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTVI   84 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v   84 (441)
                      +|+|.|||||||||+++.++..++...+.+
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            589999999999999999999998776543

>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=97.75  E-value=2.6e-05  Score=65.25  Aligned_cols=30  Identities=17%  Similarity=0.184  Sum_probs=26.4

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++..+.++||+||||||++++++...
T Consensus        23 ~~i~~GEi~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          23 LQARAGDVISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             EEECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             eEEcCCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            455677889999999999999999999876

>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=97.74  E-value=1.4e-06  Score=71.71  Aligned_cols=25  Identities=24%  Similarity=0.444  Sum_probs=22.3

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      ..+.|.||+||||||+++.+++.+.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~~   49 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIVK   49 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEEECCCCChHHHHHHHHHcCCC
Confidence            5677899999999999999998774

>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=97.74  E-value=4.9e-05  Score=63.59  Aligned_cols=78  Identities=18%  Similarity=0.107  Sum_probs=51.6

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechh----hhhhh------------------c------cCch
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGA----ELYSM------------------Y------VGES  368 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~----~~~~~------------------~------~g~~  368 (441)
                      |++++.-++++|+||+|||++|..+|...   +..+..+...    .++..                  +      ....
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            67788889999999999999998887765   3344433321    11000                  0      0112


Q ss_pred             HHHHHHHHHHHHhcCCeEEEEeccccccc
Q 013506          369 EALLRNTFQRARLAAPSIIFFDEADVVGA  397 (441)
Q Consensus       369 ~~~~~~~~~~a~~~~~~vl~iDE~d~~~~  397 (441)
                      ...+..+........+.++++|.+..++.
T Consensus       102 ~~~~~~i~~~i~~~~~~~vviDs~~~~~~  130 (242)
T d1tf7a2         102 EDHLQIIKSEINDFKPARIAIDSLSALAR  130 (242)
T ss_dssp             HHHHHHHHHHHHTTCCSEEEEECHHHHTS
T ss_pred             HHHHHHHHHHHHhcCCceeeeecchhhhc
Confidence            34455666666777888999999998863

>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=97.73  E-value=8.7e-06  Score=65.95  Aligned_cols=30  Identities=20%  Similarity=0.213  Sum_probs=26.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      -++|.|||||||||+|+.||+.++...+..
T Consensus        10 iI~i~GppGSGKsT~a~~La~~~g~~~is~   39 (196)
T d1ukza_          10 VIFVLGGPGAGKGTQCEKLVKDYSFVHLSA   39 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEeh
Confidence            478889999999999999999998766553

>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=97.73  E-value=9.7e-05  Score=59.38  Aligned_cols=37  Identities=24%  Similarity=0.329  Sum_probs=27.2

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHS   88 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~   88 (441)
                      .+..++|+||+|+||||.+--+|..+   +..+..+++..
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            35678999999999999987777654   45555555443

>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=97.73  E-value=4.4e-05  Score=62.41  Aligned_cols=33  Identities=15%  Similarity=0.100  Sum_probs=25.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc---CCceEEechh
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGA  358 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~  358 (441)
                      -++++|.|||||||+|+.||+.+   +.+...++..
T Consensus         4 li~l~GlpgsGKSTla~~L~~~l~~~~~~~~~~~~D   39 (213)
T d1bifa1           4 LIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVG   39 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCCCeEEccc
Confidence            47899999999999999999877   3445455443

>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=97.73  E-value=3.3e-05  Score=64.68  Aligned_cols=30  Identities=23%  Similarity=0.351  Sum_probs=26.0

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      +.+.++.-+.|+||+|+||||++++++...
T Consensus        25 ~~v~~Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          25 ISVNKGDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             CEEETTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEECCCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            345667788999999999999999999877

>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=97.73  E-value=1.3e-05  Score=64.05  Aligned_cols=29  Identities=28%  Similarity=0.528  Sum_probs=26.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      .|+|.|||||||||+++.+++.++...+.
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            48899999999999999999999877654

>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=97.72  E-value=9e-06  Score=64.77  Aligned_cols=30  Identities=23%  Similarity=0.160  Sum_probs=26.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      .++|.|||||||||.|+.||+.++...+..
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~~~~i~~   31 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYGIPQIST   31 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceech
Confidence            578999999999999999999998776543

>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=97.72  E-value=7.8e-06  Score=65.49  Aligned_cols=24  Identities=46%  Similarity=0.726  Sum_probs=22.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .|++++|||||||||+++.++..+
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            479999999999999999999887

>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=97.70  E-value=0.00011  Score=66.17  Aligned_cols=99  Identities=21%  Similarity=0.344  Sum_probs=61.7

Q ss_pred             cccccccccchHHHHHHHHHHHHhhccCchHHHhcCCCCCcEEEEEcCCCCcHHHHHHHHHHHhCC---cEEEEc-cCcc
Q 013506           14 KWKAEEAIGGNRAAVEALRELITFPLLYSSQAQKLGLKWPRGLLLYGPPGTGKTSLVRAVVRECGA---HLTVIS-PHSV   89 (441)
Q Consensus        14 ~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~---~~~~v~-~~~~   89 (441)
                      +..+++++.=.+.+.+.+.+++..              +..-+|++||+|+||||++..+.+.++.   +++.+. ..+.
T Consensus       133 ~~~~l~~LG~~~~~~~~l~~l~~~--------------~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~  198 (401)
T d1p9ra_         133 TRLDLHSLGMTAHNHDNFRRLIKR--------------PHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEF  198 (401)
T ss_dssp             TCCCGGGSCCCHHHHHHHHHHHTS--------------SSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCS
T ss_pred             cchhhhhhcccHHHHHHHHHHHhh--------------hhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCccc
Confidence            335678887788888888887754              4567999999999999999999988753   344432 1111


Q ss_pred             ccccccc--hHHHHHHHHHHHHhhhhcCCCeEEEEcccc
Q 013506           90 HKAHVGE--SEKALREAFSQASSHALSGKPSVVFIDEID  126 (441)
Q Consensus        90 ~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~il~iDe~~  126 (441)
                      .-.....  .......-|..+....+...|+++++.|+-
T Consensus       199 ~~~~~~q~~v~~~~~~~~~~~l~~~lR~dPDvi~igEiR  237 (401)
T d1p9ra_         199 DIDGIGQTQVNPRVDMTFARGLRAILRQDPDVVMVGEIR  237 (401)
T ss_dssp             CCSSSEEEECBGGGTBCHHHHHHHHGGGCCSEEEESCCC
T ss_pred             ccCCCCeeeecCCcCCCHHHHHHHHHhhcCCEEEecCcC
Confidence            1000000  000001114444444455679999999985

>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=97.69  E-value=0.00022  Score=57.48  Aligned_cols=36  Identities=22%  Similarity=0.354  Sum_probs=26.0

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPH   87 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~   87 (441)
                      .|.-++|+||+|+||||.+--+|..+   +..+..+++.
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~D   48 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAAD   48 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEeec
Confidence            45678999999999999987777654   4455444443

>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=97.68  E-value=1.2e-05  Score=64.92  Aligned_cols=29  Identities=17%  Similarity=0.193  Sum_probs=25.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceE
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~  353 (441)
                      ..+++.|||||||||.|+.+|+.++...+
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~g~~~i   30 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKYGYTHL   30 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHCCEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCceE
Confidence            35789999999999999999999987654

>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=97.68  E-value=1.5e-05  Score=63.99  Aligned_cols=29  Identities=17%  Similarity=0.353  Sum_probs=25.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      -.|+|.|||||||||+++.++..++..++
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~g~~~i   35 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHFELKHL   35 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHBCCEEE
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHHCCeEE
Confidence            46889999999999999999999986554

>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=97.68  E-value=5.5e-05  Score=66.84  Aligned_cols=22  Identities=41%  Similarity=0.608  Sum_probs=18.0

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHH
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVV   74 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~   74 (441)
                      .+..+|+||||||||+++..+.
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l  184 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLL  184 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHHHH
Confidence            3568999999999999886543

>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=97.67  E-value=1.6e-05  Score=63.27  Aligned_cols=29  Identities=28%  Similarity=0.470  Sum_probs=25.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      .|+|.|||||||||+++.++..++...+.
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~g~~~i~   32 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERFHAAHLA   32 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceEe
Confidence            58899999999999999999999866554

>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=97.67  E-value=1.5e-05  Score=64.44  Aligned_cols=30  Identities=20%  Similarity=0.265  Sum_probs=26.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      .-++|.|||||||||+|+.||+.+|...+.
T Consensus         9 ~iI~l~G~pGSGKsT~a~~La~~~g~~~is   38 (194)
T d3adka_           9 KIIFVVGGPGSGKGTQCEKIVQKYGYTHLS   38 (194)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTCCEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeeEe
Confidence            457899999999999999999999876654

>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=97.66  E-value=3.9e-06  Score=67.97  Aligned_cols=27  Identities=26%  Similarity=0.190  Sum_probs=23.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCC
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEA  350 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~  350 (441)
                      +..++|+|+|||||||+|+.||..++.
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            345679999999999999999998853

>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=97.66  E-value=1.7e-05  Score=63.06  Aligned_cols=29  Identities=21%  Similarity=0.410  Sum_probs=25.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      .|+|.|||||||||+++.+++.++...+.
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            48899999999999999999999876554

>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=97.65  E-value=0.00027  Score=56.74  Aligned_cols=37  Identities=24%  Similarity=0.432  Sum_probs=27.8

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHS   88 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~   88 (441)
                      .|.-++|+||+|+||||.+--+|..+   +..+..+.+..
T Consensus         8 ~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt   47 (211)
T d2qy9a2           8 APFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDT   47 (211)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeccc
Confidence            45678999999999999988777655   45566665544

>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=97.63  E-value=1.9e-05  Score=63.67  Aligned_cols=31  Identities=23%  Similarity=0.426  Sum_probs=26.8

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      .+..|+|.|||||||||+++.+++.++...+
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~g~~~i   37 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKYGYTHL   37 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHTCCEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhCCeeE
Confidence            3567999999999999999999999986554

>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=97.63  E-value=0.0001  Score=58.07  Aligned_cols=33  Identities=21%  Similarity=0.309  Sum_probs=28.9

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~   81 (441)
                      +.+..+.++|+|||+||||+++.++++.++..+
T Consensus        49 ~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~G~v   81 (205)
T d1tuea_          49 GTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAV   81 (205)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEE
T ss_pred             CCCCceEEEEECCCCccHHHHHHHHHHHhCCEE
Confidence            567778999999999999999999999987544

>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=97.63  E-value=2.3e-05  Score=60.34  Aligned_cols=34  Identities=24%  Similarity=0.404  Sum_probs=24.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCceEEechhhhh
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELY  361 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~  361 (441)
                      ++++|||||||||+|+.++.... ....++..++.
T Consensus         5 Iii~G~pGsGKTTla~~L~~~~~-~~~~~~~d~~~   38 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAKNP-GFYNINRDDYR   38 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHST-TEEEECHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC-CCEEechHHHH
Confidence            67899999999999998866543 35555555543

>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=97.63  E-value=0.00023  Score=53.35  Aligned_cols=32  Identities=28%  Similarity=0.391  Sum_probs=24.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS   85 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~   85 (441)
                      +..+|.+|+|+|||+++-.++...+..++.+.
T Consensus         9 ~~~ll~apTGsGKT~~~~~~~~~~~~~vli~~   40 (136)
T d1a1va1           9 QVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLN   40 (136)
T ss_dssp             EEEEEECCTTSCTTTHHHHHHHTTTCCEEEEE
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHcCCcEEEEc
Confidence            56799999999999998776666666655543

>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=97.62  E-value=2.2e-05  Score=63.51  Aligned_cols=30  Identities=20%  Similarity=0.373  Sum_probs=26.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      ..|+|.|||||||||+|+.+++.++...+.
T Consensus         9 ~iI~i~GppGSGKsT~a~~La~~~g~~~is   38 (196)
T d1ukza_           9 SVIFVLGGPGAGKGTQCEKLVKDYSFVHLS   38 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSCEEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEEe
Confidence            468999999999999999999999865543

>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=97.60  E-value=2.4e-05  Score=63.14  Aligned_cols=29  Identities=24%  Similarity=0.413  Sum_probs=25.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      ..|+|.|||||||||+|+.+++.++...+
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~g~~~i   30 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKYGYTHL   30 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHCCEEE
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCceE
Confidence            45899999999999999999999976544

>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=97.60  E-value=0.00016  Score=63.74  Aligned_cols=18  Identities=33%  Similarity=0.488  Sum_probs=15.1

Q ss_pred             eEEEECCCCCcHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKA  343 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~  343 (441)
                      -.++.||||||||+++..
T Consensus       165 ~~vI~G~pGTGKTt~i~~  182 (359)
T d1w36d1         165 ISVISGGPGTGKTTTVAK  182 (359)
T ss_dssp             EEEEECCTTSTHHHHHHH
T ss_pred             eEEEEcCCCCCceehHHH
Confidence            478999999999987643

>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=97.57  E-value=2.8e-05  Score=59.82  Aligned_cols=32  Identities=25%  Similarity=0.418  Sum_probs=24.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEcc
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVISP   86 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~~   86 (441)
                      .-|+|+||||+||||+|+.++.... ....++.
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~~-~~~~~~~   34 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKNP-GFYNINR   34 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHST-TEEEECH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhCC-CCEEech
Confidence            3588999999999999999877653 3444444

>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=97.57  E-value=1.3e-05  Score=64.69  Aligned_cols=27  Identities=26%  Similarity=0.234  Sum_probs=23.8

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      +..|+|+|+|||||||+|+.++..++.
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            457889999999999999999998854

>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=97.57  E-value=2.3e-05  Score=61.71  Aligned_cols=30  Identities=23%  Similarity=0.442  Sum_probs=25.5

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHhCCc
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVRECGAH   80 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~   80 (441)
                      +.+.-|+++|+|||||||+++.++...+..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~~~~   41 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSAGYV   41 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGGTCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhcCCE
Confidence            456789999999999999999998877643

>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=97.55  E-value=4.9e-05  Score=62.68  Aligned_cols=29  Identities=28%  Similarity=0.276  Sum_probs=25.2

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .+.++..+.++||+|+||||+.++++...
T Consensus        21 ~I~~Gei~~iiG~nGaGKSTLl~~l~Gl~   49 (231)
T d1l7vc_          21 EVRAGEILHLVGPNGAGKSTLLARMAGMT   49 (231)
T ss_dssp             EEETTCEEECBCCTTSSHHHHHHHHHTSC
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45667788999999999999999999855

>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=97.54  E-value=0.00031  Score=57.80  Aligned_cols=87  Identities=20%  Similarity=0.146  Sum_probs=49.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc-----CCc--------------eEEechhhhhhhccCchH---HHHHHHHHHHHhc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA-----EAS--------------FFSLSGAELYSMYVGESE---ALLRNTFQRARLA  382 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~-----~~~--------------~~~i~~~~~~~~~~g~~~---~~~~~~~~~a~~~  382 (441)
                      ..++++|||.+|||++.|.+|-..     |+.              +..+...|-...-.+.+.   +.++.+++.+  .
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            457899999999999999887654     221              222333332221111222   3456666654  4


Q ss_pred             CCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhc
Q 013506          383 APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMD  422 (441)
Q Consensus       383 ~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~  422 (441)
                      ..+.+++||+-+..         +...+..+...+|..+.
T Consensus       120 ~~sLvliDE~~~gT---------~~~eg~~l~~a~l~~l~  150 (234)
T d1wb9a2         120 EYSLVLMDEIGRGT---------STYDGLSLAWACAENLA  150 (234)
T ss_dssp             TTEEEEEESCCCCS---------SSSHHHHHHHHHHHHHH
T ss_pred             cccEEeecccccCC---------ChhhhhHHHHHhhhhhh
Confidence            56799999998753         22334566667776663

>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=97.50  E-value=6.6e-05  Score=61.28  Aligned_cols=25  Identities=24%  Similarity=0.416  Sum_probs=22.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .-|+++|.||+||||+++.+++.++
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~~l~   27 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTRYLN   27 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4589999999999999999998774

>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=97.47  E-value=2.4e-05  Score=68.09  Aligned_cols=70  Identities=17%  Similarity=0.236  Sum_probs=47.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCC--ceEEech-hhh-------hhhccCchHHHHHHHHHHHHhcCCeEEEEeccc
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEA--SFFSLSG-AEL-------YSMYVGESEALLRNTFQRARLAAPSIIFFDEAD  393 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~--~~~~i~~-~~~-------~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d  393 (441)
                      +.+++++|++||||||+.++++.....  ..+.+.. .++       ........+-....+++.+....|..+++.|+-
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            457999999999999999999988743  2333221 111       111112223345678888888999999999985

>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=97.44  E-value=3.9e-05  Score=63.35  Aligned_cols=28  Identities=36%  Similarity=0.475  Sum_probs=24.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceE
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFF  353 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~  353 (441)
                      -+++.|||||||+|+|+.||+.++++.+
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~gl~~i   32 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQWHLL   32 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            4667799999999999999999987664

>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=97.44  E-value=3.9e-05  Score=63.35  Aligned_cols=28  Identities=25%  Similarity=0.430  Sum_probs=24.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      +.+-|||||||||+|+.||..++.+.+.
T Consensus         6 IaIdGp~GsGKgT~ak~La~~lg~~~is   33 (223)
T d1q3ta_           6 IAIDGPASSGKSTVAKIIAKDFGFTYLD   33 (223)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEC
Confidence            4566999999999999999999987554

>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=97.44  E-value=0.00011  Score=59.30  Aligned_cols=37  Identities=24%  Similarity=0.386  Sum_probs=22.7

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccC
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPH   87 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~   87 (441)
                      +.|.-++|+||+|+||||.+--+|..+   +..+..+++.
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            356778999999999999987776554   4455555443

>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=97.43  E-value=0.00028  Score=59.23  Aligned_cols=85  Identities=28%  Similarity=0.406  Sum_probs=51.7

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccccc----c--------chHHHHHHHHHHHHhhhh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKAHV----G--------ESEKALREAFSQASSHAL  113 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~~~----~--------~~~~~~~~~~~~~~~~~~  113 (441)
                      |++.++-..++||+|||||+++..++...   +..+++++.+.......    +        .......+.++.......
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            45677889999999999999998876544   56677877654321100    0        000011122222222222


Q ss_pred             cCCCeEEEEccccccccCCC
Q 013506          114 SGKPSVVFIDEIDALCPRRD  133 (441)
Q Consensus       114 ~~~~~il~iDe~~~l~~~~~  133 (441)
                      .+.+.++++|-+-.+.+..+
T Consensus       133 ~~~~~liIiDSi~al~~r~e  152 (268)
T d1xp8a1         133 SGAIDVVVVDSVAALTPRAE  152 (268)
T ss_dssp             TTCCSEEEEECTTTCCCSTT
T ss_pred             cCCCcEEEEecccccccHHH
Confidence            34578999999998886554

>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=97.42  E-value=0.00038  Score=62.46  Aligned_cols=73  Identities=15%  Similarity=0.203  Sum_probs=48.1

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcC---CceEEech-hhhhhh------ccCchHHHHHHHHHHHHhcCCeEEEEec
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAAE---ASFFSLSG-AELYSM------YVGESEALLRNTFQRARLAAPSIIFFDE  391 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~~---~~~~~i~~-~~~~~~------~~g~~~~~~~~~~~~a~~~~~~vl~iDE  391 (441)
                      .+.+-++++||+|+||||+...+-..+.   .+++.+.. .++.-.      ............++.+....|.|+++.|
T Consensus       156 ~~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~~~~~~~q~~v~~~~~~~~~~~l~~~lR~dPDvi~igE  235 (401)
T d1p9ra_         156 RPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDIDGIGQTQVNPRVDMTFARGLRAILRQDPDVVMVGE  235 (401)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCSCCSSSEEEECBGGGTBCHHHHHHHHGGGCCSEEEESC
T ss_pred             hhhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCcccccCCCCeeeecCCcCCCHHHHHHHHHhhcCCEEEecC
Confidence            5667789999999999999888877653   33333332 111100      1122233456677777789999999999


Q ss_pred             ccc
Q 013506          392 ADV  394 (441)
Q Consensus       392 ~d~  394 (441)
                      +-.
T Consensus       236 iRd  238 (401)
T d1p9ra_         236 IRD  238 (401)
T ss_dssp             CCS
T ss_pred             cCC
Confidence            975

>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=97.42  E-value=5.3e-05  Score=60.48  Aligned_cols=28  Identities=32%  Similarity=0.685  Sum_probs=24.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~   81 (441)
                      ++|+|+||+|+||||+++.++++.+..+
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            4699999999999999999999876544

>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=97.42  E-value=6.2e-05  Score=60.29  Aligned_cols=29  Identities=31%  Similarity=0.660  Sum_probs=25.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      ++|+|+||+|+||||+++.++...+..+.
T Consensus         1 rpIvl~GPsGsGK~tl~~~L~~~~~~~~~   29 (190)
T d1lvga_           1 RPVVLSGPSGAGKSTLLKKLFQEHSSIFG   29 (190)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHTTTEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCCcee
Confidence            36999999999999999999998875543

>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=97.41  E-value=8.5e-05  Score=55.96  Aligned_cols=20  Identities=25%  Similarity=0.169  Sum_probs=16.6

Q ss_pred             CCCceEEEECCCCCcHHHHH
Q 013506          322 SPVRGALLHGPPGCSKTTLA  341 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla  341 (441)
                      ..+.+.++++|+|+|||..+
T Consensus         5 ~~~~~~il~~~tGsGKT~~~   24 (140)
T d1yksa1           5 KKGMTTVLDFHPGAGKTRRF   24 (140)
T ss_dssp             STTCEEEECCCTTSSTTTTH
T ss_pred             HcCCcEEEEcCCCCChhHHH
Confidence            44678899999999999665

>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=97.41  E-value=0.00044  Score=55.50  Aligned_cols=37  Identities=19%  Similarity=0.232  Sum_probs=26.7

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHS   88 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~   88 (441)
                      .++-++|+||+|+||||.+--+|..+   +..+..+++..
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~Dt   48 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADT   48 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeccc
Confidence            34557889999999999988777655   55555555543

>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=97.38  E-value=5.8e-05  Score=62.27  Aligned_cols=28  Identities=32%  Similarity=0.525  Sum_probs=24.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      -|.+.|||||||+|+++.++++++.+++
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~gl~~i   32 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQWHLL   32 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            5677799999999999999999986654

>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=97.38  E-value=0.00012  Score=54.99  Aligned_cols=20  Identities=35%  Similarity=0.260  Sum_probs=17.1

Q ss_pred             CCCcEEEEEcCCCCcHHHHH
Q 013506           51 KWPRGLLLYGPPGTGKTSLV   70 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~   70 (441)
                      ..+..++|++|+|+|||..+
T Consensus         5 ~~~~~~il~~~tGsGKT~~~   24 (140)
T d1yksa1           5 KKGMTTVLDFHPGAGKTRRF   24 (140)
T ss_dssp             STTCEEEECCCTTSSTTTTH
T ss_pred             HcCCcEEEEcCCCCChhHHH
Confidence            45788999999999999665

>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=97.35  E-value=0.00064  Score=56.23  Aligned_cols=38  Identities=26%  Similarity=0.307  Sum_probs=28.3

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHH----hCCcEEEEcc
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRE----CGAHLTVISP   86 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~----l~~~~~~v~~   86 (441)
                      |++++.-++|+|+||+|||+++..++..    -+..+++++.
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            5678999999999999999999765432    2445555543

>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=97.34  E-value=6.8e-05  Score=61.79  Aligned_cols=28  Identities=18%  Similarity=0.503  Sum_probs=24.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           56 LLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        56 vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      |.+-|||||||||+|+.|+..++.+++.
T Consensus         6 IaIdGp~GsGKgT~ak~La~~lg~~~is   33 (223)
T d1q3ta_           6 IAIDGPASSGKSTVAKIIAKDFGFTYLD   33 (223)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEC
Confidence            5677999999999999999999876543

>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=97.34  E-value=0.00019  Score=57.95  Aligned_cols=45  Identities=22%  Similarity=0.237  Sum_probs=29.4

Q ss_pred             CCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          383 APSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       383 ~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      ....+++||++.+...      .    .......++..+.......+++.+++|+
T Consensus       138 ~~~~ii~DE~h~~~~~------~----r~~~~~~~l~~i~~~~~~~~~l~lSATl  182 (202)
T d2p6ra3         138 AVSCLVVDEIHLLDSE------K----RGATLEILVTKMRRMNKALRVIGLSATA  182 (202)
T ss_dssp             GCCEEEETTGGGGGCT------T----THHHHHHHHHHHHHHCTTCEEEEEECCC
T ss_pred             hhhhccccHHHHhccc------c----cchHHHHHHHHHHhcCCCCcEEEEcCCC
Confidence            3469999999987531      0    1123455566665556667888888886

>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=97.34  E-value=0.00036  Score=56.88  Aligned_cols=99  Identities=14%  Similarity=0.142  Sum_probs=55.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc-----CCc--------------eEEechhhhhhhccCchH---HHHHHHHHHHHhcC
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA-----EAS--------------FFSLSGAELYSMYVGESE---ALLRNTFQRARLAA  383 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~-----~~~--------------~~~i~~~~~~~~~~g~~~---~~~~~~~~~a~~~~  383 (441)
                      -++++|||.+||||+.|.++-..     |+.              +..+...|-...-.+.+.   +.++.+++.+  ..
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vpA~~~~i~~~d~I~~~~~~~d~~~~~~StF~~el~~~~~il~~~--~~  114 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDGIYTRIGASDDLAGGKSTFMVEMEEVALILKEA--TE  114 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCSEEEEECCC------CCSHHHHHHHHHHHHHHHC--CT
T ss_pred             EEEEECCCccccchhhhhhHHHHHHHhccceeecCceEEeecceEEEEECCCccccCCccHHHHhHHHHHHHhccC--CC
Confidence            47899999999999999877544     221              122333332221122223   3455566543  45


Q ss_pred             CeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeeee
Q 013506          384 PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFIF  438 (441)
Q Consensus       384 ~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~~  438 (441)
                      .+.+++||+-+..         +...+..+.-.+|..|-..   +...+++|...
T Consensus       115 ~sLvliDE~~~gT---------~~~eg~ala~aile~L~~~---~~~~i~tTH~~  157 (224)
T d1ewqa2         115 NSLVLLDEVGRGT---------SSLDGVAIATAVAEALHER---RAYTLFATHYF  157 (224)
T ss_dssp             TEEEEEESTTTTS---------CHHHHHHHHHHHHHHHHHH---TCEEEEECCCH
T ss_pred             CcEEeecccccCc---------chhhhcchHHHHHHHHhhc---CcceEEeeech
Confidence            6799999998653         2333456666666666432   23445555543

>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=97.32  E-value=0.00024  Score=57.48  Aligned_cols=41  Identities=22%  Similarity=0.235  Sum_probs=32.9

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc----CCceEEechhhhhh
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSLSGAELYS  362 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~----~~~~~~i~~~~~~~  362 (441)
                      ..+.-++|+|.||+||||+|+.|+..+    +.+++.+++-++..
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            345568999999999999999998755    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=97.32  E-value=5.8e-05  Score=59.13  Aligned_cols=23  Identities=30%  Similarity=0.401  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 013506           55 GLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      .+.|+|++|||||||++.+++.+
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            58899999999999999999876

>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=97.29  E-value=0.0001  Score=58.65  Aligned_cols=24  Identities=25%  Similarity=0.347  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcC
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      -+++.|+|||||||+++.|++.++
T Consensus         3 iI~i~G~~GsGKsT~~~~L~~~l~   26 (190)
T d1khta_           3 VVVVTGVPGVGSTTSSQLAMDNLR   26 (190)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            478999999999999999999874

>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=97.27  E-value=0.00023  Score=59.64  Aligned_cols=82  Identities=27%  Similarity=0.413  Sum_probs=48.8

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccc------------cccchHHHHHHHHHHHHhhhh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKA------------HVGESEKALREAFSQASSHAL  113 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~  113 (441)
                      |++.+.-+.|+||||+|||+++-.++...   +..+++++.+.....            ..-.......+.++.......
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            56678899999999999999998776544   556777766542211            000000001122222222222


Q ss_pred             cCCCeEEEEcccccccc
Q 013506          114 SGKPSVVFIDEIDALCP  130 (441)
Q Consensus       114 ~~~~~il~iDe~~~l~~  130 (441)
                      .+++.++++|-+..+.+
T Consensus       130 ~~~~~liViDSi~al~~  146 (263)
T d1u94a1         130 SGAVDVIVVDSVAALTP  146 (263)
T ss_dssp             HTCCSEEEEECGGGCCC
T ss_pred             cCCCCEEEEECcccccc
Confidence            34578999999988765

>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=97.26  E-value=0.002  Score=52.82  Aligned_cols=23  Identities=30%  Similarity=0.486  Sum_probs=20.2

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHH
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .+.++|+||+.+|||+++|.++-
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEeccCchhhHHHHHHHHH
Confidence            46789999999999999998754

>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=97.24  E-value=0.00086  Score=55.41  Aligned_cols=27  Identities=26%  Similarity=0.324  Sum_probs=23.0

Q ss_pred             cCCCCCceEEEECCCCCcHHHHHHHHH
Q 013506          319 LGISPVRGALLHGPPGCSKTTLAKAAA  345 (441)
Q Consensus       319 ~~~~~~~~~ll~Gp~GtGKTtla~~la  345 (441)
                      -|++++.-++++|+||+|||++|..++
T Consensus        21 GGi~~G~~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          21 GGLPIGRSTLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             SSEETTSEEEEEESTTSSHHHHHHHHH
T ss_pred             CCCcCCeEEEEEeCCCCCHHHHHHHHH
Confidence            367888889999999999999986544

>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=97.22  E-value=7.8e-05  Score=58.37  Aligned_cols=23  Identities=30%  Similarity=0.128  Sum_probs=20.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .+.++|++|||||||++.++..+
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            47899999999999999999875

>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=97.20  E-value=0.00021  Score=61.97  Aligned_cols=70  Identities=13%  Similarity=0.293  Sum_probs=41.6

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCC--cEEEE-ccCccccc-------cccchHHHHHHHHHHHHhhhhcCCCeEEEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGA--HLTVI-SPHSVHKA-------HVGESEKALREAFSQASSHALSGKPSVVFI  122 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~--~~~~v-~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~il~i  122 (441)
                      +.+++++||+|+||||++++++...+.  .++.+ +..++.-.       ......-....+++.    .+...|+.+++
T Consensus       166 ~~nili~G~tgSGKTT~l~al~~~i~~~~rivtiEd~~El~l~~~~~~~~~~~~~~~~~~~ll~~----~lR~~pd~iiv  241 (323)
T d1g6oa_         166 GKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKS----CLRMRPDRIIL  241 (323)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHH----HTTSCCSEEEE
T ss_pred             CCCEEEEeeccccchHHHHHHhhhcccccceeeccchhhhhcccccccceeccccchhHHHHHHH----HhccCCCcccC
Confidence            567999999999999999999988753  23333 11111100       000111122333333    33456999999


Q ss_pred             cccc
Q 013506          123 DEID  126 (441)
Q Consensus       123 De~~  126 (441)
                      .|+-
T Consensus       242 gEiR  245 (323)
T d1g6oa_         242 GELR  245 (323)
T ss_dssp             SCCC
T ss_pred             CccC
Confidence            9974

>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=97.18  E-value=0.00011  Score=58.43  Aligned_cols=26  Identities=19%  Similarity=0.376  Sum_probs=23.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      +-|+|.|+|||||||+++.+++.++.
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            45899999999999999999998754

>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=97.18  E-value=0.0014  Score=55.49  Aligned_cols=29  Identities=21%  Similarity=0.200  Sum_probs=23.8

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      |+.++.-.+|+|+||+|||+++-.+|..+
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            34457789999999999999998887653

>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=97.14  E-value=0.00015  Score=57.87  Aligned_cols=24  Identities=21%  Similarity=0.430  Sum_probs=21.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCC
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAAEA  350 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~~~  350 (441)
                      +++.|+|||||||+++.|++.++.
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            578999999999999999998853

>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=97.13  E-value=0.00017  Score=58.38  Aligned_cols=40  Identities=15%  Similarity=0.237  Sum_probs=31.8

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHh----CCcEEEEccCccc
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVREC----GAHLTVISPHSVH   90 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l----~~~~~~v~~~~~~   90 (441)
                      ..+..|.|+|.||+||||+++.++..+    +.+.+.+++..+.
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            456789999999999999999998765    5567777765543

>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=97.12  E-value=0.00045  Score=57.81  Aligned_cols=82  Identities=27%  Similarity=0.381  Sum_probs=50.2

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccccc------------cccchHHHHHHHHHHHHhhhh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVHKA------------HVGESEKALREAFSQASSHAL  113 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~  113 (441)
                      |++.++-..|+||+|||||+++..++...   +..+++++.+.....            ..-.......+.++.+.....
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            67788999999999999999997766543   566777776542211            000000012222222222222


Q ss_pred             cCCCeEEEEcccccccc
Q 013506          114 SGKPSVVFIDEIDALCP  130 (441)
Q Consensus       114 ~~~~~il~iDe~~~l~~  130 (441)
                      .++++++++|-+-.+.+
T Consensus       136 ~~~~~liIiDSi~al~~  152 (269)
T d1mo6a1         136 SGALDIVVIDSVAALVP  152 (269)
T ss_dssp             TTCEEEEEEECSTTCCC
T ss_pred             cCCCCEEEEeccccccc
Confidence            34578999999988876

>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=97.09  E-value=0.00017  Score=57.13  Aligned_cols=26  Identities=31%  Similarity=0.535  Sum_probs=23.3

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      ++-++|+||+|+||||+++.+.+...
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhCC
Confidence            45689999999999999999998875

>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=97.07  E-value=0.00033  Score=58.42  Aligned_cols=28  Identities=21%  Similarity=0.182  Sum_probs=24.3

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      |++++.-++++||||||||++|-.++..
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            6788888999999999999999877643

>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=97.01  E-value=0.0019  Score=54.71  Aligned_cols=39  Identities=18%  Similarity=0.304  Sum_probs=31.1

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHH----hCCcEEEEccC
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRE----CGAHLTVISPH   87 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~----l~~~~~~v~~~   87 (441)
                      |+.++.-++|.|+||+|||+++..++..    .+.++.+++..
T Consensus        31 G~~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~E   73 (277)
T d1cr2a_          31 GARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLE   73 (277)
T ss_dssp             SBCTTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEESS
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeeec
Confidence            6788899999999999999998877643    25677777654

>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=96.98  E-value=0.00018  Score=57.40  Aligned_cols=26  Identities=23%  Similarity=0.339  Sum_probs=22.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCc
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAH   80 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~   80 (441)
                      -++|.|+||+||||+++.+++.++..
T Consensus         3 iivi~G~~GsGKTT~~~~La~~L~~~   28 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEILDNQ   28 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            47889999999999999999988543

>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=96.96  E-value=0.0003  Score=55.40  Aligned_cols=28  Identities=18%  Similarity=0.477  Sum_probs=24.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~   81 (441)
                      +.++|+||+|+||||+++.+++.....+
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~~~~   31 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHPDRF   31 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCCcCe
Confidence            5799999999999999999998765443

>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=96.96  E-value=0.00026  Score=56.45  Aligned_cols=24  Identities=33%  Similarity=0.540  Sum_probs=21.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCC
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAAEA  350 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~~~  350 (441)
                      ++|+||+|+||||+++.|++.++.
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~~~   26 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEHSS   26 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCC
Confidence            789999999999999999988753

>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=96.93  E-value=0.00034  Score=55.60  Aligned_cols=24  Identities=29%  Similarity=0.403  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcC
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      .++|+||+|+||||+++.|+....
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCC
Confidence            389999999999999999988764

>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=96.92  E-value=0.001  Score=50.31  Aligned_cols=32  Identities=28%  Similarity=0.393  Sum_probs=27.4

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRECGAH   80 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~~   80 (441)
                      ..+++.-|+|.|+=|+||||++|.+++.++..
T Consensus        29 ~~~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~   60 (158)
T d1htwa_          29 HTEKAIMVYLNGDLGAGKTTLTRGMLQGIGHQ   60 (158)
T ss_dssp             CCSSCEEEEEECSTTSSHHHHHHHHHHHTTCC
T ss_pred             cCCCCeEEEEecCCCccHHHHHHHHHhhcccc
Confidence            34566779999999999999999999999753

>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=96.90  E-value=0.0025  Score=53.82  Aligned_cols=28  Identities=25%  Similarity=0.228  Sum_probs=22.6

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      ++.|+.-.+++|+||+|||+++-.+|..
T Consensus        25 G~~pg~~~~i~G~~G~GKS~l~l~la~~   52 (274)
T d1nlfa_          25 NMVAGTVGALVSPGGAGKSMLALQLAAQ   52 (274)
T ss_dssp             TEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CccCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            4455666789999999999999887764

>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=96.88  E-value=0.0029  Score=53.44  Aligned_cols=25  Identities=28%  Similarity=0.348  Sum_probs=21.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ...+.++|.+|+||||+|+.+.+..
T Consensus        44 ~~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          44 SFFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhh
Confidence            3457899999999999999987653

>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=96.88  E-value=0.00016  Score=58.05  Aligned_cols=23  Identities=26%  Similarity=0.261  Sum_probs=20.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcC
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      +.+.||+||||||+|+.|+..++
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            45889999999999999998774

>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=96.88  E-value=0.0016  Score=52.37  Aligned_cols=40  Identities=18%  Similarity=0.195  Sum_probs=26.2

Q ss_pred             eEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          385 SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       385 ~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      ..+++||+|.++.         .++. .-+..++   +.++...++++++||+
T Consensus       145 ~~lV~DEaD~l~~---------~~f~-~~v~~I~---~~l~~~~Q~il~SATl  184 (206)
T d1s2ma1         145 SLFIMDEADKMLS---------RDFK-TIIEQIL---SFLPPTHQSLLFSATF  184 (206)
T ss_dssp             CEEEEESHHHHSS---------HHHH-HHHHHHH---TTSCSSCEEEEEESCC
T ss_pred             eEEEeechhhhhh---------hhhH-HHHHHHH---HhCCCCCEEEEEEEeC
Confidence            4899999999982         2332 2234444   4445666788888886

>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=96.88  E-value=0.0031  Score=52.72  Aligned_cols=30  Identities=27%  Similarity=0.462  Sum_probs=26.5

Q ss_pred             CCCCcEEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           50 LKWPRGLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        50 ~~~~~~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      .+....++|+||++||||+++.+++..++.
T Consensus       101 ~~k~n~~~l~G~~~tGKS~f~~~i~~~lg~  130 (267)
T d1u0ja_         101 FGKRNTIWLFGPATTGKTNIAEAIAHTVPF  130 (267)
T ss_dssp             STTCCEEEEECSTTSSHHHHHHHHHHHSSC
T ss_pred             CCccEEEEEEcCCCCCHHHHHHHHHHHhcc
Confidence            355688999999999999999999999864

>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=96.88  E-value=0.00077  Score=53.83  Aligned_cols=25  Identities=24%  Similarity=0.228  Sum_probs=21.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .-|.+.||+||||||+|+.++..++
T Consensus        23 ~iIgI~G~~GSGKSTla~~L~~~l~   47 (198)
T d1rz3a_          23 LVLGIDGLSRSGKTTLANQLSQTLR   47 (198)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3466999999999999999988764

>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=96.85  E-value=0.0016  Score=55.21  Aligned_cols=36  Identities=14%  Similarity=0.052  Sum_probs=27.6

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc----CCceEEe
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA----EASFFSL  355 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~----~~~~~~i  355 (441)
                      |+.++.-+++.|+||+|||+++..+|.-+    +.++..+
T Consensus        31 G~~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~   70 (277)
T d1cr2a_          31 GARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLA   70 (277)
T ss_dssp             SBCTTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEE
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEe
Confidence            67787788999999999999988887532    5555444

>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=96.79  E-value=0.0027  Score=51.00  Aligned_cols=32  Identities=22%  Similarity=0.332  Sum_probs=25.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS   85 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~   85 (441)
                      .+.++..|+|+|||.++-.++..++.+.+.+.
T Consensus        86 ~~~ll~~~tG~GKT~~a~~~~~~~~~~~Liv~  117 (206)
T d2fz4a1          86 KRGCIVLPTGSGKTHVAMAAINELSTPTLIVV  117 (206)
T ss_dssp             SEEEEEESSSTTHHHHHHHHHHHSCSCEEEEE
T ss_pred             CCcEEEeCCCCCceehHHhHHHHhcCceeEEE
Confidence            45678899999999999888888877665543

>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=96.76  E-value=0.0067  Score=49.06  Aligned_cols=22  Identities=27%  Similarity=0.487  Sum_probs=19.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHH
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      +-++|+||+.+|||+++|.++-
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l   57 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTAL   57 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHH
Confidence            4589999999999999998753

>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=96.75  E-value=0.00036  Score=57.26  Aligned_cols=29  Identities=24%  Similarity=0.417  Sum_probs=25.9

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      |++++.-++|+||||+|||+++..++...
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            57788999999999999999999888764

>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=96.74  E-value=0.0036  Score=50.28  Aligned_cols=32  Identities=22%  Similarity=0.208  Sum_probs=26.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEEech
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFSLSG  357 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~  357 (441)
                      +.++..|+|+|||.++-.++..++.+.+.+..
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            56888999999999998888888777665554

>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=96.73  E-value=0.0019  Score=51.61  Aligned_cols=32  Identities=25%  Similarity=0.247  Sum_probs=22.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH----cCCceEEech
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA----AEASFFSLSG  357 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~----~~~~~~~i~~  357 (441)
                      +.++++|+|+|||.++-.++..    .+..++.+.+
T Consensus        25 n~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~P   60 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAP   60 (200)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECS
T ss_pred             CeEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEcC
Confidence            5899999999999876655543    2444444443

>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=96.73  E-value=0.00046  Score=54.60  Aligned_cols=24  Identities=25%  Similarity=0.447  Sum_probs=21.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .-++|+||+|+||||+++.|.+..
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            347899999999999999998876

>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=96.71  E-value=0.00026  Score=59.06  Aligned_cols=28  Identities=25%  Similarity=0.300  Sum_probs=24.7

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHH
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      |++++.-++|+||||||||+++-.++..
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            5788899999999999999999887643

>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=96.67  E-value=0.00078  Score=54.17  Aligned_cols=26  Identities=27%  Similarity=0.500  Sum_probs=23.2

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      +.-++|+||+|+|||||.+.+....+
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhCC
Confidence            45689999999999999999998875

>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=96.67  E-value=0.00055  Score=57.33  Aligned_cols=29  Identities=24%  Similarity=0.235  Sum_probs=26.0

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      |++++..++|+||||||||+++..++...
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            68889999999999999999999988643

>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=96.63  E-value=0.00043  Score=57.96  Aligned_cols=29  Identities=24%  Similarity=0.354  Sum_probs=25.7

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      |++.+.-++|+||||||||+++-.++...
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            57888999999999999999999887654

>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=96.62  E-value=0.0015  Score=55.74  Aligned_cols=40  Identities=15%  Similarity=0.248  Sum_probs=30.7

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHhC-----CcEEEEccCccc
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVRECG-----AHLTVISPHSVH   90 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l~-----~~~~~v~~~~~~   90 (441)
                      +.|--|.+.|++|+||||+++.+...+.     ..+..++...+.
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            4456788999999999999999998874     345556665553

>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=96.60  E-value=0.00068  Score=52.55  Aligned_cols=22  Identities=27%  Similarity=0.327  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHh
Q 013506           56 LLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        56 vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +-++|++||||||++..+++.+
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            5699999999999999998876

>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=96.60  E-value=0.0012  Score=51.11  Aligned_cols=29  Identities=24%  Similarity=0.037  Sum_probs=22.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCceEEe
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAA---EASFFSL  355 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~---~~~~~~i  355 (441)
                      +.++|++||||||++..++..+   |..+-.+
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L~~~g~~v~vi   35 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAAVREGWRVGTV   35 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEE
Confidence            4689999999999999888766   4444444

>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=96.59  E-value=0.0068  Score=49.78  Aligned_cols=23  Identities=30%  Similarity=0.365  Sum_probs=18.8

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHH
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVV   74 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~   74 (441)
                      .++.+++++|+|+|||.++-..+
T Consensus        57 ~g~~~~i~apTGsGKT~~~~~~~   79 (237)
T d1gkub1          57 RKESFAATAPTGVGKTSFGLAMS   79 (237)
T ss_dssp             TTCCEECCCCBTSCSHHHHHHHH
T ss_pred             CCCCEEEEecCCChHHHHHHHHH
Confidence            46789999999999998765544

>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=96.57  E-value=0.00062  Score=53.47  Aligned_cols=37  Identities=16%  Similarity=0.280  Sum_probs=30.2

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      +.+....++|+|||+||||++|.++++.++..++...
T Consensus        49 ~~PKkn~i~~~GP~~TGKS~f~~sl~~~l~G~vis~~   85 (205)
T d1tuea_          49 GTPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVISFV   85 (205)
T ss_dssp             TCTTCSEEEEESCGGGCHHHHHHHHHHHHTCEECCCC
T ss_pred             CCCCceEEEEECCCCccHHHHHHHHHHHhCCEEEecc
Confidence            4566678899999999999999999999876655443

>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=96.54  E-value=0.0006  Score=55.83  Aligned_cols=29  Identities=21%  Similarity=0.176  Sum_probs=25.3

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      |++++.-++++||||+|||++|-.+|...
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            77888889999999999999998887654

>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=96.54  E-value=0.00075  Score=54.82  Aligned_cols=26  Identities=23%  Similarity=0.286  Sum_probs=22.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      --|-+.|++||||||+++.++..++.
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhch
Confidence            34679999999999999999998864

>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=96.53  E-value=0.0034  Score=50.48  Aligned_cols=40  Identities=18%  Similarity=0.184  Sum_probs=26.1

Q ss_pred             eEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          385 SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       385 ~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      +.+++||+|.++..         ++ ...+..++..+   ....++++++||+
T Consensus       147 ~~lViDEad~l~~~---------~~-~~~i~~I~~~~---~~~~Q~i~~SAT~  186 (208)
T d1hv8a1         147 KYFILDEADEMLNM---------GF-IKDVEKILNAC---NKDKRILLFSATM  186 (208)
T ss_dssp             CEEEEETHHHHHTT---------TT-HHHHHHHHHTS---CSSCEEEEECSSC
T ss_pred             cEEEEEChHHhhcC---------CC-hHHHHHHHHhC---CCCCeEEEEEccC
Confidence            59999999998731         12 13345555544   4556788888875

>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=96.53  E-value=0.0043  Score=47.25  Aligned_cols=23  Identities=22%  Similarity=0.180  Sum_probs=19.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .++++|+||+|||||...+...-
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999887543

>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=96.50  E-value=0.00071  Score=56.00  Aligned_cols=34  Identities=15%  Similarity=0.145  Sum_probs=23.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCceEEech
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSG  357 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~  357 (441)
                      +.++++++|+|+|||+++-+.+...   +..++.+.+
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            4579999999999998776655433   444444444

>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=96.48  E-value=0.0036  Score=47.93  Aligned_cols=22  Identities=27%  Similarity=0.437  Sum_probs=19.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      .++++|+||+|||||...+...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999988643

>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=96.46  E-value=0.00084  Score=54.51  Aligned_cols=25  Identities=8%  Similarity=0.111  Sum_probs=22.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCc
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAAEAS  351 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~~~~  351 (441)
                      +.+.|++||||||+|+.|+..++..
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            5688999999999999999998643

>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=96.42  E-value=0.00034  Score=57.41  Aligned_cols=29  Identities=28%  Similarity=0.409  Sum_probs=25.6

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      .+..+..+-|.||+|+||||+.+.+++..
T Consensus        21 ~I~~Gei~~iiG~nGaGKSTLl~~l~Gl~   49 (231)
T d1l7vc_          21 EVRAGEILHLVGPNGAGKSTLLARMAGMT   49 (231)
T ss_dssp             EEETTCEEECBCCTTSSHHHHHHHHHTSC
T ss_pred             EEcCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            45688999999999999999999998743

>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=96.42  E-value=0.005  Score=49.59  Aligned_cols=41  Identities=12%  Similarity=0.172  Sum_probs=26.5

Q ss_pred             CeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          384 PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       384 ~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      ...+++||+|.++.         .++. ..+..+++.+   ....++++++||+
T Consensus       152 l~~lVlDEad~lld---------~~f~-~~v~~I~~~~---~~~~Q~vl~SAT~  192 (212)
T d1qdea_         152 IKMFILDEADEMLS---------SGFK-EQIYQIFTLL---PPTTQVVLLSATM  192 (212)
T ss_dssp             CCEEEEETHHHHHH---------TTCH-HHHHHHHHHS---CTTCEEEEEESSC
T ss_pred             ceEEeehhhhhhcc---------cchH-HHHHHHHHhC---CCCCeEEEEEeeC
Confidence            45899999999983         1222 2344445444   4556788888876

>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=96.40  E-value=0.0011  Score=55.45  Aligned_cols=29  Identities=24%  Similarity=0.205  Sum_probs=25.4

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      |++++.-++++||||||||++|..+|...
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            77888889999999999999999888643

>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=96.34  E-value=0.0011  Score=50.68  Aligned_cols=22  Identities=23%  Similarity=0.388  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+|+|+||+|||+|++.+...
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4899999999999999998754

>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=96.33  E-value=0.00081  Score=56.18  Aligned_cols=29  Identities=31%  Similarity=0.290  Sum_probs=24.8

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      |++++.-++++||||||||++|-.+|...
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            67778888999999999999998877544

>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=96.33  E-value=0.0051  Score=51.59  Aligned_cols=39  Identities=18%  Similarity=0.239  Sum_probs=27.6

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh------CCcEEEEccCccc
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC------GAHLTVISPHSVH   90 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l------~~~~~~v~~~~~~   90 (441)
                      .|--|-|.|++||||||++..+...+      ...+..++..++.
T Consensus        26 ~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY   70 (286)
T d1odfa_          26 CPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFY   70 (286)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGB
T ss_pred             CCEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCC
Confidence            34556789999999999998876654      2345556665553

>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=96.32  E-value=0.0017  Score=50.13  Aligned_cols=30  Identities=30%  Similarity=0.573  Sum_probs=24.5

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      .+.+++|.|++|+|||+++-.+... +..++
T Consensus        13 ~g~gvl~~G~sG~GKStlal~l~~~-g~~lv   42 (176)
T d1kkma_          13 YGLGVLITGDSGVGKSETALELVQR-GHRLI   42 (176)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHT-TCEEE
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc-CCeEE
Confidence            4678999999999999999887765 55443

>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=96.30  E-value=0.0017  Score=50.91  Aligned_cols=23  Identities=13%  Similarity=0.247  Sum_probs=20.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .++|+||+|+||+|+++.|.+..
T Consensus         5 ~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           5 TLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHC
T ss_pred             cEEEECCCCCCHHHHHHHHHHhC
Confidence            48999999999999999998765

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {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: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.28  E-value=0.0076  Score=48.81  Aligned_cols=40  Identities=15%  Similarity=0.158  Sum_probs=26.5

Q ss_pred             eEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          385 SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       385 ~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      ..+++||+|.++.         .++. .-+..++   +..+...++++.+||+
T Consensus       161 ~~lVlDEaD~ll~---------~~f~-~~i~~I~---~~l~~~~Q~ilfSAT~  200 (222)
T d2j0sa1         161 KMLVLDEADEMLN---------KGFK-EQIYDVY---RYLPPATQVVLISATL  200 (222)
T ss_dssp             CEEEEETHHHHTS---------TTTH-HHHHHHH---TTSCTTCEEEEEESCC
T ss_pred             eeeeecchhHhhh---------cCcH-HHHHHHH---HhCCCCCEEEEEEEeC
Confidence            4999999999983         2222 2234444   4456667788888886

>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=96.25  E-value=0.002  Score=48.65  Aligned_cols=30  Identities=23%  Similarity=0.266  Sum_probs=25.8

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCCc
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAAEAS  351 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~~~~  351 (441)
                      .++.-++|.|+=|+||||++|.+++.+|.+
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            455568899999999999999999999754

>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=96.25  E-value=0.0056  Score=49.04  Aligned_cols=40  Identities=15%  Similarity=0.296  Sum_probs=27.1

Q ss_pred             eEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          385 SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       385 ~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      ..+++||+|.++.         .++ ...+..++..+   +....+++.+||+
T Consensus       148 ~~lVlDEaD~ll~---------~~f-~~~i~~I~~~~---~~~~Q~~l~SAT~  187 (206)
T d1veca_         148 QMIVLDEADKLLS---------QDF-VQIMEDIILTL---PKNRQILLYSATF  187 (206)
T ss_dssp             CEEEEETHHHHTS---------TTT-HHHHHHHHHHS---CTTCEEEEEESCC
T ss_pred             ceEEEeccccccc---------cch-HHHHHHHHHhC---CCCCEEEEEEecC
Confidence            4999999999983         122 34456666555   4456778888876

>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=96.25  E-value=0.0091  Score=44.14  Aligned_cols=90  Identities=16%  Similarity=0.142  Sum_probs=49.5

Q ss_pred             EEECCCCCcHHH-HHHHH--HHHcCCceEEechhh-hh-hhc----cCch-----HHHHHHHHHHH----HhcCCeEEEE
Q 013506          328 LLHGPPGCSKTT-LAKAA--AHAAEASFFSLSGAE-LY-SMY----VGES-----EALLRNTFQRA----RLAAPSIIFF  389 (441)
Q Consensus       328 ll~Gp~GtGKTt-la~~l--a~~~~~~~~~i~~~~-~~-~~~----~g~~-----~~~~~~~~~~a----~~~~~~vl~i  389 (441)
                      +++||-.+|||| |.+.+  ....+.+++.++.+- .. +..    .|..     -.....++...    ......++++
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            788999999999 67766  334577777666542 11 110    0000     01112222222    2235679999


Q ss_pred             ecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEe
Q 013506          390 DEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPI  434 (441)
Q Consensus       390 DE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~  434 (441)
                      ||+--+.               ..+..++..++  .....|++.|
T Consensus        86 DE~QFf~---------------d~i~~~~~~~~--~~g~~Viv~G  113 (139)
T d2b8ta1          86 DEVQFFD---------------DRICEVANILA--ENGFVVIISG  113 (139)
T ss_dssp             CSGGGSC---------------THHHHHHHHHH--HTTCEEEEEC
T ss_pred             chhhhcc---------------hhHHHHHHHHH--hcCceEEEEE
Confidence            9998652               23566666665  2333455544

>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=96.25  E-value=0.0071  Score=47.10  Aligned_cols=22  Identities=23%  Similarity=0.240  Sum_probs=19.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      .++|+|.+|+||||+...+...
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998754

>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=96.23  E-value=0.0021  Score=51.02  Aligned_cols=28  Identities=21%  Similarity=0.311  Sum_probs=22.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      --|.++|++||||||+|+.+ .+.+.+++
T Consensus         4 ~IIgitG~~gSGKstva~~l-~~~g~~~~   31 (191)
T d1uf9a_           4 IIIGITGNIGSGKSTVAALL-RSWGYPVL   31 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHH-HHTTCCEE
T ss_pred             EEEEEECCCCCCHHHHHHHH-HHCCCeEE
Confidence            34668899999999999998 45776654

>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=96.20  E-value=0.0049  Score=49.86  Aligned_cols=41  Identities=10%  Similarity=0.233  Sum_probs=27.0

Q ss_pred             CeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          384 PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       384 ~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      -..+++||+|.++..         ++ ..-+..++..+   +.+..+++.+||+
T Consensus       156 l~~lVlDEaD~ll~~---------~f-~~~~~~Il~~~---~~~~Q~il~SAT~  196 (218)
T d2g9na1         156 IKMFVLDEADEMLSR---------GF-KDQIYDIFQKL---NSNTQVVLLSATM  196 (218)
T ss_dssp             CCEEEEESHHHHHHT---------TC-HHHHHHHHHHS---CTTCEEEEEESCC
T ss_pred             ceEEEeeecchhhcC---------ch-HHHHHHHHHhC---CCCCeEEEEEecC
Confidence            459999999999831         22 23344555544   5556788888876

>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=96.17  E-value=0.013  Score=46.87  Aligned_cols=21  Identities=24%  Similarity=0.121  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      +++++|+||+|||||...+..
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~   22 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLT   22 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            689999999999999988875

>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=96.15  E-value=0.0021  Score=51.56  Aligned_cols=24  Identities=21%  Similarity=0.351  Sum_probs=21.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcC
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      -++++||+|+||||+.+.|.....
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            468899999999999999988764

>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=96.14  E-value=0.0019  Score=51.26  Aligned_cols=28  Identities=18%  Similarity=0.103  Sum_probs=22.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      -+.++|++||||||+|+.+. ..|.+++.
T Consensus         5 IIgitG~~gSGKstva~~l~-~~g~~~~~   32 (191)
T d1uf9a_           5 IIGITGNIGSGKSTVAALLR-SWGYPVLD   32 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHHH-HTTCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHH-HCCCeEEE
Confidence            35688999999999999995 47777654

>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=96.11  E-value=0.014  Score=46.43  Aligned_cols=20  Identities=40%  Similarity=0.467  Sum_probs=17.3

Q ss_pred             CCcEEEEEcCCCCcHHHHHH
Q 013506           52 WPRGLLLYGPPGTGKTSLVR   71 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~   71 (441)
                      .+.++++++|+|+|||+++-
T Consensus        39 ~~~~~il~apTGsGKT~~a~   58 (202)
T d2p6ra3          39 SGKNLLLAMPTAAGKTLLAE   58 (202)
T ss_dssp             TCSCEEEECSSHHHHHHHHH
T ss_pred             cCCCEEEEcCCCCchhHHHH
Confidence            45789999999999998864

>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=96.07  E-value=0.0014  Score=54.58  Aligned_cols=29  Identities=24%  Similarity=0.269  Sum_probs=25.8

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      |++++.-++|.|+||+|||+++..++...
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            37788999999999999999999998765

>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=96.05  E-value=0.035  Score=43.79  Aligned_cols=32  Identities=22%  Similarity=0.435  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHH----HhCCcEEEEc
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVR----ECGAHLTVIS   85 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~----~l~~~~~~v~   85 (441)
                      ++.++++|+|+|||.++-.++.    ..+..++.+.
T Consensus        24 ~n~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~   59 (200)
T d1wp9a1          24 TNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLA   59 (200)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEEC
T ss_pred             CCeEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEc
Confidence            4689999999999986655543    2244454443

>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=96.05  E-value=0.0031  Score=53.67  Aligned_cols=38  Identities=11%  Similarity=0.013  Sum_probs=28.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC-----CceEEechhhhh
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAE-----ASFFSLSGAELY  361 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~-----~~~~~i~~~~~~  361 (441)
                      +--+.+.|++||||||+|+.|+..+.     ..+..+..-+++
T Consensus        80 P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F~  122 (308)
T d1sq5a_          80 PYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFL  122 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGB
T ss_pred             CEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeeeE
Confidence            44567889999999999999999874     445555555554

>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=96.04  E-value=0.0025  Score=53.51  Aligned_cols=36  Identities=22%  Similarity=0.216  Sum_probs=26.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc------CCceEEechhhhh
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA------EASFFSLSGAELY  361 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~------~~~~~~i~~~~~~  361 (441)
                      -+-+.|++||||||++..+...+      ...+..++.-++|
T Consensus        29 iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY   70 (286)
T d1odfa_          29 FIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFY   70 (286)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGB
T ss_pred             EEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCC
Confidence            44578999999999998886654      2345566666654

>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=96.02  E-value=0.0028  Score=48.93  Aligned_cols=29  Identities=21%  Similarity=0.292  Sum_probs=23.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceE
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~  353 (441)
                      +.++||.|++|+||||+|-.+... |..++
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            457999999999999999877754 55443

>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=96.01  E-value=0.0027  Score=48.67  Aligned_cols=29  Identities=28%  Similarity=0.605  Sum_probs=23.7

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~   81 (441)
                      .+.+++|.|++|+|||+++-.+... +..+
T Consensus        14 ~g~gvli~G~sg~GKS~la~~l~~~-g~~l   42 (169)
T d1ko7a2          14 YGVGVLITGDSGIGKSETALELIKR-GHRL   42 (169)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHT-TCEE
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc-CCeE
Confidence            4678999999999999999877765 5443

>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=96.00  E-value=0.015  Score=46.38  Aligned_cols=41  Identities=12%  Similarity=0.200  Sum_probs=26.5

Q ss_pred             eEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          385 SIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       385 ~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      ..+++||+|.++.        ..++ ...+..+++.+   ..+.++++++||+
T Consensus       147 ~~lVlDEaD~ll~--------~~~~-~~~i~~I~~~~---~~~~Q~il~SAT~  187 (207)
T d1t6na_         147 KHFILDECDKMLE--------QLDM-RRDVQEIFRMT---PHEKQVMMFSATL  187 (207)
T ss_dssp             CEEEEESHHHHHS--------SHHH-HHHHHHHHHTS---CSSSEEEEEESCC
T ss_pred             ceeehhhhhhhhh--------cCCc-HHHHHHHHHhC---CCCCEEEEEeeeC
Confidence            4899999999982        1122 23345555544   4556788888886

>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=95.97  E-value=0.0016  Score=51.92  Aligned_cols=30  Identities=23%  Similarity=0.290  Sum_probs=25.6

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      |--|.+.|+.|+||||+++.+++.++...+
T Consensus         9 p~~I~ieG~~GsGKTTl~~~L~~~l~~~~~   38 (197)
T d2vp4a1           9 PFTVLIEGNIGSGKTTYLNHFEKYKNDICL   38 (197)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGGGTTTEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            456899999999999999999999865443

>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=95.95  E-value=0.007  Score=46.51  Aligned_cols=21  Identities=19%  Similarity=0.267  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|+|||+++..+..
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTE   26 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            479999999999999988765

>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=95.95  E-value=0.0032  Score=50.58  Aligned_cols=33  Identities=21%  Similarity=0.143  Sum_probs=23.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      +.++++.-|+|+|||.++...........+.+.
T Consensus        40 g~~vlv~apTGsGKT~~~~~~~~~~~~~~~~v~   72 (206)
T d1oywa2          40 GRDCLVVMPTGGGKSLCYQIPALLLNGLTVVVS   72 (206)
T ss_dssp             TCCEEEECSCHHHHHHHHHHHHHHSSSEEEEEC
T ss_pred             CCCEEEEcCCCCCCcchhhhhhhhccCceEEec
Confidence            357999999999999888666655544444333

>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=95.90  E-value=0.014  Score=44.69  Aligned_cols=22  Identities=27%  Similarity=0.190  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      .++|+|++|+|||||...+...
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            4799999999999999988653

>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=95.89  E-value=0.0029  Score=48.68  Aligned_cols=23  Identities=26%  Similarity=0.453  Sum_probs=20.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      -.|+|+|+||+|||+|++.+...
T Consensus         6 ~kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           6 MRILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            46999999999999999998764

>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=95.89  E-value=0.0023  Score=52.88  Aligned_cols=30  Identities=23%  Similarity=0.408  Sum_probs=23.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhC--CcEEEEc
Q 013506           56 LLLYGPPGTGKTSLVRAVVRECG--AHLTVIS   85 (441)
Q Consensus        56 vll~Gp~GtGKT~l~~~l~~~l~--~~~~~v~   85 (441)
                      +++.|++|+||||+++.+.+.+.  .....++
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~~~~~~~ivn   34 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVN   34 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTTTSCEEEEE
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHhhCCeEEEEe
Confidence            78999999999999999987653  3444443

>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=95.88  E-value=0.0019  Score=49.85  Aligned_cols=29  Identities=24%  Similarity=0.464  Sum_probs=23.6

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHL   81 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~   81 (441)
                      .+.+++|.|++|+|||+++-.+... +..+
T Consensus        14 ~g~gvli~G~sG~GKS~lal~l~~~-G~~l   42 (177)
T d1knxa2          14 FGVGVLLTGRSGIGKSECALDLINK-NHLF   42 (177)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHTT-TCEE
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc-CCce
Confidence            4678999999999999999887754 5443

>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=95.84  E-value=0.0099  Score=46.06  Aligned_cols=25  Identities=16%  Similarity=0.145  Sum_probs=20.9

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHH
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      +...++++|.||+|||||...+...
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            3457999999999999999988653

>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=95.84  E-value=0.0095  Score=51.23  Aligned_cols=24  Identities=25%  Similarity=0.288  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ..+-++||||+|||||...++..+
T Consensus        55 ~~IgitG~pGaGKSTLi~~l~~~~   78 (327)
T d2p67a1          55 LRLGVTGTPGAGKSTFLEAFGMLL   78 (327)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEeeCCCCCCHHHHHHHHHHHH
Confidence            357899999999999999988665

>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=95.84  E-value=0.0025  Score=51.24  Aligned_cols=23  Identities=30%  Similarity=0.421  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      ++|+|+|+||+|||+|++.+.+.
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            47999999999999999998764

>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=95.83  E-value=0.0031  Score=49.06  Aligned_cols=21  Identities=24%  Similarity=0.408  Sum_probs=18.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|++|+|||||+..+..
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHc
Confidence            479999999999999998764

>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=95.82  E-value=0.0031  Score=50.76  Aligned_cols=32  Identities=22%  Similarity=0.327  Sum_probs=25.3

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVI   84 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v   84 (441)
                      +.-|.|.|+.|+||||+++.+++.+   +.+++.+
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~   37 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELL   37 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            4568888999999999999998876   4455444

>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=95.81  E-value=0.0033  Score=48.87  Aligned_cols=23  Identities=22%  Similarity=0.122  Sum_probs=19.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~  346 (441)
                      ...++++|+||+||||+.+.+..
T Consensus        12 ~~kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          12 EMRILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTTC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            34689999999999999998754

>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=95.80  E-value=0.0041  Score=50.00  Aligned_cols=29  Identities=21%  Similarity=0.149  Sum_probs=23.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCceEEe
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAA---EASFFSL  355 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~---~~~~~~i  355 (441)
                      +.|.|+.|+||||+++.|++.+   |.+++.+
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            5667999999999999999976   5566544

>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=95.80  E-value=0.0023  Score=50.95  Aligned_cols=30  Identities=20%  Similarity=0.155  Sum_probs=25.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      .-+.+.|+.||||||+++.|++.++...+.
T Consensus        10 ~~I~ieG~~GsGKTTl~~~L~~~l~~~~~~   39 (197)
T d2vp4a1          10 FTVLIEGNIGSGKTTYLNHFEKYKNDICLL   39 (197)
T ss_dssp             EEEEEECSTTSCHHHHHHTTGGGTTTEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCcEEE
Confidence            356788999999999999999998765443

>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=95.79  E-value=0.0025  Score=48.80  Aligned_cols=22  Identities=32%  Similarity=0.548  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .++|+|+||+|||+|+..+.+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999998764

>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=95.79  E-value=0.0029  Score=51.01  Aligned_cols=25  Identities=28%  Similarity=0.420  Sum_probs=22.4

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +.-|+|.|+.||||||+++.+++.+
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            4568999999999999999999876

>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=95.78  E-value=0.009  Score=51.03  Aligned_cols=19  Identities=26%  Similarity=0.366  Sum_probs=15.9

Q ss_pred             CCCCceEEEECCCCCcHHH
Q 013506          321 ISPVRGALLHGPPGCSKTT  339 (441)
Q Consensus       321 ~~~~~~~ll~Gp~GtGKTt  339 (441)
                      +..+...++.+|+|+|||+
T Consensus         6 ~~~~~~~lv~~~TGsGKT~   24 (305)
T d2bmfa2           6 FRKKRLTIMDLHPGAGKTK   24 (305)
T ss_dssp             SSTTCEEEECCCTTSSTTT
T ss_pred             hhcCCcEEEEECCCCCHHH
Confidence            3456778999999999996

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {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: Tandem AAA-ATPase domain
domain: Probable DEAD box RNA helicase YqfR
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.77  E-value=0.0079  Score=48.28  Aligned_cols=41  Identities=17%  Similarity=0.162  Sum_probs=27.3

Q ss_pred             CeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          384 PSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       384 ~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                      -..+++||+|.++..         ++ ...+..++..+   +...++++++||+
T Consensus       148 l~~lViDEad~ll~~---------~f-~~~v~~I~~~~---~~~~Q~il~SATl  188 (209)
T d1q0ua_         148 AHILVVDEADLMLDM---------GF-ITDVDQIAARM---PKDLQMLVFSATI  188 (209)
T ss_dssp             CCEEEECSHHHHHHT---------TC-HHHHHHHHHTS---CTTCEEEEEESCC
T ss_pred             ceEEEEeeccccccc---------cc-HHHHHHHHHHC---CCCCEEEEEEccC
Confidence            348999999999831         22 22345555444   5667888888886

>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=95.73  E-value=0.0049  Score=49.77  Aligned_cols=33  Identities=18%  Similarity=0.277  Sum_probs=28.3

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEEEEc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLTVIS   85 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~~v~   85 (441)
                      |.-|.|-|+.||||||+++.+++.+......+.
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            567999999999999999999999977665554

>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=95.73  E-value=0.0038  Score=50.28  Aligned_cols=27  Identities=26%  Similarity=0.251  Sum_probs=22.9

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .++..+|+|+||+|||||++++.....
T Consensus        94 ~~kt~~~~G~SGVGKSTLiN~L~~~~~  120 (225)
T d1u0la2          94 KGKISTMAGLSGVGKSSLLNAINPGLK  120 (225)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHSTTCC
T ss_pred             cCCeEEEECCCCCCHHHHHHhhcchhh
Confidence            457789999999999999999976544

>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=95.72  E-value=0.0027  Score=48.90  Aligned_cols=22  Identities=32%  Similarity=0.540  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+++|++|+|||+|++.+.+.
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            5899999999999999998654

>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=95.71  E-value=0.0023  Score=53.10  Aligned_cols=29  Identities=17%  Similarity=0.213  Sum_probs=24.9

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      |++++.-++++|+||+|||++|..+|...
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            57777788999999999999999888644

>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=95.71  E-value=0.0029  Score=49.24  Aligned_cols=22  Identities=23%  Similarity=0.489  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .++++|++|+|||++++.+...
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            4899999999999999988754

>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=95.67  E-value=0.0038  Score=50.19  Aligned_cols=27  Identities=26%  Similarity=0.442  Sum_probs=21.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      -|.|+|++||||||+++.+. ++|.+++
T Consensus         5 iIgitG~igSGKStv~~~l~-~~G~~vi   31 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA-DLGINVI   31 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH-HTTCEEE
T ss_pred             EEEEECCCcCCHHHHHHHHH-HCCCcEE
Confidence            46799999999999999875 6676544

>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=95.63  E-value=0.0034  Score=50.39  Aligned_cols=29  Identities=24%  Similarity=0.235  Sum_probs=23.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCceEEec
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAAEASFFSLS  356 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~~~~~~~i~  356 (441)
                      +-++|++||||||+|+.+. .+|.+++..+
T Consensus         5 IgITG~igSGKStv~~~l~-~~G~~vidaD   33 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFT-DLGVPLVDAD   33 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHH-TTTCCEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCeEEEch
Confidence            4589999999999999997 4787776543

>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=95.63  E-value=0.0038  Score=48.12  Aligned_cols=29  Identities=28%  Similarity=0.324  Sum_probs=22.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCceE
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~~~  353 (441)
                      +.++||.|++|+||||+|-.+... |..++
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            567999999999999999777643 54443

>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=95.63  E-value=0.0037  Score=50.28  Aligned_cols=27  Identities=30%  Similarity=0.325  Sum_probs=22.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      +.++|++||||||+|+.+. .+|.+++.
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            4589999999999999986 56776654

>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=95.63  E-value=0.013  Score=45.00  Aligned_cols=21  Identities=19%  Similarity=0.278  Sum_probs=18.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|+||||++..+..
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            589999999999999998764

>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=95.62  E-value=0.0032  Score=50.57  Aligned_cols=27  Identities=30%  Similarity=0.418  Sum_probs=22.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHhCCcEEE
Q 013506           56 LLLYGPPGTGKTSLVRAVVRECGAHLTV   83 (441)
Q Consensus        56 vll~Gp~GtGKT~l~~~l~~~l~~~~~~   83 (441)
                      |-|+|++||||||+++.+. ++|.+++.
T Consensus         5 IgITG~igSGKStv~~~l~-~~G~~vid   31 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFT-DLGVPLVD   31 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHH-TTTCCEEE
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCeEEE
Confidence            6689999999999999886 57776653

>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=95.60  E-value=0.021  Score=45.49  Aligned_cols=22  Identities=23%  Similarity=0.410  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      .++|+|+||+|||||...+...
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6899999999999999998754

>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=95.59  E-value=0.0037  Score=48.09  Aligned_cols=21  Identities=19%  Similarity=0.488  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .|+|+|++|+|||+|++.+..
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999998875

>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=95.58  E-value=0.0044  Score=47.46  Aligned_cols=24  Identities=25%  Similarity=0.303  Sum_probs=20.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      +.++||.|++|+||||+|-.+...
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc
Confidence            558999999999999999766554

>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=95.55  E-value=0.0037  Score=50.38  Aligned_cols=23  Identities=22%  Similarity=0.274  Sum_probs=20.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      -+.|.|+.||||||+++.|++.+
T Consensus         4 fIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           4 YIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            46788999999999999999876

>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=95.53  E-value=0.003  Score=49.51  Aligned_cols=23  Identities=26%  Similarity=0.431  Sum_probs=20.2

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHH
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      ...|+|+|++|+|||||++.+..
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35799999999999999998854

>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=95.52  E-value=0.0041  Score=47.83  Aligned_cols=22  Identities=32%  Similarity=0.428  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+|.|++|+|||+|++.+...
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            5899999999999999988654

>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=95.51  E-value=0.0035  Score=51.69  Aligned_cols=22  Identities=27%  Similarity=0.351  Sum_probs=19.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ++++|++|+||||+.+.+.+.+
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            6899999999999999998755

>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=95.49  E-value=0.004  Score=47.59  Aligned_cols=23  Identities=26%  Similarity=0.232  Sum_probs=19.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      +.++|+|+||+|||||...+...
T Consensus         1 ~KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           1 GKLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            35899999999999999988763

>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=95.49  E-value=0.0039  Score=48.26  Aligned_cols=22  Identities=27%  Similarity=0.459  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .++++|++|+|||+|++.+...
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4899999999999999988754

>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=95.48  E-value=0.0048  Score=49.50  Aligned_cols=23  Identities=30%  Similarity=0.650  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      ..|+|+|+||+|||||+..+.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            47999999999999999999865

>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=95.46  E-value=0.0041  Score=47.97  Aligned_cols=22  Identities=27%  Similarity=0.501  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+|+|++|+|||+|++.+...
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999988764

>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=95.43  E-value=0.0042  Score=47.88  Aligned_cols=22  Identities=23%  Similarity=0.504  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+|+|++|+|||++++.+...
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999988763

>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=95.43  E-value=0.0043  Score=47.94  Aligned_cols=22  Identities=32%  Similarity=0.641  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .++++|++|+|||+|++.+...
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999988864

>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=95.43  E-value=0.0043  Score=48.25  Aligned_cols=25  Identities=16%  Similarity=0.294  Sum_probs=21.4

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHH
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      ....|+|+|.||+|||+|++.+...
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            3467999999999999999988754

>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=95.41  E-value=0.0039  Score=53.45  Aligned_cols=18  Identities=22%  Similarity=0.272  Sum_probs=15.2

Q ss_pred             CceEEEECCCCCcHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLA  341 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla  341 (441)
                      .+++++.|+||||||+++
T Consensus        14 ~~~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          14 TGPCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             SSEEEECCCTTSCHHHHH
T ss_pred             CCCEEEEeeCCccHHHHH
Confidence            456899999999999863

>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=95.40  E-value=0.0063  Score=50.08  Aligned_cols=30  Identities=23%  Similarity=0.403  Sum_probs=26.1

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      |+-|+|-|+-||||||+++.+++.++...+
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            567999999999999999999999876544

>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=95.38  E-value=0.016  Score=49.64  Aligned_cols=34  Identities=18%  Similarity=0.265  Sum_probs=25.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc---C--CceEEechhh
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA---E--ASFFSLSGAE  359 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~---~--~~~~~i~~~~  359 (441)
                      .+-++||||+||||+.-.++..+   +  ..++.++.+.
T Consensus        53 ~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss   91 (323)
T d2qm8a1          53 RVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSS   91 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGG
T ss_pred             EEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeeccccc
Confidence            46799999999999999988754   2  2345555544

>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=95.37  E-value=0.0076  Score=48.56  Aligned_cols=31  Identities=19%  Similarity=0.116  Sum_probs=25.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceEEe
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFFSL  355 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i  355 (441)
                      .-+.|.|+-||||||++++|++.+......+
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~~L~~~~~~~   34 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYKKLQPNCKLL   34 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHTTTSEEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHhCCEEE
Confidence            3467889999999999999999986554443

>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=95.35  E-value=0.0047  Score=47.62  Aligned_cols=21  Identities=38%  Similarity=0.436  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .|+|+|.+|+|||+|++.+..
T Consensus         5 KivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            589999999999999998875

>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=95.35  E-value=0.0046  Score=47.48  Aligned_cols=23  Identities=26%  Similarity=0.244  Sum_probs=19.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      -.++|+|.||+|||||.+.+...
T Consensus         6 ~kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           6 MRILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            35899999999999999988653

>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=95.33  E-value=0.0042  Score=47.74  Aligned_cols=22  Identities=27%  Similarity=0.247  Sum_probs=19.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      .++++|++|+|||||...+...
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            5899999999999999988653

>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=95.32  E-value=0.0044  Score=48.03  Aligned_cols=22  Identities=41%  Similarity=0.668  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .++|+|++|+|||+|++.+...
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999998863

>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=95.30  E-value=0.005  Score=49.39  Aligned_cols=29  Identities=24%  Similarity=0.478  Sum_probs=23.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHh---CCcEEEE
Q 013506           56 LLLYGPPGTGKTSLVRAVVREC---GAHLTVI   84 (441)
Q Consensus        56 vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v   84 (441)
                      |.|.|+.||||||+++.+++.+   +.+++.+
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            7889999999999999999876   4455544

>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=95.30  E-value=0.0045  Score=49.68  Aligned_cols=29  Identities=28%  Similarity=0.299  Sum_probs=23.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCceEEe
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAA---EASFFSL  355 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~---~~~~~~i  355 (441)
                      +.+.|+.||||||+++.|++.+   |.+++.+
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            5788999999999999999876   5566554

>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=95.29  E-value=0.0053  Score=47.73  Aligned_cols=21  Identities=33%  Similarity=0.646  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .++++|++|+|||+|++.+..
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            589999999999999998865

>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=95.29  E-value=0.0051  Score=52.68  Aligned_cols=18  Identities=28%  Similarity=0.484  Sum_probs=15.6

Q ss_pred             CcEEEEEcCCCCcHHHHH
Q 013506           53 PRGLLLYGPPGTGKTSLV   70 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~   70 (441)
                      ..++++.|+||||||+++
T Consensus        14 ~~~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          14 TGPCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             SSEEEECCCTTSCHHHHH
T ss_pred             CCCEEEEeeCCccHHHHH
Confidence            467999999999999875

>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=95.29  E-value=0.0046  Score=47.89  Aligned_cols=22  Identities=27%  Similarity=0.519  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+|+|.+|+|||+|++.+...
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5999999999999999988753

>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=95.24  E-value=0.0044  Score=51.12  Aligned_cols=25  Identities=20%  Similarity=0.300  Sum_probs=22.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      -|.|+|+.||||||+|+.+++.++.
T Consensus         3 iIgiTG~igSGKsTva~~l~e~~g~   27 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMSNYSA   27 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHSCE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhCCC
Confidence            4789999999999999999988763

>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=95.22  E-value=0.0053  Score=47.47  Aligned_cols=22  Identities=41%  Similarity=0.594  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+++|++|+|||+|++.+...
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999998754

>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=95.22  E-value=0.0047  Score=50.92  Aligned_cols=28  Identities=21%  Similarity=0.158  Sum_probs=23.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCceEE
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAAEASFFS  354 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~~~~~~~  354 (441)
                      +.|+|+.||||||+|+.+++.+|...+.
T Consensus         4 IgiTG~igSGKsTva~~l~e~~g~~~i~   31 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMSNYSAVKYQ   31 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSCEEECC
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCeEEc
Confidence            5789999999999999999988765443

>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=95.21  E-value=0.0044  Score=47.98  Aligned_cols=21  Identities=33%  Similarity=0.711  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .|.|+|++|+|||||++.+.+
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            489999999999999999874

>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=95.21  E-value=0.0055  Score=48.16  Aligned_cols=21  Identities=33%  Similarity=0.515  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .|+++|++|+|||+|++.+.+
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhc
Confidence            489999999999999998874

>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=95.20  E-value=0.0052  Score=51.47  Aligned_cols=36  Identities=14%  Similarity=0.184  Sum_probs=24.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhh
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELY  361 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~  361 (441)
                      -+.+.|++|+||||+++.+++++   +.+...+..-+++
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            46789999999999999999887   3455556555553

>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=95.17  E-value=0.0042  Score=47.47  Aligned_cols=23  Identities=30%  Similarity=0.566  Sum_probs=20.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      -.|+|+|+||+|||||++.+.+.
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            36899999999999999998754

>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=95.16  E-value=0.0057  Score=47.07  Aligned_cols=22  Identities=36%  Similarity=0.653  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .++++|++|+|||++++.+...
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999988764

>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=95.16  E-value=0.0016  Score=52.43  Aligned_cols=24  Identities=29%  Similarity=0.254  Sum_probs=21.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCC
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAAEA  350 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~~~  350 (441)
                      .+|+||||+||||+..++...++.
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L~g   50 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTALIP   50 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcC
Confidence            578999999999999999988753

>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=95.16  E-value=0.0057  Score=47.05  Aligned_cols=22  Identities=27%  Similarity=0.582  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+++|++|+|||++++.+...
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            5899999999999999988764

>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=95.15  E-value=0.0063  Score=47.24  Aligned_cols=21  Identities=38%  Similarity=0.665  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .++++|++|+|||+|++.+..
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHc
Confidence            489999999999999998875

>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=95.14  E-value=0.052  Score=39.85  Aligned_cols=73  Identities=22%  Similarity=0.328  Sum_probs=38.1

Q ss_pred             EEEEcCCCCcHHH-HHHHHH--HHhCCcEEEEccCccc------ccccc-----chHHHHHHHHHHHHhhhhcCCCeEEE
Q 013506           56 LLLYGPPGTGKTS-LVRAVV--RECGAHLTVISPHSVH------KAHVG-----ESEKALREAFSQASSHALSGKPSVVF  121 (441)
Q Consensus        56 vll~Gp~GtGKT~-l~~~l~--~~l~~~~~~v~~~~~~------~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~il~  121 (441)
                      -+++||-.+|||+ |++.+-  ...+.+++.++...-.      ....+     .........+.............+++
T Consensus         5 ~~i~GpMfsGKTteLi~~~~~~~~~~~kv~~ikp~~D~R~~~~i~s~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dvI~   84 (139)
T d2b8ta1           5 EFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSRTGTSLPSVEVESAPEILNYIMSNSFNDETKVIG   84 (139)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCCCCCSSCCEEESSTHHHHHHHHSTTSCTTCCEEE
T ss_pred             EEEEccccCHHHHHHHHHHHHHHHCCCcEEEEEEcccccccceEEcccCceeeeEEeccchhhHHHHHhhccccCcCEEE
Confidence            4789999999999 566553  2346666655432110      00000     00011122233222222233568999


Q ss_pred             Ecccccc
Q 013506          122 IDEIDAL  128 (441)
Q Consensus       122 iDe~~~l  128 (441)
                      |||+..+
T Consensus        85 IDE~QFf   91 (139)
T d2b8ta1          85 IDEVQFF   91 (139)
T ss_dssp             ECSGGGS
T ss_pred             echhhhc
Confidence            9999876

>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=95.11  E-value=0.0057  Score=47.30  Aligned_cols=21  Identities=38%  Similarity=0.678  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .|+++|.+|+|||+|++.+..
T Consensus         4 Ki~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           4 RVAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            489999999999999998875

>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=95.10  E-value=0.0061  Score=47.26  Aligned_cols=23  Identities=26%  Similarity=0.504  Sum_probs=20.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      ..|+|+|.+|+|||+|++.+...
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            36999999999999999988753

>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=95.10  E-value=0.0067  Score=46.52  Aligned_cols=22  Identities=23%  Similarity=0.380  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+++|++|+|||+|++.+...
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999988753

>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=95.10  E-value=0.0061  Score=47.81  Aligned_cols=21  Identities=38%  Similarity=0.667  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .|+++|.+|||||++++.+..
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999998875

>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=95.07  E-value=0.0041  Score=53.43  Aligned_cols=24  Identities=21%  Similarity=0.313  Sum_probs=21.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcC
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAE  349 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~  349 (441)
                      -.+|+||||||||++..+++..++
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            358999999999999999988764

>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=95.07  E-value=0.0048  Score=51.68  Aligned_cols=36  Identities=17%  Similarity=0.300  Sum_probs=24.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccCccc
Q 013506           55 GLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPHSVH   90 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~~~~   90 (441)
                      -|-++|++|+||||+++.+...+   +.....++..++.
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            58899999999999999987765   4455566665553

>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=95.02  E-value=0.0061  Score=46.93  Aligned_cols=23  Identities=30%  Similarity=0.421  Sum_probs=20.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      ..|+|+|++|+|||+|++.+...
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCcCHHHHHHHHHhC
Confidence            46999999999999999988753

>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=95.01  E-value=0.0068  Score=46.98  Aligned_cols=21  Identities=19%  Similarity=0.264  Sum_probs=18.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|++|+|||+++..+..
T Consensus         5 KivvvG~~~vGKTsli~r~~~   25 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTD   25 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHhc
Confidence            478999999999999998764

>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=94.99  E-value=0.0076  Score=46.37  Aligned_cols=22  Identities=32%  Similarity=0.578  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+|+|.+|+|||+|++.+...
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999988753

>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=94.98  E-value=0.0052  Score=48.07  Aligned_cols=23  Identities=22%  Similarity=0.193  Sum_probs=19.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~  346 (441)
                      ...++|+|++|+|||||...+..
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            34689999999999999988754

>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=94.96  E-value=0.0045  Score=48.55  Aligned_cols=22  Identities=18%  Similarity=0.460  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+|+|+||+|||||++.+.++
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999753

>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=94.96  E-value=0.007  Score=46.37  Aligned_cols=21  Identities=33%  Similarity=0.536  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .|+++|.+|+|||+|++.+..
T Consensus         2 Kv~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           2 KLVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999998875

>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=94.94  E-value=0.006  Score=47.05  Aligned_cols=22  Identities=41%  Similarity=0.668  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+|+|++|+|||+|++.+.+.
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCcCHHHHHHHHhCC
Confidence            4899999999999999988653

>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=94.94  E-value=0.0048  Score=53.26  Aligned_cols=18  Identities=22%  Similarity=0.228  Sum_probs=15.3

Q ss_pred             CceEEEECCCCCcHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLA  341 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla  341 (441)
                      .+++++.|+|||||||++
T Consensus        24 ~g~~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          24 EGPLLIMAGAGSGKTRVL   41 (318)
T ss_dssp             SSCEEEEECTTSCHHHHH
T ss_pred             CCCEEEEecCCccHHHHH
Confidence            456899999999999864

>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=94.92  E-value=0.0091  Score=49.06  Aligned_cols=29  Identities=17%  Similarity=0.157  Sum_probs=24.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCceE
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAAEASFF  353 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~~~~~~  353 (441)
                      .-+.+.|+-||||||+++.|++.+....+
T Consensus         3 k~IviEG~~GsGKST~~~~L~~~l~~~~i   31 (241)
T d2ocpa1           3 RRLSIEGNIAVGKSTFVKLLTKTYPEWHV   31 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHCTTSEE
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHhhcCC
Confidence            34788999999999999999999865544

>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=94.92  E-value=0.008  Score=46.24  Aligned_cols=22  Identities=32%  Similarity=0.560  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+++|.+|+|||++++.+...
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5899999999999999988754

>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=94.92  E-value=0.0065  Score=47.30  Aligned_cols=23  Identities=26%  Similarity=0.458  Sum_probs=20.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      ..|+++|++|+|||+|+..+...
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            45899999999999999988764

>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=94.90  E-value=0.084  Score=41.81  Aligned_cols=51  Identities=24%  Similarity=0.126  Sum_probs=28.7

Q ss_pred             ccccccchHHHHHHHHHHHHhhccCchHHHhcC---CCCCcEEEEEcCCCCcHHHHH
Q 013506           17 AEEAIGGNRAAVEALRELITFPLLYSSQAQKLG---LKWPRGLLLYGPPGTGKTSLV   70 (441)
Q Consensus        17 ~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~---~~~~~~vll~Gp~GtGKT~l~   70 (441)
                      +|+++.=.+...+.|.+. .  +..+...+...   +-.++.+++.+|+|+|||...
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            345554455556666553 1  22222222211   124578999999999999654

>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=94.90  E-value=0.0077  Score=46.41  Aligned_cols=22  Identities=23%  Similarity=0.481  Sum_probs=19.8

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHH
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      ..|+|+|.+|+|||++++.+..
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            4699999999999999998865

>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=94.90  E-value=0.0082  Score=46.52  Aligned_cols=21  Identities=38%  Similarity=0.624  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .|+|+|++|+|||++++.+..
T Consensus         8 KI~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            589999999999999988765

>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=94.89  E-value=0.0075  Score=46.56  Aligned_cols=22  Identities=32%  Similarity=0.489  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .++++|++|+|||++++.+...
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4999999999999999988663

>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=94.89  E-value=0.0081  Score=46.73  Aligned_cols=22  Identities=32%  Similarity=0.531  Sum_probs=19.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHH
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      -.|+++|++|+|||++++.+..
T Consensus         8 iKi~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1           8 LKILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            3599999999999999998875

>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=94.89  E-value=0.0069  Score=46.99  Aligned_cols=22  Identities=32%  Similarity=0.659  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+|+|.+|+|||++++.+...
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4999999999999999988753

>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=94.88  E-value=0.011  Score=50.11  Aligned_cols=33  Identities=21%  Similarity=0.199  Sum_probs=25.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCceEEec
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLS  356 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~  356 (441)
                      +.-+++.|..|+||||+|-.+|..+   |..+..++
T Consensus         8 p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD   43 (296)
T d1ihua1           8 PPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVS   43 (296)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEe
Confidence            4457889999999999998888877   55655554

>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=94.87  E-value=0.0066  Score=47.13  Aligned_cols=22  Identities=32%  Similarity=0.549  Sum_probs=19.5

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHH
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      -.|+++|++|+|||+|++.+..
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4699999999999999998854

>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=94.86  E-value=0.0079  Score=46.10  Aligned_cols=21  Identities=10%  Similarity=0.205  Sum_probs=18.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|++|+|||||+..+..
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            479999999999999987764

>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=94.81  E-value=0.006  Score=47.72  Aligned_cols=26  Identities=27%  Similarity=0.447  Sum_probs=21.7

Q ss_pred             CCCCCcEEEEEcCCCCcHHHHHHHHH
Q 013506           49 GLKWPRGLLLYGPPGTGKTSLVRAVV   74 (441)
Q Consensus        49 ~~~~~~~vll~Gp~GtGKT~l~~~l~   74 (441)
                      +....-.|+++|++|+|||++++.+.
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            34455789999999999999998874

>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=94.81  E-value=0.0081  Score=47.02  Aligned_cols=23  Identities=22%  Similarity=0.274  Sum_probs=20.2

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      -.++++|.+|+|||++++.+...
T Consensus         6 iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           6 IKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            36999999999999999988764

>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=94.80  E-value=0.042  Score=44.30  Aligned_cols=39  Identities=28%  Similarity=0.236  Sum_probs=28.8

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhh
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAEL  360 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~  360 (441)
                      ..+...||.|..|||||.++-.++...   |..++.+.+...
T Consensus        74 ~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~Pt~~  115 (233)
T d2eyqa3          74 PLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPTTL  115 (233)
T ss_dssp             SSCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEECSSHH
T ss_pred             cCccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEccHHH
Confidence            345678999999999999987666554   667666665443

>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=94.78  E-value=0.008  Score=46.36  Aligned_cols=22  Identities=23%  Similarity=0.214  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      .++++|++|+|||||+..+...
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHcC
Confidence            4899999999999999988753

>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=94.78  E-value=0.0091  Score=46.04  Aligned_cols=22  Identities=36%  Similarity=0.557  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .++++|++|+|||+|++.+...
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999987654

>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=94.78  E-value=0.0088  Score=47.32  Aligned_cols=21  Identities=24%  Similarity=0.545  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .|.|+|+||+|||||++.+.+
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            699999999999999999974

>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=94.77  E-value=0.0083  Score=51.68  Aligned_cols=19  Identities=32%  Similarity=0.532  Sum_probs=15.9

Q ss_pred             CcEEEEEcCCCCcHHHHHH
Q 013506           53 PRGLLLYGPPGTGKTSLVR   71 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~   71 (441)
                      ..++++.|+||||||+++-
T Consensus        24 ~g~~lV~g~aGSGKTt~l~   42 (318)
T d1pjra1          24 EGPLLIMAGAGSGKTRVLT   42 (318)
T ss_dssp             SSCEEEEECTTSCHHHHHH
T ss_pred             CCCEEEEecCCccHHHHHH
Confidence            4579999999999998753

>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=94.73  E-value=0.0063  Score=47.18  Aligned_cols=24  Identities=21%  Similarity=0.340  Sum_probs=20.7

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHH
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .-.|+++|+||+|||++++.+...
T Consensus        12 ~~kIvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_          12 EMRILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTTCC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            457999999999999999988643

>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=94.72  E-value=0.0052  Score=50.53  Aligned_cols=25  Identities=16%  Similarity=0.205  Sum_probs=22.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCC
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEA  350 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~  350 (441)
                      -+.+.|+-||||||+++.|++.+..
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~~l~~   28 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQLCED   28 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGCTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhc
Confidence            4788999999999999999998854

>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=94.71  E-value=0.095  Score=41.43  Aligned_cols=31  Identities=19%  Similarity=0.105  Sum_probs=22.4

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhCCcEE
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECGAHLT   82 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~~~~~   82 (441)
                      .+++++++-|+|+|||.+.....-......+
T Consensus        39 ~g~~vlv~apTGsGKT~~~~~~~~~~~~~~~   69 (206)
T d1oywa2          39 SGRDCLVVMPTGGGKSLCYQIPALLLNGLTV   69 (206)
T ss_dssp             TTCCEEEECSCHHHHHHHHHHHHHHSSSEEE
T ss_pred             cCCCEEEEcCCCCCCcchhhhhhhhccCceE
Confidence            4578999999999999987655444433333

>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=94.70  E-value=0.033  Score=46.06  Aligned_cols=23  Identities=17%  Similarity=0.215  Sum_probs=20.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~  346 (441)
                      ..+++|+|.||+||||+.-.+..
T Consensus        32 ~l~I~LvG~tg~GKSSliN~ilg   54 (257)
T d1h65a_          32 SLTILVMGKGGVGKSSTVNSIIG   54 (257)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCcHHHHHHHHhC
Confidence            45799999999999999998864

>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=94.69  E-value=0.0086  Score=46.32  Aligned_cols=21  Identities=29%  Similarity=0.540  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .|+|+|++|+|||+|++.+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999998864

>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=94.67  E-value=0.0089  Score=46.88  Aligned_cols=21  Identities=29%  Similarity=0.272  Sum_probs=18.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|++|+|||||++.+..
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhc
Confidence            479999999999999988764

>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=94.67  E-value=0.0094  Score=46.23  Aligned_cols=21  Identities=24%  Similarity=0.355  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|++|+|||||+..+..
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999998755

>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=94.62  E-value=0.0094  Score=45.79  Aligned_cols=22  Identities=18%  Similarity=0.291  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      .++++|.+|+|||+|+..+..-
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999888753

>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=94.60  E-value=0.009  Score=46.59  Aligned_cols=22  Identities=23%  Similarity=0.524  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .++|+|++|+|||++++.+...
T Consensus         4 KivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999988763

>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=94.58  E-value=0.009  Score=47.28  Aligned_cols=22  Identities=36%  Similarity=0.588  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+++|++|+|||++++.+...
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHhhC
Confidence            4899999999999999988753

>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=94.56  E-value=0.011  Score=45.60  Aligned_cols=23  Identities=26%  Similarity=0.453  Sum_probs=20.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      -.++++|++|+|||++++.+...
T Consensus         5 ~Ki~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           5 YKLVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            46899999999999999988763

>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=94.56  E-value=0.01  Score=45.73  Aligned_cols=22  Identities=18%  Similarity=0.231  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      .++++|++|+|||+|...+..-
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4799999999999999988753

>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=94.54  E-value=0.0084  Score=46.68  Aligned_cols=22  Identities=23%  Similarity=0.462  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|.|+|.+|+|||++++.+.+.
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5999999999999999999864

>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=94.54  E-value=0.014  Score=48.50  Aligned_cols=57  Identities=21%  Similarity=0.274  Sum_probs=37.3

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCceEEechhhhhhhccCchHHHHHHHHHHHHhcCCeEEEEecccc
Q 013506          323 PVRGALLHGPPGCSKTTLAKAAAHAAEASFFSLSGAELYSMYVGESEALLRNTFQRARLAAPSIIFFDEADV  394 (441)
Q Consensus       323 ~~~~~ll~Gp~GtGKTtla~~la~~~~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDE~d~  394 (441)
                      ....++|+|||+||||+++.+++..+|.- ..++.+.  +.            |.-+......++++||+..
T Consensus       103 k~n~~~l~G~~~tGKS~f~~~i~~~lg~~-~~~~~~~--~~------------f~l~~l~~k~~~~~~e~~~  159 (267)
T d1u0ja_         103 KRNTIWLFGPATTGKTNIAEAIAHTVPFY-GCVNWTN--EN------------FPFNDCVDKMVIWWEEGKM  159 (267)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHSSCE-EECCTTC--SS------------CTTGGGSSCSEEEECSCCE
T ss_pred             ccEEEEEEcCCCCCHHHHHHHHHHHhcch-hhccccC--CC------------ccccccCCCEEEEEeCCCc
Confidence            34467899999999999999999999643 2332211  11            1122234455889999764

>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=94.53  E-value=0.011  Score=53.10  Aligned_cols=28  Identities=18%  Similarity=0.264  Sum_probs=23.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAAEAS  351 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~~~~  351 (441)
                      ++-.+++||+|+|||++..+++..+|..
T Consensus        25 ~~l~~i~G~NGsGKS~ileAi~~~lg~~   52 (427)
T d1w1wa_          25 SNFTSIIGPNGSGKSNMMDAISFVLGVR   52 (427)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHTTC-
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            3445899999999999999999888653

>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=94.47  E-value=0.0094  Score=46.03  Aligned_cols=21  Identities=29%  Similarity=0.408  Sum_probs=19.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|+|||||++.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~   27 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQ   27 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999998876

>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=94.47  E-value=0.011  Score=46.33  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+|+|.+|+|||+|++.+...
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            5899999999999999988753

>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=94.44  E-value=0.013  Score=50.38  Aligned_cols=25  Identities=28%  Similarity=0.376  Sum_probs=21.9

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      ...|-++||||+|||||+..++..+
T Consensus        54 ~~~IgitG~pGaGKSTLi~~l~~~~   78 (327)
T d2p67a1          54 TLRLGVTGTPGAGKSTFLEAFGMLL   78 (327)
T ss_dssp             SEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             ceEEEeeCCCCCCHHHHHHHHHHHH
Confidence            4678999999999999999988655

>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=94.40  E-value=0.012  Score=45.14  Aligned_cols=21  Identities=24%  Similarity=0.210  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|+|||+|+..+..
T Consensus         5 KivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            479999999999999998764

>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=94.40  E-value=0.0056  Score=50.33  Aligned_cols=27  Identities=19%  Similarity=0.405  Sum_probs=23.7

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCCc
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGAH   80 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~~   80 (441)
                      +-|.|-|+.||||||+++.+++.+...
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~~l~~~   29 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQLCEDW   29 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGGGCTTE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhcC
Confidence            468999999999999999999988543

>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=94.38  E-value=0.012  Score=45.39  Aligned_cols=21  Identities=29%  Similarity=0.425  Sum_probs=18.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|++|+|||||.+.+..
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            478999999999999999864

>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=94.37  E-value=0.012  Score=50.50  Aligned_cols=25  Identities=24%  Similarity=0.333  Sum_probs=21.8

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      ...|-++||||+||||++..+...+
T Consensus        51 ~~~igitG~pGaGKSTli~~l~~~~   75 (323)
T d2qm8a1          51 AIRVGITGVPGVGKSTTIDALGSLL   75 (323)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ceEEeeeCCCCCCHHHHHHHHHHHH
Confidence            4568999999999999999998754

>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=94.33  E-value=0.013  Score=44.86  Aligned_cols=21  Identities=19%  Similarity=0.194  Sum_probs=18.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|+|||||+..+..
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~   24 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCA   24 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            479999999999999998875

>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=94.30  E-value=0.057  Score=44.44  Aligned_cols=39  Identities=21%  Similarity=0.166  Sum_probs=28.7

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhh
Q 013506          322 SPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAEL  360 (441)
Q Consensus       322 ~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~  360 (441)
                      ..+.+.||.|..|||||.+|-.++...   |.++..+.+++.
T Consensus       102 ~~~m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m~Pt~~  143 (264)
T d1gm5a3         102 EKPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVPTSI  143 (264)
T ss_dssp             SSCCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECSCHH
T ss_pred             cCcceeeeeccccccccHHHHHHHHHHHhcccceeEEeehHh
Confidence            345567999999999999987776544   667666666554

>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=94.28  E-value=0.013  Score=46.23  Aligned_cols=21  Identities=14%  Similarity=0.253  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|+||+|||||...+.+
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            689999999999999999974

>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=94.27  E-value=0.012  Score=45.15  Aligned_cols=21  Identities=29%  Similarity=0.321  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|+||||++..+..
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~   24 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVE   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999998765

>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=94.27  E-value=0.004  Score=50.32  Aligned_cols=27  Identities=33%  Similarity=0.541  Sum_probs=20.9

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      .++..+|.|+||+|||||++++.....
T Consensus        96 ~~~~~vl~G~SGVGKSSLiN~L~~~~~  122 (231)
T d1t9ha2          96 QDKTTVFAGQSGVGKSSLLNAISPELG  122 (231)
T ss_dssp             TTSEEEEEESHHHHHHHHHHHHCC---
T ss_pred             ccceEEEECCCCccHHHHHHhhccHhH
Confidence            356778999999999999999976543

>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=94.26  E-value=0.012  Score=45.25  Aligned_cols=21  Identities=19%  Similarity=0.240  Sum_probs=18.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|+|||+|+..+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~   28 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            479999999999999998874

>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=94.26  E-value=0.0068  Score=46.98  Aligned_cols=21  Identities=38%  Similarity=0.553  Sum_probs=9.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .|+++|.+|+|||+|++.+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEEECCCCC-----------
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999987764

>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=94.26  E-value=0.012  Score=46.44  Aligned_cols=22  Identities=23%  Similarity=0.323  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|+|+|++|+|||+|++.+...
T Consensus         5 KvvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4899999999999999887653

>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=94.21  E-value=0.0059  Score=47.21  Aligned_cols=21  Identities=43%  Similarity=0.665  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .++++|++|+|||++++.+..
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~   25 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLT   25 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC-
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            589999999999999987754

>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=94.21  E-value=0.012  Score=45.43  Aligned_cols=21  Identities=19%  Similarity=0.248  Sum_probs=18.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|+|||+|.+.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~   27 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQ   27 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            489999999999999988765

>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=94.18  E-value=0.013  Score=44.98  Aligned_cols=21  Identities=19%  Similarity=0.294  Sum_probs=18.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|++|+||||++..+..
T Consensus         5 Ki~viG~~~vGKTsli~~l~~   25 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQ   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            489999999999999988765

>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=94.13  E-value=0.013  Score=45.13  Aligned_cols=21  Identities=19%  Similarity=0.286  Sum_probs=18.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|+|||||...+..
T Consensus         4 Ki~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           4 RVAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            478999999999999987764

>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=94.13  E-value=0.011  Score=45.70  Aligned_cols=22  Identities=41%  Similarity=0.338  Sum_probs=19.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 013506          325 RGALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~  346 (441)
                      ..++++|++|+|||||...+..
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4689999999999999987743

>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=94.12  E-value=0.013  Score=45.21  Aligned_cols=21  Identities=19%  Similarity=0.246  Sum_probs=18.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|+|||+|+..+..
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~   28 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQ   28 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            589999999999999988765

>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=94.11  E-value=0.017  Score=52.01  Aligned_cols=34  Identities=38%  Similarity=0.767  Sum_probs=26.1

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEcc
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISP   86 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~   86 (441)
                      .+|++++|++|+|||++++.+...+   +..++.++.
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            3789999999999999988765443   556666655

>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=94.10  E-value=0.0098  Score=46.50  Aligned_cols=25  Identities=16%  Similarity=0.226  Sum_probs=21.1

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHH
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .....|.|+|+|++|||+|++++.+
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            3456799999999999999998853

>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=94.07  E-value=0.061  Score=43.23  Aligned_cols=23  Identities=43%  Similarity=0.567  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 013506           55 GLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      -.+++|.-|+||||+++.+.+..
T Consensus         5 v~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEEeeCCCCCHHHHHHHHHhcC
Confidence            47899999999999999988754

>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=94.02  E-value=0.013  Score=44.94  Aligned_cols=22  Identities=36%  Similarity=0.563  Sum_probs=18.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      .++++|.+|+|||+|++.+...
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCcCHHHHHHHHhCC
Confidence            3789999999999999988653

>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=94.01  E-value=0.0052  Score=49.19  Aligned_cols=24  Identities=29%  Similarity=0.275  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      -.+|+||+|+|||+++.++.-.+.
T Consensus        26 ~tvi~G~NGsGKStil~Ai~~~L~   49 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFVTALI   49 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhc
Confidence            357889999999999999987664

>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=94.01  E-value=0.013  Score=45.24  Aligned_cols=21  Identities=24%  Similarity=0.278  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|+||||++..+..
T Consensus         7 KI~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            389999999999999998764

>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=94.01  E-value=0.016  Score=44.42  Aligned_cols=22  Identities=18%  Similarity=0.294  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      .++++|.+|+|||+|.+.+..-
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            4899999999999999988653

>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=94.00  E-value=0.015  Score=44.74  Aligned_cols=21  Identities=29%  Similarity=0.327  Sum_probs=18.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|++|+|||++++.+..
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            389999999999999998765

>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=93.99  E-value=0.02  Score=48.02  Aligned_cols=32  Identities=28%  Similarity=0.218  Sum_probs=23.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc---CCceEEech
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA---EASFFSLSG  357 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~  357 (441)
                      -+++.|..|+||||++-.+|..+   |..++.++.
T Consensus        22 iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~   56 (279)
T d1ihua2          22 LIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTS   56 (279)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeC
Confidence            35677999999999887777666   556655553

>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=93.99  E-value=0.014  Score=45.53  Aligned_cols=22  Identities=18%  Similarity=0.137  Sum_probs=19.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 013506          325 RGALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~  346 (441)
                      -.++++|.+|+|||+|...+..
T Consensus         6 iKivviG~~~vGKTsli~~~~~   27 (183)
T d1mh1a_           6 IKCVVVGDGAVGKTCLLISYTT   27 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHh
Confidence            3689999999999999987765

>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=93.98  E-value=0.017  Score=45.16  Aligned_cols=25  Identities=24%  Similarity=0.449  Sum_probs=21.4

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHH
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      ..-.|.++|.+|+|||||+.++.+.
T Consensus         7 ~~~kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           7 DAIKVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCC
Confidence            3457999999999999999998753

>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=93.97  E-value=0.015  Score=44.45  Aligned_cols=21  Identities=19%  Similarity=0.177  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|+|||+|++.+..
T Consensus         2 Kv~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           2 KLVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999998864

>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=93.95  E-value=0.011  Score=49.04  Aligned_cols=25  Identities=32%  Similarity=0.517  Sum_probs=22.1

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHH
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      ..-.|+|+|.+|+|||++++.+.++
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            4568999999999999999999864

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {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: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=93.95  E-value=0.072  Score=43.97  Aligned_cols=54  Identities=19%  Similarity=0.205  Sum_probs=35.4

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCceEEechhhhhhhccCchHHHHHHHHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSGAELYSMYVGESEALLRNTFQRAR  380 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~~~~~~~~~g~~~~~~~~~~~~a~  380 (441)
                      .+..+..+++.|++|+|||+++..++...   ...+..+-.       +|+....+.++++...
T Consensus        64 pigkGQr~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~~-------iGer~~ev~~~~~~~~  120 (276)
T d2jdid3          64 PYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAG-------VGERTREGNDLYHEMI  120 (276)
T ss_dssp             CEETTCEEEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEEE-------ESCCHHHHHHHHHHHH
T ss_pred             cccCCCEEEeeCCCCCCHHHHHHHHHHHHHhhCCCeEEEEE-------eccChHHHHHHHHHHH
Confidence            34456779999999999999988887653   222322222       6666666666655543

>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=93.95  E-value=0.017  Score=44.65  Aligned_cols=21  Identities=24%  Similarity=0.359  Sum_probs=18.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|++|+||||++..+..
T Consensus         8 KI~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            589999999999999987765

>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=93.95  E-value=0.017  Score=45.15  Aligned_cols=21  Identities=24%  Similarity=0.417  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|||||||+..+..
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            479999999999999988765

>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=93.94  E-value=0.014  Score=45.19  Aligned_cols=23  Identities=22%  Similarity=0.488  Sum_probs=20.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      ..|.|+|.||+|||||++++.+.
T Consensus         6 ~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           6 GFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHTC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            35899999999999999999753

>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=93.93  E-value=0.017  Score=44.24  Aligned_cols=21  Identities=19%  Similarity=0.240  Sum_probs=18.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|+|||||.+.+..
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999998865

>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=93.93  E-value=0.0058  Score=46.58  Aligned_cols=22  Identities=27%  Similarity=0.684  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|.|+|.||+|||+|++.+.+.
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            4889999999999999999865

>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=93.90  E-value=0.012  Score=45.91  Aligned_cols=21  Identities=19%  Similarity=0.235  Sum_probs=19.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++|+|+||+|||||...+..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            479999999999999999864

>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=93.90  E-value=0.014  Score=45.35  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      .++++|.+|+|||+|+..+..-
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            5899999999999999887754

>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=93.85  E-value=0.016  Score=44.71  Aligned_cols=21  Identities=38%  Similarity=0.444  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++|+|.+|+|||+|+..+..
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            479999999999999998865

>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=93.85  E-value=0.012  Score=45.98  Aligned_cols=25  Identities=24%  Similarity=0.193  Sum_probs=20.5

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHH
Q 013506          321 ISPVRGALLHGPPGCSKTTLAKAAA  345 (441)
Q Consensus       321 ~~~~~~~ll~Gp~GtGKTtla~~la  345 (441)
                      ...--.++++|++|+||||+.+.+.
T Consensus        14 ~~k~~KI~lvG~~~vGKTsLi~~l~   38 (182)
T d1moza_          14 SNKELRILILGLDGAGKTTILYRLQ   38 (182)
T ss_dssp             CSSCEEEEEEEETTSSHHHHHHHTC
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHh
Confidence            3445579999999999999998764

>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=93.84  E-value=0.028  Score=45.93  Aligned_cols=155  Identities=11%  Similarity=0.028  Sum_probs=0.0

Q ss_pred             cccccCcccccCccccccccCchhHHHHHHHHHhcccCCchhhhhcCCCCCceEEEECCCCCcHHH--HHHHHHHHcCC-
Q 013506          274 PSITRGVTVEIPKVTWEDIGGLRDLKKKLQQAVEWPIKHSTAFSRLGISPVRGALLHGPPGCSKTT--LAKAAAHAAEA-  350 (441)
Q Consensus       274 ~~~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~Gp~GtGKTt--la~~la~~~~~-  350 (441)
                      ...........+-.+|++++-.+.+.+.+.+.=-......+...--....+.++++..|+|||||.  +.-++-++... 
T Consensus         8 ~~~~~~~~~~~~~~~F~~l~l~~~l~~~L~~~g~~~pt~iQ~~~ip~il~g~dvvi~a~TGsGKTlayllp~l~~l~~~~   87 (238)
T d1wrba1           8 SVTGPDYSATNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINHLVCQD   87 (238)
T ss_dssp             CEECCSSSCCSCCCSSGGGSCCCSTTTTTTTTTCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHHHHTTC
T ss_pred             eeeCCCCCCCCccCCHHHCCCCHHHHHHHHHCCCCCCCHHHHHHhhhhhCCCCEEEECCCCCCcceeeHHHHHHHHHhcc


Q ss_pred             -------------ceEEechhhhhhh-------------------------------------ccCchHHHHHHHHHHHH
Q 013506          351 -------------SFFSLSGAELYSM-------------------------------------YVGESEALLRNTFQRAR  380 (441)
Q Consensus       351 -------------~~~~i~~~~~~~~-------------------------------------~~g~~~~~~~~~~~~a~  380 (441)
                                   -++.+...++...                                     .+--+...+..++..-.
T Consensus        88 ~~~~~~~~~~~~~alil~pt~el~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ivV~TP~~l~~~~~~~~  167 (238)
T d1wrba1          88 LNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNK  167 (238)
T ss_dssp             C------CCBCCSEEEECSSHHHHHHHHHHHHHHHTTSSCCEEEECSSSCSHHHHHHHSSCCSEEEECHHHHHHHHHTTS
T ss_pred             cccccccCCCCceEEEeccchhhhcchheeeeecccCCCcEEEEEeccchhhHHHhhcccCCceeecCHHHHHhHHccCc


Q ss_pred             --hcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          381 --LAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       381 --~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                        -..-..+++||+|.++         ..++...+..-+-..-.....+.++++.+||+
T Consensus       168 ~~l~~v~~lViDEaD~ll---------~~~f~~~i~~Il~~~~~~~~~~~Q~il~SAT~  217 (238)
T d1wrba1         168 ISLEFCKYIVLDEADRML---------DMGFEPQIRKIIEESNMPSGINRQTLMFSATF  217 (238)
T ss_dssp             BCCTTCCEEEEETHHHHH---------HTTCHHHHHHHHHSSCCCCGGGCEEEEEESSC
T ss_pred             eeccccceeeeehhhhhh---------hhccHHHHHHHHHHhcCCCCCCCEEEEEeeeC

>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=93.81  E-value=0.015  Score=44.51  Aligned_cols=21  Identities=14%  Similarity=0.127  Sum_probs=19.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|++|+|||+|...+..
T Consensus         6 Kv~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            589999999999999998865

>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=93.80  E-value=0.015  Score=46.58  Aligned_cols=24  Identities=21%  Similarity=0.293  Sum_probs=20.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ...+|+|++|+|||||..+|....
T Consensus        96 kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          96 KISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             CeEEEECCCCCCHHHHHHhhcchh
Confidence            357999999999999999986443

>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=93.71  E-value=0.019  Score=44.44  Aligned_cols=21  Identities=24%  Similarity=0.338  Sum_probs=19.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|+|||++...+..
T Consensus         9 Ki~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1           9 KILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            589999999999999998865

>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=93.68  E-value=0.022  Score=44.09  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=20.4

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      -.|+++|++|+|||++++.+...
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            57999999999999999988764

>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=93.65  E-value=0.02  Score=43.94  Aligned_cols=22  Identities=14%  Similarity=0.193  Sum_probs=18.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      .++++|.+|+|||+|...+..-
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4799999999999999877653

>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=93.62  E-value=0.013  Score=45.68  Aligned_cols=27  Identities=7%  Similarity=0.052  Sum_probs=21.6

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHH
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~  346 (441)
                      +......+.|+|+|++|||||..++..
T Consensus        12 p~~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          12 PSDTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             SCSCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCccCCEEEEECCCCCCHHHHHHHHhC
Confidence            333456799999999999999988743

>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=93.51  E-value=0.014  Score=45.55  Aligned_cols=21  Identities=33%  Similarity=0.507  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      .|.|+|+|++|||||++.+.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            488999999999999998854

>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=93.51  E-value=0.022  Score=51.27  Aligned_cols=34  Identities=21%  Similarity=0.300  Sum_probs=25.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCceEEech
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHAA---EASFFSLSG  357 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~  357 (441)
                      ..|++++|++|+|||++++.+...+   +..++.++.
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            4589999999999999887554332   566666665

>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=93.48  E-value=0.019  Score=45.35  Aligned_cols=21  Identities=29%  Similarity=0.321  Sum_probs=18.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|++|+|||||+..+..
T Consensus         8 KivvvG~~~vGKTsli~~l~~   28 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSD   28 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHhh
Confidence            378999999999999998764

>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=93.47  E-value=0.019  Score=45.41  Aligned_cols=20  Identities=25%  Similarity=0.574  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVV   74 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~   74 (441)
                      .|+|.|.+|+|||++++.+.
T Consensus         4 KivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            58999999999999999883

>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=93.43  E-value=0.029  Score=46.70  Aligned_cols=28  Identities=25%  Similarity=0.444  Sum_probs=24.3

Q ss_pred             CCCCcEEEEEcCCCCcHHHHHHHHHHHh
Q 013506           50 LKWPRGLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        50 ~~~~~~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      +..+..+++.|++|+|||+++..+++..
T Consensus        40 igrGQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          40 IGRGQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             CBTTCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             ccCCCeeeEeCCCCCCHHHHHHHHHHHH
Confidence            4567889999999999999999988754

>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=93.41  E-value=0.023  Score=43.66  Aligned_cols=22  Identities=18%  Similarity=0.199  Sum_probs=19.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 013506          325 RGALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~  346 (441)
                      -.++++|.+|+|||++...+..
T Consensus         5 ~Ki~lvG~~~vGKTsll~~~~~   26 (169)
T d1x1ra1           5 YKLVVVGDGGVGKSALTIQFFQ   26 (169)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            3589999999999999998875

>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=93.31  E-value=0.021  Score=44.38  Aligned_cols=21  Identities=29%  Similarity=0.436  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++|+|.+|+|||++++.+..
T Consensus         4 KivliG~~~vGKTsli~r~~~   24 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAK   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            479999999999999987765

>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=93.29  E-value=0.017  Score=44.86  Aligned_cols=22  Identities=41%  Similarity=0.605  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .|.|+|.||+|||||++.+.+.
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3889999999999999998643

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

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: Clostridium acetobutylicum [TaxId: 1488]

Probab=93.24  E-value=0.19  Score=36.81  Aligned_cols=67  Identities=21%  Similarity=0.201  Sum_probs=35.8

Q ss_pred             EEECCCCCcHHHH-HHHH--HHHcCCceEEechhhh--hhh--cc---Cch-----HHHHHHHHHHHHhcCCeEEEEecc
Q 013506          328 LLHGPPGCSKTTL-AKAA--AHAAEASFFSLSGAEL--YSM--YV---GES-----EALLRNTFQRARLAAPSIIFFDEA  392 (441)
Q Consensus       328 ll~Gp~GtGKTtl-a~~l--a~~~~~~~~~i~~~~~--~~~--~~---g~~-----~~~~~~~~~~a~~~~~~vl~iDE~  392 (441)
                      +++||-.+||||- .+.+  ....+..++.++.+--  ++.  ..   |..     ..+...++... .....++++||+
T Consensus        11 lI~GpMfSGKTteLi~~~~~~~~~g~~vl~i~~~~D~Ry~~~~i~sh~g~~~~a~~~~~~~~~~~~~-~~~~dvI~IDE~   89 (141)
T d1xx6a1          11 VIVGPMYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHMGEKEQAVAIKNSREILKYF-EEDTEVIAIDEV   89 (141)
T ss_dssp             EEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEEC-------CEEECTTSCEEECEEESSSTHHHHHC-CTTCSEEEECSG
T ss_pred             EEEeccccHHHHHHHHHHHHhhhcCCcEEEEEeccccccccceeeecccceEEEEEecchhhhhhhh-cccccEEEEeeh
Confidence            7889999999994 4444  2334667666664221  111  00   000     01112233322 245679999999


Q ss_pred             ccc
Q 013506          393 DVV  395 (441)
Q Consensus       393 d~~  395 (441)
                      --+
T Consensus        90 QFf   92 (141)
T d1xx6a1          90 QFF   92 (141)
T ss_dssp             GGS
T ss_pred             hhc
Confidence            865

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

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: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=93.20  E-value=0.032  Score=46.54  Aligned_cols=32  Identities=13%  Similarity=0.180  Sum_probs=25.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc---CCceEEech
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA---EASFFSLSG  357 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~  357 (441)
                      .+.++|..|+||||+|-.+|..+   |..+..++.
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~   37 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGC   37 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEE
T ss_pred             EEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEec
Confidence            36688999999999998887766   667777765

>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=93.18  E-value=0.014  Score=45.10  Aligned_cols=21  Identities=29%  Similarity=0.286  Sum_probs=9.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|||||||+..+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEEECCCCC-----------
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999976654

>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=93.16  E-value=0.069  Score=41.22  Aligned_cols=22  Identities=27%  Similarity=0.232  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      ++.++|.|.+|||||..++.+.
T Consensus         7 nIaiiG~~naGKSTL~n~L~~~   28 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTEI   28 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHTT
T ss_pred             EEEEEeCCCCcHHHHHHHHHHh
Confidence            6899999999999999999753

>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=93.02  E-value=0.026  Score=45.51  Aligned_cols=23  Identities=30%  Similarity=0.486  Sum_probs=20.0

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHH
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      ..|+|.|++|+|||++++.+...
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            56999999999999999987543

>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=93.00  E-value=0.027  Score=43.99  Aligned_cols=21  Identities=24%  Similarity=0.245  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|+|||+|...+..
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~   31 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAN   31 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhh
Confidence            579999999999999988765

>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=92.95  E-value=0.026  Score=43.64  Aligned_cols=21  Identities=24%  Similarity=0.229  Sum_probs=19.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++|+|.||+|||||..++.+
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999975

>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=92.90  E-value=0.026  Score=44.33  Aligned_cols=21  Identities=19%  Similarity=0.181  Sum_probs=18.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|++|+|||+|...+..
T Consensus         5 KvvllG~~~vGKTSli~r~~~   25 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTT   25 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            479999999999999887764

>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=92.80  E-value=0.023  Score=48.49  Aligned_cols=24  Identities=29%  Similarity=0.573  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      --+|+||+|||||++.+++.-.++
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            568999999999999999976554

>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=92.74  E-value=0.017  Score=44.41  Aligned_cols=21  Identities=33%  Similarity=0.365  Sum_probs=17.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|++|+|||+|...+..
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~   25 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLT   25 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC-
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            479999999999999987654

>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=92.64  E-value=0.037  Score=46.08  Aligned_cols=29  Identities=28%  Similarity=0.370  Sum_probs=24.7

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 013506          320 GISPVRGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       320 ~~~~~~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ++..+...++.|++|+|||+++..++...
T Consensus        39 PigrGQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          39 PIGRGQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             CCBTTCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             cccCCCeeeEeCCCCCCHHHHHHHHHHHH
Confidence            45567789999999999999999988754

>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=92.60  E-value=0.023  Score=44.12  Aligned_cols=21  Identities=29%  Similarity=0.346  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .+.|+|.|++|||||...|..
T Consensus         3 ~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            488999999999999999864

>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=92.58  E-value=0.014  Score=44.36  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      .++|+|.|++|||||..++...
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

>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {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: DNA helicase UvsW
domain: DNA helicase UvsW
species: Bacteriophage T4 [TaxId: 10665]

Probab=92.52  E-value=0.077  Score=44.40  Aligned_cols=96  Identities=9%  Similarity=0.107  Sum_probs=0.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc-----CCceEEechhhhhhhccCchHHH----------------------------
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA-----EASFFSLSGAELYSMYVGESEAL----------------------------  371 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~-----~~~~~~i~~~~~~~~~~g~~~~~----------------------------  371 (441)
                      .+.+++-|+|+|||.++-+++..+     ..-++.+....+..++..+..+.                            
T Consensus       129 ~~~il~~pTGsGKT~i~~~i~~~~~~~~~~k~Liivp~~~Lv~Q~~~~f~~~~~~~~~~~~~~~~g~~~~~~~~~~~~i~  208 (282)
T d1rifa_         129 RRRILNLPTSAGRSLIQALLARYYLENYEGKILIIVPTTALTTQMADDFVDYRLFSHAMIKKIGGGASKDDKYKNDAPVV  208 (282)
T ss_dssp             SEEEECCCTTSCHHHHHHHHHHHHHHHCSSEEEEECSSHHHHHHHHHHHHHHTSCCGGGEEECSTTCSSTTCCCTTCSEE
T ss_pred             CCceeEEEcccCccHHHHHHHHHhhhcccceEEEEEcCchhHHHHHHHHHHhhccccccceeecceecccccccccceEE


Q ss_pred             -----HHHHHHHHHhcCCeEEEEecccccccccCCCCCCCcchhhHHHHHHHHHhcCCCCCCeEEEEeeee
Q 013506          372 -----LRNTFQRARLAAPSIIFFDEADVVGAKRGGSSSTSITVGERLLSTLLTEMDGLEQAKVIIYPISFI  437 (441)
Q Consensus       372 -----~~~~~~~a~~~~~~vl~iDE~d~~~~~r~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~~~~~~~  437 (441)
                           ...-...-......++++||++.+-.                 +.+-+.|....+....+-+++|+
T Consensus       209 i~t~qs~~~~~~~~~~~f~~VIvDEaH~~~a-----------------~~~~~il~~~~~~~~rlGlTaT~  262 (282)
T d1rifa_         209 VGTWQTVVKQPKEWFSQFGMMMNDECHLATG-----------------KSISSIISGLNNCMFKFGLSGSL  262 (282)
T ss_dssp             EECHHHHTTSCGGGGGGEEEEEEETGGGCCH-----------------HHHHHHTTTCTTCCEEEEECSSC
T ss_pred             EEeeehhhhhcccccCCCCEEEEECCCCCCc-----------------hhHHHHHHhccCCCeEEEEEeec

>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=92.51  E-value=0.091  Score=42.27  Aligned_cols=34  Identities=21%  Similarity=0.235  Sum_probs=24.0

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEE
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVI   84 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v   84 (441)
                      +.+...||+|..|+|||.++-..+...   +..++.+
T Consensus        74 ~~~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l  110 (233)
T d2eyqa3          74 PLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVL  110 (233)
T ss_dssp             SSCCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEE
T ss_pred             cCccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEE
Confidence            345688999999999999986554432   4444444

>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=92.47  E-value=0.024  Score=44.16  Aligned_cols=21  Identities=29%  Similarity=0.322  Sum_probs=18.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .+.|+|+|++|||||...+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999998853

>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=92.35  E-value=0.035  Score=43.63  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHHh
Q 013506           55 GLLLYGPPGTGKTSLVRAVVREC   77 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~l   77 (441)
                      .+++.|.+|+|||++++.+...-
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999986553

>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=92.30  E-value=0.035  Score=43.70  Aligned_cols=21  Identities=29%  Similarity=0.267  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~  346 (441)
                      .++++|.+|+||||+...+..
T Consensus         4 KivllG~~~vGKTsll~r~~f   24 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQMRI   24 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            489999999999999999843

>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=92.21  E-value=0.044  Score=42.58  Aligned_cols=23  Identities=26%  Similarity=0.316  Sum_probs=19.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAH  346 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~  346 (441)
                      +-.+.++|.+|+|||||..++..
T Consensus         8 ~~kV~iiG~~~~GKSTLin~l~~   30 (186)
T d1mkya2           8 AIKVAIVGRPNVGKSTLFNAILN   30 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHC
Confidence            34689999999999999988864

>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=92.16  E-value=0.037  Score=44.54  Aligned_cols=22  Identities=27%  Similarity=0.264  Sum_probs=19.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      .++++|++|+||||+.+.+...
T Consensus         8 KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           8 RLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5899999999999999988543

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

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: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=92.07  E-value=0.054  Score=45.59  Aligned_cols=31  Identities=16%  Similarity=0.176  Sum_probs=24.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCceEEech
Q 013506          327 ALLHGPPGCSKTTLAKAAAHAA---EASFFSLSG  357 (441)
Q Consensus       327 ~ll~Gp~GtGKTtla~~la~~~---~~~~~~i~~  357 (441)
                      +.++|..|+||||+|--+|..+   |..+..++.
T Consensus         5 IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID~   38 (289)
T d2afhe1           5 CAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGC   38 (289)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEec
Confidence            5678999999999877766655   777777764

>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=91.90  E-value=0.053  Score=48.38  Aligned_cols=27  Identities=26%  Similarity=0.452  Sum_probs=22.1

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      +.--+|+||+|+|||+++.+++-.++.
T Consensus        25 ~~l~~i~G~NGsGKS~ileAi~~~lg~   51 (427)
T d1w1wa_          25 SNFTSIIGPNGSGKSNMMDAISFVLGV   51 (427)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            445689999999999999999866653

>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=91.84  E-value=0.05  Score=41.92  Aligned_cols=24  Identities=13%  Similarity=0.016  Sum_probs=20.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 013506          324 VRGALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       324 ~~~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      --.++++|.+|+|||++...+...
T Consensus         5 ~~ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           5 ELRLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEEEECCTTTTHHHHHHHHHHS
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhC
Confidence            346899999999999999877653

>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=91.73  E-value=0.015  Score=46.83  Aligned_cols=24  Identities=21%  Similarity=0.407  Sum_probs=19.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 013506          325 RGALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       325 ~~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      ...+|+|++|+|||||..+|....
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             ceEEEECCCCccHHHHHHhhccHh
Confidence            456899999999999999886543

>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=91.68  E-value=0.049  Score=42.54  Aligned_cols=22  Identities=32%  Similarity=0.504  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVRE   76 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~~   76 (441)
                      .++|.|..|+|||++++.+...
T Consensus         4 KivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            5899999999999999987644

>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=91.62  E-value=0.11  Score=43.62  Aligned_cols=36  Identities=31%  Similarity=0.427  Sum_probs=28.1

Q ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHh---CCcEEEEccC
Q 013506           52 WPRGLLLYGPPGTGKTSLVRAVVREC---GAHLTVISPH   87 (441)
Q Consensus        52 ~~~~vll~Gp~GtGKT~l~~~l~~~l---~~~~~~v~~~   87 (441)
                      .++-++++|.=|+||||++-.+|..+   +..+..+++.
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~D   45 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTD   45 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCC
Confidence            46788999999999999998887665   5566666543

>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=91.61  E-value=0.045  Score=46.83  Aligned_cols=25  Identities=32%  Similarity=0.353  Sum_probs=22.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCC
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEA  350 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~  350 (441)
                      .+.|-|+-|+||||+++.+++.++.
T Consensus         8 rI~iEG~iGsGKSTl~~~L~~~l~~   32 (333)
T d1p6xa_           8 RIYLDGVYGIGKSTTGRVMASAASG   32 (333)
T ss_dssp             EEEEECSTTSSHHHHHHHHHSGGGC
T ss_pred             EEEEECCccCCHHHHHHHHHHHhcc
Confidence            4678899999999999999998753

>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=91.32  E-value=0.05  Score=46.58  Aligned_cols=26  Identities=23%  Similarity=0.317  Sum_probs=23.1

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhCC
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECGA   79 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~~   79 (441)
                      -.|.|-|+-|+||||+++.+++.++.
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            46899999999999999999998753

>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=91.14  E-value=0.083  Score=42.15  Aligned_cols=31  Identities=19%  Similarity=0.083  Sum_probs=25.2

Q ss_pred             eEEEECCC-CCcHHHHHHHHHHHc---CCceEEec
Q 013506          326 GALLHGPP-GCSKTTLAKAAAHAA---EASFFSLS  356 (441)
Q Consensus       326 ~~ll~Gp~-GtGKTtla~~la~~~---~~~~~~i~  356 (441)
                      .++++|-. |+||||++-.||..+   |..+..++
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id   37 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYK   37 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             eEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEEC
Confidence            57888995 999999999888877   66666665

>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=91.12  E-value=0.041  Score=46.96  Aligned_cols=26  Identities=23%  Similarity=0.345  Sum_probs=19.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCc
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEAS  351 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~~  351 (441)
                      .+.+-|+-|+||||+++.++..++..
T Consensus         6 rI~IEG~iGsGKTTl~~~La~~l~~~   31 (329)
T d1e2ka_           6 RVYIDGPHGMGKTTTTQLLVALGSRD   31 (329)
T ss_dssp             EEEECSCTTSSHHHHHHHHTC----C
T ss_pred             EEEEECCcCCCHHHHHHHHHHHhCCC
Confidence            46788999999999999999887543

>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=90.85  E-value=0.076  Score=43.86  Aligned_cols=25  Identities=40%  Similarity=0.676  Sum_probs=21.9

Q ss_pred             cEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           54 RGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        54 ~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      ++|.+.|+.|+|||||+.++....+
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            5799999999999999999976553

>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=90.77  E-value=0.13  Score=40.98  Aligned_cols=33  Identities=21%  Similarity=0.330  Sum_probs=25.7

Q ss_pred             cEEEEEcC-CCCcHHHHHHHHHHHh---CCcEEEEcc
Q 013506           54 RGLLLYGP-PGTGKTSLVRAVVREC---GAHLTVISP   86 (441)
Q Consensus        54 ~~vll~Gp-~GtGKT~l~~~l~~~l---~~~~~~v~~   86 (441)
                      +.++++|. +|+||||++-.++..+   |..+..++.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id~   38 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYKP   38 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEECS
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEECc
Confidence            46899999 5999999999887765   556666654

>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=90.67  E-value=0.15  Score=41.73  Aligned_cols=25  Identities=32%  Similarity=0.465  Sum_probs=19.8

Q ss_pred             CCCcEEEEEcCCCCcHHHHHHHHHH
Q 013506           51 KWPRGLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        51 ~~~~~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      ..+-.-||.|..|||||.++-..+.
T Consensus       102 ~~~m~rLL~GdvGSGKT~Va~~a~~  126 (264)
T d1gm5a3         102 EKPMNRLLQGDVGSGKTVVAQLAIL  126 (264)
T ss_dssp             SSCCCCEEECCSSSSHHHHHHHHHH
T ss_pred             cCcceeeeeccccccccHHHHHHHH
Confidence            3455789999999999999875543

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {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: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=90.66  E-value=2.3  Score=31.25  Aligned_cols=73  Identities=10%  Similarity=0.119  Sum_probs=41.2

Q ss_pred             HHHHHHHHHhhhhcCCCeEEEEccccccccCCCCCchhhHHHHHHHHHHHhcCCCCCCCCCeEEEEEEcCCCCccCHHHh
Q 013506          101 LREAFSQASSHALSGKPSVVFIDEIDALCPRRDHRREQDVRIASQLFTLMDSNKPSKTSVPHVVVVASTNRVDAIDPALR  180 (441)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~il~iDe~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~vi~~~~~~~~l~~~l~  180 (441)
                      ....+..+......+..++|++||+......+--    +   .+.++.+++....      .+-+|.|.+.   .++.+.
T Consensus        79 a~~~~~~a~~~~~~~~~dllILDEi~~Ai~~gli----~---~~~v~~ll~~rp~------~~evVlTGr~---~p~~L~  142 (157)
T d1g5ta_          79 CMAVWQHGKRMLADPLLDMVVLDELTYMVAYDYL----P---LEEVISALNARPG------HQTVIITGRG---CHRDIL  142 (157)
T ss_dssp             HHHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSS----C---HHHHHHHHHTSCT------TCEEEEECSS---CCHHHH
T ss_pred             HHHHHHHHHHHhhcCccCEEeHHHHHHHHHcCCC----C---HHHHHHHHHhCCC------CCEEEEECCC---CCHHHH
Confidence            4455666666666777899999999865433211    1   2445556655322      3456666543   345555


Q ss_pred             hCCccceEEEe
Q 013506          181 RSGRFDAEVEV  191 (441)
Q Consensus       181 ~~~r~~~~i~~  191 (441)
                      .  +.+.+-++
T Consensus       143 e--~ADlVTEm  151 (157)
T d1g5ta_         143 D--LADTVSEL  151 (157)
T ss_dssp             H--HCSEEEEC
T ss_pred             H--hcceeeee
Confidence            5  55544433

>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=90.49  E-value=0.091  Score=43.51  Aligned_cols=26  Identities=19%  Similarity=0.234  Sum_probs=22.6

Q ss_pred             CcEEEEEcCCCCcHHHHHHHHHHHhC
Q 013506           53 PRGLLLYGPPGTGKTSLVRAVVRECG   78 (441)
Q Consensus        53 ~~~vll~Gp~GtGKT~l~~~l~~~l~   78 (441)
                      -++|.++|..|+|||||+.++....+
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            36899999999999999999976654

>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=90.46  E-value=0.068  Score=41.25  Aligned_cols=21  Identities=29%  Similarity=0.515  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHH
Q 013506           55 GLLLYGPPGTGKTSLVRAVVR   75 (441)
Q Consensus        55 ~vll~Gp~GtGKT~l~~~l~~   75 (441)
                      +|-++|.|++|||||++.+.+
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            689999999999999999874

>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=90.45  E-value=0.071  Score=41.53  Aligned_cols=22  Identities=27%  Similarity=0.271  Sum_probs=19.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 013506          326 GALLHGPPGCSKTTLAKAAAHA  347 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~  347 (441)
                      .++++|..|+|||++.+.+...
T Consensus         4 KivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            5899999999999999887543

>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=90.45  E-value=0.058  Score=46.11  Aligned_cols=25  Identities=32%  Similarity=0.288  Sum_probs=22.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCC
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAAEA  350 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~~~  350 (441)
                      .+.+-|+-|+||||+++.+++.+..
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            3678899999999999999998864

>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=90.33  E-value=0.058  Score=43.36  Aligned_cols=23  Identities=35%  Similarity=0.362  Sum_probs=19.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      -.++.|.-|+||||+.+.+....
T Consensus         5 v~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEEeeCCCCCHHHHHHHHHhcC
Confidence            36899999999999998887654

>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=90.20  E-value=0.078  Score=41.48  Aligned_cols=23  Identities=26%  Similarity=0.218  Sum_probs=20.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc
Q 013506          326 GALLHGPPGCSKTTLAKAAAHAA  348 (441)
Q Consensus       326 ~~ll~Gp~GtGKTtla~~la~~~  348 (441)
                      .++++|.+|+|||++.+.+....
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47999999999999999886554