Citrus Sinensis ID: 045709

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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-------
Protein Sequence
MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVAEQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESRCSKSTYKLGKKVFRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD
Secondary Structure (PSIPRED)
ccccccHHccHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccHHHHHHHHHHHHcccccEEEEEccccccHHHHHHHHHHHHccccccccEEEEEEEcccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHccccEEEEEccccccccccccccccccccccccEEEEEEccHHHHHHccccccEEcccccHHHHHHHHHHHHccccccccccHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccEEEEEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHcccccHHHHHHHHHHHHHHHHHHHHcccccEEcccccccccccccccccEcccHHHHHHHHHHHHccccEEEEEEccccccHHHHHHHHHcccHcccccccEEEEEEEcccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHccccEEEEEcccccHccHHHHccccccccccccEEEEEEccHHHHHHccccccEEEEcccHHHHHHHHHHHHccccccccccHHHHHHHHHHc
Coil and Loop (DISEMBL)
mgnvcspsftcddtisrcldctvrkagyvcnLQDNIRALKEEVRRLTEVRNDVKIRIIVAEQQqmkpleqvHGWISRVQEVGSKVEklkeeeypesrcskstykLGKKVFRTLREVRSLrqegdfkdvaqpvpenpvderplpptvvglqLTFDRVWRCLMEEHAGIVglygmggvgkTTLLTQINnrffdtpnhfDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWelvdldqvglpipsrtsvsnkvvFTTREFGVCGQMEAHRSFKVECLRYDDAWKLFEQKvgadtldshpdipELAETLAKD
Flexible Loop (DISEMBL)
mgnvcspsftcddtisRCLDCTVRKAgyvcnlqdnirALKEEVrrltevrndvKIRIIVAeqqqmkpleqvhGWISRVQEVGSkveklkeeeypesrcskstyklgkkVFRTLREVRslrqegdfkdvaqpvpenpvderplpptvVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLdqvglpipsrtsvsnkvVFTTREFGVCGQMEAHRSFKVECLRYDDAWKLFEQKvgadtldshpdipelaetlakd
Low Complexity Region (SEG)
MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVAEQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESRCSKSTYKLGKKVFRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAgivglygmggvgKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD
Disordered region (IsUnstruct)
*******SFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVAEQQQMKPLEQVHGWISRVQ*************************LGKKVFRTL******************************PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKVECLRYDDAWKLFEQKVGA*******************
Disordered Region (DISOPRED)
*GNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVAEQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESRCSKSTYKLGKKVFRTLREVRSLRQ*****************************LTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG*****************IFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD
Disordered Region (DISEMBL)
********FTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVAEQQQMKPLEQVHGWISRVQEVGSK***************KSTYKLGKKVFRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD
Disordered Region (DISPRO)
*GNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVAEQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESRCSKSTYKLGKKVFRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNxxxxxxxxxxxxxxxxxxxxxIIVAEQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESRCSKSTYKLGKKVFRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD
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	337	2.2.26 [Sep-21-2011]
O82484	892	Putative disease resistan	yes	no	0.985	0.372	0.440	3e-77
P60839	884	Probable disease resistan	no	no	0.994	0.378	0.427	5e-75
P60838	894	Probable disease resistan	no	no	0.991	0.373	0.427	7e-73
Q8RXS5	888	Probable disease resistan	no	no	0.991	0.376	0.424	9e-73
O22727	967	Probable disease resistan	no	no	0.988	0.344	0.430	5e-72
Q940K0	889	Probable disease resistan	no	no	0.985	0.373	0.427	1e-71
O64789	925	Probable disease resistan	no	no	0.955	0.348	0.429	6e-71
Q9LMP6	851	Probable disease resistan	no	no	0.988	0.391	0.421	1e-68
Q8L3R3	885	Disease resistance protei	no	no	0.994	0.378	0.414	3e-68
O64973	889	Disease resistance protei	no	no	0.994	0.376	0.417	4e-68

>sp|O82484|DRL23_ARATH Putative disease resistance protein At4g10780 OS=Arabidopsis thaliana GN=At4g10780 PE=2 SV=1

 Score =  288 bits (738), Expect = 3e-77,   Method: Compositional matrix adjust.
 Identities = 152/345 (44%), Positives = 214/345 (62%), Gaps = 13/345 (3%)

Query: 1   MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
           MG+  S   +CD  ++R   C      Y+  L+DNI AL++ +  LT  R+DV  R+ + 
Sbjct: 1   MGSCISLQISCDQVLTRAYSCFFSLGNYIHKLKDNIVALEKAIEDLTATRDDVLRRVQME 60

Query: 61  EQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPE-------SRCS---KSTYKLGKKVF 110
           E + ++ L+QV  W+ RV+ + ++   L      E       S CS    S+Y  G++VF
Sbjct: 61  EGKGLERLQQVQVWLKRVEIIRNQFYDLLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVF 120

Query: 111 RTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVGL 170
             ++EV +L   G F+ VA P P+  ++ RP+ PT++G +  F R W  LM++  G +GL
Sbjct: 121 LMIKEVENLNSNGFFEIVAAPAPK--LEMRPIQPTIMGRETIFQRAWNRLMDDGVGTMGL 178

Query: 171 YGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKN 230
           YGMGGVGKTTLLTQI+N   DT N  D VIWVVVS DLQ+ KIQE I +K+G   + W  
Sbjct: 179 YGMGGVGKTTLLTQIHNTLHDTKNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNK 238

Query: 231 KSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG 290
           K   +KA +I   LSKK+FVLLLDDIW+ VDL ++G+P  +R +   KVVFTTR   VC 
Sbjct: 239 KQESQKAVDILNCLSKKRFVLLLDDIWKKVDLTKIGIPSQTREN-KCKVVFTTRSLDVCA 297

Query: 291 QMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLA 335
           +M  H   +V+CL  +DAW+LF++KVG  +L SHPDI ELA+ +A
Sbjct: 298 RMGVHDPMEVQCLSTNDAWELFQEKVGQISLGSHPDILELAKKVA 342

Potential disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

>sp|P60839|DRL2_ARATH Probable disease resistance protein At1g12290 OS=Arabidopsis thaliana GN=At1g12290 PE=2 SV=1

 Score =  281 bits (719), Expect = 5e-75,   Method: Compositional matrix adjust.
 Identities = 148/346 (42%), Positives = 210/346 (60%), Gaps = 11/346 (3%)

Query: 1   MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
           MG   S   +CD  ++    C  RK  Y+ N+++N+ +L+E +  L  +R+D+  ++  A
Sbjct: 1   MGGCVSVQVSCDQLLNHLGRCFCRKLYYIQNIKENLTSLEEAMEDLKALRDDLLRKVQTA 60

Query: 61  EQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPE----------SRCSKSTYKLGKKVF 110
           E+  ++ L Q+  W+ RV+ + S+   L      E          SR  + +Y  G++VF
Sbjct: 61  EEGGLQRLHQIKVWLKRVKTIESQFNDLDSSRTVELQRLCCCGVGSRNLRLSYDYGRRVF 120

Query: 111 RTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVGL 170
             L  V  L+ +G F++VA P      +ERPL PT+VG +   ++ W  LM++   I+GL
Sbjct: 121 LMLNIVEDLKSKGIFEEVAHPATRAVGEERPLQPTIVGQETILEKAWDHLMDDGTKIMGL 180

Query: 171 YGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKN 230
           YGMGGVGKTTLLTQINNRF DT +  + VIWVVVS DLQ+ KIQ+ I +KIG     W  
Sbjct: 181 YGMGGVGKTTLLTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQ 240

Query: 231 KSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG 290
           KS  +KA +I   LSKK+FVLLLDDIW+ V+L ++G+P P+  +   K+ FTTR   VC 
Sbjct: 241 KSENQKAVDILNFLSKKRFVLLLDDIWKRVELTEIGIPNPTSEN-GCKIAFTTRCQSVCA 299

Query: 291 QMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
            M  H   +V CL  DDAW LF++KVG  TL SHPDIPE+A  +A+
Sbjct: 300 SMGVHDPMEVRCLGADDAWDLFKKKVGDITLSSHPDIPEIARKVAQ 345

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P60838|DRL1_ARATH Probable disease resistance protein At1g12280 OS=Arabidopsis thaliana GN=At1g12280 PE=3 SV=1

 Score =  274 bits (700), Expect = 7e-73,   Method: Compositional matrix adjust.
 Identities = 148/346 (42%), Positives = 214/346 (61%), Gaps = 12/346 (3%)

Query: 1   MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
           MG   + SF+CD+ +++         GY+C L  N+ A+K+++  L + R+DVK R+ + 
Sbjct: 1   MGACLTLSFSCDEVVNQISQGLCINVGYICELSKNVVAMKKDMEVLKKKRDDVKRRVDIE 60

Query: 61  E-QQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESR-------CSKS---TYKLGKKV 109
           E  ++ + L QV GW++ V  V +K  +L      E +       CSK+   +Y  GK+V
Sbjct: 61  EFTRRRERLSQVQGWLTNVSTVENKFNELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRV 120

Query: 110 FRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVG 169
              L+E+ SL  +GDF  V    P   ++E P+ PT+VG +   +RVW  L E+   IVG
Sbjct: 121 VLMLKEIESLSSQGDFDTVTLATPIARIEEMPIQPTIVGQETMLERVWTRLTEDGDEIVG 180

Query: 170 LYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWK 229
           LYGMGGVGKTTLLT+INN+F +  + F  VIWVVVS+   + +IQ  I K++ L  E W 
Sbjct: 181 LYGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWD 240

Query: 230 NKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVC 289
           N +  ++A +I+ +L K+KFVLLLDDIWE V+L+ +G+P PSR +   KVVFTTR   VC
Sbjct: 241 NVNENQRALDIYNVLGKQKFVLLLDDIWEKVNLEVLGVPYPSRQN-GCKVVFTTRSRDVC 299

Query: 290 GQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLA 335
           G+M      +V CL  ++AW+LF+ KVG +TL  HPDIPELA  +A
Sbjct: 300 GRMRVDDPMEVSCLEPNEAWELFQMKVGENTLKGHPDIPELARKVA 345

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RXS5|DRL40_ARATH Probable disease resistance protein At5g63020 OS=Arabidopsis thaliana GN=At5g63020 PE=2 SV=2

 Score =  273 bits (699), Expect = 9e-73,   Method: Compositional matrix adjust.
 Identities = 147/346 (42%), Positives = 211/346 (60%), Gaps = 12/346 (3%)

Query: 1   MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
           MG   S S +CD        C  R   Y+  L++N+ AL+  + ++ + R D+  +I+  
Sbjct: 1   MGGCVSVSISCDQLTKNVCSCLNRNGDYIHGLEENLTALQRALEQIEQRREDLLRKILSE 60

Query: 61  EQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESR-------CSK---STYKLGKKVF 110
           E++ ++ L  V GW+S+V+ +  +V +L      + +       CSK   S+Y+ GK+V 
Sbjct: 61  ERRGLQRLSVVQGWVSKVEAIVPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVM 120

Query: 111 RTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVGL 170
           + + EV  LR +GDF  VA+ V    V+ERP  P +V +    +  W  LME+  GI+GL
Sbjct: 121 KMIEEVEVLRYQGDFAVVAERVDAARVEERPTRP-MVAMDPMLESAWNRLMEDEIGILGL 179

Query: 171 YGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKN 230
           +GMGGVGKTTLL+ INNRF      FD VIW+VVS++LQ+++IQ+ I +K+   NE WK 
Sbjct: 180 HGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQ 239

Query: 231 KSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG 290
           K+   KA  I+ +L  K+FVLLLDDIW  VDL +VG+P PSR +   K+VFTTR   +CG
Sbjct: 240 KTEDIKASNIYNVLKHKRFVLLLDDIWSKVDLTEVGVPFPSREN-GCKIVFTTRLKEICG 298

Query: 291 QMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
           +M      +V CL  DDAW LF +KVG  TL SHP+IP +A T+AK
Sbjct: 299 RMGVDSDMEVRCLAPDDAWDLFTKKVGEITLGSHPEIPTVARTVAK 344

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O22727|DRL16_ARATH Probable disease resistance protein At1g61190 OS=Arabidopsis thaliana GN=At1g61190 PE=3 SV=1

 Score =  271 bits (693), Expect = 5e-72,   Method: Compositional matrix adjust.
 Identities = 149/346 (43%), Positives = 217/346 (62%), Gaps = 13/346 (3%)

Query: 1   MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
           MGN      + D  + R + C   K GY+ NL+ N+RAL+ E+  L   +++V+ ++   
Sbjct: 1   MGNFVCIEISGDQMLDRIIRCLCGK-GYIRNLEKNLRALQREMEDLRATQHEVQNKVARE 59

Query: 61  EQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESR-------CSK---STYKLGKKVF 110
           E +  + LE V  W+ RV  +  + + L      E +       CSK   S+YK GK+VF
Sbjct: 60  ESRHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVF 119

Query: 111 RTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVGL 170
             L EV  L+ EG+F +V+QP P + V+ERP  PT+ G +    + W  LME+  GI+GL
Sbjct: 120 LLLEEVTKLKSEGNFDEVSQPPPRSEVEERPTQPTI-GQEEMLKKAWNRLMEDGVGIMGL 178

Query: 171 YGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKN 230
           +GMGGVGKTTL  +I+N+F +T   FD VIW+VVS+  +L K+QE IA+K+ L ++ WKN
Sbjct: 179 HGMGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKN 238

Query: 231 KSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG 290
           K+  +KA +I ++L  K+FVL+LDDIWE VDL+ +G+P PS  +   KV FTTR+  VCG
Sbjct: 239 KNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVN-KCKVAFTTRDQKVCG 297

Query: 291 QMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
           QM  H+  +V+CL  +DAW+LF+ KVG +TL S P I  LA  +A+
Sbjct: 298 QMGDHKPMQVKCLEPEDAWELFKNKVGDNTLRSDPVIVGLAREVAQ 343

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q940K0|DRL15_ARATH Probable disease resistance protein At1g61180 OS=Arabidopsis thaliana GN=At1g61180 PE=2 SV=2

 Score =  270 bits (690), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 148/346 (42%), Positives = 219/346 (63%), Gaps = 14/346 (4%)

Query: 1   MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
           MG+ C      D T++R  +C + K+ Y+  L+ N+RAL+ E+  L  ++++V+ ++   
Sbjct: 1   MGS-CFSLQVSDQTLNRIFNCLIGKS-YIRTLEKNLRALQREMEDLRAIQHEVQNKVARD 58

Query: 61  EQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESR-------CSK---STYKLGKKVF 110
           E +  + LE V  W+ RV  V  + + L      E +       CSK   S+YK GKKVF
Sbjct: 59  EARHQRRLEAVQVWLDRVNSVDIECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVF 118

Query: 111 RTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVGL 170
             L EV+ L  EG+F +V+QP P + V+ERP  PT+ G +   ++ W  LME+  GI+GL
Sbjct: 119 LLLEEVKKLNSEGNFDEVSQPPPRSEVEERPTQPTI-GQEDMLEKAWNRLMEDGVGIMGL 177

Query: 171 YGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKN 230
           +GMGGVGKTTL  +I+N+F +    FD VIW+VVS+ + + K+QE IA+K+ L ++ WKN
Sbjct: 178 HGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKN 237

Query: 231 KSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG 290
           K+  +KA +I ++L  K+FVL+LDDIWE VDL+ +G+P PS  +   KV FTTR   VCG
Sbjct: 238 KNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVN-KCKVAFTTRSREVCG 296

Query: 291 QMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
           +M  H+  +V CL  +DAW+LF+ KVG +TL S P I ELA  +A+
Sbjct: 297 EMGDHKPMQVNCLEPEDAWELFKNKVGDNTLSSDPVIVELAREVAQ 342

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64789|DRL18_ARATH Probable disease resistance protein At1g61310 OS=Arabidopsis thaliana GN=At1g61310 PE=2 SV=1

 Score =  268 bits (684), Expect = 6e-71,   Method: Compositional matrix adjust.
 Identities = 144/335 (42%), Positives = 214/335 (63%), Gaps = 13/335 (3%)

Query: 12  DDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVAEQQQMKPLEQV 71
           D T++R  DC + K+ Y+  L+ N+RAL+ E+  L   +++V+ ++   E +  + LE V
Sbjct: 13  DQTMNRIFDCLIGKS-YIRTLEKNLRALQREMEDLRATQHEVQNKVAREESRHQQRLEAV 71

Query: 72  HGWISRVQEVGSKVEKLKEEEYPESR-------CSK---STYKLGKKVFRTLREVRSLRQ 121
             W+ RV  +  + + L      E +       C+K   S+YK GKKVF  L EV+ L+ 
Sbjct: 72  QVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCTKYVCSSYKYGKKVFLLLEEVKILKS 131

Query: 122 EGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTL 181
           EG+F +V+QP P + V+ERP  PT+ G +   ++ W  LME+  GI+GL+GMGGVGKTTL
Sbjct: 132 EGNFDEVSQPPPRSEVEERPTQPTI-GQEEMLEKAWNRLMEDGVGIMGLHGMGGVGKTTL 190

Query: 182 LTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIF 241
             +I+N+F +    FD VIW+VVS+  +L K+QE IA+K+ L ++ WKNK+  +KA +I 
Sbjct: 191 FKKIHNKFAEIGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKNESDKATDIH 250

Query: 242 KILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKVE 301
           ++L  K+FVL+LDDIWE VDL+ +G+P PS  +   KV FTTR   VCG+M  H+  +V 
Sbjct: 251 RVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVN-KCKVAFTTRSREVCGEMGDHKPMQVN 309

Query: 302 CLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
           CL  +DAW+LF+ KVG +TL S P I  LA  +A+
Sbjct: 310 CLEPEDAWELFKNKVGDNTLSSDPVIVGLAREVAQ 344

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LMP6|DRL3_ARATH Probable disease resistance protein At1g15890 OS=Arabidopsis thaliana GN=At1g15890 PE=3 SV=2

 Score =  259 bits (663), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 146/346 (42%), Positives = 210/346 (60%), Gaps = 13/346 (3%)

Query: 1   MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
           MGN  +   +CD T++    C      Y+  ++ N+ AL+  ++ L E R+D+  R+++ 
Sbjct: 1   MGNCVALEISCDQTLNHACGCLFGDRNYILKMEANLEALQNTMQELEERRDDLLRRVVIE 60

Query: 61  EQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESR-------CSK---STYKLGKKVF 110
           E + ++ L QV GW+SRV++V S+V  L + +  ++        CSK   S    G  V 
Sbjct: 61  EDKGLQRLAQVQGWLSRVKDVCSQVNDLLKAKSIQTERLCLCGYCSKNFISGRNYGINVL 120

Query: 111 RTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVGL 170
           + L+ V  L  +G F+ VA+ +P   V+++ +  T VGL     R W  LM++    +GL
Sbjct: 121 KKLKHVEGLLAKGVFEVVAEKIPAPKVEKKHIQ-TTVGLDAMVGRAWNSLMKDERRTLGL 179

Query: 171 YGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKN 230
           YGMGGVGKTTLL  INN+F +  N FD VIWVVVS+DLQ E IQE I  ++GL +  WK 
Sbjct: 180 YGMGGVGKTTLLASINNKFLEGMNGFDLVIWVVVSKDLQNEGIQEQILGRLGL-HRGWKQ 238

Query: 231 KSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG 290
            + +EKA  I  IL+ KKFVLLLDD+W  VDL+++G+P  +R + S K+VFTTR   VC 
Sbjct: 239 VTEKEKASYICNILNVKKFVLLLDDLWSEVDLEKIGVPPLTRENGS-KIVFTTRSKDVCR 297

Query: 291 QMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
            ME     KV+CL  D+AW+LF++KVG   L SH DIP LA  +A+
Sbjct: 298 DMEVDGEMKVDCLPPDEAWELFQKKVGPIPLQSHEDIPTLARKVAE 343

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L3R3|RFL1_ARATH Disease resistance protein RFL1 OS=Arabidopsis thaliana GN=RFL1 PE=3 SV=2

 Score =  258 bits (660), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 144/347 (41%), Positives = 205/347 (59%), Gaps = 12/347 (3%)

Query: 1   MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
           MG   S S +CD  +++          Y+ NL +N+ +L++ +  L   R+DV+ RI   
Sbjct: 1   MGGCVSVSLSCDREVNQFSQWLCVSGSYIQNLSENLASLQKAMGVLNAKRDDVQGRINRE 60

Query: 61  E-QQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESR-------CSKS---TYKLGKKV 109
           E     + L QV  W++R+Q + ++   L      E +       CSK+   +Y  GK+V
Sbjct: 61  EFTGHRRRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRV 120

Query: 110 FRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVG 169
              LREV  L  +G F  V +  P   V+E P+  T+VG     D+VW CLME+   IVG
Sbjct: 121 IVLLREVEGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDKVWIVG 180

Query: 170 LYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWK 229
           LYGMGGVGKTTLLTQINN+F      FD VIWVVVS++  + KIQ+SI +K+GL  ++W 
Sbjct: 181 LYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWD 240

Query: 230 NKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVC 289
            K+  ++A +I  +L +KKFVLLLDDIWE V+L  +G+P PS  +   KV FTT    VC
Sbjct: 241 EKNKNQRALDIHNVLRRKKFVLLLDDIWEKVELKVIGVPYPSGEN-GCKVAFTTHSKEVC 299

Query: 290 GQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
           G+M      ++ CL   +AW L ++KVG +TL SHPDIP+LA  +++
Sbjct: 300 GRMGVDNPMEISCLDTGNAWDLLKKKVGENTLGSHPDIPQLARKVSE 346

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64973|RPS5_ARATH Disease resistance protein RPS5 OS=Arabidopsis thaliana GN=RPS5 PE=1 SV=2

 Score =  258 bits (660), Expect = 4e-68,   Method: Compositional matrix adjust.
 Identities = 145/347 (41%), Positives = 205/347 (59%), Gaps = 12/347 (3%)

Query: 1   MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
           MG   S S  CD  +S+       +  Y+ NL  N+ +L++ +R L   + DV  R+   
Sbjct: 1   MGGCFSVSLPCDQVVSQFSQLLCVRGSYIHNLSKNLASLQKAMRMLKARQYDVIRRLETE 60

Query: 61  E-QQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESR-------CSKS---TYKLGKKV 109
           E   + + L QV  W++ V  + ++   L      E +       CSK    +Y+ GK+V
Sbjct: 61  EFTGRQQRLSQVQVWLTSVLIIQNQFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKRV 120

Query: 110 FRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVG 169
              L+EV SL  +G F  V++  P   VDE P  PT+VG ++  ++ W  LME+ +GI+G
Sbjct: 121 IMMLKEVESLSSQGFFDVVSEATPFADVDEIPFQPTIVGQEIMLEKAWNRLMEDGSGILG 180

Query: 170 LYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWK 229
           LYGMGGVGKTTLLT+INN+F    + FD VIWVVVSR   + KIQ  IA+K+GL    W 
Sbjct: 181 LYGMGGVGKTTLLTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWS 240

Query: 230 NKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVC 289
            K+  + A +I  +L ++KFVLLLDDIWE V+L  VG+P PS+ +   KV FTTR   VC
Sbjct: 241 EKNDNQIAVDIHNVLRRRKFVLLLDDIWEKVNLKAVGVPYPSKDN-GCKVAFTTRSRDVC 299

Query: 290 GQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
           G+M      +V CL+ +++W LF+ KVG +TL SHPDIP LA  +A+
Sbjct: 300 GRMGVDDPMEVSCLQPEESWDLFQMKVGKNTLGSHPDIPGLARKVAR 346

Disease resistance (R) protein that specifically recognizes the avrPphB type III effector avirulence protein from Pseudomonas syringae. Also confers resistance against Hyaloperonospora parasitica (downy mildew). Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Requires PBS1 to trigger the defense reaction against avrPphB. Probably triggers the defense mechanism when PBS1 is cleaved by avrPphB, suggesting that it detects indirectly the protease activity of avrPphB, and possibly binds to the cleaved RPS5.

Arabidopsis thaliana (taxid: 3702)

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	337
24461861	890	NBS-LRR type disease resistance protein	0.997	0.377	0.547	1e-103
24461866	890	NBS-LRR type disease resistance protein	0.994	0.376	0.522	4e-94
24461864	899	NBS-LRR type disease resistance protein	0.994	0.372	0.527	4e-93
224055915	880	cc-nbs-lrr resistance protein [Populus t	0.994	0.380	0.522	3e-92
359482676	896	PREDICTED: probable disease resistance p	0.994	0.373	0.494	1e-90
255553135	894	Disease resistance protein RFL1, putativ	0.982	0.370	0.495	9e-88
147787894	864	hypothetical protein VITISV_040594 [Viti	0.991	0.386	0.501	2e-86
225443158	903	PREDICTED: probable disease resistance p	0.994	0.370	0.489	1e-85
225470150	897	PREDICTED: probable disease resistance p	0.991	0.372	0.492	2e-85
359483035	897	PREDICTED: probable disease resistance p	0.991	0.372	0.489	2e-85

>gi|24461861|gb|AAN62348.1|AF506028_15 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  379 bits (974), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 191/349 (54%), Positives = 251/349 (71%), Gaps = 13/349 (3%)

Query: 1   MGNVCSPSFTCDDTI-SRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIV 59
           MGN+C  S +CD    +RCLDC + KA Y+ NLQDN+ AL  E+R+L   +ND+  R+  
Sbjct: 1   MGNICQISISCDGAFFNRCLDCFLGKAAYISNLQDNLVALDTELRKLIAAKNDLMRRVND 60

Query: 60  AEQQQMKPLEQVHGWISRVQEVGSK-----------VEKLKEEEYPESRCSKSTYKLGKK 108
           AE+QQM+ L+QV  W+SRV+ V ++           +EKL    Y    C KS+YK GK+
Sbjct: 61  AERQQMRRLDQVQVWVSRVETVETEADAFIGDGTQEIEKLCLGGYCSKNC-KSSYKFGKQ 119

Query: 109 VFRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIV 168
           V R LR++++L  EG F+ VA  VPE  VDERP  PTVVGLQ   + VWRCL+EE  GIV
Sbjct: 120 VARKLRDIKTLMGEGVFEVVADKVPEPAVDERPTEPTVVGLQSQLEEVWRCLVEEPVGIV 179

Query: 169 GLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW 228
           GLYGMGGVGKTTLLT INN+F  +P +FD VI VVVS+DL+LE IQE I +KIGL N++W
Sbjct: 180 GLYGMGGVGKTTLLTHINNKFLGSPTNFDLVILVVVSKDLRLESIQEVIGEKIGLLNDAW 239

Query: 229 KNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGV 288
           K++ +++KA +IF+IL  K FV+LLDDIW+ VDL +VG+P+P+  + ++KVVFTTR   V
Sbjct: 240 KSRRIEQKALDIFRILRGKNFVVLLDDIWQRVDLAKVGIPLPNSQTSASKVVFTTRSEEV 299

Query: 289 CGQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD 337
           CG MEAH+ FKVECL  +DAW+LF QKVG +TL+ H DI ELA+T+ K+
Sbjct: 300 CGLMEAHKKFKVECLSGNDAWELFRQKVGEETLNCHHDILELAQTVTKE 348

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461866|gb|AAN62353.1|AF506028_20 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  350 bits (899), Expect = 4e-94,   Method: Compositional matrix adjust.
 Identities = 182/348 (52%), Positives = 245/348 (70%), Gaps = 13/348 (3%)

Query: 1   MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
           MGNV        +   RCLD  + +A Y+  L+DN+  L+ ++ +L E ++DV  R+ +A
Sbjct: 1   MGNVFGVQIPWSNIFPRCLDWILNEAKYISQLEDNLDDLQTKLEQLIEAKDDVMNRVEIA 60

Query: 61  EQQQMKPLEQVHGWISRVQEV----------GSK-VEKLKEEEYPESRCSKSTYKLGKKV 109
           E+QQM  L QV GW+SRV+ V          GS+ +E+L    Y    C KS+Y  GKKV
Sbjct: 61  ERQQMSRLNQVQGWVSRVEAVKAEADQLIRVGSQEIERLCLWGYCSKNC-KSSYDFGKKV 119

Query: 110 FRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVG 169
            + L+ V +L  EG F+ VA+ VP     ERP  PTV+GLQ   ++VWRCL+EE AGIVG
Sbjct: 120 TKKLQLVETLMGEGIFEVVAEKVPGAAATERPTEPTVIGLQSQLEQVWRCLVEEPAGIVG 179

Query: 170 LYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWK 229
           LYGMGGVGKTTLLT INN+F ++  +F++VIWVVVS+DL+LE IQE+I +KIGL N++WK
Sbjct: 180 LYGMGGVGKTTLLTHINNKFLESTTNFNYVIWVVVSKDLRLENIQETIGEKIGLLNDTWK 239

Query: 230 NKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVC 289
           N+ +++KA +IFKIL +KKFVLLLDD+W+ VDL +VG+P+P   S ++KVVFT+R   VC
Sbjct: 240 NRRIEQKALDIFKILKEKKFVLLLDDLWQRVDLVEVGVPLPGPQSSTSKVVFTSRSEEVC 299

Query: 290 GQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD 337
           G MEAH+ FKV CL   DAW+LF+QKVG +TL S PDI +LA+T AK+
Sbjct: 300 GLMEAHKKFKVACLSDIDAWELFQQKVGEETLKS-PDIRQLAQTAAKE 346

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|24461864|gb|AAN62351.1|AF506028_18 NBS-LRR type disease resistance protein [Citrus trifoliata]

 Score =  347 bits (891), Expect = 4e-93,   Method: Compositional matrix adjust.
 Identities = 185/351 (52%), Positives = 241/351 (68%), Gaps = 16/351 (4%)

Query: 1   MGNVCSPSFTCDDT-ISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIV 59
           MGN+   S +CD T  +RCLDC + KA YV NLQ N+ ALK E+ +L   ++DV  R++ 
Sbjct: 1   MGNILQISISCDGTCFNRCLDCFLGKAAYVRNLQKNVEALKNELPKLIAKKDDVMARVVN 60

Query: 60  AEQQQMKP-LEQVHGWISRVQEV----------GSK-VEKLKEEEYPESRCSKSTYKLGK 107
           AE+QQM   L +V  W+SRV  V          GS+ +EKL    Y    C KS+ K GK
Sbjct: 61  AERQQMMTRLNEVQLWLSRVDAVTAGADELIRIGSQEIEKLCLGGYCSKNC-KSSKKFGK 119

Query: 108 KVFRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGI 167
           +V + L +V+ L  EG F  VAQ  PE+  DERP+ P V G+Q   ++VWRCL+EE  GI
Sbjct: 120 QVDKKLSDVKILLAEGSFAVVAQRAPESVADERPIEPAV-GIQSQLEQVWRCLVEEPVGI 178

Query: 168 VGLYGMGGVGKTTLLTQINNRFFDTPN-HFDFVIWVVVSRDLQLEKIQESIAKKIGLFNE 226
           VGLYGMGGVGKTTLLT +NN+F    + HFDF+IWVVVS+DLQ+EKIQE I KK+GLFN+
Sbjct: 179 VGLYGMGGVGKTTLLTHLNNKFLGQRDFHFDFLIWVVVSKDLQIEKIQEIIGKKVGLFND 238

Query: 227 SWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREF 286
           SW  K++ E+A +I+ +L +KKFVLLLDD+W+ VD   VG+PIP R   ++KVVFTTR  
Sbjct: 239 SWMKKNLAERAVDIYNVLKEKKFVLLLDDVWQRVDFATVGVPIPPRDKSASKVVFTTRST 298

Query: 287 GVCGQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD 337
            VCG+M AH+  +VECL  +DAW+LF Q VG +TL+  P I ELAE +AK+
Sbjct: 299 EVCGRMGAHKKIEVECLSANDAWELFRQNVGEETLNGQPKILELAERVAKE 349

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055915|ref|XP_002298700.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222845958|gb|EEE83505.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  344 bits (883), Expect = 3e-92,   Method: Compositional matrix adjust.
 Identities = 182/348 (52%), Positives = 235/348 (67%), Gaps = 13/348 (3%)

Query: 1   MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
           MGN CS S +CD  +S CLD T RKA Y+  L++N+  LK  V  LT++ NDV  R+ V 
Sbjct: 1   MGNFCSISISCDKLLSGCLDFTFRKAVYISKLKENVDGLKIAVEELTDLHNDVTRRVKVD 60

Query: 61  EQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPE----------SRCSKSTYKLGKKVF 110
           E+QQ+K L+QV  WISR +    K  +L  E+  E          S+  KS+Y+  K+V 
Sbjct: 61  EEQQLKQLDQVQRWISRAKAAIDKANELLREDSQEIERLCLRGYCSKNYKSSYRFAKEVD 120

Query: 111 RTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEE-HAGIVG 169
           + LR+V  L+  GDFK VA+ VP      RP  PTV GL+ TF++VW CL EE   GIVG
Sbjct: 121 KRLRDVADLKANGDFKVVAEKVPAASGVPRPSEPTV-GLESTFNQVWTCLREEKQVGIVG 179

Query: 170 LYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWK 229
           LYGMGGVGKTTLLTQINN    TP+ FD VIWVVVS+DL+L  +QESI + IG  ++ WK
Sbjct: 180 LYGMGGVGKTTLLTQINNESLKTPDDFDIVIWVVVSKDLKLNTVQESIGRNIGCSDDLWK 239

Query: 230 NKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVC 289
           NKS+ EKA +IF  L  K+FV+LLDDIWE VDL ++G+P+P   + S KVVFTTR   +C
Sbjct: 240 NKSLDEKAVDIFNALRHKRFVMLLDDIWERVDLKKLGVPLPDMNNGS-KVVFTTRSEEIC 298

Query: 290 GQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD 337
           G M+AH++ KV+CL +DDAW LF++KVG  TL  H DIP+LA  +AK+
Sbjct: 299 GLMDAHKTMKVDCLAWDDAWDLFQKKVGDQTLCVHTDIPKLARNVAKE 346

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359482676|ref|XP_002281742.2| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  339 bits (869), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 172/348 (49%), Positives = 245/348 (70%), Gaps = 13/348 (3%)

Query: 1   MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
           MGNVCS S + +D   RC DCT  +A Y+C LQ+N   L+ E+++L E+RNDVK ++ VA
Sbjct: 1   MGNVCSVSISTEDIAGRCCDCTAARANYICKLQENRVTLRTELQKLRELRNDVKRKVDVA 60

Query: 61  EQQQMKPLEQVHGWISRVQE--------VGSKVEKLKEEEYPESRCSK---STYKLGKKV 109
           E+QQMK L+QV GW+SRV++        +G   E ++E+ +  S   K   S+Y LGKKV
Sbjct: 61  ERQQMKRLDQVQGWLSRVEDMETEVTQLIGDGAENIEEKRFCGSCYPKHCISSYTLGKKV 120

Query: 110 FRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVG 169
            R L++V +L  +G F+ VA  VP   V+E P   T VGL+ TFDRVWRCL EEH G++G
Sbjct: 121 VRKLQQVAALMSDGRFEVVADIVPPAAVEEIP-SGTTVGLESTFDRVWRCLGEEHVGMIG 179

Query: 170 LYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWK 229
           LYG+GGVGKTTLLTQINN F  T ++FD VIWVVVS+   L+++Q  I +K+G  ++ WK
Sbjct: 180 LYGLGGVGKTTLLTQINNHFLKTSHNFDVVIWVVVSKTPNLDEVQNEIWEKVGFCDDKWK 239

Query: 230 NKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVC 289
           +KS   KA++I+K L++K+FV+LLDD+WE ++L +VG+P P + + S K++FTTR   +C
Sbjct: 240 SKSRHLKAKDIWKALNEKRFVMLLDDLWEQMNLLEVGIPPPHQQNKS-KLIFTTRSLDLC 298

Query: 290 GQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD 337
           GQM A +  +V+ L + D+W LF++ VG DTL+S P+IPE AE +A++
Sbjct: 299 GQMGAQKKIEVKSLAWKDSWDLFQKYVGEDTLNSDPEIPEQAEIVARE 346

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255553135|ref|XP_002517610.1| Disease resistance protein RFL1, putative [Ricinus communis] gi|223543242|gb|EEF44774.1| Disease resistance protein RFL1, putative [Ricinus communis]

 Score =  329 bits (844), Expect = 9e-88,   Method: Compositional matrix adjust.
 Identities = 166/335 (49%), Positives = 237/335 (70%), Gaps = 4/335 (1%)

Query: 4   VCSPSFTCDDTISR-CLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVAEQ 62
           VC     C D++ R CL CT  +  Y+C L+DN+ AL+     L E+++DV  ++ + E 
Sbjct: 2   VCPFQVQCGDSLIRQCLKCTAGQGAYICKLEDNLVALQTATEELRELKDDVIQKLSIEEG 61

Query: 63  QQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESRCSKSTYKLGKKVFRTLREVRSLRQE 122
           Q+MK L+QV GWISR +   ++V++L +E  P+    KS Y  G+ V + L +V +++++
Sbjct: 62  QRMKRLKQVQGWISRAEAKITEVDELIKEGLPKILNCKSRYIFGRSVAKKLEDVIAMKRK 121

Query: 123 GDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLL 182
           GDFK VA+      V ERP  PTV GL+   +RVW+CL+EE  G+VG+YGMGGVGKTT+L
Sbjct: 122 GDFKVVAERAAGEAVVERPSEPTV-GLESILNRVWKCLVEEEVGVVGIYGMGGVGKTTIL 180

Query: 183 TQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLF-NESWKNKSMQEKAQEIF 241
           TQINN F  +PN F  VIWVVVS+DL+L+K+QE IAK+IGL  ++ WKNK+  +KA++IF
Sbjct: 181 TQINNMFVTSPNDFVAVIWVVVSKDLRLDKVQEEIAKRIGLSDDQQWKNKNFSDKAEDIF 240

Query: 242 KILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKVE 301
           ++L K+KFVLLLDDIW+ ++L +VG+P+P R S S K+VFT R   VC  MEA +  KVE
Sbjct: 241 RVLHKRKFVLLLDDIWKRLELKEVGVPLPKRQSRS-KIVFTARSEAVCSSMEAQKKIKVE 299

Query: 302 CLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
            L + +AW+LF++KVG DTL +HP+IP +AE +A+
Sbjct: 300 PLEWLEAWELFQEKVGGDTLRAHPEIPLIAEAVAR 334

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147787894|emb|CAN71751.1| hypothetical protein VITISV_040594 [Vitis vinifera]

 Score =  325 bits (832), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 173/345 (50%), Positives = 230/345 (66%), Gaps = 11/345 (3%)

Query: 1   MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
           MGN+CS S + +D ++    CT R A Y+C L++N  AL+  +R+L E+RNDVK ++ +A
Sbjct: 1   MGNLCSISVSIEDIVASFWGCTXRPANYICKLEENQLALRIALRKLIELRNDVKRKVDLA 60

Query: 61  EQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPES--------RCSKSTYKLGKKVFRT 112
           E+QQMKPL+QV GW+SRV+ + +   +++     E+        +   S YKLGKKV   
Sbjct: 61  ERQQMKPLDQVQGWLSRVEALETAXSEMRGSAAMEANRLGSYRIKGFMSRYKLGKKVATK 120

Query: 113 LREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVGLYG 172
           L EV +LR+EG F  VA   P  PV+ RP  PTV GL+  F+ VW CL  E   I+GLYG
Sbjct: 121 LEEVATLRREGRFDVVADRSPPTPVNLRPSGPTV-GLESKFEEVWGCL-GEGVWIIGLYG 178

Query: 173 MGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKS 232
           +GGVGKTTL+TQINN  + T + FD VIW VVS D    K+Q+ I KKIG  ++ WKNKS
Sbjct: 179 LGGVGKTTLMTQINNALYKTTHDFDVVIWAVVSSDPDPRKVQDEIWKKIGFCDDIWKNKS 238

Query: 233 MQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQM 292
             +KA EIF+IL+KKKFVL LDDIW+  DL +VG+P P + + S K+VFTTR   VC  M
Sbjct: 239 QDDKAIEIFQILNKKKFVLFLDDIWKWFDLLRVGVPFPDQENKS-KIVFTTRSEEVCCSM 297

Query: 293 EAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD 337
            A +  KVECL +  AW LF  KVG DT++ HPDIP+LA+T+A +
Sbjct: 298 GAQKIIKVECLAWGRAWDLFRSKVGEDTINFHPDIPQLAKTVANE 342

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225443158|ref|XP_002263674.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  323 bits (827), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 170/347 (48%), Positives = 231/347 (66%), Gaps = 12/347 (3%)

Query: 1   MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
           MGN+ S S +  D++  C   T  +A Y+C  ++NI+ALKE +  L + RND+K ++ + 
Sbjct: 1   MGNLFSVSISMQDSLPGCKGGTALRAKYICEFEENIKALKEALEDLKDFRNDMKRKVEMG 60

Query: 61  EQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESR-------CSK---STYKLGKKVF 110
           E Q M+ L+QV  W SR + +  +V++L  +   E++       CSK   S+YKLG+K+ 
Sbjct: 61  EGQPMEQLDQVQRWFSRAEAMELEVDQLIRDGTRETQKFCLGGCCSKNCLSSYKLGRKLV 120

Query: 111 RTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIVGL 170
           +   +V +LR    F  +A  +P   VDERP  PTV G + T D VW CL EE   I+GL
Sbjct: 121 KKADDVATLRSTRLFDGLADRLPPPAVDERPSEPTV-GFESTIDEVWSCLREEQVQIIGL 179

Query: 171 YGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKN 230
           YGMGGVGKTTL+TQ+NN F  T + FD VIWVVVSRD   EK+Q+ I KK+G  ++ WK+
Sbjct: 180 YGMGGVGKTTLMTQVNNEFLKTIHQFDIVIWVVVSRDPNPEKVQDEIWKKVGFCDDKWKS 239

Query: 231 KSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG 290
           KS  EKA  IF+IL KKKFVL LDD+WE  DL +VG+P+P++ + S K+VFTTR   VCG
Sbjct: 240 KSQDEKAISIFRILGKKKFVLFLDDVWERFDLLKVGIPLPNQQNNS-KLVFTTRSEEVCG 298

Query: 291 QMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD 337
           +M AHR  KVECL +  AW LF+  VG DTL+SHP+IP+LAET+ K+
Sbjct: 299 RMGAHRRIKVECLAWKQAWDLFQNMVGEDTLNSHPEIPQLAETIVKE 345

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225470150|ref|XP_002267120.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  322 bits (825), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 172/349 (49%), Positives = 241/349 (69%), Gaps = 15/349 (4%)

Query: 1   MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
           MGNV S S + +D I+ C DCT  +A Y+C L +N   L+ E+++L E++NDV  ++ VA
Sbjct: 1   MGNVFSVSISTND-IAGCCDCTAARANYICKLAENRVTLRTELQKLRELKNDVNRKVDVA 59

Query: 61  EQQQMKPLEQVHGWISRVQEVGSKVEKL-------KEEEYPESRCSK----STYKLGKKV 109
           E+QQMK L+QV GW+SRV+ + ++V +L        EE+     C      S+Y LGKKV
Sbjct: 60  ERQQMKRLDQVQGWLSRVEAMETEVGQLIGDGAETVEEKRLRGCCHPKHCISSYTLGKKV 119

Query: 110 FRTLREVRSLRQEG-DFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIV 168
            R L+++ +L  EG +F+ VA  VP  PV+E P   TV GL+ TFD+VWR L EEH G++
Sbjct: 120 ARKLQDMATLMSEGRNFEVVADIVPPAPVEEIPGRSTV-GLESTFDKVWRSLEEEHVGMI 178

Query: 169 GLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW 228
           G YG+GGVGKTTLLTQINN F  T ++FD VIWVVVSR   L ++Q  I +K+G  ++ W
Sbjct: 179 GFYGLGGVGKTTLLTQINNHFLKTSHNFDVVIWVVVSRTPNLGRVQNEIWEKVGFCDDKW 238

Query: 229 KNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGV 288
           K+KS  EKA+ I++ LSKK+FV+LLDD+WE +DL +VG+P P + + S K++FTTR   +
Sbjct: 239 KSKSRHEKAKVIWRALSKKRFVMLLDDMWEHMDLLEVGIPPPDQQNKS-KLIFTTRSQDL 297

Query: 289 CGQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD 337
           CGQM AH   +V+ L + D+W LF++ VG D L+S P+IPELAE +AK+
Sbjct: 298 CGQMGAHTKIQVKSLAWKDSWDLFQKYVGKDALNSDPEIPELAEMVAKE 346

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359483035|ref|XP_003632886.1| PREDICTED: probable disease resistance protein At5g63020-like [Vitis vinifera]

 Score =  321 bits (823), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 171/349 (48%), Positives = 243/349 (69%), Gaps = 15/349 (4%)

Query: 1   MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
           MGNV S S + +D I+ C DCTV +A Y+  L +N   L+ E+++L E++NDV  ++ VA
Sbjct: 1   MGNVFSVSISTND-IAGCCDCTVARANYIFKLAENRVTLRTELQKLRELKNDVNRKVDVA 59

Query: 61  EQQQMKPLEQVHGWISRVQEVGSKVEKLK-------EEEYPESRCSK----STYKLGKKV 109
           E+QQMK L+QV GW+S+V+ + ++V +L        EE+     C      S+Y LGKKV
Sbjct: 60  ERQQMKRLDQVQGWLSKVEAMETEVGQLIGDGAETIEEKRLRGCCHPKHCISSYTLGKKV 119

Query: 110 FRTLREVRSLRQEG-DFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAGIV 168
            R L++  +L  EG +F+ VA  VP  PV+E P  PTV GL+ TFD+VWR L EEH G++
Sbjct: 120 ARKLQDTATLMSEGRNFEVVADIVPPAPVEEIPGRPTV-GLESTFDKVWRSLEEEHVGMI 178

Query: 169 GLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW 228
           GLYG+GGVGKTTLL QINN F  T ++FD VIWVVVS+   LE++Q  I +K+G  ++ W
Sbjct: 179 GLYGLGGVGKTTLLAQINNHFLRTSHNFDVVIWVVVSKTPNLERVQNEIWEKVGFCDDKW 238

Query: 229 KNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGV 288
           K+KS  EKA +I++ LSKK+FV+LLDD+WE +DL +VG+P P + + S +++FTTR   +
Sbjct: 239 KSKSRHEKANDIWRALSKKRFVMLLDDMWEQMDLLEVGIPPPDQQNKS-RLIFTTRSQDL 297

Query: 289 CGQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD 337
           CGQM AH+  +V+ L + D+W LF++ VG D L+S P+IPELAE +AK+
Sbjct: 298 CGQMGAHKKIQVKSLAWKDSWDLFQKYVGKDALNSDPEIPELAEMVAKE 346

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	337
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.985	0.372	0.411	1.5e-65
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.994	0.378	0.398	9.7e-64
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.985	0.369	0.398	2.6e-63
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.991	0.376	0.398	5.4e-63
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.991	0.373	0.395	5.4e-63
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.988	0.344	0.401	7.1e-63
TAIR|locus:2036214	851	AT1G15890 [Arabidopsis thalian	0.988	0.391	0.401	1.9e-60
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.991	0.375	0.390	9.5e-58
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.994	0.378	0.383	3.4e-57
TAIR|locus:2153474	874	AT5G05400 [Arabidopsis thalian	0.985	0.379	0.371	1.1e-56

TAIR|locus:2132741 AT4G10780 [Arabidopsis thaliana (taxid:3702)]

 Score = 667 (239.9 bits), Expect = 1.5e-65, P = 1.5e-65
 Identities = 142/345 (41%), Positives = 203/345 (58%)

Query:     1 MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
             MG+  S   +CD  ++R   C      Y+  L+DNI AL++ +  LT  R+DV  R+ + 
Sbjct:     1 MGSCISLQISCDQVLTRAYSCFFSLGNYIHKLKDNIVALEKAIEDLTATRDDVLRRVQME 60

Query:    61 EQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPE-------SRCS---KSTYKLGKKVF 110
             E + ++ L+QV  W+ RV+ + ++   L      E       S CS    S+Y  G++VF
Sbjct:    61 EGKGLERLQQVQVWLKRVEIIRNQFYDLLSARNIEIQRLCFYSNCSTNLSSSYTYGQRVF 120

Query:   111 RTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAXXXXX 170
               ++EV +L   G F+ VA P P+  ++ RP+ PT++G +  F R W  LM++       
Sbjct:   121 LMIKEVENLNSNGFFEIVAAPAPK--LEMRPIQPTIMGRETIFQRAWNRLMDDGVGTMGL 178

Query:   171 XXXXXXXKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKN 230
                    KTTLLTQI+N   DT N  D VIWVVVS DLQ+ KIQE I +K+G   + W  
Sbjct:   179 YGMGGVGKTTLLTQIHNTLHDTKNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNK 238

Query:   231 KSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG 290
             K   +KA +I   LSKK+FVLLLDDIW+ VDL ++G+P  +R +   KVVFTTR   VC 
Sbjct:   239 KQESQKAVDILNCLSKKRFVLLLDDIWKKVDLTKIGIPSQTRENKC-KVVFTTRSLDVCA 297

Query:   291 QMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLA 335
             +M  H   +V+CL  +DAW+LF++KVG  +L SHPDI ELA+ +A
Sbjct:   298 RMGVHDPMEVQCLSTNDAWELFQEKVGQISLGSHPDILELAKKVA 342

GO:0000166 "nucleotide binding" evidence=IEA

GO:0006952 "defense response" evidence=IEA;ISS

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2034765 AT1G12290 [Arabidopsis thaliana (taxid:3702)]

 Score = 650 (233.9 bits), Expect = 9.7e-64, P = 9.7e-64
 Identities = 138/346 (39%), Positives = 199/346 (57%)

Query:     1 MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
             MG   S   +CD  ++    C  RK  Y+ N+++N+ +L+E +  L  +R+D+  ++  A
Sbjct:     1 MGGCVSVQVSCDQLLNHLGRCFCRKLYYIQNIKENLTSLEEAMEDLKALRDDLLRKVQTA 60

Query:    61 EQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPE----------SRCSKSTYKLGKKVF 110
             E+  ++ L Q+  W+ RV+ + S+   L      E          SR  + +Y  G++VF
Sbjct:    61 EEGGLQRLHQIKVWLKRVKTIESQFNDLDSSRTVELQRLCCCGVGSRNLRLSYDYGRRVF 120

Query:   111 RTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAXXXXX 170
               L  V  L+ +G F++VA P      +ERPL PT+VG +   ++ W  LM++       
Sbjct:   121 LMLNIVEDLKSKGIFEEVAHPATRAVGEERPLQPTIVGQETILEKAWDHLMDDGTKIMGL 180

Query:   171 XXXXXXXKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKN 230
                    KTTLLTQINNRF DT +  + VIWVVVS DLQ+ KIQ+ I +KIG     W  
Sbjct:   181 YGMGGVGKTTLLTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQ 240

Query:   231 KSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG 290
             KS  +KA +I   LSKK+FVLLLDDIW+ V+L ++G+P P+  +   K+ FTTR   VC 
Sbjct:   241 KSENQKAVDILNFLSKKRFVLLLDDIWKRVELTEIGIPNPTSEN-GCKIAFTTRCQSVCA 299

Query:   291 QMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
              M  H   +V CL  DDAW LF++KVG  TL SHPDIPE+A  +A+
Sbjct:   300 SMGVHDPMEVRCLGADDAWDLFKKKVGDITLSSHPDIPEIARKVAQ 345

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2008440 AT1G61180 [Arabidopsis thaliana (taxid:3702)]

 Score = 646 (232.5 bits), Expect = 2.6e-63, P = 2.6e-63
 Identities = 138/346 (39%), Positives = 207/346 (59%)

Query:     1 MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
             MG+ C      D T++R  +C + K+ Y+  L+ N+RAL+ E+  L  ++++V+ ++   
Sbjct:     1 MGS-CFSLQVSDQTLNRIFNCLIGKS-YIRTLEKNLRALQREMEDLRAIQHEVQNKVARD 58

Query:    61 EQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESR-------CSK---STYKLGKKVF 110
             E +  + LE V  W+ RV  V  + + L      E +       CSK   S+YK GKKVF
Sbjct:    59 EARHQRRLEAVQVWLDRVNSVDIECKDLLSVTPVELQKLCLCGLCSKYVCSSYKYGKKVF 118

Query:   111 RTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAXXXXX 170
               L EV+ L  EG+F +V+QP P + V+ERP  PT+ G +   ++ W  LME+       
Sbjct:   119 LLLEEVKKLNSEGNFDEVSQPPPRSEVEERPTQPTI-GQEDMLEKAWNRLMEDGVGIMGL 177

Query:   171 XXXXXXXKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKN 230
                    KTTL  +I+N+F +    FD VIW+VVS+ + + K+QE IA+K+ L ++ WKN
Sbjct:   178 HGMGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKN 237

Query:   231 KSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG 290
             K+  +KA +I ++L  K+FVL+LDDIWE VDL+ +G+P PS  +   KV FTTR   VCG
Sbjct:   238 KNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKC-KVAFTTRSREVCG 296

Query:   291 QMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
             +M  H+  +V CL  +DAW+LF+ KVG +TL S P I ELA  +A+
Sbjct:   297 EMGDHKPMQVNCLEPEDAWELFKNKVGDNTLSSDPVIVELAREVAQ 342

GO:0005886 "plasma membrane" evidence=ISM;IDA

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2166320 AT5G63020 [Arabidopsis thaliana (taxid:3702)]

 Score = 643 (231.4 bits), Expect = 5.4e-63, P = 5.4e-63
 Identities = 138/346 (39%), Positives = 199/346 (57%)

Query:     1 MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
             MG   S S +CD        C  R   Y+  L++N+ AL+  + ++ + R D+  +I+  
Sbjct:     1 MGGCVSVSISCDQLTKNVCSCLNRNGDYIHGLEENLTALQRALEQIEQRREDLLRKILSE 60

Query:    61 EQQQMKPLEQVHGWISRVQEVGSKVEKL-KEEEYPESR------CSK---STYKLGKKVF 110
             E++ ++ L  V GW+S+V+ +  +V +L +       R      CSK   S+Y+ GK+V 
Sbjct:    61 ERRGLQRLSVVQGWVSKVEAIVPRVNELVRMRSVQVQRLCLCGFCSKNLVSSYRYGKRVM 120

Query:   111 RTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAXXXXX 170
             + + EV  LR +GDF  VA+ V    V+ERP  P +V +    +  W  LME+       
Sbjct:   121 KMIEEVEVLRYQGDFAVVAERVDAARVEERPTRP-MVAMDPMLESAWNRLMEDEIGILGL 179

Query:   171 XXXXXXXKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKN 230
                    KTTLL+ INNRF      FD VIW+VVS++LQ+++IQ+ I +K+   NE WK 
Sbjct:   180 HGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQ 239

Query:   231 KSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG 290
             K+   KA  I+ +L  K+FVLLLDDIW  VDL +VG+P PSR +   K+VFTTR   +CG
Sbjct:   240 KTEDIKASNIYNVLKHKRFVLLLDDIWSKVDLTEVGVPFPSREN-GCKIVFTTRLKEICG 298

Query:   291 QMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
             +M      +V CL  DDAW LF +KVG  TL SHP+IP +A T+AK
Sbjct:   299 RMGVDSDMEVRCLAPDDAWDLFTKKVGEITLGSHPEIPTVARTVAK 344

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2034770 SUMM2 "AT1G12280" [Arabidopsis thaliana (taxid:3702)]

 Score = 643 (231.4 bits), Expect = 5.4e-63, P = 5.4e-63
 Identities = 137/346 (39%), Positives = 203/346 (58%)

Query:     1 MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
             MG   + SF+CD+ +++         GY+C L  N+ A+K+++  L + R+DVK R+ + 
Sbjct:     1 MGACLTLSFSCDEVVNQISQGLCINVGYICELSKNVVAMKKDMEVLKKKRDDVKRRVDIE 60

Query:    61 E-QQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESR-------CSKS---TYKLGKKV 109
             E  ++ + L QV GW++ V  V +K  +L      E +       CSK+   +Y  GK+V
Sbjct:    61 EFTRRRERLSQVQGWLTNVSTVENKFNELLTTNDAELQRLCLFGFCSKNVKMSYLYGKRV 120

Query:   110 FRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAXXXX 169
                L+E+ SL  +GDF  V    P   ++E P+ PT+VG +   +RVW  L E+      
Sbjct:   121 VLMLKEIESLSSQGDFDTVTLATPIARIEEMPIQPTIVGQETMLERVWTRLTEDGDEIVG 180

Query:   170 XXXXXXXXKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWK 229
                     KTTLLT+INN+F +  + F  VIWVVVS+   + +IQ  I K++ L  E W 
Sbjct:   181 LYGMGGVGKTTLLTRINNKFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWD 240

Query:   230 NKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVC 289
             N +  ++A +I+ +L K+KFVLLLDDIWE V+L+ +G+P PSR +   KVVFTTR   VC
Sbjct:   241 NVNENQRALDIYNVLGKQKFVLLLDDIWEKVNLEVLGVPYPSRQN-GCKVVFTTRSRDVC 299

Query:   290 GQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLA 335
             G+M      +V CL  ++AW+LF+ KVG +TL  HPDIPELA  +A
Sbjct:   300 GRMRVDDPMEVSCLEPNEAWELFQMKVGENTLKGHPDIPELARKVA 345

GO:0006952 "defense response" evidence=IGI;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2008510 AT1G61190 "AT1G61190" [Arabidopsis thaliana (taxid:3702)]

 Score = 646 (232.5 bits), Expect = 7.1e-63, P = 7.1e-63
 Identities = 139/346 (40%), Positives = 205/346 (59%)

Query:     1 MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
             MGN      + D  + R + C   K GY+ NL+ N+RAL+ E+  L   +++V+ ++   
Sbjct:     1 MGNFVCIEISGDQMLDRIIRCLCGK-GYIRNLEKNLRALQREMEDLRATQHEVQNKVARE 59

Query:    61 EQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESR-------CSK---STYKLGKKVF 110
             E +  + LE V  W+ RV  +  + + L      E +       CSK   S+YK GK+VF
Sbjct:    60 ESRHQQRLEAVQVWLDRVNSIDIECKDLLSVSPVELQKLCLCGLCSKYVCSSYKYGKRVF 119

Query:   111 RTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAXXXXX 170
               L EV  L+ EG+F +V+QP P + V+ERP  PT+ G +    + W  LME+       
Sbjct:   120 LLLEEVTKLKSEGNFDEVSQPPPRSEVEERPTQPTI-GQEEMLKKAWNRLMEDGVGIMGL 178

Query:   171 XXXXXXXKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKN 230
                    KTTL  +I+N+F +T   FD VIW+VVS+  +L K+QE IA+K+ L ++ WKN
Sbjct:   179 HGMGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKN 238

Query:   231 KSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG 290
             K+  +KA +I ++L  K+FVL+LDDIWE VDL+ +G+P PS  +   KV FTTR+  VCG
Sbjct:   239 KNESDKATDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKC-KVAFTTRDQKVCG 297

Query:   291 QMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
             QM  H+  +V+CL  +DAW+LF+ KVG +TL S P I  LA  +A+
Sbjct:   298 QMGDHKPMQVKCLEPEDAWELFKNKVGDNTLRSDPVIVGLAREVAQ 343

GO:0005575 "cellular_component" evidence=ND

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2036214 AT1G15890 [Arabidopsis thaliana (taxid:3702)]

 Score = 619 (223.0 bits), Expect = 1.9e-60, P = 1.9e-60
 Identities = 139/346 (40%), Positives = 200/346 (57%)

Query:     1 MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
             MGN  +   +CD T++    C      Y+  ++ N+ AL+  ++ L E R+D+  R+++ 
Sbjct:     1 MGNCVALEISCDQTLNHACGCLFGDRNYILKMEANLEALQNTMQELEERRDDLLRRVVIE 60

Query:    61 EQQQMKPLEQVHGWISRVQEVGSKV-EKLKEEEYPESR------CSK---STYKLGKKVF 110
             E + ++ L QV GW+SRV++V S+V + LK +     R      CSK   S    G  V 
Sbjct:    61 EDKGLQRLAQVQGWLSRVKDVCSQVNDLLKAKSIQTERLCLCGYCSKNFISGRNYGINVL 120

Query:   111 RTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAXXXXX 170
             + L+ V  L  +G F+ VA+ +P   V+++ +  T VGL     R W  LM++       
Sbjct:   121 KKLKHVEGLLAKGVFEVVAEKIPAPKVEKKHIQ-TTVGLDAMVGRAWNSLMKDERRTLGL 179

Query:   171 XXXXXXXKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKN 230
                    KTTLL  INN+F +  N FD VIWVVVS+DLQ E IQE I  ++GL +  WK 
Sbjct:   180 YGMGGVGKTTLLASINNKFLEGMNGFDLVIWVVVSKDLQNEGIQEQILGRLGL-HRGWKQ 238

Query:   231 KSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG 290
              + +EKA  I  IL+ KKFVLLLDD+W  VDL+++G+P  +R + S K+VFTTR   VC 
Sbjct:   239 VTEKEKASYICNILNVKKFVLLLDDLWSEVDLEKIGVPPLTRENGS-KIVFTTRSKDVCR 297

Query:   291 QMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
              ME     KV+CL  D+AW+LF++KVG   L SH DIP LA  +A+
Sbjct:   298 DMEVDGEMKVDCLPPDEAWELFQKKVGPIPLQSHEDIPTLARKVAE 343

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2201996 RPS5 "AT1G12220" [Arabidopsis thaliana (taxid:3702)]

 Score = 597 (215.2 bits), Expect = 9.5e-58, P = 9.5e-58
 Identities = 136/348 (39%), Positives = 197/348 (56%)

Query:     1 MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
             MG   S S  CD  +S+       +  Y+ NL  N+ +L++ +R L   + DV IR +  
Sbjct:     1 MGGCFSVSLPCDQVVSQFSQLLCVRGSYIHNLSKNLASLQKAMRMLKARQYDV-IRRLET 59

Query:    61 EQ--QQMKPLEQVHGWISRVQEVGSKV-EKLKEEEYPESR------CSKS---TYKLGKK 108
             E+   + + L QV  W++ V  + ++  + L+  E    R      CSK    +Y+ GK+
Sbjct:    60 EEFTGRQQRLSQVQVWLTSVLIIQNQFNDLLRSNEVELQRLCLCGFCSKDLKLSYRYGKR 119

Query:   109 VFRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAXXX 168
             V   L+EV SL  +G F  V++  P   VDE P  PT+VG ++  ++ W  LME+ +   
Sbjct:   120 VIMMLKEVESLSSQGFFDVVSEATPFADVDEIPFQPTIVGQEIMLEKAWNRLMEDGSGIL 179

Query:   169 XXXXXXXXXKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW 228
                      KTTLLT+INN+F    + FD VIWVVVSR   + KIQ  IA+K+GL    W
Sbjct:   180 GLYGMGGVGKTTLLTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEW 239

Query:   229 KNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGV 288
               K+  + A +I  +L ++KFVLLLDDIWE V+L  VG+P PS+ +   KV FTTR   V
Sbjct:   240 SEKNDNQIAVDIHNVLRRRKFVLLLDDIWEKVNLKAVGVPYPSKDN-GCKVAFTTRSRDV 298

Query:   289 CGQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
             CG+M      +V CL+ +++W LF+ KVG +TL SHPDIP LA  +A+
Sbjct:   299 CGRMGVDDPMEVSCLQPEESWDLFQMKVGKNTLGSHPDIPGLARKVAR 346

GO:0009626 "plant-type hypersensitive response" evidence=IMP

GO:0006952 "defense response" evidence=IMP;TAS

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

TAIR|locus:2201986 RFL1 "AT1G12210" [Arabidopsis thaliana (taxid:3702)]

 Score = 592 (213.5 bits), Expect = 3.4e-57, P = 3.4e-57
 Identities = 133/347 (38%), Positives = 194/347 (55%)

Query:     1 MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
             MG   S S +CD  +++          Y+ NL +N+ +L++ +  L   R+DV+ RI   
Sbjct:     1 MGGCVSVSLSCDREVNQFSQWLCVSGSYIQNLSENLASLQKAMGVLNAKRDDVQGRINRE 60

Query:    61 E-QQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPESR-------CSKS---TYKLGKKV 109
             E     + L QV  W++R+Q + ++   L      E +       CSK+   +Y  GK+V
Sbjct:    61 EFTGHRRRLAQVQVWLTRIQTIENQFNDLLSTCNAEIQRLCLCGFCSKNVKMSYLYGKRV 120

Query:   110 FRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAXXXX 169
                LREV  L  +G F  V +  P   V+E P+  T+VG     D+VW CLME+      
Sbjct:   121 IVLLREVEGLSSQGVFDIVTEAAPIAEVEELPIQSTIVGQDSMLDKVWNCLMEDKVWIVG 180

Query:   170 XXXXXXXXKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWK 229
                     KTTLLTQINN+F      FD VIWVVVS++  + KIQ+SI +K+GL  ++W 
Sbjct:   181 LYGMGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWD 240

Query:   230 NKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVC 289
              K+  ++A +I  +L +KKFVLLLDDIWE V+L  +G+P PS  +   KV FTT    VC
Sbjct:   241 EKNKNQRALDIHNVLRRKKFVLLLDDIWEKVELKVIGVPYPSGEN-GCKVAFTTHSKEVC 299

Query:   290 GQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
             G+M      ++ CL   +AW L ++KVG +TL SHPDIP+LA  +++
Sbjct:   300 GRMGVDNPMEISCLDTGNAWDLLKKKVGENTLGSHPDIPQLARKVSE 346

GO:0005575 "cellular_component" evidence=ND

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2153474 AT5G05400 [Arabidopsis thaliana (taxid:3702)]

 Score = 587 (211.7 bits), Expect = 1.1e-56, P = 1.1e-56
 Identities = 129/347 (37%), Positives = 194/347 (55%)

Query:     1 MGNVCSPSFTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVA 60
             MG   S + +CD  ++    C  R      NL D++ ALK+ VR+L   R+D+  RI V 
Sbjct:     1 MGACFSVAISCDQAVNNLTSCLSRNQNRFRNLVDHVAALKKTVRQLEARRDDLLKRIKVQ 60

Query:    61 EQQQMKPLEQVHGWISRVQ----EVGSKVEKLKEE-------EYPESRCSKSTYKLGKKV 109
             E + +  L++V  W+S V+    E    + +  EE       +Y   RC K +Y   K V
Sbjct:    61 EDRGLNLLDEVQQWLSEVESRVCEAHDILSQSDEEIDNLCCGQYCSKRC-KYSYDYSKSV 119

Query:   110 FRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLMEEHAXXXX 169
                L++V +L  +G F +VAQ  P   V+ER     +VG +   +  W  +ME       
Sbjct:   120 INKLQDVENLLSKGVFDEVAQKGPIPKVEERLFHQEIVGQEAIVESTWNSMMEVGVGLLG 179

Query:   170 XXXXXXXXKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWK 229
                     KTTLL+QINN+F    N FD  IWVVVS++  +++IQE I K++ L+NE W+
Sbjct:   180 IYGMGGVGKTTLLSQINNKFRTVSNDFDIAIWVVVSKNPTVKRIQEDIGKRLDLYNEGWE 239

Query:   230 NKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVC 289
              K+  E A  I + L  KK++LLLDD+W  VDL  +G+P+P R    +K+ FT+R   VC
Sbjct:   240 QKTENEIASTIKRSLENKKYMLLLDDMWTKVDLANIGIPVPKRNG--SKIAFTSRSNEVC 297

Query:   290 GQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
             G+M   +  +V CL +DDAW LF + +  +TL+SHP IPE+A+++A+
Sbjct:   298 GKMGVDKEIEVTCLMWDDAWDLFTRNM-KETLESHPKIPEVAKSIAR 343

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

GO:0006826 "iron ion transport" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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

Fail to connect to STRING server

---

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	337
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	3e-50
pfam13401	124	pfam13401, AAA_22, AAA domain	9e-07
smart00382	148	smart00382, AAA, ATPases associated with a variety	0.001
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	0.001

>gnl|CDD|216202 pfam00931, NB-ARC, NB-ARC domain

 Score =  168 bits (428), Expect = 3e-50
 Identities = 70/186 (37%), Positives = 112/186 (60%), Gaps = 5/186 (2%)

Query: 154 DRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE 211
           + +   L+E  ++ G+VG+ GMGGVGKTTL  QI N       HFD V WVVVS+     
Sbjct: 6   EALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDD-SVGGHFDSVAWVVVSKTYTEF 64

Query: 212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPS 271
           ++Q+ I +++GL +  W  K+  E A +I + L +K+F+L+LDD+WE  D D++G+P P 
Sbjct: 65  RLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGVPFPD 124

Query: 272 RTSVSNKVVFTTREFGVCGQM-EAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPEL 330
             + S +V+ TTR   V G+M    +  +VE L  +++W+LF  KV    L   P++ E+
Sbjct: 125 GENGS-RVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPELEEV 183

Query: 331 AETLAK 336
           A+ + +
Sbjct: 184 AKEIVE 189

Length = 285

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

 Score = 46.9 bits (112), Expect = 9e-07
 Identities = 24/118 (20%), Positives = 48/118 (40%), Gaps = 18/118 (15%)

Query: 163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG 222
             AGI  L G  G GKTTLL ++  +  +       V++V        + +   I + +G
Sbjct: 2   RGAGIGVLTGESGSGKTTLLRRLARQLPNRR-----VVYVEAPSLGTPKDLLRKILRALG 56

Query: 223 LFNESWKNKSMQEKAQEIFKILSKKKFVLLLDD-----------IWELVDLDQVGLPI 269
           L         + E   +   +  + + +L++D+           + +L DL + G+ +
Sbjct: 57  LPLSGGTTAELLEAILDA--LKRRGRPLLIIDEAQHLSLEALEELRDLYDLSEKGIQV 112

Length = 124

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

 Score = 38.5 bits (89), Expect = 0.001
 Identities = 24/105 (22%), Positives = 41/105 (39%), Gaps = 12/105 (11%)

Query: 166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQE-SIAKKIGLF 224
            ++ + G  G GKTTL   +       P     +        +  E I E  + + + + 
Sbjct: 3   EVILIVGPPGSGKTTLARALARELG--PPGGGVIY-------IDGEDILEEVLDQLLLII 53

Query: 225 NESWKNKSMQEKAQEIFKILSKKKF--VLLLDDIWELVDLDQVGL 267
               K     E    +   L++K    VL+LD+I  L+D +Q  L
Sbjct: 54  VGGKKASGSGELRLRLALALARKLKPDVLILDEITSLLDAEQEAL 98

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|221970 pfam13191, AAA_16, AAA ATPase domain

 Score = 38.3 bits (89), Expect = 0.001
 Identities = 22/130 (16%), Positives = 49/130 (37%), Gaps = 16/130 (12%)

Query: 146 VVGLQLTFDRVWRCLMEEHAG---IVGLYGMGGVGKTTLLTQINNRF-FDTPNHFDFVIW 201
           +VG +   +R+   L    +G    V L G  G GKT+LL ++                 
Sbjct: 2   LVGREEELERLLDALRRARSGGPPSVLLTGPSGTGKTSLLRELLEGLLVAAGKCDQAERN 61

Query: 202 VVVSRDLQLEKIQESIAKKIGLFNESWKNK-----------SMQEKAQEIFKILSK-KKF 249
              +    L ++   + +++       +              +Q+  + + ++L++ +  
Sbjct: 62  PPYAFSQALRELLRQLLRELAAELLLLREALLAALGAELIEGLQDLVELLERLLARARPL 121

Query: 250 VLLLDDIWEL 259
           VL+LDD+   
Sbjct: 122 VLVLDDLQWA 131

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	337
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	99.97
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.92
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.47
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.36
PF05729	166	NACHT: NACHT domain	99.35
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.23
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.23
PRK06893	229	DNA replication initiation factor; Validated	99.08
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.07
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.07
PF13173	128	AAA_14: AAA domain	99.02
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.0
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.94
PRK04841	903	transcriptional regulator MalT; Provisional	98.93
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.93
KOG2028	554	consensus ATPase related to the helicase subunit o	98.92
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.9
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.89
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.86
PRK13342	413	recombination factor protein RarA; Reviewed	98.83
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.83
PRK08727	233	hypothetical protein; Validated	98.8
PRK12402	337	replication factor C small subunit 2; Reviewed	98.79
PTZ00202	550	tuzin; Provisional	98.79
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.77
PRK08084	235	DNA replication initiation factor; Provisional	98.76
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.75
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.74
cd01128	249	rho_factor Transcription termination factor rho is	98.72
PLN03025	319	replication factor C subunit; Provisional	98.68
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.67
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.66
PRK13341	725	recombination factor protein RarA/unknown domain f	98.65
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.65
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.65
PRK04195	482	replication factor C large subunit; Provisional	98.64
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.62
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.58
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.57
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.57
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.56
PRK09376	416	rho transcription termination factor Rho; Provisio	98.55
PRK05642	234	DNA replication initiation factor; Validated	98.55
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.53
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.53
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.52
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.5
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.49
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.49
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.49
PRK09087	226	hypothetical protein; Validated	98.49
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.49
TIGR00767	415	rho transcription termination factor Rho. Members	98.48
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.47
CHL00181	287	cbbX CbbX; Provisional	98.47
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.47
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	98.47
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.47
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	98.46
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.45
COG0488	530	Uup ATPase components of ABC transporters with dup	98.43
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.43
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.42
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	98.42
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	98.41
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.41
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.4
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	98.4
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.4
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.39
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.39
PRK12422	445	chromosomal replication initiation protein; Provis	98.39
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	98.38
PHA02544	316	44 clamp loader, small subunit; Provisional	98.38
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.37
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.36
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	98.36
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.35
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.35
CHL00095	821	clpC Clp protease ATP binding subunit	98.34
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.31
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.31
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.31
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.31
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.3
PRK10865	857	protein disaggregation chaperone; Provisional	98.29
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	98.29
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	98.29
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	98.28
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	98.28
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.26
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	98.26
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	98.25
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	98.24
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	98.24
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.23
smart00382	148	AAA ATPases associated with a variety of cellular	98.23
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	98.23
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.16
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	98.15
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	98.15
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	98.14
PRK14086	617	dnaA chromosomal replication initiation protein; P	98.14
PF00004	132	AAA: ATPase family associated with various cellula	98.13
PRK06620	214	hypothetical protein; Validated	98.11
CHL00176	638	ftsH cell division protein; Validated	98.09
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	98.09
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	98.08
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.07
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.05
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	98.05
PRK10865	857	protein disaggregation chaperone; Provisional	98.04
COG0593	408	DnaA ATPase involved in DNA replication initiation	98.04
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	98.04
PRK08181	269	transposase; Validated	98.03
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	98.02
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	98.01
PRK08116	268	hypothetical protein; Validated	98.0
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.98
COG3899	849	Predicted ATPase [General function prediction only	97.98
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.97
PRK10536	262	hypothetical protein; Provisional	97.95
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.95
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.94
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.94
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.93
PRK08118	167	topology modulation protein; Reviewed	97.93
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	97.89
PRK06835	329	DNA replication protein DnaC; Validated	97.86
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.85
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.84
CHL00195	489	ycf46 Ycf46; Provisional	97.84
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	97.84
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.83
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.82
PF14516	331	AAA_35: AAA-like domain	97.82
PRK12608	380	transcription termination factor Rho; Provisional	97.81
KOG1514	767	consensus Origin recognition complex, subunit 1, a	97.81
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.79
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.79
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.78
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.78
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.77
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	97.76
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.76
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.76
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	97.75
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.74
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	97.74
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.73
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.73
PRK07261	171	topology modulation protein; Provisional	97.71
TIGR02237	209	recomb_radB DNA repair and recombination protein R	97.71
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.7
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	97.69
PRK06526	254	transposase; Provisional	97.68
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.67
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.66
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.66
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	97.65
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.65
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.65
PRK09183	259	transposase/IS protein; Provisional	97.65
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	97.65
KOG0927	614	consensus Predicted transporter (ABC superfamily)	97.64
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.62
PRK04296	190	thymidine kinase; Provisional	97.61
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.61
CHL00095	821	clpC Clp protease ATP binding subunit	97.6
PRK12377	248	putative replication protein; Provisional	97.6
PRK09354	349	recA recombinase A; Provisional	97.6
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	97.6
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	97.59
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.58
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.58
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	97.58
COG3903	414	Predicted ATPase [General function prediction only	97.58
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.56
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.56
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.55
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	97.55
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	97.55
COG1484	254	DnaC DNA replication protein [DNA replication, rec	97.53
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	97.52
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	97.51
PRK06921	266	hypothetical protein; Provisional	97.5
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	97.5
PRK08939	306	primosomal protein DnaI; Reviewed	97.5
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	97.48
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	97.48
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.47
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.47
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.46
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.46
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	97.45
COG0488	530	Uup ATPase components of ABC transporters with dup	97.43
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	97.43
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.43
KOG1969	877	consensus DNA replication checkpoint protein CHL12	97.43
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	97.42
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	97.41
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.41
PRK05541	176	adenylylsulfate kinase; Provisional	97.41
cd03246	173	ABCC_Protease_Secretion This family represents the	97.4
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	97.39
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	97.38
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.38
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	97.38
PRK06067	234	flagellar accessory protein FlaH; Validated	97.36
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.35
PRK07952	244	DNA replication protein DnaC; Validated	97.35
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	97.35
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	97.34
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.34
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	97.33
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	97.32
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.32
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	97.32
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	97.31
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.3
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.3
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.29
PRK06696	223	uridine kinase; Validated	97.29
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	97.29
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	97.28
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.28
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	97.27
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	97.27
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.27
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	97.27
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	97.26
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	97.25
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	97.25
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	97.24
PTZ00035	337	Rad51 protein; Provisional	97.24
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	97.24
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	97.24
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	97.24
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.24
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	97.24
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	97.23
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	97.22
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.22
PRK04301	317	radA DNA repair and recombination protein RadA; Va	97.21
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	97.2
PRK15064	530	ABC transporter ATP-binding protein; Provisional	97.19
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	97.19
PRK08233	182	hypothetical protein; Provisional	97.18
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	97.18
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	97.18
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	97.18
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	97.17
PRK15455	644	PrkA family serine protein kinase; Provisional	97.17
TIGR02236	310	recomb_radA DNA repair and recombination protein R	97.17
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	97.17
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.17
PRK13537	306	nodulation ABC transporter NodI; Provisional	97.17
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	97.15
PRK10867	433	signal recognition particle protein; Provisional	97.15
TIGR00959	428	ffh signal recognition particle protein. This mode	97.14
cd03215	182	ABC_Carb_Monos_II This family represents domain II	97.14
PF00154	322	RecA: recA bacterial DNA recombination protein; In	97.14
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	97.14
PRK04328	249	hypothetical protein; Provisional	97.14
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	97.14
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.13
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.13
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	97.12
PRK11147	635	ABC transporter ATPase component; Reviewed	97.12
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	97.11
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.11
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.1
PRK14974	336	cell division protein FtsY; Provisional	97.1
PRK13536	340	nodulation factor exporter subunit NodI; Provision	97.1
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.1
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	97.1
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	97.09
PRK09519	790	recA DNA recombination protein RecA; Reviewed	97.09
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	97.08
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	97.07
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	97.07
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	97.07
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	97.06
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	97.05
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	97.05
KOG0736	953	consensus Peroxisome assembly factor 2 containing	97.05
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.05
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	97.05
PRK08533	230	flagellar accessory protein FlaH; Reviewed	97.04
PRK06547	172	hypothetical protein; Provisional	97.04
PRK13409	590	putative ATPase RIL; Provisional	97.04
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	97.03
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	97.03
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	97.03
PRK11823	446	DNA repair protein RadA; Provisional	97.02
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	97.01
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	97.0
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	97.0
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.0
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.0
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.99
PRK13545	549	tagH teichoic acids export protein ATP-binding sub	96.99
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.98
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	96.98
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	96.98
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.98
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.97
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.97
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	96.97
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	96.96
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	96.96
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.96
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	96.96
PRK06090	319	DNA polymerase III subunit delta'; Validated	96.95
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.94
PRK05480	209	uridine/cytidine kinase; Provisional	96.94
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.94
PHA00729	226	NTP-binding motif containing protein	96.93
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	96.93
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.93
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.92
PLN03073	718	ABC transporter F family; Provisional	96.92
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.92
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	96.92
PRK14527	191	adenylate kinase; Provisional	96.91
PRK13409	590	putative ATPase RIL; Provisional	96.91
PRK07667	193	uridine kinase; Provisional	96.91
PRK06964	342	DNA polymerase III subunit delta'; Validated	96.9
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	96.9
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	96.9
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	96.89
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.89
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.88
PTZ00088	229	adenylate kinase 1; Provisional	96.88
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.85
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	96.85
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	96.85
PRK06762	166	hypothetical protein; Provisional	96.85
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	96.84
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.84
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	96.84
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	96.83
PRK09536	402	btuD corrinoid ABC transporter ATPase; Reviewed	96.83
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.82
PRK05022	509	anaerobic nitric oxide reductase transcription reg	96.82
PRK13531	498	regulatory ATPase RavA; Provisional	96.82
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	96.82
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.82
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	96.81
PTZ00301	210	uridine kinase; Provisional	96.81
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.81
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	96.8
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	96.8
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	96.79
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	96.79
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.79
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	96.79
PRK05973	237	replicative DNA helicase; Provisional	96.79
PRK15064	530	ABC transporter ATP-binding protein; Provisional	96.79
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	96.78
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	96.78
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.78
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.77
PRK11607	377	potG putrescine transporter ATP-binding subunit; P	96.77
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	96.77
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	96.76
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	96.75
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	96.75
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.74
PRK03839	180	putative kinase; Provisional	96.74
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.73
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	96.73
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	96.72
PRK10938	490	putative molybdenum transport ATP-binding protein	96.72
PRK05922	434	type III secretion system ATPase; Validated	96.72
PRK11147	635	ABC transporter ATPase component; Reviewed	96.72
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	96.72
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.71
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	96.71
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.7
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.7
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	96.7
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	96.7
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	96.7
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.69
PRK13765	637	ATP-dependent protease Lon; Provisional	96.69
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.68
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	96.68
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	96.68
PRK11288	501	araG L-arabinose transporter ATP-binding protein;	96.68
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	96.67
KOG0927	614	consensus Predicted transporter (ABC superfamily)	96.67
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	96.66
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	96.66
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	96.66
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.66
PRK00131	175	aroK shikimate kinase; Reviewed	96.65
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	96.65
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	96.64
PRK09099	441	type III secretion system ATPase; Provisional	96.64
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	96.63
PRK00625	173	shikimate kinase; Provisional	96.63
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	96.63
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	96.63
PRK04040	188	adenylate kinase; Provisional	96.63
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	96.62
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	96.62
COG3910	233	Predicted ATPase [General function prediction only	96.62
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	96.61
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.6
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	96.6
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	96.6
cd03276	198	ABC_SMC6_euk Eukaryotic SMC6 proteins; SMC protein	96.59
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	96.59
PLN03073	718	ABC transporter F family; Provisional	96.59
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.59
PRK10416	318	signal recognition particle-docking protein FtsY;	96.59
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.59
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	96.58
PRK15453	290	phosphoribulokinase; Provisional	96.58
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	96.58
PRK06851	367	hypothetical protein; Provisional	96.57
PRK04132	846	replication factor C small subunit; Provisional	96.57
PRK07993	334	DNA polymerase III subunit delta'; Validated	96.56
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.55
TIGR03719	552	ABC_ABC_ChvD ATP-binding cassette protein, ChvD fa	96.53
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	96.52
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	96.52
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	96.52
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	96.51
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.51
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.51
PRK12678	672	transcription termination factor Rho; Provisional	96.51
PRK05439	311	pantothenate kinase; Provisional	96.5
TIGR03719	552	ABC_ABC_ChvD ATP-binding cassette protein, ChvD fa	96.5
PRK08149	428	ATP synthase SpaL; Validated	96.48
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	96.48
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.47
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.47
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	96.46
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	96.46
KOG0062	582	consensus ATPase component of ABC transporters wit	96.46
PRK00889	175	adenylylsulfate kinase; Provisional	96.46
PRK14737	186	gmk guanylate kinase; Provisional	96.45
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	96.45
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	96.45
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	96.45
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	96.44
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	96.44
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	96.43
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	96.42
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	96.42
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	96.42
PRK06217	183	hypothetical protein; Validated	96.4
PRK10789	569	putative multidrug transporter membrane\ATP-bindin	96.39
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	96.38
PRK13949	169	shikimate kinase; Provisional	96.38
PRK00279	215	adk adenylate kinase; Reviewed	96.38
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	96.38
PRK00409	782	recombination and DNA strand exchange inhibitor pr	96.38
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	96.37
PF07726	131	AAA_3: ATPase family associated with various cellu	96.37
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	96.37
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.37
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	96.37
PRK13947	171	shikimate kinase; Provisional	96.37
PLN02165	334	adenylate isopentenyltransferase	96.37
PF05970	364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	96.36
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	96.36
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	96.36
PRK00300	205	gmk guanylate kinase; Provisional	96.35
PHA02774	613	E1; Provisional	96.35
PRK10875	615	recD exonuclease V subunit alpha; Provisional	96.34
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	96.34
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	96.33
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	96.33
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	96.33
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	96.33
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.33
PRK03846	198	adenylylsulfate kinase; Provisional	96.32
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.32
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.32
TIGR01192	585	chvA glucan exporter ATP-binding protein. This mod	96.31
TIGR02546	422	III_secr_ATP type III secretion apparatus H+-trans	96.31
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.3
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.3
PRK14528	186	adenylate kinase; Provisional	96.3
PRK14530	215	adenylate kinase; Provisional	96.3
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	96.27
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	96.26
PF13245	76	AAA_19: Part of AAA domain	96.25
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	96.24
PRK09302	509	circadian clock protein KaiC; Reviewed	96.24
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.24
TIGR00665	434	DnaB replicative DNA helicase. This model describe	96.23
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	96.23
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	96.23
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.22
TIGR01842	544	type_I_sec_PrtD type I secretion system ABC transp	96.21

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=1.9e-43  Score=350.31  Aligned_cols=318  Identities=41%  Similarity=0.705  Sum_probs=269.0

Q ss_pred             hhhHHHHHHHHhhhhcccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHHHHHHh
Q 045709           11 CDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVAEQQQMKPLEQVHGWISRVQEVGSKVEKLKE   90 (337)
Q Consensus        11 ~~~~~~kl~~~l~~~~~~~~~~~~~~~~l~~el~~l~~~l~~~~~~~~~ae~~~~~~~~~~~~Wl~~l~~~a~~~ed~ld   90 (337)
                      ++..++++.+++.+++..+.+.++++..|+++|..|+.++.|       ++.++. ....+..|...+++++|++||+++
T Consensus         5 ~s~~~~~~~~~l~~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d-------~~a~~~-~~~~~~~~~e~~~~~~~~~e~~~~   76 (889)
T KOG4658|consen    5 VSFGVEKLDQLLNRESECLDGKDNYILELKENLKALQSALED-------LDAKRD-DLERRVNWEEDVGDLVYLAEDIIW   76 (889)
T ss_pred             EEEehhhHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHH-------HHhhcc-hHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344567788888889999999999999999999999999999       455443 356788999999999999999999


Q ss_pred             hcCC-----------C------------CCCCc---hhchHHHHHHHHHHHHHHHHhcCCCCcccc-CCCCCCCCCCCCC
Q 045709           91 EEYP-----------E------------SRCSK---STYKLGKKVFRTLREVRSLRQEGDFKDVAQ-PVPENPVDERPLP  143 (337)
Q Consensus        91 ~~~~-----------~------------~~~~~---~~~~~~~~i~~~~~~i~~~~~~~~~~~~~~-~~~~~~~~~~~~~  143 (337)
                      .+..           .            ++|..   ..|.+++++-++.+.++.+..++.|..+.. ..|......+|..
T Consensus        77 ~~~v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~  156 (889)
T KOG4658|consen   77 LFLVEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQ  156 (889)
T ss_pred             HHHHHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCC
Confidence            8871           1            22222   446677888888888888887766665543 2222223333333


Q ss_pred             Ccc-ccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTV-VGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~-vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      +.. ||.+..++++.+.|.+++..+++|+||||+||||||+.++|+...+..+|+.++||++|+.++...++.+|+..++
T Consensus       157 ~~~~VG~e~~~~kl~~~L~~d~~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~  236 (889)
T KOG4658|consen  157 SESDVGLETMLEKLWNRLMEDDVGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLG  236 (889)
T ss_pred             ccccccHHHHHHHHHHHhccCCCCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhc
Confidence            333 9999999999999999888999999999999999999999999338999999999999999999999999999999


Q ss_pred             CCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHHhh-ccCCceeecC
Q 045709          223 LFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQ-MEAHRSFKVE  301 (337)
Q Consensus       223 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~~-~~~~~~~~l~  301 (337)
                      .....+...+..+.+..|.+.|.++||+|||||||+..+|+.++.++|...+| |+|++|||+..||.. +++...++++
T Consensus       237 ~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g-~KvvlTTRs~~V~~~~m~~~~~~~v~  315 (889)
T KOG4658|consen  237 LLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENG-SKVVLTTRSEEVCGRAMGVDYPIEVE  315 (889)
T ss_pred             cCCcccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCC-eEEEEEeccHhhhhccccCCcccccc
Confidence            87665566666889999999999999999999999999999999999999888 999999999999998 7788899999


Q ss_pred             CCCHHHHHHHHhHhhCCCCCCCCCChHHHHHHhhcC
Q 045709          302 CLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD  337 (337)
Q Consensus       302 ~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~i~~k  337 (337)
                      +|+++|||+||++.+|.......+.++++|++||+|
T Consensus       316 ~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~k  351 (889)
T KOG4658|consen  316 CLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEK  351 (889)
T ss_pred             ccCccccHHHHHHhhccccccccccHHHHHHHHHHH
Confidence            999999999999999998666667799999999975

>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=99.97  E-value=4.6e-31  Score=235.65  Aligned_cols=186  Identities=31%  Similarity=0.576  Sum_probs=148.2

Q ss_pred             chhhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCc
Q 045709          149 LQLTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNE  226 (337)
Q Consensus       149 r~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~  226 (337)
                      |+.++++|.+.|..  ++.++|+|+|+||+||||||..++++. ....+|+.++|++++...+...++..|+.+++....
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~-~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~   79 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDL-RIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDS   79 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHH-HHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-S
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeeccccc-cccccccccccccccccccccccccccccccccccc
Confidence            78899999999988  689999999999999999999999985 358999999999999999999999999999988754


Q ss_pred             cc-cCCCHHHHHHHHHHHhcCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHHhhccC-CceeecCCCC
Q 045709          227 SW-KNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQMEA-HRSFKVECLR  304 (337)
Q Consensus       227 ~~-~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~~~~~-~~~~~l~~L~  304 (337)
                      .. ...+.......+.+.|.++++||||||||+...|+.+...++....| |+||||||+..++..++. ...|++++|+
T Consensus        80 ~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~-~kilvTTR~~~v~~~~~~~~~~~~l~~L~  158 (287)
T PF00931_consen   80 SISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSG-SKILVTTRDRSVAGSLGGTDKVIELEPLS  158 (287)
T ss_dssp             TSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS--EEEEEESCGGGGTTHHSCEEEEECSS--
T ss_pred             ccccccccccccccchhhhccccceeeeeeeccccccccccccccccccc-ccccccccccccccccccccccccccccc
Confidence            33 45677889999999999999999999999999999998888877778 999999999999877654 6789999999


Q ss_pred             HHHHHHHHhHhhCCCCCCCCCChHHHHHHhhc
Q 045709          305 YDDAWKLFEQKVGADTLDSHPDIPELAETLAK  336 (337)
Q Consensus       305 ~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~i~~  336 (337)
                      .+||++||++.++......++.+.+++++|++
T Consensus       159 ~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~  190 (287)
T PF00931_consen  159 EEEALELFKKRAGRKESESPEDLEDLAKEIVE  190 (287)
T ss_dssp             HHHHHHHHHHHHTSHS----TTSCTHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccc
Confidence            99999999999986652334556667777764

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.

>PLN03210 Resistant to P

Probab=99.92  E-value=5.6e-24  Score=221.10  Aligned_cols=184  Identities=18%  Similarity=0.220  Sum_probs=141.9

Q ss_pred             CccccchhhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEe---cCc-----------
Q 045709          144 PTVVGLQLTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVV---SRD-----------  207 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~---~~~-----------  207 (337)
                      +.+||++..++++..+|.-  ++.++|+|+||||+||||||+.+|+..   ..+|+..+|+..   +..           
T Consensus       184 ~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l---~~~F~g~vfv~~~~v~~~~~~~~~~~~~~  260 (1153)
T PLN03210        184 EDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRL---SRQFQSSVFIDRAFISKSMEIYSSANPDD  260 (1153)
T ss_pred             ccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHH---hhcCCeEEEeeccccccchhhcccccccc
Confidence            5689999999999988743  478999999999999999999999988   678998888742   111           


Q ss_pred             cC-HHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCCh
Q 045709          208 LQ-LEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREF  286 (337)
Q Consensus       208 ~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~  286 (337)
                      .. ...+..+++..+..... .....    ...+++.+.++++||||||||+..+|+.+.......++| |+||||||+.
T Consensus       261 ~~~~~~l~~~~l~~il~~~~-~~~~~----~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~G-srIIiTTrd~  334 (1153)
T PLN03210        261 YNMKLHLQRAFLSEILDKKD-IKIYH----LGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSG-SRIIVITKDK  334 (1153)
T ss_pred             cchhHHHHHHHHHHHhCCCC-cccCC----HHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCC-cEEEEEeCcH
Confidence            01 12344445544422111 01111    245777899999999999999999998887655555678 9999999999


Q ss_pred             hHHhhccCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHHHhhcC
Q 045709          287 GVCGQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD  337 (337)
Q Consensus       287 ~v~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~i~~k  337 (337)
                      .++..++..++|+++.|++++||+||+++||... ..++++.+++++|+++
T Consensus       335 ~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~-~~~~~~~~l~~~iv~~  384 (1153)
T PLN03210        335 HFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKN-SPPDGFMELASEVALR  384 (1153)
T ss_pred             HHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCC-CCcHHHHHHHHHHHHH
Confidence            9998777778999999999999999999999875 3455689999999864

syringae 6; Provisional

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.47  E-value=2.8e-12  Score=119.64  Aligned_cols=173  Identities=16%  Similarity=0.123  Sum_probs=118.3

Q ss_pred             CCCccccchhhHHHHHHHHhc----CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHH
Q 045709          142 LPPTVVGLQLTFDRVWRCLME----EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESI  217 (337)
Q Consensus       142 ~~~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  217 (337)
                      .|+.++||++++++|...+.+    .....+.|+|++|+|||++++.++++.. .....-..+++++....+...++..+
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~-~~~~~~~~v~in~~~~~~~~~~~~~i  106 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELE-EIAVKVVYVYINCQIDRTRYAIFSEI  106 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHH-HhcCCcEEEEEECCcCCCHHHHHHHH
Confidence            356799999999999888743    3456788999999999999999999872 22223456778777777888899999


Q ss_pred             HHHhCCCCccccCCCHHHHHHHHHHHhc--CCcEEEEEecCCCcc------ccccccCCCCCCCCC-CcEEEEeeCChhH
Q 045709          218 AKKIGLFNESWKNKSMQEKAQEIFKILS--KKKFVLLLDDIWELV------DLDQVGLPIPSRTSV-SNKVVFTTREFGV  288 (337)
Q Consensus       218 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~------~~~~l~~~l~~~~~g-~s~IiiTtr~~~v  288 (337)
                      +.++..........+..+....+.+.+.  +++.+||||+++...      .+..+...+.. ..+ +-.+|.++....+
T Consensus       107 ~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~~~~~v~vI~i~~~~~~  185 (394)
T PRK00411        107 ARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEE-YPGARIGVIGISSDLTF  185 (394)
T ss_pred             HHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhc-cCCCeEEEEEEECCcch
Confidence            9998753222234456777777777775  456899999998753      12222221211 122 0235666665443


Q ss_pred             Hhhcc-------CCceeecCCCCHHHHHHHHhHhh
Q 045709          289 CGQME-------AHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       289 ~~~~~-------~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ...+.       ....+.+++++.++..+++..++
T Consensus       186 ~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~  220 (394)
T PRK00411        186 LYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRV  220 (394)
T ss_pred             hhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHH
Confidence            32221       12467999999999999999886

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.36  E-value=8.6e-11  Score=108.53  Aligned_cols=173  Identities=16%  Similarity=0.189  Sum_probs=113.6

Q ss_pred             CCccccchhhHHHHHHHHhc----CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCC---cEEEEEEecCccCHHHHHH
Q 045709          143 PPTVVGLQLTFDRVWRCLME----EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHF---DFVIWVVVSRDLQLEKIQE  215 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f---~~~~wv~~~~~~~~~~~~~  215 (337)
                      |+.++||+++++.|...|..    ...+.+.|+|++|+|||++++.+++.........   -..+|+++....+...++.
T Consensus        14 p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~   93 (365)
T TIGR02928        14 PDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLV   93 (365)
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHH
Confidence            35799999999999998864    3456899999999999999999998762111111   2467888877777888999


Q ss_pred             HHHHHhC---CCCccccCCCHHHHHHHHHHHhc--CCcEEEEEecCCCcc-c----cccccCC--CCCCC-CCCcEEEEe
Q 045709          216 SIAKKIG---LFNESWKNKSMQEKAQEIFKILS--KKKFVLLLDDIWELV-D----LDQVGLP--IPSRT-SVSNKVVFT  282 (337)
Q Consensus       216 ~i~~~l~---~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~-~----~~~l~~~--l~~~~-~g~s~IiiT  282 (337)
                      .|+.++.   ...+ ....+..+....+.+.+.  +++++||||+++... .    +..+...  ..... .. ..+|.+
T Consensus        94 ~i~~~l~~~~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~-v~lI~i  171 (365)
T TIGR02928        94 ELANQLRGSGEEVP-TTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAK-VGVIGI  171 (365)
T ss_pred             HHHHHHhhcCCCCC-CCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCe-EEEEEE
Confidence            9999883   2211 123345566666666663  567899999998762 1    1222111  11111 12 345555


Q ss_pred             eCChhHHhhcc-------CCceeecCCCCHHHHHHHHhHhhC
Q 045709          283 TREFGVCGQME-------AHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       283 tr~~~v~~~~~-------~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      |........+.       ....+.++|++.++..+++..++.
T Consensus       172 ~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~  213 (365)
T TIGR02928       172 SNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAE  213 (365)
T ss_pred             ECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHH
Confidence            54443221111       124689999999999999999873

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.

>PF05729 NACHT: NACHT domain

Probab=99.35  E-value=1.1e-11  Score=101.14  Aligned_cols=141  Identities=16%  Similarity=0.266  Sum_probs=89.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCC----CcEEEEEEecCccCHH---HHHHHHHHHhCCCCccccCCCHHHHHH
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNH----FDFVIWVVVSRDLQLE---KIQESIAKKIGLFNESWKNKSMQEKAQ  238 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~----f~~~~wv~~~~~~~~~---~~~~~i~~~l~~~~~~~~~~~~~~~~~  238 (337)
                      +++.|+|.+|+||||+++.++..... ...    +...+|.+........   .+...|..+.....     .....   
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~-----~~~~~---   71 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAE-EEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESI-----APIEE---   71 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHh-cCcccccceEEEEEeehhhhhccccchHHHHHHHhhccch-----hhhHH---
Confidence            47899999999999999999988732 222    4567777765543322   34444444332211     11111   


Q ss_pred             HHHHH-hcCCcEEEEEecCCCccc---------ccc-ccCCCCC-CCCCCcEEEEeeCChhH---HhhccCCceeecCCC
Q 045709          239 EIFKI-LSKKKFVLLLDDIWELVD---------LDQ-VGLPIPS-RTSVSNKVVFTTREFGV---CGQMEAHRSFKVECL  303 (337)
Q Consensus       239 ~l~~~-l~~k~~LlVlDdv~~~~~---------~~~-l~~~l~~-~~~g~s~IiiTtr~~~v---~~~~~~~~~~~l~~L  303 (337)
                      .+... ...++++||||++++...         +.. +...++. ...+ ++++||||....   .........+.+++|
T Consensus        72 ~~~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~-~~liit~r~~~~~~~~~~~~~~~~~~l~~~  150 (166)
T PF05729_consen   72 LLQELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPG-VKLIITSRPRAFPDLRRRLKQAQILELEPF  150 (166)
T ss_pred             HHHHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCC-CeEEEEEcCChHHHHHHhcCCCcEEEECCC
Confidence            22222 257899999999986533         111 2122222 2345 899999998766   333444568999999


Q ss_pred             CHHHHHHHHhHhh
Q 045709          304 RYDDAWKLFEQKV  316 (337)
Q Consensus       304 ~~~ea~~Lf~~~~  316 (337)
                      ++++..+++.++.
T Consensus       151 ~~~~~~~~~~~~f  163 (166)
T PF05729_consen  151 SEEDIKQYLRKYF  163 (166)
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998775

>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=99.23  E-value=3.5e-11  Score=103.69  Aligned_cols=167  Identities=16%  Similarity=0.203  Sum_probs=87.9

Q ss_pred             cccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHH--------
Q 045709          146 VVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESI--------  217 (337)
Q Consensus       146 ~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i--------  217 (337)
                      |+||+.+++.|.+++..+....+.|+|+.|+|||+|++.+.+..   ...-..++|+........ .....+        
T Consensus         1 F~gR~~el~~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~~---~~~~~~~~y~~~~~~~~~-~~~~~~~~~~~~~~   76 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGPSQHILLYGPRGSGKTSLLKEFINEL---KEKGYKVVYIDFLEESNE-SSLRSFIEETSLAD   76 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHHC---T--EECCCHHCCTTBSHH-HHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHHh---hhcCCcEEEEecccchhh-hHHHHHHHHHHHHH
Confidence            78999999999999988778999999999999999999999987   222223444444333222 112222        


Q ss_pred             --HHHhCCCCcc--------ccCCCHHHHHHHHHHHhc--CCcEEEEEecCCCcc-cc----------ccccCCCCCCCC
Q 045709          218 --AKKIGLFNES--------WKNKSMQEKAQEIFKILS--KKKFVLLLDDIWELV-DL----------DQVGLPIPSRTS  274 (337)
Q Consensus       218 --~~~l~~~~~~--------~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~-~~----------~~l~~~l~~~~~  274 (337)
                        ...+....+.        ............+.+.+.  +++++||+||++... ..          ..+........+
T Consensus        77 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  156 (234)
T PF01637_consen   77 ELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQN  156 (234)
T ss_dssp             HCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TT
T ss_pred             HHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCC
Confidence              1112110000        011122233344444443  345999999997765 11          111111222223


Q ss_pred             CCcEEEEeeCChhHHhh--------ccCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          275 VSNKVVFTTREFGVCGQ--------MEAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       275 g~s~IiiTtr~~~v~~~--------~~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                        ..+|++..+..+...        .+....+.+++|+.+++++++...+..
T Consensus       157 --~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~  206 (234)
T PF01637_consen  157 --VSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKE  206 (234)
T ss_dssp             --EEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHC
T ss_pred             --ceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHH
Confidence              355566555544433        222345899999999999999997643

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=99.23  E-value=2e-09  Score=95.08  Aligned_cols=146  Identities=17%  Similarity=0.299  Sum_probs=90.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFK  242 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  242 (337)
                      .+.+.+.|+|++|+|||||++.+++.. . ...+ ..+|+ +....+..+++..++..++....   ..+.......+..
T Consensus        41 ~~~~~~~l~G~~G~GKTtl~~~l~~~l-~-~~~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~---~~~~~~~~~~l~~  113 (269)
T TIGR03015        41 QREGFILITGEVGAGKTTLIRNLLKRL-D-QERV-VAAKL-VNTRVDAEDLLRMVAADFGLETE---GRDKAALLRELED  113 (269)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHHhc-C-CCCe-EEeee-eCCCCCHHHHHHHHHHHcCCCCC---CCCHHHHHHHHHH
Confidence            446689999999999999999999887 2 1221 22333 33345677888899988876542   2233333333333


Q ss_pred             H-----hcCCcEEEEEecCCCcc--ccccccCC--C-CCCCCCCcEEEEeeCChhHHhhcc----------CCceeecCC
Q 045709          243 I-----LSKKKFVLLLDDIWELV--DLDQVGLP--I-PSRTSVSNKVVFTTREFGVCGQME----------AHRSFKVEC  302 (337)
Q Consensus       243 ~-----l~~k~~LlVlDdv~~~~--~~~~l~~~--l-~~~~~g~s~IiiTtr~~~v~~~~~----------~~~~~~l~~  302 (337)
                      .     ..+++.+||+||++...  .++.+...  + ...... ..|++|... .....+.          ....+++++
T Consensus       114 ~l~~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~-~~vvl~g~~-~~~~~l~~~~~~~l~~r~~~~~~l~~  191 (269)
T TIGR03015       114 FLIEQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKL-LQIFLVGQP-EFRETLQSPQLQQLRQRIIASCHLGP  191 (269)
T ss_pred             HHHHHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCe-EEEEEcCCH-HHHHHHcCchhHHHHhheeeeeeCCC
Confidence            2     26788999999998753  34433211  1 111122 345565543 2221111          134678999


Q ss_pred             CCHHHHHHHHhHhhC
Q 045709          303 LRYDDAWKLFEQKVG  317 (337)
Q Consensus       303 L~~~ea~~Lf~~~~~  317 (337)
                      |+.+|..+++..++.
T Consensus       192 l~~~e~~~~l~~~l~  206 (269)
T TIGR03015       192 LDREETREYIEHRLE  206 (269)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            999999999988774

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.

>PRK06893 DNA replication initiation factor; Validated

Probab=99.08  E-value=6.9e-10  Score=95.50  Aligned_cols=130  Identities=10%  Similarity=0.183  Sum_probs=80.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKI  243 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  243 (337)
                      ..+.+.|+|++|+|||+|++.+++...   .....+.|++.....   ....                       .+.+.
T Consensus        38 ~~~~l~l~G~~G~GKThL~~ai~~~~~---~~~~~~~y~~~~~~~---~~~~-----------------------~~~~~   88 (229)
T PRK06893         38 QQPFFYIWGGKSSGKSHLLKAVSNHYL---LNQRTAIYIPLSKSQ---YFSP-----------------------AVLEN   88 (229)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCCeEEeeHHHhh---hhhH-----------------------HHHhh
Confidence            446789999999999999999999873   223345666653110   0000                       11111


Q ss_pred             hcCCcEEEEEecCCCc---ccccc-ccCCCCCC-CCCCcEEEE-eeCC---------hhHHhhccCCceeecCCCCHHHH
Q 045709          244 LSKKKFVLLLDDIWEL---VDLDQ-VGLPIPSR-TSVSNKVVF-TTRE---------FGVCGQMEAHRSFKVECLRYDDA  308 (337)
Q Consensus       244 l~~k~~LlVlDdv~~~---~~~~~-l~~~l~~~-~~g~s~Iii-Ttr~---------~~v~~~~~~~~~~~l~~L~~~ea  308 (337)
                      +. +.-+|+|||+|..   ..|.. +...+... ..+ +.+|+ |+..         +.+.+.+.....+++++++.++.
T Consensus        89 ~~-~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~-~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~  166 (229)
T PRK06893         89 LE-QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQG-KTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQK  166 (229)
T ss_pred             cc-cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcC-CcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHH
Confidence            21 3349999999874   33432 22212211 234 55554 4543         35566666677899999999999


Q ss_pred             HHHHhHhhCCCCCCCC
Q 045709          309 WKLFEQKVGADTLDSH  324 (337)
Q Consensus       309 ~~Lf~~~~~~~~~~~~  324 (337)
                      +++|++.+.......+
T Consensus       167 ~~iL~~~a~~~~l~l~  182 (229)
T PRK06893        167 IIVLQRNAYQRGIELS  182 (229)
T ss_pred             HHHHHHHHHHcCCCCC
Confidence            9999999875443333

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

Probab=99.07  E-value=7.4e-10  Score=98.89  Aligned_cols=140  Identities=24%  Similarity=0.318  Sum_probs=90.6

Q ss_pred             cccchhhH---HHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          146 VVGLQLTF---DRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       146 ~vGr~~~~---~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      +||.+..+   .-|.+++..+...-.-+||++|+||||||+.+....   ...|..     ++-..+-.+          
T Consensus        26 ~vGQ~HLlg~~~~lrr~v~~~~l~SmIl~GPPG~GKTTlA~liA~~~---~~~f~~-----~sAv~~gvk----------   87 (436)
T COG2256          26 VVGQEHLLGEGKPLRRAVEAGHLHSMILWGPPGTGKTTLARLIAGTT---NAAFEA-----LSAVTSGVK----------   87 (436)
T ss_pred             hcChHhhhCCCchHHHHHhcCCCceeEEECCCCCCHHHHHHHHHHhh---CCceEE-----eccccccHH----------
Confidence            45544433   234455666788888899999999999999998876   455542     221111111          


Q ss_pred             CCCccccCCCHHHHHHHHH-HHhcCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEE--eeCChhHH---hhccC
Q 045709          223 LFNESWKNKSMQEKAQEIF-KILSKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVF--TTREFGVC---GQMEA  294 (337)
Q Consensus       223 ~~~~~~~~~~~~~~~~~l~-~~l~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~Iii--Ttr~~~v~---~~~~~  294 (337)
                               +..+..+.-+ ....+++.+|++|+|+..  .+.+.+   +|...+| .-|+|  ||.|+...   ...+.
T Consensus        88 ---------dlr~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~l---Lp~vE~G-~iilIGATTENPsF~ln~ALlSR  154 (436)
T COG2256          88 ---------DLREIIEEARKNRLLGRRTILFLDEIHRFNKAQQDAL---LPHVENG-TIILIGATTENPSFELNPALLSR  154 (436)
T ss_pred             ---------HHHHHHHHHHHHHhcCCceEEEEehhhhcChhhhhhh---hhhhcCC-eEEEEeccCCCCCeeecHHHhhh
Confidence                     1222222222 223488999999999754  344444   5666677 66666  77776642   22345


Q ss_pred             CceeecCCCCHHHHHHHHhHhh
Q 045709          295 HRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       295 ~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ..++.+++|+.++-.+++.+.+
T Consensus       155 ~~vf~lk~L~~~di~~~l~ra~  176 (436)
T COG2256         155 ARVFELKPLSSEDIKKLLKRAL  176 (436)
T ss_pred             hheeeeecCCHHHHHHHHHHHH
Confidence            5789999999999999999844

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

Probab=99.07  E-value=2.2e-08  Score=91.48  Aligned_cols=169  Identities=16%  Similarity=0.236  Sum_probs=117.8

Q ss_pred             CCccccchhhHHHHHHHHhc----CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHH
Q 045709          143 PPTVVGLQLTFDRVWRCLME----EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIA  218 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  218 (337)
                      |+.+.+|+.+++++...|..    ..+..+.|+|.+|+|||+.++.+............ ++++++....+...++..|+
T Consensus        16 P~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~-~~yINc~~~~t~~~i~~~i~   94 (366)
T COG1474          16 PEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVE-VVYINCLELRTPYQVLSKIL   94 (366)
T ss_pred             cccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCc-eEEEeeeeCCCHHHHHHHHH
Confidence            34589999999999888754    34455999999999999999999999832222222 89999999999999999999


Q ss_pred             HHhCCCCccccCCCHHHHHHHHHHHhc--CCcEEEEEecCCCccccc--cccCCCCCC-CCCCcEEE--EeeCChhH---
Q 045709          219 KKIGLFNESWKNKSMQEKAQEIFKILS--KKKFVLLLDDIWELVDLD--QVGLPIPSR-TSVSNKVV--FTTREFGV---  288 (337)
Q Consensus       219 ~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~~~--~l~~~l~~~-~~g~s~Ii--iTtr~~~v---  288 (337)
                      ++++...  ....+..+..+.+.+.+.  ++.+++|||+++....-.  -+...+... ... ++|+  ..+-+..+   
T Consensus        95 ~~~~~~p--~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~-~~v~vi~i~n~~~~~~~  171 (366)
T COG1474          95 NKLGKVP--LTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENK-VKVSIIAVSNDDKFLDY  171 (366)
T ss_pred             HHcCCCC--CCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccc-eeEEEEEEeccHHHHHH
Confidence            9997322  245666777778887774  578899999998753321  111111111 112 4443  34443333   


Q ss_pred             -----HhhccCCceeecCCCCHHHHHHHHhHhh
Q 045709          289 -----CGQMEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       289 -----~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                           .+.++. ..+..+|.+.+|-.+.+..++
T Consensus       172 ld~rv~s~l~~-~~I~F~pY~a~el~~Il~~R~  203 (366)
T COG1474         172 LDPRVKSSLGP-SEIVFPPYTAEELYDILRERV  203 (366)
T ss_pred             hhhhhhhccCc-ceeeeCCCCHHHHHHHHHHHH
Confidence                 222222 348899999999999999987

>PF13173 AAA_14: AAA domain

Probab=99.02  E-value=8.6e-10  Score=86.05  Aligned_cols=120  Identities=17%  Similarity=0.186  Sum_probs=82.0

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL  244 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  244 (337)
                      .+++.|.|+.|+|||||+++++.+.   . ....++|++...........                  .+ ..+.+.+..
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~---~-~~~~~~yi~~~~~~~~~~~~------------------~~-~~~~~~~~~   58 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDL---L-PPENILYINFDDPRDRRLAD------------------PD-LLEYFLELI   58 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh---c-ccccceeeccCCHHHHHHhh------------------hh-hHHHHHHhh
Confidence            5789999999999999999999887   2 44567777766543211100                  00 223333333


Q ss_pred             cCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHHhhc------cCCceeecCCCCHHHH
Q 045709          245 SKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQM------EAHRSFKVECLRYDDA  308 (337)
Q Consensus       245 ~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~~~------~~~~~~~l~~L~~~ea  308 (337)
                      ..+..+|+||++....+|......+.+.... .+|++|+.+......-      +....++|.||+-.|-
T Consensus        59 ~~~~~~i~iDEiq~~~~~~~~lk~l~d~~~~-~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   59 KPGKKYIFIDEIQYLPDWEDALKFLVDNGPN-IKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             ccCCcEEEEehhhhhccHHHHHHHHHHhccC-ceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            3477899999999998888876666665545 7999999987665321      1224679999998773

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.00  E-value=8e-09  Score=101.06  Aligned_cols=187  Identities=14%  Similarity=0.108  Sum_probs=116.0

Q ss_pred             CCccccchhhHHHHHHHHhc----C-CCeEEEEEecCCCcHHHHHHHHHHhhccC--CCCC--cEEEEEEecCccCHHHH
Q 045709          143 PPTVVGLQLTFDRVWRCLME----E-HAGIVGLYGMGGVGKTTLLTQINNRFFDT--PNHF--DFVIWVVVSRDLQLEKI  213 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~----~-~~~vi~I~G~~GiGKTtLa~~v~~~~~~~--~~~f--~~~~wv~~~~~~~~~~~  213 (337)
                      |+.+.||++++++|...|..    . ...++.|+|++|+|||+.++.+...+...  ....  -.++++++....+...+
T Consensus       754 PD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sI  833 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAA  833 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHH
Confidence            56789999999999888754    2 33567899999999999999998876311  1111  24678888777788889


Q ss_pred             HHHHHHHhCCCCccccCCCHHHHHHHHHHHhc---CCcEEEEEecCCCccc-----cccccCCCCCCCCCCcEEEE--ee
Q 045709          214 QESIAKKIGLFNESWKNKSMQEKAQEIFKILS---KKKFVLLLDDIWELVD-----LDQVGLPIPSRTSVSNKVVF--TT  283 (337)
Q Consensus       214 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~---~k~~LlVlDdv~~~~~-----~~~l~~~l~~~~~g~s~Iii--Tt  283 (337)
                      +..|..++....+ ....+..+....+...+.   +...+||||+++....     +-.+... +. ..+ ++|++  +|
T Consensus       834 YqvI~qqL~g~~P-~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~-~~-~s~-SKLiLIGIS  909 (1164)
T PTZ00112        834 YQVLYKQLFNKKP-PNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDW-PT-KIN-SKLVLIAIS  909 (1164)
T ss_pred             HHHHHHHHcCCCC-CccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHH-hh-ccC-CeEEEEEec
Confidence            9999988854332 133344455666665552   2345899999986531     1111111 11 123 45444  33


Q ss_pred             CChh--------HHhhccCCceeecCCCCHHHHHHHHhHhhCCC-CCCCCCChHHHHHHh
Q 045709          284 REFG--------VCGQMEAHRSFKVECLRYDDAWKLFEQKVGAD-TLDSHPDIPELAETL  334 (337)
Q Consensus       284 r~~~--------v~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~-~~~~~~~l~~i~~~i  334 (337)
                      ....        +...++ ...+.++|++.++-.+++..++... ..-.+..++-+|+.+
T Consensus       910 NdlDLperLdPRLRSRLg-~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkV  968 (1164)
T PTZ00112        910 NTMDLPERLIPRCRSRLA-FGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKV  968 (1164)
T ss_pred             Cchhcchhhhhhhhhccc-cccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhh
Confidence            3212        222222 2347789999999999999998642 212233345555543

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.94  E-value=7.2e-09  Score=93.31  Aligned_cols=162  Identities=14%  Similarity=0.125  Sum_probs=95.0

Q ss_pred             CccccchhhHHHHHHHHhc-----CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLME-----EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIA  218 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  218 (337)
                      .+|+|+++.++.|..++..     .....+.++|++|+|||+||+.+++..   ...+.   .+..+....... +...+
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~---~~~~~---~~~~~~~~~~~~-l~~~l   76 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEM---GVNLK---ITSGPALEKPGD-LAAIL   76 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCCEE---EeccchhcCchh-HHHHH
Confidence            3589999999999888863     345568899999999999999999887   22221   122211111222 22223


Q ss_pred             HHhCCCC----ccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHHhhcc-
Q 045709          219 KKIGLFN----ESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQME-  293 (337)
Q Consensus       219 ~~l~~~~----~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~~~~-  293 (337)
                      ..++...    +..+..+ ......+...+.+.+..+|+++..+...+..   .+|   +. +-|..||+...+...+. 
T Consensus        77 ~~~~~~~vl~iDEi~~l~-~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~---~~~---~~-~li~~t~~~~~l~~~l~s  148 (305)
T TIGR00635        77 TNLEEGDVLFIDEIHRLS-PAVEELLYPAMEDFRLDIVIGKGPSARSVRL---DLP---PF-TLVGATTRAGMLTSPLRD  148 (305)
T ss_pred             HhcccCCEEEEehHhhhC-HHHHHHhhHHHhhhheeeeeccCccccceee---cCC---Ce-EEEEecCCccccCHHHHh
Confidence            3332211    0001111 1223445566666666677776655443322   222   23 56667777654433221 


Q ss_pred             -CCceeecCCCCHHHHHHHHhHhhCCCC
Q 045709          294 -AHRSFKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       294 -~~~~~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                       ....+++++++.++..+++.+.+....
T Consensus       149 R~~~~~~l~~l~~~e~~~il~~~~~~~~  176 (305)
T TIGR00635       149 RFGIILRLEFYTVEELAEIVSRSAGLLN  176 (305)
T ss_pred             hcceEEEeCCCCHHHHHHHHHHHHHHhC
Confidence             134679999999999999998886433

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.93  E-value=2.4e-08  Score=103.04  Aligned_cols=167  Identities=16%  Similarity=0.231  Sum_probs=103.2

Q ss_pred             CCCCccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC-ccCHHHHHHHHHH
Q 045709          141 PLPPTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR-DLQLEKIQESIAK  219 (337)
Q Consensus       141 ~~~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~  219 (337)
                      +.++.++-|....+.+...   ...+++.|+|++|.||||++..+....    .   .++|+++.. +.++..+...++.
T Consensus        11 ~~~~~~~~R~rl~~~l~~~---~~~~~~~v~apaG~GKTtl~~~~~~~~----~---~~~w~~l~~~d~~~~~f~~~l~~   80 (903)
T PRK04841         11 VRLHNTVVRERLLAKLSGA---NNYRLVLVTSPAGYGKTTLISQWAAGK----N---NLGWYSLDESDNQPERFASYLIA   80 (903)
T ss_pred             CCccccCcchHHHHHHhcc---cCCCeEEEECCCCCCHHHHHHHHHHhC----C---CeEEEecCcccCCHHHHHHHHHH
Confidence            3345678888666655321   357899999999999999999987543    2   589999864 4466667777777


Q ss_pred             HhCCCCcc-----------ccCCCHHHHHHHHHHHhc--CCcEEEEEecCCCccc--cc-cccCCCCCCCCCCcEEEEee
Q 045709          220 KIGLFNES-----------WKNKSMQEKAQEIFKILS--KKKFVLLLDDIWELVD--LD-QVGLPIPSRTSVSNKVVFTT  283 (337)
Q Consensus       220 ~l~~~~~~-----------~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~--~~-~l~~~l~~~~~g~s~IiiTt  283 (337)
                      .+......           ....+.......+...+.  +.+++|||||++...+  .. .+...+.....+ .++||||
T Consensus        81 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~-~~lv~~s  159 (903)
T PRK04841         81 ALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPEN-LTLVVLS  159 (903)
T ss_pred             HHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCC-eEEEEEe
Confidence            76421110           011222334444444443  6799999999976532  11 222112222334 7888999


Q ss_pred             CChhHHh--hc-cCCceeecC----CCCHHHHHHHHhHhhCC
Q 045709          284 REFGVCG--QM-EAHRSFKVE----CLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       284 r~~~v~~--~~-~~~~~~~l~----~L~~~ea~~Lf~~~~~~  318 (337)
                      |...-..  .+ -......+.    +|+.+|+.+||....+.
T Consensus       160 R~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~  201 (903)
T PRK04841        160 RNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSS  201 (903)
T ss_pred             CCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCC
Confidence            9742111  11 122344555    99999999999877654

>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=98.93  E-value=1.2e-08  Score=80.80  Aligned_cols=123  Identities=23%  Similarity=0.125  Sum_probs=73.3

Q ss_pred             ccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCc
Q 045709          147 VGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNE  226 (337)
Q Consensus       147 vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~  226 (337)
                      +|++..+..+...+.....+.+.|+|.+|+|||++++.+++...   .....++++..............+...      
T Consensus         1 ~~~~~~~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~~---~~~~~v~~~~~~~~~~~~~~~~~~~~~------   71 (151)
T cd00009           1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELF---RPGAPFLYLNASDLLEGLVVAELFGHF------   71 (151)
T ss_pred             CchHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHhh---cCCCCeEEEehhhhhhhhHHHHHhhhh------
Confidence            47888899998888776678899999999999999999999872   223345666655433222111110000      


Q ss_pred             cccCCCHHHHHHHHHHHhcCCcEEEEEecCCCc-----cccccccCCCCCC---CCCCcEEEEeeCChh
Q 045709          227 SWKNKSMQEKAQEIFKILSKKKFVLLLDDIWEL-----VDLDQVGLPIPSR---TSVSNKVVFTTREFG  287 (337)
Q Consensus       227 ~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~-----~~~~~l~~~l~~~---~~g~s~IiiTtr~~~  287 (337)
                              ............++.+|++||++..     ..+..+...+...   ..+ ..||+||....
T Consensus        72 --------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~-~~ii~~~~~~~  131 (151)
T cd00009          72 --------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDREN-VRVIGATNRPL  131 (151)
T ss_pred             --------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCC-eEEEEecCccc
Confidence                    0011112223456789999999853     1222222222111   245 78888888554

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.

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=98.92  E-value=2e-08  Score=88.64  Aligned_cols=135  Identities=21%  Similarity=0.247  Sum_probs=90.6

Q ss_pred             HHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHH
Q 045709          156 VWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQE  235 (337)
Q Consensus       156 l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~  235 (337)
                      |.+++..+..+.+.+||++|+||||||+.+....   +.+-  ..||..|-...-..-.+.|.++...            
T Consensus       153 lrs~ieq~~ipSmIlWGppG~GKTtlArlia~ts---k~~S--yrfvelSAt~a~t~dvR~ife~aq~------------  215 (554)
T KOG2028|consen  153 LRSLIEQNRIPSMILWGPPGTGKTTLARLIASTS---KKHS--YRFVELSATNAKTNDVRDIFEQAQN------------  215 (554)
T ss_pred             HHHHHHcCCCCceEEecCCCCchHHHHHHHHhhc---CCCc--eEEEEEeccccchHHHHHHHHHHHH------------
Confidence            3444556788999999999999999999998876   2221  5566666543333333334333211            


Q ss_pred             HHHHHHHHhcCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEE--eeCChhH---HhhccCCceeecCCCCHHHH
Q 045709          236 KAQEIFKILSKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVF--TTREFGV---CGQMEAHRSFKVECLRYDDA  308 (337)
Q Consensus       236 ~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~Iii--Ttr~~~v---~~~~~~~~~~~l~~L~~~ea  308 (337)
                           ...+.+++.+|.+|+|..-  .+.+.+   +|.-.+| .-++|  ||.+.+.   +..++...++-|++|..++.
T Consensus       216 -----~~~l~krkTilFiDEiHRFNksQQD~f---LP~VE~G-~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v  286 (554)
T KOG2028|consen  216 -----EKSLTKRKTILFIDEIHRFNKSQQDTF---LPHVENG-DITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAV  286 (554)
T ss_pred             -----HHhhhcceeEEEeHHhhhhhhhhhhcc---cceeccC-ceEEEecccCCCccchhHHHHhccceeEeccCCHHHH
Confidence                 1234578899999999743  333333   6777778 66666  8887765   23344557899999999999


Q ss_pred             HHHHhHhh
Q 045709          309 WKLFEQKV  316 (337)
Q Consensus       309 ~~Lf~~~~  316 (337)
                      ..++.+..
T Consensus       287 ~~iL~rai  294 (554)
T KOG2028|consen  287 VTILMRAI  294 (554)
T ss_pred             HHHHHHHH
Confidence            99998743

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.90  E-value=5.4e-09  Score=89.87  Aligned_cols=138  Identities=13%  Similarity=0.139  Sum_probs=85.5

Q ss_pred             chhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc
Q 045709          149 LQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW  228 (337)
Q Consensus       149 r~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~  228 (337)
                      ....++.+.+++.......+.|+|.+|+|||+||+.+++...   ......+|++++.-..      ..           
T Consensus        22 ~~~~~~~l~~~~~~~~~~~lll~G~~G~GKT~la~~~~~~~~---~~~~~~~~i~~~~~~~------~~-----------   81 (226)
T TIGR03420        22 NAELLAALRQLAAGKGDRFLYLWGESGSGKSHLLQAACAAAE---ERGKSAIYLPLAELAQ------AD-----------   81 (226)
T ss_pred             cHHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHHHH---hcCCcEEEEeHHHHHH------hH-----------
Confidence            455677777776666678899999999999999999998872   2333455665543211      00           


Q ss_pred             cCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc---cc-ccccCCCCC-CCCCCcEEEEeeCChh---------HHhhccC
Q 045709          229 KNKSMQEKAQEIFKILSKKKFVLLLDDIWELV---DL-DQVGLPIPS-RTSVSNKVVFTTREFG---------VCGQMEA  294 (337)
Q Consensus       229 ~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~---~~-~~l~~~l~~-~~~g~s~IiiTtr~~~---------v~~~~~~  294 (337)
                               ..+...+.+ .-+|||||++...   .| ..+...+.. ...+ ..+|+||+...         +...+..
T Consensus        82 ---------~~~~~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~-~~iIits~~~~~~~~~~~~~L~~r~~~  150 (226)
T TIGR03420        82 ---------PEVLEGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAG-GRLLIAGRAAPAQLPLRLPDLRTRLAW  150 (226)
T ss_pred             ---------HHHHhhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcC-CeEEEECCCChHHCCcccHHHHHHHhc
Confidence                     011111222 3489999998653   22 223222221 1234 57888887532         2223333


Q ss_pred             CceeecCCCCHHHHHHHHhHhhC
Q 045709          295 HRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       295 ~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      ...+.+++++.++...++...+.
T Consensus       151 ~~~i~l~~l~~~e~~~~l~~~~~  173 (226)
T TIGR03420       151 GLVFQLPPLSDEEKIAALQSRAA  173 (226)
T ss_pred             CeeEecCCCCHHHHHHHHHHHHH
Confidence            46789999999999999987653

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.

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=98.89  E-value=5.6e-09  Score=81.61  Aligned_cols=117  Identities=21%  Similarity=0.275  Sum_probs=79.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccC--CCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDT--PNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIF  241 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~--~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  241 (337)
                      +.+.+.|+|.+|+|||++++.+.......  ...-..++|++++...+...+...|+..++.....  ..+...+.+.+.
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~~l~~~~~   80 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS--RQTSDELRSLLI   80 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS--TS-HHHHHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc--cCCHHHHHHHHH
Confidence            35789999999999999999999877210  00145677999988889999999999999876532  356777778888


Q ss_pred             HHhcCCc-EEEEEecCCCc-c--ccccccCCCCCCCCCCcEEEEeeCC
Q 045709          242 KILSKKK-FVLLLDDIWEL-V--DLDQVGLPIPSRTSVSNKVVFTTRE  285 (337)
Q Consensus       242 ~~l~~k~-~LlVlDdv~~~-~--~~~~l~~~l~~~~~g~s~IiiTtr~  285 (337)
                      +.+...+ .+||+||++.. .  .++.+.. +.+ ..+ .++|+..+.
T Consensus        81 ~~l~~~~~~~lviDe~~~l~~~~~l~~l~~-l~~-~~~-~~vvl~G~~  125 (131)
T PF13401_consen   81 DALDRRRVVLLVIDEADHLFSDEFLEFLRS-LLN-ESN-IKVVLVGTP  125 (131)
T ss_dssp             HHHHHCTEEEEEEETTHHHHTHHHHHHHHH-HTC-SCB-EEEEEEESS
T ss_pred             HHHHhcCCeEEEEeChHhcCCHHHHHHHHH-HHh-CCC-CeEEEEECh
Confidence            8886554 59999999875 2  2233322 222 445 778877664

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.86  E-value=2e-08  Score=91.34  Aligned_cols=162  Identities=15%  Similarity=0.120  Sum_probs=90.7

Q ss_pred             CccccchhhHHHHHHHHhc-----CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLME-----EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIA  218 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  218 (337)
                      .+|+|+++.++.+..++..     .....+.|+|++|+|||+||+.+++..   ...+.   ++..+. ......+..++
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l---~~~~~---~~~~~~-~~~~~~l~~~l   97 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEM---GVNIR---ITSGPA-LEKPGDLAAIL   97 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHh---CCCeE---EEeccc-ccChHHHHHHH
Confidence            5689999999998877752     345678899999999999999999987   22221   122211 11112223333


Q ss_pred             HHhCCCC----ccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHHhhcc-
Q 045709          219 KKIGLFN----ESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQME-  293 (337)
Q Consensus       219 ~~l~~~~----~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~~~~-  293 (337)
                      ..+....    +..+..+ ....+.+...+.+.+..+++|+..+...+.   ..+|   +. +-|..|++...+...+. 
T Consensus        98 ~~l~~~~vl~IDEi~~l~-~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~---~~l~---~~-~li~at~~~~~l~~~L~s  169 (328)
T PRK00080         98 TNLEEGDVLFIDEIHRLS-PVVEEILYPAMEDFRLDIMIGKGPAARSIR---LDLP---PF-TLIGATTRAGLLTSPLRD  169 (328)
T ss_pred             HhcccCCEEEEecHhhcc-hHHHHHHHHHHHhcceeeeeccCcccccee---ecCC---Cc-eEEeecCCcccCCHHHHH
Confidence            3332111    0000001 112223444455555555555543332221   1122   23 55666777554433221 


Q ss_pred             -CCceeecCCCCHHHHHHHHhHhhCCCC
Q 045709          294 -AHRSFKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       294 -~~~~~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                       ....+.+++++.++..+++.+.+....
T Consensus       170 Rf~~~~~l~~~~~~e~~~il~~~~~~~~  197 (328)
T PRK00080        170 RFGIVQRLEFYTVEELEKIVKRSARILG  197 (328)
T ss_pred             hcCeeeecCCCCHHHHHHHHHHHHHHcC
Confidence             134689999999999999999886554

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.83  E-value=2.2e-08  Score=93.81  Aligned_cols=143  Identities=19%  Similarity=0.205  Sum_probs=87.4

Q ss_pred             CccccchhhHHH---HHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHH
Q 045709          144 PTVVGLQLTFDR---VWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKK  220 (337)
Q Consensus       144 ~~~vGr~~~~~~---l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  220 (337)
                      .+++|++..+..   |..++.....+.+.++|++|+||||||+.+++..   ...|     +.++....-..-+..++  
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~~~~~~ilL~GppGtGKTtLA~~ia~~~---~~~~-----~~l~a~~~~~~~ir~ii--   81 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEAGRLSSMILWGPPGTGKTTLARIIAGAT---DAPF-----EALSAVTSGVKDLREVI--   81 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHcCCCceEEEECCCCCCHHHHHHHHHHHh---CCCE-----EEEecccccHHHHHHHH--
Confidence            458898887665   7777777777788999999999999999999876   3333     22221111111111111  


Q ss_pred             hCCCCccccCCCHHHHHHHHHHH-hcCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEE--eeCChhHH---hhc
Q 045709          221 IGLFNESWKNKSMQEKAQEIFKI-LSKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVF--TTREFGVC---GQM  292 (337)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~Iii--Ttr~~~v~---~~~  292 (337)
                                       ...... ..+++.+|+||+++...  ..+.+...+.   .+ ..++|  ||.+....   ...
T Consensus        82 -----------------~~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~-~iilI~att~n~~~~l~~aL~  140 (413)
T PRK13342         82 -----------------EEARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVE---DG-TITLIGATTENPSFEVNPALL  140 (413)
T ss_pred             -----------------HHHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhh---cC-cEEEEEeCCCChhhhccHHHh
Confidence                             111111 14578899999998653  3344433332   34 44544  34443221   112


Q ss_pred             cCCceeecCCCCHHHHHHHHhHhhC
Q 045709          293 EAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       293 ~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      +....+.+.+|+.++.+.+|.+.+.
T Consensus       141 SR~~~~~~~~ls~e~i~~lL~~~l~  165 (413)
T PRK13342        141 SRAQVFELKPLSEEDIEQLLKRALE  165 (413)
T ss_pred             ccceeeEeCCCCHHHHHHHHHHHHH
Confidence            2336789999999999999998653

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=98.83  E-value=1.2e-08  Score=84.57  Aligned_cols=44  Identities=30%  Similarity=0.383  Sum_probs=32.5

Q ss_pred             cccchhhHHHHHHHHh---cCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          146 VVGLQLTFDRVWRCLM---EEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       146 ~vGr~~~~~~l~~~L~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |+||+++++++...|.   ....+.+.|+|.+|+|||+|++.++...
T Consensus         2 fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~   48 (185)
T PF13191_consen    2 FVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRL   48 (185)
T ss_dssp             -TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            8999999999999983   2467899999999999999999999888

>PRK08727 hypothetical protein; Validated

Probab=98.80  E-value=5.1e-08  Score=84.08  Aligned_cols=144  Identities=10%  Similarity=0.080  Sum_probs=84.6

Q ss_pred             cccc-chhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCC
Q 045709          145 TVVG-LQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGL  223 (337)
Q Consensus       145 ~~vG-r~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  223 (337)
                      +|++ -...+..+.....+.....+.|+|.+|+|||+|+..+++...   .....+.|++...      ....+..    
T Consensus        20 ~f~~~~~n~~~~~~~~~~~~~~~~l~l~G~~G~GKThL~~a~~~~~~---~~~~~~~y~~~~~------~~~~~~~----   86 (233)
T PRK08727         20 SYIAAPDGLLAQLQALAAGQSSDWLYLSGPAGTGKTHLALALCAAAE---QAGRSSAYLPLQA------AAGRLRD----   86 (233)
T ss_pred             hccCCcHHHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEEeHHH------hhhhHHH----
Confidence            3444 334444444433334446799999999999999999998873   2223556665332      1111110    


Q ss_pred             CCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc---ccccc-cCCCCC-CCCCCcEEEEeeCCh---------hHH
Q 045709          224 FNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV---DLDQV-GLPIPS-RTSVSNKVVFTTREF---------GVC  289 (337)
Q Consensus       224 ~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~---~~~~l-~~~l~~-~~~g~s~IiiTtr~~---------~v~  289 (337)
                                      ..+.+ .+.-+|||||++...   .|... ...+.. ..++ ..||+||+..         .+.
T Consensus        87 ----------------~~~~l-~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~-~~vI~ts~~~p~~l~~~~~dL~  148 (233)
T PRK08727         87 ----------------ALEAL-EGRSLVALDGLESIAGQREDEVALFDFHNRARAAG-ITLLYTARQMPDGLALVLPDLR  148 (233)
T ss_pred             ----------------HHHHH-hcCCEEEEeCcccccCChHHHHHHHHHHHHHHHcC-CeEEEECCCChhhhhhhhHHHH
Confidence                            11112 233599999997542   22221 111111 1234 6799999853         223


Q ss_pred             hhccCCceeecCCCCHHHHHHHHhHhhCCC
Q 045709          290 GQMEAHRSFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       290 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      +.+.....+++++++.++-..++.+++...
T Consensus       149 SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~  178 (233)
T PRK08727        149 SRLAQCIRIGLPVLDDVARAAVLRERAQRR  178 (233)
T ss_pred             HHHhcCceEEecCCCHHHHHHHHHHHHHHc
Confidence            344445688999999999999999977543

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.79  E-value=5.8e-08  Score=88.65  Aligned_cols=169  Identities=13%  Similarity=0.156  Sum_probs=94.3

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCc-EEEEEEecCccCHHHHHHHHH----
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFD-FVIWVVVSRDLQLEKIQESIA----  218 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~i~----  218 (337)
                      .+++|++..++.+..++..+..+.+.++|++|+||||+|+.+.+...  ...+. ..++++++....  .....+.    
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~--~~~~~~~~~~i~~~~~~~--~~~~~~~~~~~   90 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELY--GDPWENNFTEFNVADFFD--QGKKYLVEDPR   90 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhc--CcccccceEEechhhhhh--cchhhhhcCcc
Confidence            45899999999999988877666788999999999999999998873  12222 234444432110  0000000    


Q ss_pred             --HHhCCCCccccCCCHHHHHHHHHHHh------cCCcEEEEEecCCCccc--cccccCCCCCCCCCCcEEEEeeCChh-
Q 045709          219 --KKIGLFNESWKNKSMQEKAQEIFKIL------SKKKFVLLLDDIWELVD--LDQVGLPIPSRTSVSNKVVFTTREFG-  287 (337)
Q Consensus       219 --~~l~~~~~~~~~~~~~~~~~~l~~~l------~~k~~LlVlDdv~~~~~--~~~l~~~l~~~~~g~s~IiiTtr~~~-  287 (337)
                        ..++.. .. ...+.....+.+.+..      .+.+-+|||||++....  ...+...+...... +++|+||.+.. 
T Consensus        91 ~~~~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~-~~~Il~~~~~~~  167 (337)
T PRK12402         91 FAHFLGTD-KR-IRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRT-CRFIIATRQPSK  167 (337)
T ss_pred             hhhhhhhh-hh-hccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCC-CeEEEEeCChhh
Confidence              000000 00 0111112222222111      13445899999976532  22232222222334 67888775432 


Q ss_pred             HHhhc-cCCceeecCCCCHHHHHHHHhHhhCCC
Q 045709          288 VCGQM-EAHRSFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       288 v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      +...+ +....+.+.+++.++...++.+.+...
T Consensus       168 ~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~  200 (337)
T PRK12402        168 LIPPIRSRCLPLFFRAPTDDELVDVLESIAEAE  200 (337)
T ss_pred             CchhhcCCceEEEecCCCHHHHHHHHHHHHHHc
Confidence            22222 223578899999999999998876443

>PTZ00202 tuzin; Provisional

Probab=98.79  E-value=2e-07  Score=85.19  Aligned_cols=163  Identities=17%  Similarity=0.141  Sum_probs=102.8

Q ss_pred             CCCCCCccccchhhHHHHHHHHhcC---CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHH
Q 045709          139 ERPLPPTVVGLQLTFDRVWRCLMEE---HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQE  215 (337)
Q Consensus       139 ~~~~~~~~vGr~~~~~~l~~~L~~~---~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  215 (337)
                      .|+..+.|+||+.++..|...|.+.   ..+++.|.|++|+|||||++.+....   .  + ...+++..   +..+++.
T Consensus       257 lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l---~--~-~qL~vNpr---g~eElLr  327 (550)
T PTZ00202        257 APAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKE---G--M-PAVFVDVR---GTEDTLR  327 (550)
T ss_pred             CCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcC---C--c-eEEEECCC---CHHHHHH
Confidence            3444678999999999999988642   34699999999999999999998765   1  1 13333333   6799999


Q ss_pred             HHHHHhCCCCccccCCCHHHHHHHHHHHh-----c-CCcEEEEEecCCCccccccc---cCCCCCCCCCCcEEEEeeCCh
Q 045709          216 SIAKKIGLFNESWKNKSMQEKAQEIFKIL-----S-KKKFVLLLDDIWELVDLDQV---GLPIPSRTSVSNKVVFTTREF  286 (337)
Q Consensus       216 ~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-----~-~k~~LlVlDdv~~~~~~~~l---~~~l~~~~~g~s~IiiTtr~~  286 (337)
                      .|+..|+...    .....++.+.|.+.+     . +++.+||+-=- +...+..+   ...+.....- |+|++----+
T Consensus       328 ~LL~ALGV~p----~~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lr-eg~~l~rvyne~v~la~drr~-ch~v~evple  401 (550)
T PTZ00202        328 SVVKALGVPN----VEACGDLLDFISEACRRAKKMNGETPLLVLKLR-EGSSLQRVYNEVVALACDRRL-CHVVIEVPLE  401 (550)
T ss_pred             HHHHHcCCCC----cccHHHHHHHHHHHHHHHHHhCCCCEEEEEEec-CCCcHHHHHHHHHHHHccchh-heeeeeehHh
Confidence            9999999743    222234444444333     2 66677776321 11111111   1112233344 8888766655


Q ss_pred             hHHhhc---cCCceeecCCCCHHHHHHHHhHhh
Q 045709          287 GVCGQM---EAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       287 ~v~~~~---~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      .+....   ..-..|.+++++.++|..+-.+..
T Consensus       402 slt~~~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        402 SLTIANTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             hcchhcccCccceeEecCCCCHHHHHHHHhhcc
Confidence            442211   122467899999999998877653

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.77  E-value=1.4e-07  Score=91.89  Aligned_cols=168  Identities=14%  Similarity=0.135  Sum_probs=96.1

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+..++.|.+++..++ .+.+.++|..|+||||+|+.+.+.+.- ...+..       ..+........|...-.
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gRL~HAyLFtGPpGvGKTTlAriLAKaLnC-e~~~~~-------~PCG~C~sCr~I~~G~h   87 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGRLHHAYLFTGTRGVGKTTLSRIFAKALNC-ETGVTS-------QPCGVCRACREIDEGRF   87 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC-ccCCCC-------CCCcccHHHHHHhcCCC
Confidence            458999999999999998765 456689999999999999999887721 111110       01111111222211000


Q ss_pred             CC---CccccCCCHHHHHHHHHHH----hcCCcEEEEEecCCCccc--cccccCCCCCCCCCCcEEEEeeCChh-HHhh-
Q 045709          223 LF---NESWKNKSMQEKAQEIFKI----LSKKKFVLLLDDIWELVD--LDQVGLPIPSRTSVSNKVVFTTREFG-VCGQ-  291 (337)
Q Consensus       223 ~~---~~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~--~~~l~~~l~~~~~g~s~IiiTtr~~~-v~~~-  291 (337)
                      ..   .+.......++..+.+...    ..++.-++|||+++....  ++.++..+..-... .++|+||.+.. +... 
T Consensus        88 ~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~-v~FILaTtd~~KIp~TI  166 (830)
T PRK07003         88 VDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPH-VKFILATTDPQKIPVTV  166 (830)
T ss_pred             ceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCC-eEEEEEECChhhccchh
Confidence            00   0000111122222222211    124556899999987643  55554444332334 78887777643 3222 


Q ss_pred             ccCCceeecCCCCHHHHHHHHhHhhCCCC
Q 045709          292 MEAHRSFKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       292 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      .+....+++.+++.++..+.+.+.+....
T Consensus       167 rSRCq~f~Fk~Ls~eeIv~~L~~Il~~Eg  195 (830)
T PRK07003        167 LSRCLQFNLKQMPAGHIVSHLERILGEER  195 (830)
T ss_pred             hhheEEEecCCcCHHHHHHHHHHHHHHcC
Confidence            22336789999999999999988775444

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.76  E-value=1e-07  Score=82.38  Aligned_cols=144  Identities=13%  Similarity=0.152  Sum_probs=86.0

Q ss_pred             cccc-hhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCC
Q 045709          146 VVGL-QLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLF  224 (337)
Q Consensus       146 ~vGr-~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~  224 (337)
                      ++|. ...+..+.++........+.|+|++|+|||+|++.+++...   .....+.|+++.....               
T Consensus        25 ~~~~n~~a~~~l~~~~~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~---~~~~~v~y~~~~~~~~---------------   86 (235)
T PRK08084         25 YPGDNDSLLAALQNALRQEHSGYIYLWSREGAGRSHLLHAACAELS---QRGRAVGYVPLDKRAW---------------   86 (235)
T ss_pred             ccCccHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH---hCCCeEEEEEHHHHhh---------------
Confidence            3462 33445555554445557899999999999999999998772   2234556665542100               


Q ss_pred             CccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCc---ccccccc-CCCCC-CCCCCcEEEEeeCCh---------hHHh
Q 045709          225 NESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWEL---VDLDQVG-LPIPS-RTSVSNKVVFTTREF---------GVCG  290 (337)
Q Consensus       225 ~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~---~~~~~l~-~~l~~-~~~g~s~IiiTtr~~---------~v~~  290 (337)
                             ...+    +.+.+.. --+|+|||++..   ..|+... ..+.. ...|+.++|+||+..         .+.+
T Consensus        87 -------~~~~----~~~~~~~-~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~S  154 (235)
T PRK08084         87 -------FVPE----VLEGMEQ-LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLAS  154 (235)
T ss_pred             -------hhHH----HHHHhhh-CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHH
Confidence                   0011    1111111 248999999754   2333221 11111 112314799999754         3345


Q ss_pred             hccCCceeecCCCCHHHHHHHHhHhhCCC
Q 045709          291 QMEAHRSFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       291 ~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      .+....++++++++.++-.+++.+++...
T Consensus       155 Rl~~g~~~~l~~~~~~~~~~~l~~~a~~~  183 (235)
T PRK08084        155 RLDWGQIYKLQPLSDEEKLQALQLRARLR  183 (235)
T ss_pred             HHhCCceeeecCCCHHHHHHHHHHHHHHc
Confidence            55566899999999999999998877443

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.75  E-value=1.6e-07  Score=86.59  Aligned_cols=164  Identities=20%  Similarity=0.241  Sum_probs=95.4

Q ss_pred             CccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH
Q 045709          144 PTVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL  210 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~  210 (337)
                      .++.|+++.++.|.+.+..             ...+-+.++|++|+|||++|+.+++..   ...|-     .+..    
T Consensus       122 ~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l---~~~~~-----~v~~----  189 (364)
T TIGR01242       122 EDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET---NATFI-----RVVG----  189 (364)
T ss_pred             HHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhC---CCCEE-----ecch----
Confidence            4578999999999887632             124568999999999999999999987   33332     2211    


Q ss_pred             HHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh-cCCcEEEEEecCCCcc----------------ccccccCCCC--C
Q 045709          211 EKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL-SKKKFVLLLDDIWELV----------------DLDQVGLPIP--S  271 (337)
Q Consensus       211 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~----------------~~~~l~~~l~--~  271 (337)
                      ..+....   .+         ........+.+.. ...+.+|+|||++...                .+..+...+.  .
T Consensus       190 ~~l~~~~---~g---------~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~  257 (364)
T TIGR01242       190 SELVRKY---IG---------EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFD  257 (364)
T ss_pred             HHHHHHh---hh---------HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCC
Confidence            1111110   00         0111222222222 3467899999997541                0111211111  1


Q ss_pred             CCCCCcEEEEeeCChhHH-----hhccCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHH
Q 045709          272 RTSVSNKVVFTTREFGVC-----GQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAE  332 (337)
Q Consensus       272 ~~~g~s~IiiTtr~~~v~-----~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~  332 (337)
                      ...+ ..||.||......     ........+.++..+.++..++|..++.......+-++..+++
T Consensus       258 ~~~~-v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~~~~la~  322 (364)
T TIGR01242       258 PRGN-VKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAK  322 (364)
T ss_pred             CCCC-EEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccCCHHHHHH
Confidence            1234 6788888754321     1111245789999999999999998876544233345555554

Many proteins may score above the trusted cutoff because an internal

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.74  E-value=3.1e-07  Score=89.86  Aligned_cols=172  Identities=15%  Similarity=0.096  Sum_probs=103.1

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCC---cEEEEEEecC---ccCHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHF---DFVIWVVVSR---DLQLEKIQESI  217 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f---~~~~wv~~~~---~~~~~~~~~~i  217 (337)
                      +.++|++..+..+...+.......+.|+|++|+||||||+.+++.. .....+   ...-|+.+..   ..+...+...+
T Consensus       154 ~~iiGqs~~~~~l~~~ia~~~~~~vlL~Gp~GtGKTTLAr~i~~~~-~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~~~l  232 (615)
T TIGR02903       154 SEIVGQERAIKALLAKVASPFPQHIILYGPPGVGKTTAARLALEEA-KKLKHTPFAEDAPFVEVDGTTLRWDPREVTNPL  232 (615)
T ss_pred             HhceeCcHHHHHHHHHHhcCCCCeEEEECCCCCCHHHHHHHHHHhh-hhccCCcccCCCCeEEEechhccCCHHHHhHHh
Confidence            4589999999998888866666789999999999999999998766 222222   1223443322   11222221111


Q ss_pred             ---------------HHHhCCCC----------------ccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCc--ccccc
Q 045709          218 ---------------AKKIGLFN----------------ESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWEL--VDLDQ  264 (337)
Q Consensus       218 ---------------~~~l~~~~----------------~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~  264 (337)
                                     +...+...                +..... ....+..+...+.+++++++-|+.|..  ..|+.
T Consensus       233 lg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~L-d~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~~  311 (615)
T TIGR02903       233 LGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGEL-DPLLQNKLLKVLEDKRVEFSSSYYDPDDPNVPKY  311 (615)
T ss_pred             cCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccC-CHHHHHHHHHHHhhCeEEeecceeccCCcccchh
Confidence                           11111110                000111 123566788888888888887766654  34666


Q ss_pred             ccCCCCCCCCCCcEEEE--eeCChhH-Hhhc-cCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          265 VGLPIPSRTSVSNKVVF--TTREFGV-CGQM-EAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       265 l~~~l~~~~~g~s~Iii--Ttr~~~v-~~~~-~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      +...+....+. ..+++  ||++... ...+ +....+.+.+++.+|.+.++.+.+..
T Consensus       312 ik~~~~~~~~~-~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~  368 (615)
T TIGR02903       312 IKKLFEEGAPA-DFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEK  368 (615)
T ss_pred             hhhhcccCccc-eEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHH
Confidence            66556555444 44555  5664332 1111 12246789999999999999998754

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.

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=98.72  E-value=3.5e-08  Score=85.38  Aligned_cols=93  Identities=22%  Similarity=0.214  Sum_probs=63.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc--cCHHHHHHHHHHHhCCCCccccCCC------HH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD--LQLEKIQESIAKKIGLFNESWKNKS------MQ  234 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~------~~  234 (337)
                      .....++|+|++|+|||||++.+++...  ..+|+.++|+.+...  .++.++++.+...+-...-  ....      ..
T Consensus        14 ~~Gqr~~I~G~~G~GKTTLlr~I~n~l~--~~~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~--~~~~~~~~~~~~   89 (249)
T cd01128          14 GKGQRGLIVAPPKAGKTTLLQSIANAIT--KNHPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTF--DEPPERHVQVAE   89 (249)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhccc--cccCCeEEEEEEccCCCccHHHHHHHhccEEEEecC--CCCHHHHHHHHH
Confidence            3567899999999999999999999883  348999999997766  7889999888332211110  1111      11


Q ss_pred             HHHHHHHHH-hcCCcEEEEEecCCCc
Q 045709          235 EKAQEIFKI-LSKKKFVLLLDDIWEL  259 (337)
Q Consensus       235 ~~~~~l~~~-l~~k~~LlVlDdv~~~  259 (337)
                      ........+ -.+++.+|++|++...
T Consensus        90 ~~~~~a~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          90 MVLEKAKRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHHHHHHHCCCCEEEEEECHHHh
Confidence            112222222 2478999999998743

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.

>PLN03025 replication factor C subunit; Provisional

Probab=98.68  E-value=1.7e-07  Score=84.89  Aligned_cols=158  Identities=12%  Similarity=0.149  Sum_probs=91.4

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCc-EEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFD-FVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.++.+..|..++..++.+.+.++|++|+||||+|..+++...  ...|. .++-++.+...... ..+.++..+.
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~--~~~~~~~~~eln~sd~~~~~-~vr~~i~~~~   89 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELL--GPNYKEAVLELNASDDRGID-VVRNKIKMFA   89 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHh--cccCccceeeecccccccHH-HHHHHHHHHH
Confidence            35789999888888888777667788999999999999999998862  12222 12222222222211 1222221111


Q ss_pred             CCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc--cccccCCCCCCCCCCcEEEEeeCCh-hHHhhc-cCCcee
Q 045709          223 LFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD--LDQVGLPIPSRTSVSNKVVFTTREF-GVCGQM-EAHRSF  298 (337)
Q Consensus       223 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~--~~~l~~~l~~~~~g~s~IiiTtr~~-~v~~~~-~~~~~~  298 (337)
                      ....   .            .-.++.-+++||+++....  ...+...+...... +++++++... .+...+ +....+
T Consensus        90 ~~~~---~------------~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~-t~~il~~n~~~~i~~~L~SRc~~i  153 (319)
T PLN03025         90 QKKV---T------------LPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNT-TRFALACNTSSKIIEPIQSRCAIV  153 (319)
T ss_pred             hccc---c------------CCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCC-ceEEEEeCCccccchhHHHhhhcc
Confidence            0000   0            0013466999999987532  22232222222234 6777766542 221111 123578


Q ss_pred             ecCCCCHHHHHHHHhHhhCCCC
Q 045709          299 KVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       299 ~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      ++++++.++....+...+....
T Consensus       154 ~f~~l~~~~l~~~L~~i~~~eg  175 (319)
T PLN03025        154 RFSRLSDQEILGRLMKVVEAEK  175 (319)
T ss_pred             cCCCCCHHHHHHHHHHHHHHcC
Confidence            9999999999999988775433

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.67  E-value=4.1e-07  Score=82.40  Aligned_cols=156  Identities=11%  Similarity=0.147  Sum_probs=90.9

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEe--cCccCHHHHHHHHHHHh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVV--SRDLQLEKIQESIAKKI  221 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~--~~~~~~~~~~~~i~~~l  221 (337)
                      .+++|++..++.+..++.....+.+.++|.+|+||||+++.+.+...  ...+. ..++.+  +....... ....+..+
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~~~~~~ll~G~~G~GKt~~~~~l~~~l~--~~~~~-~~~i~~~~~~~~~~~~-~~~~i~~~   92 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEKNMPHLLFAGPPGTGKTTAALALARELY--GEDWR-ENFLELNASDERGIDV-IRNKIKEF   92 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHc--CCccc-cceEEeccccccchHH-HHHHHHHH
Confidence            45899999999999998776666789999999999999999998872  12221 112222  22211111 11111111


Q ss_pred             CCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCCh-hHHhhc-cCCce
Q 045709          222 GLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREF-GVCGQM-EAHRS  297 (337)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~-~v~~~~-~~~~~  297 (337)
                      ....+                .....+-++++|+++...  ....+...+...... +.+|+++... .+...+ .....
T Consensus        93 ~~~~~----------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~-~~lIl~~~~~~~l~~~l~sr~~~  155 (319)
T PRK00440         93 ARTAP----------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQN-TRFILSCNYSSKIIDPIQSRCAV  155 (319)
T ss_pred             HhcCC----------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCC-CeEEEEeCCccccchhHHHHhhe
Confidence            10000                001235689999987652  233333333333344 6777776432 221111 12346


Q ss_pred             eecCCCCHHHHHHHHhHhhCCCC
Q 045709          298 FKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       298 ~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      +++++++.++....+...+....
T Consensus       156 ~~~~~l~~~ei~~~l~~~~~~~~  178 (319)
T PRK00440        156 FRFSPLKKEAVAERLRYIAENEG  178 (319)
T ss_pred             eeeCCCCHHHHHHHHHHHHHHcC
Confidence            89999999999999988775433

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.66  E-value=4.1e-07  Score=86.74  Aligned_cols=166  Identities=14%  Similarity=0.089  Sum_probs=96.3

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+.....|.+++..+.. +.+.++|++|+||||+|+.+++... -.+.+...+|.|.+..        .+.....
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~-c~~~~~~~cg~C~sc~--------~i~~~~h   84 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVN-CSGEDPKPCGECESCL--------AVRRGAH   84 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHh-ccCCCCCCCCcChhhH--------HHhcCCC
Confidence            4579999999999988877654 4569999999999999999988872 1122333344432210        0100000


Q ss_pred             CCC---ccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEeeCC-hhHHhh
Q 045709          223 LFN---ESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTTRE-FGVCGQ  291 (337)
Q Consensus       223 ~~~---~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTtr~-~~v~~~  291 (337)
                      ...   ........+. .+.+.+.+     .+++-++|||+++..  ..++.+...+...... +.+|++|.. ..+...
T Consensus        85 ~dv~el~~~~~~~vd~-iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~-t~~Il~t~~~~kl~~~  162 (504)
T PRK14963         85 PDVLEIDAASNNSVED-VRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEH-VIFILATTEPEKMPPT  162 (504)
T ss_pred             CceEEecccccCCHHH-HHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCC-EEEEEEcCChhhCChH
Confidence            000   0001111222 22233322     345679999999865  3355554444433334 555555543 333222


Q ss_pred             c-cCCceeecCCCCHHHHHHHHhHhhCCCC
Q 045709          292 M-EAHRSFKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       292 ~-~~~~~~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      + +....+++.+++.++....+.+.+-..+
T Consensus       163 I~SRc~~~~f~~ls~~el~~~L~~i~~~eg  192 (504)
T PRK14963        163 ILSRTQHFRFRRLTEEEIAGKLRRLLEAEG  192 (504)
T ss_pred             HhcceEEEEecCCCHHHHHHHHHHHHHHcC
Confidence            2 2346789999999999999998875443

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=98.65  E-value=1.6e-07  Score=92.92  Aligned_cols=143  Identities=22%  Similarity=0.307  Sum_probs=85.6

Q ss_pred             CccccchhhHH---HHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHH
Q 045709          144 PTVVGLQLTFD---RVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKK  220 (337)
Q Consensus       144 ~~~vGr~~~~~---~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  220 (337)
                      .+|+|++..+.   .+.+.+.....+.+.++|++|+||||||+.+++..   ..+|.   .++... ....         
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~~~~~slLL~GPpGtGKTTLA~aIA~~~---~~~f~---~lna~~-~~i~---------   91 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKADRVGSLILYGPPGVGKTTLARIIANHT---RAHFS---SLNAVL-AGVK---------   91 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHh---cCcce---eehhhh-hhhH---------
Confidence            45789888774   56666666777788999999999999999999876   34442   111110 0000         


Q ss_pred             hCCCCccccCCCHHHHHHHHHHHh--cCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEE--eeCChh--HHhh-
Q 045709          221 IGLFNESWKNKSMQEKAQEIFKIL--SKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVF--TTREFG--VCGQ-  291 (337)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~Iii--Ttr~~~--v~~~-  291 (337)
                                 +..+........+  .+++.+|+|||++..  ..++.+...+   ..+ +.++|  ||.+..  +... 
T Consensus        92 -----------dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~l---E~g-~IiLI~aTTenp~~~l~~aL  156 (725)
T PRK13341         92 -----------DLRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWV---ENG-TITLIGATTENPYFEVNKAL  156 (725)
T ss_pred             -----------HHHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHh---cCc-eEEEEEecCCChHhhhhhHh
Confidence                       0111112222222  246779999999754  3344443322   235 55555  344432  2111 


Q ss_pred             ccCCceeecCCCCHHHHHHHHhHhhC
Q 045709          292 MEAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       292 ~~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      .+....+.+++|+.++...++.+.+.
T Consensus       157 ~SR~~v~~l~pLs~edi~~IL~~~l~  182 (725)
T PRK13341        157 VSRSRLFRLKSLSDEDLHQLLKRALQ  182 (725)
T ss_pred             hccccceecCCCCHHHHHHHHHHHHH
Confidence            12245789999999999999988764

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.65  E-value=7.7e-07  Score=81.96  Aligned_cols=164  Identities=16%  Similarity=0.195  Sum_probs=92.2

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+..++.+.+.+..++. +.+.++|++|+||||+|+.+++... ......       ..+.........+.....
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~-c~~~~~-------~~pc~~c~~c~~~~~~~~   87 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLN-CQNGIT-------SNPCRKCIICKEIEKGLC   87 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhc-CCCCCC-------CCCCCCCHHHHHHhcCCC
Confidence            4589999999999998877654 5678999999999999999998772 111110       000000011111111100


Q ss_pred             CCC---ccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCCh-hHHhh
Q 045709          223 LFN---ESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREF-GVCGQ  291 (337)
Q Consensus       223 ~~~---~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~-~v~~~  291 (337)
                      ...   +.......++ .+.+.+.+     .++.-++|+|+++...  .++.+...+...... .++|++|.+. .+...
T Consensus        88 ~d~~~~~~~~~~~v~~-ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~-~~fIl~t~~~~~l~~t  165 (363)
T PRK14961         88 LDLIEIDAASRTKVEE-MREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQH-IKFILATTDVEKIPKT  165 (363)
T ss_pred             CceEEecccccCCHHH-HHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCC-eEEEEEcCChHhhhHH
Confidence            000   0000011111 22222222     2345699999998764  344454444333344 6777766543 33322


Q ss_pred             c-cCCceeecCCCCHHHHHHHHhHhhC
Q 045709          292 M-EAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       292 ~-~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      + +....+++.+++.++..+.+...+.
T Consensus       166 I~SRc~~~~~~~l~~~el~~~L~~~~~  192 (363)
T PRK14961        166 ILSRCLQFKLKIISEEKIFNFLKYILI  192 (363)
T ss_pred             HHhhceEEeCCCCCHHHHHHHHHHHHH
Confidence            2 2346789999999999988887664

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.65  E-value=3.4e-07  Score=90.80  Aligned_cols=164  Identities=14%  Similarity=0.119  Sum_probs=91.8

Q ss_pred             CccccchhhHHHHHHHHhcCCCe-EEEEEecCCCcHHHHHHHHHHhhccCCCCCcE-EEEEEecCccCHHHHHHHHHHHh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAG-IVGLYGMGGVGKTTLLTQINNRFFDTPNHFDF-VIWVVVSRDLQLEKIQESIAKKI  221 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~i~~~l  221 (337)
                      .+++|.+..+..|.+++..++.. .+.++|+.|+||||+|+.+++.... ...... .|..        ......+....
T Consensus        16 ddIIGQe~Iv~~LknaI~~~rl~HAyLFtGPpGtGKTTLARiLAk~Lnc-e~~~~~~pCg~--------C~sC~~i~~g~   86 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQRLHHAYLFTGTRGVGKTSLARLFAKGLNC-EQGVTATPCGV--------CSSCVEIAQGR   86 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHhccC-ccCCCCCCCCC--------chHHHHHhcCC
Confidence            45899999999999998876654 4589999999999999999988721 111100 0000        00111111100


Q ss_pred             CCC---CccccCCCHHHHHHHHHHH-----hcCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEeeCC-hhHHh
Q 045709          222 GLF---NESWKNKSMQEKAQEIFKI-----LSKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTTRE-FGVCG  290 (337)
Q Consensus       222 ~~~---~~~~~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTtr~-~~v~~  290 (337)
                      ...   .+.......+. ++.+.+.     ..++.-++|||+++..  ..++.++..+-.-... .++|++|.+ ..+..
T Consensus        87 ~~DviEidAas~~kVDd-IReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~-vrFILaTTe~~kLl~  164 (944)
T PRK14949         87 FVDLIEVDAASRTKVDD-TRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEH-VKFLLATTDPQKLPV  164 (944)
T ss_pred             CceEEEeccccccCHHH-HHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCC-eEEEEECCCchhchH
Confidence            000   00000011111 1122221     2356779999999865  3344444333322233 566655544 44432


Q ss_pred             h-ccCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          291 Q-MEAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       291 ~-~~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      . ......|++.+|+.++....+.+.+..
T Consensus       165 TIlSRCq~f~fkpLs~eEI~~~L~~il~~  193 (944)
T PRK14949        165 TVLSRCLQFNLKSLTQDEIGTQLNHILTQ  193 (944)
T ss_pred             HHHHhheEEeCCCCCHHHHHHHHHHHHHH
Confidence            2 223468999999999999999887643

>PRK04195 replication factor C large subunit; Provisional

Probab=98.64  E-value=3e-07  Score=87.87  Aligned_cols=151  Identities=17%  Similarity=0.216  Sum_probs=92.5

Q ss_pred             CccccchhhHHHHHHHHhcC----CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEE----HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAK  219 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~----~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  219 (337)
                      .+++|+++.++.|..|+...    ..+.+.|+|++|+||||+|+.+++..   .  ++ .+-++.+...+.. ....++.
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el---~--~~-~ielnasd~r~~~-~i~~~i~   86 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDY---G--WE-VIELNASDQRTAD-VIERVAG   86 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc---C--CC-EEEEcccccccHH-HHHHHHH
Confidence            45899999999999988642    26789999999999999999999987   1  32 2333444332222 2223332


Q ss_pred             HhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc------cccccCCCCCCCCCCcEEEEeeCChh-HHh-h
Q 045709          220 KIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD------LDQVGLPIPSRTSVSNKVVFTTREFG-VCG-Q  291 (337)
Q Consensus       220 ~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~------~~~l~~~l~~~~~g~s~IiiTtr~~~-v~~-~  291 (337)
                      ......                .....++-+||||+++....      +..+...+..  .+ +.||+|+.+.. ... .
T Consensus        87 ~~~~~~----------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~-~~iIli~n~~~~~~~k~  147 (482)
T PRK04195         87 EAATSG----------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIKK--AK-QPIILTANDPYDPSLRE  147 (482)
T ss_pred             HhhccC----------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHHc--CC-CCEEEeccCccccchhh
Confidence            221110                00113677999999987532      3333333321  23 45666664422 111 1


Q ss_pred             c-cCCceeecCCCCHHHHHHHHhHhhCCCC
Q 045709          292 M-EAHRSFKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       292 ~-~~~~~~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      + .....+.+.+++.++....+.+.+....
T Consensus       148 Lrsr~~~I~f~~~~~~~i~~~L~~i~~~eg  177 (482)
T PRK04195        148 LRNACLMIEFKRLSTRSIVPVLKRICRKEG  177 (482)
T ss_pred             HhccceEEEecCCCHHHHHHHHHHHHHHcC
Confidence            1 2346789999999999999888775443

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.62  E-value=5.4e-07  Score=79.22  Aligned_cols=156  Identities=15%  Similarity=0.123  Sum_probs=81.4

Q ss_pred             ccccchhhHHHHHHHHh---------------cCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccC
Q 045709          145 TVVGLQLTFDRVWRCLM---------------EEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQ  209 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~---------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~  209 (337)
                      .++|.++.+..|.+...               .+....+.++|++|+||||+|+.+++.... .+......++.++..  
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~-~~~~~~~~~v~~~~~--   83 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKE-MNVLSKGHLIEVERA--   83 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHh-cCcccCCceEEecHH--
Confidence            36888777666543321               013456889999999999999999887621 111111122333221  


Q ss_pred             HHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc----------ccccccCCCCCCCCCCcEE
Q 045709          210 LEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV----------DLDQVGLPIPSRTSVSNKV  279 (337)
Q Consensus       210 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------~~~~l~~~l~~~~~g~s~I  279 (337)
                        ++.    ...       ...........+ +..  ...+|+||+++...          ..+.+...+...... ..+
T Consensus        84 --~l~----~~~-------~g~~~~~~~~~~-~~a--~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~-~~v  146 (261)
T TIGR02881        84 --DLV----GEY-------IGHTAQKTREVI-KKA--LGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNE-FVL  146 (261)
T ss_pred             --Hhh----hhh-------ccchHHHHHHHH-Hhc--cCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCC-EEE
Confidence              111    111       011111111222 221  23489999997532          223333333333233 455


Q ss_pred             EEeeCChhHHh------hc-c-CCceeecCCCCHHHHHHHHhHhhCCCC
Q 045709          280 VFTTREFGVCG------QM-E-AHRSFKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       280 iiTtr~~~v~~------~~-~-~~~~~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      |+++...+...      .+ + ....+++++++.++-.+++.+.+....
T Consensus       147 ila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~~~~  195 (261)
T TIGR02881       147 ILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVKERE  195 (261)
T ss_pred             EecCCcchhHHHHhcChHHHhccceEEEECCCCHHHHHHHHHHHHHHcC
Confidence            55654433211      11 1 134689999999999999998875443

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.

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.58  E-value=9.6e-07  Score=85.16  Aligned_cols=167  Identities=13%  Similarity=0.119  Sum_probs=94.8

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+.....|.+++..++ .+.+.++|+.|+||||+|+.+++... -.....      . ...........+...-.
T Consensus        15 ddVIGQe~vv~~L~~aI~~grl~HAyLF~GPpGvGKTTlAriLAK~Ln-C~~~~~------~-~pCg~C~sC~~I~~g~h   86 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGRLHHAYLFTGTRGVGKTTIARILAKCLN-CETGVT------S-TPCEVCATCKAVNEGRF   86 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhC-CCcCCC------C-CCCccCHHHHHHhcCCC
Confidence            458999999999999998765 46779999999999999999988762 111110      0 00111111111111000


Q ss_pred             CCC---ccccCCCHHHHHHHHHHH-----hcCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCCh-hHH-h
Q 045709          223 LFN---ESWKNKSMQEKAQEIFKI-----LSKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREF-GVC-G  290 (337)
Q Consensus       223 ~~~---~~~~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~-~v~-~  290 (337)
                      ..-   +.......++.. .+...     ..++.-++|||+++...  ....+...+.....+ .++|++|.+. .+. .
T Consensus        87 pDviEIDAAs~~~VddIR-eli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~-v~FILaTtd~~kIp~T  164 (702)
T PRK14960         87 IDLIEIDAASRTKVEDTR-ELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEH-VKFLFATTDPQKLPIT  164 (702)
T ss_pred             CceEEecccccCCHHHHH-HHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCC-cEEEEEECChHhhhHH
Confidence            000   000011222221 22221     13566699999998653  344444333333344 6777777653 222 1


Q ss_pred             hccCCceeecCCCCHHHHHHHHhHhhCCCC
Q 045709          291 QMEAHRSFKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       291 ~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      ..+....+++.+|+.++....+.+.+....
T Consensus       165 IlSRCq~feFkpLs~eEI~k~L~~Il~kEg  194 (702)
T PRK14960        165 VISRCLQFTLRPLAVDEITKHLGAILEKEQ  194 (702)
T ss_pred             HHHhhheeeccCCCHHHHHHHHHHHHHHcC
Confidence            123346889999999999999988775443

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.57  E-value=8.2e-07  Score=85.46  Aligned_cols=171  Identities=15%  Similarity=0.117  Sum_probs=93.8

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCC-CcEEEEEEecCccCHHHHHHHHHHHh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNH-FDFVIWVVVSRDLQLEKIQESIAKKI  221 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~-f~~~~wv~~~~~~~~~~~~~~i~~~l  221 (337)
                      .++||.+..++.|.+++..++. +.+.++|..|+||||+|+.+.+.+.-.... -....    +...........|...-
T Consensus        16 ddVIGQe~vv~~L~~al~~gRLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~----~~PCG~C~sC~~I~aG~   91 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQRLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGIT----AQPCGQCRACTEIDAGR   91 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCC----CCCCcccHHHHHHHcCC
Confidence            4589999999999999987764 466899999999999999998877210000 00000    00011111111111100


Q ss_pred             CCCC---ccccCCCHHHHHHHHHHH----hcCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEeeC-ChhHHhh
Q 045709          222 GLFN---ESWKNKSMQEKAQEIFKI----LSKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTTR-EFGVCGQ  291 (337)
Q Consensus       222 ~~~~---~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTtr-~~~v~~~  291 (337)
                      ....   +.......++..+.+...    ..++.-++|||+++..  ..++.++..+..-... +.+|++|. ...+...
T Consensus        92 hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~-v~FILaTtep~kLlpT  170 (700)
T PRK12323         92 FVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEH-VKFILATTDPQKIPVT  170 (700)
T ss_pred             CCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCC-ceEEEEeCChHhhhhH
Confidence            0000   000112233322222221    1355669999999865  3344554444332234 56555554 4444322


Q ss_pred             c-cCCceeecCCCCHHHHHHHHhHhhCCC
Q 045709          292 M-EAHRSFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       292 ~-~~~~~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      + +....+.+.+++.++..+.+.+.+...
T Consensus       171 IrSRCq~f~f~~ls~eei~~~L~~Il~~E  199 (700)
T PRK12323        171 VLSRCLQFNLKQMPPGHIVSHLDAILGEE  199 (700)
T ss_pred             HHHHHHhcccCCCChHHHHHHHHHHHHHc
Confidence            2 223678999999999999988776443

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.57  E-value=1.1e-06  Score=84.23  Aligned_cols=153  Identities=16%  Similarity=0.149  Sum_probs=90.3

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCC------------------CCcEEEEEEe
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPN------------------HFDFVIWVVV  204 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~------------------~f~~~~wv~~  204 (337)
                      .+++|.+..+..|.+.+..++. +.+.++|+.|+||||+|+.+++...-...                  .|...++++.
T Consensus        16 ~diiGq~~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dlieida   95 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLIEIDA   95 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceEEeec
Confidence            4589999999999999977654 45789999999999999999986621000                  1111222211


Q ss_pred             cCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHH-hcCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEE
Q 045709          205 SRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKI-LSKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVF  281 (337)
Q Consensus       205 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~Iii  281 (337)
                      .....+.                    +..++...+... ..+++-++|+|+++...  .++.+...+...... +.+|+
T Consensus        96 as~~gvd--------------------~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~-v~fIL  154 (546)
T PRK14957         96 ASRTGVE--------------------ETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEY-VKFIL  154 (546)
T ss_pred             ccccCHH--------------------HHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCC-ceEEE
Confidence            1111111                    111122222211 23566799999997653  344454444433334 66665


Q ss_pred             eeC-ChhHHhh-ccCCceeecCCCCHHHHHHHHhHhhC
Q 045709          282 TTR-EFGVCGQ-MEAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       282 Ttr-~~~v~~~-~~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      +|. ...+... .+....+++.+++.++....+.+.+.
T Consensus       155 ~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~  192 (546)
T PRK14957        155 ATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILA  192 (546)
T ss_pred             EECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHH
Confidence            444 3333322 22346889999999998888887553

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.56  E-value=1e-06  Score=83.34  Aligned_cols=165  Identities=16%  Similarity=0.109  Sum_probs=89.3

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+.....|...+.++.. +.+.++|++|+||||+|+.+++.... .....   +    .+.........+.....
T Consensus        14 ~divGq~~i~~~L~~~i~~~~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~-~~~~~---~----~pc~~c~~c~~i~~g~~   85 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNSISHAYIFAGPRGTGKTTVARILAKSLNC-ENRKG---V----EPCNECRACRSIDEGTF   85 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcc-ccCCC---C----CCCcccHHHHHHhcCCC
Confidence            4589999888888888877665 45889999999999999999887621 11000   0    00000001111100000


Q ss_pred             CCC---ccccCCCHHHHHHHHHHH-----hcCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEeeCC-hhHHhh
Q 045709          223 LFN---ESWKNKSMQEKAQEIFKI-----LSKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTTRE-FGVCGQ  291 (337)
Q Consensus       223 ~~~---~~~~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTtr~-~~v~~~  291 (337)
                      ...   ........+. .+.+.+.     ..+++-++|+|+++..  ...+.+...+...... ..+|++|.+ ..+...
T Consensus        86 ~dv~el~aa~~~gid~-iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~-vv~Ilattn~~kl~~~  163 (472)
T PRK14962         86 MDVIELDAASNRGIDE-IRKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSH-VVFVLATTNLEKVPPT  163 (472)
T ss_pred             CccEEEeCcccCCHHH-HHHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCc-EEEEEEeCChHhhhHH
Confidence            000   0000111111 1122222     2245669999999754  2344444444332223 455545443 333332


Q ss_pred             c-cCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          292 M-EAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       292 ~-~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      + +....+.+.+++.++....+.+.+..
T Consensus       164 L~SR~~vv~f~~l~~~el~~~L~~i~~~  191 (472)
T PRK14962        164 IISRCQVIEFRNISDELIIKRLQEVAEA  191 (472)
T ss_pred             HhcCcEEEEECCccHHHHHHHHHHHHHH
Confidence            2 23467899999999999998887743

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.55  E-value=3.1e-07  Score=83.26  Aligned_cols=92  Identities=20%  Similarity=0.228  Sum_probs=61.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc--CHHHHHHHHHHHhCCCCccccCCCHH------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL--QLEKIQESIAKKIGLFNESWKNKSMQ------  234 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~------  234 (337)
                      ......+|+|++|+|||||++.+++...  ..+|+.++|+.+.+..  .+.++++.+...+-.+.  ++.....      
T Consensus       167 GkGQR~lIvgppGvGKTTLaK~Ian~I~--~nhFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st--~d~~~~~~~~~a~  242 (416)
T PRK09376        167 GKGQRGLIVAPPKAGKTVLLQNIANSIT--TNHPEVHLIVLLIDERPEEVTDMQRSVKGEVVAST--FDEPAERHVQVAE  242 (416)
T ss_pred             ccCceEEEeCCCCCChhHHHHHHHHHHH--hhcCCeEEEEEEeCCchhHHHHHHHHhcCcEEEEC--CCCCHHHHHHHHH
Confidence            3567889999999999999999999983  3489999999998876  67777777763221111  1111111      


Q ss_pred             HHHHHHHHH-hcCCcEEEEEecCCC
Q 045709          235 EKAQEIFKI-LSKKKFVLLLDDIWE  258 (337)
Q Consensus       235 ~~~~~l~~~-l~~k~~LlVlDdv~~  258 (337)
                      ........+ ..++..+|++|++..
T Consensus       243 ~~ie~Ae~~~e~G~dVlL~iDsItR  267 (416)
T PRK09376        243 MVIEKAKRLVEHGKDVVILLDSITR  267 (416)
T ss_pred             HHHHHHHHHHHcCCCEEEEEEChHH
Confidence            111111111 368999999999864

>PRK05642 DNA replication initiation factor; Validated

Probab=98.55  E-value=6.5e-07  Score=77.25  Aligned_cols=124  Identities=16%  Similarity=0.302  Sum_probs=76.0

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL  244 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  244 (337)
                      ...+.|+|.+|+|||.|++.+++...   ..-..++|++...      +...                    ...+.+.+
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~---~~~~~v~y~~~~~------~~~~--------------------~~~~~~~~   95 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFE---QRGEPAVYLPLAE------LLDR--------------------GPELLDNL   95 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH---hCCCcEEEeeHHH------HHhh--------------------hHHHHHhh
Confidence            36789999999999999999988762   2224566765432      1110                    01122233


Q ss_pred             cCCcEEEEEecCCCc---ccccc-ccCCCCC-CCCCCcEEEEeeCChh---------HHhhccCCceeecCCCCHHHHHH
Q 045709          245 SKKKFVLLLDDIWEL---VDLDQ-VGLPIPS-RTSVSNKVVFTTREFG---------VCGQMEAHRSFKVECLRYDDAWK  310 (337)
Q Consensus       245 ~~k~~LlVlDdv~~~---~~~~~-l~~~l~~-~~~g~s~IiiTtr~~~---------v~~~~~~~~~~~l~~L~~~ea~~  310 (337)
                      .+-. +||+||+...   ..|.. +...+.. ..+| ..+|+||+...         +.+.+....++++++++.++-..
T Consensus        96 ~~~d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g-~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~  173 (234)
T PRK05642         96 EQYE-LVCLDDLDVIAGKADWEEALFHLFNRLRDSG-RRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLR  173 (234)
T ss_pred             hhCC-EEEEechhhhcCChHHHHHHHHHHHHHHhcC-CEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHH
Confidence            2222 7889999743   23433 2222211 1235 68888887533         23333445678999999999999


Q ss_pred             HHhHhhCCC
Q 045709          311 LFEQKVGAD  319 (337)
Q Consensus       311 Lf~~~~~~~  319 (337)
                      ++++++...
T Consensus       174 il~~ka~~~  182 (234)
T PRK05642        174 ALQLRASRR  182 (234)
T ss_pred             HHHHHHHHc
Confidence            999776443

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.53  E-value=2.9e-06  Score=78.79  Aligned_cols=165  Identities=21%  Similarity=0.266  Sum_probs=95.5

Q ss_pred             CccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH
Q 045709          144 PTVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL  210 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~  210 (337)
                      .++.|+++.+++|.+.+..             ...+-|.++|++|+|||++|+.+++..   ...|     +.++.    
T Consensus       131 ~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~---~~~~-----i~v~~----  198 (389)
T PRK03992        131 EDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET---NATF-----IRVVG----  198 (389)
T ss_pred             HHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHh---CCCE-----EEeeh----
Confidence            4578999999998876632             235668999999999999999999887   3332     22211    


Q ss_pred             HHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh-cCCcEEEEEecCCCcc----------c------cccccCCCC--C
Q 045709          211 EKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL-SKKKFVLLLDDIWELV----------D------LDQVGLPIP--S  271 (337)
Q Consensus       211 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~----------~------~~~l~~~l~--~  271 (337)
                      ..+.    ....       .. .......+.... ...+.+|+|||++...          +      +..+...+.  .
T Consensus       199 ~~l~----~~~~-------g~-~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~  266 (389)
T PRK03992        199 SELV----QKFI-------GE-GARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFD  266 (389)
T ss_pred             HHHh----Hhhc-------cc-hHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccC
Confidence            1111    1110       11 112222233322 3467899999997541          0      111111111  1


Q ss_pred             CCCCCcEEEEeeCChhHHh-h-c---cCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHHH
Q 045709          272 RTSVSNKVVFTTREFGVCG-Q-M---EAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAET  333 (337)
Q Consensus       272 ~~~g~s~IiiTtr~~~v~~-~-~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~  333 (337)
                      ...+ ..||.||....... . .   .....+.+++.+.++-.++|+.++........-++..+++.
T Consensus       267 ~~~~-v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~~~~~la~~  332 (389)
T PRK03992        267 PRGN-VKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAEL  332 (389)
T ss_pred             CCCC-EEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcCCHHHHHHH
Confidence            1123 56777776543321 1 1   12357899999999999999988765443333456666543

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.53  E-value=9.4e-07  Score=89.53  Aligned_cols=155  Identities=14%  Similarity=0.152  Sum_probs=90.5

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCC---CCCcEEEE-EEecCccCHHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTP---NHFDFVIW-VVVSRDLQLEKIQESIAK  219 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~w-v~~~~~~~~~~~~~~i~~  219 (337)
                      ..++||++++.+++..|......-+.++|.+|+||||+|+.++.......   .-.+..+| +..+.      +    . 
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~------l----~-  255 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGL------L----Q-  255 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhh------h----h-
Confidence            45899999999999998877677778999999999999999998872110   01112222 22211      0    0 


Q ss_pred             HhCCCCccccCCCHHHHHHHHHHHh--cCCcEEEEEecCCCcc-------ccc--cccCCCCCCCCCCcEEEEeeCChhH
Q 045709          220 KIGLFNESWKNKSMQEKAQEIFKIL--SKKKFVLLLDDIWELV-------DLD--QVGLPIPSRTSVSNKVVFTTREFGV  288 (337)
Q Consensus       220 ~l~~~~~~~~~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~~~-------~~~--~l~~~l~~~~~g~s~IiiTtr~~~v  288 (337)
                        ....   .....+...+.+...+  .+++.+|++|+++...       ..+  .+..  |...+|.-++|-||...+.
T Consensus       256 --ag~~---~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lk--p~l~~G~l~~IgaTT~~e~  328 (852)
T TIGR03345       256 --AGAS---VKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLK--PALARGELRTIAATTWAEY  328 (852)
T ss_pred             --cccc---cchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhh--HHhhCCCeEEEEecCHHHH
Confidence              0000   0111222333333322  2468999999997642       111  1222  2223443566666664332


Q ss_pred             Hhh-------ccCCceeecCCCCHHHHHHHHhHhh
Q 045709          289 CGQ-------MEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       289 ~~~-------~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ...       ......+.+++++.++..++|....
T Consensus       329 ~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~  363 (852)
T TIGR03345       329 KKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLA  363 (852)
T ss_pred             hhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHH
Confidence            111       1123589999999999999975443

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.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.52  E-value=3e-06  Score=82.79  Aligned_cols=171  Identities=16%  Similarity=0.202  Sum_probs=108.4

Q ss_pred             CCCCCccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc-cCHHHHHHHHH
Q 045709          140 RPLPPTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD-LQLEKIQESIA  218 (337)
Q Consensus       140 ~~~~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~  218 (337)
                      |+.+...+-|....+.+.+.   .+.+.+.|..+.|.|||||+..+...    ...-..+.|.+++.. .++..++..++
T Consensus        15 P~~~~~~v~R~rL~~~L~~~---~~~RL~li~APAGfGKttl~aq~~~~----~~~~~~v~Wlslde~dndp~rF~~yLi   87 (894)
T COG2909          15 PVRPDNYVVRPRLLDRLRRA---NDYRLILISAPAGFGKTTLLAQWREL----AADGAAVAWLSLDESDNDPARFLSYLI   87 (894)
T ss_pred             CCCcccccccHHHHHHHhcC---CCceEEEEeCCCCCcHHHHHHHHHHh----cCcccceeEeecCCccCCHHHHHHHHH
Confidence            33345567777655554322   47899999999999999999999873    345567999998754 56788888888


Q ss_pred             HHhCCCCccc-----------cCCCHHHHHHHHHHHhc--CCcEEEEEecCCCccc--cc-cccCCCCCCCCCCcEEEEe
Q 045709          219 KKIGLFNESW-----------KNKSMQEKAQEIFKILS--KKKFVLLLDDIWELVD--LD-QVGLPIPSRTSVSNKVVFT  282 (337)
Q Consensus       219 ~~l~~~~~~~-----------~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~--~~-~l~~~l~~~~~g~s~IiiT  282 (337)
                      ..++...+..           ...+...+...+..-+.  .++.+|||||..-..+  +. .+...+.....+ -..|+|
T Consensus        88 ~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~-l~lvv~  166 (894)
T COG2909          88 AALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPEN-LTLVVT  166 (894)
T ss_pred             HHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCC-eEEEEE
Confidence            8886432211           12234445555555443  4689999999875422  11 122222333345 899999


Q ss_pred             eCChhHHhhcc---CCceeec----CCCCHHHHHHHHhHhhCC
Q 045709          283 TREFGVCGQME---AHRSFKV----ECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       283 tr~~~v~~~~~---~~~~~~l----~~L~~~ea~~Lf~~~~~~  318 (337)
                      ||+..-.....   .+..+++    -.|+.+|+-++|..+.+.
T Consensus       167 SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l  209 (894)
T COG2909         167 SRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGSL  209 (894)
T ss_pred             eccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCCC
Confidence            99865322111   1122222    367899999999887743

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.50  E-value=3.1e-06  Score=77.85  Aligned_cols=154  Identities=14%  Similarity=0.155  Sum_probs=90.1

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCC-C------------------CCcEEEEEE
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTP-N------------------HFDFVIWVV  203 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~------------------~f~~~~wv~  203 (337)
                      .+++|.+..++.|.+++..++ .+.+.++|++|+||||+|+.+........ .                  +++ ..+++
T Consensus        14 ~~iig~~~~~~~l~~~~~~~~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~-~~~~~   92 (355)
T TIGR02397        14 EDVIGQEHIVQTLKNAIKNGRIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLD-VIEID   92 (355)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCC-EEEee
Confidence            457999999999999987765 45788999999999999999988762110 0                  111 12222


Q ss_pred             ecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEE
Q 045709          204 VSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVF  281 (337)
Q Consensus       204 ~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~Iii  281 (337)
                      .+...... ..+.+...+...                  -..+++-++|+|+++..  .....+...+...... +.+|+
T Consensus        93 ~~~~~~~~-~~~~l~~~~~~~------------------p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~-~~lIl  152 (355)
T TIGR02397        93 AASNNGVD-DIREILDNVKYA------------------PSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEH-VVFIL  152 (355)
T ss_pred             ccccCCHH-HHHHHHHHHhcC------------------cccCCceEEEEeChhhcCHHHHHHHHHHHhCCccc-eeEEE
Confidence            11111111 011111111100                  01245558999998755  3344444444333334 67777


Q ss_pred             eeCChh-HHhhc-cCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          282 TTREFG-VCGQM-EAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       282 Ttr~~~-v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      +|.+.. +...+ +....+++.++++++....+...+-.
T Consensus       153 ~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~  191 (355)
T TIGR02397       153 ATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDK  191 (355)
T ss_pred             EeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHH
Confidence            765543 22222 23357889999999999999887643

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.

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.49  E-value=3.8e-06  Score=79.99  Aligned_cols=171  Identities=15%  Similarity=0.149  Sum_probs=95.5

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcE-EEEEEecCccCHHHHHHHHHHHh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDF-VIWVVVSRDLQLEKIQESIAKKI  221 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~i~~~l  221 (337)
                      .+++|.+..+..|.+.+..++ .+.+.++|+.|+||||+|+.+++...- ...... ..+..+.    .......+....
T Consensus        21 ~dliGq~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc-~~~~~~~~~~~~C~----~C~~C~~i~~~~   95 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNC-SALITENTTIKTCE----QCTNCISFNNHN   95 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcC-ccccccCcCcCCCC----CChHHHHHhcCC
Confidence            357999999999988777654 467899999999999999999987721 111000 0000000    001111111100


Q ss_pred             CCCC---ccccCCCHHHHHHHHHHH----hcCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEE-eeCChhHHhh
Q 045709          222 GLFN---ESWKNKSMQEKAQEIFKI----LSKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVF-TTREFGVCGQ  291 (337)
Q Consensus       222 ~~~~---~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~Iii-Ttr~~~v~~~  291 (337)
                      ....   +.......++....+...    +.+++-++|+|+++..  ..++.+...+...... +.+|+ ||+...+...
T Consensus        96 h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~-~vfI~aTte~~kI~~t  174 (507)
T PRK06645         96 HPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPH-IIFIFATTEVQKIPAT  174 (507)
T ss_pred             CCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCC-EEEEEEeCChHHhhHH
Confidence            0000   000111222222222111    2356779999999875  3355555444433334 56554 5555555433


Q ss_pred             c-cCCceeecCCCCHHHHHHHHhHhhCCCC
Q 045709          292 M-EAHRSFKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       292 ~-~~~~~~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      + +....+++.+++.++....+.+.+....
T Consensus       175 I~SRc~~~ef~~ls~~el~~~L~~i~~~eg  204 (507)
T PRK06645        175 IISRCQRYDLRRLSFEEIFKLLEYITKQEN  204 (507)
T ss_pred             HHhcceEEEccCCCHHHHHHHHHHHHHHcC
Confidence            3 2345789999999999999998885444

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.49  E-value=2.2e-06  Score=77.48  Aligned_cols=152  Identities=12%  Similarity=0.195  Sum_probs=96.3

Q ss_pred             ccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhcc---CCCCCcEEEEEEe-cCccCHHHHHHHHHH
Q 045709          145 TVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFD---TPNHFDFVIWVVV-SRDLQLEKIQESIAK  219 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~~~f~~~~wv~~-~~~~~~~~~~~~i~~  219 (337)
                      +++|.+..++.+.+++..++ .+.+.++|+.|+||||+|+.++.....   ...|++...|... +....... .+++..
T Consensus         5 ~i~g~~~~~~~l~~~~~~~~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-ir~~~~   83 (313)
T PRK05564          5 TIIGHENIKNRIKNSIIKNRFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-IRNIIE   83 (313)
T ss_pred             hccCcHHHHHHHHHHHHcCCCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-HHHHHH
Confidence            57899999999999987764 457789999999999999999886521   1345555555432 22222222 222333


Q ss_pred             HhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEeeCChhHH-hh-ccCC
Q 045709          220 KIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTTREFGVC-GQ-MEAH  295 (337)
Q Consensus       220 ~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~-~~-~~~~  295 (337)
                      .+....                  ..+++-++|+|+++..  ..++.+...+..-..+ +.+|++|.+.+.. .. .+..
T Consensus        84 ~~~~~p------------------~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~-t~~il~~~~~~~ll~TI~SRc  144 (313)
T PRK05564         84 EVNKKP------------------YEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKG-VFIILLCENLEQILDTIKSRC  144 (313)
T ss_pred             HHhcCc------------------ccCCceEEEEechhhcCHHHHHHHHHHhcCCCCC-eEEEEEeCChHhCcHHHHhhc
Confidence            322111                  1245557777776543  4566666666554456 8888888765422 11 1234


Q ss_pred             ceeecCCCCHHHHHHHHhHhh
Q 045709          296 RSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       296 ~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ..+++.++++++....+.+..
T Consensus       145 ~~~~~~~~~~~~~~~~l~~~~  165 (313)
T PRK05564        145 QIYKLNRLSKEEIEKFISYKY  165 (313)
T ss_pred             eeeeCCCcCHHHHHHHHHHHh
Confidence            688999999999988886654

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.49  E-value=2.2e-06  Score=83.26  Aligned_cols=171  Identities=13%  Similarity=0.131  Sum_probs=94.3

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCC-CCCcEEEEEEecCccCHHHHHHHHHHHh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTP-NHFDFVIWVVVSRDLQLEKIQESIAKKI  221 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~~f~~~~wv~~~~~~~~~~~~~~i~~~l  221 (337)
                      .+++|.+..+..|.+++..++. +.+.++|..|+||||+|+.+.+...-.. ........    ..+........|...-
T Consensus        16 ~dviGQe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~----~pCg~C~~C~~i~~g~   91 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITA----TPCGVCQACRDIDSGR   91 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCC----CCCCccHHHHHHHcCC
Confidence            4589999999999999987655 5678999999999999999987762100 00000000    0111122222221100


Q ss_pred             CCCC---ccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEeeCC-hhHHh
Q 045709          222 GLFN---ESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTTRE-FGVCG  290 (337)
Q Consensus       222 ~~~~---~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTtr~-~~v~~  290 (337)
                      ....   +.......++.. .+.+..     .++.-++|||+++..  ..++.+...+..-... +++|++|.+ ..+..
T Consensus        92 h~D~~eldaas~~~Vd~iR-eli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~-~~fIL~Ttd~~kil~  169 (618)
T PRK14951         92 FVDYTELDAASNRGVDEVQ-QLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEY-LKFVLATTDPQKVPV  169 (618)
T ss_pred             CCceeecCcccccCHHHHH-HHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCC-eEEEEEECCchhhhH
Confidence            0000   000111222222 222222     234458999999865  3344554444333334 666665543 33332


Q ss_pred             h-ccCCceeecCCCCHHHHHHHHhHhhCCCC
Q 045709          291 Q-MEAHRSFKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       291 ~-~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      . .+....+++.+|+.++..+.+.+.+...+
T Consensus       170 TIlSRc~~~~f~~Ls~eei~~~L~~i~~~eg  200 (618)
T PRK14951        170 TVLSRCLQFNLRPMAPETVLEHLTQVLAAEN  200 (618)
T ss_pred             HHHHhceeeecCCCCHHHHHHHHHHHHHHcC
Confidence            2 23346889999999999999988765443

>PRK09087 hypothetical protein; Validated

Probab=98.49  E-value=9.2e-07  Score=75.79  Aligned_cols=117  Identities=18%  Similarity=0.114  Sum_probs=71.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKI  243 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  243 (337)
                      ..+.+.|+|.+|+|||+|++.++... .       ..|++..      .+...+...                       
T Consensus        43 ~~~~l~l~G~~GsGKThLl~~~~~~~-~-------~~~i~~~------~~~~~~~~~-----------------------   85 (226)
T PRK09087         43 PSPVVVLAGPVGSGKTHLASIWREKS-D-------ALLIHPN------EIGSDAANA-----------------------   85 (226)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHhc-C-------CEEecHH------HcchHHHHh-----------------------
Confidence            45679999999999999999887654 1       1133221      111111111                       


Q ss_pred             hcCCcEEEEEecCCCcc-ccccccCCCCC-CCCCCcEEEEeeCC---------hhHHhhccCCceeecCCCCHHHHHHHH
Q 045709          244 LSKKKFVLLLDDIWELV-DLDQVGLPIPS-RTSVSNKVVFTTRE---------FGVCGQMEAHRSFKVECLRYDDAWKLF  312 (337)
Q Consensus       244 l~~k~~LlVlDdv~~~~-~~~~l~~~l~~-~~~g~s~IiiTtr~---------~~v~~~~~~~~~~~l~~L~~~ea~~Lf  312 (337)
                      +.+  -+|++||++... +-..+...+.. ...| ..+|+|++.         +.+.+.+....++++++++.++-.+++
T Consensus        86 ~~~--~~l~iDDi~~~~~~~~~lf~l~n~~~~~g-~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL  162 (226)
T PRK09087         86 AAE--GPVLIEDIDAGGFDETGLFHLINSVRQAG-TSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVI  162 (226)
T ss_pred             hhc--CeEEEECCCCCCCCHHHHHHHHHHHHhCC-CeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHH
Confidence            111  278889996542 11112111111 1235 789998873         334555566789999999999999999


Q ss_pred             hHhhCCCC
Q 045709          313 EQKVGADT  320 (337)
Q Consensus       313 ~~~~~~~~  320 (337)
                      .+++-...
T Consensus       163 ~~~~~~~~  170 (226)
T PRK09087        163 FKLFADRQ  170 (226)
T ss_pred             HHHHHHcC
Confidence            99885443

>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=5.9e-07  Score=76.64  Aligned_cols=140  Identities=18%  Similarity=0.175  Sum_probs=82.1

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL  244 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  244 (337)
                      ...+.|+|..|+|||.|.+.+++...+ ...-..++|++      ..++...+...+...       .    ...++..+
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~-~~~~~~v~y~~------~~~f~~~~~~~~~~~-------~----~~~~~~~~   95 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQK-QHPGKRVVYLS------AEEFIREFADALRDG-------E----IEEFKDRL   95 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHH-HCTTS-EEEEE------HHHHHHHHHHHHHTT-------S----HHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHh-ccccccceeec------HHHHHHHHHHHHHcc-------c----chhhhhhh
Confidence            456899999999999999999998732 22223466664      345555555555321       1    12344444


Q ss_pred             cCCcEEEEEecCCCccc---cccc-cCCCCC-CCCCCcEEEEeeCCh---------hHHhhccCCceeecCCCCHHHHHH
Q 045709          245 SKKKFVLLLDDIWELVD---LDQV-GLPIPS-RTSVSNKVVFTTREF---------GVCGQMEAHRSFKVECLRYDDAWK  310 (337)
Q Consensus       245 ~~k~~LlVlDdv~~~~~---~~~l-~~~l~~-~~~g~s~IiiTtr~~---------~v~~~~~~~~~~~l~~L~~~ea~~  310 (337)
                      . .-=+|+|||++....   |... ...+.. ...| .+||+|+...         .+.+.+...-++++++++.++-..
T Consensus        96 ~-~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~-k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~  173 (219)
T PF00308_consen   96 R-SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESG-KQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRR  173 (219)
T ss_dssp             C-TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTT-SEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHH
T ss_pred             h-cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhC-CeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHH
Confidence            4 344899999976532   2211 111110 1235 6899999643         234555567789999999999999


Q ss_pred             HHhHhhCCCCCCCC
Q 045709          311 LFEQKVGADTLDSH  324 (337)
Q Consensus       311 Lf~~~~~~~~~~~~  324 (337)
                      ++.+++.......+
T Consensus       174 il~~~a~~~~~~l~  187 (219)
T PF00308_consen  174 ILQKKAKERGIELP  187 (219)
T ss_dssp             HHHHHHHHTT--S-
T ss_pred             HHHHHHHHhCCCCc
Confidence            99999865543333

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.

>TIGR00767 rho transcription termination factor Rho

Probab=98.48  E-value=8.7e-07  Score=80.76  Aligned_cols=94  Identities=19%  Similarity=0.178  Sum_probs=63.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc--cCHHHHHHHHHHHhCCCCccccCCCHHHH----
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD--LQLEKIQESIAKKIGLFNESWKNKSMQEK----  236 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~~~----  236 (337)
                      .....++|+|++|+|||||++.+++...  .++|+..+|+.+.+.  .++.++++.+...+-...-..........    
T Consensus       166 g~Gq~~~IvG~~g~GKTtL~~~i~~~I~--~nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v  243 (415)
T TIGR00767       166 GKGQRGLIVAPPKAGKTVLLQKIAQAIT--RNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMV  243 (415)
T ss_pred             CCCCEEEEECCCCCChhHHHHHHHHhhc--ccCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHH
Confidence            3567899999999999999999999883  347999999998865  68889988885433222110001111111    


Q ss_pred             HHHHHHH-hcCCcEEEEEecCCC
Q 045709          237 AQEIFKI-LSKKKFVLLLDDIWE  258 (337)
Q Consensus       237 ~~~l~~~-l~~k~~LlVlDdv~~  258 (337)
                      ....... -.+++.+|++|++..
T Consensus       244 ~e~Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       244 IEKAKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHHHHcCCCeEEEEEChhH
Confidence            1122222 258999999999874

Members of this family differ in the specificity of RNA binding.

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.47  E-value=1.5e-06  Score=81.45  Aligned_cols=166  Identities=14%  Similarity=0.127  Sum_probs=93.1

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+..+..|..++.+++. +.+.++|+.|+||||+|+.+++.... ......   ..+....+.    ..+.....
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnc-e~~~~~---~pCg~C~sC----~~i~~g~~   89 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNC-ENPIGN---EPCNECTSC----LEITKGIS   89 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCc-ccccCc---cccCCCcHH----HHHHccCC
Confidence            4589999999999999987765 46899999999999999999987721 111000   001111111    11211111


Q ss_pred             CCCccc---cCCCHHHHHHHHHHH-----hcCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEee-CChhHHhh
Q 045709          223 LFNESW---KNKSMQEKAQEIFKI-----LSKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTT-REFGVCGQ  291 (337)
Q Consensus       223 ~~~~~~---~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTt-r~~~v~~~  291 (337)
                      ...-..   .....+. .+.+.+.     ..++.-++|||+++..  ..++.+...+..-... ..+|++| ....+...
T Consensus        90 ~dviEIdaas~~gVd~-IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~-viFILaTte~~kI~~T  167 (484)
T PRK14956         90 SDVLEIDAASNRGIEN-IRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAH-IVFILATTEFHKIPET  167 (484)
T ss_pred             ccceeechhhcccHHH-HHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCc-eEEEeecCChhhccHH
Confidence            000000   1111221 2222222     2355669999999865  3455554444332223 5555444 44444322


Q ss_pred             c-cCCceeecCCCCHHHHHHHHhHhhCCC
Q 045709          292 M-EAHRSFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       292 ~-~~~~~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      + +....|.+.+++.++..+.+.+.+...
T Consensus       168 I~SRCq~~~f~~ls~~~i~~~L~~i~~~E  196 (484)
T PRK14956        168 ILSRCQDFIFKKVPLSVLQDYSEKLCKIE  196 (484)
T ss_pred             HHhhhheeeecCCCHHHHHHHHHHHHHHc
Confidence            2 233579999999999999888876543

>CHL00181 cbbX CbbX; Provisional

Probab=98.47  E-value=3.8e-06  Score=74.60  Aligned_cols=135  Identities=11%  Similarity=0.097  Sum_probs=73.5

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL  244 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  244 (337)
                      ...+.++|++|+||||+|+.+++.... .+.-...-|+.++.    ..+    ...+...       +.......+.. .
T Consensus        59 ~~~ill~G~pGtGKT~lAr~la~~~~~-~g~~~~~~~~~v~~----~~l----~~~~~g~-------~~~~~~~~l~~-a  121 (287)
T CHL00181         59 GLHMSFTGSPGTGKTTVALKMADILYK-LGYIKKGHLLTVTR----DDL----VGQYIGH-------TAPKTKEVLKK-A  121 (287)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHH-cCCCCCCceEEecH----HHH----HHHHhcc-------chHHHHHHHHH-c
Confidence            345889999999999999999887621 11111111344431    122    2222111       11111122222 2


Q ss_pred             cCCcEEEEEecCCCc-----------cccccccCCCCCCCCCCcEEEEeeCChhHHhhc--------cCCceeecCCCCH
Q 045709          245 SKKKFVLLLDDIWEL-----------VDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQM--------EAHRSFKVECLRY  305 (337)
Q Consensus       245 ~~k~~LlVlDdv~~~-----------~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~~~--------~~~~~~~l~~L~~  305 (337)
                        ..-+|+||++...           +....+...+...... .+||+++....+...+        .....+.+++++.
T Consensus       122 --~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~-~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~  198 (287)
T CHL00181        122 --MGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDD-LVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTP  198 (287)
T ss_pred             --cCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCC-EEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCH
Confidence              2349999999753           1122233333333344 6777777644432111        1245789999999


Q ss_pred             HHHHHHHhHhhCCC
Q 045709          306 DDAWKLFEQKVGAD  319 (337)
Q Consensus       306 ~ea~~Lf~~~~~~~  319 (337)
                      +|..+++...+-..
T Consensus       199 ~el~~I~~~~l~~~  212 (287)
T CHL00181        199 EELLQIAKIMLEEQ  212 (287)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999887543

>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=98.47  E-value=1.3e-06  Score=73.28  Aligned_cols=144  Identities=18%  Similarity=0.179  Sum_probs=73.6

Q ss_pred             CccccchhhHHHHHHHHh-----cCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLM-----EEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIA  218 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~-----~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  218 (337)
                      .+|+|.++.+..+.-++.     ++...-+.+||++|+||||||..+++..   ...|.   +.+.+.-....+ +..++
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~---~~~~~---~~sg~~i~k~~d-l~~il   96 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANEL---GVNFK---ITSGPAIEKAGD-LAAIL   96 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHC---T--EE---EEECCC--SCHH-HHHHH
T ss_pred             HHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhcc---CCCeE---eccchhhhhHHH-HHHHH
Confidence            569999988887655443     2346788999999999999999999988   44553   222211101111 11111


Q ss_pred             HHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc---------cccccC--CCCCC----------CCCCc
Q 045709          219 KKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD---------LDQVGL--PIPSR----------TSVSN  277 (337)
Q Consensus       219 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~---------~~~l~~--~l~~~----------~~g~s  277 (337)
                      ..                       + +++-+|.+|+++...-         .++...  ....+          .+- +
T Consensus        97 ~~-----------------------l-~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~F-T  151 (233)
T PF05496_consen   97 TN-----------------------L-KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPF-T  151 (233)
T ss_dssp             HT--------------------------TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE-----E
T ss_pred             Hh-----------------------c-CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCc-e
Confidence            11                       1 2345777788875311         111110  00010          011 3


Q ss_pred             EEEEeeCChhHHhhccCC--ceeecCCCCHHHHHHHHhHhhCCC
Q 045709          278 KVVFTTREFGVCGQMEAH--RSFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       278 ~IiiTtr~~~v~~~~~~~--~~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      -|=-|||...+...+...  -..+++..+.+|-.++..+.+..-
T Consensus       152 ligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l  195 (233)
T PF05496_consen  152 LIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARIL  195 (233)
T ss_dssp             EEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCT
T ss_pred             EeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHh
Confidence            344688877665555432  245899999999999999877443

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.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=98.47  E-value=2.1e-06  Score=76.23  Aligned_cols=132  Identities=13%  Similarity=0.084  Sum_probs=71.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcC
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSK  246 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~  246 (337)
                      -+.++|++|+|||++|+.++..... .+......|+.++.    .++    ...+...       +..... .+.+..  
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~-~g~~~~~~~v~v~~----~~l----~~~~~g~-------~~~~~~-~~~~~a--  120 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHR-LGYVRKGHLVSVTR----DDL----VGQYIGH-------TAPKTK-EILKRA--  120 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHH-cCCcccceEEEecH----HHH----hHhhccc-------chHHHH-HHHHHc--
Confidence            6889999999999999888776632 12211112444432    122    2222111       111111 222222  


Q ss_pred             CcEEEEEecCCCc-----------cccccccCCCCCCCCCCcEEEEeeCChhHHhhc--c------CCceeecCCCCHHH
Q 045709          247 KKFVLLLDDIWEL-----------VDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQM--E------AHRSFKVECLRYDD  307 (337)
Q Consensus       247 k~~LlVlDdv~~~-----------~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~~~--~------~~~~~~l~~L~~~e  307 (337)
                      ..-+|+||++...           ..+..+...+.....+ .+||+++........+  +      ....+++++++.+|
T Consensus       121 ~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~-~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~ed  199 (284)
T TIGR02880       121 MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDD-LVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAE  199 (284)
T ss_pred             cCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCC-EEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHH
Confidence            3368999999743           1123333333333334 5667766543221111  1      13578999999999


Q ss_pred             HHHHHhHhhCC
Q 045709          308 AWKLFEQKVGA  318 (337)
Q Consensus       308 a~~Lf~~~~~~  318 (337)
                      -.+++...+-.
T Consensus       200 l~~I~~~~l~~  210 (284)
T TIGR02880       200 LLVIAGLMLKE  210 (284)
T ss_pred             HHHHHHHHHHH
Confidence            99999888744

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

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

Probab=98.47  E-value=1e-06  Score=88.35  Aligned_cols=155  Identities=14%  Similarity=0.216  Sum_probs=90.9

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCC--CCC-cEEEEEEecCccCHHHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTP--NHF-DFVIWVVVSRDLQLEKIQESIAKK  220 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--~~f-~~~~wv~~~~~~~~~~~~~~i~~~  220 (337)
                      +.++||++++.+++..|......-+.++|++|+|||++|+.++.......  ..+ ...+|. +    +...+    ...
T Consensus       182 ~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~-~----~~~~l----~a~  252 (731)
T TIGR02639       182 DPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYS-L----DMGSL----LAG  252 (731)
T ss_pred             CcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEE-e----cHHHH----hhh
Confidence            35899999999999988777667778999999999999999998873111  111 233332 1    11111    110


Q ss_pred             hCCCCccccCCCHHHHHHHHHHHh-cCCcEEEEEecCCCcc----------cccc-ccCCCCCCCCCCcEEEEeeCChhH
Q 045709          221 IGLFNESWKNKSMQEKAQEIFKIL-SKKKFVLLLDDIWELV----------DLDQ-VGLPIPSRTSVSNKVVFTTREFGV  288 (337)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~----------~~~~-l~~~l~~~~~g~s~IiiTtr~~~v  288 (337)
                      ..      .....++..+.+.+.+ ..++.+|++|+++...          +... +...+   ..|.-++|-+|...+.
T Consensus       253 ~~------~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l---~~g~i~~IgaTt~~e~  323 (731)
T TIGR02639       253 TK------YRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPAL---SSGKLRCIGSTTYEEY  323 (731)
T ss_pred             cc------ccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHH---hCCCeEEEEecCHHHH
Confidence            00      0112334444444444 3467899999997431          1112 22222   2342355555443222


Q ss_pred             Hhh-------ccCCceeecCCCCHHHHHHHHhHhh
Q 045709          289 CGQ-------MEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       289 ~~~-------~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ...       ......+.+++++.++..+++....
T Consensus       324 ~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       324 KNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             HHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence            111       1123578999999999999999654

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=98.46  E-value=1.4e-05  Score=73.17  Aligned_cols=187  Identities=14%  Similarity=0.175  Sum_probs=115.0

Q ss_pred             CCccccchhhHHHHHHHHhc----CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHH
Q 045709          143 PPTVVGLQLTFDRVWRCLME----EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIA  218 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  218 (337)
                      +..++||+.+++.+.+++..    +..+-+-|.|-+|.|||.+...++.+. .....-..++++++..-.....++..|.
T Consensus       149 p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~-~~~~~~~~~v~inc~sl~~~~aiF~kI~  227 (529)
T KOG2227|consen  149 PGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSL-SKSSKSPVTVYINCTSLTEASAIFKKIF  227 (529)
T ss_pred             CCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhh-hhhcccceeEEEeeccccchHHHHHHHH
Confidence            46689999999999988865    467888999999999999999999887 2222223568888776666777777777


Q ss_pred             HHhCCCCccccCCCHHHHHHHHHHHhcC--CcEEEEEecCCCccc--cccccC--CCCCCCCCCcEEEEeeCCh--h---
Q 045709          219 KKIGLFNESWKNKSMQEKAQEIFKILSK--KKFVLLLDDIWELVD--LDQVGL--PIPSRTSVSNKVVFTTREF--G---  287 (337)
Q Consensus       219 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~--k~~LlVlDdv~~~~~--~~~l~~--~l~~~~~g~s~IiiTtr~~--~---  287 (337)
                      ..+-....  ......+....+..+..+  ..+|+|||+++....  -..+..  .+|.. .+ +++|+.---.  +   
T Consensus       228 ~~~~q~~~--s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~l-p~-sr~iLiGiANslDlTd  303 (529)
T KOG2227|consen  228 SSLLQDLV--SPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKL-PN-SRIILIGIANSLDLTD  303 (529)
T ss_pred             HHHHHHhc--CCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccC-Cc-ceeeeeeehhhhhHHH
Confidence            76611110  111224555666666644  368999999976421  111111  12222 23 4554322111  1   


Q ss_pred             -HHhhcc-----CCceeecCCCCHHHHHHHHhHhhCCCC--CCCCCChHHHHHHh
Q 045709          288 -VCGQME-----AHRSFKVECLRYDDAWKLFEQKVGADT--LDSHPDIPELAETL  334 (337)
Q Consensus       288 -v~~~~~-----~~~~~~l~~L~~~ea~~Lf~~~~~~~~--~~~~~~l~~i~~~i  334 (337)
                       ....+.     ....+..+|.+.++-.++|..+.-...  ...++.++-.|+++
T Consensus       304 R~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKv  358 (529)
T KOG2227|consen  304 RFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKV  358 (529)
T ss_pred             HHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHh
Confidence             111111     235788999999999999999985443  11233444455544

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.45  E-value=2.8e-06  Score=81.28  Aligned_cols=154  Identities=15%  Similarity=0.116  Sum_probs=89.5

Q ss_pred             CccccchhhHHHHHHHHhcCCCe-EEEEEecCCCcHHHHHHHHHHhhccCCCC-------------------CcEEEEEE
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAG-IVGLYGMGGVGKTTLLTQINNRFFDTPNH-------------------FDFVIWVV  203 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~~-------------------f~~~~wv~  203 (337)
                      .++||.+..+..|.+++..++.+ .+.++|+.|+||||+|+.+.+... -...                   +..++.++
T Consensus        16 ~divGq~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~-c~~~~~~~pCg~C~~C~~i~~g~~~d~~eid   94 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLN-CEKGVSANPCNDCENCREIDEGRFPDLFEVD   94 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhc-CCCCCCcccCCCCHHHHHHhcCCCceEEEEc
Confidence            45899999999999999876554 578999999999999999988762 1111                   11122222


Q ss_pred             ecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEE
Q 045709          204 VSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVF  281 (337)
Q Consensus       204 ~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~Iii  281 (337)
                      .+....+..+ ++++..+...                  -..++.-++|+|+++..  ...+.+...+..-... +++|+
T Consensus        95 aas~~~v~~i-R~l~~~~~~~------------------p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~-~~fIl  154 (509)
T PRK14958         95 AASRTKVEDT-RELLDNIPYA------------------PTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSH-VKFIL  154 (509)
T ss_pred             ccccCCHHHH-HHHHHHHhhc------------------cccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCC-eEEEE
Confidence            2211111111 1122111110                  11245568999999865  2344443333332334 66666


Q ss_pred             eeCC-hhHHhhc-cCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          282 TTRE-FGVCGQM-EAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       282 Ttr~-~~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      +|.+ ..+...+ +....+++.+++.++....+.+.+-.
T Consensus       155 attd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~  193 (509)
T PRK14958        155 ATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKE  193 (509)
T ss_pred             EECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHH
Confidence            5543 3332222 23357889999999888777666543

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=98.43  E-value=7.5e-06  Score=78.31  Aligned_cols=135  Identities=20%  Similarity=0.211  Sum_probs=79.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC-----CcEEEEEEecCc---------------c-C-HHHHHHHHHHHh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH-----FDFVIWVVVSRD---------------L-Q-LEKIQESIAKKI  221 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~-----f~~~~wv~~~~~---------------~-~-~~~~~~~i~~~l  221 (337)
                      ....|+|+|++|+|||||.+.+........+.     --.+.|+.-...               + . ...-.+..+.++
T Consensus       347 ~g~riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~f  426 (530)
T COG0488         347 RGDRIAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGRF  426 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHHc
Confidence            56789999999999999999997665211111     112333321110               0 1 134445555555


Q ss_pred             CCCCcc----ccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccccc---cCCCCCCCCCCcEEEEeeCChhHHhhcc
Q 045709          222 GLFNES----WKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLDQV---GLPIPSRTSVSNKVVFTTREFGVCGQME  293 (337)
Q Consensus       222 ~~~~~~----~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~~l---~~~l~~~~~g~s~IiiTtr~~~v~~~~~  293 (337)
                      +.+.+.    ....|..+..+. +...+-.++.+||||+--+..+.+.+   ...+.. -+|  .||+.|+++.......
T Consensus       427 ~F~~~~~~~~v~~LSGGEk~Rl~La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~-f~G--tvl~VSHDr~Fl~~va  503 (530)
T COG0488         427 GFTGEDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDIESLEALEEALLD-FEG--TVLLVSHDRYFLDRVA  503 (530)
T ss_pred             CCChHHHhCchhhcCHhHHHHHHHHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHHh-CCC--eEEEEeCCHHHHHhhc
Confidence            554322    234555555555 45566789999999987766443322   222222 234  8999999999887663


Q ss_pred             CCceeecCC
Q 045709          294 AHRSFKVEC  302 (337)
Q Consensus       294 ~~~~~~l~~  302 (337)
                       ..++.+.+
T Consensus       504 -~~i~~~~~  511 (530)
T COG0488         504 -TRIWLVED  511 (530)
T ss_pred             -ceEEEEcC
Confidence             45565554

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.43  E-value=3.7e-06  Score=79.46  Aligned_cols=167  Identities=16%  Similarity=0.092  Sum_probs=92.4

Q ss_pred             CccccchhhHHHHHHHHhcCCCe-EEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAG-IVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+..+..|.+.+..++.+ .+.++|+.|+||||+|+.++....- .....       ..+.........|.....
T Consensus        13 ~dliGQe~vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC-~~~~~-------~~pCg~C~~C~~i~~~~~   84 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNC-SNGPT-------SDPCGTCHNCISIKNSNH   84 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcC-cCCCC-------CCCccccHHHHHHhccCC
Confidence            45899999999998888776654 7899999999999999999875410 00000       000111111122221111


Q ss_pred             CCCccc---cCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEee-CChhHHhh
Q 045709          223 LFNESW---KNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTT-REFGVCGQ  291 (337)
Q Consensus       223 ~~~~~~---~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTt-r~~~v~~~  291 (337)
                      ...-..   .....++. +.+.+..     .++.-++|+|+++...  ..+.+...+..-... +++|++| ....+...
T Consensus        85 ~Dv~eidaas~~~vddI-R~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~-v~fIlatte~~Kl~~t  162 (491)
T PRK14964         85 PDVIEIDAASNTSVDDI-KVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPH-VKFILATTEVKKIPVT  162 (491)
T ss_pred             CCEEEEecccCCCHHHH-HHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCC-eEEEEEeCChHHHHHH
Confidence            000000   01111221 1111111     2456689999997653  244443334332344 6666655 33444332


Q ss_pred             c-cCCceeecCCCCHHHHHHHHhHhhCCCC
Q 045709          292 M-EAHRSFKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       292 ~-~~~~~~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      + +....+.+.+++.++....+.+.+...+
T Consensus       163 I~SRc~~~~f~~l~~~el~~~L~~ia~~Eg  192 (491)
T PRK14964        163 IISRCQRFDLQKIPTDKLVEHLVDIAKKEN  192 (491)
T ss_pred             HHHhheeeecccccHHHHHHHHHHHHHHcC
Confidence            2 2346789999999999999988775443

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.42  E-value=3.8e-06  Score=81.77  Aligned_cols=168  Identities=14%  Similarity=0.103  Sum_probs=90.5

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+..+..|.+++..++ .+.+.++|..|+||||+|+.+.+... -.....   +..+.    .......+...-.
T Consensus        16 ddIIGQe~vv~~L~~ai~~~rl~Ha~Lf~GP~GvGKTTlAriLAk~Ln-C~~~~~---~~pCg----~C~sCr~i~~g~~   87 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGRLHHAYLLTGTRGVGKTTIARILAKSLN-CENAQH---GEPCG----VCQSCTQIDAGRY   87 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhc-ccCCCC---CCCCc----ccHHHHHHhccCc
Confidence            458999999999999998765 45689999999999999999988762 111110   00000    0011111110000


Q ss_pred             CC---CccccCCCHHHHHHHHHH----HhcCCcEEEEEecCCCccc--cccccCCCCCCCCCCcEEEEeeCCh-hHHhh-
Q 045709          223 LF---NESWKNKSMQEKAQEIFK----ILSKKKFVLLLDDIWELVD--LDQVGLPIPSRTSVSNKVVFTTREF-GVCGQ-  291 (337)
Q Consensus       223 ~~---~~~~~~~~~~~~~~~l~~----~l~~k~~LlVlDdv~~~~~--~~~l~~~l~~~~~g~s~IiiTtr~~-~v~~~-  291 (337)
                      ..   .+.......+.+...+..    -..+++-++|||+++....  ...+...+..-... +++|++|.+. .+... 
T Consensus        88 ~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~-v~fILaTtd~~kL~~TI  166 (709)
T PRK08691         88 VDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEH-VKFILATTDPHKVPVTV  166 (709)
T ss_pred             cceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCC-cEEEEEeCCccccchHH
Confidence            00   000011112222111111    0135667999999976532  33333333222234 6777766543 22211 


Q ss_pred             ccCCceeecCCCCHHHHHHHHhHhhCCCC
Q 045709          292 MEAHRSFKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       292 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      .+....+.+.+++.++....+.+.+-..+
T Consensus       167 rSRC~~f~f~~Ls~eeI~~~L~~Il~kEg  195 (709)
T PRK08691        167 LSRCLQFVLRNMTAQQVADHLAHVLDSEK  195 (709)
T ss_pred             HHHHhhhhcCCCCHHHHHHHHHHHHHHcC
Confidence            12234678889999999999888775443

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=98.42  E-value=3e-06  Score=78.49  Aligned_cols=107  Identities=17%  Similarity=0.131  Sum_probs=70.5

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGL  223 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  223 (337)
                      .++++.+..++.+...|..  .+.+.++|++|+|||++|+.+++.. .....+..+.|+.+++..+..++...+.    .
T Consensus       175 ~d~~i~e~~le~l~~~L~~--~~~iil~GppGtGKT~lA~~la~~l-~~~~~~~~v~~VtFHpsySYeDFI~G~r----P  247 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI--KKNIILQGPPGVGKTFVARRLAYLL-TGEKAPQRVNMVQFHQSYSYEDFIQGYR----P  247 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc--CCCEEEECCCCCCHHHHHHHHHHHh-cCCcccceeeEEeecccccHHHHhcccC----C
Confidence            3467888899999888864  4677889999999999999999887 3345678899999998877666543221    0


Q ss_pred             CCccccCCCHHHHHHHHHHHh--cCCcEEEEEecCCC
Q 045709          224 FNESWKNKSMQEKAQEIFKIL--SKKKFVLLLDDIWE  258 (337)
Q Consensus       224 ~~~~~~~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~  258 (337)
                      ......-. .....+.+....  .+++++||+|++..
T Consensus       248 ~~vgy~~~-~G~f~~~~~~A~~~p~~~~vliIDEINR  283 (459)
T PRK11331        248 NGVGFRRK-DGIFYNFCQQAKEQPEKKYVFIIDEINR  283 (459)
T ss_pred             CCCCeEec-CchHHHHHHHHHhcccCCcEEEEehhhc
Confidence            00000000 011112222222  24689999999864

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.41  E-value=6.2e-06  Score=76.26  Aligned_cols=157  Identities=13%  Similarity=0.190  Sum_probs=89.2

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccC-----CCCCcEE-EEEEecCccCHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDT-----PNHFDFV-IWVVVSRDLQLEKIQES  216 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~-----~~~f~~~-~wv~~~~~~~~~~~~~~  216 (337)
                      .+++|.+...+.+.+.+.+++ .+.+.++|++|+||||+|+.+.+.....     ...|... +-++......... ...
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-i~~   95 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVDD-IRN   95 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHHH-HHH
Confidence            357999999999999997765 4588899999999999999998876210     0112111 1111111111111 112


Q ss_pred             HHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeC-ChhHHhh-c
Q 045709          217 IAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTR-EFGVCGQ-M  292 (337)
Q Consensus       217 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr-~~~v~~~-~  292 (337)
                      ++..+...                  -..+++-++++|+++...  .+..+...+...... +.+|++|. ...+... .
T Consensus        96 l~~~~~~~------------------p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~-~~~Il~~~~~~kl~~~l~  156 (367)
T PRK14970         96 LIDQVRIP------------------PQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAH-AIFILATTEKHKIIPTIL  156 (367)
T ss_pred             HHHHHhhc------------------cccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCc-eEEEEEeCCcccCCHHHH
Confidence            22211100                  012455689999997543  244443333322233 55665553 3333222 2


Q ss_pred             cCCceeecCCCCHHHHHHHHhHhhCCCC
Q 045709          293 EAHRSFKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       293 ~~~~~~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      +....+++.++++++....+...+...+
T Consensus       157 sr~~~v~~~~~~~~~l~~~l~~~~~~~g  184 (367)
T PRK14970        157 SRCQIFDFKRITIKDIKEHLAGIAVKEG  184 (367)
T ss_pred             hcceeEecCCccHHHHHHHHHHHHHHcC
Confidence            2345789999999999988888764433

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.41  E-value=5e-06  Score=80.03  Aligned_cols=164  Identities=12%  Similarity=0.089  Sum_probs=88.7

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+..+..|.+++..++. +.+.++|+.|+||||+|+.+.....- .....      . .+.........+...-.
T Consensus        16 ~divGq~~v~~~L~~~i~~~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c-~~~~~------~-~pcg~C~~C~~i~~~~~   87 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQRLHHAYLFTGTRGVGKTTLARILAKSLNC-ETGVT------A-TPCGVCSACLEIDSGRF   87 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCEEEEEECCCCCCHHHHHHHHHHHhcC-CCCCC------C-CCCCCCHHHHHHhcCCC
Confidence            4589999999999999987654 45689999999999999999887621 11000      0 00000011111110000


Q ss_pred             CC---CccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCccc--cccccCCCCCCCCCCcEEEEeeCC-hhHHhh
Q 045709          223 LF---NESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELVD--LDQVGLPIPSRTSVSNKVVFTTRE-FGVCGQ  291 (337)
Q Consensus       223 ~~---~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~~--~~~l~~~l~~~~~g~s~IiiTtr~-~~v~~~  291 (337)
                      ..   .+.......++.. .+....     .+++-++|+|+++....  .+.+...+..-... +.+|++|.+ ..+...
T Consensus        88 ~d~~ei~~~~~~~vd~ir-~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~-~~fIL~t~d~~kil~t  165 (527)
T PRK14969         88 VDLIEVDAASNTQVDAMR-ELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEH-VKFILATTDPQKIPVT  165 (527)
T ss_pred             CceeEeeccccCCHHHHH-HHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCC-EEEEEEeCChhhCchh
Confidence            00   0000011122211 222211     35566999999986532  44443334332234 666665544 333211


Q ss_pred             -ccCCceeecCCCCHHHHHHHHhHhhC
Q 045709          292 -MEAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       292 -~~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                       .+....+++.+++.++....+.+.+.
T Consensus       166 I~SRc~~~~f~~l~~~~i~~~L~~il~  192 (527)
T PRK14969        166 VLSRCLQFNLKQMPPPLIVSHLQHILE  192 (527)
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence             11235789999999999888877664

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.40  E-value=6.1e-06  Score=76.37  Aligned_cols=161  Identities=7%  Similarity=0.020  Sum_probs=88.5

Q ss_pred             CccccchhhHHHHHHHHhcCC----------CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH----------AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKI  213 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~----------~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~  213 (337)
                      .+++|.+..++.|.+++..+.          .+.+.++|++|+|||++|+.++....- ....    +.++    .....
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c-~~~~----~~~C----g~C~~   75 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQC-TDPD----EPGC----GECRA   75 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCC-CCCC----CCCC----CCCHH
Confidence            357899999999999987653          456889999999999999999876521 1100    0000    11111


Q ss_pred             HHHHHHHhCCC----CccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEe
Q 045709          214 QESIAKKIGLF----NESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFT  282 (337)
Q Consensus       214 ~~~i~~~l~~~----~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiT  282 (337)
                      ...+.......    .+.-.....++ ++.+.+.+     .+++-++|+|+++...  ....+...+..-..+ +.+|++
T Consensus        76 C~~~~~~~hpD~~~i~~~~~~i~i~~-iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~-~~fIL~  153 (394)
T PRK07940         76 CRTVLAGTHPDVRVVAPEGLSIGVDE-VRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPR-TVWLLC  153 (394)
T ss_pred             HHHHhcCCCCCEEEeccccccCCHHH-HHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCC-CeEEEE
Confidence            11111100000    00001112222 22233322     2455588899998652  223333333222334 666666


Q ss_pred             eCCh-hHHhhc-cCCceeecCCCCHHHHHHHHhHh
Q 045709          283 TREF-GVCGQM-EAHRSFKVECLRYDDAWKLFEQK  315 (337)
Q Consensus       283 tr~~-~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~  315 (337)
                      |.+. .+...+ +....+.+.+++.++..+.+...
T Consensus       154 a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~  188 (394)
T PRK07940        154 APSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRR  188 (394)
T ss_pred             ECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHh
Confidence            6653 343332 23468899999999999888754

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

Probab=98.40  E-value=9.1e-06  Score=75.38  Aligned_cols=165  Identities=15%  Similarity=0.177  Sum_probs=93.5

Q ss_pred             CccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH
Q 045709          144 PTVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL  210 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~  210 (337)
                      .++.|.+..++.|.+.+.-             ...+-+.++|++|+|||+||+.+++..   ...|-     .+..    
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l---~~~fi-----~i~~----  212 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT---TATFI-----RVVG----  212 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc---CCCEE-----EEeh----
Confidence            3568888888887776531             245678999999999999999999876   33332     1111    


Q ss_pred             HHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc----------------cccccCCCC--CC
Q 045709          211 EKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD----------------LDQVGLPIP--SR  272 (337)
Q Consensus       211 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~l~--~~  272 (337)
                      ..+    .....       ..........+.......+.+|+||+++....                +..+...+.  ..
T Consensus       213 s~l----~~k~~-------ge~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~  281 (398)
T PTZ00454        213 SEF----VQKYL-------GEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQ  281 (398)
T ss_pred             HHH----HHHhc-------chhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCC
Confidence            111    11110       11111122222233346789999999874310                111111111  11


Q ss_pred             CCCCcEEEEeeCChhHHhh--cc---CCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHH
Q 045709          273 TSVSNKVVFTTREFGVCGQ--ME---AHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAE  332 (337)
Q Consensus       273 ~~g~s~IiiTtr~~~v~~~--~~---~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~  332 (337)
                      ..+ ..||.||...+....  +.   -...+.++..+.++..++|...........+.++.+++.
T Consensus       282 ~~~-v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dvd~~~la~  345 (398)
T PTZ00454        282 TTN-VKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVS  345 (398)
T ss_pred             CCC-EEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcccCHHHHHH
Confidence            234 678888876543221  11   245689999999998888887765433333445666654

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.40  E-value=2.4e-06  Score=83.20  Aligned_cols=163  Identities=13%  Similarity=0.123  Sum_probs=91.3

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+..+..|.+.+..++. +.+.++|..|+||||+|+.+++...- ...+.       ...+........|...-.
T Consensus        16 ~divGQe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c-~~~~~-------~~pCg~C~~C~~i~~g~~   87 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNC-ETGIT-------ATPCGECDNCREIEQGRF   87 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhh-ccCCC-------CCCCCCCHHHHHHHcCCC
Confidence            4589999999999999987654 44689999999999999999887721 11100       001111122222221100


Q ss_pred             CCC---ccccCCCHHHHHHHHHHH-----hcCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCC-hhHHhh
Q 045709          223 LFN---ESWKNKSMQEKAQEIFKI-----LSKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTRE-FGVCGQ  291 (337)
Q Consensus       223 ~~~---~~~~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~-~~v~~~  291 (337)
                      ...   +.......++. +.+.+.     ..++.-++|||+++...  ..+.+...+-.-... .++|++|.+ ..+...
T Consensus        88 ~D~ieidaas~~~Vddi-R~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~-v~FIL~Tt~~~kLl~T  165 (647)
T PRK07994         88 VDLIEIDAASRTKVEDT-RELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEH-VKFLLATTDPQKLPVT  165 (647)
T ss_pred             CCceeecccccCCHHHH-HHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCC-eEEEEecCCccccchH
Confidence            000   00001112222 222222     23566799999998652  344443333222223 555554444 444322


Q ss_pred             -ccCCceeecCCCCHHHHHHHHhHhh
Q 045709          292 -MEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       292 -~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                       .+....|++.+|+.++....+.+.+
T Consensus       166 I~SRC~~~~f~~Ls~~ei~~~L~~il  191 (647)
T PRK07994        166 ILSRCLQFHLKALDVEQIRQQLEHIL  191 (647)
T ss_pred             HHhhheEeeCCCCCHHHHHHHHHHHH
Confidence             2234688999999999999998766

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.39  E-value=1.9e-06  Score=80.38  Aligned_cols=170  Identities=12%  Similarity=0.115  Sum_probs=93.3

Q ss_pred             CccccchhhHHHHHHHHhcCCCe-EEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEE-ecCccCHHHHHHHHHHHh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAG-IVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVV-VSRDLQLEKIQESIAKKI  221 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~-~~~~~~~~~~~~~i~~~l  221 (337)
                      .+++|.+..++.|.+++.+++.+ .+.++|++|+||||+|+.+++...- ...+....|.. ...+.........+....
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c-~~~~~~~~~~~~~~~~c~~c~~c~~~~~~~   94 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNC-QRMIDDADYLQEVTEPCGECESCRDFDAGT   94 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcC-CCCcCcccccccCCCCCCCCHHHHHHhcCC
Confidence            45899999999999988876554 5889999999999999999887721 11111111110 001111111222222111


Q ss_pred             CCCCccc---cCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEee-CChhHHh
Q 045709          222 GLFNESW---KNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTT-REFGVCG  290 (337)
Q Consensus       222 ~~~~~~~---~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTt-r~~~v~~  290 (337)
                      ......+   .....++.. .+.+.+     .+++-++|+|+++...  .++.+...+..-... +.+|++| +...+..
T Consensus        95 ~~n~~~~~~~~~~~id~Ir-~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~-t~~Il~t~~~~kl~~  172 (397)
T PRK14955         95 SLNISEFDAASNNSVDDIR-LLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPH-AIFIFATTELHKIPA  172 (397)
T ss_pred             CCCeEeecccccCCHHHHH-HHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCC-eEEEEEeCChHHhHH
Confidence            1100000   111122222 233333     2455689999998653  455554444433344 6666555 4344432


Q ss_pred             hc-cCCceeecCCCCHHHHHHHHhHhh
Q 045709          291 QM-EAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       291 ~~-~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      .+ .....+++.++++++....+...+
T Consensus       173 tl~sR~~~v~f~~l~~~ei~~~l~~~~  199 (397)
T PRK14955        173 TIASRCQRFNFKRIPLEEIQQQLQGIC  199 (397)
T ss_pred             HHHHHHHHhhcCCCCHHHHHHHHHHHH
Confidence            22 123578899999999888888766

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.39  E-value=5.1e-06  Score=83.47  Aligned_cols=164  Identities=10%  Similarity=0.049  Sum_probs=92.2

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+..++.|.+++.+++. +.+.++|..|+||||+|+.+.+.+.-. .....       ..+........|.....
T Consensus        15 ~eiiGqe~v~~~L~~~i~~~ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~-~~~~~-------~pCg~C~sC~~~~~g~~   86 (824)
T PRK07764         15 AEVIGQEHVTEPLSTALDSGRINHAYLFSGPRGCGKTSSARILARSLNCV-EGPTS-------TPCGECDSCVALAPGGP   86 (824)
T ss_pred             HHhcCcHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhCcc-cCCCC-------CCCcccHHHHHHHcCCC
Confidence            3589999999999999987655 457899999999999999998877211 11100       00011111111111100


Q ss_pred             CCCc--cc---cCCCHHHHHHHHHHH-----hcCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEeeC-ChhHH
Q 045709          223 LFNE--SW---KNKSMQEKAQEIFKI-----LSKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTTR-EFGVC  289 (337)
Q Consensus       223 ~~~~--~~---~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTtr-~~~v~  289 (337)
                      ...+  .+   .....++.. .+.+.     ..++.-++|||+++..  ..++.|+..+..-... +.+|++|. ...+.
T Consensus        87 ~~~dv~eidaas~~~Vd~iR-~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~-~~fIl~tt~~~kLl  164 (824)
T PRK07764         87 GSLDVTEIDAASHGGVDDAR-ELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEH-LKFIFATTEPDKVI  164 (824)
T ss_pred             CCCcEEEecccccCCHHHHH-HHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCC-eEEEEEeCChhhhh
Confidence            0000  00   111122222 22222     2355568999999865  3344444444433344 66665554 33444


Q ss_pred             hhc-cCCceeecCCCCHHHHHHHHhHhhC
Q 045709          290 GQM-EAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       290 ~~~-~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      ..+ +....|++.+++.++..+.+.+.+-
T Consensus       165 ~TIrSRc~~v~F~~l~~~~l~~~L~~il~  193 (824)
T PRK07764        165 GTIRSRTHHYPFRLVPPEVMRGYLERICA  193 (824)
T ss_pred             HHHHhheeEEEeeCCCHHHHHHHHHHHHH
Confidence            322 3346889999999999888887653

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=98.39  E-value=1.9e-06  Score=81.12  Aligned_cols=139  Identities=17%  Similarity=0.152  Sum_probs=82.7

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL  244 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  244 (337)
                      ...+.|+|++|+|||+|++.+++...   .....+++++.      ..+...+...+...       .    ...++..+
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~---~~~~~v~yi~~------~~f~~~~~~~l~~~-------~----~~~f~~~~  200 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALR---ESGGKILYVRS------ELFTEHLVSAIRSG-------E----MQRFRQFY  200 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHH---HcCCCEEEeeH------HHHHHHHHHHHhcc-------h----HHHHHHHc
Confidence            35688999999999999999999873   12233455542      33444455444211       1    12233333


Q ss_pred             cCCcEEEEEecCCCcccc----ccccCCCCC-CCCCCcEEEEeeCCh---------hHHhhccCCceeecCCCCHHHHHH
Q 045709          245 SKKKFVLLLDDIWELVDL----DQVGLPIPS-RTSVSNKVVFTTREF---------GVCGQMEAHRSFKVECLRYDDAWK  310 (337)
Q Consensus       245 ~~k~~LlVlDdv~~~~~~----~~l~~~l~~-~~~g~s~IiiTtr~~---------~v~~~~~~~~~~~l~~L~~~ea~~  310 (337)
                      . ..-+|++||+......    +.+...+.. ...| ..||+||...         .+.+.+..+..+.+++++.++-..
T Consensus       201 ~-~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~-k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~  278 (445)
T PRK12422        201 R-NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEG-KLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRS  278 (445)
T ss_pred             c-cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCC-CcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHH
Confidence            3 3458899999764321    122111110 1134 5788888542         223334455788999999999999


Q ss_pred             HHhHhhCCCCCCCCC
Q 045709          311 LFEQKVGADTLDSHP  325 (337)
Q Consensus       311 Lf~~~~~~~~~~~~~  325 (337)
                      ++.+++-......++
T Consensus       279 iL~~k~~~~~~~l~~  293 (445)
T PRK12422        279 FLERKAEALSIRIEE  293 (445)
T ss_pred             HHHHHHHHcCCCCCH
Confidence            999988544333333

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=98.38  E-value=9.2e-06  Score=72.58  Aligned_cols=167  Identities=17%  Similarity=0.211  Sum_probs=106.4

Q ss_pred             CCccccchhhHHHHHHHHhcCC---CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHH
Q 045709          143 PPTVVGLQLTFDRVWRCLMEEH---AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAK  219 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~~~---~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  219 (337)
                      .+.+.+|+..+..+..++.+..   +..|-|+|-.|.|||.+.+.+++..   ..   ..+|+++-..++..-++..|+.
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~---n~---~~vw~n~~ecft~~~lle~IL~   78 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL---NL---ENVWLNCVECFTYAILLEKILN   78 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc---CC---cceeeehHHhccHHHHHHHHHH
Confidence            4678999999999999887643   3456899999999999999998876   22   3589999999999999999999


Q ss_pred             HhCCC-CccccC----CCHHHHHHHHHH--Hhc--CCcEEEEEecCCCccccccccCC----CC--CCCCCCcEEEEeeC
Q 045709          220 KIGLF-NESWKN----KSMQEKAQEIFK--ILS--KKKFVLLLDDIWELVDLDQVGLP----IP--SRTSVSNKVVFTTR  284 (337)
Q Consensus       220 ~l~~~-~~~~~~----~~~~~~~~~l~~--~l~--~k~~LlVlDdv~~~~~~~~l~~~----l~--~~~~g~s~IiiTtr  284 (337)
                      +.+.. .+....    .+.......+.+  ...  ++.++||||+++...+.+....+    +.  -..+. ..|+...-
T Consensus        79 ~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~-i~iils~~  157 (438)
T KOG2543|consen   79 KSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPT-IVIILSAP  157 (438)
T ss_pred             HhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCc-eEEEEecc
Confidence            98632 211111    112222333333  122  45899999999887665433111    00  01122 33333222


Q ss_pred             Ch-h-HHhhccCC--ceeecCCCCHHHHHHHHhHhh
Q 045709          285 EF-G-VCGQMEAH--RSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       285 ~~-~-v~~~~~~~--~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      .- . ....++..  .++.++..+.+|...+|.+.-
T Consensus       158 ~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~  193 (438)
T KOG2543|consen  158 SCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRDN  193 (438)
T ss_pred             ccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcCC
Confidence            21 1 12223433  356788999999888886544

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=98.38  E-value=3.4e-06  Score=76.36  Aligned_cols=144  Identities=11%  Similarity=0.111  Sum_probs=82.8

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+...+.+..++..+. ..++.++|++|+||||+|+.+++..   ...   ...++.+. .....+...+.....
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~~~~~~lll~G~~G~GKT~la~~l~~~~---~~~---~~~i~~~~-~~~~~i~~~l~~~~~   93 (316)
T PHA02544         21 DECILPAADKETFKSIVKKGRIPNMLLHSPSPGTGKTTVAKALCNEV---GAE---VLFVNGSD-CRIDFVRNRLTRFAS   93 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCCeEEEeeCcCCCCHHHHHHHHHHHh---Ccc---ceEeccCc-ccHHHHHHHHHHHHH
Confidence            457999999999999987765 4567779999999999999998876   222   23334333 111111111111000


Q ss_pred             CCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc--c-cccccCCCCCCCCCCcEEEEeeCChhH-Hhhc-cCCce
Q 045709          223 LFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV--D-LDQVGLPIPSRTSVSNKVVFTTREFGV-CGQM-EAHRS  297 (337)
Q Consensus       223 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~-~~~l~~~l~~~~~g~s~IiiTtr~~~v-~~~~-~~~~~  297 (337)
                      .                  ..+.+.+-+||+||++...  . ...+...+.....+ +++|+||....- ...+ +....
T Consensus        94 ~------------------~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~-~~~Ilt~n~~~~l~~~l~sR~~~  154 (316)
T PHA02544         94 T------------------VSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKN-CSFIITANNKNGIIEPLRSRCRV  154 (316)
T ss_pred             h------------------hcccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCC-ceEEEEcCChhhchHHHHhhceE
Confidence            0                  0011345689999997651  1 12222222222345 788888865431 1111 22346


Q ss_pred             eecCCCCHHHHHHHHh
Q 045709          298 FKVECLRYDDAWKLFE  313 (337)
Q Consensus       298 ~~l~~L~~~ea~~Lf~  313 (337)
                      +.++..+.++..+++.
T Consensus       155 i~~~~p~~~~~~~il~  170 (316)
T PHA02544        155 IDFGVPTKEEQIEMMK  170 (316)
T ss_pred             EEeCCCCHHHHHHHHH
Confidence            7887888888776654

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.37  E-value=1.1e-05  Score=67.25  Aligned_cols=136  Identities=13%  Similarity=0.142  Sum_probs=78.1

Q ss_pred             HHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCC-------------------CCCcEEEEEEecCccCHHHHH
Q 045709          155 RVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTP-------------------NHFDFVIWVVVSRDLQLEKIQ  214 (337)
Q Consensus       155 ~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~-------------------~~f~~~~wv~~~~~~~~~~~~  214 (337)
                      .|.+.+..++. +.+.++|+.|+||||+|+.+........                   .+.+. .++.....       
T Consensus         3 ~l~~~i~~~~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~-~~~~~~~~-------   74 (188)
T TIGR00678         3 QLKRALEKGRLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDL-HRLEPEGQ-------   74 (188)
T ss_pred             HHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcE-EEeccccC-------
Confidence            45555655554 6799999999999999999988773110                   01111 11111100       


Q ss_pred             HHHHHHhCCCCccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCCh-
Q 045709          215 ESIAKKIGLFNESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREF-  286 (337)
Q Consensus       215 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~-  286 (337)
                                     ....++.. .+.+.+     .+.+-++|+||++...  .++.+...+...... +.+|++|++. 
T Consensus        75 ---------------~~~~~~i~-~i~~~~~~~~~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~-~~~il~~~~~~  137 (188)
T TIGR00678        75 ---------------SIKVDQVR-ELVEFLSRTPQESGRRVVIIEDAERMNEAAANALLKTLEEPPPN-TLFILITPSPE  137 (188)
T ss_pred             ---------------cCCHHHHH-HHHHHHccCcccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCC-eEEEEEECChH
Confidence                           11112221 111211     2456689999997653  344454444443344 6777777653 


Q ss_pred             hHHhhc-cCCceeecCCCCHHHHHHHHhHh
Q 045709          287 GVCGQM-EAHRSFKVECLRYDDAWKLFEQK  315 (337)
Q Consensus       287 ~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~  315 (337)
                      .+...+ +....+++.+++.++..+.+.+.
T Consensus       138 ~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~  167 (188)
T TIGR00678       138 KLLPTIRSRCQVLPFPPLSEEALLQWLIRQ  167 (188)
T ss_pred             hChHHHHhhcEEeeCCCCCHHHHHHHHHHc
Confidence            222222 23468899999999999999887

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.

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=6e-06  Score=79.82  Aligned_cols=166  Identities=14%  Similarity=0.117  Sum_probs=92.8

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+..+..|.+.+.+++ .+.+.++|+.|+||||+|+.+.+...- ......       ..+........|.....
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C-~~~~~~-------~pCg~C~sC~~i~~g~h   87 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNC-ETAPTG-------EPCNTCEQCRKVTQGMH   87 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccc-cCCCCC-------CCCcccHHHHHHhcCCC
Confidence            457999988888888887765 577889999999999999999887721 111100       01111112222221110


Q ss_pred             CCCccc---cCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEeeCC-hhHHhh
Q 045709          223 LFNESW---KNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTTRE-FGVCGQ  291 (337)
Q Consensus       223 ~~~~~~---~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTtr~-~~v~~~  291 (337)
                      ...-..   .....++ ++.+.+.+     .+++-++|||+++..  ..++.|...+..-... ..+|++|.+ ..+...
T Consensus        88 pDv~eId~a~~~~Id~-iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~-~ifILaTt~~~kll~T  165 (624)
T PRK14959         88 VDVVEIDGASNRGIDD-AKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPAR-VTFVLATTEPHKFPVT  165 (624)
T ss_pred             CceEEEecccccCHHH-HHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCC-EEEEEecCChhhhhHH
Confidence            000000   0111221 22232222     356679999999765  3344454444322233 556665544 444322


Q ss_pred             c-cCCceeecCCCCHHHHHHHHhHhhCCC
Q 045709          292 M-EAHRSFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       292 ~-~~~~~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      + +....+++.+++.++....+...+...
T Consensus       166 I~SRcq~i~F~pLs~~eL~~~L~~il~~e  194 (624)
T PRK14959        166 IVSRCQHFTFTRLSEAGLEAHLTKVLGRE  194 (624)
T ss_pred             HHhhhhccccCCCCHHHHHHHHHHHHHHc
Confidence            2 233578999999999998888766443

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.36  E-value=5.7e-06  Score=80.04  Aligned_cols=165  Identities=11%  Similarity=0.041  Sum_probs=91.8

Q ss_pred             CccccchhhHHHHHHHHhcCCCe-EEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAG-IVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+..++.|.+++.+++.. .+.++|+.|+||||+|+.+++...- .....   +    ...........|...-+
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c-~~~~~---~----~pCg~C~~C~~i~~~~~   84 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNC-AQGPT---A----TPCGVCESCVALAPNGP   84 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcc-ccCCC---C----CcccccHHHHHhhcccC
Confidence            45899999999999999876654 5789999999999999999987621 11110   0    00111111222211100


Q ss_pred             CCCc-----cccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEE-eeCChhHH
Q 045709          223 LFNE-----SWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVF-TTREFGVC  289 (337)
Q Consensus       223 ~~~~-----~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~Iii-Ttr~~~v~  289 (337)
                      ...+     .......++. +.+.+.+     .++.-++|+|+++..  ...+.+...+..-... +.+|+ ||....+.
T Consensus        85 ~~~dvieidaas~~gvd~i-Rel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~-~~fIL~tte~~kll  162 (584)
T PRK14952         85 GSIDVVELDAASHGGVDDT-RELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEH-LIFIFATTEPEKVL  162 (584)
T ss_pred             CCceEEEeccccccCHHHH-HHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCC-eEEEEEeCChHhhH
Confidence            0000     0001112222 2222221     345568999999754  3344444444333334 55555 44444444


Q ss_pred             hh-ccCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          290 GQ-MEAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       290 ~~-~~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      .. .+....+++.+++.++..+.+.+.+..
T Consensus       163 ~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~  192 (584)
T PRK14952        163 PTIRSRTHHYPFRLLPPRTMRALIARICEQ  192 (584)
T ss_pred             HHHHHhceEEEeeCCCHHHHHHHHHHHHHH
Confidence            32 233468999999999998888876643

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.35  E-value=5.8e-06  Score=79.53  Aligned_cols=165  Identities=13%  Similarity=0.112  Sum_probs=90.4

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|++..+..+.+++..++ .+.+.++|+.|+||||+|+.+++... -..      |.... ..........+.....
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~-C~~------~~~~~-~Cg~C~sCr~i~~~~h   87 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAIN-CLN------PKDGD-CCNSCSVCESINTNQS   87 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhc-CCC------CCCCC-CCcccHHHHHHHcCCC
Confidence            458999999999999987654 45788999999999999999988762 111      11110 1111122222221111


Q ss_pred             CCCccc---cCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEee-CChhHHhh
Q 045709          223 LFNESW---KNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTT-REFGVCGQ  291 (337)
Q Consensus       223 ~~~~~~---~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTt-r~~~v~~~  291 (337)
                      ...-..   .....++. +.+...+     .+++-++|+|+++..  ..+..+...+..-... +.+|++| ....+...
T Consensus        88 ~DiieIdaas~igVd~I-ReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~-tvfIL~Tt~~~KLl~T  165 (605)
T PRK05896         88 VDIVELDAASNNGVDEI-RNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKH-VVFIFATTEFQKIPLT  165 (605)
T ss_pred             CceEEeccccccCHHHH-HHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCc-EEEEEECCChHhhhHH
Confidence            000000   01112221 2222211     234447999999764  3344443333322233 5555544 43344322


Q ss_pred             -ccCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          292 -MEAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       292 -~~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                       .+....+++.+++.++....+...+..
T Consensus       166 I~SRcq~ieF~~Ls~~eL~~~L~~il~k  193 (605)
T PRK05896        166 IISRCQRYNFKKLNNSELQELLKSIAKK  193 (605)
T ss_pred             HHhhhhhcccCCCCHHHHHHHHHHHHHH
Confidence             223467899999999999888886643

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.35  E-value=3.3e-06  Score=79.64  Aligned_cols=136  Identities=21%  Similarity=0.212  Sum_probs=82.3

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL  244 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  244 (337)
                      ...+.|+|.+|+|||+|++.+++... ....-..++|++.      .++...+...+...       +..    .+.+.+
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~-~~~~~~~v~yi~~------~~f~~~~~~~~~~~-------~~~----~f~~~~  191 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVV-QNEPDLRVMYITS------EKFLNDLVDSMKEG-------KLN----EFREKY  191 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHH-HhCCCCeEEEEEH------HHHHHHHHHHHhcc-------cHH----HHHHHH
Confidence            35699999999999999999999872 1122235666654      34555565555321       112    233333


Q ss_pred             cCCcEEEEEecCCCccc---c-ccccCCCCC-CCCCCcEEEEeeC-Chh--------HHhhccCCceeecCCCCHHHHHH
Q 045709          245 SKKKFVLLLDDIWELVD---L-DQVGLPIPS-RTSVSNKVVFTTR-EFG--------VCGQMEAHRSFKVECLRYDDAWK  310 (337)
Q Consensus       245 ~~k~~LlVlDdv~~~~~---~-~~l~~~l~~-~~~g~s~IiiTtr-~~~--------v~~~~~~~~~~~l~~L~~~ea~~  310 (337)
                      ..+.-+|+|||++....   + ..+...+.. ...+ ..||+||. ...        +.+.+..+.++.+++.+.+.-..
T Consensus       192 ~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~-k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~  270 (440)
T PRK14088        192 RKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSG-KQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKK  270 (440)
T ss_pred             HhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcC-CeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHH
Confidence            34566899999975421   1 122111111 1234 57888875 322        12233445688999999999999


Q ss_pred             HHhHhhCCC
Q 045709          311 LFEQKVGAD  319 (337)
Q Consensus       311 Lf~~~~~~~  319 (337)
                      ++.+.+...
T Consensus       271 IL~~~~~~~  279 (440)
T PRK14088        271 IARKMLEIE  279 (440)
T ss_pred             HHHHHHHhc
Confidence            999988543

>CHL00095 clpC Clp protease ATP binding subunit

Probab=98.34  E-value=4.2e-06  Score=85.02  Aligned_cols=155  Identities=16%  Similarity=0.206  Sum_probs=90.3

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCC---CcEEEEEEecCccCHHHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH---FDFVIWVVVSRDLQLEKIQESIAKK  220 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~---f~~~~wv~~~~~~~~~~~~~~i~~~  220 (337)
                      ..++||++++++++..|......-+.++|++|+|||++|..++.......-.   -...+|. +    +...++    . 
T Consensus       179 ~~~igr~~ei~~~~~~L~r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~-l----~~~~l~----a-  248 (821)
T CHL00095        179 DPVIGREKEIERVIQILGRRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVIT-L----DIGLLL----A-  248 (821)
T ss_pred             CCCCCcHHHHHHHHHHHcccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE-e----eHHHHh----c-
Confidence            3479999999999999987666677899999999999999998876211111   1234442 1    121211    1 


Q ss_pred             hCCCCccccCCCHHHHHHHHHHHh-cCCcEEEEEecCCCcc---------ccccccCCCCCCCCCCcEEEEeeCChhHHh
Q 045709          221 IGLFNESWKNKSMQEKAQEIFKIL-SKKKFVLLLDDIWELV---------DLDQVGLPIPSRTSVSNKVVFTTREFGVCG  290 (337)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~---------~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~  290 (337)
                       +..    .....++..+.+.+.+ ..++.+|++|+++...         +...+..+  ....|.-++|-+|...+...
T Consensus       249 -g~~----~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp--~l~rg~l~~IgaTt~~ey~~  321 (821)
T CHL00095        249 -GTK----YRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKP--ALARGELQCIGATTLDEYRK  321 (821)
T ss_pred             -cCC----CccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHH--HHhCCCcEEEEeCCHHHHHH
Confidence             100    1112333444444333 3568999999996431         11222221  11223245666665544321


Q ss_pred             h-------ccCCceeecCCCCHHHHHHHHhHh
Q 045709          291 Q-------MEAHRSFKVECLRYDDAWKLFEQK  315 (337)
Q Consensus       291 ~-------~~~~~~~~l~~L~~~ea~~Lf~~~  315 (337)
                      .       ......+.++..+.++...++...
T Consensus       322 ~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l  353 (821)
T CHL00095        322 HIEKDPALERRFQPVYVGEPSVEETIEILFGL  353 (821)
T ss_pred             HHhcCHHHHhcceEEecCCCCHHHHHHHHHHH
Confidence            1       112356788999999988887653

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.31  E-value=6.4e-06  Score=75.14  Aligned_cols=168  Identities=11%  Similarity=0.086  Sum_probs=93.5

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCC-CCcEEEEEEecCccCHHHHHHHHHHHh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPN-HFDFVIWVVVSRDLQLEKIQESIAKKI  221 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-~f~~~~wv~~~~~~~~~~~~~~i~~~l  221 (337)
                      ..++|.++....+...+.+++. ..+.|+|+.|+||||+|..+.+....... .+...   ............+.+...-
T Consensus        23 ~~l~Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~---~~~~~~~~c~~c~~i~~~~   99 (351)
T PRK09112         23 TRLFGHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPE---TLADPDPASPVWRQIAQGA   99 (351)
T ss_pred             hhccCcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCcc---ccCCCCCCCHHHHHHHcCC
Confidence            5689999999999999887654 46999999999999999999888732110 01111   0011111112233332221


Q ss_pred             C-------CCCcc-----ccCCCHHHHHHHHHHHhc-----CCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEe
Q 045709          222 G-------LFNES-----WKNKSMQEKAQEIFKILS-----KKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFT  282 (337)
Q Consensus       222 ~-------~~~~~-----~~~~~~~~~~~~l~~~l~-----~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiT  282 (337)
                      .       .+.+.     ......++ +..+.+++.     ++.-++|+|+++...  ..+.+...+..-... +.+|++
T Consensus       100 hPdl~~l~~~~~~~~~~~~~~I~vd~-iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~-~~fiLi  177 (351)
T PRK09112        100 HPNLLHITRPFDEKTGKFKTAITVDE-IRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPAR-ALFILI  177 (351)
T ss_pred             CCCEEEeecccccccccccccCCHHH-HHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCC-ceEEEE
Confidence            1       00000     01112333 334454442     466799999998653  223332222221223 455554


Q ss_pred             eCC-hhHHhhc-cCCceeecCCCCHHHHHHHHhHhh
Q 045709          283 TRE-FGVCGQM-EAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       283 tr~-~~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      |.+ ..+...+ +....+++.+++.++..+++.+..
T Consensus       178 t~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~  213 (351)
T PRK09112        178 SHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLG  213 (351)
T ss_pred             ECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhh
Confidence            443 3332222 233589999999999999998843

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.31  E-value=4.4e-06  Score=71.87  Aligned_cols=138  Identities=12%  Similarity=0.093  Sum_probs=75.7

Q ss_pred             ccc-cchh-hHHHHHHHHhc-CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHh
Q 045709          145 TVV-GLQL-TFDRVWRCLME-EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKI  221 (337)
Q Consensus       145 ~~v-Gr~~-~~~~l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l  221 (337)
                      +|+ |... .+..+.++... .....+.|+|.+|+|||+||+.+++...  ... ....+++.....      ..    +
T Consensus        19 ~f~~~~~~~~~~~l~~~~~~~~~~~~~~l~G~~G~GKT~La~ai~~~~~--~~~-~~~~~i~~~~~~------~~----~   85 (227)
T PRK08903         19 NFVAGENAELVARLRELAAGPVADRFFYLWGEAGSGRSHLLQALVADAS--YGG-RNARYLDAASPL------LA----F   85 (227)
T ss_pred             ccccCCcHHHHHHHHHHHhccCCCCeEEEECCCCCCHHHHHHHHHHHHH--hCC-CcEEEEehHHhH------HH----H
Confidence            344 4433 33444444332 3456789999999999999999998762  122 234444433211      00    0


Q ss_pred             CCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccccc--cccCCCCC-CCCCCcEEEEeeCChhHH--------h
Q 045709          222 GLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLD--QVGLPIPS-RTSVSNKVVFTTREFGVC--------G  290 (337)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~--~l~~~l~~-~~~g~s~IiiTtr~~~v~--------~  290 (337)
                                          ... ...-+||+||++....+.  .+...+.. ...+...+|+|++.....        +
T Consensus        86 --------------------~~~-~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~s  144 (227)
T PRK08903         86 --------------------DFD-PEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRT  144 (227)
T ss_pred             --------------------hhc-ccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHH
Confidence                                011 233479999997653221  22222211 112312466666643321        1


Q ss_pred             hccCCceeecCCCCHHHHHHHHhHhh
Q 045709          291 QMEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       291 ~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      .+.....+++++|++++-..++.+.+
T Consensus       145 r~~~~~~i~l~pl~~~~~~~~l~~~~  170 (227)
T PRK08903        145 RLGWGLVYELKPLSDADKIAALKAAA  170 (227)
T ss_pred             HHhcCeEEEecCCCHHHHHHHHHHHH
Confidence            23334688999999988777777654

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.31  E-value=9.2e-06  Score=78.99  Aligned_cols=169  Identities=13%  Similarity=0.097  Sum_probs=93.7

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCCCc--EEEEEEecCccCHHHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFD--FVIWVVVSRDLQLEKIQESIAKK  220 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~--~~~wv~~~~~~~~~~~~~~i~~~  220 (337)
                      .+++|.+..++.|.+++..++. ..+.++|+.|+||||+|+.+++...- .....  ...+-    ......-...|...
T Consensus        24 ~dliGq~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c-~~~~~~~~~~~~----~cg~c~~C~~i~~g   98 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNY-EGPDGDGGPTID----LCGVGEHCQAIMEG   98 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCc-CCccccCCCccc----cCcccHHHHHHhcC
Confidence            4589999999999999987654 46889999999999999999887621 11100  00000    00111112222221


Q ss_pred             hCCCC---ccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEee-CChhHH
Q 045709          221 IGLFN---ESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTT-REFGVC  289 (337)
Q Consensus       221 l~~~~---~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTt-r~~~v~  289 (337)
                      .....   +.......++. +.+.+.+     .+++-++|+|+++...  ..+.+...+..-... +.+|++| ....+.
T Consensus        99 ~h~Dv~e~~a~s~~gvd~I-ReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~-~~fIl~tte~~kll  176 (598)
T PRK09111         99 RHVDVLEMDAASHTGVDDI-REIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPH-VKFIFATTEIRKVP  176 (598)
T ss_pred             CCCceEEecccccCCHHHH-HHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCC-eEEEEEeCChhhhh
Confidence            11100   00011122222 2222222     2455689999997653  244444334332334 6666555 434443


Q ss_pred             hhc-cCCceeecCCCCHHHHHHHHhHhhCCC
Q 045709          290 GQM-EAHRSFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       290 ~~~-~~~~~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      ..+ +....+++.+++.++....+.+.+...
T Consensus       177 ~tI~SRcq~~~f~~l~~~el~~~L~~i~~ke  207 (598)
T PRK09111        177 VTVLSRCQRFDLRRIEADVLAAHLSRIAAKE  207 (598)
T ss_pred             HHHHhheeEEEecCCCHHHHHHHHHHHHHHc
Confidence            222 234678999999999999988876433

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.31  E-value=2.2e-05  Score=72.06  Aligned_cols=170  Identities=13%  Similarity=0.068  Sum_probs=94.7

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCC-CCCcE-EE-EEEecCccCHHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTP-NHFDF-VI-WVVVSRDLQLEKIQESIAK  219 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~~f~~-~~-wv~~~~~~~~~~~~~~i~~  219 (337)
                      .+++|.+.....|.+.+..++. ..+.++|+.|+||+|+|..+.+...-.. ..... .. -.+... .......+.+..
T Consensus        19 ~~iiGq~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~-~~~c~~c~~i~~   97 (365)
T PRK07471         19 TALFGHAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAI-DPDHPVARRIAA   97 (365)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccC-CCCChHHHHHHc
Confidence            5689999999999999887764 4689999999999999999988773111 00000 00 000000 000111222221


Q ss_pred             HhCCC-----C---ccc----cCCCHHHHHHHHHHHhc-----CCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEE
Q 045709          220 KIGLF-----N---ESW----KNKSMQEKAQEIFKILS-----KKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVV  280 (337)
Q Consensus       220 ~l~~~-----~---~~~----~~~~~~~~~~~l~~~l~-----~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~Ii  280 (337)
                      .....     .   +.-    .....++ ++.+.+.+.     +++-++|+|+++...  ....+...+..-..+ +.+|
T Consensus        98 ~~HPDl~~i~~~~~~~~~~~~~~I~Vdq-iR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~-~~~I  175 (365)
T PRK07471         98 GAHGGLLTLERSWNEKGKRLRTVITVDE-VRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPAR-SLFL  175 (365)
T ss_pred             cCCCCeEEEecccccccccccccccHHH-HHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCC-eEEE
Confidence            11000     0   000    0112222 444444443     456799999997652  233333333222234 6677


Q ss_pred             EeeCChh-HHhhc-cCCceeecCCCCHHHHHHHHhHhh
Q 045709          281 FTTREFG-VCGQM-EAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       281 iTtr~~~-v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ++|.+.. +...+ +....+.+.+++.++..+++....
T Consensus       176 L~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~  213 (365)
T PRK07471        176 LVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAG  213 (365)
T ss_pred             EEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhc
Confidence            7777653 32222 234688999999999999998865

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=98.30  E-value=1.2e-05  Score=70.52  Aligned_cols=114  Identities=15%  Similarity=0.222  Sum_probs=79.1

Q ss_pred             Cccccch---hhHHHHHHHHhcC---CCeEEEEEecCCCcHHHHHHHHHHhhccCCC---CCcEEEEEEecCccCHHHHH
Q 045709          144 PTVVGLQ---LTFDRVWRCLMEE---HAGIVGLYGMGGVGKTTLLTQINNRFFDTPN---HFDFVIWVVVSRDLQLEKIQ  214 (337)
Q Consensus       144 ~~~vGr~---~~~~~l~~~L~~~---~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~---~f~~~~wv~~~~~~~~~~~~  214 (337)
                      +.++|-.   ..++.|.++|..+   ..+.+.|||.+|.|||++++.+...+....+   .--.++.+.....++...+.
T Consensus        34 ~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y  113 (302)
T PF05621_consen   34 DRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFY  113 (302)
T ss_pred             CCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHH
Confidence            4567743   3445555555433   5678999999999999999999987632111   11147788888999999999


Q ss_pred             HHHHHHhCCCCccccCCCHHHHHHHHHHHhcC-CcEEEEEecCCCc
Q 045709          215 ESIAKKIGLFNESWKNKSMQEKAQEIFKILSK-KKFVLLLDDIWEL  259 (337)
Q Consensus       215 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~~  259 (337)
                      ..|+.+++.+..  ...+...........++. +--+||+|++++.
T Consensus       114 ~~IL~~lgaP~~--~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~l  157 (302)
T PF05621_consen  114 SAILEALGAPYR--PRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNL  157 (302)
T ss_pred             HHHHHHhCcccC--CCCCHHHHHHHHHHHHHHcCCcEEEeechHHH
Confidence            999999998753  233444445455555543 4559999999874

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.29  E-value=1.1e-05  Score=82.12  Aligned_cols=155  Identities=16%  Similarity=0.178  Sum_probs=88.8

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCC--CC-Cc-EEEEEEecCccCHHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTP--NH-FD-FVIWVVVSRDLQLEKIQESIAK  219 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--~~-f~-~~~wv~~~~~~~~~~~~~~i~~  219 (337)
                      ..++||+.++.+++..|.......+.++|.+|+|||++|..+........  .. .. .+++++++.      +.    .
T Consensus       178 ~~vigr~~ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~------l~----a  247 (857)
T PRK10865        178 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA------LV----A  247 (857)
T ss_pred             CcCCCCHHHHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhh------hh----h
Confidence            34899999999999999877777788999999999999999998872110  00 11 222222221      11    0


Q ss_pred             HhCCCCccccCCCHHHHHHHHHHHh--cCCcEEEEEecCCCcc---------ccccccCCCCCCCCCCcEEEEeeCChhH
Q 045709          220 KIGLFNESWKNKSMQEKAQEIFKIL--SKKKFVLLLDDIWELV---------DLDQVGLPIPSRTSVSNKVVFTTREFGV  288 (337)
Q Consensus       220 ~l~~~~~~~~~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~~~---------~~~~l~~~l~~~~~g~s~IiiTtr~~~v  288 (337)
                        +..    .....+...+.+...+  .+++.+|++|+++...         +...+..+.  ...|.-++|-+|...+.
T Consensus       248 --g~~----~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~--l~~g~l~~IgaTt~~e~  319 (857)
T PRK10865        248 --GAK----YRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPA--LARGELHCVGATTLDEY  319 (857)
T ss_pred             --ccc----hhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcch--hhcCCCeEEEcCCCHHH
Confidence              000    0111233333333332  2568999999998652         112222222  23342466655555443


Q ss_pred             Hhhc-------cCCceeecCCCCHHHHHHHHhHhh
Q 045709          289 CGQM-------EAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       289 ~~~~-------~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ...+       .....+.+...+.++...++....
T Consensus       320 r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~  354 (857)
T PRK10865        320 RQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLK  354 (857)
T ss_pred             HHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHh
Confidence            1111       122356677778999999887654

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

Probab=98.29  E-value=4.9e-06  Score=72.23  Aligned_cols=168  Identities=12%  Similarity=0.139  Sum_probs=101.9

Q ss_pred             CCccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEE-EEecCccCHHHHHHHHHHHh
Q 045709          143 PPTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIW-VVVSRDLQLEKIQESIAKKI  221 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~w-v~~~~~~~~~~~~~~i~~~l  221 (337)
                      -.+++|.+..+.-|.+.+.....+....+|++|.|||+-|+.+..... -.+-|.+.+. .|+|......-+-.      
T Consensus        35 ~de~~gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~-~~~~~~~rvl~lnaSderGisvvr~------  107 (346)
T KOG0989|consen   35 FDELAGQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALN-CEQLFPCRVLELNASDERGISVVRE------  107 (346)
T ss_pred             HHhhcchHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhc-Cccccccchhhhcccccccccchhh------
Confidence            356899999999999999887889999999999999999999988873 2345554432 33443221110000      


Q ss_pred             CCCCccccCCCHHHHHHHHHHHh--cCCc-EEEEEecCCCc--cccccccCCCCCCCCCCcEEEEeeCC-hhHHhhc-cC
Q 045709          222 GLFNESWKNKSMQEKAQEIFKIL--SKKK-FVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTTRE-FGVCGQM-EA  294 (337)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~l~~~l--~~k~-~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTtr~-~~v~~~~-~~  294 (337)
                             ...+...+........  ...+ -++|||++++.  +.|..++..+.+.... ++.++.|.. ..+...+ +.
T Consensus       108 -------Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~-trFiLIcnylsrii~pi~SR  179 (346)
T KOG0989|consen  108 -------KIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRT-TRFILICNYLSRIIRPLVSR  179 (346)
T ss_pred             -------hhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccc-eEEEEEcCChhhCChHHHhh
Confidence                   1111111111111000  0123 37889999876  5687776655554444 665554443 2222221 12


Q ss_pred             CceeecCCCCHHHHHHHHhHhhCCCCCCCCC
Q 045709          295 HRSFKVECLRYDDAWKLFEQKVGADTLDSHP  325 (337)
Q Consensus       295 ~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~  325 (337)
                      ..-|..++|.+++...-++..+-..+...++
T Consensus       180 C~KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~  210 (346)
T KOG0989|consen  180 CQKFRFKKLKDEDIVDRLEKIASKEGVDIDD  210 (346)
T ss_pred             HHHhcCCCcchHHHHHHHHHHHHHhCCCCCH
Confidence            2468899999999999888888665544444

>TIGR03689 pup_AAA proteasome ATPase

Probab=98.29  E-value=8.1e-06  Score=77.52  Aligned_cols=161  Identities=13%  Similarity=0.144  Sum_probs=89.4

Q ss_pred             CccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCC---CCCcEEEEEEecCc
Q 045709          144 PTVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTP---NHFDFVIWVVVSRD  207 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~wv~~~~~  207 (337)
                      .++.|.+..++.|.+.+.-             ...+-+.++|++|+|||++|+.+++... ..   .......|+++...
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~-~~i~~~~~~~~~fl~v~~~  260 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLA-QRIGAETGDKSYFLNIKGP  260 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhc-cccccccCCceeEEeccch
Confidence            3467888888888777531             2355689999999999999999999872 11   01223445544432


Q ss_pred             cCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh-cCCcEEEEEecCCCcc---------c-----cccccCCCCCC
Q 045709          208 LQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL-SKKKFVLLLDDIWELV---------D-----LDQVGLPIPSR  272 (337)
Q Consensus       208 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~---------~-----~~~l~~~l~~~  272 (337)
                          .+    +......    .......+....+... .+++++|+||+++...         +     +..+...+...
T Consensus       261 ----eL----l~kyvGe----te~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl  328 (512)
T TIGR03689       261 ----EL----LNKYVGE----TERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGV  328 (512)
T ss_pred             ----hh----cccccch----HHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhccc
Confidence                11    1110000    0001112222222222 3578999999998531         1     11222222211


Q ss_pred             --CCCCcEEEEeeCChhHHh-h-c---cCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          273 --TSVSNKVVFTTREFGVCG-Q-M---EAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       273 --~~g~s~IiiTtr~~~v~~-~-~---~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                        ..+ ..||.||....... . .   .-+..|++++.+.++..++|.++...
T Consensus       329 ~~~~~-ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~  380 (512)
T TIGR03689       329 ESLDN-VIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTD  380 (512)
T ss_pred             ccCCc-eEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhc
Confidence              123 45555665444321 1 1   12456899999999999999998743

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=98.28  E-value=8.7e-06  Score=83.03  Aligned_cols=155  Identities=14%  Similarity=0.179  Sum_probs=89.9

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCC----CcEEEEEEecCccCHHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH----FDFVIWVVVSRDLQLEKIQESIAK  219 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~----f~~~~wv~~~~~~~~~~~~~~i~~  219 (337)
                      ..++||++++.+++..|.......+.++|.+|+|||+++..++..... ...    ....+|.-     ++..+.    .
T Consensus       173 ~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~-~~~p~~l~~~~~~~l-----~~~~l~----a  242 (852)
T TIGR03346       173 DPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVN-GDVPESLKNKRLLAL-----DMGALI----A  242 (852)
T ss_pred             CcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhc-cCCchhhcCCeEEEe-----eHHHHh----h
Confidence            348999999999999998776677779999999999999999887621 110    12222221     111111    0


Q ss_pred             HhCCCCccccCCCHHHHHHHHHHHhc--CCcEEEEEecCCCccc---------cccccCCCCCCCCCCcEEEEeeCChhH
Q 045709          220 KIGLFNESWKNKSMQEKAQEIFKILS--KKKFVLLLDDIWELVD---------LDQVGLPIPSRTSVSNKVVFTTREFGV  288 (337)
Q Consensus       220 ~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~---------~~~l~~~l~~~~~g~s~IiiTtr~~~v  288 (337)
                        +..    .....+.....+...+.  +++.+|++|+++....         ...+..+.  ...|.-++|-+|...+.
T Consensus       243 --~~~----~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~--l~~g~i~~IgaTt~~e~  314 (852)
T TIGR03346       243 --GAK----YRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPA--LARGELHCIGATTLDEY  314 (852)
T ss_pred             --cch----hhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchh--hhcCceEEEEeCcHHHH
Confidence              000    01122333344443332  4689999999985421         11222222  23342455555554433


Q ss_pred             Hhh-------ccCCceeecCCCCHHHHHHHHhHhh
Q 045709          289 CGQ-------MEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       289 ~~~-------~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      -..       ......+.++..+.++...++....
T Consensus       315 r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       315 RKYIEKDAALERRFQPVFVDEPTVEDTISILRGLK  349 (852)
T ss_pred             HHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHH
Confidence            111       1123568899999999999987653

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.

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

Probab=98.28  E-value=1.3e-05  Score=74.97  Aligned_cols=164  Identities=16%  Similarity=0.168  Sum_probs=93.2

Q ss_pred             ccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          145 TVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      ++.|.+..++.|.+.+.-             ....-+.++|++|+|||++|+.+++..   ...|-     .+...    
T Consensus       184 DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el---~~~fi-----~V~~s----  251 (438)
T PTZ00361        184 DIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANET---SATFL-----RVVGS----  251 (438)
T ss_pred             HhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhh---CCCEE-----EEecc----
Confidence            467888888888776631             234568899999999999999999987   34442     22111    


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc----------------cccccCCCC--CCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD----------------LDQVGLPIP--SRT  273 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~l~--~~~  273 (337)
                      .+.    ...       ...........+.....+.+.+|+||+++....                +..+...+.  ...
T Consensus       252 eL~----~k~-------~Ge~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~  320 (438)
T PTZ00361        252 ELI----QKY-------LGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSR  320 (438)
T ss_pred             hhh----hhh-------cchHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhccc
Confidence            111    111       011111112222223345788999999864310                011111111  112


Q ss_pred             CCCcEEEEeeCChhHHhh-c----cCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHH
Q 045709          274 SVSNKVVFTTREFGVCGQ-M----EAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAE  332 (337)
Q Consensus       274 ~g~s~IiiTtr~~~v~~~-~----~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~  332 (337)
                      .+ ..||.||...+.... +    .....+.+++.+.++..++|..++..-....+.++..++.
T Consensus       321 ~~-V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dvdl~~la~  383 (438)
T PTZ00361        321 GD-VKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIM  383 (438)
T ss_pred             CC-eEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCcCHHHHHH
Confidence            23 678888876544322 1    1235789999999999999998875443333445555543

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.26  E-value=3.9e-06  Score=79.22  Aligned_cols=136  Identities=14%  Similarity=0.152  Sum_probs=83.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL  244 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  244 (337)
                      ...+.|+|..|+|||+|++.+++... ....-..+++++      ..++...+...+....         .....+.+.+
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~-~~~~~~~v~yv~------~~~f~~~~~~~l~~~~---------~~~~~~~~~~  204 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIE-SNFSDLKVSYMS------GDEFARKAVDILQKTH---------KEIEQFKNEI  204 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHH-HhCCCCeEEEEE------HHHHHHHHHHHHHHhh---------hHHHHHHHHh
Confidence            35688999999999999999998762 112223445553      3456666666654210         1223344444


Q ss_pred             cCCcEEEEEecCCCcc---cc-ccccCCCCC-CCCCCcEEEEeeCCh---------hHHhhccCCceeecCCCCHHHHHH
Q 045709          245 SKKKFVLLLDDIWELV---DL-DQVGLPIPS-RTSVSNKVVFTTREF---------GVCGQMEAHRSFKVECLRYDDAWK  310 (337)
Q Consensus       245 ~~k~~LlVlDdv~~~~---~~-~~l~~~l~~-~~~g~s~IiiTtr~~---------~v~~~~~~~~~~~l~~L~~~ea~~  310 (337)
                      . ..-+|||||+....   .+ +.+...+.. ...+ ..||+|+...         .+.+.+..+-++.+++++.++-..
T Consensus       205 ~-~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~-k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~  282 (450)
T PRK14087        205 C-QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIEND-KQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATA  282 (450)
T ss_pred             c-cCCEEEEeccccccCCHHHHHHHHHHHHHHHHcC-CcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHH
Confidence            3 34488999997542   11 222222211 1234 5788887643         234445556788999999999999


Q ss_pred             HHhHhhCC
Q 045709          311 LFEQKVGA  318 (337)
Q Consensus       311 Lf~~~~~~  318 (337)
                      ++.+++-.
T Consensus       283 iL~~~~~~  290 (450)
T PRK14087        283 IIKKEIKN  290 (450)
T ss_pred             HHHHHHHh
Confidence            99998853

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=98.26  E-value=7.8e-06  Score=76.59  Aligned_cols=136  Identities=21%  Similarity=0.241  Sum_probs=80.4

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL  244 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  244 (337)
                      ...+.|+|.+|+|||+|++.+++... ....-..++|++.      ..+...+...+...       ...    .+.+.+
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~-~~~~~~~v~yi~~------~~~~~~~~~~~~~~-------~~~----~~~~~~  197 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEIL-ENNPNAKVVYVSS------EKFTNDFVNALRNN-------KME----EFKEKY  197 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHH-HhCCCCcEEEEEH------HHHHHHHHHHHHcC-------CHH----HHHHHH
Confidence            35688999999999999999999873 2221234566643      33444455444311       122    233333


Q ss_pred             cCCcEEEEEecCCCccc---c-ccccCCCCC-CCCCCcEEEEeeCChh---------HHhhccCCceeecCCCCHHHHHH
Q 045709          245 SKKKFVLLLDDIWELVD---L-DQVGLPIPS-RTSVSNKVVFTTREFG---------VCGQMEAHRSFKVECLRYDDAWK  310 (337)
Q Consensus       245 ~~k~~LlVlDdv~~~~~---~-~~l~~~l~~-~~~g~s~IiiTtr~~~---------v~~~~~~~~~~~l~~L~~~ea~~  310 (337)
                      .+ .-+|+|||++....   + +.+...+.. ...+ ..+|+||....         +.+.+.....+.+++.+.++-..
T Consensus       198 ~~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~-~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~  275 (405)
T TIGR00362       198 RS-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENG-KQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLA  275 (405)
T ss_pred             Hh-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCC-CCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHH
Confidence            32 34899999975422   1 112111111 1234 56888776421         22333344578999999999999


Q ss_pred             HHhHhhCCCC
Q 045709          311 LFEQKVGADT  320 (337)
Q Consensus       311 Lf~~~~~~~~  320 (337)
                      ++.+++....
T Consensus       276 il~~~~~~~~  285 (405)
T TIGR00362       276 ILQKKAEEEG  285 (405)
T ss_pred             HHHHHHHHcC
Confidence            9999986543

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).

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.25  E-value=2e-05  Score=76.82  Aligned_cols=171  Identities=12%  Similarity=0.125  Sum_probs=93.1

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEE-ecCccCHHHHHHHHHHHh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVV-VSRDLQLEKIQESIAKKI  221 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~-~~~~~~~~~~~~~i~~~l  221 (337)
                      .+++|.+..+..|.+++.+++. +.+.++|+.|+||||+|+.+.+... -......-.|.. .............+...-
T Consensus        16 ~eivGQe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~-c~~~~~~~~~~~~~~~~Cg~C~sC~~~~~g~   94 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVN-CQRMIDDPVYLQEVTEPCGECESCRDFDAGT   94 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhC-CCCcCCccccccccCCCCccCHHHHHHhccC
Confidence            4589999999999998877655 4588999999999999999988772 111111001111 001111112222222111


Q ss_pred             CCCCccc---cCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEee-CChhHHh
Q 045709          222 GLFNESW---KNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTT-REFGVCG  290 (337)
Q Consensus       222 ~~~~~~~---~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTt-r~~~v~~  290 (337)
                      ......+   .....+++.. +.+.+     .+++-++|+|+++...  ..+.+...+..-... +.+|++| +...+..
T Consensus        95 ~~n~~~~d~~s~~~vd~Ir~-l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~-tv~IL~t~~~~kLl~  172 (620)
T PRK14954         95 SLNISEFDAASNNSVDDIRQ-LRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPH-AIFIFATTELHKIPA  172 (620)
T ss_pred             CCCeEEecccccCCHHHHHH-HHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCC-eEEEEEeCChhhhhH
Confidence            1000000   1111233322 22222     3455689999997653  244444444332234 5555544 4344433


Q ss_pred             h-ccCCceeecCCCCHHHHHHHHhHhhC
Q 045709          291 Q-MEAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       291 ~-~~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      . .+....+++.+++.++....+.+.+.
T Consensus       173 TI~SRc~~vef~~l~~~ei~~~L~~i~~  200 (620)
T PRK14954        173 TIASRCQRFNFKRIPLDEIQSQLQMICR  200 (620)
T ss_pred             HHHhhceEEecCCCCHHHHHHHHHHHHH
Confidence            2 23456899999999998888877653

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

Probab=98.24  E-value=8e-06  Score=81.46  Aligned_cols=156  Identities=16%  Similarity=0.241  Sum_probs=91.1

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCC---CcEEEEEEecCccCHHHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH---FDFVIWVVVSRDLQLEKIQESIAKK  220 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~---f~~~~wv~~~~~~~~~~~~~~i~~~  220 (337)
                      +.++||++++.+++..|.......+.++|.+|+|||++|+.++.........   .++.+|..     ++..+    +. 
T Consensus       186 ~~liGR~~ei~~~i~iL~r~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l-----~~~~l----la-  255 (758)
T PRK11034        186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL-----DIGSL----LA-  255 (758)
T ss_pred             CcCcCCCHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec-----cHHHH----hc-
Confidence            3489999999999998887655667799999999999999998875221112   13344421     11111    10 


Q ss_pred             hCCCCccccCCCHHHHHHHHHHHh-cCCcEEEEEecCCCc----------cccccccCCCCCCCCCCcEEEEeeCChhHH
Q 045709          221 IGLFNESWKNKSMQEKAQEIFKIL-SKKKFVLLLDDIWEL----------VDLDQVGLPIPSRTSVSNKVVFTTREFGVC  289 (337)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~----------~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~  289 (337)
                       +..    .....+...+.+...+ +.++.+|+||+++..          .+...+..++.  ..|.-++|-+|...+..
T Consensus       256 -G~~----~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L--~~g~i~vIgATt~~E~~  328 (758)
T PRK11034        256 -GTK----YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLL--SSGKIRVIGSTTYQEFS  328 (758)
T ss_pred             -ccc----hhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHH--hCCCeEEEecCChHHHH
Confidence             000    0112333334444433 346789999999743          11212222222  23324555555544421


Q ss_pred             hh-------ccCCceeecCCCCHHHHHHHHhHhh
Q 045709          290 GQ-------MEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       290 ~~-------~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ..       ......+.+++++.++..+++....
T Consensus       329 ~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        329 NIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             HHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence            11       1123579999999999999998654

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.24  E-value=2e-05  Score=77.10  Aligned_cols=155  Identities=12%  Similarity=0.154  Sum_probs=90.8

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccC--------------------CCCCcEEEEE
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDT--------------------PNHFDFVIWV  202 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~--------------------~~~f~~~~wv  202 (337)
                      .+++|.+...+.|.+++..+.. +.+.++|+.|+||||+|+.+.....-.                    ..+|+. ..+
T Consensus        17 ~~viGq~~~~~~L~~~i~~~~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~-~~l   95 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATNKLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNI-HEL   95 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCce-EEe
Confidence            4589999999999999987655 458899999999999999988866200                    011221 111


Q ss_pred             EecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEE
Q 045709          203 VVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVV  280 (337)
Q Consensus       203 ~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~Ii  280 (337)
                      +.+.......+ +.++.++...                  -..+++-++|+|+++...  .++.+...+..-... +.+|
T Consensus        96 d~~~~~~vd~I-r~li~~~~~~------------------P~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~-tifI  155 (614)
T PRK14971         96 DAASNNSVDDI-RNLIEQVRIP------------------PQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSY-AIFI  155 (614)
T ss_pred             cccccCCHHHH-HHHHHHHhhC------------------cccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCC-eEEE
Confidence            11111111111 1111111100                  012345588999997653  344554444333334 6665


Q ss_pred             Eee-CChhHHhhc-cCCceeecCCCCHHHHHHHHhHhhCCC
Q 045709          281 FTT-REFGVCGQM-EAHRSFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       281 iTt-r~~~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      ++| ....+...+ +....+++.+++.++....+.+.+-..
T Consensus       156 L~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~e  196 (614)
T PRK14971        156 LATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKE  196 (614)
T ss_pred             EEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHc
Confidence            544 444444332 334678999999999998888766443

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.23  E-value=7.3e-06  Score=77.81  Aligned_cols=135  Identities=21%  Similarity=0.254  Sum_probs=80.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL  244 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  244 (337)
                      ...+.|+|.+|+|||+|++.+++... ....-..++|++..      .+...+...+..       ...    ..+.+.+
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~-~~~~~~~v~yi~~~------~~~~~~~~~~~~-------~~~----~~~~~~~  209 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYIL-EKNPNAKVVYVTSE------KFTNDFVNALRN-------NTM----EEFKEKY  209 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH-HhCCCCeEEEEEHH------HHHHHHHHHHHc-------CcH----HHHHHHH
Confidence            35689999999999999999999883 12222345566443      334444444421       111    2233334


Q ss_pred             cCCcEEEEEecCCCccc----cccccCCCCC-CCCCCcEEEEeeCChh---------HHhhccCCceeecCCCCHHHHHH
Q 045709          245 SKKKFVLLLDDIWELVD----LDQVGLPIPS-RTSVSNKVVFTTREFG---------VCGQMEAHRSFKVECLRYDDAWK  310 (337)
Q Consensus       245 ~~k~~LlVlDdv~~~~~----~~~l~~~l~~-~~~g~s~IiiTtr~~~---------v~~~~~~~~~~~l~~L~~~ea~~  310 (337)
                      + +.-+|+|||++....    .+.+...+.. ...+ ..||+||....         +.+.+....++++++.+.++-..
T Consensus       210 ~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~-~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~  287 (450)
T PRK00149        210 R-SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAG-KQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIA  287 (450)
T ss_pred             h-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCC-CcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHH
Confidence            3 344899999975421    1122111111 1234 56888776532         23344445689999999999999


Q ss_pred             HHhHhhCCC
Q 045709          311 LFEQKVGAD  319 (337)
Q Consensus       311 Lf~~~~~~~  319 (337)
                      ++.+++...
T Consensus       288 il~~~~~~~  296 (450)
T PRK00149        288 ILKKKAEEE  296 (450)
T ss_pred             HHHHHHHHc
Confidence            999988543

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.23  E-value=6e-06  Score=64.59  Aligned_cols=91  Identities=23%  Similarity=0.126  Sum_probs=51.4

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL  244 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  244 (337)
                      ...+.|+|++|+||||+++.++....   .....+++++.+........... .......   ............+....
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~---~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~---~~~~~~~~~~~~~~~~~   74 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELG---PPGGGVIYIDGEDILEEVLDQLL-LIIVGGK---KASGSGELRLRLALALA   74 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccC---CCCCCEEEECCEEccccCHHHHH-hhhhhcc---CCCCCHHHHHHHHHHHH
Confidence            46789999999999999999998872   22234555555443222111111 0011110   02223333444455554


Q ss_pred             cCC-cEEEEEecCCCcccc
Q 045709          245 SKK-KFVLLLDDIWELVDL  262 (337)
Q Consensus       245 ~~k-~~LlVlDdv~~~~~~  262 (337)
                      ... ..+|++|+++.....
T Consensus        75 ~~~~~~viiiDei~~~~~~   93 (148)
T smart00382       75 RKLKPDVLILDEITSLLDA   93 (148)
T ss_pred             HhcCCCEEEEECCcccCCH
Confidence            444 489999999876443

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.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=98.23  E-value=6.2e-05  Score=72.36  Aligned_cols=165  Identities=15%  Similarity=0.143  Sum_probs=88.5

Q ss_pred             CccccchhhHHHHHHHHh---c---------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCLM---E---------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|.+....++.+.+.   .         ...+-+.++|++|+|||+||+.+++..   ..+|     +.++.    .
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~---~~~~-----~~i~~----~  122 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA---GVPF-----FSISG----S  122 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc---CCCe-----eeccH----H
Confidence            356788776665554432   1         124458899999999999999998876   2332     22221    1


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc----------------cccccCCCC--CCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD----------------LDQVGLPIP--SRT  273 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~l~--~~~  273 (337)
                      .+.    ...       .......+...+.......+++|+|||++....                ...+...+.  ...
T Consensus       123 ~~~----~~~-------~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~  191 (495)
T TIGR01241       123 DFV----EMF-------VGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTN  191 (495)
T ss_pred             HHH----HHH-------hcccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCC
Confidence            111    111       011112222333333446679999999975310                111111111  112


Q ss_pred             CCCcEEEEeeCChhHH-hhc----cCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHH
Q 045709          274 SVSNKVVFTTREFGVC-GQM----EAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAE  332 (337)
Q Consensus       274 ~g~s~IiiTtr~~~v~-~~~----~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~  332 (337)
                      .+ -.||.||...... ..+    .-...+.++..+.++-.++|..++.......+.++..++.
T Consensus       192 ~~-v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~~~~l~~la~  254 (495)
T TIGR01241       192 TG-VIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVAR  254 (495)
T ss_pred             CC-eEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCcchhHHHHHH
Confidence            23 4555566554321 111    1346788999999999999988775433223344555554

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.

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.16  E-value=4.5e-05  Score=74.65  Aligned_cols=167  Identities=14%  Similarity=0.162  Sum_probs=93.7

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+..++.|.+++..++. +.+.++|..|+||||+|+.+++... -.....      .............|....+
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~-c~~~~~------~~~~c~~c~~c~~i~~~~~   88 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVN-CTTNDP------KGRPCGTCEMCRAIAEGSA   88 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhc-CCCCCC------CCCCCccCHHHHHHhcCCC
Confidence            4589999999999998876554 5678999999999999999988762 101000      0001122233333333221


Q ss_pred             CCC---ccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEeeCC-hhHHhh
Q 045709          223 LFN---ESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTTRE-FGVCGQ  291 (337)
Q Consensus       223 ~~~---~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTtr~-~~v~~~  291 (337)
                      ...   +.......++. +.+.+.+     .+++-++|||+++..  ...+.+...+...... +.+|++|.+ ..+...
T Consensus        89 ~d~~~i~~~~~~~vd~i-r~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~-tv~Il~t~~~~kll~t  166 (585)
T PRK14950         89 VDVIEMDAASHTSVDDA-REIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPH-AIFILATTEVHKVPAT  166 (585)
T ss_pred             CeEEEEeccccCCHHHH-HHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCC-eEEEEEeCChhhhhHH
Confidence            110   00011122222 2222222     245669999999755  2344454334333334 666666543 333322


Q ss_pred             c-cCCceeecCCCCHHHHHHHHhHhhCCC
Q 045709          292 M-EAHRSFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       292 ~-~~~~~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      + +....+.+++++.++....+.+.+...
T Consensus       167 I~SR~~~i~f~~l~~~el~~~L~~~a~~e  195 (585)
T PRK14950        167 ILSRCQRFDFHRHSVADMAAHLRKIAAAE  195 (585)
T ss_pred             HHhccceeeCCCCCHHHHHHHHHHHHHHc
Confidence            2 233578899999999888888776443

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=98.15  E-value=5.9e-05  Score=71.34  Aligned_cols=165  Identities=12%  Similarity=0.123  Sum_probs=88.3

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+..+..|.+++..++. +.+.++|+.|+||||+|+.+.+.........+...       .........+...-.
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~-------c~~c~~C~~i~~~~~   89 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEP-------CNQCASCKEISSGTS   89 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCC-------CcccHHHHHHhcCCC
Confidence            4589999999999999977654 56889999999999999999887621100000000       000000000000000


Q ss_pred             CC---CccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCC-hhHHhh
Q 045709          223 LF---NESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTRE-FGVCGQ  291 (337)
Q Consensus       223 ~~---~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~-~~v~~~  291 (337)
                      ..   -+.......++. ..+.+.+     .+++-++|+|+++...  ..+.+...+..-... +.+|++|.+ ..+...
T Consensus        90 ~d~~~i~g~~~~gid~i-r~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~-~~~Il~t~~~~kl~~t  167 (451)
T PRK06305         90 LDVLEIDGASHRGIEDI-RQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQH-VKFFLATTEIHKIPGT  167 (451)
T ss_pred             CceEEeeccccCCHHHH-HHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCC-ceEEEEeCChHhcchH
Confidence            00   000000111111 1112211     2566789999987542  233443334332234 667666643 333222


Q ss_pred             c-cCCceeecCCCCHHHHHHHHhHhhC
Q 045709          292 M-EAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       292 ~-~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      + +....+++.++++++....+.+.+-
T Consensus       168 I~sRc~~v~f~~l~~~el~~~L~~~~~  194 (451)
T PRK06305        168 ILSRCQKMHLKRIPEETIIDKLALIAK  194 (451)
T ss_pred             HHHhceEEeCCCCCHHHHHHHHHHHHH
Confidence            1 2345789999999999888887654

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.15  E-value=5.8e-05  Score=71.92  Aligned_cols=163  Identities=10%  Similarity=0.040  Sum_probs=87.9

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCC--CcEEEEEEecCccCHHHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNH--FDFVIWVVVSRDLQLEKIQESIAKK  220 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f~~~~wv~~~~~~~~~~~~~~i~~~  220 (337)
                      ..++|.+.....|.+++..+.. +.+.++|+.|+||||+|+.++....-....  .+|..          ..-...+-..
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~----------c~nc~~i~~g   85 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGK----------CENCVEIDKG   85 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCc----------cHHHHHHhcC
Confidence            3579999999999999987654 456789999999999999998876210000  00000          0000000000


Q ss_pred             hCCC---CccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEee-CChhHH
Q 045709          221 IGLF---NESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTT-REFGVC  289 (337)
Q Consensus       221 l~~~---~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTt-r~~~v~  289 (337)
                      -...   .+.......+ ..+.+...+     .+++-++|+|+++...  ..+.+...+...... ..+|++| +...+.
T Consensus        86 ~~~d~~eidaas~~gvd-~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~-~v~Il~tt~~~kl~  163 (486)
T PRK14953         86 SFPDLIEIDAASNRGID-DIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPR-TIFILCTTEYDKIP  163 (486)
T ss_pred             CCCcEEEEeCccCCCHH-HHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCC-eEEEEEECCHHHHH
Confidence            0000   0000011111 112222222     3556699999997652  334443333332334 5555554 433333


Q ss_pred             hh-ccCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          290 GQ-MEAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       290 ~~-~~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      .. .+....+.+.+++.++....+.+.+-.
T Consensus       164 ~tI~SRc~~i~f~~ls~~el~~~L~~i~k~  193 (486)
T PRK14953        164 PTILSRCQRFIFSKPTKEQIKEYLKRICNE  193 (486)
T ss_pred             HHHHHhceEEEcCCCCHHHHHHHHHHHHHH
Confidence            22 223457899999999998888887643

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

Probab=98.14  E-value=0.00012  Score=65.25  Aligned_cols=161  Identities=17%  Similarity=0.177  Sum_probs=98.4

Q ss_pred             cccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHH
Q 045709          146 VVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEK  212 (337)
Q Consensus       146 ~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~  212 (337)
                      +=|-++.+++|.+...-             .+++=|.+||++|.|||-||+.++++-   ...|-.     +..      
T Consensus       153 IGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T---~AtFIr-----vvg------  218 (406)
T COG1222         153 IGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQT---DATFIR-----VVG------  218 (406)
T ss_pred             ccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhcc---CceEEE-----ecc------
Confidence            44678888888777532             356778999999999999999999987   455532     222      


Q ss_pred             HHHHHHHHhCCCCccccCCCHHHHHHHHHHHhc-CCcEEEEEecCCCccc----------------ccccc---CCCCCC
Q 045709          213 IQESIAKKIGLFNESWKNKSMQEKAQEIFKILS-KKKFVLLLDDIWELVD----------------LDQVG---LPIPSR  272 (337)
Q Consensus       213 ~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~~~----------------~~~l~---~~l~~~  272 (337)
                        .++.+..-..        ...+.+.+.+.-+ ..+++|.+|+++....                +-++.   .-|.. 
T Consensus       219 --SElVqKYiGE--------GaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~-  287 (406)
T COG1222         219 --SELVQKYIGE--------GARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDP-  287 (406)
T ss_pred             --HHHHHHHhcc--------chHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCC-
Confidence              1222222111        1234455555544 4689999999874310                11111   12222 


Q ss_pred             CCCCcEEEEeeCChhHHhh--cc---CCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHH
Q 045709          273 TSVSNKVVFTTREFGVCGQ--ME---AHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAE  332 (337)
Q Consensus       273 ~~g~s~IiiTtr~~~v~~~--~~---~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~  332 (337)
                       .|+-|||..|...++...  +.   -+..|+++.-+.+.-.++|+-++..-+...+-+++.+++
T Consensus       288 -~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~e~la~  351 (406)
T COG1222         288 -RGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDLELLAR  351 (406)
T ss_pred             -CCCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCHHHHHH
Confidence             233699998876665322  22   246788886677777778887776555455666777765

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=98.14  E-value=1.5e-05  Score=76.87  Aligned_cols=137  Identities=18%  Similarity=0.180  Sum_probs=83.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhc
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILS  245 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  245 (337)
                      ..+.|+|..|+|||.|++.+++.... ...-..++|++.      .++...+...+..       ..    ...+.+.+.
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~-~~~g~~V~Yita------eef~~el~~al~~-------~~----~~~f~~~y~  376 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARR-LYPGTRVRYVSS------EEFTNEFINSIRD-------GK----GDSFRRRYR  376 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHH-hCCCCeEEEeeH------HHHHHHHHHHHHh-------cc----HHHHHHHhh
Confidence            45899999999999999999998731 112234556543      3444455444321       11    122333333


Q ss_pred             CCcEEEEEecCCCccc---cc-cccCCCCC-CCCCCcEEEEeeCCh---------hHHhhccCCceeecCCCCHHHHHHH
Q 045709          246 KKKFVLLLDDIWELVD---LD-QVGLPIPS-RTSVSNKVVFTTREF---------GVCGQMEAHRSFKVECLRYDDAWKL  311 (337)
Q Consensus       246 ~k~~LlVlDdv~~~~~---~~-~l~~~l~~-~~~g~s~IiiTtr~~---------~v~~~~~~~~~~~l~~L~~~ea~~L  311 (337)
                      + .=+|||||++....   |. .+...+.. ..++ ..|||||...         .+.+.+...-++++++.+.+.-..+
T Consensus       377 ~-~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~g-k~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aI  454 (617)
T PRK14086        377 E-MDILLVDDIQFLEDKESTQEEFFHTFNTLHNAN-KQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAI  454 (617)
T ss_pred             c-CCEEEEehhccccCCHHHHHHHHHHHHHHHhcC-CCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHH
Confidence            2 34899999975421   21 12111111 1234 5788888752         2344555677899999999999999


Q ss_pred             HhHhhCCCCCC
Q 045709          312 FEQKVGADTLD  322 (337)
Q Consensus       312 f~~~~~~~~~~  322 (337)
                      +.+++......
T Consensus       455 L~kka~~r~l~  465 (617)
T PRK14086        455 LRKKAVQEQLN  465 (617)
T ss_pred             HHHHHHhcCCC
Confidence            99998655433

>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=98.13  E-value=1.3e-05  Score=62.40  Aligned_cols=22  Identities=36%  Similarity=0.460  Sum_probs=20.7

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.|+|++|+|||++|+.+++..
T Consensus         1 ill~G~~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL   22 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc
Confidence            5799999999999999999987

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 ....

>PRK06620 hypothetical protein; Validated

Probab=98.11  E-value=6e-06  Score=70.15  Aligned_cols=109  Identities=16%  Similarity=0.092  Sum_probs=67.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhc
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILS  245 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  245 (337)
                      +.+.|+|++|+|||+|++.+.+..   ..     .++.  ....                    .   .       ... 
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~---~~-----~~~~--~~~~--------------------~---~-------~~~-   83 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLS---NA-----YIIK--DIFF--------------------N---E-------EIL-   83 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhcc---CC-----EEcc--hhhh--------------------c---h-------hHH-
Confidence            568999999999999999887654   11     1111  0000                    0   0       011 


Q ss_pred             CCcEEEEEecCCCccc--cccccCCCCCCCCCCcEEEEeeCChh-------HHhhccCCceeecCCCCHHHHHHHHhHhh
Q 045709          246 KKKFVLLLDDIWELVD--LDQVGLPIPSRTSVSNKVVFTTREFG-------VCGQMEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       246 ~k~~LlVlDdv~~~~~--~~~l~~~l~~~~~g~s~IiiTtr~~~-------v~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ...-+|++||++...+  +-.+...+.  .+| ..||+|++...       +.+.+....++++++++.++-..++.+.+
T Consensus        84 ~~~d~lliDdi~~~~~~~lf~l~N~~~--e~g-~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~  160 (214)
T PRK06620         84 EKYNAFIIEDIENWQEPALLHIFNIIN--EKQ-KYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHF  160 (214)
T ss_pred             hcCCEEEEeccccchHHHHHHHHHHHH--hcC-CEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHH
Confidence            1234788999974322  111111111  346 78999887433       33444456689999999999998988887


Q ss_pred             CC
Q 045709          317 GA  318 (337)
Q Consensus       317 ~~  318 (337)
                      ..
T Consensus       161 ~~  162 (214)
T PRK06620        161 SI  162 (214)
T ss_pred             HH
Confidence            53

>CHL00176 ftsH cell division protein; Validated

Probab=98.09  E-value=7.8e-05  Score=73.17  Aligned_cols=151  Identities=15%  Similarity=0.139  Sum_probs=84.9

Q ss_pred             CccccchhhHHHHHHH---HhcC---------CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRC---LMEE---------HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~---L~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .++.|.++..+.+.+.   +...         ..+-+.++|++|+|||+||+.+++..   ..+|     +.++.    .
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~---~~p~-----i~is~----s  250 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEA---EVPF-----FSISG----S  250 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh---CCCe-----eeccH----H
Confidence            4578877666655444   3321         24568999999999999999998876   2222     22221    1


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc----------------ccccccCCCC--CCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV----------------DLDQVGLPIP--SRT  273 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------------~~~~l~~~l~--~~~  273 (337)
                      .+.    ...       ...........+.......+++|+|||++...                .+..+...+.  ...
T Consensus       251 ~f~----~~~-------~g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~  319 (638)
T CHL00176        251 EFV----EMF-------VGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGN  319 (638)
T ss_pred             HHH----HHh-------hhhhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCC
Confidence            111    100       01111222233444456778999999997431                0122221111  112


Q ss_pred             CCCcEEEEeeCChhHHh-hc----cCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          274 SVSNKVVFTTREFGVCG-QM----EAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       274 ~g~s~IiiTtr~~~v~~-~~----~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      .+ -.||.||...+... .+    .-...+.++..+.++-.++|+.++..
T Consensus       320 ~~-ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~  368 (638)
T CHL00176        320 KG-VIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARN  368 (638)
T ss_pred             CC-eeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhh
Confidence            33 45666666544322 11    12367889999999999999888754

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=98.09  E-value=9.9e-05  Score=70.63  Aligned_cols=167  Identities=10%  Similarity=0.093  Sum_probs=90.1

Q ss_pred             CccccchhhHHHHHHHHhcCCCe-EEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAG-IVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~-vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+.....|...+..++.+ .+.++|+.|+||||+|+.+.+...-. ...+.       .+.........+.....
T Consensus        14 deiiGqe~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~-~~~~~-------~pC~~C~~C~~~~~~~h   85 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCE-QGPSS-------TPCDTCIQCQSALENRH   85 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCC-CCCCC-------CCCcccHHHHHHhhcCC
Confidence            45899999999999998776554 66899999999999999998876211 11000       00000000111111000


Q ss_pred             CCC---ccccCCCHHHHHHHHHHH----hcCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCCh-hHHhh-
Q 045709          223 LFN---ESWKNKSMQEKAQEIFKI----LSKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREF-GVCGQ-  291 (337)
Q Consensus       223 ~~~---~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~-~v~~~-  291 (337)
                      ...   +.......++....+...    ..+++-++|+|+++...  ....++..+..-... +++|++|.+. .+... 
T Consensus        86 ~dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~-t~FIL~ttd~~kL~~tI  164 (535)
T PRK08451         86 IDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSY-VKFILATTDPLKLPATI  164 (535)
T ss_pred             CeEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCc-eEEEEEECChhhCchHH
Confidence            000   000001122222222110    11455689999997653  233443333322334 6777766553 22211 


Q ss_pred             ccCCceeecCCCCHHHHHHHHhHhhCCC
Q 045709          292 MEAHRSFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       292 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      .+....+++.+++.++....+.+.+...
T Consensus       165 ~SRc~~~~F~~Ls~~ei~~~L~~Il~~E  192 (535)
T PRK08451        165 LSRTQHFRFKQIPQNSIISHLKTILEKE  192 (535)
T ss_pred             HhhceeEEcCCCCHHHHHHHHHHHHHHc
Confidence            1234688999999999999888766443

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.08  E-value=8.6e-05  Score=72.77  Aligned_cols=167  Identities=13%  Similarity=0.103  Sum_probs=92.2

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      ..++|.+.....|..++..++ .+.+.++|..|+||||+|+.++....-  .......    ..........+.+....+
T Consensus        16 ~~liGq~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c--~~~~~~~----~~~Cg~C~~C~~i~~g~h   89 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNC--LNSDKPT----PEPCGKCELCRAIAAGNA   89 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcC--CCcCCCC----CCCCcccHHHHHHhcCCC
Confidence            357999999999999988764 367889999999999999999988731  1111000    011112223333332221


Q ss_pred             CCC---ccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCC-hhHHhh
Q 045709          223 LFN---ESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTRE-FGVCGQ  291 (337)
Q Consensus       223 ~~~---~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~-~~v~~~  291 (337)
                      ...   ........+.. +.+...+     .+++-++|+|+++...  .+..+...+..-... +.+|++|.+ ..+...
T Consensus        90 ~D~~ei~~~~~~~vd~I-Reii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~-tvfIL~t~~~~~llpT  167 (620)
T PRK14948         90 LDVIEIDAASNTGVDNI-RELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPR-VVFVLATTDPQRVLPT  167 (620)
T ss_pred             ccEEEEeccccCCHHHH-HHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcC-eEEEEEeCChhhhhHH
Confidence            100   00011122222 2222222     2455689999998652  344454444332233 555555543 333322


Q ss_pred             c-cCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          292 M-EAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       292 ~-~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      + +....+++.+++.++....+.+.+..
T Consensus       168 IrSRc~~~~f~~l~~~ei~~~L~~ia~k  195 (620)
T PRK14948        168 IISRCQRFDFRRIPLEAMVQHLSEIAEK  195 (620)
T ss_pred             HHhheeEEEecCCCHHHHHHHHHHHHHH
Confidence            2 23457888899999888877776543

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

Probab=98.07  E-value=4.6e-05  Score=65.72  Aligned_cols=143  Identities=18%  Similarity=0.220  Sum_probs=82.4

Q ss_pred             CccccchhhHHHHHHHHhc-----CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLME-----EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIA  218 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  218 (337)
                      .+|+|.++..+++.=.+..     ...--+.++|++|.||||||..+++.+   ...+..    .-.+...-..-+..++
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Em---gvn~k~----tsGp~leK~gDlaaiL   98 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANEL---GVNLKI----TSGPALEKPGDLAAIL   98 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHh---cCCeEe----cccccccChhhHHHHH
Confidence            4689999888887655542     356789999999999999999999988   223221    1111111111112222


Q ss_pred             HHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc---------cccccCCC-CCCCCCCcE----------
Q 045709          219 KKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD---------LDQVGLPI-PSRTSVSNK----------  278 (337)
Q Consensus       219 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~---------~~~l~~~l-~~~~~g~s~----------  278 (337)
                      ..+                        ...=+|.+|+++....         ++++..-+ -..+++ +|          
T Consensus        99 t~L------------------------e~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~-Arsv~ldLppFT  153 (332)
T COG2255          99 TNL------------------------EEGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPA-ARSIRLDLPPFT  153 (332)
T ss_pred             hcC------------------------CcCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCc-cceEeccCCCee
Confidence            222                        1223566777764311         11111100 011112 23          


Q ss_pred             -EEEeeCChhHHhhcc--CCceeecCCCCHHHHHHHHhHhhCC
Q 045709          279 -VVFTTREFGVCGQME--AHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       279 -IiiTtr~~~v~~~~~--~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                       |=-|||.-.+...+.  ..-+.+++-.+.+|-.+...+.+..
T Consensus       154 LIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~  196 (332)
T COG2255         154 LIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKI  196 (332)
T ss_pred             EeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHH
Confidence             335899766654443  2346789999999999999988843

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.05  E-value=9.1e-05  Score=72.95  Aligned_cols=159  Identities=13%  Similarity=0.115  Sum_probs=89.2

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+..+..|.+++..++ .+.+.++|+.|+||||+|+.++....- .....         ...+.......   .+
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC-~~~~~---------~~~pC~~C~~~---~~   84 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNC-SHKTD---------LLEPCQECIEN---VN   84 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhcc-cccCC---------CCCchhHHHHh---hc
Confidence            357999999999999998765 456789999999999999999887621 11000         00000000000   01


Q ss_pred             CCCccc-----cCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEE-EeeCChhHH
Q 045709          223 LFNESW-----KNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVV-FTTREFGVC  289 (337)
Q Consensus       223 ~~~~~~-----~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~Ii-iTtr~~~v~  289 (337)
                      ...+-.     .....++ ++.+.+.+     .+++-++|+|+++..  ..+..+...+-.-... +.+| +|+....+.
T Consensus        85 ~~~Dvieidaasn~~vd~-IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~-tifILaTte~~KLl  162 (725)
T PRK07133         85 NSLDIIEMDAASNNGVDE-IRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKH-VIFILATTEVHKIP  162 (725)
T ss_pred             CCCcEEEEeccccCCHHH-HHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCc-eEEEEEcCChhhhh
Confidence            100000     0011222 22233322     256669999999754  2344443333222233 4544 454444443


Q ss_pred             hh-ccCCceeecCCCCHHHHHHHHhHhhC
Q 045709          290 GQ-MEAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       290 ~~-~~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      .. .+....+.+.+++.++....+...+-
T Consensus       163 ~TI~SRcq~ieF~~L~~eeI~~~L~~il~  191 (725)
T PRK07133        163 LTILSRVQRFNFRRISEDEIVSRLEFILE  191 (725)
T ss_pred             HHHHhhceeEEccCCCHHHHHHHHHHHHH
Confidence            32 23346899999999999988887653

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

Probab=98.05  E-value=0.00025  Score=70.01  Aligned_cols=104  Identities=19%  Similarity=0.279  Sum_probs=65.6

Q ss_pred             CccccchhhHHHHHHHHhc---------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLME---------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQ  214 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~  214 (337)
                      ..++|.++.+..+.+.+..         .+.......|+.|+|||.||+.++..+.   +.-+..+-++      +.+..
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lf---g~e~aliR~D------MSEy~  561 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALF---GDEQALIRID------MSEYM  561 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhc---CCCccceeec------hHHHH
Confidence            3589999999999888753         1446777899999999999999998883   2223333333      33333


Q ss_pred             HH-HHHHhCCCCccccCCCHHHHHHHHHHHhcCCcE-EEEEecCCCc
Q 045709          215 ES-IAKKIGLFNESWKNKSMQEKAQEIFKILSKKKF-VLLLDDIWEL  259 (337)
Q Consensus       215 ~~-i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~-LlVlDdv~~~  259 (337)
                      .. -.+.|-...+..-..+.   -..|-+.++.++| +|+||+++..
T Consensus       562 EkHsVSrLIGaPPGYVGyee---GG~LTEaVRr~PySViLlDEIEKA  605 (786)
T COG0542         562 EKHSVSRLIGAPPGYVGYEE---GGQLTEAVRRKPYSVILLDEIEKA  605 (786)
T ss_pred             HHHHHHHHhCCCCCCceecc---ccchhHhhhcCCCeEEEechhhhc
Confidence            22 22333333332222211   3446667778888 7778999753

>PRK10865 protein disaggregation chaperone; Provisional

Probab=98.04  E-value=0.0015  Score=66.78  Aligned_cols=46  Identities=26%  Similarity=0.333  Sum_probs=37.3

Q ss_pred             CccccchhhHHHHHHHHhc-------C--CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLME-------E--HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-------~--~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++|.+..++.+...+..       +  +..++.++|++|+|||+||+.+++..
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l  622 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFM  622 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4588999998888887752       1  12478899999999999999998876

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=98.04  E-value=2.4e-05  Score=71.88  Aligned_cols=140  Identities=17%  Similarity=0.181  Sum_probs=88.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCc--EEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFD--FVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIF  241 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~--~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  241 (337)
                      ....+.|+|..|.|||.|++.+.+..   .....  .++++      +.......++..+..           .....++
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~---~~~~~~a~v~y~------~se~f~~~~v~a~~~-----------~~~~~Fk  171 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEA---LANGPNARVVYL------TSEDFTNDFVKALRD-----------NEMEKFK  171 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHH---HhhCCCceEEec------cHHHHHHHHHHHHHh-----------hhHHHHH
Confidence            37889999999999999999999988   23333  34443      233444444444321           1233444


Q ss_pred             HHhcCCcEEEEEecCCCccc---cc-cccCCCCC-CCCCCcEEEEeeCC---------hhHHhhccCCceeecCCCCHHH
Q 045709          242 KILSKKKFVLLLDDIWELVD---LD-QVGLPIPS-RTSVSNKVVFTTRE---------FGVCGQMEAHRSFKVECLRYDD  307 (337)
Q Consensus       242 ~~l~~k~~LlVlDdv~~~~~---~~-~l~~~l~~-~~~g~s~IiiTtr~---------~~v~~~~~~~~~~~l~~L~~~e  307 (337)
                      +..  .-=+|++||++-...   |+ .+...|.. ..+| ..||+|++.         +.+.+.+..+-++.+.+.+.+.
T Consensus       172 ~~y--~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~-kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~  248 (408)
T COG0593         172 EKY--SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENG-KQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDET  248 (408)
T ss_pred             Hhh--ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcC-CEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHH
Confidence            444  334899999976422   22 22111211 1234 589999964         3345556667889999999999


Q ss_pred             HHHHHhHhhCCCCCCCCCC
Q 045709          308 AWKLFEQKVGADTLDSHPD  326 (337)
Q Consensus       308 a~~Lf~~~~~~~~~~~~~~  326 (337)
                      ...++.+++.......+++
T Consensus       249 r~aiL~kka~~~~~~i~~e  267 (408)
T COG0593         249 RLAILRKKAEDRGIEIPDE  267 (408)
T ss_pred             HHHHHHHHHHhcCCCCCHH
Confidence            9999999886655445543

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

Probab=98.04  E-value=0.00011  Score=69.69  Aligned_cols=165  Identities=18%  Similarity=0.190  Sum_probs=93.2

Q ss_pred             ccccchhhHHHHHHHHhc------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHH
Q 045709          145 TVVGLQLTFDRVWRCLME------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEK  212 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~  212 (337)
                      ++=|.+..+.++.+++..            ...+-|.++|++|+|||.||+.++++.   .-.|     +.++-+     
T Consensus       191 diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel---~vPf-----~~isAp-----  257 (802)
T KOG0733|consen  191 DIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGEL---GVPF-----LSISAP-----  257 (802)
T ss_pred             hccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhc---CCce-----Eeecch-----
Confidence            456788888888777642            245678899999999999999999988   3333     222221     


Q ss_pred             HHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc-------------cccccCCC---CC-CCCC
Q 045709          213 IQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD-------------LDQVGLPI---PS-RTSV  275 (337)
Q Consensus       213 ~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-------------~~~l~~~l---~~-~~~g  275 (337)
                         +|+...       ...+.+.+.+.+.+....-+|++++|+++-...             ..++...+   .. ...|
T Consensus       258 ---eivSGv-------SGESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g  327 (802)
T KOG0733|consen  258 ---EIVSGV-------SGESEKKIRELFDQAKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKG  327 (802)
T ss_pred             ---hhhccc-------CcccHHHHHHHHHHHhccCCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccCC
Confidence               122211       233444444444455567899999999975311             11221111   11 1123


Q ss_pred             CcEEEE--eeCChhHHhhc---c-CCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHH
Q 045709          276 SNKVVF--TTREFGVCGQM---E-AHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAE  332 (337)
Q Consensus       276 ~s~Iii--Ttr~~~v~~~~---~-~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~  332 (337)
                      ...++|  |+|...+-..+   + -.+.|.+.--++..-.+++...+-+-....+-++..||+
T Consensus       328 ~~VlVIgATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~d~~qlA~  390 (802)
T KOG0733|consen  328 DPVLVIGATNRPDSLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGDFDFKQLAK  390 (802)
T ss_pred             CCeEEEecCCCCcccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCCCcCHHHHHh
Confidence            123343  56655543222   2 235677776677766677766664333333445555554

>PRK08181 transposase; Validated

Probab=98.03  E-value=0.00018  Score=63.15  Aligned_cols=105  Identities=17%  Similarity=0.172  Sum_probs=57.2

Q ss_pred             HHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHH
Q 045709          158 RCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKA  237 (337)
Q Consensus       158 ~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  237 (337)
                      +|+.  +...+.++|++|+|||.||..+.+...   .....+.|++      ..+++..+....       ...+.... 
T Consensus       101 ~~~~--~~~nlll~Gp~GtGKTHLa~Aia~~a~---~~g~~v~f~~------~~~L~~~l~~a~-------~~~~~~~~-  161 (269)
T PRK08181        101 SWLA--KGANLLLFGPPGGGKSHLAAAIGLALI---ENGWRVLFTR------TTDLVQKLQVAR-------RELQLESA-  161 (269)
T ss_pred             HHHh--cCceEEEEecCCCcHHHHHHHHHHHHH---HcCCceeeee------HHHHHHHHHHHH-------hCCcHHHH-
Confidence            4543  445689999999999999999998773   2233445553      344555554322       11122222 


Q ss_pred             HHHHHHhcCCcEEEEEecCCCc--ccc-c-cccCCCCCCCCCCcEEEEeeCCh
Q 045709          238 QEIFKILSKKKFVLLLDDIWEL--VDL-D-QVGLPIPSRTSVSNKVVFTTREF  286 (337)
Q Consensus       238 ~~l~~~l~~k~~LlVlDdv~~~--~~~-~-~l~~~l~~~~~g~s~IiiTtr~~  286 (337)
                         .+.+ .+.-||||||+...  ..+ . .+...+.....+ ..+||||...
T Consensus       162 ---l~~l-~~~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~-~s~IiTSN~~  209 (269)
T PRK08181        162 ---IAKL-DKFDLLILDDLAYVTKDQAETSVLFELISARYER-RSILITANQP  209 (269)
T ss_pred             ---HHHH-hcCCEEEEeccccccCCHHHHHHHHHHHHHHHhC-CCEEEEcCCC
Confidence               2222 23459999999643  111 1 122222211122 4688888753

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.02  E-value=7.3e-05  Score=72.93  Aligned_cols=164  Identities=10%  Similarity=0.105  Sum_probs=88.7

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+.....|.+++..++. +.+.++|+.|+||||+|+.+.+...- ......       ...........|...-.
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~~~hayLf~Gp~G~GKtt~A~~lak~l~c-~~~~~~-------~~c~~c~~c~~i~~g~~   87 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGRVAHAFLFTGARGVGKTSTARILAKALNC-EQGLTA-------EPCNVCPPCVEITEGRS   87 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcC-CCCCCC-------CCCCccHHHHHHhcCCC
Confidence            4589999999999999887654 56789999999999999999887621 111100       00011111111111000


Q ss_pred             CCC---ccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEee-CChhHHhh
Q 045709          223 LFN---ESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTT-REFGVCGQ  291 (337)
Q Consensus       223 ~~~---~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTt-r~~~v~~~  291 (337)
                      ...   +.......++ ++.+...+     .++.-++|+|+++...  ..+.+...+..-... +.+|++| ....+...
T Consensus        88 ~d~~eid~~s~~~v~~-ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~-~~fIl~t~~~~kl~~t  165 (576)
T PRK14965         88 VDVFEIDGASNTGVDD-IRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPH-VKFIFATTEPHKVPIT  165 (576)
T ss_pred             CCeeeeeccCccCHHH-HHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCC-eEEEEEeCChhhhhHH
Confidence            000   0000111122 22233222     2445589999997653  233443333222233 5665544 44444432


Q ss_pred             c-cCCceeecCCCCHHHHHHHHhHhhC
Q 045709          292 M-EAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       292 ~-~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      + +....+++.+++.++....+...+.
T Consensus       166 I~SRc~~~~f~~l~~~~i~~~L~~i~~  192 (576)
T PRK14965        166 ILSRCQRFDFRRIPLQKIVDRLRYIAD  192 (576)
T ss_pred             HHHhhhhhhcCCCCHHHHHHHHHHHHH
Confidence            2 2345788999999988888776654

>TIGR00763 lon ATP-dependent protease La

Probab=98.01  E-value=0.0001  Score=74.67  Aligned_cols=157  Identities=17%  Similarity=0.157  Sum_probs=84.9

Q ss_pred             CccccchhhHHHHHHHHhc------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLME------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESI  217 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  217 (337)
                      .+++|.++.++.|.+++..      .+.+++.++|++|+|||++|+.+++..   ...|-.+   +++...+..++.   
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l---~~~~~~i---~~~~~~~~~~i~---  390 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKAL---NRKFVRF---SLGGVRDEAEIR---  390 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHh---cCCeEEE---eCCCcccHHHHc---
Confidence            4578999888888886632      245689999999999999999999987   3344222   222222222221   


Q ss_pred             HHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc---------cccccC-----CCCCC-------CCCC
Q 045709          218 AKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD---------LDQVGL-----PIPSR-------TSVS  276 (337)
Q Consensus       218 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~---------~~~l~~-----~l~~~-------~~g~  276 (337)
                           .....+.........+.+.... .++-+++||+++....         +-++..     .|.+.       ..+ 
T Consensus       391 -----g~~~~~~g~~~g~i~~~l~~~~-~~~~villDEidk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~-  463 (775)
T TIGR00763       391 -----GHRRTYVGAMPGRIIQGLKKAK-TKNPLFLLDEIDKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSK-  463 (775)
T ss_pred             -----CCCCceeCCCCchHHHHHHHhC-cCCCEEEEechhhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCC-
Confidence                 1111111112223333333332 3334789999975421         111110     11111       122 


Q ss_pred             cEEEEeeCChh-HH-hhccCCceeecCCCCHHHHHHHHhHhh
Q 045709          277 NKVVFTTREFG-VC-GQMEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       277 s~IiiTtr~~~-v~-~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      .-+|.||.... +. ...+....+.+.+++.++-.+++.++.
T Consensus       464 v~~I~TtN~~~~i~~~L~~R~~vi~~~~~~~~e~~~I~~~~l  505 (775)
T TIGR00763       464 VIFIATANSIDTIPRPLLDRMEVIELSGYTEEEKLEIAKKYL  505 (775)
T ss_pred             EEEEEecCCchhCCHHHhCCeeEEecCCCCHHHHHHHHHHHH
Confidence            34444554332 11 112233578999999999888887654

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.

>PRK08116 hypothetical protein; Validated

Probab=98.00  E-value=1e-05  Score=71.18  Aligned_cols=102  Identities=25%  Similarity=0.207  Sum_probs=58.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhc
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILS  245 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  245 (337)
                      ..+.++|.+|+|||.||..+++...   .....+++++      ..+++..+........    ..+    ...+.+.+.
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~---~~~~~v~~~~------~~~ll~~i~~~~~~~~----~~~----~~~~~~~l~  177 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELI---EKGVPVIFVN------FPQLLNRIKSTYKSSG----KED----ENEIIRSLV  177 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEE------HHHHHHHHHHHHhccc----ccc----HHHHHHHhc
Confidence            4588999999999999999999983   2234456664      3445555555443211    111    222334444


Q ss_pred             CCcEEEEEecCCC--cccccc--ccCCCCC-CCCCCcEEEEeeCCh
Q 045709          246 KKKFVLLLDDIWE--LVDLDQ--VGLPIPS-RTSVSNKVVFTTREF  286 (337)
Q Consensus       246 ~k~~LlVlDdv~~--~~~~~~--l~~~l~~-~~~g~s~IiiTtr~~  286 (337)
                      +-. ||||||+..  ..+|..  +...+.. ..++ ..+||||...
T Consensus       178 ~~d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~-~~~IiTsN~~  221 (268)
T PRK08116        178 NAD-LLILDDLGAERDTEWAREKVYNIIDSRYRKG-LPTIVTTNLS  221 (268)
T ss_pred             CCC-EEEEecccCCCCCHHHHHHHHHHHHHHHHCC-CCEEEECCCC
Confidence            333 899999943  334432  2111111 1234 6788888753

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=97.98  E-value=2.2e-05  Score=67.18  Aligned_cols=37  Identities=24%  Similarity=0.380  Sum_probs=31.0

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEe
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVV  204 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~  204 (337)
                      .-.++|+|.+|+|||||+..+....   ...|..+++++-
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~~~---~~~f~~I~l~t~   49 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLYYL---RHKFDHIFLITP   49 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhh---cccCCEEEEEec
Confidence            3467899999999999999999887   678888777754

This is thought to be an ATPase involved in viral DNA packaging [].

>COG3899 Predicted ATPase [General function prediction only]

Probab=97.98  E-value=7.2e-05  Score=76.06  Aligned_cols=45  Identities=16%  Similarity=0.355  Sum_probs=39.8

Q ss_pred             cccchhhHHHHHHHHhc---CCCeEEEEEecCCCcHHHHHHHHHHhhc
Q 045709          146 VVGLQLTFDRVWRCLME---EHAGIVGLYGMGGVGKTTLLTQINNRFF  190 (337)
Q Consensus       146 ~vGr~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLa~~v~~~~~  190 (337)
                      ++||+.+++.|...+..   ....++.+.|.+|||||+|++.|.....
T Consensus         2 l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~   49 (849)
T COG3899           2 LYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPIT   49 (849)
T ss_pred             CCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHh
Confidence            68999999999888864   4667999999999999999999998873

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.97  E-value=0.0002  Score=69.40  Aligned_cols=165  Identities=16%  Similarity=0.157  Sum_probs=91.9

Q ss_pred             CccccchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+..+..|.+++.+++. +.+.++|+.|+||||+|+.+++...- ......   ..+..    ......+...-.
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c-~~~~~~---~pC~~----C~~C~~i~~~~~   87 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNKIANAYIFSGPRGVGKTSSARAFARCLNC-VNGPTP---MPCGE----CSSCKSIDNDNS   87 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhcc-ccCCCC---CCCcc----chHHHHHHcCCC
Confidence            4589999999999999987654 46889999999999999999887621 111100   00000    011111111100


Q ss_pred             CCC---ccccCCCHHHHHHHHHHH-----hcCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCC-hhHHhh
Q 045709          223 LFN---ESWKNKSMQEKAQEIFKI-----LSKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTRE-FGVCGQ  291 (337)
Q Consensus       223 ~~~---~~~~~~~~~~~~~~l~~~-----l~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~-~~v~~~  291 (337)
                      ...   +.......++..+ +.+.     ..+++-++|+|+++...  .++.+...+..-... +.+|++|.+ ..+...
T Consensus        88 ~dv~~idgas~~~vddIr~-l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~-~vfI~~tte~~kL~~t  165 (563)
T PRK06647         88 LDVIEIDGASNTSVQDVRQ-IKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPY-IVFIFATTEVHKLPAT  165 (563)
T ss_pred             CCeEEecCcccCCHHHHHH-HHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCC-EEEEEecCChHHhHHH
Confidence            000   0000112222222 2211     23566689999997653  345554444433344 666665543 333322


Q ss_pred             c-cCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          292 M-EAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       292 ~-~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      + +....+++.+++.++....+.+.+..
T Consensus       166 I~SRc~~~~f~~l~~~el~~~L~~i~~~  193 (563)
T PRK06647        166 IKSRCQHFNFRLLSLEKIYNMLKKVCLE  193 (563)
T ss_pred             HHHhceEEEecCCCHHHHHHHHHHHHHH
Confidence            2 23457899999999998888877643

>PRK10536 hypothetical protein; Provisional

Probab=97.95  E-value=6.9e-05  Score=64.56  Aligned_cols=54  Identities=13%  Similarity=0.123  Sum_probs=40.3

Q ss_pred             ccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEE
Q 045709          145 TVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIW  201 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~w  201 (337)
                      .+.++......+..++.+  ..++.+.|..|+|||+||..+..+... ...|..++.
T Consensus        56 ~i~p~n~~Q~~~l~al~~--~~lV~i~G~aGTGKT~La~a~a~~~l~-~~~~~kIiI  109 (262)
T PRK10536         56 PILARNEAQAHYLKAIES--KQLIFATGEAGCGKTWISAAKAAEALI-HKDVDRIIV  109 (262)
T ss_pred             cccCCCHHHHHHHHHHhc--CCeEEEECCCCCCHHHHHHHHHHHHHh-cCCeeEEEE
Confidence            356788888888888865  359999999999999999999886411 244554443

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

Probab=97.95  E-value=0.00011  Score=74.07  Aligned_cols=46  Identities=24%  Similarity=0.353  Sum_probs=37.2

Q ss_pred             CccccchhhHHHHHHHHhc-------C--CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLME-------E--HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-------~--~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++|.+..++.+.+.+..       +  ...++.++|++|+|||+||+.++...
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l  508 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL  508 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh
Confidence            4578988888888887752       1  23468899999999999999998876

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.94  E-value=9.4e-05  Score=68.87  Aligned_cols=133  Identities=17%  Similarity=0.213  Sum_probs=83.6

Q ss_pred             chhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc-CHHHHHHHHHHHhCCCCcc
Q 045709          149 LQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL-QLEKIQESIAKKIGLFNES  227 (337)
Q Consensus       149 r~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~  227 (337)
                      |...+.++.+.+..... ++.|+|+-++|||||++.+....   ...   .++++..+.. +-.++ .            
T Consensus        22 ~~~~~~~l~~~~~~~~~-i~~i~GpR~~GKTtll~~l~~~~---~~~---~iy~~~~d~~~~~~~l-~------------   81 (398)
T COG1373          22 RRKLLPRLIKKLDLRPF-IILILGPRQVGKTTLLKLLIKGL---LEE---IIYINFDDLRLDRIEL-L------------   81 (398)
T ss_pred             HHhhhHHHHhhcccCCc-EEEEECCccccHHHHHHHHHhhC---Ccc---eEEEEecchhcchhhH-H------------
Confidence            33445555555543333 99999999999999997776665   222   5555433221 11111 1            


Q ss_pred             ccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHHh-----hc-cCCceeecC
Q 045709          228 WKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG-----QM-EAHRSFKVE  301 (337)
Q Consensus       228 ~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~-----~~-~~~~~~~l~  301 (337)
                             +....+...-..++.+++||+|+...+|......+.+..+.  +|++|+-+..+..     .+ +....+++.
T Consensus        82 -------d~~~~~~~~~~~~~~yifLDEIq~v~~W~~~lk~l~d~~~~--~v~itgsss~ll~~~~~~~L~GR~~~~~l~  152 (398)
T COG1373          82 -------DLLRAYIELKEREKSYIFLDEIQNVPDWERALKYLYDRGNL--DVLITGSSSSLLSKEISESLAGRGKDLELY  152 (398)
T ss_pred             -------HHHHHHHHhhccCCceEEEecccCchhHHHHHHHHHccccc--eEEEECCchhhhccchhhhcCCCceeEEEC
Confidence                   11111111111277899999999999999887777765444  7888887765532     22 234578999


Q ss_pred             CCCHHHHHH
Q 045709          302 CLRYDDAWK  310 (337)
Q Consensus       302 ~L~~~ea~~  310 (337)
                      |||..|-..
T Consensus       153 PlSF~Efl~  161 (398)
T COG1373         153 PLSFREFLK  161 (398)
T ss_pred             CCCHHHHHh
Confidence            999999865

>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=97.94  E-value=0.00012  Score=59.44  Aligned_cols=135  Identities=13%  Similarity=0.152  Sum_probs=71.8

Q ss_pred             cchhhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCC-----------------CcEEEEEEecCccC
Q 045709          148 GLQLTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNH-----------------FDFVIWVVVSRDLQ  209 (337)
Q Consensus       148 Gr~~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~-----------------f~~~~wv~~~~~~~  209 (337)
                      |.+...+.|.+.+.+++. ..+.++|+.|+||+++|..+.+...-....                 .....|+.-.... 
T Consensus         1 gq~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~-   79 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKK-   79 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSS-
T ss_pred             CcHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEeccccc-
Confidence            556777888888877654 468999999999999999998876321111                 1122222221110 


Q ss_pred             HHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEe
Q 045709          210 LEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFT  282 (337)
Q Consensus       210 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiT  282 (337)
                                         .....++. ..+...+     .++.=++|||+++..  .....++..+-.-... +.+|++
T Consensus        80 -------------------~~i~i~~i-r~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~-~~fiL~  138 (162)
T PF13177_consen   80 -------------------KSIKIDQI-REIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPEN-TYFILI  138 (162)
T ss_dssp             -------------------SSBSHHHH-HHHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTT-EEEEEE
T ss_pred             -------------------chhhHHHH-HHHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCC-EEEEEE
Confidence                               01122222 2333333     235669999999875  2334443333222345 888888


Q ss_pred             eCChh-HHhhc-cCCceeecCCCC
Q 045709          283 TREFG-VCGQM-EAHRSFKVECLR  304 (337)
Q Consensus       283 tr~~~-v~~~~-~~~~~~~l~~L~  304 (337)
                      |.+.+ +...+ +....+.+.+||
T Consensus       139 t~~~~~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  139 TNNPSKILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             ES-GGGS-HHHHTTSEEEEE----
T ss_pred             ECChHHChHHHHhhceEEecCCCC
Confidence            88755 33322 334567777764

...

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.93  E-value=0.00032  Score=68.19  Aligned_cols=165  Identities=13%  Similarity=0.115  Sum_probs=90.2

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+.....|.+++..++ .+.+.++|+.|+||||+|+.+..... -....+       ..+.+.......|.....
T Consensus        16 ~~viGq~~v~~~L~~~i~~~~~~hayLf~Gp~GtGKTt~Ak~lAkal~-c~~~~~-------~~pC~~C~~C~~i~~g~~   87 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQGKISHAYLFSGPRGTGKTSAAKIFAKAVN-CLNPPD-------GEPCNECEICKAITNGSL   87 (559)
T ss_pred             HhccCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc-CCCCCC-------CCCCCccHHHHHHhcCCC
Confidence            458999999999999998764 45678899999999999999987662 111100       001111112222221111


Q ss_pred             CCCccc---cCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEee-CChhHHhh
Q 045709          223 LFNESW---KNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTT-REFGVCGQ  291 (337)
Q Consensus       223 ~~~~~~---~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTt-r~~~v~~~  291 (337)
                      ...-..   .....+ ..+.+....     .++.-++|+|+++..  ..+..+...+..-... ..+|++| ....+...
T Consensus        88 ~dv~eidaas~~~vd-~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~-~ifIlatt~~~ki~~t  165 (559)
T PRK05563         88 MDVIEIDAASNNGVD-EIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAH-VIFILATTEPHKIPAT  165 (559)
T ss_pred             CCeEEeeccccCCHH-HHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCC-eEEEEEeCChhhCcHH
Confidence            000000   111122 222233322     345668899999865  2344443333322233 4555444 44333322


Q ss_pred             c-cCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          292 M-EAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       292 ~-~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      + +....+.+.+++.++....+...+-.
T Consensus       166 I~SRc~~~~f~~~~~~ei~~~L~~i~~~  193 (559)
T PRK05563        166 ILSRCQRFDFKRISVEDIVERLKYILDK  193 (559)
T ss_pred             HHhHheEEecCCCCHHHHHHHHHHHHHH
Confidence            2 23457889999999998888877643

>PRK08118 topology modulation protein; Reviewed

Probab=97.93  E-value=3.1e-05  Score=63.19  Aligned_cols=36  Identities=33%  Similarity=0.593  Sum_probs=28.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEE
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIW  201 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~w  201 (337)
                      ..|.|+|++|+||||||+.+++...-.-.+|+..+|
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            358899999999999999999988322245776765

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

Probab=97.89  E-value=0.00035  Score=67.57  Aligned_cols=156  Identities=19%  Similarity=0.223  Sum_probs=90.5

Q ss_pred             CccccchhhHHHHHHHHhc------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLME------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESI  217 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  217 (337)
                      .+-+|-++..++|++.|.-      -+.+++.+||++|+|||+|++.++.-.   ...|-.   ++++.-.+..++-   
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al---~RkfvR---~sLGGvrDEAEIR---  393 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKAL---GRKFVR---ISLGGVRDEAEIR---  393 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHh---CCCEEE---EecCccccHHHhc---
Confidence            4458999999999998842      257899999999999999999999988   344422   2333333333321   


Q ss_pred             HHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc---------c---------ccccCC---CCCCCCCC
Q 045709          218 AKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD---------L---------DQVGLP---IPSRTSVS  276 (337)
Q Consensus       218 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~---------~---------~~l~~~---l~~~~~g~  276 (337)
                           .+....-..=+....+-+.+. +.++-+++||+++....         +         ..|...   ++-.  = 
T Consensus       394 -----GHRRTYIGamPGrIiQ~mkka-~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yD--L-  464 (782)
T COG0466         394 -----GHRRTYIGAMPGKIIQGMKKA-GVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYD--L-  464 (782)
T ss_pred             -----cccccccccCChHHHHHHHHh-CCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccc--h-
Confidence                 111111111122233333332 45677899999875311         1         111111   1111  1 


Q ss_pred             cEE-EEeeCCh-h-H-HhhccCCceeecCCCCHHHHHHHHhHhhC
Q 045709          277 NKV-VFTTREF-G-V-CGQMEAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       277 s~I-iiTtr~~-~-v-~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      |.| .|||-|. + + ...++.-.+|++.+.+++|-.++-+++..
T Consensus       465 S~VmFiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~Li  509 (782)
T COG0466         465 SKVMFIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHLI  509 (782)
T ss_pred             hheEEEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhcc
Confidence            344 3455442 2 2 23334457899999999999888877763

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.86  E-value=0.0014  Score=59.35  Aligned_cols=38  Identities=26%  Similarity=0.337  Sum_probs=29.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEe
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVV  204 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~  204 (337)
                      ....+.++|.+|+|||+||..+++...   .....++|+++
T Consensus       182 ~~~~Lll~G~~GtGKThLa~aIa~~l~---~~g~~V~y~t~  219 (329)
T PRK06835        182 NNENLLFYGNTGTGKTFLSNCIAKELL---DRGKSVIYRTA  219 (329)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHH---HCCCeEEEEEH
Confidence            347799999999999999999999883   22335666654

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.85  E-value=0.00016  Score=72.87  Aligned_cols=149  Identities=16%  Similarity=0.147  Sum_probs=81.8

Q ss_pred             ccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          145 TVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      ++.|.+..++.|.+.+..             ...+.+.++|++|+|||+||+.+++..   ...|   +.++.+      
T Consensus       179 di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~---~~~~---i~i~~~------  246 (733)
T TIGR01243       179 DIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEA---GAYF---ISINGP------  246 (733)
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHh---CCeE---EEEecH------
Confidence            478999998888777632             234678899999999999999999877   2332   222211      


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc-------------cccccCCCCCC-CCCCc
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD-------------LDQVGLPIPSR-TSVSN  277 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-------------~~~l~~~l~~~-~~g~s  277 (337)
                      .+.    ...       .......+...+.......+.+|+|||++....             ...+...+... ..+ .
T Consensus       247 ~i~----~~~-------~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~-~  314 (733)
T TIGR01243       247 EIM----SKY-------YGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRG-R  314 (733)
T ss_pred             HHh----ccc-------ccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCC-C
Confidence            111    000       111112222233333456678999999865310             11122112111 123 3


Q ss_pred             EEEE-eeCChh-HHhhcc----CCceeecCCCCHHHHHHHHhHhhC
Q 045709          278 KVVF-TTREFG-VCGQME----AHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       278 ~Iii-Ttr~~~-v~~~~~----~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      .++| ||.... +...+.    -...+.++..+.++-.+++....-
T Consensus       315 vivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~  360 (733)
T TIGR01243       315 VIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTR  360 (733)
T ss_pred             EEEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhc
Confidence            4444 444332 211111    234678888899988888886553

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.

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

Probab=97.84  E-value=0.00064  Score=63.53  Aligned_cols=126  Identities=24%  Similarity=0.224  Sum_probs=79.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHH--
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIF--  241 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~--  241 (337)
                      +...+.+.|++|+|||+||..++...     .|+.+--++      ++++               -..+.......+.  
T Consensus       537 ~lvSvLl~Gp~~sGKTaLAA~iA~~S-----~FPFvKiiS------pe~m---------------iG~sEsaKc~~i~k~  590 (744)
T KOG0741|consen  537 PLVSVLLEGPPGSGKTALAAKIALSS-----DFPFVKIIS------PEDM---------------IGLSESAKCAHIKKI  590 (744)
T ss_pred             cceEEEEecCCCCChHHHHHHHHhhc-----CCCeEEEeC------hHHc---------------cCccHHHHHHHHHHH
Confidence            45677889999999999999997654     555433221      1111               1222233333333  


Q ss_pred             --HHhcCCcEEEEEecCCCccccccccCCCCC------------CC-CCCcEE--EEeeCChhHHhhcc----CCceeec
Q 045709          242 --KILSKKKFVLLLDDIWELVDLDQVGLPIPS------------RT-SVSNKV--VFTTREFGVCGQME----AHRSFKV  300 (337)
Q Consensus       242 --~~l~~k~~LlVlDdv~~~~~~~~l~~~l~~------------~~-~g~s~I--iiTtr~~~v~~~~~----~~~~~~l  300 (337)
                        ..-+..--.||+||++...+|-.+++.|.+            .. .| -|.  +-||....+...|+    -...|++
T Consensus       591 F~DAYkS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg-~kLli~~TTS~~~vL~~m~i~~~F~~~i~V  669 (744)
T KOG0741|consen  591 FEDAYKSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKG-RKLLIFGTTSRREVLQEMGILDCFSSTIHV  669 (744)
T ss_pred             HHHhhcCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCC-ceEEEEecccHHHHHHHcCHHHhhhheeec
Confidence              344566679999999998888777655432            11 23 444  34666677777665    2457899


Q ss_pred             CCCCH-HHHHHHHhHhh
Q 045709          301 ECLRY-DDAWKLFEQKV  316 (337)
Q Consensus       301 ~~L~~-~ea~~Lf~~~~  316 (337)
                      +.++. ++..+.++..-
T Consensus       670 pnl~~~~~~~~vl~~~n  686 (744)
T KOG0741|consen  670 PNLTTGEQLLEVLEELN  686 (744)
T ss_pred             CccCchHHHHHHHHHcc
Confidence            99987 77777776543

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.84  E-value=0.00026  Score=67.40  Aligned_cols=165  Identities=18%  Similarity=0.120  Sum_probs=86.7

Q ss_pred             CccccchhhHHHHHHHHh-------c---CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLM-------E---EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKI  213 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~-------~---~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~  213 (337)
                      .++-|.+..++.+.....       .   ...+-|.++|++|+|||.+|+.+++..   ...|-.   ++.+      .+
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~---~~~~~~---l~~~------~l  295 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDW---QLPLLR---LDVG------KL  295 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh---CCCEEE---EEhH------Hh
Confidence            346676665555543211       0   235678999999999999999999987   333311   1111      11


Q ss_pred             HHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc--------------cccccCCCCCCCCCCcEE
Q 045709          214 QESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD--------------LDQVGLPIPSRTSVSNKV  279 (337)
Q Consensus       214 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~--------------~~~l~~~l~~~~~g~s~I  279 (337)
                      .    ...       ...+...+.+.+...-...+++|+||+++....              ...+...+.....+ --|
T Consensus       296 ~----~~~-------vGese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~-V~v  363 (489)
T CHL00195        296 F----GGI-------VGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSP-VFV  363 (489)
T ss_pred             c----ccc-------cChHHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCc-eEE
Confidence            1    100       111122222222222235789999999974311              00111111112223 345


Q ss_pred             EEeeCChhHH-hhc----cCCceeecCCCCHHHHHHHHhHhhCCCCC--CCCCChHHHHH
Q 045709          280 VFTTREFGVC-GQM----EAHRSFKVECLRYDDAWKLFEQKVGADTL--DSHPDIPELAE  332 (337)
Q Consensus       280 iiTtr~~~v~-~~~----~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~--~~~~~l~~i~~  332 (337)
                      |.||.+.... ..+    .-+..+.++.-+.++-.++|..+......  ..+.++..+++
T Consensus       364 IaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~  423 (489)
T CHL00195        364 VATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSK  423 (489)
T ss_pred             EEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHh
Confidence            5566554321 111    23467888888999999999988754321  12345555554

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=97.84  E-value=0.00024  Score=71.57  Aligned_cols=159  Identities=17%  Similarity=0.165  Sum_probs=88.4

Q ss_pred             CCccccchhhHHHHHHHHhc------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHH
Q 045709          143 PPTVVGLQLTFDRVWRCLME------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQES  216 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  216 (337)
                      +.+.+|.++.++.|+++|..      ....++.++|++|+||||+++.++...   ...|-.   ++.+...+...+...
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l---~~~~~~---i~~~~~~d~~~i~g~  394 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKAT---GRKYVR---MALGGVRDEAEIRGH  394 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHh---CCCEEE---EEcCCCCCHHHhccc
Confidence            45579999999999988752      246789999999999999999999876   333322   223332233222111


Q ss_pred             HHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc------cccccCCC---------------CCCCCC
Q 045709          217 IAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD------LDQVGLPI---------------PSRTSV  275 (337)
Q Consensus       217 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~------~~~l~~~l---------------~~~~~g  275 (337)
                      -..        +.........+.+... ....-+++||+++....      ...+...+               +.....
T Consensus       395 ~~~--------~~g~~~G~~~~~l~~~-~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~  465 (784)
T PRK10787        395 RRT--------YIGSMPGKLIQKMAKV-GVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSD  465 (784)
T ss_pred             hhc--------cCCCCCcHHHHHHHhc-CCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCc
Confidence            000        0111112233333322 22345788999975421      11111111               111123


Q ss_pred             CcEEEEeeCChhHHhh-ccCCceeecCCCCHHHHHHHHhHhhC
Q 045709          276 SNKVVFTTREFGVCGQ-MEAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       276 ~s~IiiTtr~~~v~~~-~~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                       .-+|.|+.+..+... .+....+.+.+++.+|-.++.+++..
T Consensus       466 -v~~i~TaN~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L~  507 (784)
T PRK10787        466 -VMFVATSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHLL  507 (784)
T ss_pred             -eEEEEcCCCCCCCHHHhcceeeeecCCCCHHHHHHHHHHhhh
Confidence             444455544333211 12336789999999999888877764

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.83  E-value=0.00038  Score=70.27  Aligned_cols=165  Identities=19%  Similarity=0.182  Sum_probs=91.6

Q ss_pred             ccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          145 TVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      ++.|.+..++.|.+.+.-             ...+-+.++|++|+|||+||+.+++..   ...|     +.+..    .
T Consensus       454 di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~---~~~f-----i~v~~----~  521 (733)
T TIGR01243       454 DIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATES---GANF-----IAVRG----P  521 (733)
T ss_pred             hcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc---CCCE-----EEEeh----H
Confidence            457777777777665431             134558899999999999999999987   3333     22221    1


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc--------------cccccCCCCC--CCCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD--------------LDQVGLPIPS--RTSV  275 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~--------------~~~l~~~l~~--~~~g  275 (337)
                      ++    +...       ...+...+...+...-...+++|+||+++....              ...+...+..  ...+
T Consensus       522 ~l----~~~~-------vGese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~  590 (733)
T TIGR01243       522 EI----LSKW-------VGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSN  590 (733)
T ss_pred             HH----hhcc-------cCcHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCC
Confidence            11    1111       111222222222233345689999999974310              1112111211  1123


Q ss_pred             CcEEEEeeCChhHHhh--c---cCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHHH
Q 045709          276 SNKVVFTTREFGVCGQ--M---EAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAET  333 (337)
Q Consensus       276 ~s~IiiTtr~~~v~~~--~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~  333 (337)
                       --||.||...+....  .   .....+.++..+.++-.++|+.+........+.++..+++.
T Consensus       591 -v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~~l~~la~~  652 (733)
T TIGR01243       591 -VVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEM  652 (733)
T ss_pred             -EEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHH
Confidence             445556655443221  1   13467889999999999999877654433334456666653

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.82  E-value=0.0003  Score=72.00  Aligned_cols=47  Identities=26%  Similarity=0.311  Sum_probs=39.0

Q ss_pred             CCccccchhhHHHHHHHHhcC---------CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          143 PPTVVGLQLTFDRVWRCLMEE---------HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...++|.+..++.+...+...         ...++.++|++|+|||++|+.+....
T Consensus       564 ~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l  619 (852)
T TIGR03346       564 HERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFL  619 (852)
T ss_pred             hcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            355899999999998888541         24578899999999999999999877

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.

>PF14516 AAA_35: AAA-like domain

Probab=97.82  E-value=0.0016  Score=59.33  Aligned_cols=169  Identities=12%  Similarity=0.164  Sum_probs=94.9

Q ss_pred             CCccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc-----cCHHHHHHHH
Q 045709          143 PPTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD-----LQLEKIQESI  217 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~-----~~~~~~~~~i  217 (337)
                      .+..|+|...-+.+.+.|..+ ...+.|.|+-.+|||+|...+.+...  +..+ .++++++..-     .+....+..+
T Consensus        10 ~~~Yi~R~~~e~~~~~~i~~~-G~~~~I~apRq~GKTSll~~l~~~l~--~~~~-~~v~id~~~~~~~~~~~~~~f~~~~   85 (331)
T PF14516_consen   10 SPFYIERPPAEQECYQEIVQP-GSYIRIKAPRQMGKTSLLLRLLERLQ--QQGY-RCVYIDLQQLGSAIFSDLEQFLRWF   85 (331)
T ss_pred             CCcccCchHHHHHHHHHHhcC-CCEEEEECcccCCHHHHHHHHHHHHH--HCCC-EEEEEEeecCCCcccCCHHHHHHHH
Confidence            355688986666677666543 67899999999999999999998882  2333 4557775542     2455545444


Q ss_pred             H----HHhCCCCcc---c--cCCCHHHHHHHHHHHh---cCCcEEEEEecCCCcccc----ccc----cCCCCC---C-C
Q 045709          218 A----KKIGLFNES---W--KNKSMQEKAQEIFKIL---SKKKFVLLLDDIWELVDL----DQV----GLPIPS---R-T  273 (337)
Q Consensus       218 ~----~~l~~~~~~---~--~~~~~~~~~~~l~~~l---~~k~~LlVlDdv~~~~~~----~~l----~~~l~~---~-~  273 (337)
                      +    .+++....-   +  ...+.......+.+.+   .+++.+|+||+++.....    +++    +.....   . .
T Consensus        86 ~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~  165 (331)
T PF14516_consen   86 CEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPI  165 (331)
T ss_pred             HHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCcc
Confidence            4    455443210   0  0112223333344432   268999999999865321    111    110000   0 0


Q ss_pred             CCCcEEEEeeCCh--hH-----HhhccCCceeecCCCCHHHHHHHHhHhh
Q 045709          274 SVSNKVVFTTREF--GV-----CGQMEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       274 ~g~s~IiiTtr~~--~v-----~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      -. +-.++...+.  ..     .+.++....+.|++++.+|...|+.++-
T Consensus       166 ~~-~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~  214 (331)
T PF14516_consen  166 WQ-KLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYG  214 (331)
T ss_pred             cc-eEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhh
Confidence            01 1112222211  11     1112334678999999999999998764

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.81  E-value=0.00021  Score=65.00  Aligned_cols=104  Identities=20%  Similarity=0.174  Sum_probs=64.0

Q ss_pred             HHHHHHHHhc-CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcE-EEEEEecC-ccCHHHHHHHHHHHhCCCCcccc
Q 045709          153 FDRVWRCLME-EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDF-VIWVVVSR-DLQLEKIQESIAKKIGLFNESWK  229 (337)
Q Consensus       153 ~~~l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~-~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~  229 (337)
                      ..++++.+.. .....+.|+|.+|+|||||++.+++...  .++-+. ++|+.+.+ ...+.++.+.+...+........
T Consensus       120 ~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~--~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~  197 (380)
T PRK12608        120 SMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVA--ANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRP  197 (380)
T ss_pred             hHhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHH--hcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCC
Confidence            3446666654 3556779999999999999999998772  223333 46666654 44677888888776654321101


Q ss_pred             CCC---HHHHHHHHHHHh--cCCcEEEEEecCCC
Q 045709          230 NKS---MQEKAQEIFKIL--SKKKFVLLLDDIWE  258 (337)
Q Consensus       230 ~~~---~~~~~~~l~~~l--~~k~~LlVlDdv~~  258 (337)
                      ...   .......+.+.+  +++..+||+|++..
T Consensus       198 ~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr  231 (380)
T PRK12608        198 PDEHIRVAELVLERAKRLVEQGKDVVILLDSLTR  231 (380)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHH
Confidence            111   111112222222  58999999999863

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=97.81  E-value=0.00073  Score=65.17  Aligned_cols=170  Identities=12%  Similarity=0.089  Sum_probs=104.7

Q ss_pred             CCccccchhhHHHHHHHHhc-----CCCeEEEEEecCCCcHHHHHHHHHHhhcc--CCCCCc--EEEEEEecCccCHHHH
Q 045709          143 PPTVVGLQLTFDRVWRCLME-----EHAGIVGLYGMGGVGKTTLLTQINNRFFD--TPNHFD--FVIWVVVSRDLQLEKI  213 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~--~~~~f~--~~~wv~~~~~~~~~~~  213 (337)
                      +..+-+|+.+..+|...+..     .....+-|.|.+|+|||..+..|.+.+..  .++.-+  ..+.++.-.-..+.++
T Consensus       395 p~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~  474 (767)
T KOG1514|consen  395 PESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREI  474 (767)
T ss_pred             cccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHH
Confidence            44577899999999888754     23458999999999999999999986631  122222  2344555555678999


Q ss_pred             HHHHHHHhCCCCccccCCCHHHHHHHHHHHhc-----CCcEEEEEecCCCccc--cccccCCCCC-CCCCCcEEEEeeC-
Q 045709          214 QESIAKKIGLFNESWKNKSMQEKAQEIFKILS-----KKKFVLLLDDIWELVD--LDQVGLPIPS-RTSVSNKVVFTTR-  284 (337)
Q Consensus       214 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-----~k~~LlVlDdv~~~~~--~~~l~~~l~~-~~~g~s~IiiTtr-  284 (337)
                      ...|...+....     .........|..+..     .+.++|++|+++....  -+-+...|.+ ...+ |+++|.+= 
T Consensus       475 Y~~I~~~lsg~~-----~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~fdWpt~~~-sKLvvi~Ia  548 (767)
T KOG1514|consen  475 YEKIWEALSGER-----VTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIFDWPTLKN-SKLVVIAIA  548 (767)
T ss_pred             HHHHHHhcccCc-----ccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHhcCCcCCC-CceEEEEec
Confidence            999999997643     233344444544443     4578999998875422  1111111221 1234 67665442 


Q ss_pred             Ch----------hHHhhccCCceeecCCCCHHHHHHHHhHhhCCC
Q 045709          285 EF----------GVCGQMEAHRSFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       285 ~~----------~v~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      +.          .+++.++ ...+.+.|.+.++-.++...+..+-
T Consensus       549 NTmdlPEr~l~nrvsSRlg-~tRi~F~pYth~qLq~Ii~~RL~~~  592 (767)
T KOG1514|consen  549 NTMDLPERLLMNRVSSRLG-LTRICFQPYTHEQLQEIISARLKGL  592 (767)
T ss_pred             ccccCHHHHhccchhhhcc-ceeeecCCCCHHHHHHHHHHhhcch
Confidence            21          1222222 2457788888888777777776544

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.79  E-value=0.00055  Score=61.65  Aligned_cols=170  Identities=12%  Similarity=0.149  Sum_probs=94.0

Q ss_pred             ccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCC------------CCCcEEEEEEecCccCHH
Q 045709          145 TVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTP------------NHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~------------~~f~~~~wv~~~~~~~~~  211 (337)
                      +++|.+.....+.+.+..++ .+...++|+.|+||+++|..+.....-..            ...+-..|+.-.....-.
T Consensus         5 ~iiGq~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~~g~   84 (314)
T PRK07399          5 NLIGQPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQGK   84 (314)
T ss_pred             HhCCHHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEecccccccc
Confidence            57999999999999988776 47999999999999999999887752111            112223343211000000


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTR  284 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr  284 (337)
                      .+-...+...+...........+ ..+.+.+.+     .+++-++|+|+++...  ....+...+-.-. . +.+|++|.
T Consensus        85 ~~~~~~~~~~~~~~~~~~~I~id-~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~-~~fILi~~  161 (314)
T PRK07399         85 LITASEAEEAGLKRKAPPQIRLE-QIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-N-GTLILIAP  161 (314)
T ss_pred             ccchhhhhhccccccccccCcHH-HHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-C-CeEEEEEC
Confidence            00001111111100000111122 233444444     3556799999997653  2333333232212 3 45555554


Q ss_pred             C-hhHHhhc-cCCceeecCCCCHHHHHHHHhHhhC
Q 045709          285 E-FGVCGQM-EAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       285 ~-~~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      + ..+...+ +....+++.+++.++..+.+.+...
T Consensus       162 ~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~  196 (314)
T PRK07399        162 SPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGD  196 (314)
T ss_pred             ChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhc
Confidence            4 3333322 3346889999999999999998753

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.79  E-value=0.00039  Score=63.17  Aligned_cols=161  Identities=6%  Similarity=0.007  Sum_probs=85.4

Q ss_pred             cccc-chhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          145 TVVG-LQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       145 ~~vG-r~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .++| .+..++.|.+.+..++ .+.+.++|+.|+||||+|+.+.+...- .......       ..........+.....
T Consensus         6 ~i~~~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c-~~~~~~~-------~cg~C~~c~~~~~~~h   77 (329)
T PRK08058          6 QLTALQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFC-LERNGVE-------PCGTCTNCKRIDSGNH   77 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCC-CCCCCCC-------CCCcCHHHHHHhcCCC
Confidence            3566 6667778888877665 456799999999999999999887621 1111100       0000111111111000


Q ss_pred             CC----CccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCccc--cccccCCCCCCCCCCcEEEEeeCChh-HHh
Q 045709          223 LF----NESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELVD--LDQVGLPIPSRTSVSNKVVFTTREFG-VCG  290 (337)
Q Consensus       223 ~~----~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~~--~~~l~~~l~~~~~g~s~IiiTtr~~~-v~~  290 (337)
                      ..    ...-.....++.. .+.+.+     .+.+-++|+|+++....  .+.+...+..-..+ +.+|++|.+.. +..
T Consensus        78 pD~~~i~~~~~~i~id~ir-~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~-~~~Il~t~~~~~ll~  155 (329)
T PRK08058         78 PDVHLVAPDGQSIKKDQIR-YLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGG-TTAILLTENKHQILP  155 (329)
T ss_pred             CCEEEeccccccCCHHHHH-HHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCC-ceEEEEeCChHhCcH
Confidence            00    0000111122222 222222     24556899999876532  33343333332334 67777776533 333


Q ss_pred             hc-cCCceeecCCCCHHHHHHHHhHh
Q 045709          291 QM-EAHRSFKVECLRYDDAWKLFEQK  315 (337)
Q Consensus       291 ~~-~~~~~~~l~~L~~~ea~~Lf~~~  315 (337)
                      .+ +....+++.+++.++..+.+...
T Consensus       156 TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        156 TILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             HHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            22 23467899999999998888654

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=97.78  E-value=0.00031  Score=59.88  Aligned_cols=47  Identities=23%  Similarity=0.375  Sum_probs=38.4

Q ss_pred             CCccccchhhHHHHHHH----HhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          143 PPTVVGLQLTFDRVWRC----LMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~----L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -..++|.+...+.|.+-    +...+..-+.++|..|+|||+|++.+.+.+
T Consensus        26 l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y   76 (249)
T PF05673_consen   26 LDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEY   76 (249)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHH
Confidence            35689998888777554    333467788999999999999999999988

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=97.78  E-value=0.00014  Score=60.19  Aligned_cols=123  Identities=20%  Similarity=0.269  Sum_probs=68.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC--ccCHHHH------HHHHHHHhCCCC---ccccCC
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR--DLQLEKI------QESIAKKIGLFN---ESWKNK  231 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~--~~~~~~~------~~~i~~~l~~~~---~~~~~~  231 (337)
                      .+..+++|+|.+|+|||||++.++...    ......+++.-.+  ..+....      ..++++.++...   ......
T Consensus        23 ~~G~~~~l~G~nGsGKStLl~~i~G~~----~~~~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~L   98 (180)
T cd03214          23 EAGEIVGILGPNGAGKSTLLKTLAGLL----KPSSGEILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNEL   98 (180)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC----CCCCcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccC
Confidence            356799999999999999999998765    2233333332111  1111111      122455555432   111334


Q ss_pred             CHHHHHH-HHHHHhcCCcEEEEEecCCCcccc---ccccCCCCCC-CC-CCcEEEEeeCChhHHh
Q 045709          232 SMQEKAQ-EIFKILSKKKFVLLLDDIWELVDL---DQVGLPIPSR-TS-VSNKVVFTTREFGVCG  290 (337)
Q Consensus       232 ~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~~---~~l~~~l~~~-~~-g~s~IiiTtr~~~v~~  290 (337)
                      +..+..+ .+...+...+-++++|+.-...+.   ..+...+... .. + ..||++|++.....
T Consensus        99 S~G~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~-~tiii~sh~~~~~~  162 (180)
T cd03214          99 SGGERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERG-KTVVMVLHDLNLAA  162 (180)
T ss_pred             CHHHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcC-CEEEEEeCCHHHHH
Confidence            4443333 355667778899999998654332   2222222111 12 5 78899999877643

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.77  E-value=0.00015  Score=62.29  Aligned_cols=89  Identities=21%  Similarity=0.241  Sum_probs=54.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHH----hCCCCccccCCCHHH---H
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKK----IGLFNESWKNKSMQE---K  236 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~----l~~~~~~~~~~~~~~---~  236 (337)
                      ...++.|+|.+|+|||+|+.+++....   .....++|++.. .++...+. +++..    +.....-....+..+   .
T Consensus        22 ~g~i~~i~G~~GsGKT~l~~~la~~~~---~~~~~v~yi~~e-~~~~~r~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~   96 (225)
T PRK09361         22 RGTITQIYGPPGSGKTNICLQLAVEAA---KNGKKVIYIDTE-GLSPERFK-QIAGEDFEELLSNIIIFEPSSFEEQSEA   96 (225)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEECC-CCCHHHHH-HHHhhChHhHhhCeEEEeCCCHHHHHHH
Confidence            567999999999999999999988772   334678899887 45544432 23322    000000001223323   3


Q ss_pred             HHHHHHHhcCCcEEEEEecCC
Q 045709          237 AQEIFKILSKKKFVLLLDDIW  257 (337)
Q Consensus       237 ~~~l~~~l~~k~~LlVlDdv~  257 (337)
                      .+.+...+..+.-++|+|.+.
T Consensus        97 i~~~~~~~~~~~~lvVIDsi~  117 (225)
T PRK09361         97 IRKAEKLAKENVGLIVLDSAT  117 (225)
T ss_pred             HHHHHHHHHhcccEEEEeCcH
Confidence            334444444677799999984

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=97.76  E-value=0.00011  Score=63.11  Aligned_cols=125  Identities=18%  Similarity=0.249  Sum_probs=73.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCC-------------CCcEEEEEEecC----cc--CH-------------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPN-------------HFDFVIWVVVSR----DL--QL-------------  210 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-------------~f~~~~wv~~~~----~~--~~-------------  210 (337)
                      ....+++|+|++|.|||||.+.+..-.....+             .-..+.||.-..    .+  ++             
T Consensus        28 ~~G~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~~~g  107 (254)
T COG1121          28 EKGEITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKKG  107 (254)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHHHHccCccccc
Confidence            35689999999999999999999874311110             012455654211    00  11             


Q ss_pred             ---------HHHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCc------cccccccCCCCC
Q 045709          211 ---------EKIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWEL------VDLDQVGLPIPS  271 (337)
Q Consensus       211 ---------~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~------~~~~~l~~~l~~  271 (337)
                               .+...+.++..+...   ......|..+.++. |.+.|..++=||+||+--..      ..+-++...+..
T Consensus       108 ~~~~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~  187 (254)
T COG1121         108 WFRRLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQ  187 (254)
T ss_pred             ccccccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHHH
Confidence                     234445555555432   22345565555554 66788999999999975433      223333333332


Q ss_pred             CCCCCcEEEEeeCChhHHh
Q 045709          272 RTSVSNKVVFTTREFGVCG  290 (337)
Q Consensus       272 ~~~g~s~IiiTtr~~~v~~  290 (337)
                        .| +.||++|.+-+...
T Consensus       188 --eg-~tIl~vtHDL~~v~  203 (254)
T COG1121         188 --EG-KTVLMVTHDLGLVM  203 (254)
T ss_pred             --CC-CEEEEEeCCcHHhH
Confidence              26 89999999866543

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.76  E-value=0.0015  Score=62.03  Aligned_cols=26  Identities=38%  Similarity=0.774  Sum_probs=23.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|.+|+||||++..+...+
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~l  374 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRF  374 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999999988766

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.76  E-value=9.1e-05  Score=72.33  Aligned_cols=46  Identities=17%  Similarity=0.239  Sum_probs=39.0

Q ss_pred             CccccchhhHHHHHHHHhcC-----CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLMEE-----HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~-----~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+++|.++.+..+..++...     ...++.|+|++|+||||+++.++...
T Consensus        84 del~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l  134 (637)
T TIGR00602        84 HELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKEL  134 (637)
T ss_pred             HHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45899999999999888652     34679999999999999999998866

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=97.75  E-value=0.00093  Score=58.71  Aligned_cols=54  Identities=26%  Similarity=0.308  Sum_probs=34.2

Q ss_pred             hHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHH
Q 045709          152 TFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKI  213 (337)
Q Consensus       152 ~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~  213 (337)
                      .++++..++..  ...+.+.|.+|+|||+||+.+....   ...   ...+++....+..++
T Consensus        10 l~~~~l~~l~~--g~~vLL~G~~GtGKT~lA~~la~~l---g~~---~~~i~~~~~~~~~dl   63 (262)
T TIGR02640        10 VTSRALRYLKS--GYPVHLRGPAGTGKTTLAMHVARKR---DRP---VMLINGDAELTTSDL   63 (262)
T ss_pred             HHHHHHHHHhc--CCeEEEEcCCCCCHHHHHHHHHHHh---CCC---EEEEeCCccCCHHHH
Confidence            34455555543  3456699999999999999998754   222   344555554444444

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).

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=97.74  E-value=0.00016  Score=60.55  Aligned_cols=89  Identities=21%  Similarity=0.220  Sum_probs=51.0

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc-cCHHHHHHHHHHHhCCCCccc-cCCCHHHHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD-LQLEKIQESIAKKIGLFNESW-KNKSMQEKAQEIFK  242 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~~  242 (337)
                      ++++.++|+.|+||||.+.+++..+.   ..-..+..++.... ....+-++..++.++.+.... ...+..+......+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~---~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~   77 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLK---LKGKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALE   77 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHH---HTT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHh---hccccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHH
Confidence            47899999999999998888888772   22445666776432 234455667777777542111 12234444433333


Q ss_pred             HhcCC-cEEEEEecC
Q 045709          243 ILSKK-KFVLLLDDI  256 (337)
Q Consensus       243 ~l~~k-~~LlVlDdv  256 (337)
                      .+..+ .=++++|-.
T Consensus        78 ~~~~~~~D~vlIDT~   92 (196)
T PF00448_consen   78 KFRKKGYDLVLIDTA   92 (196)
T ss_dssp             HHHHTTSSEEEEEE-
T ss_pred             HHhhcCCCEEEEecC
Confidence            33332 336667754

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

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

Probab=97.74  E-value=0.00052  Score=65.71  Aligned_cols=147  Identities=20%  Similarity=0.195  Sum_probs=84.4

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFK  242 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  242 (337)
                      ...+-|.++|+||+|||++|+.+++..   ...|-.     ++.    .+++.    ..       -+.+...+.+.+.+
T Consensus       466 ~ppkGVLlyGPPGC~KT~lAkalAne~---~~nFls-----vkg----pEL~s----k~-------vGeSEr~ir~iF~k  522 (693)
T KOG0730|consen  466 SPPKGVLLYGPPGCGKTLLAKALANEA---GMNFLS-----VKG----PELFS----KY-------VGESERAIREVFRK  522 (693)
T ss_pred             CCCceEEEECCCCcchHHHHHHHhhhh---cCCeee-----ccC----HHHHH----Hh-------cCchHHHHHHHHHH
Confidence            357789999999999999999999987   455532     221    11111    11       12222333333333


Q ss_pred             HhcCCcEEEEEecCCCccc-------------cccccCCCCCCCCCCcEEEE---eeCChhHHh-hcc---CCceeecCC
Q 045709          243 ILSKKKFVLLLDDIWELVD-------------LDQVGLPIPSRTSVSNKVVF---TTREFGVCG-QME---AHRSFKVEC  302 (337)
Q Consensus       243 ~l~~k~~LlVlDdv~~~~~-------------~~~l~~~l~~~~~g~s~Iii---Ttr~~~v~~-~~~---~~~~~~l~~  302 (337)
                      .=+--+++|.||+++...-             +.++..-+...... ..|+|   |.|...+-. .+.   -+..+.+++
T Consensus       523 AR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~-k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVpl  601 (693)
T KOG0730|consen  523 ARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEAL-KNVLVIAATNRPDMIDPALLRPGRLDRIIYVPL  601 (693)
T ss_pred             HhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHccccccc-CcEEEEeccCChhhcCHHHcCCcccceeEeecC
Confidence            3344678999999875411             22222222222222 23333   444444322 222   346778888


Q ss_pred             CCHHHHHHHHhHhhCCCCCCCCCChHHHHHH
Q 045709          303 LRYDDAWKLFEQKVGADTLDSHPDIPELAET  333 (337)
Q Consensus       303 L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~  333 (337)
                      -+.+--.++|+.++-.-.....-++.++++.
T Consensus       602 PD~~aR~~Ilk~~~kkmp~~~~vdl~~La~~  632 (693)
T KOG0730|consen  602 PDLEARLEILKQCAKKMPFSEDVDLEELAQA  632 (693)
T ss_pred             ccHHHHHHHHHHHHhcCCCCccccHHHHHHH
Confidence            8888889999999865544455678888763

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.73  E-value=0.00021  Score=58.87  Aligned_cols=128  Identities=17%  Similarity=0.186  Sum_probs=67.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCcc------------ccC
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNES------------WKN  230 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~------------~~~  230 (337)
                      ....+++|.|.+|+|||||++.+.....    .....+++.-.   ++......+...++.-.+.            ...
T Consensus        26 ~~Ge~~~i~G~nGsGKStLl~~l~G~~~----~~~G~i~~~g~---~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~~   98 (178)
T cd03247          26 KQGEKIALLGRSGSGKSTLLQLLTGDLK----PQQGEITLDGV---PVSDLEKALSSLISVLNQRPYLFDTTLRNNLGRR   98 (178)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccCC----CCCCEEEECCE---EHHHHHHHHHhhEEEEccCCeeecccHHHhhccc
Confidence            3567899999999999999999987652    12223333211   1111111111111110000            122


Q ss_pred             CCHHHHHH-HHHHHhcCCcEEEEEecCCCcccc---ccccCCCCCCCCCCcEEEEeeCChhHHhhccCCceeec
Q 045709          231 KSMQEKAQ-EIFKILSKKKFVLLLDDIWELVDL---DQVGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKV  300 (337)
Q Consensus       231 ~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~~---~~l~~~l~~~~~g~s~IiiTtr~~~v~~~~~~~~~~~l  300 (337)
                      .+..+..+ .+...+-.++-+++||+..+..+.   +.+...+.....+ ..||++|++......  .++.+.+
T Consensus        99 LS~G~~qrv~laral~~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~-~tii~~sh~~~~~~~--~d~~~~l  169 (178)
T cd03247          99 FSGGERQRLALARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEVLKD-KTLIWITHHLTGIEH--MDKILFL  169 (178)
T ss_pred             CCHHHHHHHHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHcCC-CEEEEEecCHHHHHh--CCEEEEE
Confidence            33333332 355666678889999998765332   1111111111235 789999998876642  3455444

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.73  E-value=0.00052  Score=58.86  Aligned_cols=91  Identities=16%  Similarity=0.200  Sum_probs=58.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCC------cEEEEEEecCccCHHHHHHHHHHHhCCCCc----c---ccC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHF------DFVIWVVVSRDLQLEKIQESIAKKIGLFNE----S---WKN  230 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f------~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----~---~~~  230 (337)
                      ...++.|+|.+|+|||+|+..++....   ...      ..++|++....++...+. .+....+....    .   ...
T Consensus        18 ~g~v~~I~G~~GsGKT~l~~~ia~~~~---~~~~~~g~~~~v~yi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~   93 (226)
T cd01393          18 TGRITEIFGEFGSGKTQLCLQLAVEAQ---LPGELGGLEGKVVYIDTEGAFRPERLV-QLAVRFGLDPEEVLDNIYVARP   93 (226)
T ss_pred             CCcEEEEeCCCCCChhHHHHHHHHHhh---cccccCCCcceEEEEecCCCCCHHHHH-HHHHHhccchhhhhccEEEEeC
Confidence            568999999999999999999987652   222      567899887776665543 33333222110    0   122


Q ss_pred             CCHHHHHHHHHHHhc----CCcEEEEEecCCC
Q 045709          231 KSMQEKAQEIFKILS----KKKFVLLLDDIWE  258 (337)
Q Consensus       231 ~~~~~~~~~l~~~l~----~k~~LlVlDdv~~  258 (337)
                      .+.++....+.....    .+.-|+|+|.+..
T Consensus        94 ~~~~~~~~~l~~~~~~~~~~~~~lvVIDsis~  125 (226)
T cd01393          94 YNGEQQLEIVEELERIMSSGRVDLVVVDSVAA  125 (226)
T ss_pred             CCHHHHHHHHHHHHHHhhcCCeeEEEEcCcch
Confidence            345555555555442    3556999999854

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>PRK07261 topology modulation protein; Provisional

Probab=97.71  E-value=0.0002  Score=58.70  Aligned_cols=23  Identities=26%  Similarity=0.638  Sum_probs=20.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|+|++|+||||||+.+....
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            48899999999999999998765

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=97.71  E-value=0.00025  Score=60.03  Aligned_cols=90  Identities=17%  Similarity=0.226  Sum_probs=55.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHh-CCCCcc---ccCCCHH---HH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKI-GLFNES---WKNKSMQ---EK  236 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l-~~~~~~---~~~~~~~---~~  236 (337)
                      ...++.|+|.+|+|||+|+.+++....   .....++|++... ++...+.+ ++... ......   ....+..   ..
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~---~~g~~v~yi~~e~-~~~~rl~~-~~~~~~~~~~~~i~~~~~~~~~~~~~~   85 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAVNAA---RQGKKVVYIDTEG-LSPERFKQ-IAEDRPERALSNFIVFEVFDFDEQGVA   85 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---hCCCeEEEEECCC-CCHHHHHH-HHHhChHHHhcCEEEEECCCHHHHHHH
Confidence            578999999999999999999887762   3456789999875 55555443 33221 000000   0112222   23


Q ss_pred             HHHHHHHhcC-CcEEEEEecCCC
Q 045709          237 AQEIFKILSK-KKFVLLLDDIWE  258 (337)
Q Consensus       237 ~~~l~~~l~~-k~~LlVlDdv~~  258 (337)
                      ...+...+.. +.-+||+|.+..
T Consensus        86 ~~~l~~~~~~~~~~lvVIDSis~  108 (209)
T TIGR02237        86 IQKTSKFIDRDSASLVVVDSFTA  108 (209)
T ss_pred             HHHHHHHHhhcCccEEEEeCcHH
Confidence            4555555543 566999999854

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=97.70  E-value=0.00035  Score=56.89  Aligned_cols=126  Identities=20%  Similarity=0.155  Sum_probs=72.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEe---c----------------------------------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVV---S----------------------------------  205 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~---~----------------------------------  205 (337)
                      ++...+.++|++|.|||||.+.+|....    .-...+|+.-   +                                  
T Consensus        26 ~~Gef~fl~GpSGAGKSTllkLi~~~e~----pt~G~i~~~~~dl~~l~~~~iP~LRR~IGvVFQD~rLL~~~tvyeNVA  101 (223)
T COG2884          26 PKGEFVFLTGPSGAGKSTLLKLIYGEER----PTRGKILVNGHDLSRLKGREIPFLRRQIGVVFQDFRLLPDRTVYENVA  101 (223)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHhhhc----CCCceEEECCeecccccccccchhhheeeeEeeeccccccchHhhhhh
Confidence            4678899999999999999999998762    1122333310   0                                  


Q ss_pred             --------CccCHHHHHHHHHHHhCCCCcc---ccCCCH-HHHHHHHHHHhcCCcEEEEEecC----CCccccccccCCC
Q 045709          206 --------RDLQLEKIQESIAKKIGLFNES---WKNKSM-QEKAQEIFKILSKKKFVLLLDDI----WELVDLDQVGLPI  269 (337)
Q Consensus       206 --------~~~~~~~~~~~i~~~l~~~~~~---~~~~~~-~~~~~~l~~~l~~k~~LlVlDdv----~~~~~~~~l~~~l  269 (337)
                              +.....+-....+...++....   +...+. ++..-.+.+.+-+++-+|+-|+-    +....|+-+...-
T Consensus       102 ~pL~v~G~~~~~i~~rV~~~L~~VgL~~k~~~lP~~LSGGEQQRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfe  181 (223)
T COG2884         102 LPLRVIGKPPREIRRRVSEVLDLVGLKHKARALPSQLSGGEQQRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFE  181 (223)
T ss_pred             hhhhccCCCHHHHHHHHHHHHHHhccchhhhcCccccCchHHHHHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHH
Confidence                    0011222233333333432211   122232 33333466777789999999964    3334454442222


Q ss_pred             CCCCCCCcEEEEeeCChhHHhhcc
Q 045709          270 PSRTSVSNKVVFTTREFGVCGQME  293 (337)
Q Consensus       270 ~~~~~g~s~IiiTtr~~~v~~~~~  293 (337)
                      .-+..| ..||++|.+..+...+.
T Consensus       182 einr~G-tTVl~ATHd~~lv~~~~  204 (223)
T COG2884         182 EINRLG-TTVLMATHDLELVNRMR  204 (223)
T ss_pred             HHhhcC-cEEEEEeccHHHHHhcc
Confidence            223456 99999999999877663

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=97.69  E-value=0.0012  Score=58.49  Aligned_cols=173  Identities=18%  Similarity=0.223  Sum_probs=101.4

Q ss_pred             CccccchhhHHHHHHHHhc----CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH-HHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLME----EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL-EKIQESIA  218 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~-~~~~~~i~  218 (337)
                      ..++|-.++..++..++..    ++..-+.|+|+.|.|||+|......+.+....+|   +-|......-. .-.+..|.
T Consensus        24 ~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~---l~v~Lng~~~~dk~al~~I~  100 (408)
T KOG2228|consen   24 INLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSDIQENGENF---LLVRLNGELQTDKIALKGIT  100 (408)
T ss_pred             cceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeE---EEEEECccchhhHHHHHHHH
Confidence            3589999999998888864    4677888999999999999988877752223333   33444333221 22344455


Q ss_pred             HHhCCCCcc--ccCCCHHHHHHHHHHHhc------CCcEEEEEecCCCccc-------cccccCCCCCCCCCCcEEEEee
Q 045709          219 KKIGLFNES--WKNKSMQEKAQEIFKILS------KKKFVLLLDDIWELVD-------LDQVGLPIPSRTSVSNKVVFTT  283 (337)
Q Consensus       219 ~~l~~~~~~--~~~~~~~~~~~~l~~~l~------~k~~LlVlDdv~~~~~-------~~~l~~~l~~~~~g~s~IiiTt  283 (337)
                      .++......  ....+..+....+...|+      +-++++|+|+++--..       +.-+...-....+- |-|-+||
T Consensus       101 rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Pi-ciig~Tt  179 (408)
T KOG2228|consen  101 RQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPI-CIIGVTT  179 (408)
T ss_pred             HHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCe-EEEEeec
Confidence            544322111  122334445555555553      2358889998864311       11111111123344 6667899


Q ss_pred             CChh-------HHhhccCCceeecCCCCHHHHHHHHhHhhCCCC
Q 045709          284 REFG-------VCGQMEAHRSFKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       284 r~~~-------v~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      |-..       |-+.++-..++-+++++-++...++++...-+.
T Consensus       180 rld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll~v~~  223 (408)
T KOG2228|consen  180 RLDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLLSVPA  223 (408)
T ss_pred             cccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHhcCCc
Confidence            8643       333333333567788999999999998875443

>PRK06526 transposase; Provisional

Probab=97.68  E-value=5.2e-05  Score=66.07  Aligned_cols=26  Identities=31%  Similarity=0.282  Sum_probs=23.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +...+.++|++|+|||+||..+.+..
T Consensus        97 ~~~nlll~Gp~GtGKThLa~al~~~a  122 (254)
T PRK06526         97 GKENVVFLGPPGTGKTHLAIGLGIRA  122 (254)
T ss_pred             cCceEEEEeCCCCchHHHHHHHHHHH
Confidence            45678999999999999999998877

>cd01394 radB RadB

Probab=97.67  E-value=0.00059  Score=58.21  Aligned_cols=90  Identities=17%  Similarity=0.146  Sum_probs=52.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHH----hCCCCccccCCCHHHH---
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKK----IGLFNESWKNKSMQEK---  236 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~----l~~~~~~~~~~~~~~~---  236 (337)
                      ...++.|.|.+|+|||||+.+++...   ...-..++|++....+.  .-+.+++..    .....-.....+..+.   
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~~a~~~---~~~g~~v~yi~~e~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (218)
T cd01394          18 RGTVTQVYGPPGTGKTNIAIQLAVET---AGQGKKVAYIDTEGLSS--ERFRQIAGDRPERAASSIIVFEPMDFNEQGRA   92 (218)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH---HhcCCeEEEEECCCCCH--HHHHHHHhHChHhhhcCEEEEeCCCHHHHHHH
Confidence            57899999999999999999998877   23344677887655443  223333322    1100000112222232   


Q ss_pred             HHHHHHHhcCCcEEEEEecCCC
Q 045709          237 AQEIFKILSKKKFVLLLDDIWE  258 (337)
Q Consensus       237 ~~~l~~~l~~k~~LlVlDdv~~  258 (337)
                      ...+...+..+.-++|+|.+..
T Consensus        93 ~~~~~~~~~~~~~lvvIDsi~~  114 (218)
T cd01394          93 IQETETFADEKVDLVVVDSATA  114 (218)
T ss_pred             HHHHHHHHhcCCcEEEEechHH
Confidence            2344444554567999998754

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=97.66  E-value=0.00026  Score=58.11  Aligned_cols=125  Identities=18%  Similarity=0.151  Sum_probs=68.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccC--CC---CCc--EEEEEEecCccCHHHHHHHHHHHhCCCC----ccccCC
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDT--PN---HFD--FVIWVVVSRDLQLEKIQESIAKKIGLFN----ESWKNK  231 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~--~~---~f~--~~~wv~~~~~~~~~~~~~~i~~~l~~~~----~~~~~~  231 (337)
                      ....+++|+|++|+|||||.+.+......+  ..   .|.  .+.|+  .+        .+.+..++...    ......
T Consensus        19 ~~G~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~~--~q--------~~~l~~~~L~~~~~~~~~~~L   88 (176)
T cd03238          19 PLNVLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFI--DQ--------LQFLIDVGLGYLTLGQKLSTL   88 (176)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEEE--hH--------HHHHHHcCCCccccCCCcCcC
Confidence            356799999999999999999986421110  00   110  12232  11        34566666432    112333


Q ss_pred             CHHHHHH-HHHHHhcCC--cEEEEEecCCCcccc---ccccCCCCC-CCCCCcEEEEeeCChhHHhhccCCceeec
Q 045709          232 SMQEKAQ-EIFKILSKK--KFVLLLDDIWELVDL---DQVGLPIPS-RTSVSNKVVFTTREFGVCGQMEAHRSFKV  300 (337)
Q Consensus       232 ~~~~~~~-~l~~~l~~k--~~LlVlDdv~~~~~~---~~l~~~l~~-~~~g~s~IiiTtr~~~v~~~~~~~~~~~l  300 (337)
                      +..+..+ .+...+..+  +-+++||+.-+..+.   ..+...+.. ...| ..||++|++.+....  ++.++.+
T Consensus        89 SgGq~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g-~tvIivSH~~~~~~~--~d~i~~l  161 (176)
T cd03238          89 SGGELQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLG-NTVILIEHNLDVLSS--ADWIIDF  161 (176)
T ss_pred             CHHHHHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCC-CEEEEEeCCHHHHHh--CCEEEEE
Confidence            4433332 244555566  789999987654332   122111211 1135 689999998876542  4455555

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

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

Probab=97.66  E-value=0.00029  Score=70.53  Aligned_cols=46  Identities=22%  Similarity=0.297  Sum_probs=37.5

Q ss_pred             CccccchhhHHHHHHHHhc---------CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLME---------EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++|.++.++.|...+..         .....+.++|++|+|||+||+.++...
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l  512 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999888888752         124578899999999999999998876

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=97.65  E-value=0.00013  Score=61.03  Aligned_cols=130  Identities=14%  Similarity=0.123  Sum_probs=62.4

Q ss_pred             cchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc--c----CHHH-------HH
Q 045709          148 GLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD--L----QLEK-------IQ  214 (337)
Q Consensus       148 Gr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~--~----~~~~-------~~  214 (337)
                      .+..+....++.|.  ...++.+.|++|+|||.||....-+. -..+.|+.++++.-.-+  .    -+.+       .+
T Consensus         4 p~~~~Q~~~~~al~--~~~~v~~~G~AGTGKT~LA~a~Al~~-v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~   80 (205)
T PF02562_consen    4 PKNEEQKFALDALL--NNDLVIVNGPAGTGKTFLALAAALEL-VKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYL   80 (205)
T ss_dssp             --SHHHHHHHHHHH--H-SEEEEE--TTSSTTHHHHHHHHHH-HHTTS-SEEEEEE-S--TT----SS---------TTT
T ss_pred             CCCHHHHHHHHHHH--hCCeEEEECCCCCcHHHHHHHHHHHH-HHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHH
Confidence            34455566666666  45799999999999999999988766 23588888887752211  0    0011       11


Q ss_pred             HHHHHHhCCCCccccCCCHHHHHHHH------HHHhcCC---cEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEee
Q 045709          215 ESIAKKIGLFNESWKNKSMQEKAQEI------FKILSKK---KFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTT  283 (337)
Q Consensus       215 ~~i~~~l~~~~~~~~~~~~~~~~~~l------~~~l~~k---~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTt  283 (337)
                      .-+...+..-.   .....+.+.+.-      ..+++|+   ..++|+|++.+.  .++..+..   ..+.+ |++|++=
T Consensus        81 ~p~~d~l~~~~---~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilT---R~g~~-skii~~G  153 (205)
T PF02562_consen   81 RPIYDALEELF---GKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILT---RIGEG-SKIIITG  153 (205)
T ss_dssp             HHHHHHHTTTS----TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHT---TB-TT--EEEEEE
T ss_pred             HHHHHHHHHHh---ChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHc---ccCCC-cEEEEec
Confidence            11111221100   111122221100      1234454   469999999875  35555533   34566 9999986


Q ss_pred             CChh
Q 045709          284 REFG  287 (337)
Q Consensus       284 r~~~  287 (337)
                      -...
T Consensus       154 D~~Q  157 (205)
T PF02562_consen  154 DPSQ  157 (205)
T ss_dssp             ----
T ss_pred             Ccee
Confidence            6433

; GO: 0005524 ATP binding; PDB: 3B85_A.

>TIGR02012 tigrfam_recA protein RecA

Probab=97.65  E-value=0.00019  Score=64.38  Aligned_cols=87  Identities=15%  Similarity=0.180  Sum_probs=58.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEI  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  240 (337)
                      ..+++-|+|++|+||||||.+++....   ..-..++|++....++..     .+.+++...+..   ...+.++....+
T Consensus        54 ~G~iteI~G~~GsGKTtLaL~~~~~~~---~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~  125 (321)
T TIGR02012        54 RGRIIEIYGPESSGKTTLALHAIAEAQ---KAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIA  125 (321)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            568999999999999999999887772   334567788877655542     345555432211   233455556555


Q ss_pred             HHHhc-CCcEEEEEecCCC
Q 045709          241 FKILS-KKKFVLLLDDIWE  258 (337)
Q Consensus       241 ~~~l~-~k~~LlVlDdv~~  258 (337)
                      ...++ +..-++|+|.+-.
T Consensus       126 ~~li~~~~~~lIVIDSv~a  144 (321)
T TIGR02012       126 ETLVRSGAVDIIVVDSVAA  144 (321)
T ss_pred             HHHhhccCCcEEEEcchhh
Confidence            55554 4567999998864

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.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.65  E-value=0.00018  Score=64.64  Aligned_cols=87  Identities=17%  Similarity=0.183  Sum_probs=58.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEI  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  240 (337)
                      ..+++-|+|++|+||||||.+++....   ..-..++|++....++..     .+.+++...+..   ...+.++....+
T Consensus        54 ~G~iteI~Gp~GsGKTtLal~~~~~~~---~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~  125 (325)
T cd00983          54 KGRIIEIYGPESSGKTTLALHAIAEAQ---KLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIA  125 (325)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHH
Confidence            567999999999999999999887762   334567899887766543     344444432111   233456666666


Q ss_pred             HHHhc-CCcEEEEEecCCC
Q 045709          241 FKILS-KKKFVLLLDDIWE  258 (337)
Q Consensus       241 ~~~l~-~k~~LlVlDdv~~  258 (337)
                      ...++ +..-++|+|.+-.
T Consensus       126 ~~li~s~~~~lIVIDSvaa  144 (325)
T cd00983         126 DSLVRSGAVDLIVVDSVAA  144 (325)
T ss_pred             HHHHhccCCCEEEEcchHh
Confidence            55554 4566999998753

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK09183 transposase/IS protein; Provisional

Probab=97.65  E-value=0.00011  Score=64.29  Aligned_cols=26  Identities=31%  Similarity=0.373  Sum_probs=22.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+.|+|++|+|||+||..+.+..
T Consensus       101 ~~~~v~l~Gp~GtGKThLa~al~~~a  126 (259)
T PRK09183        101 RNENIVLLGPSGVGKTHLAIALGYEA  126 (259)
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHH
Confidence            45678899999999999999998775

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=97.65  E-value=0.00019  Score=60.20  Aligned_cols=46  Identities=24%  Similarity=0.246  Sum_probs=41.3

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++||.++.++.+.-...+.+.+-+.|.||+|+||||-+..+++..
T Consensus        27 ~dIVGNe~tv~rl~via~~gnmP~liisGpPG~GKTTsi~~LAr~L   72 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKEGNMPNLIISGPPGTGKTTSILCLAREL   72 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCceEeeCCCCCchhhHHHHHHHHH
Confidence            3589999999998887788889999999999999999999998887

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=97.64  E-value=0.0023  Score=60.12  Aligned_cols=242  Identities=19%  Similarity=0.206  Sum_probs=125.9

Q ss_pred             cchhhHHHHHHHHhhhhcccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHHHHH
Q 045709            9 FTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVAEQQQMKPLEQVHGWISRVQEVGSKVEKL   88 (337)
Q Consensus         9 ~~~~~~~~kl~~~l~~~~~~~~~~~~~~~~l~~el~~l~~~l~~~~~~~~~ae~~~~~~~~~~~~Wl~~l~~~a~~~ed~   88 (337)
                      .+++.+.+.++..-.+...+..|..+.....+.|++                       ..+++.|.++=++ ..-..|+
T Consensus       280 Dfln~vCT~Ii~l~~kkl~~y~Gnydqy~~tr~E~~-----------------------~~q~K~~~kqqk~-i~~~K~~  335 (614)
T KOG0927|consen  280 DFLNGVCTNIIHLDNKKLIYYEGNYDQYVKTRSELE-----------------------ENQMKAYEKQQKQ-IAHMKDL  335 (614)
T ss_pred             hhhhhHhhhhheecccceeeecCCHHHHhhHHHHHh-----------------------HHHHHHHHHHHhH-HHHhhHH
Confidence            567778888888777777777777777666655553                       2445566655444 3345666


Q ss_pred             HhhcCCCCCCCchhchHHHHHHHHHHHHHHHHhcCC-------------CCccccCCCCCCCCCCCCCCccccchhhHHH
Q 045709           89 KEEEYPESRCSKSTYKLGKKVFRTLREVRSLRQEGD-------------FKDVAQPVPENPVDERPLPPTVVGLQLTFDR  155 (337)
Q Consensus        89 ld~~~~~~~~~~~~~~~~~~i~~~~~~i~~~~~~~~-------------~~~~~~~~~~~~~~~~~~~~~~vGr~~~~~~  155 (337)
                      +-.+..+  |    ...+++.....+.+..+..++-             |..+.. .|++....   ...-+|.++.- .
T Consensus       336 ia~~g~g--~----a~~~rka~s~~K~~~km~~~gL~ek~~~~k~l~~~f~~vg~-~p~pvi~~---~nv~F~y~~~~-~  404 (614)
T KOG0927|consen  336 IARFGHG--S----AKLGRKAQSKEKTLDKMEADGLTEKVVGEKVLSFRFPEVGK-IPPPVIMV---QNVSFGYSDNP-M  404 (614)
T ss_pred             HHhhccc--c----hhhhHHHhhhhhhHHHHhhccccccccCCceEEEEcccccC-CCCCeEEE---eccccCCCCcc-h
Confidence            6555322  2    2345555555555555544331             111111 01110000   11124444333 2


Q ss_pred             HHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCC----cEE---------------EEEE-----ecCccC
Q 045709          156 VWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHF----DFV---------------IWVV-----VSRDLQ  209 (337)
Q Consensus       156 l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f----~~~---------------~wv~-----~~~~~~  209 (337)
                      |..-|.-  +.-..|++||++|+|||||.+.++.+.....+.-    ..+               .|..     .-....
T Consensus       405 iy~~l~fgid~~srvAlVGPNG~GKsTLlKl~~gdl~p~~G~vs~~~H~~~~~y~Qh~~e~ldl~~s~le~~~~~~~~~~  484 (614)
T KOG0927|consen  405 IYKKLNFGIDLDSRVALVGPNGAGKSTLLKLITGDLQPTIGMVSRHSHNKLPRYNQHLAEQLDLDKSSLEFMMPKFPDEK  484 (614)
T ss_pred             hhhhhhcccCcccceeEecCCCCchhhhHHHHhhccccccccccccccccchhhhhhhHhhcCcchhHHHHHHHhccccc
Confidence            3333321  3457899999999999999999988763221111    000               0000     001123


Q ss_pred             HHHHHHHHHHHhCCCCcc----ccCCCHHHHHHHHHHHh-cCCcEEEEEecCCCccccccc---cCCCCCCCCCCcEEEE
Q 045709          210 LEKIQESIAKKIGLFNES----WKNKSMQEKAQEIFKIL-SKKKFVLLLDDIWELVDLDQV---GLPIPSRTSVSNKVVF  281 (337)
Q Consensus       210 ~~~~~~~i~~~l~~~~~~----~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~~~~l---~~~l~~~~~g~s~Iii  281 (337)
                      ..+..+.++..++...+.    +...+..+....+..++ -..+-|||||+.-+..+.+.+   ..++..- .|  -+|+
T Consensus       485 ~~e~~r~ilgrfgLtgd~q~~p~~~LS~Gqr~rVlFa~l~~kqP~lLlLDEPtnhLDi~tid~laeaiNe~-~G--gvv~  561 (614)
T KOG0927|consen  485 ELEEMRSILGRFGLTGDAQVVPMSQLSDGQRRRVLFARLAVKQPHLLLLDEPTNHLDIETIDALAEAINEF-PG--GVVL  561 (614)
T ss_pred             hHHHHHHHHHHhCCCccccccchhhcccccchhHHHHHHHhcCCcEEEecCCCcCCCchhHHHHHHHHhcc-CC--ceee
Confidence            456677788888775321    13334444445554444 467899999987765443322   2222222 23  4777


Q ss_pred             eeCChhH
Q 045709          282 TTREFGV  288 (337)
Q Consensus       282 Ttr~~~v  288 (337)
                      +|++--+
T Consensus       562 vSHDfrl  568 (614)
T KOG0927|consen  562 VSHDFRL  568 (614)
T ss_pred             eechhhH
Confidence            8877544

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.62  E-value=0.00046  Score=59.54  Aligned_cols=93  Identities=20%  Similarity=0.289  Sum_probs=57.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCC----CCcEEEEEEecCccCHHHHHHHHHHHhCCCCcc-------ccCCC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPN----HFDFVIWVVVSRDLQLEKIQESIAKKIGLFNES-------WKNKS  232 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~  232 (337)
                      ...++.|+|.+|+|||+|+.+++... ....    ....++|++....++..++. ++++..+.....       ....+
T Consensus        18 ~g~i~~i~G~~GsGKT~l~~~l~~~~-~~~~~~~g~~~~viyi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~~~   95 (235)
T cd01123          18 TGSITEIFGEFGSGKTQLCHQLAVTV-QLPIELGGLEGKAVYIDTEGTFRPERLV-QIAERFGLDPEEVLDNIYVARAYN   95 (235)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHe-eCccccCCCCccEEEEeCCCCcCHHHHH-HHHHHhccChHhHhcCEEEEecCC
Confidence            56899999999999999999997554 1122    13678999988776655443 344443322110       01122


Q ss_pred             HHH---HHHHHHHHhc-C-CcEEEEEecCCC
Q 045709          233 MQE---KAQEIFKILS-K-KKFVLLLDDIWE  258 (337)
Q Consensus       233 ~~~---~~~~l~~~l~-~-k~~LlVlDdv~~  258 (337)
                      ..+   ....+...+. . +.-+||+|.+..
T Consensus        96 ~~~l~~~l~~l~~~l~~~~~~~liVIDSis~  126 (235)
T cd01123          96 SDHQLQLLEELEAILIESSRIKLVIVDSVTA  126 (235)
T ss_pred             HHHHHHHHHHHHHHHhhcCCeeEEEEeCcHH
Confidence            233   3344444443 3 667999999864

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>PRK04296 thymidine kinase; Provisional

Probab=97.61  E-value=6.6e-05  Score=62.61  Aligned_cols=113  Identities=18%  Similarity=0.071  Sum_probs=63.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhc
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILS  245 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  245 (337)
                      .++.|+|..|.||||++..++.+..   .+...++.+.  +.++.......++.+++............+....+.+ ..
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~---~~g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~   76 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYE---ERGMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EG   76 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHH---HcCCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hC
Confidence            5788999999999999999988872   2333344342  1112122233455555543222112334455555555 33


Q ss_pred             CCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEeeCChh
Q 045709          246 KKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTTREFG  287 (337)
Q Consensus       246 ~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTtr~~~  287 (337)
                      ++.-+||+|++.-.  ++..++...+  ...| ..||+|.++.+
T Consensus        77 ~~~dvviIDEaq~l~~~~v~~l~~~l--~~~g-~~vi~tgl~~~  117 (190)
T PRK04296         77 EKIDCVLIDEAQFLDKEQVVQLAEVL--DDLG-IPVICYGLDTD  117 (190)
T ss_pred             CCCCEEEEEccccCCHHHHHHHHHHH--HHcC-CeEEEEecCcc
Confidence            34458999999543  2122232221  1245 78999999833

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=97.61  E-value=0.0011  Score=64.04  Aligned_cols=159  Identities=14%  Similarity=0.130  Sum_probs=89.3

Q ss_pred             CccccchhhHHHHHHHHhc------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLME------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESI  217 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  217 (337)
                      .+-.|.++..++|++.+.-      .+.+++..+|++|+|||++++.++.-+   ...|-   -++++.-.+..+|-   
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~AL---nRkFf---RfSvGG~tDvAeIk---  481 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARAL---NRKFF---RFSVGGMTDVAEIK---  481 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHh---CCceE---EEeccccccHHhhc---
Confidence            4458999999999998742      378999999999999999999999988   33332   13445444444432   


Q ss_pred             HHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc------------------ccccccCCCCCCCCCCcEE
Q 045709          218 AKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV------------------DLDQVGLPIPSRTSVSNKV  279 (337)
Q Consensus       218 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~------------------~~~~l~~~l~~~~~g~s~I  279 (337)
                           .+....-..=+..+++-|+. .+-.+-|+.||+|+...                  +-..|...+.+-.-.-|+|
T Consensus       482 -----GHRRTYVGAMPGkiIq~LK~-v~t~NPliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkV  555 (906)
T KOG2004|consen  482 -----GHRRTYVGAMPGKIIQCLKK-VKTENPLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKV  555 (906)
T ss_pred             -----ccceeeeccCChHHHHHHHh-hCCCCceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhhe
Confidence                 11100011111222332222 23456688899987531                  1111111111111111677


Q ss_pred             EEeeCChhHH----hhccCCceeecCCCCHHHHHHHHhHhhC
Q 045709          280 VFTTREFGVC----GQMEAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       280 iiTtr~~~v~----~~~~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      ++.+--..+.    ...+.-..|+|.+...+|-..+-.++..
T Consensus       556 LFicTAN~idtIP~pLlDRMEvIelsGYv~eEKv~IA~~yLi  597 (906)
T KOG2004|consen  556 LFICTANVIDTIPPPLLDRMEVIELSGYVAEEKVKIAERYLI  597 (906)
T ss_pred             EEEEeccccccCChhhhhhhheeeccCccHHHHHHHHHHhhh
Confidence            6543322221    1122346889999988888777766653

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.60  E-value=0.00034  Score=71.35  Aligned_cols=47  Identities=21%  Similarity=0.271  Sum_probs=37.9

Q ss_pred             CCccccchhhHHHHHHHHhc-------C--CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          143 PPTVVGLQLTFDRVWRCLME-------E--HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~-------~--~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...++|.+..+..+...+..       .  +...+.++|++|+|||+||+.+++.+
T Consensus       508 ~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l  563 (821)
T CHL00095        508 HKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYF  563 (821)
T ss_pred             cCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            35689999999999887752       1  23467799999999999999999877

>PRK12377 putative replication protein; Provisional

Probab=97.60  E-value=0.00054  Score=59.38  Aligned_cols=75  Identities=25%  Similarity=0.262  Sum_probs=46.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKI  243 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  243 (337)
                      ....+.++|.+|+|||+||..+++...   .....++++++.      +++..+-.....      ..+..    .+.+.
T Consensus       100 ~~~~l~l~G~~GtGKThLa~AIa~~l~---~~g~~v~~i~~~------~l~~~l~~~~~~------~~~~~----~~l~~  160 (248)
T PRK12377        100 GCTNFVFSGKPGTGKNHLAAAIGNRLL---AKGRSVIVVTVP------DVMSRLHESYDN------GQSGE----KFLQE  160 (248)
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCCeEEEEHH------HHHHHHHHHHhc------cchHH----HHHHH
Confidence            346789999999999999999999883   233335665443      444444443321      11111    22233


Q ss_pred             hcCCcEEEEEecCCC
Q 045709          244 LSKKKFVLLLDDIWE  258 (337)
Q Consensus       244 l~~k~~LlVlDdv~~  258 (337)
                      + .+.-||||||+..
T Consensus       161 l-~~~dLLiIDDlg~  174 (248)
T PRK12377        161 L-CKVDLLVLDEIGI  174 (248)
T ss_pred             h-cCCCEEEEcCCCC
Confidence            3 3566999999943

>PRK09354 recA recombinase A; Provisional

Probab=97.60  E-value=0.00027  Score=63.95  Aligned_cols=87  Identities=17%  Similarity=0.176  Sum_probs=59.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEI  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  240 (337)
                      ..+++-|+|++|+|||||+.+++....   ..-..++|++....++..     .+.+++...+..   ...+.++....+
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~~~---~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~  130 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAEAQ---KAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIA  130 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            567999999999999999999887772   344678899888776652     345555432111   233456666666


Q ss_pred             HHHhc-CCcEEEEEecCCC
Q 045709          241 FKILS-KKKFVLLLDDIWE  258 (337)
Q Consensus       241 ~~~l~-~k~~LlVlDdv~~  258 (337)
                      ...++ +..-++|+|.+-.
T Consensus       131 ~~li~s~~~~lIVIDSvaa  149 (349)
T PRK09354        131 DTLVRSGAVDLIVVDSVAA  149 (349)
T ss_pred             HHHhhcCCCCEEEEeChhh
Confidence            55554 4566999999864

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=97.60  E-value=0.00034  Score=57.01  Aligned_cols=127  Identities=14%  Similarity=0.141  Sum_probs=67.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCC-----cEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHF-----DFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKA  237 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f-----~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  237 (337)
                      .+..+++|+|.+|+|||||++.+........+..     ..+.++.-........+...+...   .   ....+..+..
T Consensus        25 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl~~~---~---~~~LS~G~~~   98 (166)
T cd03223          25 KPGDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFLPQRPYLPLGTLREQLIYP---W---DDVLSGGEQQ   98 (166)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEECCCCccccccHHHHhhcc---C---CCCCCHHHHH
Confidence            3567999999999999999999988652111111     112222211111111233332210   1   1334443333


Q ss_pred             -HHHHHHhcCCcEEEEEecCCCcccc---ccccCCCCCCCCCCcEEEEeeCChhHHhhccCCceeec
Q 045709          238 -QEIFKILSKKKFVLLLDDIWELVDL---DQVGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKV  300 (337)
Q Consensus       238 -~~l~~~l~~k~~LlVlDdv~~~~~~---~~l~~~l~~~~~g~s~IiiTtr~~~v~~~~~~~~~~~l  300 (337)
                       -.+...+..++-++++|+.-+..+.   ..+...+...  + ..||++|++......  +++++.+
T Consensus        99 rv~laral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~-~tiiivsh~~~~~~~--~d~i~~l  160 (166)
T cd03223          99 RLAFARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--G-ITVISVGHRPSLWKF--HDRVLDL  160 (166)
T ss_pred             HHHHHHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--C-CEEEEEeCChhHHhh--CCEEEEE
Confidence             3355666678889999987654332   1221222221  4 578888888766532  4455544

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=97.59  E-value=0.00032  Score=60.61  Aligned_cols=129  Identities=22%  Similarity=0.288  Sum_probs=74.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--C--------------cEEEEEEe----------------cC----
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--F--------------DFVIWVVV----------------SR----  206 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f--------------~~~~wv~~----------------~~----  206 (337)
                      .+..+++|+|++|+|||||.+.++.-.....+.  .              ....|+.-                ++    
T Consensus        26 ~~G~i~~iiGpNG~GKSTLLk~l~g~l~p~~G~V~l~g~~i~~~~~kelAk~ia~vpQ~~~~~~~~tV~d~V~~GR~p~~  105 (258)
T COG1120          26 PKGEITGILGPNGSGKSTLLKCLAGLLKPKSGEVLLDGKDIASLSPKELAKKLAYVPQSPSAPFGLTVYELVLLGRYPHL  105 (258)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhccCCCCCCEEEECCCchhhcCHHHHhhhEEEeccCCCCCCCcEEeehHhhcCCccc
Confidence            357899999999999999999997744100000  0              01222210                10    


Q ss_pred             ----ccC--HHHHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc------cccCCCC
Q 045709          207 ----DLQ--LEKIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD------QVGLPIP  270 (337)
Q Consensus       207 ----~~~--~~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~------~l~~~l~  270 (337)
                          ..+  -.+...+.++.++...   ..+...+..+.+.. +...|..+.=+|+||+--+..|..      ++...+.
T Consensus       106 ~~~~~~~~~D~~~v~~aL~~~~~~~la~r~~~~LSGGerQrv~iArALaQ~~~iLLLDEPTs~LDi~~Q~evl~ll~~l~  185 (258)
T COG1120         106 GLFGRPSKEDEEIVEEALELLGLEHLADRPVDELSGGERQRVLIARALAQETPILLLDEPTSHLDIAHQIEVLELLRDLN  185 (258)
T ss_pred             ccccCCCHhHHHHHHHHHHHhCcHHHhcCcccccChhHHHHHHHHHHHhcCCCEEEeCCCccccCHHHHHHHHHHHHHHH
Confidence                001  1223444555555432   22345565555554 667788888999999876543321      1111121


Q ss_pred             CCCCCCcEEEEeeCChhHHhhcc
Q 045709          271 SRTSVSNKVVFTTREFGVCGQME  293 (337)
Q Consensus       271 ~~~~g~s~IiiTtr~~~v~~~~~  293 (337)
                       ...| ..||+++++-+.+..+.
T Consensus       186 -~~~~-~tvv~vlHDlN~A~rya  206 (258)
T COG1120         186 -REKG-LTVVMVLHDLNLAARYA  206 (258)
T ss_pred             -HhcC-CEEEEEecCHHHHHHhC
Confidence             1245 78999999999887653

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.58  E-value=0.00028  Score=71.83  Aligned_cols=47  Identities=21%  Similarity=0.321  Sum_probs=38.5

Q ss_pred             CCccccchhhHHHHHHHHhc-------C--CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          143 PPTVVGLQLTFDRVWRCLME-------E--HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~-------~--~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...++|.+..++.+.+.+..       +  +..++.++|++|+|||.||+.+....
T Consensus       565 ~~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l  620 (852)
T TIGR03345       565 AERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELL  620 (852)
T ss_pred             cCeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            35689999999999888742       1  34578999999999999999998877

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.

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=97.58  E-value=0.0013  Score=60.53  Aligned_cols=161  Identities=14%  Similarity=0.282  Sum_probs=97.8

Q ss_pred             chhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHH-HHHHHhhccCCCCCcEEEEEEecCc---cCHHHHHHHHHHHhCCC
Q 045709          149 LQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLL-TQINNRFFDTPNHFDFVIWVVVSRD---LQLEKIQESIAKKIGLF  224 (337)
Q Consensus       149 r~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~~f~~~~wv~~~~~---~~~~~~~~~i~~~l~~~  224 (337)
                      |.+..++|..||.......|.|.|+-|+||+.|+ .++.++.   .+    +..++|.+-   .+-..++..++.++|..
T Consensus         1 R~e~~~~L~~wL~e~~~TFIvV~GPrGSGK~elV~d~~L~~r---~~----vL~IDC~~i~~ar~D~~~I~~lA~qvGY~   73 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENPNTFIVVQGPRGSGKRELVMDHVLKDR---KN----VLVIDCDQIVKARGDAAFIKNLASQVGYF   73 (431)
T ss_pred             CchHHHHHHHHHhcCCCeEEEEECCCCCCccHHHHHHHHhCC---CC----EEEEEChHhhhccChHHHHHHHHHhcCCC
Confidence            5677899999999988899999999999999999 7776654   11    666665432   23344555555555432


Q ss_pred             C-----------------------ccccCCCHHHHHHHHHH----Hhc--------------------------CCcEEE
Q 045709          225 N-----------------------ESWKNKSMQEKAQEIFK----ILS--------------------------KKKFVL  251 (337)
Q Consensus       225 ~-----------------------~~~~~~~~~~~~~~l~~----~l~--------------------------~k~~Ll  251 (337)
                      +                       ..+ +.+.+.....+..    .|+                          ..+-++
T Consensus        74 PvFsw~nSiss~IDLa~qGltGqKaGf-Ses~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe~~PVV  152 (431)
T PF10443_consen   74 PVFSWMNSISSFIDLAVQGLTGQKAGF-SESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPERRPVV  152 (431)
T ss_pred             cchHHHHHHHHHHHHHHhhccccccCC-CCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCccCCEE
Confidence            1                       111 1222222211111    110                          125689


Q ss_pred             EEecCCCccc-----cccc---cCCCCCCCCCCcEEEEeeCChhHHh----hcc--CCceeecCCCCHHHHHHHHhHhhC
Q 045709          252 LLDDIWELVD-----LDQV---GLPIPSRTSVSNKVVFTTREFGVCG----QME--AHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       252 VlDdv~~~~~-----~~~l---~~~l~~~~~g~s~IiiTtr~~~v~~----~~~--~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      ||||+.....     |+.+   ...+-. .+- .+||++|-+.....    .+.  ..+.+.|.-.+++.|..+...+..
T Consensus       153 VIdnF~~k~~~~~~iy~~laeWAa~Lv~-~nI-AHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~L~  230 (431)
T PF10443_consen  153 VIDNFLHKAEENDFIYDKLAEWAASLVQ-NNI-AHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQLD  230 (431)
T ss_pred             EEcchhccCcccchHHHHHHHHHHHHHh-cCc-cEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHHhc
Confidence            9999865422     1111   111222 234 68999887755433    332  346789999999999999999986


Q ss_pred             CC
Q 045709          318 AD  319 (337)
Q Consensus       318 ~~  319 (337)
                      ..
T Consensus       231 ~~  232 (431)
T PF10443_consen  231 ED  232 (431)
T ss_pred             cc
Confidence            53

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=97.58  E-value=0.00043  Score=60.52  Aligned_cols=94  Identities=23%  Similarity=0.278  Sum_probs=59.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhcc---CCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCcc-------ccCCCH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFD---TPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNES-------WKNKSM  233 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~  233 (337)
                      ...+.=|+|.+|+|||+|+..++-....   ..+.-..++|++-...++..++. +|++..+...+.       ....+.
T Consensus        37 ~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~~  115 (256)
T PF08423_consen   37 TGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFDL  115 (256)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SSH
T ss_pred             CCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCCH
Confidence            5679999999999999999988765411   11234579999999988887765 567665432211       012334


Q ss_pred             HHHHHH---HHHHh-cCCcEEEEEecCCC
Q 045709          234 QEKAQE---IFKIL-SKKKFVLLLDDIWE  258 (337)
Q Consensus       234 ~~~~~~---l~~~l-~~k~~LlVlDdv~~  258 (337)
                      .++...   +...+ ..+--|||+|.+-.
T Consensus       116 ~~l~~~L~~l~~~l~~~~ikLIVIDSIaa  144 (256)
T PF08423_consen  116 EELLELLEQLPKLLSESKIKLIVIDSIAA  144 (256)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETSSH
T ss_pred             HHHHHHHHHHHhhccccceEEEEecchHH
Confidence            444333   33334 34556999999853

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>COG3903 Predicted ATPase [General function prediction only]

Probab=97.58  E-value=1.8e-05  Score=71.70  Aligned_cols=141  Identities=22%  Similarity=0.271  Sum_probs=96.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCC-cEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHF-DFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFK  242 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f-~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  242 (337)
                      ..+.+.++|.|||||||++-.+.+ .   ...| +.+.++...+..+...+.-.+...++.+.     .+.+.....+..
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~---~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~-----~~g~~~~~~~~~   83 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-A---ASEYADGVAFVDLAPITDPALVFPTLAGALGLHV-----QPGDSAVDTLVR   83 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-H---hhhcccceeeeeccccCchhHhHHHHHhhccccc-----ccchHHHHHHHH
Confidence            468899999999999999999988 4   3444 46667777777777777766666676643     233445556777


Q ss_pred             HhcCCcEEEEEecCCCccc-cccccCCCCCCCCCCcEEEEeeCChhHHhhccCCceeecCCCCHH-HHHHHHhHhhC
Q 045709          243 ILSKKKFVLLLDDIWELVD-LDQVGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKVECLRYD-DAWKLFEQKVG  317 (337)
Q Consensus       243 ~l~~k~~LlVlDdv~~~~~-~~~l~~~l~~~~~g~s~IiiTtr~~~v~~~~~~~~~~~l~~L~~~-ea~~Lf~~~~~  317 (337)
                      ...+++.++|+||.....+ -..+.-.+-.+... -.|+.|+|......   ...+..+++|+.. ++.++|...+.
T Consensus        84 ~~~~rr~llvldncehl~~~~a~~i~all~~~~~-~~~~atsre~~l~~---ge~~~~~~~L~~~d~a~~lf~~ra~  156 (414)
T COG3903          84 RIGDRRALLVLDNCEHLLDACAALIVALLGACPR-LAILATSREAILVA---GEVHRRVPSLSLFDEAIELFVCRAV  156 (414)
T ss_pred             HHhhhhHHHHhcCcHHHHHHHHHHHHHHHccchh-hhhHHHhHhhhccc---ccccccCCccccCCchhHHHHHHHH
Confidence            7888999999999976532 11111112222333 57888888554332   3456778888875 79999988763

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.56  E-value=9.2e-05  Score=62.19  Aligned_cols=111  Identities=15%  Similarity=0.152  Sum_probs=62.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC-ccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR-DLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL  244 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  244 (337)
                      +++.|+|++|+||||++..+....   .......++.--.+ ...... ...+..+-.      ...+.....+.++..+
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~---~~~~~~~i~t~e~~~E~~~~~-~~~~i~q~~------vg~~~~~~~~~i~~aL   71 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYI---NKNKTHHILTIEDPIEFVHES-KRSLINQRE------VGLDTLSFENALKAAL   71 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh---hhcCCcEEEEEcCCccccccC-ccceeeecc------cCCCccCHHHHHHHHh
Confidence            578999999999999999888776   22333333332111 100000 000111100      0111223445577777


Q ss_pred             cCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHHh
Q 045709          245 SKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG  290 (337)
Q Consensus       245 ~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~  290 (337)
                      ...+=++++|++.+.+.+......   ...| ..++.|++..++..
T Consensus        72 r~~pd~ii~gEird~e~~~~~l~~---a~~G-~~v~~t~Ha~~~~~  113 (198)
T cd01131          72 RQDPDVILVGEMRDLETIRLALTA---AETG-HLVMSTLHTNSAAK  113 (198)
T ss_pred             cCCcCEEEEcCCCCHHHHHHHHHH---HHcC-CEEEEEecCCcHHH
Confidence            777889999999776655443222   1245 56888888766544

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.56  E-value=7.7e-05  Score=57.19  Aligned_cols=23  Identities=30%  Similarity=0.570  Sum_probs=21.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +|.|.|++|+||||+|+.+.+.+
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999876

...

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.55  E-value=0.00075  Score=60.70  Aligned_cols=94  Identities=16%  Similarity=0.193  Sum_probs=60.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccC---CCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc-------cCCCH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDT---PNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW-------KNKSM  233 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-------~~~~~  233 (337)
                      ...++-|+|.+|+|||+|+.+++-.....   ...-..++|++....+++.++. ++++.++...+..       ...+.
T Consensus        95 ~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~-~~a~~~g~d~~~~l~~i~~~~~~~~  173 (313)
T TIGR02238        95 SMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIR-AIAERFGVDPDAVLDNILYARAYTS  173 (313)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHH-HHHHHcCCChHHhcCcEEEecCCCH
Confidence            56889999999999999998876543110   1223478999999888888765 4666666532211       12234


Q ss_pred             HHHH---HHHHHHhc-CCcEEEEEecCCC
Q 045709          234 QEKA---QEIFKILS-KKKFVLLLDDIWE  258 (337)
Q Consensus       234 ~~~~---~~l~~~l~-~k~~LlVlDdv~~  258 (337)
                      ++..   ..+...+. ++--|||+|.+-.
T Consensus       174 e~~~~~l~~l~~~i~~~~~~LvVIDSisa  202 (313)
T TIGR02238       174 EHQMELLDYLAAKFSEEPFRLLIVDSIMA  202 (313)
T ss_pred             HHHHHHHHHHHHHhhccCCCEEEEEcchH
Confidence            4333   33333443 3556899999863

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=97.55  E-value=0.00028  Score=57.91  Aligned_cols=121  Identities=21%  Similarity=0.236  Sum_probs=64.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCC-c--cccC--------C
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFN-E--SWKN--------K  231 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~-~--~~~~--------~  231 (337)
                      .+..+++|+|.+|+|||||++.++...    ......+++.-.......   ..+...++.-. .  -+..        .
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~~----~~~~G~i~~~g~~~~~~~---~~~~~~i~~~~q~~~~~~~~tv~~~~~L   96 (173)
T cd03230          24 EKGEIYGLLGPNGAGKTTLIKIILGLL----KPDSGEIKVLGKDIKKEP---EEVKRRIGYLPEEPSLYENLTVRENLKL   96 (173)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCC----CCCCeEEEECCEEcccch---HhhhccEEEEecCCccccCCcHHHHhhc
Confidence            356799999999999999999998765    123344443221110000   11111111100 0  0011        2


Q ss_pred             CHHHHHH-HHHHHhcCCcEEEEEecCCCccccc---cccCCCCC-CCCCCcEEEEeeCChhHHhh
Q 045709          232 SMQEKAQ-EIFKILSKKKFVLLLDDIWELVDLD---QVGLPIPS-RTSVSNKVVFTTREFGVCGQ  291 (337)
Q Consensus       232 ~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~-~~~g~s~IiiTtr~~~v~~~  291 (337)
                      +..+..+ .+...+..++-++++|+.-...+..   .+...+.. ...| ..||++|++......
T Consensus        97 S~G~~qrv~laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g-~tiii~th~~~~~~~  160 (173)
T cd03230          97 SGGMKQRLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKEG-KTILLSSHILEEAER  160 (173)
T ss_pred             CHHHHHHHHHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCC-CEEEEECCCHHHHHH
Confidence            3333333 3566777888999999986653321   11111211 1135 689999998776553

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=97.55  E-value=0.00067  Score=61.44  Aligned_cols=44  Identities=27%  Similarity=0.329  Sum_probs=36.1

Q ss_pred             cccchhhHHHHHHHHhc-CCCe-EEEEEecCCCcHHHHHHHHHHhh
Q 045709          146 VVGLQLTFDRVWRCLME-EHAG-IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       146 ~vGr~~~~~~l~~~L~~-~~~~-vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++|-+.....+..+... .+.+ .+.++|++|+||||+|..+.+..
T Consensus         3 ~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l   48 (325)
T COG0470           3 LVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKEL   48 (325)
T ss_pred             cccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHH
Confidence            56777788888888774 3344 49999999999999999999887

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=97.53  E-value=0.00059  Score=59.51  Aligned_cols=75  Identities=24%  Similarity=0.284  Sum_probs=48.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKI  243 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  243 (337)
                      +..-+.++|.+|+|||.||..+.+...   ..--.+.++      +..+++.++.......          .....|...
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~---~~g~sv~f~------~~~el~~~Lk~~~~~~----------~~~~~l~~~  164 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELL---KAGISVLFI------TAPDLLSKLKAAFDEG----------RLEEKLLRE  164 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHH---HcCCeEEEE------EHHHHHHHHHHHHhcC----------chHHHHHHH
Confidence            677899999999999999999999983   222345555      3455666666555321          112223332


Q ss_pred             hcCCcEEEEEecCCC
Q 045709          244 LSKKKFVLLLDDIWE  258 (337)
Q Consensus       244 l~~k~~LlVlDdv~~  258 (337)
                      + .+-=||||||+-.
T Consensus       165 l-~~~dlLIiDDlG~  178 (254)
T COG1484         165 L-KKVDLLIIDDIGY  178 (254)
T ss_pred             h-hcCCEEEEecccC
Confidence            2 2334999999865

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=97.52  E-value=0.00084  Score=66.51  Aligned_cols=143  Identities=15%  Similarity=0.100  Sum_probs=76.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhc
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILS  245 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  245 (337)
                      +-+.++|++|+|||++|+.+.+..   ..+|   +.++.+      .+.    ...       ...........+.....
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~---~~~f---~~is~~------~~~----~~~-------~g~~~~~~~~~f~~a~~  242 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEA---KVPF---FTISGS------DFV----EMF-------VGVGASRVRDMFEQAKK  242 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHc---CCCE---EEEehH------HhH----Hhh-------hcccHHHHHHHHHHHHh
Confidence            448999999999999999998876   3333   122221      111    111       11111222223333334


Q ss_pred             CCcEEEEEecCCCccc----------------cccccCCCCC--CCCCCcEEEEeeCChhHHhh-c----cCCceeecCC
Q 045709          246 KKKFVLLLDDIWELVD----------------LDQVGLPIPS--RTSVSNKVVFTTREFGVCGQ-M----EAHRSFKVEC  302 (337)
Q Consensus       246 ~k~~LlVlDdv~~~~~----------------~~~l~~~l~~--~~~g~s~IiiTtr~~~v~~~-~----~~~~~~~l~~  302 (337)
                      ..+++|+||+++....                +..+...+..  ...+ .-+|.||...+.... +    ..+..+.++.
T Consensus       243 ~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~-vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~  321 (644)
T PRK10733        243 AAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEG-IIVIAATNRPDVLDPALLRPGRFDRQVVVGL  321 (644)
T ss_pred             cCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCC-eeEEEecCChhhcCHHHhCCcccceEEEcCC
Confidence            5789999999975411                1111111111  1223 344556666554221 1    1246778888


Q ss_pred             CCHHHHHHHHhHhhCCCCCCCCCChHHHHH
Q 045709          303 LRYDDAWKLFEQKVGADTLDSHPDIPELAE  332 (337)
Q Consensus       303 L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~  332 (337)
                      .+.++-.++|..+........+.++..+++
T Consensus       322 Pd~~~R~~Il~~~~~~~~l~~~~d~~~la~  351 (644)
T PRK10733        322 PDVRGREQILKVHMRRVPLAPDIDAAIIAR  351 (644)
T ss_pred             CCHHHHHHHHHHHhhcCCCCCcCCHHHHHh
Confidence            888888888888775433223334444443

>smart00763 AAA_PrkA PrkA AAA domain

Probab=97.51  E-value=0.0002  Score=64.88  Aligned_cols=45  Identities=22%  Similarity=0.367  Sum_probs=40.2

Q ss_pred             ccccchhhHHHHHHHHhc------CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          145 TVVGLQLTFDRVWRCLME------EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +++|.++.++++++++..      ...+++.++|++|+||||||..+.+.+
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l  102 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGL  102 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999864      246899999999999999999998887

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PRK06921 hypothetical protein; Provisional

Probab=97.50  E-value=0.00027  Score=62.13  Aligned_cols=39  Identities=28%  Similarity=0.363  Sum_probs=29.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEe
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVV  204 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~  204 (337)
                      ....+.++|.+|+|||+|+..+++...  ......++|++.
T Consensus       116 ~~~~l~l~G~~G~GKThLa~aia~~l~--~~~g~~v~y~~~  154 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLLTAAANELM--RKKGVPVLYFPF  154 (266)
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHh--hhcCceEEEEEH
Confidence            457789999999999999999999872  221344566654

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

Probab=97.50  E-value=0.0024  Score=60.82  Aligned_cols=146  Identities=18%  Similarity=0.182  Sum_probs=84.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKI  243 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  243 (337)
                      ...-|.++|++|+|||-||+.++|..   ..+|-     ++..+    +++..-           -..+.....+.+.+.
T Consensus       544 ~PsGvLL~GPPGCGKTLlAKAVANEa---g~NFi-----sVKGP----ELlNkY-----------VGESErAVR~vFqRA  600 (802)
T KOG0733|consen  544 APSGVLLCGPPGCGKTLLAKAVANEA---GANFI-----SVKGP----ELLNKY-----------VGESERAVRQVFQRA  600 (802)
T ss_pred             CCCceEEeCCCCccHHHHHHHHhhhc---cCceE-----eecCH----HHHHHH-----------hhhHHHHHHHHHHHh
Confidence            35568899999999999999999987   45553     33322    222211           122222333334444


Q ss_pred             hcCCcEEEEEecCCCccc-------------cccccCCCCCC--CCCCcEEEEeeCChhHHh-h-cc---CCceeecCCC
Q 045709          244 LSKKKFVLLLDDIWELVD-------------LDQVGLPIPSR--TSVSNKVVFTTREFGVCG-Q-ME---AHRSFKVECL  303 (337)
Q Consensus       244 l~~k~~LlVlDdv~~~~~-------------~~~l~~~l~~~--~~g~s~IiiTtr~~~v~~-~-~~---~~~~~~l~~L  303 (337)
                      -..-+|+|.||+++....             ..++..-+...  ..| --||-.|...++.. . +.   -+...-++.-
T Consensus       601 R~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~g-V~viaATNRPDiIDpAiLRPGRlDk~LyV~lP  679 (802)
T KOG0733|consen  601 RASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRG-VYVIAATNRPDIIDPAILRPGRLDKLLYVGLP  679 (802)
T ss_pred             hcCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccc-eEEEeecCCCcccchhhcCCCccCceeeecCC
Confidence            456799999999985411             22332222211  223 44554554444421 1 22   2356677888


Q ss_pred             CHHHHHHHHhHhhCCC--CCCCCCChHHHHHH
Q 045709          304 RYDDAWKLFEQKVGAD--TLDSHPDIPELAET  333 (337)
Q Consensus       304 ~~~ea~~Lf~~~~~~~--~~~~~~~l~~i~~~  333 (337)
                      +.+|-..+++......  -...+-++.+||..
T Consensus       680 n~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~  711 (802)
T KOG0733|consen  680 NAEERVAILKTITKNTKPPLSSDVDLDEIARN  711 (802)
T ss_pred             CHHHHHHHHHHHhccCCCCCCcccCHHHHhhc
Confidence            8899999999888732  23445567777753

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.50  E-value=0.03  Score=50.29  Aligned_cols=116  Identities=24%  Similarity=0.173  Sum_probs=65.9

Q ss_pred             cchhhHHHHHHHHhc----CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCC
Q 045709          148 GLQLTFDRVWRCLME----EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGL  223 (337)
Q Consensus       148 Gr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  223 (337)
                      ++.........++.+    ...+-+.|+|..|+|||.||..+++...  ...+ .+.++++      ..++..+......
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~--~~g~-~v~~~~~------~~l~~~lk~~~~~  205 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELA--KKGV-SSTLLHF------PEFIRELKNSISD  205 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHH--HcCC-CEEEEEH------HHHHHHHHHHHhc
Confidence            444444444555542    1356789999999999999999999983  2233 3455544      3455555554421


Q ss_pred             CCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCc--ccccc--ccCCC-CCC-CCCCcEEEEeeCC
Q 045709          224 FNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWEL--VDLDQ--VGLPI-PSR-TSVSNKVVFTTRE  285 (337)
Q Consensus       224 ~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~--l~~~l-~~~-~~g~s~IiiTtr~  285 (337)
                             .+..+    ..+.+ .+.=||||||+...  ..|..  +...+ ... ..+ ..+|+||.-
T Consensus       206 -------~~~~~----~l~~l-~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~-~~ti~TSNl  260 (306)
T PRK08939        206 -------GSVKE----KIDAV-KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEE-LPTFFTSNF  260 (306)
T ss_pred             -------CcHHH----HHHHh-cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCC-CeEEEECCC
Confidence                   11222    22223 34569999999643  44542  32222 211 233 578888874

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=97.48  E-value=0.00049  Score=56.34  Aligned_cols=127  Identities=19%  Similarity=0.181  Sum_probs=66.4

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc--cCHHHHHHHHHHHhCCCC--ccccC-------C
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD--LQLEKIQESIAKKIGLFN--ESWKN-------K  231 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~--~~~~~-------~  231 (337)
                      ....+++|+|.+|+|||||.+.++....    .....+++.-...  .....    ....++.-.  .....       .
T Consensus        26 ~~G~~~~l~G~nGsGKstLl~~i~G~~~----~~~G~i~~~g~~~~~~~~~~----~~~~i~~~~~~~~~~~~t~~e~lL   97 (171)
T cd03228          26 KPGEKVAIVGPSGSGKSTLLKLLLRLYD----PTSGEILIDGVDLRDLDLES----LRKNIAYVPQDPFLFSGTIRENIL   97 (171)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcCCC----CCCCEEEECCEEhhhcCHHH----HHhhEEEEcCCchhccchHHHHhh
Confidence            3578999999999999999999988652    2233333321110  01111    111111100  00000       2


Q ss_pred             CHHHHHH-HHHHHhcCCcEEEEEecCCCcccc---ccccCCCCCCCCCCcEEEEeeCChhHHhhccCCceeec
Q 045709          232 SMQEKAQ-EIFKILSKKKFVLLLDDIWELVDL---DQVGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKV  300 (337)
Q Consensus       232 ~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~~---~~l~~~l~~~~~g~s~IiiTtr~~~v~~~~~~~~~~~l  300 (337)
                      +..+..+ .+...+..++-+|+||+.....+.   ..+...+.....+ ..||++|++......  +++.+.+
T Consensus        98 S~G~~~rl~la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~-~tii~~sh~~~~~~~--~d~~~~l  167 (171)
T cd03228          98 SGGQRQRIAIARALLRDPPILILDEATSALDPETEALILEALRALAKG-KTVIVIAHRLSTIRD--ADRIIVL  167 (171)
T ss_pred             CHHHHHHHHHHHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHhcCC-CEEEEEecCHHHHHh--CCEEEEE
Confidence            2222222 255566678889999998654331   2221212111235 688999998776653  4455544

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

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

Probab=97.48  E-value=0.0003  Score=61.84  Aligned_cols=132  Identities=16%  Similarity=0.229  Sum_probs=77.9

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccC--CCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDT--PNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFK  242 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~--~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  242 (337)
                      .++|.++|+||.|||+|++.+++.. .+  .+.|....-+.+..    ..++.+....        .++....+.+++.+
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkL-SIR~~~~y~~~~liEins----hsLFSKWFsE--------SgKlV~kmF~kI~E  243 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKL-SIRTNDRYYKGQLIEINS----HSLFSKWFSE--------SGKLVAKMFQKIQE  243 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhh-eeeecCccccceEEEEeh----hHHHHHHHhh--------hhhHHHHHHHHHHH
Confidence            5789999999999999999999987 32  33444444444332    2333322221        33456677888888


Q ss_pred             HhcCCcE--EEEEecCCCcc------------------------ccccccCCCCCCCCCCcEEEEeeCChh----HHhhc
Q 045709          243 ILSKKKF--VLLLDDIWELV------------------------DLDQVGLPIPSRTSVSNKVVFTTREFG----VCGQM  292 (337)
Q Consensus       243 ~l~~k~~--LlVlDdv~~~~------------------------~~~~l~~~l~~~~~g~s~IiiTtr~~~----v~~~~  292 (337)
                      .+.++..  ++.+|+|++..                        +++.+..      .. .-+|+||.+-.    +|---
T Consensus       244 Lv~d~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~------~~-NvliL~TSNl~~siD~AfVD  316 (423)
T KOG0744|consen  244 LVEDRGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKR------YP-NVLILATSNLTDSIDVAFVD  316 (423)
T ss_pred             HHhCCCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhcc------CC-CEEEEeccchHHHHHHHhhh
Confidence            8876654  45579997531                        1222211      12 35667776522    22211


Q ss_pred             cCCceeecCCCCHHHHHHHHhHhh
Q 045709          293 EAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       293 ~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      .++-...+.+-+.+--.++++.+.
T Consensus       317 RADi~~yVG~Pt~~ai~~Ilksci  340 (423)
T KOG0744|consen  317 RADIVFYVGPPTAEAIYEILKSCI  340 (423)
T ss_pred             HhhheeecCCccHHHHHHHHHHHH
Confidence            233455677777777777776653

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.47  E-value=0.0017  Score=58.88  Aligned_cols=142  Identities=9%  Similarity=0.050  Sum_probs=72.9

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCC-----Cccc-cCCCHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLF-----NESW-KNKSMQEKAQ  238 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~-----~~~~-~~~~~~~~~~  238 (337)
                      .+.+.++|+.|+|||++|..++....- ......       .........+.+...-...     .... .....++. +
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC-~~~~~~-------~~Cg~C~sC~~~~~g~HPD~~~i~~~~~~~~i~id~i-R   92 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLC-EAPQGG-------GACGSCKGCQLLRAGSHPDNFVLEPEEADKTIKVDQV-R   92 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcC-CCCCCC-------CCCCCCHHHHHHhcCCCCCEEEEeccCCCCCCCHHHH-H
Confidence            567889999999999999999887731 111000       0001111111111100000     0000 01122222 2


Q ss_pred             HHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCChh-HHhhc-cCCceeecCCCCHHHHH
Q 045709          239 EIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREFG-VCGQM-EAHRSFKVECLRYDDAW  309 (337)
Q Consensus       239 ~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~~-v~~~~-~~~~~~~l~~L~~~ea~  309 (337)
                      .+.+.+     .+++-++|+|+++...  ....+...+..-..+ +.+|+||.+.+ +...+ +....+.+.+++.+++.
T Consensus        93 ~l~~~~~~~~~~~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~-~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~  171 (328)
T PRK05707         93 ELVSFVVQTAQLGGRKVVLIEPAEAMNRNAANALLKSLEEPSGD-TVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESL  171 (328)
T ss_pred             HHHHHHhhccccCCCeEEEECChhhCCHHHHHHHHHHHhCCCCC-eEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHH
Confidence            233333     2344566789998652  233333333222234 77777777654 33222 23467899999999999


Q ss_pred             HHHhHhh
Q 045709          310 KLFEQKV  316 (337)
Q Consensus       310 ~Lf~~~~  316 (337)
                      +.+....
T Consensus       172 ~~L~~~~  178 (328)
T PRK05707        172 QWLQQAL  178 (328)
T ss_pred             HHHHHhc
Confidence            8887754

>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=97.47  E-value=0.00077  Score=53.50  Aligned_cols=105  Identities=25%  Similarity=0.314  Sum_probs=59.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHH-HHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEK-AQEIF  241 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~-~~~l~  241 (337)
                      ....+++|+|.+|+|||||++.+....    ......+|+.-..             .++.-    ...+..+. .-.+.
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~~----~~~~G~i~~~~~~-------------~i~~~----~~lS~G~~~rv~la   82 (144)
T cd03221          24 NPGDRIGLVGRNGAGKSTLLKLIAGEL----EPDEGIVTWGSTV-------------KIGYF----EQLSGGEKMRLALA   82 (144)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHcCCC----CCCceEEEECCeE-------------EEEEE----ccCCHHHHHHHHHH
Confidence            356799999999999999999997765    2233444442110             00000    00222222 22355


Q ss_pred             HHhcCCcEEEEEecCCCccc---cccccCCCCCCCCCCcEEEEeeCChhHHhh
Q 045709          242 KILSKKKFVLLLDDIWELVD---LDQVGLPIPSRTSVSNKVVFTTREFGVCGQ  291 (337)
Q Consensus       242 ~~l~~k~~LlVlDdv~~~~~---~~~l~~~l~~~~~g~s~IiiTtr~~~v~~~  291 (337)
                      ..+..++-++++|+.-...+   ...+...+...  + ..||++|++.+....
T Consensus        83 ral~~~p~illlDEP~~~LD~~~~~~l~~~l~~~--~-~til~~th~~~~~~~  132 (144)
T cd03221          83 KLLLENPNLLLLDEPTNHLDLESIEALEEALKEY--P-GTVILVSHDRYFLDQ  132 (144)
T ss_pred             HHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHc--C-CEEEEEECCHHHHHH
Confidence            56667788999998865433   22222222221  3 578888888766543

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.

>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=97.46  E-value=0.00029  Score=57.91  Aligned_cols=108  Identities=15%  Similarity=0.119  Sum_probs=58.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHH-HHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEK-AQEIF  241 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~-~~~l~  241 (337)
                      .+..+++|+|.+|+|||||++.+..-..    .....+++....              ++...+. ...+..+. .-.+.
T Consensus        23 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~----p~~G~i~~~g~~--------------i~~~~q~-~~LSgGq~qrv~la   83 (177)
T cd03222          23 KEGEVIGIVGPNGTGKTTAVKILAGQLI----PNGDNDEWDGIT--------------PVYKPQY-IDLSGGELQRVAIA   83 (177)
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCCC----CCCcEEEECCEE--------------EEEEccc-CCCCHHHHHHHHHH
Confidence            4678999999999999999999987651    222223221100              0000000 01333332 22355


Q ss_pred             HHhcCCcEEEEEecCCCccccc---cccCCCCC--CCCCCcEEEEeeCChhHHh
Q 045709          242 KILSKKKFVLLLDDIWELVDLD---QVGLPIPS--RTSVSNKVVFTTREFGVCG  290 (337)
Q Consensus       242 ~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~--~~~g~s~IiiTtr~~~v~~  290 (337)
                      ..+..++-+++||+.-+..+..   .+...+..  ...+ ..||++|++.....
T Consensus        84 ral~~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~~~-~tiiivsH~~~~~~  136 (177)
T cd03222          84 AALLRNATFYLFDEPSAYLDIEQRLNAARAIRRLSEEGK-KTALVVEHDLAVLD  136 (177)
T ss_pred             HHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHHHcCC-CEEEEEECCHHHHH
Confidence            6666778899999976543311   11111111  1123 57888888876544

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.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.46  E-value=0.00027  Score=57.41  Aligned_cols=116  Identities=19%  Similarity=0.200  Sum_probs=63.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc--cCHHHHHHHHHHHhCCCCccccCCCHHHHHH-H
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD--LQLEKIQESIAKKIGLFNESWKNKSMQEKAQ-E  239 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~-~  239 (337)
                      .+..+++|+|.+|+|||||.+.++...    ......+++.-...  .+....   ....++.-    ...+..+..+ .
T Consensus        24 ~~Ge~~~l~G~nGsGKSTLl~~i~G~~----~~~~G~v~~~g~~~~~~~~~~~---~~~~i~~~----~qLS~G~~qrl~   92 (163)
T cd03216          24 RRGEVHALLGENGAGKSTLMKILSGLY----KPDSGEILVDGKEVSFASPRDA---RRAGIAMV----YQLSVGERQMVE   92 (163)
T ss_pred             eCCCEEEEECCCCCCHHHHHHHHhCCC----CCCCeEEEECCEECCcCCHHHH---HhcCeEEE----EecCHHHHHHHH
Confidence            356799999999999999999998765    23344444432111  111111   11111111    1133333332 3


Q ss_pred             HHHHhcCCcEEEEEecCCCcccc---ccccCCCCC-CCCCCcEEEEeeCChhHHh
Q 045709          240 IFKILSKKKFVLLLDDIWELVDL---DQVGLPIPS-RTSVSNKVVFTTREFGVCG  290 (337)
Q Consensus       240 l~~~l~~k~~LlVlDdv~~~~~~---~~l~~~l~~-~~~g~s~IiiTtr~~~v~~  290 (337)
                      +...+-.++-++++|+.-+..+.   ..+...+.. ...+ ..||++|++.....
T Consensus        93 laral~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~-~tiii~sh~~~~~~  146 (163)
T cd03216          93 IARALARNARLLILDEPTAALTPAEVERLFKVIRRLRAQG-VAVIFISHRLDEVF  146 (163)
T ss_pred             HHHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCC-CEEEEEeCCHHHHH
Confidence            55566677889999998654331   122111211 1235 68899999876543

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.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=97.45  E-value=0.002  Score=58.58  Aligned_cols=94  Identities=14%  Similarity=0.155  Sum_probs=60.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhcc---CCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc-------cCCCH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFD---TPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW-------KNKSM  233 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-------~~~~~  233 (337)
                      ...++-|+|.+|+|||+|+.+++-..+.   ..+.-..++|++....+++.++. ++++.++...+..       ...+.
T Consensus       125 ~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~-~ia~~~g~d~~~~l~~I~~~~~~~~  203 (344)
T PLN03187        125 TRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIV-PIAERFGMDADAVLDNIIYARAYTY  203 (344)
T ss_pred             CCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHH-HHHHHcCCChhhhcCeEEEecCCCH
Confidence            5678889999999999999988644311   01223578999999988888865 4666666542111       22344


Q ss_pred             HHHHHH---HHHHhc-CCcEEEEEecCCC
Q 045709          234 QEKAQE---IFKILS-KKKFVLLLDDIWE  258 (337)
Q Consensus       234 ~~~~~~---l~~~l~-~k~~LlVlDdv~~  258 (337)
                      ++....   +...+. .+--|||+|.+-.
T Consensus       204 e~~~~~l~~l~~~i~~~~~~LvVIDSita  232 (344)
T PLN03187        204 EHQYNLLLGLAAKMAEEPFRLLIVDSVIA  232 (344)
T ss_pred             HHHHHHHHHHHHHHHhcCCCEEEEeCcHH
Confidence            443333   333332 3455899999853

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=97.43  E-value=0.00069  Score=65.07  Aligned_cols=68  Identities=15%  Similarity=0.146  Sum_probs=41.5

Q ss_pred             CCCHHH-HHHHHHHHhcCCcEEEEEecCCCcccccc---ccCCCCCCCCCCcEEEEeeCChhHHhhccCCceeecC
Q 045709          230 NKSMQE-KAQEIFKILSKKKFVLLLDDIWELVDLDQ---VGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKVE  301 (337)
Q Consensus       230 ~~~~~~-~~~~l~~~l~~k~~LlVlDdv~~~~~~~~---l~~~l~~~~~g~s~IiiTtr~~~v~~~~~~~~~~~l~  301 (337)
                      ..+..+ ..-.|.+.|-.++=+|+||+--+..+.+.   +...+. ..+|  .+||+|+++.....+. ..+++++
T Consensus       153 ~LSGG~r~Rv~LA~aL~~~pDlLLLDEPTNHLD~~~i~WLe~~L~-~~~g--tviiVSHDR~FLd~V~-t~I~~ld  224 (530)
T COG0488         153 SLSGGWRRRVALARALLEEPDLLLLDEPTNHLDLESIEWLEDYLK-RYPG--TVIVVSHDRYFLDNVA-THILELD  224 (530)
T ss_pred             hcCHHHHHHHHHHHHHhcCCCEEEEcCCCcccCHHHHHHHHHHHH-hCCC--cEEEEeCCHHHHHHHh-hheEEec
Confidence            334333 33446677788899999999877655332   222232 2233  7999999998876652 3344443

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=97.43  E-value=0.00034  Score=57.71  Aligned_cols=131  Identities=23%  Similarity=0.242  Sum_probs=65.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCC--Ccc-ccC---------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLF--NES-WKN---------  230 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~--~~~-~~~---------  230 (337)
                      .+..+++|+|.+|+|||||++.+....    ......+.+.-........-.......++.-  ... +..         
T Consensus        24 ~~G~~~~i~G~nGsGKSTLl~~l~G~~----~~~~G~i~~~g~~~~~~~~~~~~~~~~i~~~~q~~~~~~~~t~~~~l~~   99 (178)
T cd03229          24 EAGEIVALLGPSGSGKSTLLRCIAGLE----EPDSGSILIDGEDLTDLEDELPPLRRRIGMVFQDFALFPHLTVLENIAL   99 (178)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCC----CCCceEEEECCEEccccchhHHHHhhcEEEEecCCccCCCCCHHHheee
Confidence            356799999999999999999998755    2223333332111000000000111111100  000 001         


Q ss_pred             -CCHHHHHH-HHHHHhcCCcEEEEEecCCCcccc------ccccCCCCCCCCCCcEEEEeeCChhHHhhccCCceeec
Q 045709          231 -KSMQEKAQ-EIFKILSKKKFVLLLDDIWELVDL------DQVGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKV  300 (337)
Q Consensus       231 -~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~~------~~l~~~l~~~~~g~s~IiiTtr~~~v~~~~~~~~~~~l  300 (337)
                       .+..+..+ .+...+..++-++++|+.-...+.      .++...+.. ..+ ..||++|++.+....+ .++.+.+
T Consensus       100 ~lS~G~~qr~~la~al~~~p~llilDEP~~~LD~~~~~~l~~~l~~~~~-~~~-~tiii~sH~~~~~~~~-~d~i~~l  174 (178)
T cd03229         100 GLSGGQQQRVALARALAMDPDVLLLDEPTSALDPITRREVRALLKSLQA-QLG-ITVVLVTHDLDEAARL-ADRVVVL  174 (178)
T ss_pred             cCCHHHHHHHHHHHHHHCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHH-hcC-CEEEEEeCCHHHHHHh-cCEEEEE
Confidence             22223222 355666778889999987654331      121111211 124 6889999887765533 2344444

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=97.43  E-value=0.0044  Score=56.16  Aligned_cols=40  Identities=20%  Similarity=0.409  Sum_probs=33.1

Q ss_pred             hhhHHHHHHHHhc---CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          150 QLTFDRVWRCLME---EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       150 ~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +...+.|.+.+.+   ....+|+|.|.=|+||||+.+.+.+..
T Consensus         2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L   44 (325)
T PF07693_consen    2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEEL   44 (325)
T ss_pred             hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4455667777765   367899999999999999999999988

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.43  E-value=0.00046  Score=66.78  Aligned_cols=73  Identities=25%  Similarity=0.328  Sum_probs=55.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKI  243 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  243 (337)
                      ..+++.++|++|.||||||+.++++.     .| .++=+++|+.-+...+-..|...+....                 .
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqa-----GY-sVvEINASDeRt~~~v~~kI~~avq~~s-----------------~  381 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQA-----GY-SVVEINASDERTAPMVKEKIENAVQNHS-----------------V  381 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhc-----Cc-eEEEecccccccHHHHHHHHHHHHhhcc-----------------c
Confidence            45789999999999999999998875     23 3667888888777777777766654322                 1


Q ss_pred             h--cCCcEEEEEecCCCc
Q 045709          244 L--SKKKFVLLLDDIWEL  259 (337)
Q Consensus       244 l--~~k~~LlVlDdv~~~  259 (337)
                      +  .+++..||+|+++..
T Consensus       382 l~adsrP~CLViDEIDGa  399 (877)
T KOG1969|consen  382 LDADSRPVCLVIDEIDGA  399 (877)
T ss_pred             cccCCCcceEEEecccCC
Confidence            2  267889999999864

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=97.42  E-value=0.001  Score=63.23  Aligned_cols=171  Identities=15%  Similarity=0.134  Sum_probs=95.8

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      ++++|.+.....|.+.+..++ ..-....|+-|+||||+|+.++...- -.+.       ....++........|-..-.
T Consensus        16 ~evvGQe~v~~~L~nal~~~ri~hAYlfsG~RGvGKTt~Ari~AkalN-C~~~-------~~~ePC~~C~~Ck~I~~g~~   87 (515)
T COG2812          16 DDVVGQEHVVKTLSNALENGRIAHAYLFSGPRGVGKTTIARILAKALN-CENG-------PTAEPCGKCISCKEINEGSL   87 (515)
T ss_pred             HHhcccHHHHHHHHHHHHhCcchhhhhhcCCCCcCchhHHHHHHHHhc-CCCC-------CCCCcchhhhhhHhhhcCCc
Confidence            357999999999999987764 45677889999999999999988661 1110       01111122222222222100


Q ss_pred             CCCccc--cCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEE-eeCChhHH-hh
Q 045709          223 LFNESW--KNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVF-TTREFGVC-GQ  291 (337)
Q Consensus       223 ~~~~~~--~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~Iii-Ttr~~~v~-~~  291 (337)
                      ...-.+  .+...-+-.+.|.+..     .++-=+.|+|+|+-.  ..|..+..-+-.-... -..|+ ||-...+. ..
T Consensus        88 ~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~h-V~FIlATTe~~Kip~TI  166 (515)
T COG2812          88 IDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSH-VKFILATTEPQKIPNTI  166 (515)
T ss_pred             ccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccC-eEEEEecCCcCcCchhh
Confidence            000000  0111122233344333     244458999999743  4555554444222223 44454 44444443 22


Q ss_pred             ccCCceeecCCCCHHHHHHHHhHhhCCCCCCC
Q 045709          292 MEAHRSFKVECLRYDDAWKLFEQKVGADTLDS  323 (337)
Q Consensus       292 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~  323 (337)
                      ++....|.+..|+.++-...+...+.......
T Consensus       167 lSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~  198 (515)
T COG2812         167 LSRCQRFDFKRLDLEEIAKHLAAILDKEGINI  198 (515)
T ss_pred             hhccccccccCCCHHHHHHHHHHHHHhcCCcc
Confidence            34457899999999988888888776555333

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.41  E-value=0.00081  Score=58.07  Aligned_cols=125  Identities=17%  Similarity=0.135  Sum_probs=74.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC-----ccCHHHHHHHHHHHhCCCCcc----ccCCCH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR-----DLQLEKIQESIAKKIGLFNES----WKNKSM  233 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~-----~~~~~~~~~~i~~~l~~~~~~----~~~~~~  233 (337)
                      .+..+++|+|.+|+||||+++.+..-.    ..-...++....+     .....+-..+++...+...+.    ....+.
T Consensus        37 ~~ge~~glVGESG~GKSTlgr~i~~L~----~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSG  112 (268)
T COG4608          37 KEGETLGLVGESGCGKSTLGRLILGLE----EPTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSG  112 (268)
T ss_pred             cCCCEEEEEecCCCCHHHHHHHHHcCc----CCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCc
Confidence            367899999999999999999998766    2223333333211     112334455666666654321    133444


Q ss_pred             HHHHHH-HHHHhcCCcEEEEEecCCCcccc---c---cccCCCCCCCCCCcEEEEeeCChhHHhhcc
Q 045709          234 QEKAQE-IFKILSKKKFVLLLDDIWELVDL---D---QVGLPIPSRTSVSNKVVFTTREFGVCGQME  293 (337)
Q Consensus       234 ~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~---~---~l~~~l~~~~~g~s~IiiTtr~~~v~~~~~  293 (337)
                      .++++. +.+.|.-++-|+|.|+.-+..+.   .   .+...+.. ..| -..++.|.+-.+...+.
T Consensus       113 GQrQRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~-~~~-lt~lFIsHDL~vv~~is  177 (268)
T COG4608         113 GQRQRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQE-ELG-LTYLFISHDLSVVRYIS  177 (268)
T ss_pred             hhhhhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHH-HhC-CeEEEEEEEHHhhhhhc
Confidence            555544 66778889999999987665332   1   11111111 124 56777788777766553

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.41  E-value=0.0011  Score=56.12  Aligned_cols=131  Identities=16%  Similarity=0.193  Sum_probs=74.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEe----------------------cCc------c------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVV----------------------SRD------L------  208 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~----------------------~~~------~------  208 (337)
                      .+...++|+|++|+|||||...+..-..    .-...+++..                      -+.      .      
T Consensus        29 ~~Ge~vaI~GpSGSGKSTLLniig~ld~----pt~G~v~i~g~d~~~l~~~~~~~~R~~~iGfvFQ~~nLl~~ltv~ENv  104 (226)
T COG1136          29 EAGEFVAIVGPSGSGKSTLLNLLGGLDK----PTSGEVLINGKDLTKLSEKELAKLRRKKIGFVFQNFNLLPDLTVLENV  104 (226)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcccC----CCCceEEECCEEcCcCCHHHHHHHHHHhEEEECccCCCCCCCCHHHHH
Confidence            3567999999999999999999865331    1111222110                      000      0      


Q ss_pred             ------------CHHHHHHHHHHHhCCCCc----cccCCCHHHHHH-HHHHHhcCCcEEEEEecCCCccc------cccc
Q 045709          209 ------------QLEKIQESIAKKIGLFNE----SWKNKSMQEKAQ-EIFKILSKKKFVLLLDDIWELVD------LDQV  265 (337)
Q Consensus       209 ------------~~~~~~~~i~~~l~~~~~----~~~~~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~------~~~l  265 (337)
                                  ....-...+++.++....    .+...+..+.++ .+.+.|-..+-+|+.|+--...+      .-.+
T Consensus       105 ~lpl~~~~~~~~~~~~~~~~l~~~lgl~~~~~~~~p~eLSGGqqQRVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~l  184 (226)
T COG1136         105 ELPLLIAGKSAGRRKRAAEELLEVLGLEDRLLKKKPSELSGGQQQRVAIARALINNPKIILADEPTGNLDSKTAKEVLEL  184 (226)
T ss_pred             HhHHHHcCCChhHHHHHHHHHHHhcCChhhhccCCchhcCHHHHHHHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHH
Confidence                        123334555566555411    123445444443 47778888899999997643221      1122


Q ss_pred             cCCCCCCCCCCcEEEEeeCChhHHhhccCCceeecC
Q 045709          266 GLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKVE  301 (337)
Q Consensus       266 ~~~l~~~~~g~s~IiiTtr~~~v~~~~~~~~~~~l~  301 (337)
                      ...+ ....| ..||+.|++..++..+  +.+|.+.
T Consensus       185 l~~~-~~~~g-~tii~VTHd~~lA~~~--dr~i~l~  216 (226)
T COG1136         185 LREL-NKERG-KTIIMVTHDPELAKYA--DRVIELK  216 (226)
T ss_pred             HHHH-HHhcC-CEEEEEcCCHHHHHhC--CEEEEEe
Confidence            1111 11235 7999999999999864  4455443

>PRK05541 adenylylsulfate kinase; Provisional

Probab=97.41  E-value=0.00045  Score=56.80  Aligned_cols=36  Identities=25%  Similarity=0.504  Sum_probs=29.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEE
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWV  202 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv  202 (337)
                      +..+|.+.|++|+||||+|+.++..+   ...+...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l---~~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERL---KLKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEE
Confidence            46799999999999999999999988   3445555555

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=97.40  E-value=0.00059  Score=55.97  Aligned_cols=127  Identities=14%  Similarity=0.157  Sum_probs=65.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC--ccCHHHHHHHHHHHhCCCCcc--ccC-------C
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR--DLQLEKIQESIAKKIGLFNES--WKN-------K  231 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~--~~~~~~~~~~i~~~l~~~~~~--~~~-------~  231 (337)
                      ....+++|+|.+|+|||||++.+.....    .....++++-..  .......    ...++.-.+.  ...       .
T Consensus        26 ~~Ge~~~i~G~nGsGKStLl~~l~G~~~----~~~G~i~~~g~~~~~~~~~~~----~~~i~~~~q~~~~~~~tv~~~lL   97 (173)
T cd03246          26 EPGESLAIIGPSGSGKSTLARLILGLLR----PTSGRVRLDGADISQWDPNEL----GDHVGYLPQDDELFSGSIAENIL   97 (173)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhccC----CCCCeEEECCEEcccCCHHHH----HhheEEECCCCccccCcHHHHCc
Confidence            3567999999999999999999987651    222333332111  0111111    1111110000  000       2


Q ss_pred             CHHHHH-HHHHHHhcCCcEEEEEecCCCcccc---ccccCCCCC-CCCCCcEEEEeeCChhHHhhccCCceeec
Q 045709          232 SMQEKA-QEIFKILSKKKFVLLLDDIWELVDL---DQVGLPIPS-RTSVSNKVVFTTREFGVCGQMEAHRSFKV  300 (337)
Q Consensus       232 ~~~~~~-~~l~~~l~~k~~LlVlDdv~~~~~~---~~l~~~l~~-~~~g~s~IiiTtr~~~v~~~~~~~~~~~l  300 (337)
                      +..+.. -.+...+..++-+++||+.....+.   ..+...+.. ...| ..||++|++..... . +++++.+
T Consensus        98 S~G~~qrv~la~al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~-~tii~~sh~~~~~~-~-~d~v~~l  168 (173)
T cd03246          98 SGGQRQRLGLARALYGNPRILVLDEPNSHLDVEGERALNQAIAALKAAG-ATRIVIAHRPETLA-S-ADRILVL  168 (173)
T ss_pred             CHHHHHHHHHHHHHhcCCCEEEEECCccccCHHHHHHHHHHHHHHHhCC-CEEEEEeCCHHHHH-h-CCEEEEE
Confidence            322322 2345556677789999998654331   111111111 1235 78999999887664 2 4455544

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=97.39  E-value=0.0016  Score=52.27  Aligned_cols=39  Identities=26%  Similarity=0.430  Sum_probs=30.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL  208 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~  208 (337)
                      ++.|+|.+|+||||++..+....   ...-..++|++.....
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~---~~~~~~v~~~~~e~~~   39 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI---ATKGGKVVYVDIEEEI   39 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH---HhcCCEEEEEECCcch
Confidence            36799999999999999998887   2345567788776543

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.

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=97.38  E-value=0.0022  Score=57.34  Aligned_cols=126  Identities=21%  Similarity=0.243  Sum_probs=69.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC---C------------cEEEEEEecC----ccCHH-------------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH---F------------DFVIWVVVSR----DLQLE-------------  211 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~---f------------~~~~wv~~~~----~~~~~-------------  211 (337)
                      +..++++.|++|+|||||.+.+........+.   +            ..+.++.-..    ..+..             
T Consensus        30 ~Gei~gllG~NGAGKTTllk~l~gl~~p~~G~i~i~G~~~~~~~~~~~~~igy~~~~~~~~~~lT~~e~l~~~~~l~~~~  109 (293)
T COG1131          30 PGEIFGLLGPNGAGKTTLLKILAGLLKPTSGEILVLGYDVVKEPAKVRRRIGYVPQEPSLYPELTVRENLEFFARLYGLS  109 (293)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCcCCCceEEEEcCEeCccCHHHHHhheEEEccCCCCCccccHHHHHHHHHHHhCCC
Confidence            56799999999999999999998766211110   0            0122322111    11222             


Q ss_pred             -----HHHHHHHHHhCCCC---ccccCCCHHHHHH-HHHHHhcCCcEEEEEecCCCccc-------cccccCCCCCCCCC
Q 045709          212 -----KIQESIAKKIGLFN---ESWKNKSMQEKAQ-EIFKILSKKKFVLLLDDIWELVD-------LDQVGLPIPSRTSV  275 (337)
Q Consensus       212 -----~~~~~i~~~l~~~~---~~~~~~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~-------~~~l~~~l~~~~~g  275 (337)
                           +-...+++.++...   ......+.....+ .+...|-.++=+++||+--+..|       |+-+.. +.. ..+
T Consensus       110 ~~~~~~~~~~~l~~~~L~~~~~~~~~~lS~G~kqrl~ia~aL~~~P~lliLDEPt~GLDp~~~~~~~~~l~~-l~~-~g~  187 (293)
T COG1131         110 KEEAEERIEELLELFGLEDKANKKVRTLSGGMKQRLSIALALLHDPELLILDEPTSGLDPESRREIWELLRE-LAK-EGG  187 (293)
T ss_pred             hhHHHHHHHHHHHHcCCchhhCcchhhcCHHHHHHHHHHHHHhcCCCEEEECCCCcCCCHHHHHHHHHHHHH-HHh-CCC
Confidence                 23445555555543   1123334333333 25566678889999998765432       222222 211 122


Q ss_pred             CcEEEEeeCChhHHhhc
Q 045709          276 SNKVVFTTREFGVCGQM  292 (337)
Q Consensus       276 ~s~IiiTtr~~~v~~~~  292 (337)
                       ..|++||+..+....+
T Consensus       188 -~tvlissH~l~e~~~~  203 (293)
T COG1131         188 -VTILLSTHILEEAEEL  203 (293)
T ss_pred             -cEEEEeCCcHHHHHHh
Confidence             5899999987655443

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.38  E-value=0.0017  Score=56.11  Aligned_cols=89  Identities=15%  Similarity=0.142  Sum_probs=56.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCcc----------------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNES----------------  227 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~----------------  227 (337)
                      ...++.|.|.+|+|||+|+.++....   -..-..++|++...  ++..+.+.+. +++.....                
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~---~~~ge~~lyvs~ee--~~~~i~~~~~-~~g~~~~~~~~~g~l~~~d~~~~~   93 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNG---LQMGEPGIYVALEE--HPVQVRRNMA-QFGWDVRKYEEEGKFAIVDAFTGG   93 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH---HHcCCcEEEEEeeC--CHHHHHHHHH-HhCCCHHHHhhcCCEEEEeccccc
Confidence            67899999999999999999976654   13345678887764  4455555433 22221000                


Q ss_pred             ------------ccCCCHHHHHHHHHHHhcC-CcEEEEEecCCC
Q 045709          228 ------------WKNKSMQEKAQEIFKILSK-KKFVLLLDDIWE  258 (337)
Q Consensus       228 ------------~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~  258 (337)
                                  ....+..+....+.+.+.. +.-++|+|.+..
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSls~  137 (237)
T TIGR03877        94 IGEAAEREKYVVKDPTDVRELIDVLRQAIRDINAKRVVIDSVTT  137 (237)
T ss_pred             cccccccccccccCcccHHHHHHHHHHHHHHhCCCEEEEcChhH
Confidence                        0123556666777766643 445799999865

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

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

Probab=97.38  E-value=0.0027  Score=59.60  Aligned_cols=45  Identities=24%  Similarity=0.301  Sum_probs=35.0

Q ss_pred             ccccch---hhHHHHHHHHhcC--------C-CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          145 TVVGLQ---LTFDRVWRCLMEE--------H-AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       145 ~~vGr~---~~~~~l~~~L~~~--------~-~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++-|-|   .++++|++.|.++        + ++-|.++|++|.|||-||+.++...
T Consensus       305 dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA  361 (752)
T KOG0734|consen  305 DVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA  361 (752)
T ss_pred             cccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc
Confidence            345655   4677788888763        1 4568899999999999999998876

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.36  E-value=0.002  Score=55.62  Aligned_cols=88  Identities=13%  Similarity=0.220  Sum_probs=57.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCcc----------------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNES----------------  227 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~----------------  227 (337)
                      ...++.|+|.+|+|||+|+.++.....   ..-..++|++....  +..+...+ .+++.....                
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~---~~g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~   97 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGAL---KQGKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEG   97 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHHH---hCCCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEeccccc
Confidence            578999999999999999999966542   23457888888653  44555543 333321110                


Q ss_pred             --ccCCCHHHHHHHHHHHhcC-CcEEEEEecCC
Q 045709          228 --WKNKSMQEKAQEIFKILSK-KKFVLLLDDIW  257 (337)
Q Consensus       228 --~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~  257 (337)
                        ....+.+.....+...+.. +.-++|+|.+-
T Consensus        98 ~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         98 FEWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             cccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence              0122345666677776654 56689999876

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.35  E-value=0.0019  Score=56.80  Aligned_cols=128  Identities=15%  Similarity=0.046  Sum_probs=68.3

Q ss_pred             HHHHHHHhc-CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCC-CCccc---
Q 045709          154 DRVWRCLME-EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGL-FNESW---  228 (337)
Q Consensus       154 ~~l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~-~~~~~---  228 (337)
                      +.++..|.. .....++|+|.+|+|||||.+.+.....    .....+++.-..-... +-..++...... +....   
T Consensus        99 ~~~l~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~----~~~G~i~~~g~~v~~~-d~~~ei~~~~~~~~q~~~~~r  173 (270)
T TIGR02858        99 DKLLPYLVRNNRVLNTLIISPPQCGKTTLLRDLARILS----TGISQLGLRGKKVGIV-DERSEIAGCVNGVPQHDVGIR  173 (270)
T ss_pred             HHHHHHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccC----CCCceEEECCEEeecc-hhHHHHHHHhccccccccccc
Confidence            334444433 3457899999999999999999988762    2233333321111000 011233322211 11100   


Q ss_pred             -cCCCHHHHHHHHHHHh-cCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHHh
Q 045709          229 -KNKSMQEKAQEIFKIL-SKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG  290 (337)
Q Consensus       229 -~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~  290 (337)
                       ...+......-+...+ ...+-++++|++-..+.+..+...+.   .| ..||+||++..+..
T Consensus       174 ~~v~~~~~k~~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~~---~G-~~vI~ttH~~~~~~  233 (270)
T TIGR02858       174 TDVLDGCPKAEGMMMLIRSMSPDVIVVDEIGREEDVEALLEALH---AG-VSIIATAHGRDVED  233 (270)
T ss_pred             ccccccchHHHHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHHh---CC-CEEEEEechhHHHH
Confidence             1111111122233333 25788999999977666665544432   46 78999999876643

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.35  E-value=0.0019  Score=55.82  Aligned_cols=76  Identities=20%  Similarity=0.240  Sum_probs=46.5

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL  244 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  244 (337)
                      ...+.++|.+|+|||+|+..+++...   .....+++++      ..+++..+-.....     ...+..    .+.+.+
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~---~~g~~v~~it------~~~l~~~l~~~~~~-----~~~~~~----~~l~~l  160 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELL---LRGKSVLIIT------VADIMSAMKDTFSN-----SETSEE----QLLNDL  160 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEE------HHHHHHHHHHHHhh-----ccccHH----HHHHHh
Confidence            35788999999999999999999883   2234455553      34455444443321     111222    233334


Q ss_pred             cCCcEEEEEecCCCc
Q 045709          245 SKKKFVLLLDDIWEL  259 (337)
Q Consensus       245 ~~k~~LlVlDdv~~~  259 (337)
                      . +.=||||||+...
T Consensus       161 ~-~~dlLvIDDig~~  174 (244)
T PRK07952        161 S-NVDLLVIDEIGVQ  174 (244)
T ss_pred             c-cCCEEEEeCCCCC
Confidence            4 3448899999654

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.35  E-value=0.00097  Score=56.41  Aligned_cols=137  Identities=18%  Similarity=0.151  Sum_probs=71.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--Cc-----------EEEEEEecC----ccCHHH-------------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--FD-----------FVIWVVVSR----DLQLEK-------------  212 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f~-----------~~~wv~~~~----~~~~~~-------------  212 (337)
                      .+..+++|+|.+|+|||||++.+........+.  ++           .+.|+.-..    ..+..+             
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~~~~~~~~~~~~~tv~~~l~~~~~~~~~~~  105 (207)
T PRK13539         26 AAGEALVLTGPNGSGKTTLLRLIAGLLPPAAGTIKLDGGDIDDPDVAEACHYLGHRNAMKPALTVAENLEFWAAFLGGEE  105 (207)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCEeCcchhhHhhcEEecCCCcCCCCCcHHHHHHHHHHhcCCcH
Confidence            357899999999999999999998764211110  00           122221110    011111             


Q ss_pred             -HHHHHHHHhCCCC---ccccCCCHHHHHH-HHHHHhcCCcEEEEEecCCCccc---cccccCCCCC-CCCCCcEEEEee
Q 045709          213 -IQESIAKKIGLFN---ESWKNKSMQEKAQ-EIFKILSKKKFVLLLDDIWELVD---LDQVGLPIPS-RTSVSNKVVFTT  283 (337)
Q Consensus       213 -~~~~i~~~l~~~~---~~~~~~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~---~~~l~~~l~~-~~~g~s~IiiTt  283 (337)
                       -..+++..++...   ......+..+..+ .+...+..++-+|+||+.-+..+   ...+...+.. ...| ..||++|
T Consensus       106 ~~~~~~l~~~~l~~~~~~~~~~LS~G~~qrl~la~al~~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~-~tiii~s  184 (207)
T PRK13539        106 LDIAAALEAVGLAPLAHLPFGYLSAGQKRRVALARLLVSNRPIWILDEPTAALDAAAVALFAELIRAHLAQG-GIVIAAT  184 (207)
T ss_pred             HHHHHHHHHcCCHHHHcCChhhcCHHHHHHHHHHHHHhcCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHCC-CEEEEEe
Confidence             1223333343321   1112233333332 24556667788999998765433   1222222221 1235 7899999


Q ss_pred             CChhHHhhccCCceeecCCC
Q 045709          284 REFGVCGQMEAHRSFKVECL  303 (337)
Q Consensus       284 r~~~v~~~~~~~~~~~l~~L  303 (337)
                      ++......   ..++.+++.
T Consensus       185 H~~~~~~~---~~~~~~~~~  201 (207)
T PRK13539        185 HIPLGLPG---ARELDLGPF  201 (207)
T ss_pred             CCchhhcc---CcEEeecCc
Confidence            98766553   566777653

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=97.34  E-value=0.0018  Score=58.37  Aligned_cols=94  Identities=17%  Similarity=0.212  Sum_probs=57.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhcc---CCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc-------cCCCH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFD---TPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW-------KNKSM  233 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-------~~~~~  233 (337)
                      ...++.|+|.+|+|||+|+..++.....   .......++|++....++..++ .++++.++......       ...+.
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~~~~~~l~~i~~~~~~~~  173 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGLNPEDVLDNVAYARAYNT  173 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCCChHHhhccEEEEecCCh
Confidence            5789999999999999999998764311   0112246799998887777763 44555555432110       12233


Q ss_pred             HHHHH---HHHHHhc-CCcEEEEEecCCC
Q 045709          234 QEKAQ---EIFKILS-KKKFVLLLDDIWE  258 (337)
Q Consensus       234 ~~~~~---~l~~~l~-~k~~LlVlDdv~~  258 (337)
                      ++...   .+...+. .+.-|||+|.+-.
T Consensus       174 ~~~~~~l~~~~~~~~~~~~~LvVIDSI~a  202 (316)
T TIGR02239       174 DHQLQLLQQAAAMMSESRFALLIVDSATA  202 (316)
T ss_pred             HHHHHHHHHHHHhhccCCccEEEEECcHH
Confidence            33333   3333343 3556999999754

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.34  E-value=0.0014  Score=60.27  Aligned_cols=86  Identities=23%  Similarity=0.334  Sum_probs=53.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEI  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  240 (337)
                      ...++.|.|.+|+|||||+.+++....   .....++|++....  ...+ ..-+..++...+..   ...+.+.+.+.+
T Consensus        81 ~GslvLI~G~pG~GKStLllq~a~~~a---~~g~~VlYvs~EEs--~~qi-~~Ra~rlg~~~~~l~l~~e~~le~I~~~i  154 (372)
T cd01121          81 PGSVILIGGDPGIGKSTLLLQVAARLA---KRGGKVLYVSGEES--PEQI-KLRADRLGISTENLYLLAETNLEDILASI  154 (372)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH---hcCCeEEEEECCcC--HHHH-HHHHHHcCCCcccEEEEccCcHHHHHHHH
Confidence            568999999999999999999988772   23346788876543  3332 22234555433221   122334433333


Q ss_pred             HHHhcCCcEEEEEecCCC
Q 045709          241 FKILSKKKFVLLLDDIWE  258 (337)
Q Consensus       241 ~~~l~~k~~LlVlDdv~~  258 (337)
                      .   ..+.-+||+|.+..
T Consensus       155 ~---~~~~~lVVIDSIq~  169 (372)
T cd01121         155 E---ELKPDLVIIDSIQT  169 (372)
T ss_pred             H---hcCCcEEEEcchHH
Confidence            2   34677999999854

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.

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

Probab=97.33  E-value=0.0013  Score=63.49  Aligned_cols=146  Identities=20%  Similarity=0.180  Sum_probs=83.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKI  243 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  243 (337)
                      ..+.+.++|++|+|||.||+.+++..   ..+|-.+.+-         .++    ..       +-..+.......+...
T Consensus       275 ~~~giLl~GpPGtGKT~lAkava~~~---~~~fi~v~~~---------~l~----sk-------~vGesek~ir~~F~~A  331 (494)
T COG0464         275 PPKGVLLYGPPGTGKTLLAKAVALES---RSRFISVKGS---------ELL----SK-------WVGESEKNIRELFEKA  331 (494)
T ss_pred             CCCeeEEECCCCCCHHHHHHHHHhhC---CCeEEEeeCH---------HHh----cc-------ccchHHHHHHHHHHHH
Confidence            45689999999999999999999976   4555433211         111    10       0122223333344444


Q ss_pred             hcCCcEEEEEecCCCccccc-------------cccCCCCCCCCCC-cEEEEeeCChhHHhh-c----cCCceeecCCCC
Q 045709          244 LSKKKFVLLLDDIWELVDLD-------------QVGLPIPSRTSVS-NKVVFTTREFGVCGQ-M----EAHRSFKVECLR  304 (337)
Q Consensus       244 l~~k~~LlVlDdv~~~~~~~-------------~l~~~l~~~~~g~-s~IiiTtr~~~v~~~-~----~~~~~~~l~~L~  304 (337)
                      .+..++.|.+|+++....+.             ++...+....... ..||-||........ +    .-...+.+++-+
T Consensus       332 ~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd  411 (494)
T COG0464         332 RKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPD  411 (494)
T ss_pred             HcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCC
Confidence            56789999999998642221             2222222112220 234444444333221 1    124578899999


Q ss_pred             HHHHHHHHhHhhCCCCC--CCCCChHHHHH
Q 045709          305 YDDAWKLFEQKVGADTL--DSHPDIPELAE  332 (337)
Q Consensus       305 ~~ea~~Lf~~~~~~~~~--~~~~~l~~i~~  332 (337)
                      .++..+.|+.+......  ..+-++..+++
T Consensus       412 ~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~  441 (494)
T COG0464         412 LEERLEIFKIHLRDKKPPLAEDVDLEELAE  441 (494)
T ss_pred             HHHHHHHHHHHhcccCCcchhhhhHHHHHH
Confidence            99999999999874331  23445555554

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=97.32  E-value=0.0018  Score=58.15  Aligned_cols=27  Identities=33%  Similarity=0.589  Sum_probs=23.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|++|+|||||.+.+....
T Consensus        26 ~~Gei~~l~G~NGaGKTTLl~~l~Gl~   52 (301)
T TIGR03522        26 QKGRIVGFLGPNGAGKSTTMKIITGYL   52 (301)
T ss_pred             eCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            356799999999999999999998754

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.32  E-value=0.0013  Score=52.86  Aligned_cols=117  Identities=21%  Similarity=0.188  Sum_probs=61.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC---ccCHHHHHHHHHHHhCC---C-CccccCCCHH----
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR---DLQLEKIQESIAKKIGL---F-NESWKNKSMQ----  234 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~---~~~~~~~~~~i~~~l~~---~-~~~~~~~~~~----  234 (337)
                      ..|-|++.+|.||||+|....-+..   .+-..+.++..-.   ......++..+- .+..   . ...+...+..    
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~---~~g~~v~~vQFlKg~~~~gE~~~l~~l~-~v~~~~~g~~~~~~~~~~~~~~~   78 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRAL---GHGYRVGVVQFLKGGWKYGELKALERLP-NIEIHRMGRGFFWTTENDEEDIA   78 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEEEeCCCCccCHHHHHHhCC-CcEEEECCCCCccCCCChHHHHH
Confidence            5788999999999999998887762   3333444444322   223333333320 0000   0 0000111111    


Q ss_pred             ---HHHHHHHHHhcCCc-EEEEEecCCCc-----cccccccCCCCCCCCCCcEEEEeeCChh
Q 045709          235 ---EKAQEIFKILSKKK-FVLLLDDIWEL-----VDLDQVGLPIPSRTSVSNKVVFTTREFG  287 (337)
Q Consensus       235 ---~~~~~l~~~l~~k~-~LlVlDdv~~~-----~~~~~l~~~l~~~~~g~s~IiiTtr~~~  287 (337)
                         ...+..++.+.... =|||||++-..     .+.+.+...+.....+ ..||+|.|+..
T Consensus        79 ~a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~-~evIlTGr~~p  139 (159)
T cd00561          79 AAAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPED-LELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCC-CEEEEECCCCC
Confidence               12233444554444 49999998543     2233443334444445 79999999854

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.32  E-value=0.0016  Score=55.32  Aligned_cols=27  Identities=30%  Similarity=0.406  Sum_probs=23.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|.+|+|||||++.+....
T Consensus        35 ~~Ge~~~i~G~nGsGKSTLl~~i~G~~   61 (214)
T PRK13543         35 DAGEALLVQGDNGAGKTTLLRVLAGLL   61 (214)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            356799999999999999999998754

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=97.31  E-value=0.0016  Score=56.71  Aligned_cols=127  Identities=18%  Similarity=0.225  Sum_probs=68.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--Cc--EEEEEEec----CccCHHHHH--------------HHHHHHh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--FD--FVIWVVVS----RDLQLEKIQ--------------ESIAKKI  221 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f~--~~~wv~~~----~~~~~~~~~--------------~~i~~~l  221 (337)
                      ...+++|+|.+|+|||||++.+........+.  ++  .+.++.-.    ...++.+.+              .+++..+
T Consensus        24 ~Ge~~~i~G~NGsGKSTLlk~L~G~~~p~~G~i~~~g~~i~~~~q~~~~~~~~tv~e~l~~~~~~~~~~~~~~~~~l~~l  103 (246)
T cd03237          24 ESEVIGILGPNGIGKTTFIKMLAGVLKPDEGDIEIELDTVSYKPQYIKADYEGTVRDLLSSITKDFYTHPYFKTEIAKPL  103 (246)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcCCCCeEEECCceEEEecccccCCCCCCHHHHHHHHhhhccccHHHHHHHHHHc
Confidence            46799999999999999999998765211111  11  22232211    111222222              2233344


Q ss_pred             CCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCcccccc---ccCCCCC--CCCCCcEEEEeeCChhHHhh
Q 045709          222 GLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLDQ---VGLPIPS--RTSVSNKVVFTTREFGVCGQ  291 (337)
Q Consensus       222 ~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~~---l~~~l~~--~~~g~s~IiiTtr~~~v~~~  291 (337)
                      +...   ......+..+.++. +...|..++-+++||+.-...+...   +...+..  ...+ ..||++|++......
T Consensus       104 ~l~~~~~~~~~~LSgGe~qrv~iaraL~~~p~llllDEPt~~LD~~~~~~l~~~l~~~~~~~~-~tiiivsHd~~~~~~  181 (246)
T cd03237         104 QIEQILDREVPELSGGELQRVAIAACLSKDADIYLLDEPSAYLDVEQRLMASKVIRRFAENNE-KTAFVVEHDIIMIDY  181 (246)
T ss_pred             CCHHHhhCChhhCCHHHHHHHHHHHHHhcCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcC-CEEEEEeCCHHHHHH
Confidence            3321   11123444444333 5567778889999999866543221   1111111  1135 689999998776543

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. 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 of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.30  E-value=0.0028  Score=59.55  Aligned_cols=89  Identities=25%  Similarity=0.235  Sum_probs=48.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc-cCHHHHHHHHHHHhCCCCccc-cCCCHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD-LQLEKIQESIAKKIGLFNESW-KNKSMQEKAQEIF  241 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~  241 (337)
                      ++.++.++|.+|+||||++..++..+ .. ..+ .+..+++... +...+.+..++.+++.+.... ...+.........
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L-~~-~g~-kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al  170 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYF-KK-KGL-KVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGL  170 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH-HH-cCC-eEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHH
Confidence            46799999999999999999999887 32 222 3444444321 123444555666665432111 1123333333333


Q ss_pred             HHhcCCcEEEEEecC
Q 045709          242 KILSKKKFVLLLDDI  256 (337)
Q Consensus       242 ~~l~~k~~LlVlDdv  256 (337)
                      +.+.+. -++|+|..
T Consensus       171 ~~~~~~-DvVIIDTA  184 (437)
T PRK00771        171 EKFKKA-DVIIVDTA  184 (437)
T ss_pred             HHhhcC-CEEEEECC
Confidence            333333 45666655

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

Probab=97.30  E-value=0.0013  Score=59.59  Aligned_cols=27  Identities=22%  Similarity=0.383  Sum_probs=24.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+..++|||++|+|||.+|+.+++..
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~el  172 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKKM  172 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHHc
Confidence            356789999999999999999999988

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=97.29  E-value=0.00065  Score=55.95  Aligned_cols=75  Identities=25%  Similarity=0.352  Sum_probs=43.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKI  243 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  243 (337)
                      +..-+.++|.+|+|||.||..+.+....  .. ..+.|++      ..+++..+-.    ..   .......    +.+.
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~--~g-~~v~f~~------~~~L~~~l~~----~~---~~~~~~~----~~~~  105 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAIR--KG-YSVLFIT------ASDLLDELKQ----SR---SDGSYEE----LLKR  105 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHHH--TT---EEEEE------HHHHHHHHHC----CH---CCTTHCH----HHHH
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhcc--CC-cceeEee------cCceeccccc----cc---cccchhh----hcCc
Confidence            4567999999999999999999988732  22 3355654      3344444432    11   1112222    2233


Q ss_pred             hcCCcEEEEEecCCCc
Q 045709          244 LSKKKFVLLLDDIWEL  259 (337)
Q Consensus       244 l~~k~~LlVlDdv~~~  259 (337)
                      +. +.=||||||+-..
T Consensus       106 l~-~~dlLilDDlG~~  120 (178)
T PF01695_consen  106 LK-RVDLLILDDLGYE  120 (178)
T ss_dssp             HH-TSSCEEEETCTSS
T ss_pred             cc-cccEeccccccee
Confidence            33 3458889998653

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.

>PRK06696 uridine kinase; Validated

Probab=97.29  E-value=0.00048  Score=59.01  Aligned_cols=42  Identities=14%  Similarity=0.232  Sum_probs=34.4

Q ss_pred             cchhhHHHHHHHHhc---CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          148 GLQLTFDRVWRCLME---EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       148 Gr~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.+.+++|.+.+..   .+..+|+|.|.+|+||||||+.+...+
T Consensus         2 ~~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l   46 (223)
T PRK06696          2 SRKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEI   46 (223)
T ss_pred             cHHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            356667777777643   467899999999999999999999887

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=97.29  E-value=0.0023  Score=58.27  Aligned_cols=97  Identities=23%  Similarity=0.332  Sum_probs=61.4

Q ss_pred             HHHHHHHHhcC--CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc--
Q 045709          153 FDRVWRCLMEE--HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW--  228 (337)
Q Consensus       153 ~~~l~~~L~~~--~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~--  228 (337)
                      +.++.+.|...  +..++.|-|-+|+|||||..++..++.   ..- .+.||+.....  .. .+--+.+++...+..  
T Consensus        79 ~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA---~~~-~vLYVsGEES~--~Q-iklRA~RL~~~~~~l~l  151 (456)
T COG1066          79 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLA---KRG-KVLYVSGEESL--QQ-IKLRADRLGLPTNNLYL  151 (456)
T ss_pred             hHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHH---hcC-cEEEEeCCcCH--HH-HHHHHHHhCCCccceEE
Confidence            33444445442  678999999999999999999999982   233 78888766543  22 223455666543322  


Q ss_pred             -cCCCHHHHHHHHHHHhcCCcEEEEEecCCCc
Q 045709          229 -KNKSMQEKAQEIFKILSKKKFVLLLDDIWEL  259 (337)
Q Consensus       229 -~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~  259 (337)
                       ...+.+...+.+.+   .++-|+|+|.+...
T Consensus       152 ~aEt~~e~I~~~l~~---~~p~lvVIDSIQT~  180 (456)
T COG1066         152 LAETNLEDIIAELEQ---EKPDLVVIDSIQTL  180 (456)
T ss_pred             ehhcCHHHHHHHHHh---cCCCEEEEecccee
Confidence             23344444433333   67889999998653

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=97.28  E-value=0.0012  Score=53.11  Aligned_cols=125  Identities=22%  Similarity=0.203  Sum_probs=67.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHH-HHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQE-KAQEIFK  242 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~-~~~~l~~  242 (337)
                      +..+++|+|.+|.|||||++.+....    ......+++........  ........++...   + .+..+ ..-.+..
T Consensus        24 ~g~~~~i~G~nGsGKStll~~l~g~~----~~~~G~i~~~~~~~~~~--~~~~~~~~i~~~~---q-lS~G~~~r~~l~~   93 (157)
T cd00267          24 AGEIVALVGPNGSGKSTLLRAIAGLL----KPTSGEILIDGKDIAKL--PLEELRRRIGYVP---Q-LSGGQRQRVALAR   93 (157)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC----CCCccEEEECCEEcccC--CHHHHHhceEEEe---e-CCHHHHHHHHHHH
Confidence            55799999999999999999998765    23344444432211110  0011111121111   1 22222 2233556


Q ss_pred             HhcCCcEEEEEecCCCccc---cccccCCCCC-CCCCCcEEEEeeCChhHHhhccCCceeec
Q 045709          243 ILSKKKFVLLLDDIWELVD---LDQVGLPIPS-RTSVSNKVVFTTREFGVCGQMEAHRSFKV  300 (337)
Q Consensus       243 ~l~~k~~LlVlDdv~~~~~---~~~l~~~l~~-~~~g~s~IiiTtr~~~v~~~~~~~~~~~l  300 (337)
                      .+...+-++++|+.....+   ...+...+.. ...+ ..++++|++......+ .++.+.+
T Consensus        94 ~l~~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~-~tii~~sh~~~~~~~~-~d~i~~l  153 (157)
T cd00267          94 ALLLNPDLLLLDEPTSGLDPASRERLLELLRELAEEG-RTVIIVTHDPELAELA-ADRVIVL  153 (157)
T ss_pred             HHhcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCC-CEEEEEeCCHHHHHHh-CCEEEEE
Confidence            6666788999999875533   1122111111 1124 6899999987776543 2344444

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=97.28  E-value=0.0014  Score=53.62  Aligned_cols=89  Identities=18%  Similarity=0.130  Sum_probs=46.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc-CHHHHHHHHHHHhCCCCcc-ccCCCHHHHHH-HHHHH
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL-QLEKIQESIAKKIGLFNES-WKNKSMQEKAQ-EIFKI  243 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~-~~~~~~~~~~~-~l~~~  243 (337)
                      ++.++|++|+||||++..++....   ..-..++.++..... ...+.+...+...+.+... ....+...... .+...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~---~~g~~v~~i~~D~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLK---KKGKKVLLVAADTYRPAAIEQLRVLGEQVGVPVFEEGEGKDPVSIAKRAIEHA   78 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH---HCCCcEEEEEcCCCChHHHHHHHHhcccCCeEEEecCCCCCHHHHHHHHHHHH
Confidence            678999999999999999988772   222234445443221 2223333334443322110 12233444333 33333


Q ss_pred             hcCCcEEEEEecCCC
Q 045709          244 LSKKKFVLLLDDIWE  258 (337)
Q Consensus       244 l~~k~~LlVlDdv~~  258 (337)
                      ..+..-++|+|..-.
T Consensus        79 ~~~~~d~viiDt~g~   93 (173)
T cd03115          79 REENFDVVIVDTAGR   93 (173)
T ss_pred             HhCCCCEEEEECccc
Confidence            343443666776543

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=97.27  E-value=0.0017  Score=55.45  Aligned_cols=27  Identities=37%  Similarity=0.586  Sum_probs=23.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|.+|+|||||++.++.-.
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          26 YKGEIFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            356799999999999999999998754

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

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

Probab=97.27  E-value=0.059  Score=49.95  Aligned_cols=24  Identities=29%  Similarity=0.476  Sum_probs=21.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +-..++|+||.|||++...+++.+
T Consensus       236 RGYLLYGPPGTGKSS~IaAmAn~L  259 (457)
T KOG0743|consen  236 RGYLLYGPPGTGKSSFIAAMANYL  259 (457)
T ss_pred             ccceeeCCCCCCHHHHHHHHHhhc
Confidence            457799999999999999998877

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.27  E-value=0.00029  Score=59.88  Aligned_cols=120  Identities=14%  Similarity=0.183  Sum_probs=59.3

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhc-cCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCcccc-CCCHHHHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFF-DTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWK-NKSMQEKAQEIFK  242 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~-~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~-~~~~~~~~~~l~~  242 (337)
                      .+++.|+|++|.|||||.+.+..... ...+.|   +|.  .. .. ...+.++...++....... ..+...-.+++..
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~~~la~~G~~---v~a--~~-~~-~~~~d~i~~~l~~~~si~~~~S~f~~el~~l~~  101 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALIVFLAHIGSF---VPA--DS-AT-IGLVDKIFTRMSSRESVSSGQSAFMIDLYQVSK  101 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHHHHHHhCCCe---eEc--CC-cE-EeeeeeeeeeeCCccChhhccchHHHHHHHHHH
Confidence            48899999999999999999874320 001111   111  00 00 0011112222221110001 1122222333333


Q ss_pred             Hh--cCCcEEEEEecCCCccccc-------cccCCCCCC-CCCCcEEEEeeCChhHHhhc
Q 045709          243 IL--SKKKFVLLLDDIWELVDLD-------QVGLPIPSR-TSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       243 ~l--~~k~~LlVlDdv~~~~~~~-------~l~~~l~~~-~~g~s~IiiTtr~~~v~~~~  292 (337)
                      .+  ..++-|++||+.....+..       .+...+... ..+ ..+|++|+..+++...
T Consensus       102 ~l~~~~~~slvllDE~~~gtd~~~~~~~~~ail~~l~~~~~~~-~~vli~TH~~~l~~~~  160 (213)
T cd03281         102 ALRLATRRSLVLIDEFGKGTDTEDGAGLLIATIEHLLKRGPEC-PRVIVSTHFHELFNRS  160 (213)
T ss_pred             HHHhCCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHhcCCCC-cEEEEEcChHHHHHhh
Confidence            22  4678999999987654321       122222221 223 5899999998886554

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

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.27  E-value=0.0015  Score=55.18  Aligned_cols=27  Identities=30%  Similarity=0.427  Sum_probs=23.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|.+|+|||||++.++...
T Consensus        25 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~   51 (204)
T PRK13538         25 NAGELVQIEGPNGAGKTSLLRILAGLA   51 (204)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            356799999999999999999998764

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=97.26  E-value=0.0018  Score=56.01  Aligned_cols=27  Identities=30%  Similarity=0.561  Sum_probs=23.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|.+|+|||||++.+....
T Consensus        25 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (236)
T TIGR03864        25 RPGEFVALLGPNGAGKSTLFSLLTRLY   51 (236)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            357899999999999999999998654

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=97.25  E-value=0.002  Score=55.24  Aligned_cols=123  Identities=18%  Similarity=0.147  Sum_probs=65.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEE------------ecCccCHHH------------------H
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVV------------VSRDLQLEK------------------I  213 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~------------~~~~~~~~~------------------~  213 (337)
                      ...+++|.|.+|+|||||++.+.....    .....+|+.            .....++.+                  .
T Consensus        47 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~----p~~G~i~~~g~~~~~~~~~~~~~~~~tv~enl~~~~~~~~~~~~~~~~~  122 (224)
T cd03220          47 RGERIGLIGRNGAGKSTLLRLLAGIYP----PDSGTVTVRGRVSSLLGLGGGFNPELTGRENIYLNGRLLGLSRKEIDEK  122 (224)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC----CCceEEEECCEEchhhcccccCCCCCcHHHHHHHHHHHcCCCHHHHHHH
Confidence            567999999999999999999987541    111222211            001111111                  1


Q ss_pred             HHHHHHHhCCCC---ccccCCCHHHHHH-HHHHHhcCCcEEEEEecCCCcccccc---ccCCCCC-CCCCCcEEEEeeCC
Q 045709          214 QESIAKKIGLFN---ESWKNKSMQEKAQ-EIFKILSKKKFVLLLDDIWELVDLDQ---VGLPIPS-RTSVSNKVVFTTRE  285 (337)
Q Consensus       214 ~~~i~~~l~~~~---~~~~~~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~~~~---l~~~l~~-~~~g~s~IiiTtr~  285 (337)
                      ...+++.++...   ......+..+..+ .+...+-.++-+|+||+.-+..+...   +...+.. ...+ ..||++|++
T Consensus       123 ~~~~l~~~~l~~~~~~~~~~LSgG~~qrv~laral~~~p~llllDEP~~gLD~~~~~~~~~~l~~~~~~~-~tiii~sH~  201 (224)
T cd03220         123 IDEIIEFSELGDFIDLPVKTYSSGMKARLAFAIATALEPDILLIDEVLAVGDAAFQEKCQRRLRELLKQG-KTVILVSHD  201 (224)
T ss_pred             HHHHHHHcCChhhhhCChhhCCHHHHHHHHHHHHHhcCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCC-CEEEEEeCC
Confidence            122333333321   1112334444433 35666777889999999876543221   1111111 1235 689999998


Q ss_pred             hhHHhh
Q 045709          286 FGVCGQ  291 (337)
Q Consensus       286 ~~v~~~  291 (337)
                      .+.+..
T Consensus       202 ~~~~~~  207 (224)
T cd03220         202 PSSIKR  207 (224)
T ss_pred             HHHHHH
Confidence            776544

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=97.25  E-value=0.00041  Score=54.63  Aligned_cols=43  Identities=26%  Similarity=0.302  Sum_probs=31.7

Q ss_pred             ccchhhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          147 VGLQLTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       147 vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ||....+.++.+.+..  .....|.|+|..|+||+++|+.++...
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~~   45 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRYS   45 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHTT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhhc
Confidence            4666667777766643  445677899999999999999998876

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=97.24  E-value=0.0038  Score=56.76  Aligned_cols=94  Identities=13%  Similarity=0.211  Sum_probs=60.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhcc---CCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc-------cCCCH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFD---TPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW-------KNKSM  233 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-------~~~~~  233 (337)
                      ...++-|+|.+|+|||+|+..++-....   ....-..++|++....+++.++ .++++.++...+..       ...+.
T Consensus       122 ~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl-~qia~~~~~~~~~~l~~i~~~~~~~~  200 (342)
T PLN03186        122 TGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRL-IQIAERFGLNGADVLENVAYARAYNT  200 (342)
T ss_pred             CceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHH-HHHHHHcCCChhhhccceEEEecCCH
Confidence            5678999999999999999988754411   0112237999999998888776 45677665432111       12344


Q ss_pred             HHHHHHHH---HHh-cCCcEEEEEecCCC
Q 045709          234 QEKAQEIF---KIL-SKKKFVLLLDDIWE  258 (337)
Q Consensus       234 ~~~~~~l~---~~l-~~k~~LlVlDdv~~  258 (337)
                      ++....+.   ..+ ..+.-|||+|.+-.
T Consensus       201 e~~~~ll~~~~~~~~~~~~~LIVIDSI~a  229 (342)
T PLN03186        201 DHQSELLLEAASMMAETRFALMIVDSATA  229 (342)
T ss_pred             HHHHHHHHHHHHHhhccCCCEEEEeCcHH
Confidence            44433332   233 34566999999854

>PTZ00035 Rad51 protein; Provisional

Probab=97.24  E-value=0.0056  Score=55.75  Aligned_cols=94  Identities=19%  Similarity=0.204  Sum_probs=58.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhcc---CCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCcc-------ccCCCH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFD---TPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNES-------WKNKSM  233 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~  233 (337)
                      ...++.|+|.+|+|||+|+..++-....   ....-..++|++....++..++ .++++.++.....       ....+.
T Consensus       117 ~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~~~~~~l~nI~~~~~~~~  195 (337)
T PTZ00035        117 TGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGLDPEDVLDNIAYARAYNH  195 (337)
T ss_pred             CCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCCChHhHhhceEEEccCCH
Confidence            5789999999999999999988765410   0112346779998877777664 4556665543211       012333


Q ss_pred             HHHHHHH---HHHh-cCCcEEEEEecCCC
Q 045709          234 QEKAQEI---FKIL-SKKKFVLLLDDIWE  258 (337)
Q Consensus       234 ~~~~~~l---~~~l-~~k~~LlVlDdv~~  258 (337)
                      ++....+   ...+ ..+--|||+|.+..
T Consensus       196 e~~~~~l~~~~~~l~~~~~~lvVIDSita  224 (337)
T PTZ00035        196 EHQMQLLSQAAAKMAEERFALLIVDSATA  224 (337)
T ss_pred             HHHHHHHHHHHHHhhccCccEEEEECcHH
Confidence            4443333   3333 34556999999864

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=97.24  E-value=0.0023  Score=54.34  Aligned_cols=27  Identities=30%  Similarity=0.482  Sum_probs=23.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|.+|+|||||++.+....
T Consensus        23 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235          23 KPGEFLAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            356799999999999999999997754

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=97.24  E-value=0.0015  Score=55.64  Aligned_cols=27  Identities=33%  Similarity=0.541  Sum_probs=23.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|.+|+|||||++.+..-.
T Consensus        29 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (218)
T cd03266          29 KPGEVTGLLGPNGAGKTTTLRMLAGLL   55 (218)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            356789999999999999999998754

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=97.24  E-value=0.002  Score=55.07  Aligned_cols=27  Identities=30%  Similarity=0.446  Sum_probs=23.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|.+|+|||||++.+....
T Consensus        28 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~   54 (221)
T cd03244          28 KPGEKVGIVGRTGSGKSSLLLALFRLV   54 (221)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            356799999999999999999997654

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

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

Probab=97.24  E-value=0.0027  Score=62.91  Aligned_cols=154  Identities=18%  Similarity=0.253  Sum_probs=90.2

Q ss_pred             ccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCc-----EEEEEEecCccCHHHHHHHHHH
Q 045709          145 TVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFD-----FVIWVVVSRDLQLEKIQESIAK  219 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~-----~~~wv~~~~~~~~~~~~~~i~~  219 (337)
                      .++||++++.+++..|......--.++|.+|+|||+++.-++.+.-  .+..+     ..++ +.    ++..+      
T Consensus       171 PvIGRd~EI~r~iqIL~RR~KNNPvLiGEpGVGKTAIvEGLA~rIv--~g~VP~~L~~~~i~-sL----D~g~L------  237 (786)
T COG0542         171 PVIGRDEEIRRTIQILSRRTKNNPVLVGEPGVGKTAIVEGLAQRIV--NGDVPESLKDKRIY-SL----DLGSL------  237 (786)
T ss_pred             CCcChHHHHHHHHHHHhccCCCCCeEecCCCCCHHHHHHHHHHHHh--cCCCCHHHcCCEEE-Ee----cHHHH------
Confidence            3799999999999999775555556899999999999988887762  22221     1111 00    11111      


Q ss_pred             HhCCCCccccCCCHHHHHHHHHHHhc-CCcEEEEEecCCCcc--------ccccccCCCCCCCCCCcEEE-EeeCChhHH
Q 045709          220 KIGLFNESWKNKSMQEKAQEIFKILS-KKKFVLLLDDIWELV--------DLDQVGLPIPSRTSVSNKVV-FTTREFGVC  289 (337)
Q Consensus       220 ~l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~~--------~~~~l~~~l~~~~~g~s~Ii-iTtr~~~v~  289 (337)
                       .....   -.-..++..+.+.+.++ .++.+|++|.++..-        ..+.-...-|....|.-+.| -||-++. -
T Consensus       238 -vAGak---yRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGeL~~IGATT~~EY-R  312 (786)
T COG0542         238 -VAGAK---YRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGELRCIGATTLDEY-R  312 (786)
T ss_pred             -hcccc---ccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCCeEEEEeccHHHH-H
Confidence             11111   22345666666666554 458999999997541        12221111122223323444 4554432 1


Q ss_pred             hhc-------cCCceeecCCCCHHHHHHHHhHhh
Q 045709          290 GQM-------EAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       290 ~~~-------~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ..+       .....+.+..-+.+++..++....
T Consensus       313 k~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk  346 (786)
T COG0542         313 KYIEKDAALERRFQKVLVDEPSVEDTIAILRGLK  346 (786)
T ss_pred             HHhhhchHHHhcCceeeCCCCCHHHHHHHHHHHH
Confidence            111       134678899999999999987654

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

Probab=97.24  E-value=0.0091  Score=51.21  Aligned_cols=164  Identities=14%  Similarity=0.201  Sum_probs=89.9

Q ss_pred             CccccchhhHHH---HHHHHhcC------CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHH
Q 045709          144 PTVVGLQLTFDR---VWRCLMEE------HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQ  214 (337)
Q Consensus       144 ~~~vGr~~~~~~---l~~~L~~~------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~  214 (337)
                      ++++|.++...+   |++.|.++      .++.|..+|++|.|||.+|+.+++..   +-.|-.     +.    ..++ 
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~---kvp~l~-----vk----at~l-  187 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEA---KVPLLL-----VK----ATEL-  187 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhccc---CCceEE-----ec----hHHH-
Confidence            457898776653   56666653      47889999999999999999999877   333321     11    1111 


Q ss_pred             HHHHHHhCCCCccccCCCHHHHHHHHHHHh-cCCcEEEEEecCCCc----------ccc----ccccCCCC--CCCCCCc
Q 045709          215 ESIAKKIGLFNESWKNKSMQEKAQEIFKIL-SKKKFVLLLDDIWEL----------VDL----DQVGLPIP--SRTSVSN  277 (337)
Q Consensus       215 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~----------~~~----~~l~~~l~--~~~~g~s  277 (337)
                        |.+..|         +....+..+.+.- +.-+|++.||+++..          .+.    ..+..-+.  ..+-| -
T Consensus       188 --iGehVG---------dgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneG-V  255 (368)
T COG1223         188 --IGEHVG---------DGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEG-V  255 (368)
T ss_pred             --HHHHhh---------hHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCc-e
Confidence              111111         1122333333332 346899999998743          111    11211111  12234 4


Q ss_pred             EEEEeeCChhHHhhc-c--CCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHH
Q 045709          278 KVVFTTREFGVCGQM-E--AHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAE  332 (337)
Q Consensus       278 ~IiiTtr~~~v~~~~-~--~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~  332 (337)
                      .-|-.|.+.++.... .  ....|+...-+++|-.+++..++-.--......+..+++
T Consensus       256 vtIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~~~~~~~  313 (368)
T COG1223         256 VTIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDADLRYLAA  313 (368)
T ss_pred             EEEeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCccccCHHHHHH
Confidence            445555555543221 1  234677777789999999998873222223344555543

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=97.23  E-value=0.0031  Score=56.62  Aligned_cols=27  Identities=26%  Similarity=0.523  Sum_probs=23.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|++|+|||||++.+..-.
T Consensus        17 ~~Ge~~~l~G~NGaGKSTLl~~l~Gl~   43 (302)
T TIGR01188        17 REGEVFGFLGPNGAGKTTTIRMLTTLL   43 (302)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            356799999999999999999998754

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=97.22  E-value=0.0022  Score=63.65  Aligned_cols=26  Identities=42%  Similarity=0.654  Sum_probs=23.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|.+|+|||||.+.+....
T Consensus        26 ~Ge~v~LvG~NGsGKSTLLkiL~G~~   51 (638)
T PRK10636         26 PGQKVGLVGKNGCGKSTLLALLKNEI   51 (638)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            56789999999999999999998864

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.22  E-value=0.0019  Score=59.28  Aligned_cols=59  Identities=22%  Similarity=0.266  Sum_probs=36.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc-cCHHHHHHHHHHHhCC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD-LQLEKIQESIAKKIGL  223 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~  223 (337)
                      +..++.++|++|+||||++.++..... .......+..++.... ....+-+....+.++.
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~~-~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv  195 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARCV-MRFGASKVALLTTDSYRIGGHEQLRIFGKILGV  195 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH-HhcCCCeEEEEecccccccHHHHHHHHHHHcCC
Confidence            467999999999999999999988762 1112234555554332 2233444444555554

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=97.21  E-value=0.0041  Score=56.31  Aligned_cols=93  Identities=17%  Similarity=0.277  Sum_probs=58.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCC----CCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc-------cCCC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPN----HFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW-------KNKS  232 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-------~~~~  232 (337)
                      ...++-|+|.+|+|||+|+.+++.... ...    .-..++|++....+++..+. ++++.++...+..       ...+
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~~-~~~~~gg~~~~~~yi~te~~f~~~rl~-~~~~~~g~~~~~~l~~i~~~~~~~  178 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNVQ-LPEEKGGLEGKAVYIDTEGTFRPERIE-QMAEALGLDPDEVLDNIHVARAYN  178 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHhc-cccccCCCCceEEEEeCCCCcCHHHHH-HHHHHcCCChHhhhccEEEEeCCC
Confidence            578999999999999999999987652 111    12479999998888777665 4445554322110       1112


Q ss_pred             HH---HHHHHHHHHhcC--CcEEEEEecCCC
Q 045709          233 MQ---EKAQEIFKILSK--KKFVLLLDDIWE  258 (337)
Q Consensus       233 ~~---~~~~~l~~~l~~--k~~LlVlDdv~~  258 (337)
                      ..   .....+...+..  +--|||+|.+-.
T Consensus       179 ~~~~~~~~~~l~~~i~~~~~~~lvVIDSisa  209 (317)
T PRK04301        179 SDHQMLLAEKAEELIKEGENIKLVIVDSLTA  209 (317)
T ss_pred             HHHHHHHHHHHHHHHhccCceeEEEEECchH
Confidence            12   234445555543  345999999754

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=97.20  E-value=0.0026  Score=55.54  Aligned_cols=128  Identities=17%  Similarity=0.126  Sum_probs=66.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--C---cEEEEEEecCcc------CHH-----------HHHHHHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--F---DFVIWVVVSRDL------QLE-----------KIQESIAKK  220 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f---~~~~wv~~~~~~------~~~-----------~~~~~i~~~  220 (337)
                      ....+++|+|.+|+|||||++.++.......+.  +   ..+.++.-....      +..           .-...+++.
T Consensus        28 ~~Ge~~~I~G~NGsGKSTLl~~i~Gl~~p~~G~i~~~~~~~i~~v~q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~  107 (251)
T PRK09544         28 KPGKILTLLGPNGAGKSTLVRVVLGLVAPDEGVIKRNGKLRIGYVPQKLYLDTTLPLTVNRFLRLRPGTKKEDILPALKR  107 (251)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCccCEEEeccccccccccChhHHHHHhccccccHHHHHHHHHH
Confidence            357899999999999999999998764211111  0   112232211100      111           112233444


Q ss_pred             hCCCC---ccccCCCHHHHHH-HHHHHhcCCcEEEEEecCCCccccc---cccCCCCC--CCCCCcEEEEeeCChhHHhh
Q 045709          221 IGLFN---ESWKNKSMQEKAQ-EIFKILSKKKFVLLLDDIWELVDLD---QVGLPIPS--RTSVSNKVVFTTREFGVCGQ  291 (337)
Q Consensus       221 l~~~~---~~~~~~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~--~~~g~s~IiiTtr~~~v~~~  291 (337)
                      ++...   ......+..+..+ .+...+..++-+|+||+.-+..+..   .+...+..  ...| ..||++|++.+....
T Consensus       108 ~gl~~~~~~~~~~LSgGq~qrv~laral~~~p~lllLDEPt~~LD~~~~~~l~~~L~~~~~~~g-~tiiivsH~~~~i~~  186 (251)
T PRK09544        108 VQAGHLIDAPMQKLSGGETQRVLLARALLNRPQLLVLDEPTQGVDVNGQVALYDLIDQLRRELD-CAVLMVSHDLHLVMA  186 (251)
T ss_pred             cCChHHHhCChhhCCHHHHHHHHHHHHHhcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHhcC-CEEEEEecCHHHHHH
Confidence            44321   1112334433333 3455666778899999987654322   11111211  1125 678888888776543

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=97.19  E-value=0.003  Score=61.42  Aligned_cols=27  Identities=26%  Similarity=0.496  Sum_probs=23.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||++.++...
T Consensus        25 ~~Ge~~~liG~NGsGKSTLl~~l~Gl~   51 (530)
T PRK15064         25 GGGNRYGLIGANGCGKSTFMKILGGDL   51 (530)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            356799999999999999999998765

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=97.19  E-value=0.001  Score=52.67  Aligned_cols=45  Identities=20%  Similarity=0.389  Sum_probs=34.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCC
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFN  225 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~  225 (337)
                      +|.|-|++|+||||+|+.+.+.+   .-.+           .+...++++|+...+.+-
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~---gl~~-----------vsaG~iFR~~A~e~gmsl   46 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHL---GLKL-----------VSAGTIFREMARERGMSL   46 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHh---CCce-----------eeccHHHHHHHHHcCCCH
Confidence            68999999999999999999988   2222           133467888888887754

>PRK08233 hypothetical protein; Provisional

Probab=97.18  E-value=0.0019  Score=53.26  Aligned_cols=25  Identities=28%  Similarity=0.534  Sum_probs=23.0

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|+|.|.+|+||||||..+...+
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l   27 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKL   27 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhC
Confidence            4789999999999999999998876

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=97.18  E-value=0.0025  Score=56.02  Aligned_cols=91  Identities=19%  Similarity=0.210  Sum_probs=60.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHH-hCCCCccccCCCHH---HHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKK-IGLFNESWKNKSMQ---EKAQE  239 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~-l~~~~~~~~~~~~~---~~~~~  239 (337)
                      ...++=|+|+.|+||||+|.+++-..   +..-..++|++..+.+++..+. +++.. +..-. .....+.+   +.+..
T Consensus        59 ~g~ItEiyG~~gsGKT~lal~~~~~a---q~~g~~a~fIDtE~~l~p~r~~-~l~~~~~d~l~-v~~~~~~e~q~~i~~~  133 (279)
T COG0468          59 RGRITEIYGPESSGKTTLALQLVANA---QKPGGKAAFIDTEHALDPERAK-QLGVDLLDNLL-VSQPDTGEQQLEIAEK  133 (279)
T ss_pred             cceEEEEecCCCcchhhHHHHHHHHh---hcCCCeEEEEeCCCCCCHHHHH-HHHHhhhccee-EecCCCHHHHHHHHHH
Confidence            56889999999999999999988877   4455589999999988887754 34433 22100 00222333   33344


Q ss_pred             HHHHhcCCcEEEEEecCCCc
Q 045709          240 IFKILSKKKFVLLLDDIWEL  259 (337)
Q Consensus       240 l~~~l~~k~~LlVlDdv~~~  259 (337)
                      +......+--|+|+|.+-..
T Consensus       134 ~~~~~~~~i~LvVVDSvaa~  153 (279)
T COG0468         134 LARSGAEKIDLLVVDSVAAL  153 (279)
T ss_pred             HHHhccCCCCEEEEecCccc
Confidence            44444444569999988643

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=97.18  E-value=0.0046  Score=53.10  Aligned_cols=89  Identities=22%  Similarity=0.256  Sum_probs=54.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCc-----------------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNE-----------------  226 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----------------  226 (337)
                      ...++.|.|.+|+|||+|+..+.....   ..-..++|++....  ...+... +.+++....                 
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~~---~~g~~~~~is~e~~--~~~i~~~-~~~~g~~~~~~~~~~~l~i~d~~~~~   92 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKGL---RDGDPVIYVTTEES--RESIIRQ-AAQFGMDFEKAIEEGKLVIIDALMKE   92 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHH---hcCCeEEEEEccCC--HHHHHHH-HHHhCCCHHHHhhcCCEEEEEccccc
Confidence            578999999999999999998776542   23456788876443  3333322 233322100                 


Q ss_pred             -----cccCCCHHHHHHHHHHHhcC---CcEEEEEecCCC
Q 045709          227 -----SWKNKSMQEKAQEIFKILSK---KKFVLLLDDIWE  258 (337)
Q Consensus       227 -----~~~~~~~~~~~~~l~~~l~~---k~~LlVlDdv~~  258 (337)
                           .....+.++....+.+.++.   +.-++|+|.+..
T Consensus        93 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~vvIDsl~~  132 (229)
T TIGR03881        93 KEDEWSLRELSIEELLNKVIEAKKYLGYGHARLVIDSMSA  132 (229)
T ss_pred             cccccccccCCHHHHHHHHHHHHHhhccCceEEEecCchh
Confidence                 00123456666666665543   446889998754

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=97.18  E-value=0.0025  Score=53.98  Aligned_cols=23  Identities=39%  Similarity=0.600  Sum_probs=21.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +++|+|.+|+|||||++.++.-.
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl~   49 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLT   49 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCCC
Confidence            99999999999999999998654

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=97.17  E-value=0.0036  Score=52.33  Aligned_cols=82  Identities=12%  Similarity=0.113  Sum_probs=45.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhhccCCCCCc---EEEEEEecCccCHHHHHHHHHHHhC--CCCccccCCCHHHHHHHHH
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRFFDTPNHFD---FVIWVVVSRDLQLEKIQESIAKKIG--LFNESWKNKSMQEKAQEIF  241 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~---~~~wv~~~~~~~~~~~~~~i~~~l~--~~~~~~~~~~~~~~~~~l~  241 (337)
                      +|+|.|.+|+||||||+.+...+.  .....   .....+............ ......  .........+.+.+.+.|.
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~--~~~~~~~~~~~~~~~d~~~~~~~~~~-~~~~~~~~~~~~~p~a~d~~~l~~~l~   77 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILN--KRGIPAMEMDIILSLDDFYDDYHLRD-RKGRGENRYNFDHPDAFDFDLLKEDLK   77 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHT--TCTTTCCCSEEEEEGGGGBHHHHHHH-HHHHCTTTSSTTSGGGBSHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC--ccCcCccceeEEEeecccccccchhh-HhhccccccCCCCccccCHHHHHHHHH
Confidence            699999999999999999999883  12222   233333333222222211 111111  1111224566777777777


Q ss_pred             HHhcCCcEEE
Q 045709          242 KILSKKKFVL  251 (337)
Q Consensus       242 ~~l~~k~~Ll  251 (337)
                      ....++..-+
T Consensus        78 ~L~~g~~i~~   87 (194)
T PF00485_consen   78 ALKNGGSIEI   87 (194)
T ss_dssp             HHHTTSCEEE
T ss_pred             HHhCCCcccc
Confidence            7666665433

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.17  E-value=0.00053  Score=65.52  Aligned_cols=45  Identities=22%  Similarity=0.375  Sum_probs=40.2

Q ss_pred             ccccchhhHHHHHHHHh------cCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          145 TVVGLQLTFDRVWRCLM------EEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~------~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +++|.++.+++|++.|.      +.+.+++.++|++|+||||||+.+.+-+
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~l  127 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLM  127 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHH
Confidence            47999999999999883      3567899999999999999999999877

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=97.17  E-value=0.0048  Score=55.69  Aligned_cols=94  Identities=15%  Similarity=0.181  Sum_probs=58.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccC---CCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc-------cCCCH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDT---PNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW-------KNKSM  233 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-------~~~~~  233 (337)
                      ...++-|+|.+|+|||+|+.+++......   ...-..++|++....++..++. +++..++......       ...+.
T Consensus        94 ~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl~~~~~~~~i~i~~~~~~  172 (310)
T TIGR02236        94 TQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGLDPDEVLKNIYVARAYNS  172 (310)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCCCHHHHhhceEEEecCCH
Confidence            57889999999999999999998765210   0112379999998888877654 4455554321100       11121


Q ss_pred             H---HHHHHHHHHhcCC---cEEEEEecCCC
Q 045709          234 Q---EKAQEIFKILSKK---KFVLLLDDIWE  258 (337)
Q Consensus       234 ~---~~~~~l~~~l~~k---~~LlVlDdv~~  258 (337)
                      +   .....+.+.+...   .-+||+|.+-.
T Consensus       173 ~~~~~lld~l~~~i~~~~~~~~lVVIDSisa  203 (310)
T TIGR02236       173 NHQMLLVEKAEDLIKELNNPVKLLIVDSLTS  203 (310)
T ss_pred             HHHHHHHHHHHHHHHhcCCCceEEEEecchH
Confidence            1   1234455555432   45999998854

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=97.17  E-value=0.004  Score=54.55  Aligned_cols=127  Identities=18%  Similarity=0.139  Sum_probs=66.4

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--C---------cEEEEEEecCc----cCHH------------HHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--F---------DFVIWVVVSRD----LQLE------------KIQE  215 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f---------~~~~wv~~~~~----~~~~------------~~~~  215 (337)
                      .+..+++|+|.+|+|||||++.+........+.  |         ..+.|+.-...    .++.            .-..
T Consensus        36 ~~Ge~~~I~G~NGsGKSTLlk~l~Gl~~p~~G~i~~~g~~~~~~~~~i~~v~q~~~l~~~~tv~enl~~~~~~~~~~~~~  115 (257)
T PRK11247         36 PAGQFVAVVGRSGCGKSTLLRLLAGLETPSAGELLAGTAPLAEAREDTRLMFQDARLLPWKKVIDNVGLGLKGQWRDAAL  115 (257)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCCCCeEEEECCEEHHHhhCceEEEecCccCCCCCcHHHHHHhcccchHHHHHH
Confidence            356799999999999999999998754211111  1         11233321110    1111            1223


Q ss_pred             HHHHHhCCCC---ccccCCCHHHHHH-HHHHHhcCCcEEEEEecCCCccccc---cccCCCCC--CCCCCcEEEEeeCCh
Q 045709          216 SIAKKIGLFN---ESWKNKSMQEKAQ-EIFKILSKKKFVLLLDDIWELVDLD---QVGLPIPS--RTSVSNKVVFTTREF  286 (337)
Q Consensus       216 ~i~~~l~~~~---~~~~~~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~--~~~g~s~IiiTtr~~  286 (337)
                      .++..++...   ......+..+..+ .+...+...+-+|+||+.-+..+..   .+...+..  ...+ ..||++|++.
T Consensus       116 ~~l~~~gl~~~~~~~~~~LSgGqkqrl~laraL~~~p~lllLDEPt~~LD~~~~~~l~~~L~~~~~~~~-~tviivsHd~  194 (257)
T PRK11247        116 QALAAVGLADRANEWPAALSGGQKQRVALARALIHRPGLLLLDEPLGALDALTRIEMQDLIESLWQQHG-FTVLLVTHDV  194 (257)
T ss_pred             HHHHHcCChhHhcCChhhCCHHHHHHHHHHHHHhcCCCEEEEeCCCCCCCHHHHHHHHHHHHHHHHHcC-CEEEEEeCCH
Confidence            3444554432   1112334433333 3455666778899999886553321   11111211  1124 6889999987


Q ss_pred             hHHh
Q 045709          287 GVCG  290 (337)
Q Consensus       287 ~v~~  290 (337)
                      ....
T Consensus       195 ~~~~  198 (257)
T PRK11247        195 SEAV  198 (257)
T ss_pred             HHHH
Confidence            6543

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.17  E-value=0.016  Score=52.40  Aligned_cols=156  Identities=6%  Similarity=0.024  Sum_probs=82.7

Q ss_pred             hhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCC----C
Q 045709          151 LTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLF----N  225 (337)
Q Consensus       151 ~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~----~  225 (337)
                      ...+.|.+.+..++ ...+.+.|+.|+||+++|..++....- ......       .........+.+...-...    .
T Consensus         9 ~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC-~~~~~~-------~~Cg~C~sC~~~~~g~HPD~~~i~   80 (325)
T PRK06871          9 PTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMC-QTPQGD-------QPCGQCHSCHLFQAGNHPDFHILE   80 (325)
T ss_pred             HHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcC-CCCCCC-------CCCCCCHHHHHHhcCCCCCEEEEc
Confidence            34556666666654 467889999999999999999887621 111100       0111111111111110000    0


Q ss_pred             c-cccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCCh-hHHhhc-cCC
Q 045709          226 E-SWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREF-GVCGQM-EAH  295 (337)
Q Consensus       226 ~-~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~-~v~~~~-~~~  295 (337)
                      + .-.....++ ++.+.+.+     .+++-++|+|+++...  ....+...+-.-..+ +.+|++|.+. .+...+ +..
T Consensus        81 p~~~~~I~id~-iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~-~~fiL~t~~~~~llpTI~SRC  158 (325)
T PRK06871         81 PIDNKDIGVDQ-VREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPN-TYFLLQADLSAALLPTIYSRC  158 (325)
T ss_pred             cccCCCCCHHH-HHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCC-eEEEEEECChHhCchHHHhhc
Confidence            0 001112222 23333333     2556688899998653  233332223222234 6777777654 343332 234


Q ss_pred             ceeecCCCCHHHHHHHHhHhh
Q 045709          296 RSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       296 ~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ..+.+.+++.++..+.+....
T Consensus       159 ~~~~~~~~~~~~~~~~L~~~~  179 (325)
T PRK06871        159 QTWLIHPPEEQQALDWLQAQS  179 (325)
T ss_pred             eEEeCCCCCHHHHHHHHHHHh
Confidence            688999999999998888764

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=97.17  E-value=0.0046  Score=55.66  Aligned_cols=26  Identities=35%  Similarity=0.428  Sum_probs=23.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+++|+|++|+|||||.+.+..-.
T Consensus        32 ~Gei~gllGpNGaGKSTLl~~l~Gl~   57 (306)
T PRK13537         32 RGECFGLLGPNGAGKTTTLRMLLGLT   57 (306)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            56799999999999999999998754

>PF12061 DUF3542: Protein of unknown function (DUF3542); InterPro: IPR021929 R1 is a gene for resistance to late blight, the most destructive disease in potato cultivation worldwide

Probab=97.15  E-value=0.0011  Score=57.91  Aligned_cols=77  Identities=16%  Similarity=0.176  Sum_probs=66.7

Q ss_pred             chhhHHHHHHHHhhhhcccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHHHHHH
Q 045709           10 TCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVAEQQQMKPLEQVHGWISRVQEVGSKVEKLK   89 (337)
Q Consensus        10 ~~~~~~~kl~~~l~~~~~~~~~~~~~~~~l~~el~~l~~~l~~~~~~~~~ae~~~~~~~~~~~~Wl~~l~~~a~~~ed~l   89 (337)
                      .++.+++.|-.+.......+..++.+++-++.+|+.++.||+.+      +++.+.+. +..+....++...||++|.++
T Consensus       297 yVdFlL~NLkdfq~rysdSlaflKnQiqvIQ~elesLqpFLk~V------~ee~~nkh-~~~ed~a~~ii~kAyevEYVV  369 (402)
T PF12061_consen  297 YVDFLLKNLKDFQGRYSDSLAFLKNQIQVIQTELESLQPFLKHV------VEEPHNKH-DTNEDCATQIIRKAYEVEYVV  369 (402)
T ss_pred             HHHHHHhhHHHHhccccchHHHHHHHHHHHHHHHHHhhHHHHHH------Hhccchhh-hhhhhHHHHHHHHHhheeeee
Confidence            36889999999988888888999999999999999999999986      56655444 348899999999999999999


Q ss_pred             hhcC
Q 045709           90 EEEY   93 (337)
Q Consensus        90 d~~~   93 (337)
                      |.+.
T Consensus       370 DaCi  373 (402)
T PF12061_consen  370 DACI  373 (402)
T ss_pred             ehhh
Confidence            9975

The R1 gene belongs to the class of plant genes for pathogen resistance that have a leucine zipper motif, a putative nucleotide binding domain and a leucine-rich repeat domain []. Most proteins matching this entry are found associated with PF00931 from PFAM.

>PRK10867 signal recognition particle protein; Provisional

Probab=97.15  E-value=0.0027  Score=59.49  Aligned_cols=26  Identities=23%  Similarity=0.434  Sum_probs=22.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+.+|.++|.+|+||||.+..++..+
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l  124 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYL  124 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHH
Confidence            46899999999999999888887766

>TIGR00959 ffh signal recognition particle protein

Probab=97.14  E-value=0.0029  Score=59.26  Aligned_cols=26  Identities=23%  Similarity=0.377  Sum_probs=23.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++.++.++|.+|+||||.+..++..+
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l  123 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYL  123 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHH
Confidence            46799999999999999998888775

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.14  E-value=0.00087  Score=55.47  Aligned_cols=26  Identities=31%  Similarity=0.408  Sum_probs=23.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|.+|+|||||++.+....
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (182)
T cd03215          25 AGEIVGIAGLVGNGQTELAEALFGLR   50 (182)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            56789999999999999999998765

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. In members of 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.

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=97.14  E-value=0.0045  Score=55.52  Aligned_cols=88  Identities=17%  Similarity=0.198  Sum_probs=56.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEI  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  240 (337)
                      ..+++-|+|+.|+||||||..+....+   ..-..++|+...+.++..     .+..++...+..   ...+.++....+
T Consensus        52 ~G~ivEi~G~~ssGKttLaL~~ia~~q---~~g~~~a~ID~e~~ld~~-----~a~~lGvdl~rllv~~P~~~E~al~~~  123 (322)
T PF00154_consen   52 RGRIVEIYGPESSGKTTLALHAIAEAQ---KQGGICAFIDAEHALDPE-----YAESLGVDLDRLLVVQPDTGEQALWIA  123 (322)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH---HTT-EEEEEESSS---HH-----HHHHTT--GGGEEEEE-SSHHHHHHHH
T ss_pred             cCceEEEeCCCCCchhhhHHHHHHhhh---cccceeEEecCcccchhh-----HHHhcCccccceEEecCCcHHHHHHHH
Confidence            567999999999999999999988873   335678999988776553     445555543321   234456666666


Q ss_pred             HHHhcCC-cEEEEEecCCCc
Q 045709          241 FKILSKK-KFVLLLDDIWEL  259 (337)
Q Consensus       241 ~~~l~~k-~~LlVlDdv~~~  259 (337)
                      ...++.. .-++|+|.|-..
T Consensus       124 e~lirsg~~~lVVvDSv~al  143 (322)
T PF00154_consen  124 EQLIRSGAVDLVVVDSVAAL  143 (322)
T ss_dssp             HHHHHTTSESEEEEE-CTT-
T ss_pred             HHHhhcccccEEEEecCccc
Confidence            6666544 458899988654

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=97.14  E-value=0.0043  Score=53.09  Aligned_cols=26  Identities=42%  Similarity=0.634  Sum_probs=23.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+++|+|.+|+|||||++.+....
T Consensus         5 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   30 (223)
T TIGR03771         5 KGELLGLLGPNGAGKTTLLRAILGLI   30 (223)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            46799999999999999999998754

This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.

>PRK04328 hypothetical protein; Provisional

Probab=97.14  E-value=0.003  Score=55.02  Aligned_cols=89  Identities=12%  Similarity=0.136  Sum_probs=54.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCcc----------------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNES----------------  227 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~----------------  227 (337)
                      ...++.|.|.+|+|||+|+.++....   ...-..++|++....  +..+.+ .+++++.....                
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~~---~~~ge~~lyis~ee~--~~~i~~-~~~~~g~d~~~~~~~~~l~iid~~~~~   95 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWNG---LQMGEPGVYVALEEH--PVQVRR-NMRQFGWDVRKYEEEGKFAIVDAFTGG   95 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH---HhcCCcEEEEEeeCC--HHHHHH-HHHHcCCCHHHHhhcCCEEEEeccccc
Confidence            57899999999999999999977664   233456788887653  333333 23333321000                


Q ss_pred             ---------c---cCCCHHHHHHHHHHHhcC-CcEEEEEecCCC
Q 045709          228 ---------W---KNKSMQEKAQEIFKILSK-KKFVLLLDDIWE  258 (337)
Q Consensus       228 ---------~---~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~  258 (337)
                               .   ...+.......+.+.+.. +.-++|+|.+..
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~vVIDSlt~  139 (249)
T PRK04328         96 IGSAAKREKYVVKDPDDVRELIDVLRQAIKDIGAKRVVIDSVST  139 (249)
T ss_pred             cccccccccccccCcccHHHHHHHHHHHHHhhCCCEEEEeChhH
Confidence                     0   112345556666666543 455899999853

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=97.14  E-value=0.0017  Score=54.54  Aligned_cols=26  Identities=31%  Similarity=0.576  Sum_probs=23.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++.+|+|.|.+|+||||+|+.++..+
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~   32 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQL   32 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            35799999999999999999999988

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=97.13  E-value=0.0032  Score=55.15  Aligned_cols=93  Identities=18%  Similarity=0.356  Sum_probs=55.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCC-cEEEEEEecCcc-CHHHHHHHHHHHhCCCCcc----ccCCCHHH-
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHF-DFVIWVVVSRDL-QLEKIQESIAKKIGLFNES----WKNKSMQE-  235 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f-~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~----~~~~~~~~-  235 (337)
                      .+...++|+|.+|+|||||++.+++..   ..+| +.++++-+.... .+.++...+...-......    ..+.+... 
T Consensus        67 g~GQr~~If~~~G~GKTtLa~~i~~~i---~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r  143 (274)
T cd01133          67 AKGGKIGLFGGAGVGKTVLIMELINNI---AKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGAR  143 (274)
T ss_pred             ccCCEEEEecCCCCChhHHHHHHHHHH---HhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHH
Confidence            356789999999999999999999988   3333 355566665543 4555555555432111100    01111111 


Q ss_pred             -----HHHHHHHHh--c-CCcEEEEEecCCC
Q 045709          236 -----KAQEIFKIL--S-KKKFVLLLDDIWE  258 (337)
Q Consensus       236 -----~~~~l~~~l--~-~k~~LlVlDdv~~  258 (337)
                           ..-.+.+++  + ++.+||++||+-.
T Consensus       144 ~~~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr  174 (274)
T cd01133         144 ARVALTGLTMAEYFRDEEGQDVLLFIDNIFR  174 (274)
T ss_pred             HHHHHHHHHHHHHHHHhcCCeEEEEEeChhH
Confidence                 122234444  3 8899999999854

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.13  E-value=0.044  Score=54.77  Aligned_cols=25  Identities=40%  Similarity=0.652  Sum_probs=22.5

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+++++|++|+||||.+.+++..+
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~  209 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARC  209 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhH
Confidence            5799999999999999999988766

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=97.12  E-value=0.0037  Score=54.64  Aligned_cols=27  Identities=30%  Similarity=0.635  Sum_probs=23.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|.+|+|||||.+.++.-.
T Consensus        24 ~~Ge~~~IvG~nGsGKSTLlk~l~Gl~   50 (255)
T cd03236          24 REGQVLGLVGPNGIGKSTALKILAGKL   50 (255)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            356799999999999999999997765

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. 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, RLIs 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.

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=97.12  E-value=0.0042  Score=61.73  Aligned_cols=27  Identities=37%  Similarity=0.533  Sum_probs=23.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|.+|+|||||.+.+....
T Consensus        27 ~~Ge~v~LvG~NGsGKSTLLriiaG~~   53 (635)
T PRK11147         27 EDNERVCLVGRNGAGKSTLMKILNGEV   53 (635)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            356789999999999999999998764

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=97.11  E-value=0.0043  Score=52.23  Aligned_cols=27  Identities=33%  Similarity=0.452  Sum_probs=24.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|.+|+|||||++.+....
T Consensus        31 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~   57 (202)
T cd03233          31 KPGEMVLVLGRPGSGCSTLLKALANRT   57 (202)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHhcccC
Confidence            356799999999999999999998765

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.11  E-value=0.0032  Score=55.91  Aligned_cols=88  Identities=24%  Similarity=0.302  Sum_probs=48.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc-CHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL-QLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFK  242 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  242 (337)
                      +..++.|+|++|+||||++..++..+. ....-..+..++..... .....+......++.+..  ...+...+...+. 
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~-~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~--~~~~~~~l~~~l~-  268 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFV-LEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVK--VARDPKELRKALD-  268 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HHcCCCeEEEEECCccchhHHHHHHHHHHHhCCcee--ccCCHHHHHHHHH-
Confidence            457999999999999999999988772 11112345666654321 122333334444444321  2233444443333 


Q ss_pred             HhcCCcEEEEEecC
Q 045709          243 ILSKKKFVLLLDDI  256 (337)
Q Consensus       243 ~l~~k~~LlVlDdv  256 (337)
                      .+.+ .=+|++|..
T Consensus       269 ~~~~-~d~vliDt~  281 (282)
T TIGR03499       269 RLRD-KDLILIDTA  281 (282)
T ss_pred             HccC-CCEEEEeCC
Confidence            3333 347777753

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.10  E-value=0.00094  Score=55.21  Aligned_cols=23  Identities=35%  Similarity=0.442  Sum_probs=21.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +|.|+|++|+||||+|+.+...+
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            57899999999999999998876

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>PRK14974 cell division protein FtsY; Provisional

Probab=97.10  E-value=0.0071  Score=54.85  Aligned_cols=92  Identities=18%  Similarity=0.144  Sum_probs=48.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc-cCHHHHHHHHHHHhCCCCcc-ccCCCHHHHHHH-H
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD-LQLEKIQESIAKKIGLFNES-WKNKSMQEKAQE-I  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~~~~-l  240 (337)
                      +..++.++|++|+||||++..++..+.  ...+ .++.+..... .....-+...+..++.+... ....+....... +
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~--~~g~-~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai  215 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLK--KNGF-SVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAI  215 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH--HcCC-eEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHH
Confidence            467999999999999999998888772  2233 3444443211 12223345566666543211 122233332222 2


Q ss_pred             HHHhcCCcEEEEEecCCC
Q 045709          241 FKILSKKKFVLLLDDIWE  258 (337)
Q Consensus       241 ~~~l~~k~~LlVlDdv~~  258 (337)
                      ........-++++|..-.
T Consensus       216 ~~~~~~~~DvVLIDTaGr  233 (336)
T PRK14974        216 EHAKARGIDVVLIDTAGR  233 (336)
T ss_pred             HHHHhCCCCEEEEECCCc
Confidence            221222223888887644

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=97.10  E-value=0.0052  Score=56.11  Aligned_cols=27  Identities=30%  Similarity=0.397  Sum_probs=24.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||.+.+....
T Consensus        65 ~~Gei~gLlGpNGaGKSTLl~~L~Gl~   91 (340)
T PRK13536         65 ASGECFGLLGPNGAGKSTIARMILGMT   91 (340)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            357899999999999999999998755

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=97.10  E-value=0.02  Score=49.04  Aligned_cols=151  Identities=17%  Similarity=0.236  Sum_probs=83.6

Q ss_pred             cCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEec-CccCHHHHHHHHHHHhCCCCccccCC-CHHHHHHH
Q 045709          162 EEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVS-RDLQLEKIQESIAKKIGLFNESWKNK-SMQEKAQE  239 (337)
Q Consensus       162 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~~~~~~~-~~~~~~~~  239 (337)
                      ..+.+++.++|.-|+|||.+.+.+....   .+.-.++  +.++ +..+...+...++..+.... .+... ..+...+.
T Consensus        48 ~d~qg~~~vtGevGsGKTv~~Ral~~s~---~~d~~~~--v~i~~~~~s~~~~~~ai~~~l~~~p-~~~~~~~~e~~~~~  121 (269)
T COG3267          48 ADGQGILAVTGEVGSGKTVLRRALLASL---NEDQVAV--VVIDKPTLSDATLLEAIVADLESQP-KVNVNAVLEQIDRE  121 (269)
T ss_pred             hcCCceEEEEecCCCchhHHHHHHHHhc---CCCceEE--EEecCcchhHHHHHHHHHHHhccCc-cchhHHHHHHHHHH
Confidence            3456799999999999999999665554   2222222  3333 34567778888888887622 11111 22333344


Q ss_pred             HHHHh-cCCc-EEEEEecCCCcc--ccccccCCC---CCCCCCCcEEEEeeCCh-------hHHhhcc-CCce-eecCCC
Q 045709          240 IFKIL-SKKK-FVLLLDDIWELV--DLDQVGLPI---PSRTSVSNKVVFTTREF-------GVCGQME-AHRS-FKVECL  303 (337)
Q Consensus       240 l~~~l-~~k~-~LlVlDdv~~~~--~~~~l~~~l---~~~~~g~s~IiiTtr~~-------~v~~~~~-~~~~-~~l~~L  303 (337)
                      +.... ++++ ..+++||.+...  .++.++...   .+.... -+|+..-..+       .+..... .... |+++|+
T Consensus       122 L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~-l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~  200 (269)
T COG3267         122 LAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKL-LSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPL  200 (269)
T ss_pred             HHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCc-eeeeecCCcccchhhchHHHHhhhheEEEEEecCCc
Confidence            44444 4666 899999987642  222221111   111111 1233322210       1111111 1233 899999


Q ss_pred             CHHHHHHHHhHhhCCC
Q 045709          304 RYDDAWKLFEQKVGAD  319 (337)
Q Consensus       304 ~~~ea~~Lf~~~~~~~  319 (337)
                      +.++...++..+..+.
T Consensus       201 ~~~~t~~yl~~~Le~a  216 (269)
T COG3267         201 TEAETGLYLRHRLEGA  216 (269)
T ss_pred             ChHHHHHHHHHHHhcc
Confidence            9999999999887544

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=97.10  E-value=0.0044  Score=53.29  Aligned_cols=27  Identities=33%  Similarity=0.514  Sum_probs=24.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|.|++|+|||||++.+....
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l   57 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALL   57 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            457799999999999999999998877

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

Probab=97.09  E-value=0.016  Score=49.41  Aligned_cols=163  Identities=15%  Similarity=0.222  Sum_probs=91.9

Q ss_pred             ccc-chhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          146 VVG-LQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       146 ~vG-r~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+| -+..+.+|.+-+.-             .+++-+.++|++|.|||-||+.+++.-        .+.|+.+|..    
T Consensus       148 MiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahht--------~c~firvsgs----  215 (404)
T KOG0728|consen  148 MIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHHT--------DCTFIRVSGS----  215 (404)
T ss_pred             HhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhhc--------ceEEEEechH----
Confidence            455 46666666554421             356778999999999999999998765        2345566643    


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh-cCCcEEEEEecCCCccc----------------ccccc---CCCCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL-SKKKFVLLLDDIWELVD----------------LDQVG---LPIPS  271 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~----------------~~~l~---~~l~~  271 (337)
                      ++.+..+   +.         .....+.|.-.- ..-+.++..|++++...                .-++.   .-|..
T Consensus       216 elvqk~i---ge---------gsrmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfea  283 (404)
T KOG0728|consen  216 ELVQKYI---GE---------GSRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEA  283 (404)
T ss_pred             HHHHHHh---hh---------hHHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhcccccc
Confidence            2222211   10         011222222211 24577888898875411                11111   12222


Q ss_pred             CCCCCcEEEEeeCChhHHhh--cc---CCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHHHh
Q 045709          272 RTSVSNKVVFTTREFGVCGQ--ME---AHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETL  334 (337)
Q Consensus       272 ~~~g~s~IiiTtr~~~v~~~--~~---~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~i  334 (337)
                      . +. -+||+.|..-++...  +.   -+..|+.++-+++.-.++++-+.-.-+...--++..||+++
T Consensus       284 t-kn-ikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihsrkmnl~rgi~l~kiaekm  349 (404)
T KOG0728|consen  284 T-KN-IKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKMNLTRGINLRKIAEKM  349 (404)
T ss_pred             c-cc-eEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhhchhcccCHHHHHHhC
Confidence            2 33 688887765555322  12   24568888888888888887665433333345677777765

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=97.09  E-value=0.003  Score=63.04  Aligned_cols=87  Identities=15%  Similarity=0.198  Sum_probs=59.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEI  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  240 (337)
                      ..+++-|+|.+|+|||||+..++....   ..-..++|+.....++.     ..+++++...+..   ...+.+.....+
T Consensus        59 ~GsiteI~G~~GsGKTtLal~~~~~a~---~~G~~v~yId~E~t~~~-----~~A~~lGvDl~~llv~~~~~~E~~l~~i  130 (790)
T PRK09519         59 RGRVIEIYGPESSGKTTVALHAVANAQ---AAGGVAAFIDAEHALDP-----DYAKKLGVDTDSLLVSQPDTGEQALEIA  130 (790)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEECCccchhH-----HHHHHcCCChhHeEEecCCCHHHHHHHH
Confidence            578999999999999999988766652   23356789988776663     3666776643221   233455556666


Q ss_pred             HHHhc-CCcEEEEEecCCC
Q 045709          241 FKILS-KKKFVLLLDDIWE  258 (337)
Q Consensus       241 ~~~l~-~k~~LlVlDdv~~  258 (337)
                      ...+. ++.-|||+|.+..
T Consensus       131 ~~lv~~~~~~LVVIDSI~a  149 (790)
T PRK09519        131 DMLIRSGALDIVVIDSVAA  149 (790)
T ss_pred             HHHhhcCCCeEEEEcchhh
Confidence            66554 4566899999863

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=97.08  E-value=0.0031  Score=54.52  Aligned_cols=27  Identities=37%  Similarity=0.479  Sum_probs=23.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|.+|+|||||.+.+....
T Consensus        24 ~~Ge~~~l~G~nGsGKSTLl~~i~G~~   50 (237)
T TIGR00968        24 PTGSLVALLGPSGSGKSTLLRIIAGLE   50 (237)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            356899999999999999999998754

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

Probab=97.07  E-value=0.0021  Score=62.29  Aligned_cols=74  Identities=27%  Similarity=0.257  Sum_probs=49.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc--CHHHHHHHHHHHhCCCCccccCCCHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL--QLEKIQESIAKKIGLFNESWKNKSMQEKAQEIF  241 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  241 (337)
                      ..+-|.|.|..|+|||+|++.+++.+.  ++..-.+.+++++.-.  .+..++..+-                   ..+.
T Consensus       430 ~~~~Ill~G~~GsGKT~L~kal~~~~~--k~~~~hv~~v~Cs~l~~~~~e~iQk~l~-------------------~vfs  488 (952)
T KOG0735|consen  430 RHGNILLNGPKGSGKTNLVKALFDYYS--KDLIAHVEIVSCSTLDGSSLEKIQKFLN-------------------NVFS  488 (952)
T ss_pred             ccccEEEeCCCCCCHhHHHHHHHHHhc--cccceEEEEEechhccchhHHHHHHHHH-------------------HHHH
Confidence            456788999999999999999999983  5555566777766421  1222211111                   1223


Q ss_pred             HHhcCCcEEEEEecCCC
Q 045709          242 KILSKKKFVLLLDDIWE  258 (337)
Q Consensus       242 ~~l~~k~~LlVlDdv~~  258 (337)
                      ..+...+-++||||++.
T Consensus       489 e~~~~~PSiIvLDdld~  505 (952)
T KOG0735|consen  489 EALWYAPSIIVLDDLDC  505 (952)
T ss_pred             HHHhhCCcEEEEcchhh
Confidence            34556788999999974

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=97.07  E-value=0.0063  Score=51.40  Aligned_cols=27  Identities=26%  Similarity=0.468  Sum_probs=23.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|.|.+|+|||||++.+....
T Consensus        32 ~~G~~~~i~G~nGsGKSTLl~~l~Gl~   58 (207)
T cd03369          32 KAGEKIGIVGRTGAGKSTLILALFRFL   58 (207)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            356899999999999999999997654

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=97.07  E-value=0.00023  Score=59.16  Aligned_cols=117  Identities=17%  Similarity=0.121  Sum_probs=56.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhhc-cCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc-cCCCHHHHHHHHHHHh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRFF-DTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW-KNKSMQEKAQEIFKIL  244 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~~-~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~~~l  244 (337)
                      ++.|.|.+|.||||+.+.+.-... ...+.|   +|  ... .. -.....++..++...... ...+...-...+...+
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~~~~la~~G~~---v~--a~~-~~-~~~~d~il~~~~~~d~~~~~~s~fs~~~~~l~~~l   73 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGLIVIMAQIGSF---VP--AES-AE-LPVFDRIFTRIGASDSLAQGLSTFMVEMKETANIL   73 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHHHHHHhCCC---ee--ehh-eE-ecccceEEEEeCCCCchhccccHHHHHHHHHHHHH
Confidence            467999999999999999873221 001111   11  100 00 000011111111110000 1112222233344444


Q ss_pred             cC--CcEEEEEecCCCccccc-------cccCCCCCCCCCCcEEEEeeCChhHHhhc
Q 045709          245 SK--KKFVLLLDDIWELVDLD-------QVGLPIPSRTSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       245 ~~--k~~LlVlDdv~~~~~~~-------~l~~~l~~~~~g~s~IiiTtr~~~v~~~~  292 (337)
                      ..  ++-|+++|+.-...+..       .+...+.. ..+ +.+|++|+..++...+
T Consensus        74 ~~~~~~~llllDEp~~g~d~~~~~~~~~~~l~~l~~-~~~-~~iii~TH~~~l~~~~  128 (185)
T smart00534       74 KNATENSLVLLDELGRGTSTYDGVAIAAAVLEYLLE-KIG-ALTLFATHYHELTKLA  128 (185)
T ss_pred             HhCCCCeEEEEecCCCCCCHHHHHHHHHHHHHHHHh-cCC-CeEEEEecHHHHHHHh
Confidence            43  78999999986543321       11111211 135 7899999998876544

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=97.06  E-value=0.0015  Score=58.59  Aligned_cols=38  Identities=24%  Similarity=0.270  Sum_probs=31.9

Q ss_pred             cchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHH
Q 045709          148 GLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQI  185 (337)
Q Consensus       148 Gr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v  185 (337)
                      +|..+..--+++|..+....|.+.|.+|.|||-||...
T Consensus       228 prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaA  265 (436)
T COG1875         228 PRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAA  265 (436)
T ss_pred             cccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHH
Confidence            46666666678888899999999999999999888664

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

Probab=97.05  E-value=0.01  Score=53.75  Aligned_cols=26  Identities=27%  Similarity=0.209  Sum_probs=23.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+-|.++|++|.|||-||+.|+...
T Consensus       244 PWkgvLm~GPPGTGKTlLAKAvATEc  269 (491)
T KOG0738|consen  244 PWKGVLMVGPPGTGKTLLAKAVATEC  269 (491)
T ss_pred             ccceeeeeCCCCCcHHHHHHHHHHhh
Confidence            45678999999999999999999988

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=97.05  E-value=0.0039  Score=52.43  Aligned_cols=27  Identities=30%  Similarity=0.342  Sum_probs=23.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|.+|+|||||.+.+....
T Consensus        24 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (201)
T cd03231          24 AAGEALQVTGPNGSGKTTLLRILAGLS   50 (201)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            357899999999999999999997754

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

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

Probab=97.05  E-value=0.009  Score=58.56  Aligned_cols=93  Identities=18%  Similarity=0.209  Sum_probs=58.8

Q ss_pred             CccccchhhHHHHHHHHhc---------C---CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCLME---------E---HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~---------~---~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .++=|-++.+..|.+-+.-         .   +..-|.++|++|.|||-||+.|+..+   .-     -|+++..+    
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEc---sL-----~FlSVKGP----  739 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATEC---SL-----NFLSVKGP----  739 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhc---ee-----eEEeecCH----
Confidence            4455778888888776532         1   35678899999999999999998887   22     34455443    


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCc
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWEL  259 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~  259 (337)
                      +++..-           -..+.+.+.+.+.+.=.-++|+|.||++++.
T Consensus       740 ELLNMY-----------VGqSE~NVR~VFerAR~A~PCVIFFDELDSl  776 (953)
T KOG0736|consen  740 ELLNMY-----------VGQSEENVREVFERARSAAPCVIFFDELDSL  776 (953)
T ss_pred             HHHHHH-----------hcchHHHHHHHHHHhhccCCeEEEecccccc
Confidence            222111           1122222333333333468999999999864

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

Probab=97.05  E-value=0.0078  Score=59.43  Aligned_cols=152  Identities=14%  Similarity=0.193  Sum_probs=85.0

Q ss_pred             ccccchh---hHHHHHHHHhcC---------CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHH
Q 045709          145 TVVGLQL---TFDRVWRCLMEE---------HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEK  212 (337)
Q Consensus       145 ~~vGr~~---~~~~l~~~L~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~  212 (337)
                      ++.|-++   ++.++++.|.++         -++=+.++|++|+|||-||+.++...   .-.     |++++..     
T Consensus       312 DVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA---gVP-----F~svSGS-----  378 (774)
T KOG0731|consen  312 DVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA---GVP-----FFSVSGS-----  378 (774)
T ss_pred             cccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc---CCc-----eeeechH-----
Confidence            4667665   455566666653         24568899999999999999998876   223     3444432     


Q ss_pred             HHHHHHHHhCCCCccccCCCHHHHHHHHHHHh-cCCcEEEEEecCCCcc-----------------ccccccCCCCCCCC
Q 045709          213 IQESIAKKIGLFNESWKNKSMQEKAQEIFKIL-SKKKFVLLLDDIWELV-----------------DLDQVGLPIPSRTS  274 (337)
Q Consensus       213 ~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~-----------------~~~~l~~~l~~~~~  274 (337)
                         ++++.+....        ..+.+.|...- ...++++.+|+++...                 .+.++...+.....
T Consensus       379 ---EFvE~~~g~~--------asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~  447 (774)
T KOG0731|consen  379 ---EFVEMFVGVG--------ASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFET  447 (774)
T ss_pred             ---HHHHHhcccc--------hHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcC
Confidence               2222221110        12233333332 3568899999886431                 13333222221122


Q ss_pred             CCcEEEE-eeCChhHHhh--cc---CCceeecCCCCHHHHHHHHhHhhCCCC
Q 045709          275 VSNKVVF-TTREFGVCGQ--ME---AHRSFKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       275 g~s~Iii-Ttr~~~v~~~--~~---~~~~~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      .+.-|++ +|...++.+.  +.   -+..+.++.-+.....++|.-++....
T Consensus       448 ~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~  499 (774)
T KOG0731|consen  448 SKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKK  499 (774)
T ss_pred             CCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccC
Confidence            2023333 4444444221  11   246788888888999999998886544

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=97.05  E-value=0.0024  Score=53.71  Aligned_cols=26  Identities=31%  Similarity=0.470  Sum_probs=23.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      ....+++|+|.+|+|||||.+.+...
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          24 KKGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            35679999999999999999999876

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=97.04  E-value=0.006  Score=52.45  Aligned_cols=49  Identities=16%  Similarity=0.230  Sum_probs=33.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESI  217 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  217 (337)
                      ...++.|.|.+|+|||||+.+++....  +.. ..++|++...  +..++++.+
T Consensus        23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~--~~g-~~~~yi~~e~--~~~~~~~~~   71 (230)
T PRK08533         23 AGSLILIEGDESTGKSILSQRLAYGFL--QNG-YSVSYVSTQL--TTTEFIKQM   71 (230)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH--hCC-CcEEEEeCCC--CHHHHHHHH
Confidence            467999999999999999877666552  122 4456666433  455666655

>PRK06547 hypothetical protein; Provisional

Probab=97.04  E-value=0.0011  Score=54.14  Aligned_cols=33  Identities=30%  Similarity=0.192  Sum_probs=27.5

Q ss_pred             HHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          157 WRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       157 ~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+......+|+|.|.+|+||||+|+.+....
T Consensus         7 ~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547          7 AARLCGGGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             HHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            334455678899999999999999999998865

>PRK13409 putative ATPase RIL; Provisional

Probab=97.04  E-value=0.006  Score=59.91  Aligned_cols=27  Identities=26%  Similarity=0.592  Sum_probs=23.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|.+|+|||||++.+....
T Consensus        97 ~~Gev~gLvG~NGaGKSTLlkiL~G~l  123 (590)
T PRK13409         97 KEGKVTGILGPNGIGKTTAVKILSGEL  123 (590)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            356799999999999999999997754

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=97.03  E-value=0.0057  Score=53.01  Aligned_cols=26  Identities=27%  Similarity=0.434  Sum_probs=23.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+++|+|.+|+|||||.+.++...
T Consensus        27 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   52 (242)
T TIGR03411        27 PGELRVIIGPNGAGKTTMMDVITGKT   52 (242)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            56799999999999999999998754

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=97.03  E-value=0.0055  Score=54.39  Aligned_cols=27  Identities=22%  Similarity=0.266  Sum_probs=23.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+.+|+|.|.+|+||||+|+.+..-.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll   86 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALL   86 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            356799999999999999998876655

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.03  E-value=0.0049  Score=51.90  Aligned_cols=62  Identities=16%  Similarity=0.231  Sum_probs=42.8

Q ss_pred             HHHHHHHHHHhcCCcEEEEEecCCCccccccccC------CCCCCCCCCcEEEEeeCChhHHhhccCCcee
Q 045709          234 QEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGL------PIPSRTSVSNKVVFTTREFGVCGQMEAHRSF  298 (337)
Q Consensus       234 ~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~------~l~~~~~g~s~IiiTtr~~~v~~~~~~~~~~  298 (337)
                      +.....+.+.+--++-|.|||+.++-.+.+.+..      .+.  ..+ +-+++.|+.+.++....++.+|
T Consensus       149 EkKR~EilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~lr--~~~-~~~liITHy~rll~~i~pD~vh  216 (251)
T COG0396         149 EKKRNEILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINALR--EEG-RGVLIITHYQRLLDYIKPDKVH  216 (251)
T ss_pred             hHHHHHHHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHHh--cCC-CeEEEEecHHHHHhhcCCCEEE
Confidence            3445567777777888999999998766555421      122  235 7788889999998887655544

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.02  E-value=0.003  Score=59.82  Aligned_cols=95  Identities=23%  Similarity=0.283  Sum_probs=56.2

Q ss_pred             HHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---c
Q 045709          155 RVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---K  229 (337)
Q Consensus       155 ~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~  229 (337)
                      .|-+.|..  ....++.|.|.+|+|||||+.+++....   ..-..++|++....  ...+.. -+..++...+..   .
T Consensus        68 ~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a---~~g~~vlYvs~Ees--~~qi~~-ra~rlg~~~~~l~~~~  141 (446)
T PRK11823         68 ELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLA---AAGGKVLYVSGEES--ASQIKL-RAERLGLPSDNLYLLA  141 (446)
T ss_pred             HHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEEcccc--HHHHHH-HHHHcCCChhcEEEeC
Confidence            34344443  2567999999999999999999988772   22346788876543  333322 244555422111   1


Q ss_pred             CCCHHHHHHHHHHHhcCCcEEEEEecCCC
Q 045709          230 NKSMQEKAQEIFKILSKKKFVLLLDDIWE  258 (337)
Q Consensus       230 ~~~~~~~~~~l~~~l~~k~~LlVlDdv~~  258 (337)
                      ..+.+.+...+.   ..+.-++|+|.+..
T Consensus       142 e~~l~~i~~~i~---~~~~~lVVIDSIq~  167 (446)
T PRK11823        142 ETNLEAILATIE---EEKPDLVVIDSIQT  167 (446)
T ss_pred             CCCHHHHHHHHH---hhCCCEEEEechhh
Confidence            233443333332   23566999999864

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=97.01  E-value=0.0049  Score=52.60  Aligned_cols=23  Identities=30%  Similarity=0.475  Sum_probs=21.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l   23 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALL   23 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999877

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=97.00  E-value=0.0043  Score=53.44  Aligned_cols=26  Identities=38%  Similarity=0.428  Sum_probs=23.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|.+|+|||||.+.++...
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~g~~   50 (232)
T cd03300          25 EGEFFTLLGPSGCGKTTLLRLIAGFE   50 (232)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            56799999999999999999998765

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=97.00  E-value=0.0037  Score=52.47  Aligned_cols=25  Identities=24%  Similarity=0.247  Sum_probs=21.7

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+++|+|++|.|||||.+.+....
T Consensus        25 g~~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          25 KNGILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             CcEEEEECCCCCChHHHHHHHHHHH
Confidence            3899999999999999999987543

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

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.00  E-value=0.00068  Score=52.25  Aligned_cols=22  Identities=36%  Similarity=0.788  Sum_probs=20.1

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.|.|.+|+||||+|+.+....
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999998874

...

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.00  E-value=0.02  Score=51.57  Aligned_cols=152  Identities=10%  Similarity=0.058  Sum_probs=78.6

Q ss_pred             hhHHHHHHHHhcCCC-eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCC-----
Q 045709          151 LTFDRVWRCLMEEHA-GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLF-----  224 (337)
Q Consensus       151 ~~~~~l~~~L~~~~~-~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~-----  224 (337)
                      ...+.+...+..++. ..+.++|+.|+||+++|..++....- .....+-       .   ......+. ...-+     
T Consensus        11 ~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC-~~~~~~~-------~---c~~c~~~~-~g~HPD~~~i   78 (319)
T PRK08769         11 RAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLA-SGPDPAA-------A---QRTRQLIA-AGTHPDLQLV   78 (319)
T ss_pred             HHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhC-CCCCCCC-------c---chHHHHHh-cCCCCCEEEE
Confidence            445667777766554 46889999999999999999876621 1111100       0   00000010 00000     


Q ss_pred             --CccccC-----CCHHHHHHHHHHHh-----cCCcEEEEEecCCCccc--cccccCCCCCCCCCCcEEEEeeCCh-hHH
Q 045709          225 --NESWKN-----KSMQEKAQEIFKIL-----SKKKFVLLLDDIWELVD--LDQVGLPIPSRTSVSNKVVFTTREF-GVC  289 (337)
Q Consensus       225 --~~~~~~-----~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~~--~~~l~~~l~~~~~g~s~IiiTtr~~-~v~  289 (337)
                        .+....     .-..+.++.+.+.+     .+++-++|||+++....  -..+...+-.-..+ +.+|++|.+. .+.
T Consensus        79 ~~~p~~~~~k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~-~~fiL~~~~~~~lL  157 (319)
T PRK08769         79 SFIPNRTGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPG-RYLWLISAQPARLP  157 (319)
T ss_pred             ecCCCcccccccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCC-CeEEEEECChhhCc
Confidence              000000     00122233333433     24556999999986532  22222222111234 6777777653 343


Q ss_pred             hhc-cCCceeecCCCCHHHHHHHHhHh
Q 045709          290 GQM-EAHRSFKVECLRYDDAWKLFEQK  315 (337)
Q Consensus       290 ~~~-~~~~~~~l~~L~~~ea~~Lf~~~  315 (337)
                      ..+ +....+.+.+++.+++.+.+...
T Consensus       158 pTIrSRCq~i~~~~~~~~~~~~~L~~~  184 (319)
T PRK08769        158 ATIRSRCQRLEFKLPPAHEALAWLLAQ  184 (319)
T ss_pred             hHHHhhheEeeCCCcCHHHHHHHHHHc
Confidence            332 23457899999999998888754

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.99  E-value=0.0037  Score=60.84  Aligned_cols=47  Identities=19%  Similarity=0.174  Sum_probs=38.6

Q ss_pred             CCccccchhhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          143 PPTVVGLQLTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...++|....+.++.+.+..  .....|.|+|.+|+|||++|+.+++..
T Consensus       195 ~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s  243 (534)
T TIGR01817       195 EDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLS  243 (534)
T ss_pred             cCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhC
Confidence            35689999999988887753  344567899999999999999998875

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.

>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional

Probab=96.99  E-value=0.006  Score=58.29  Aligned_cols=123  Identities=15%  Similarity=0.138  Sum_probs=66.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEE-----------ecCccCHHHH------------------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVV-----------VSRDLQLEKI------------------  213 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~-----------~~~~~~~~~~------------------  213 (337)
                      ....+++|+|.+|+|||||++.++.....    ....+++.           .....++.+.                  
T Consensus        48 ~~GEivgIiGpNGSGKSTLLkiLaGLl~P----~sGeI~I~G~~~~i~~~~~l~~~lTV~EnL~l~~~~~~~~~~e~~e~  123 (549)
T PRK13545         48 PEGEIVGIIGLNGSGKSTLSNLIAGVTMP----NKGTVDIKGSAALIAISSGLNGQLTGIENIELKGLMMGLTKEKIKEI  123 (549)
T ss_pred             eCCCEEEEEcCCCCCHHHHHHHHhCCCCC----CceEEEECCEeeeEEeccccCCCCcHHHHHHhhhhhcCCCHHHHHHH
Confidence            35789999999999999999999876521    11122211           0111111111                  


Q ss_pred             HHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc---cccCCCCC-CCCCCcEEEEeeCC
Q 045709          214 QESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD---QVGLPIPS-RTSVSNKVVFTTRE  285 (337)
Q Consensus       214 ~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~-~~~g~s~IiiTtr~  285 (337)
                      ...++..++...   ......+..+..+. |...|...+-+|+||+.-+..+..   .+...+.. ...| ..||++|++
T Consensus       124 i~elLe~lgL~~~ld~~~~~LSGGQrQRVaLArAL~~~P~LLLLDEPTsgLD~~sr~~LlelL~el~~~G-~TIIIVSHd  202 (549)
T PRK13545        124 IPEIIEFADIGKFIYQPVKTYSSGMKSRLGFAISVHINPDILVIDEALSVGDQTFTKKCLDKMNEFKEQG-KTIFFISHS  202 (549)
T ss_pred             HHHHHHHcCChhHhhCCcccCCHHHHHHHHHHHHHHhCCCEEEEECCcccCCHHHHHHHHHHHHHHHhCC-CEEEEEECC
Confidence            122333343321   11233444444443 556667788899999986653322   11111111 1235 789999998


Q ss_pred             hhHHh
Q 045709          286 FGVCG  290 (337)
Q Consensus       286 ~~v~~  290 (337)
                      .....
T Consensus       203 l~~i~  207 (549)
T PRK13545        203 LSQVK  207 (549)
T ss_pred             HHHHH
Confidence            76543

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.98  E-value=0.0055  Score=56.29  Aligned_cols=26  Identities=38%  Similarity=0.585  Sum_probs=23.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.++|+++|++|+||||++..++..+
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L  265 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQF  265 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHH
Confidence            34799999999999999999998877

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

Probab=96.98  E-value=0.0025  Score=59.52  Aligned_cols=47  Identities=19%  Similarity=0.200  Sum_probs=36.2

Q ss_pred             CCccccchhhHHHHHHHHhc-------C---------CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          143 PPTVVGLQLTFDRVWRCLME-------E---------HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~-------~---------~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...++|.+..++.+...+.+       .         ..+.+.++|++|+|||+||+.+....
T Consensus        70 ~~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l  132 (412)
T PRK05342         70 DQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARIL  132 (412)
T ss_pred             hhHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHh
Confidence            34589999888877555421       0         23568999999999999999998776

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=96.98  E-value=0.0011  Score=60.62  Aligned_cols=114  Identities=14%  Similarity=0.154  Sum_probs=64.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFK  242 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  242 (337)
                      .....+.|.|+.|+||||+++.+.+..   ..+....++. +.++.  +-..... ..+ ..... ...........++.
T Consensus       120 ~~~g~ili~G~tGSGKTT~l~al~~~i---~~~~~~~i~t-iEdp~--E~~~~~~-~~~-i~q~e-vg~~~~~~~~~l~~  190 (343)
T TIGR01420       120 RPRGLILVTGPTGSGKSTTLASMIDYI---NKNAAGHIIT-IEDPI--EYVHRNK-RSL-INQRE-VGLDTLSFANALRA  190 (343)
T ss_pred             hcCcEEEEECCCCCCHHHHHHHHHHhh---CcCCCCEEEE-EcCCh--hhhccCc-cce-EEccc-cCCCCcCHHHHHHH
Confidence            346899999999999999999988776   3333334443 22211  1000000 000 00000 11112234555777


Q ss_pred             HhcCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHH
Q 045709          243 ILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVC  289 (337)
Q Consensus       243 ~l~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~  289 (337)
                      .|+..+=.|++|++.+.+.+.....   ....| ..|+.|....+..
T Consensus       191 ~lr~~pd~i~vgEird~~~~~~~l~---aa~tG-h~v~~T~Ha~~~~  233 (343)
T TIGR01420       191 ALREDPDVILIGEMRDLETVELALT---AAETG-HLVFGTLHTNSAA  233 (343)
T ss_pred             hhccCCCEEEEeCCCCHHHHHHHHH---HHHcC-CcEEEEEcCCCHH
Confidence            8888899999999987766554322   22345 5677777665443

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.98  E-value=0.0066  Score=53.55  Aligned_cols=39  Identities=23%  Similarity=0.428  Sum_probs=29.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEec
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVS  205 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~  205 (337)
                      +.+++.++|++|+||||++..++..+ .  ..-..+.+++..
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l-~--~~g~~V~li~~D  109 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKL-K--KQGKSVLLAAGD  109 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH-H--hcCCEEEEEeCC
Confidence            46899999999999999999998877 2  222356666654

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.97  E-value=0.0016  Score=53.60  Aligned_cols=23  Identities=26%  Similarity=0.502  Sum_probs=21.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|.|.+|+||||+|+.+.+.+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999986

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.97  E-value=0.0011  Score=52.43  Aligned_cols=25  Identities=40%  Similarity=0.521  Sum_probs=22.7

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..-|.|.|++|+||||+++.+.+..
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHH
Confidence            3568999999999999999999888

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=96.97  E-value=0.0076  Score=51.73  Aligned_cols=27  Identities=30%  Similarity=0.469  Sum_probs=23.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|.+|+|||||++.+....
T Consensus        27 ~~G~~~~i~G~nGsGKSTLl~~l~G~~   53 (229)
T cd03254          27 KPGETVAIVGPTGAGKTTLINLLMRFY   53 (229)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            356789999999999999999998765

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=96.96  E-value=0.0073  Score=52.95  Aligned_cols=40  Identities=18%  Similarity=0.297  Sum_probs=31.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      ...++.|.|.+|+|||+|+.+++....   ..-..++|++...
T Consensus        35 ~gs~~lI~G~pGtGKT~l~~qf~~~~a---~~Ge~vlyis~Ee   74 (259)
T TIGR03878        35 AYSVINITGVSDTGKSLMVEQFAVTQA---SRGNPVLFVTVES   74 (259)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH---hCCCcEEEEEecC
Confidence            578999999999999999999876652   2344677888764

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.96  E-value=0.0085  Score=51.84  Aligned_cols=174  Identities=10%  Similarity=0.143  Sum_probs=96.7

Q ss_pred             cccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccC---CCCCcEEEEEEecCc----------c----
Q 045709          146 VVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDT---PNHFDFVIWVVVSRD----------L----  208 (337)
Q Consensus       146 ~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~~~~~----------~----  208 (337)
                      +.++++....+.+.......+-+.++|++|.||-|.+..+.++....   +-.-+..-|.+.+..          +    
T Consensus        15 l~~~~e~~~~Lksl~~~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yHlEi   94 (351)
T KOG2035|consen   15 LIYHEELANLLKSLSSTGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYHLEI   94 (351)
T ss_pred             cccHHHHHHHHHHhcccCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccceEEe
Confidence            56677777777776655678899999999999999988888776421   112334444433322          0    


Q ss_pred             -------CHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcE-EEEEecCCCc--cccccccCCCCCCCCCCcE
Q 045709          209 -------QLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKF-VLLLDDIWEL--VDLDQVGLPIPSRTSVSNK  278 (337)
Q Consensus       209 -------~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~-LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~  278 (337)
                             .-.-+.+++++......+-              +.-..+.| ++|+-.+++.  +....++.....-.+. +|
T Consensus        95 tPSDaG~~DRvViQellKevAQt~qi--------------e~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~-~R  159 (351)
T KOG2035|consen   95 TPSDAGNYDRVVIQELLKEVAQTQQI--------------ETQGQRPFKVVVINEADELTRDAQHALRRTMEKYSSN-CR  159 (351)
T ss_pred             ChhhcCcccHHHHHHHHHHHHhhcch--------------hhccccceEEEEEechHhhhHHHHHHHHHHHHHHhcC-ce
Confidence                   0112222333322211100              00012344 5666666543  2222232222222344 78


Q ss_pred             EEEeeCChh-HHhhccC-CceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHHHhhcC
Q 045709          279 VVFTTREFG-VCGQMEA-HRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD  337 (337)
Q Consensus       279 IiiTtr~~~-v~~~~~~-~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~i~~k  337 (337)
                      +|+...+-+ +...+.+ .-.++++..+++|-...+++.+-..+...|   ++++.+|++|
T Consensus       160 lIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp---~~~l~rIa~k  217 (351)
T KOG2035|consen  160 LILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP---KELLKRIAEK  217 (351)
T ss_pred             EEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc---HHHHHHHHHH
Confidence            887655422 2222222 245789999999999999998876664444   5677777654

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=96.96  E-value=0.0042  Score=51.35  Aligned_cols=45  Identities=24%  Similarity=0.189  Sum_probs=31.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHH
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQES  216 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  216 (337)
                      ++.|.|.+|+|||+|+.++.....   ..-..++|++...  +...+...
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~---~~g~~v~~~s~e~--~~~~~~~~   45 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGL---ARGEPGLYVTLEE--SPEELIEN   45 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH---HCCCcEEEEECCC--CHHHHHHH
Confidence            367999999999999999877762   2334577887654  34444433

A related protein is found in archaea.

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=96.96  E-value=0.0087  Score=59.52  Aligned_cols=127  Identities=19%  Similarity=0.193  Sum_probs=67.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--Cc---EEEEEEecC--cc----CHH------------HHHHHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--FD---FVIWVVVSR--DL----QLE------------KIQESIAK  219 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f~---~~~wv~~~~--~~----~~~------------~~~~~i~~  219 (337)
                      ....+++|+|++|+|||||.+.+........+.  +.   .+.|+.-..  ..    ++.            .-...++.
T Consensus       336 ~~Ge~~~l~G~NGsGKSTLlk~l~G~~~p~~G~i~~~~~~~igy~~Q~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~  415 (638)
T PRK10636        336 VPGSRIGLLGRNGAGKSTLIKLLAGELAPVSGEIGLAKGIKLGYFAQHQLEFLRADESPLQHLARLAPQELEQKLRDYLG  415 (638)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCeEEECCCEEEEEecCcchhhCCccchHHHHHHHhCchhhHHHHHHHHH
Confidence            356799999999999999999998765211121  11   122322110  00    111            11223344


Q ss_pred             HhCCCC----ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc---cccCCCCCCCCCCcEEEEeeCChhHHhh
Q 045709          220 KIGLFN----ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD---QVGLPIPSRTSVSNKVVFTTREFGVCGQ  291 (337)
Q Consensus       220 ~l~~~~----~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~~~~g~s~IiiTtr~~~v~~~  291 (337)
                      .++...    ......+..+..+. |...+..++-+|+||+.-+..+..   .+...+... .|  .||++|++......
T Consensus       416 ~~~l~~~~~~~~~~~LSgGekqRl~La~~l~~~p~lLlLDEPt~~LD~~~~~~l~~~L~~~-~g--tvi~vSHd~~~~~~  492 (638)
T PRK10636        416 GFGFQGDKVTEETRRFSGGEKARLVLALIVWQRPNLLLLDEPTNHLDLDMRQALTEALIDF-EG--ALVVVSHDRHLLRS  492 (638)
T ss_pred             HcCCChhHhcCchhhCCHHHHHHHHHHHHHhcCCCEEEEcCCCCCCCHHHHHHHHHHHHHc-CC--eEEEEeCCHHHHHH
Confidence            444421    11233444444433 555667788999999876654321   111112121 24  68889998876544


Q ss_pred             c
Q 045709          292 M  292 (337)
Q Consensus       292 ~  292 (337)
                      +
T Consensus       493 ~  493 (638)
T PRK10636        493 T  493 (638)
T ss_pred             h
Confidence            3

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=96.95  E-value=0.034  Score=50.07  Aligned_cols=154  Identities=8%  Similarity=0.018  Sum_probs=80.4

Q ss_pred             hhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCC-----
Q 045709          151 LTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLF-----  224 (337)
Q Consensus       151 ~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~-----  224 (337)
                      ...+.+.+.+..++ .+.+.+.|+.|+||+++|..+.....-. +.-..    .+    ........+.......     
T Consensus        10 ~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~-~~~~~----~C----g~C~sC~~~~~g~HPD~~~i~   80 (319)
T PRK06090         10 PVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQ-NYQSE----AC----GFCHSCELMQSGNHPDLHVIK   80 (319)
T ss_pred             HHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCC-CCCCC----CC----CCCHHHHHHHcCCCCCEEEEe
Confidence            34556666665554 4578899999999999999998766211 11000    00    0111111111110000     


Q ss_pred             Ccc-ccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCCh-hHHhhc-cC
Q 045709          225 NES-WKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREF-GVCGQM-EA  294 (337)
Q Consensus       225 ~~~-~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~-~v~~~~-~~  294 (337)
                      ... -.....++. +.+.+.+     .++.-++|+|+++...  ....+...+-.-..+ +.+|++|.+. .+...+ +.
T Consensus        81 p~~~~~~I~vdqi-R~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~-t~fiL~t~~~~~lLpTI~SR  158 (319)
T PRK06090         81 PEKEGKSITVEQI-RQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPN-CLFLLVTHNQKRLLPTIVSR  158 (319)
T ss_pred             cCcCCCcCCHHHH-HHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCC-eEEEEEECChhhChHHHHhc
Confidence            000 011222332 3333333     2445588999998653  233332223222234 6666666654 444333 33


Q ss_pred             CceeecCCCCHHHHHHHHhHh
Q 045709          295 HRSFKVECLRYDDAWKLFEQK  315 (337)
Q Consensus       295 ~~~~~l~~L~~~ea~~Lf~~~  315 (337)
                      ...+.+.+++.+++.+.+...
T Consensus       159 Cq~~~~~~~~~~~~~~~L~~~  179 (319)
T PRK06090        159 CQQWVVTPPSTAQAMQWLKGQ  179 (319)
T ss_pred             ceeEeCCCCCHHHHHHHHHHc
Confidence            467899999999999888764

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=96.94  E-value=0.00084  Score=52.96  Aligned_cols=23  Identities=35%  Similarity=0.599  Sum_probs=21.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +|.++|++|+||||+|+.+....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHS
T ss_pred             CEEEECCCCCCHHHHHHHHHHHC
Confidence            57899999999999999998776

...

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.94  E-value=0.00091  Score=56.64  Aligned_cols=27  Identities=33%  Similarity=0.541  Sum_probs=24.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+|+|.|.+|+|||||++.+...+
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            457899999999999999999998876

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.94  E-value=0.0046  Score=57.73  Aligned_cols=26  Identities=27%  Similarity=0.498  Sum_probs=23.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+|.++|.+|+||||++..++..+
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l  124 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYY  124 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999999998766

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PHA00729 NTP-binding motif containing protein

Probab=96.93  E-value=0.0014  Score=55.52  Aligned_cols=34  Identities=18%  Similarity=0.225  Sum_probs=27.9

Q ss_pred             HHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          156 VWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       156 l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.+.+...+...|.|+|.+|+||||||..+.+..
T Consensus         8 ~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~~l   41 (226)
T PHA00729          8 IVSAYNNNGFVSAVIFGKQGSGKTTYALKVARDV   41 (226)
T ss_pred             HHHHHhcCCeEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4455555566789999999999999999998875

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=96.93  E-value=0.0061  Score=55.40  Aligned_cols=44  Identities=18%  Similarity=0.200  Sum_probs=34.0

Q ss_pred             cccchhhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          146 VVGLQLTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       146 ~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++|....+.++.+.+..  ....-|.|+|.+|+||+++|+.+++..
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~s   46 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLS   46 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHhc
Confidence            46777777777666643  345667899999999999999998765

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

>TIGR00416 sms DNA repair protein RadA

Probab=96.93  E-value=0.0053  Score=58.22  Aligned_cols=96  Identities=21%  Similarity=0.259  Sum_probs=55.2

Q ss_pred             HHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---
Q 045709          154 DRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---  228 (337)
Q Consensus       154 ~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---  228 (337)
                      ..|-+.|..  ....++.|.|.+|+|||||+.++.....   ..-..++|++....  ...+.. -+..++...+..   
T Consensus        81 ~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a---~~g~kvlYvs~EEs--~~qi~~-ra~rlg~~~~~l~~~  154 (454)
T TIGR00416        81 GELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLA---KNQMKVLYVSGEES--LQQIKM-RAIRLGLPEPNLYVL  154 (454)
T ss_pred             HHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHH---hcCCcEEEEECcCC--HHHHHH-HHHHcCCChHHeEEc
Confidence            344444543  3678999999999999999999987762   22235778876543  333322 223444322111   


Q ss_pred             cCCCHHHHHHHHHHHhcCCcEEEEEecCCC
Q 045709          229 KNKSMQEKAQEIFKILSKKKFVLLLDDIWE  258 (337)
Q Consensus       229 ~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~  258 (337)
                      ...+.+.+...+.   +.+.-++|+|.+..
T Consensus       155 ~e~~~~~I~~~i~---~~~~~~vVIDSIq~  181 (454)
T TIGR00416       155 SETNWEQICANIE---EENPQACVIDSIQT  181 (454)
T ss_pred             CCCCHHHHHHHHH---hcCCcEEEEecchh
Confidence            2233433333332   23566899998864

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.92  E-value=0.0034  Score=55.13  Aligned_cols=125  Identities=19%  Similarity=0.194  Sum_probs=66.7

Q ss_pred             ccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCc
Q 045709          147 VGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNE  226 (337)
Q Consensus       147 vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~  226 (337)
                      .|...+..+.+..+......++.|.|..|+||||++..+....   ...-..++.+.-+.......     ..++..   
T Consensus        62 lg~~~~~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i---~~~~~~iitiEdp~E~~~~~-----~~q~~v---  130 (264)
T cd01129          62 LGLKPENLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSEL---NTPEKNIITVEDPVEYQIPG-----INQVQV---  130 (264)
T ss_pred             cCCCHHHHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhh---CCCCCeEEEECCCceecCCC-----ceEEEe---
Confidence            4544433333344444556789999999999999999887766   22212233322111111110     011111   


Q ss_pred             cccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhH
Q 045709          227 SWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGV  288 (337)
Q Consensus       227 ~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v  288 (337)
                        ...........++..|+..+=.++++++.+.+....+....   ..| ..++-|.+..+.
T Consensus       131 --~~~~~~~~~~~l~~~lR~~PD~i~vgEiR~~e~a~~~~~aa---~tG-h~v~tTlHa~~~  186 (264)
T cd01129         131 --NEKAGLTFARGLRAILRQDPDIIMVGEIRDAETAEIAVQAA---LTG-HLVLSTLHTNDA  186 (264)
T ss_pred             --CCcCCcCHHHHHHHHhccCCCEEEeccCCCHHHHHHHHHHH---HcC-CcEEEEeccCCH
Confidence              11111234556677788888899999998876544332221   234 445555555444

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>PLN03073 ABC transporter F family; Provisional

Probab=96.92  E-value=0.0059  Score=61.29  Aligned_cols=126  Identities=20%  Similarity=0.202  Sum_probs=68.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCC-----cEEEEEEecC--ccCH----------------HHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHF-----DFVIWVVVSR--DLQL----------------EKIQESIAKK  220 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f-----~~~~wv~~~~--~~~~----------------~~~~~~i~~~  220 (337)
                      ...+++|+|.+|+|||||++.+........+..     ..+.|+.-..  ..+.                ..-...++..
T Consensus       534 ~Ge~i~LvG~NGsGKSTLLk~L~Gll~p~~G~I~~~~~~~igyv~Q~~~~~l~~~~~~~~~~~~~~~~~~~~~i~~~L~~  613 (718)
T PLN03073        534 LDSRIAMVGPNGIGKSTILKLISGELQPSSGTVFRSAKVRMAVFSQHHVDGLDLSSNPLLYMMRCFPGVPEQKLRAHLGS  613 (718)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCCCCCceEEECCceeEEEEeccccccCCcchhHHHHHHHhcCCCCHHHHHHHHHH
Confidence            567999999999999999999987652111111     1122322110  0000                1122344555


Q ss_pred             hCCCC----ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc---cccCCCCCCCCCCcEEEEeeCChhHHhhc
Q 045709          221 IGLFN----ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD---QVGLPIPSRTSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       221 l~~~~----~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~~~~g~s~IiiTtr~~~v~~~~  292 (337)
                      ++...    ......+..+..+. +...+..++-+|+||+.-+..+..   .+...+... .+  .||++|++......+
T Consensus       614 ~gl~~~~~~~~~~~LSgGqkqRvaLAraL~~~p~lLLLDEPT~~LD~~s~~~l~~~L~~~-~g--tvIivSHd~~~i~~~  690 (718)
T PLN03073        614 FGVTGNLALQPMYTLSGGQKSRVAFAKITFKKPHILLLDEPSNHLDLDAVEALIQGLVLF-QG--GVLMVSHDEHLISGS  690 (718)
T ss_pred             CCCChHHhcCCccccCHHHHHHHHHHHHHhcCCCEEEEcCCCCCCCHHHHHHHHHHHHHc-CC--EEEEEECCHHHHHHh
Confidence            55431    12234455554443 455667789999999987654322   122222211 23  688999988766543

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.92  E-value=0.0053  Score=54.16  Aligned_cols=32  Identities=31%  Similarity=0.356  Sum_probs=27.3

Q ss_pred             HHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          158 RCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       158 ~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++...+..++.|.|.+|+|||||+..+.+..
T Consensus        97 ~~~~~~~~~~v~l~G~pGsGKTTLl~~l~~~l  128 (290)
T PRK10463         97 ARFAARKQLVLNLVSSPGSGKTTLLTETLMRL  128 (290)
T ss_pred             HHHHhcCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            33444578999999999999999999999987

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=96.92  E-value=0.0068  Score=49.27  Aligned_cols=119  Identities=18%  Similarity=0.220  Sum_probs=62.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEE---EEEecCccCHHHHHHHHHHHhCCCCc--cccCCC-------
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVI---WVVVSRDLQLEKIQESIAKKIGLFNE--SWKNKS-------  232 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~---wv~~~~~~~~~~~~~~i~~~l~~~~~--~~~~~~-------  232 (337)
                      .+.|-|++..|.||||.|..+.-+..  ...+ .++   |+-..........+..+.-.+.....  .+...+       
T Consensus         5 ~Gli~v~~g~GkGKtt~a~g~a~ra~--~~g~-~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~   81 (173)
T TIGR00708         5 RGIIIVHTGNGKGKTTAAFGMALRAL--GHGK-KVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAI   81 (173)
T ss_pred             ccEEEEECCCCCChHHHHHHHHHHHH--HCCC-eEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHH
Confidence            46788898999999999999887772  2233 333   22222222333343332000000000  011111       


Q ss_pred             HHHHHHHHHHHhcCCcE-EEEEecCCCc-----cccccccCCCCCCCCCCcEEEEeeCChh
Q 045709          233 MQEKAQEIFKILSKKKF-VLLLDDIWEL-----VDLDQVGLPIPSRTSVSNKVVFTTREFG  287 (337)
Q Consensus       233 ~~~~~~~l~~~l~~k~~-LlVlDdv~~~-----~~~~~l~~~l~~~~~g~s~IiiTtr~~~  287 (337)
                      .....+..++.+...+| |||||++-..     -+.+.+...+.....+ ..||+|-|+..
T Consensus        82 ~~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~-~evVlTGR~~p  141 (173)
T TIGR00708        82 AKAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGH-QHVIITGRGCP  141 (173)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCC-CEEEEECCCCC
Confidence            12233444555555555 9999998532     2233444434444445 79999999853

Alternate name: corrinoid adenosyltransferase.

>PRK14527 adenylate kinase; Provisional

Probab=96.91  E-value=0.0016  Score=54.35  Aligned_cols=27  Identities=22%  Similarity=0.345  Sum_probs=24.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+|.|+|++|+||||+|+.+...+
T Consensus         4 ~~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          4 TKNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            356789999999999999999998776

>PRK13409 putative ATPase RIL; Provisional

Probab=96.91  E-value=0.0095  Score=58.54  Aligned_cols=128  Identities=18%  Similarity=0.202  Sum_probs=69.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--Cc-EEEEEEec----CccCHHHH-------------HHHHHHHhC
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--FD-FVIWVVVS----RDLQLEKI-------------QESIAKKIG  222 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f~-~~~wv~~~----~~~~~~~~-------------~~~i~~~l~  222 (337)
                      ....+++|+|.+|+|||||++.++.......+.  ++ .+.++.-.    ...++.+.             ..+++..++
T Consensus       363 ~~Geiv~l~G~NGsGKSTLlk~L~Gl~~p~~G~I~~~~~i~y~~Q~~~~~~~~tv~e~l~~~~~~~~~~~~~~~~L~~l~  442 (590)
T PRK13409        363 YEGEVIGIVGPNGIGKTTFAKLLAGVLKPDEGEVDPELKISYKPQYIKPDYDGTVEDLLRSITDDLGSSYYKSEIIKPLQ  442 (590)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEEeeeEEEecccccCCCCCcHHHHHHHHhhhcChHHHHHHHHHHCC
Confidence            356799999999999999999998765211111  11 11122110    11122221             233444444


Q ss_pred             CCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc------cccCCCCCCCCCCcEEEEeeCChhHHhhc
Q 045709          223 LFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD------QVGLPIPSRTSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       223 ~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~------~l~~~l~~~~~g~s~IiiTtr~~~v~~~~  292 (337)
                      ...   ......+..+.++. +...|..++-+|+||+--+..+..      ++...+.. ..| ..||++|++...+..+
T Consensus       443 l~~~~~~~~~~LSGGe~QRvaiAraL~~~p~llLLDEPt~~LD~~~~~~l~~~l~~l~~-~~g-~tviivsHD~~~~~~~  520 (590)
T PRK13409        443 LERLLDKNVKDLSGGELQRVAIAACLSRDADLYLLDEPSAHLDVEQRLAVAKAIRRIAE-ERE-ATALVVDHDIYMIDYI  520 (590)
T ss_pred             CHHHHhCCcccCCHHHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHH-hCC-CEEEEEeCCHHHHHHh
Confidence            321   11234455554443 556777888999999876553322      21111211 124 6899999987765543

>PRK07667 uridine kinase; Provisional

Probab=96.91  E-value=0.0026  Score=53.18  Aligned_cols=37  Identities=22%  Similarity=0.431  Sum_probs=28.9

Q ss_pred             HHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          153 FDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       153 ~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+.|...+..  ....+|+|.|.+|+||||+|..+....
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l   41 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENM   41 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3445555543  345799999999999999999998877

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=96.90  E-value=0.035  Score=50.56  Aligned_cols=69  Identities=9%  Similarity=0.009  Sum_probs=42.5

Q ss_pred             CCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCC-hhHHhhc-cCCceeecCCCCHHHHHHHHhHh
Q 045709          246 KKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTRE-FGVCGQM-EAHRSFKVECLRYDDAWKLFEQK  315 (337)
Q Consensus       246 ~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~-~~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~  315 (337)
                      ++.-++|+|+++...  ....+...+-.-..+ +.+|++|.+ ..+...+ +....+.+.+++.++..+.+...
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~-t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~  203 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPG-TVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQ  203 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcC-cEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHc
Confidence            445588999998652  333333333222334 666665555 4444332 33467899999999999888765

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=96.90  E-value=0.0069  Score=52.26  Aligned_cols=27  Identities=26%  Similarity=0.402  Sum_probs=23.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|.+|+|||||++.+....
T Consensus        25 ~~Ge~~~l~G~nGsGKSTLl~~i~Gl~   51 (236)
T cd03253          25 PAGKKVAIVGPSGSGKSTILRLLFRFY   51 (236)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            356899999999999999999998765

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=96.90  E-value=0.0057  Score=50.93  Aligned_cols=44  Identities=20%  Similarity=0.253  Sum_probs=30.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCC-------CCcEEEEEEecCc
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPN-------HFDFVIWVVVSRD  207 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-------~f~~~~wv~~~~~  207 (337)
                      ...++.|.|.+|+||||++..+.........       .-..++|++....
T Consensus        31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~   81 (193)
T PF13481_consen   31 RGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS   81 (193)
T ss_dssp             TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence            4568999999999999999999887732111       2236888877665

>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=96.89  E-value=0.0012  Score=58.19  Aligned_cols=55  Identities=22%  Similarity=0.305  Sum_probs=34.2

Q ss_pred             HHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHH
Q 045709          154 DRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEK  212 (337)
Q Consensus       154 ~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~  212 (337)
                      ..+++.+... .+-+.++|++|+|||++++.......  ...| ...-++.+...+...
T Consensus        23 ~~ll~~l~~~-~~pvLl~G~~GtGKT~li~~~l~~l~--~~~~-~~~~~~~s~~Tts~~   77 (272)
T PF12775_consen   23 SYLLDLLLSN-GRPVLLVGPSGTGKTSLIQNFLSSLD--SDKY-LVITINFSAQTTSNQ   77 (272)
T ss_dssp             HHHHHHHHHC-TEEEEEESSTTSSHHHHHHHHHHCST--TCCE-EEEEEES-TTHHHHH
T ss_pred             HHHHHHHHHc-CCcEEEECCCCCchhHHHHhhhccCC--cccc-ceeEeeccCCCCHHH
Confidence            4455555554 45668999999999999999887651  2222 233455555444333

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.89  E-value=0.0036  Score=50.98  Aligned_cols=26  Identities=31%  Similarity=0.404  Sum_probs=22.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...++.|.|++|+|||||++.++.+.
T Consensus         3 ~G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           3 KGLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhc
Confidence            35688999999999999999998764

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=96.88  E-value=0.0021  Score=55.12  Aligned_cols=89  Identities=21%  Similarity=0.226  Sum_probs=55.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC-CcEEEEEEecCccCHHHHHHHHHHHhCCCCc-------------ccc
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH-FDFVIWVVVSRDLQLEKIQESIAKKIGLFNE-------------SWK  229 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~-f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-------------~~~  229 (337)
                      ...++.|.|.+|+|||+|+.++.....   .. -..++|++...+  ...+.+.+- .++....             ...
T Consensus        18 ~gs~~li~G~~GsGKT~l~~q~l~~~~---~~~ge~vlyvs~ee~--~~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~   91 (226)
T PF06745_consen   18 KGSVVLISGPPGSGKTTLALQFLYNGL---KNFGEKVLYVSFEEP--PEELIENMK-SFGWDLEEYEDSGKLKIIDAFPE   91 (226)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH---HHHT--EEEEESSS---HHHHHHHHH-TTTS-HHHHHHTTSEEEEESSGG
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHhh---hhcCCcEEEEEecCC--HHHHHHHHH-HcCCcHHHHhhcCCEEEEecccc
Confidence            678999999999999999998765541   22 346778887654  344444433 3322100             001


Q ss_pred             -----CCCHHHHHHHHHHHhcC-CcEEEEEecCCC
Q 045709          230 -----NKSMQEKAQEIFKILSK-KKFVLLLDDIWE  258 (337)
Q Consensus       230 -----~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~  258 (337)
                           ..+.......+.+.++. +...+|+|.+..
T Consensus        92 ~~~~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls~  126 (226)
T PF06745_consen   92 RIGWSPNDLEELLSKIREAIEELKPDRVVIDSLSA  126 (226)
T ss_dssp             GST-TSCCHHHHHHHHHHHHHHHTSSEEEEETHHH
T ss_pred             cccccccCHHHHHHHHHHHHHhcCCCEEEEECHHH
Confidence                 34677777777777654 557999998754

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.88  E-value=0.001  Score=56.98  Aligned_cols=23  Identities=30%  Similarity=0.499  Sum_probs=21.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|+|++|+||||+|+.+...+
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            38899999999999999998876

>TIGR00235 udk uridine kinase

Probab=96.85  E-value=0.0011  Score=56.09  Aligned_cols=27  Identities=33%  Similarity=0.512  Sum_probs=24.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++..+|+|+|++|+|||||++.+....
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~l   30 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQL   30 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999998876

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.85  E-value=0.014  Score=49.45  Aligned_cols=46  Identities=26%  Similarity=0.377  Sum_probs=36.6

Q ss_pred             CccccchhhHHHHHHH----HhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRC----LMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~----L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++|.+...+.|.+-    +......-|.+||.-|.|||+|++.+.+.+
T Consensus        60 ~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~  109 (287)
T COG2607          60 ADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEY  109 (287)
T ss_pred             HHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHH
Confidence            3578887777766543    333467789999999999999999999988

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=96.85  E-value=0.0052  Score=60.58  Aligned_cols=27  Identities=30%  Similarity=0.528  Sum_probs=24.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+...++|+|.+|+|||||++.+...+
T Consensus       359 ~~G~~v~IvG~sGsGKSTLl~lL~gl~  385 (588)
T PRK13657        359 KPGQTVAIVGPTGAGKSTLINLLQRVF  385 (588)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            467889999999999999999997765

>PRK06762 hypothetical protein; Provisional

Probab=96.85  E-value=0.0011  Score=53.80  Aligned_cols=25  Identities=32%  Similarity=0.569  Sum_probs=22.7

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|.|.|++|+||||+|+.+...+
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998876

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=96.84  E-value=0.0032  Score=58.19  Aligned_cols=46  Identities=20%  Similarity=0.216  Sum_probs=37.5

Q ss_pred             CccccchhhHHHHHHHHhcC--------------CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLMEE--------------HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~--------------~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++|.++.++.+.-.+.+.              ..+.|.++|++|+|||++|+.+....
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l   71 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLA   71 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            46899998888886665531              24678999999999999999999887

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.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.84  E-value=0.0095  Score=54.51  Aligned_cols=90  Identities=19%  Similarity=0.161  Sum_probs=52.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccC-HHHHHHHHHHHhCCCCccccCCCHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQ-LEKIQESIAKKIGLFNESWKNKSMQEKAQEIFK  242 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  242 (337)
                      +.+++.++|+.|+||||++..++....   ..-..+.+++...... ..+-+....+.++.+..  ...+..++...+..
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~---~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~--~~~dp~dL~~al~~  279 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLL---KQNRTVGFITTDTFRSGAVEQFQGYADKLDVELI--VATSPAELEEAVQY  279 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEeCCccCccHHHHHHHHhhcCCCCEE--ecCCHHHHHHHHHH
Confidence            468999999999999999999987762   2223566676654322 23344455555554321  23345555444433


Q ss_pred             Hhc-CCcEEEEEecCCC
Q 045709          243 ILS-KKKFVLLLDDIWE  258 (337)
Q Consensus       243 ~l~-~k~~LlVlDdv~~  258 (337)
                      .-. +..=++++|-.-.
T Consensus       280 l~~~~~~D~VLIDTAGr  296 (407)
T PRK12726        280 MTYVNCVDHILIDTVGR  296 (407)
T ss_pred             HHhcCCCCEEEEECCCC
Confidence            321 3345777786643

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=96.84  E-value=0.0055  Score=51.22  Aligned_cols=27  Identities=30%  Similarity=0.538  Sum_probs=23.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|.|.+|+|||||.+.+..-.
T Consensus        33 ~~Ge~~~l~G~nGsGKStLl~~i~Gl~   59 (194)
T cd03213          33 KPGELTAIMGPSGAGKSTLLNALAGRR   59 (194)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            356899999999999999999997754

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>PRK11000 maltose/maltodextrin transporter ATP-binding protein; Provisional

Probab=96.83  E-value=0.0056  Score=56.58  Aligned_cols=126  Identities=22%  Similarity=0.189  Sum_probs=66.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--C------------cEEEEEEecC----ccCHH--------------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--F------------DFVIWVVVSR----DLQLE--------------  211 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f------------~~~~wv~~~~----~~~~~--------------  211 (337)
                      ...+++|+|++|+|||||++.++.-.....+.  |            ..+.++.-..    ..++.              
T Consensus        28 ~Ge~~~l~G~nGsGKSTLL~~iaGl~~p~~G~I~~~g~~i~~~~~~~~~i~~v~Q~~~l~~~~tv~eni~~~~~~~~~~~  107 (369)
T PRK11000         28 EGEFVVFVGPSGCGKSTLLRMIAGLEDITSGDLFIGEKRMNDVPPAERGVGMVFQSYALYPHLSVAENMSFGLKLAGAKK  107 (369)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCCCCceEEEECCEECCCCCHhHCCEEEEeCCcccCCCCCHHHHHHhHHhhcCCCH
Confidence            56799999999999999999998754111110  0            1122332110    01111              


Q ss_pred             ----HHHHHHHHHhCCCC---ccccCCCHHHHHH-HHHHHhcCCcEEEEEecCCCccccc---cccCCCCC--CCCCCcE
Q 045709          212 ----KIQESIAKKIGLFN---ESWKNKSMQEKAQ-EIFKILSKKKFVLLLDDIWELVDLD---QVGLPIPS--RTSVSNK  278 (337)
Q Consensus       212 ----~~~~~i~~~l~~~~---~~~~~~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~--~~~g~s~  278 (337)
                          .-..++++.++...   ......+..+.++ .|...|..++-+|+||+--+..+..   .+...+..  ...| ..
T Consensus       108 ~~~~~~~~~~l~~lgL~~~~~~~~~~LSgGq~QRvaLAraL~~~P~lLLLDEPts~LD~~~~~~l~~~L~~l~~~~g-~t  186 (369)
T PRK11000        108 EEINQRVNQVAEVLQLAHLLDRKPKALSGGQRQRVAIGRTLVAEPSVFLLDEPLSNLDAALRVQMRIEISRLHKRLG-RT  186 (369)
T ss_pred             HHHHHHHHHHHHHcCChhhhcCChhhCCHHHHHHHHHHHHHhcCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHHhC-CE
Confidence                11233444444431   1113344444443 3556677788999999876543321   11111111  1125 68


Q ss_pred             EEEeeCChhHHh
Q 045709          279 VVFTTREFGVCG  290 (337)
Q Consensus       279 IiiTtr~~~v~~  290 (337)
                      ||++|++.+.+.
T Consensus       187 vI~vTHd~~~~~  198 (369)
T PRK11000        187 MIYVTHDQVEAM  198 (369)
T ss_pred             EEEEeCCHHHHH
Confidence            889998876543

>PRK09536 btuD corrinoid ABC transporter ATPase; Reviewed

Probab=96.83  E-value=0.0093  Score=55.61  Aligned_cols=126  Identities=22%  Similarity=0.267  Sum_probs=69.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCC----------C-----C-cEEEEEEecC----ccCH------------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPN----------H-----F-DFVIWVVVSR----DLQL------------  210 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----------~-----f-~~~~wv~~~~----~~~~------------  210 (337)
                      .+..+++|+|++|+|||||.+.+........+          .     + ..+.++.-..    ..++            
T Consensus        27 ~~Geiv~liGpNGaGKSTLLk~LaGll~p~sG~I~l~G~~i~~~~~~~~~~~ig~v~q~~~l~~~~tv~e~v~~~~~~~~  106 (402)
T PRK09536         27 REGSLVGLVGPNGAGKTTLLRAINGTLTPTAGTVLVAGDDVEALSARAASRRVASVPQDTSLSFEFDVRQVVEMGRTPHR  106 (402)
T ss_pred             CCCCEEEEECCCCchHHHHHHHHhcCCCCCCcEEEECCEEcCcCCHHHHhcceEEEccCCCCCCCCCHHHHHHhccchhc
Confidence            35689999999999999999999765411010          0     0 0122221100    0011            


Q ss_pred             ----------HHHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccc------cccccCCCC
Q 045709          211 ----------EKIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVD------LDQVGLPIP  270 (337)
Q Consensus       211 ----------~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~------~~~l~~~l~  270 (337)
                                .+....+++.++...   ......+..+.++. |...|..++-+|+||+--+..+      +..+...+.
T Consensus       107 ~~~~~~~~~~~~~v~~~le~vgl~~~~~~~~~~LSgGerQRv~IArAL~~~P~iLLLDEPtsgLD~~~~~~l~~lL~~l~  186 (402)
T PRK09536        107 SRFDTWTETDRAAVERAMERTGVAQFADRPVTSLSGGERQRVLLARALAQATPVLLLDEPTASLDINHQVRTLELVRRLV  186 (402)
T ss_pred             ccccCCCHHHHHHHHHHHHHcCCchhhcCChhhCCHHHHHHHHHHHHHHcCCCEEEEECCcccCCHHHHHHHHHHHHHHH
Confidence                      122334444444431   11234455444443 5567778889999998765433      222222222


Q ss_pred             CCCCCCcEEEEeeCChhHHhh
Q 045709          271 SRTSVSNKVVFTTREFGVCGQ  291 (337)
Q Consensus       271 ~~~~g~s~IiiTtr~~~v~~~  291 (337)
                      .  .+ ..||++|++.+.+..
T Consensus       187 ~--~g-~TIIivsHdl~~~~~  204 (402)
T PRK09536        187 D--DG-KTAVAAIHDLDLAAR  204 (402)
T ss_pred             h--cC-CEEEEEECCHHHHHH
Confidence            2  35 689999998776643

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.82  E-value=0.0099  Score=57.06  Aligned_cols=99  Identities=15%  Similarity=0.112  Sum_probs=63.7

Q ss_pred             HHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCcc----
Q 045709          154 DRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNES----  227 (337)
Q Consensus       154 ~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~----  227 (337)
                      ..|-+.|..  .+..++.|.|.+|+|||||+.++.....   .+-..++|++...  +...+...+ +.++.....    
T Consensus       250 ~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~---~~ge~~~y~s~eE--s~~~i~~~~-~~lg~~~~~~~~~  323 (484)
T TIGR02655       250 VRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENAC---ANKERAILFAYEE--SRAQLLRNA-YSWGIDFEEMEQQ  323 (484)
T ss_pred             HhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEEeeC--CHHHHHHHH-HHcCCChHHHhhC
Confidence            344444544  3678999999999999999999988772   3335567776554  445555443 444432211    


Q ss_pred             ---------ccCCCHHHHHHHHHHHhcC-CcEEEEEecCCC
Q 045709          228 ---------WKNKSMQEKAQEIFKILSK-KKFVLLLDDIWE  258 (337)
Q Consensus       228 ---------~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~  258 (337)
                               ....+.++....+.+.+.. +.-++|+|.+..
T Consensus       324 g~l~~~~~~p~~~~~~~~~~~i~~~i~~~~~~~vvIDsi~~  364 (484)
T TIGR02655       324 GLLKIICAYPESAGLEDHLQIIKSEIADFKPARIAIDSLSA  364 (484)
T ss_pred             CcEEEEEcccccCChHHHHHHHHHHHHHcCCCEEEEcCHHH
Confidence                     1223446677777777754 566899999864

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.

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=96.82  E-value=0.008  Score=58.11  Aligned_cols=61  Identities=13%  Similarity=0.101  Sum_probs=44.9

Q ss_pred             CccccchhhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc
Q 045709          144 PTVVGLQLTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD  207 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~  207 (337)
                      ..++|+...+.++.+.+..  .....|.|+|..|+|||++|+.+.+...   ..-...+.+++..-
T Consensus       187 ~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~---r~~~p~v~v~c~~~  249 (509)
T PRK05022        187 GEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASP---RADKPLVYLNCAAL  249 (509)
T ss_pred             CceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCC---cCCCCeEEEEcccC
Confidence            5689999999888887754  3456788999999999999999988762   12223445555543

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.82  E-value=0.0022  Score=60.45  Aligned_cols=44  Identities=14%  Similarity=0.135  Sum_probs=38.1

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++||++.++.+...+..+  .-|.|.|++|+|||+||+.+....
T Consensus        20 ~~i~gre~vI~lll~aalag--~hVLL~GpPGTGKT~LAraLa~~~   63 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAF   63 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC--CCEEEECCCChhHHHHHHHHHHHh
Confidence            34899999999998887544  677899999999999999998876

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=96.82  E-value=0.007  Score=56.66  Aligned_cols=27  Identities=26%  Similarity=0.464  Sum_probs=23.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .....++|+|++|+||||||+.+..-.
T Consensus       360 ~~G~~lgIIGPSgSGKSTLaR~lvG~w  386 (580)
T COG4618         360 QAGEALGIIGPSGSGKSTLARLLVGIW  386 (580)
T ss_pred             cCCceEEEECCCCccHHHHHHHHHccc
Confidence            356799999999999999999986533

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=96.82  E-value=0.0012  Score=45.12  Aligned_cols=23  Identities=26%  Similarity=0.588  Sum_probs=20.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++.|.|.+|+||||+++.+.+.+
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998875

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=96.81  E-value=0.012  Score=49.60  Aligned_cols=134  Identities=19%  Similarity=0.205  Sum_probs=69.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--Cc-EEEEEEecC---------------ccCHHHHHHHHHHHhCC-
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--FD-FVIWVVVSR---------------DLQLEKIQESIAKKIGL-  223 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f~-~~~wv~~~~---------------~~~~~~~~~~i~~~l~~-  223 (337)
                      .+..+++|.|.+|+|||||++.+........+.  |+ .+.++.-..               ..+... .......++. 
T Consensus        29 ~~G~~~~i~G~nG~GKSTLl~~i~G~~~~~~G~i~~~g~i~~~~q~~~l~~~t~~enl~~~~~~~~~~-~~~~~~~~~l~  107 (204)
T cd03250          29 PKGELVAIVGPVGSGKSSLLSALLGELEKLSGSVSVPGSIAYVSQEPWIQNGTIRENILFGKPFDEER-YEKVIKACALE  107 (204)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCcCCCCCCeEEEcCEEEEEecCchhccCcHHHHhccCCCcCHHH-HHHHHHHcCcH
Confidence            467899999999999999999998865211111  11 123332110               011111 1111211111 


Q ss_pred             -----C--------CccccCCCHHHHHH-HHHHHhcCCcEEEEEecCCCcccc---ccccC-CCC-CCCCCCcEEEEeeC
Q 045709          224 -----F--------NESWKNKSMQEKAQ-EIFKILSKKKFVLLLDDIWELVDL---DQVGL-PIP-SRTSVSNKVVFTTR  284 (337)
Q Consensus       224 -----~--------~~~~~~~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~~---~~l~~-~l~-~~~~g~s~IiiTtr  284 (337)
                           .        .......+..+..+ .+...+..++-++++|+.-+..+-   +.+.. .+. ....+ ..||++|+
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~lS~G~~qrv~laral~~~p~llllDEP~~~LD~~~~~~l~~~ll~~~~~~~-~tvi~~sh  186 (204)
T cd03250         108 PDLEILPDGDLTEIGEKGINLSGGQKQRISLARAVYSDADIYLLDDPLSAVDAHVGRHIFENCILGLLLNN-KTRILVTH  186 (204)
T ss_pred             HHHHhccCcccceecCCCCcCCHHHHHHHHHHHHHhcCCCEEEEeCccccCCHHHHHHHHHHHHHHhccCC-CEEEEEeC
Confidence                 0        00112334433333 366677788999999997654332   22221 111 11235 78888888


Q ss_pred             ChhHHhhccCCceeec
Q 045709          285 EFGVCGQMEAHRSFKV  300 (337)
Q Consensus       285 ~~~v~~~~~~~~~~~l  300 (337)
                      +......  ++.++.+
T Consensus       187 ~~~~~~~--~d~i~~l  200 (204)
T cd03250         187 QLQLLPH--ADQIVVL  200 (204)
T ss_pred             CHHHHhh--CCEEEEE
Confidence            8776653  4445444

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>PTZ00301 uridine kinase; Provisional

Probab=96.81  E-value=0.0013  Score=55.67  Aligned_cols=25  Identities=32%  Similarity=0.640  Sum_probs=22.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|+|.|.+|+||||||+.+....
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l   27 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSEL   27 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHH
Confidence            5789999999999999999988765

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.81  E-value=0.0012  Score=54.65  Aligned_cols=26  Identities=27%  Similarity=0.395  Sum_probs=23.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.++|.|+|++|+||||+++.+...+
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46789999999999999999998765

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.80  E-value=0.011  Score=55.12  Aligned_cols=26  Identities=38%  Similarity=0.592  Sum_probs=22.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+++++|++|+||||++..+...+
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~~  215 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAARA  215 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999887754

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=96.80  E-value=0.0082  Score=58.13  Aligned_cols=125  Identities=16%  Similarity=0.147  Sum_probs=67.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--C---------------cEEEEEEecC----ccCH-----------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--F---------------DFVIWVVVSR----DLQL-----------  210 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f---------------~~~~wv~~~~----~~~~-----------  210 (337)
                      ....+++|+|++|+|||||++.++.......+.  +               ..+.|+.-..    ..++           
T Consensus        35 ~~Ge~~~liG~NGsGKSTLl~~l~Gl~~p~~G~i~~~g~~~~~~~~~~~~~~~i~~v~q~~~~~~~~tv~e~l~~~~~~~  114 (510)
T PRK15439         35 HAGEVHALLGGNGAGKSTLMKIIAGIVPPDSGTLEIGGNPCARLTPAKAHQLGIYLVPQEPLLFPNLSVKENILFGLPKR  114 (510)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCEECCCCCHHHHHhCCEEEEeccCccCCCCcHHHHhhcccccc
Confidence            356799999999999999999997754111110  0               0122332111    0111           


Q ss_pred             ---HHHHHHHHHHhCCCCc---cccCCCHHHHHH-HHHHHhcCCcEEEEEecCCCcccc------ccccCCCCCCCCCCc
Q 045709          211 ---EKIQESIAKKIGLFNE---SWKNKSMQEKAQ-EIFKILSKKKFVLLLDDIWELVDL------DQVGLPIPSRTSVSN  277 (337)
Q Consensus       211 ---~~~~~~i~~~l~~~~~---~~~~~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~~------~~l~~~l~~~~~g~s  277 (337)
                         .+-...++..++....   .....+..+..+ .|...|..++-+|+||+.-+..+.      ..+...+.  ..| .
T Consensus       115 ~~~~~~~~~~l~~~~l~~~~~~~~~~LSgG~~qrv~la~aL~~~p~lllLDEPt~~LD~~~~~~l~~~l~~~~--~~g-~  191 (510)
T PRK15439        115 QASMQKMKQLLAALGCQLDLDSSAGSLEVADRQIVEILRGLMRDSRILILDEPTASLTPAETERLFSRIRELL--AQG-V  191 (510)
T ss_pred             hHHHHHHHHHHHHcCCCccccCChhhCCHHHHHHHHHHHHHHcCCCEEEEECCCCCCCHHHHHHHHHHHHHHH--HCC-C
Confidence               1223345555555321   112344444433 355666778889999997665332      12211121  235 6


Q ss_pred             EEEEeeCChhHHh
Q 045709          278 KVVFTTREFGVCG  290 (337)
Q Consensus       278 ~IiiTtr~~~v~~  290 (337)
                      .||++|++.+...
T Consensus       192 tiiivtHd~~~~~  204 (510)
T PRK15439        192 GIVFISHKLPEIR  204 (510)
T ss_pred             EEEEEeCCHHHHH
Confidence            8999999876543

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.79  E-value=0.01  Score=54.97  Aligned_cols=90  Identities=19%  Similarity=0.189  Sum_probs=47.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCC-CCCcEEEEEEecCcc-CHHHHHHHHHHHhCCCCccccCCCHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTP-NHFDFVIWVVVSRDL-QLEKIQESIAKKIGLFNESWKNKSMQEKAQEIF  241 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  241 (337)
                      ...++.++|++|+||||.+..++..+.... .+-..+..+++.... ....-+...++.++.+..  ...+.......+.
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~--~~~~~~~l~~~L~  250 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVK--AIESFKDLKEEIT  250 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceE--eeCcHHHHHHHHH
Confidence            357999999999999999999988762111 122345555554321 122224444454544321  2223333333333


Q ss_pred             HHhcCCcEEEEEecCC
Q 045709          242 KILSKKKFVLLLDDIW  257 (337)
Q Consensus       242 ~~l~~k~~LlVlDdv~  257 (337)
                      ..  .+.-++++|..-
T Consensus       251 ~~--~~~DlVLIDTaG  264 (388)
T PRK12723        251 QS--KDFDLVLVDTIG  264 (388)
T ss_pred             Hh--CCCCEEEEcCCC
Confidence            22  233466666653

>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=96.79  E-value=0.0007  Score=57.06  Aligned_cols=23  Identities=26%  Similarity=0.257  Sum_probs=21.0

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      ..+++|+|++|.|||||.+.+..
T Consensus        29 ~~~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          29 GRLLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             CeEEEEECCCCCccHHHHHHHHH
Confidence            47999999999999999999984

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

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.79  E-value=0.0076  Score=60.08  Aligned_cols=27  Identities=30%  Similarity=0.444  Sum_probs=23.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +....|+|+|.+|+|||||++.+..-+
T Consensus       497 ~~Ge~vaIvG~SGsGKSTL~KLL~gly  523 (709)
T COG2274         497 PPGEKVAIVGRSGSGKSTLLKLLLGLY  523 (709)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            467899999999999999999997655

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=96.79  E-value=0.0062  Score=55.18  Aligned_cols=22  Identities=27%  Similarity=0.462  Sum_probs=20.3

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.+.|++|+||||+++.+.+..
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~l   23 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSATL   23 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999877

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.

>PRK05973 replicative DNA helicase; Provisional

Probab=96.79  E-value=0.013  Score=50.34  Aligned_cols=148  Identities=13%  Similarity=0.102  Sum_probs=74.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---------cCCCH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---------KNKSM  233 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---------~~~~~  233 (337)
                      .+..++.|.|.+|+|||+|+.++.....   ..-..++|++....  ..++...+. +++......         ...+.
T Consensus        62 ~~Gsl~LIaG~PG~GKT~lalqfa~~~a---~~Ge~vlyfSlEes--~~~i~~R~~-s~g~d~~~~~~~~~~d~~d~~~~  135 (237)
T PRK05973         62 KPGDLVLLGARPGHGKTLLGLELAVEAM---KSGRTGVFFTLEYT--EQDVRDRLR-ALGADRAQFADLFEFDTSDAICA  135 (237)
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHHH---hcCCeEEEEEEeCC--HHHHHHHHH-HcCCChHHhccceEeecCCCCCH
Confidence            3567999999999999999999877662   22345677766543  444444433 223221110         11223


Q ss_pred             HHHHHHHHHHhcCCcEEEEEecCCCcc------ccccccCCCC--CCCCCCcEEEEeeCChhHHhh-ccCCcee-ecCCC
Q 045709          234 QEKAQEIFKILSKKKFVLLLDDIWELV------DLDQVGLPIP--SRTSVSNKVVFTTREFGVCGQ-MEAHRSF-KVECL  303 (337)
Q Consensus       234 ~~~~~~l~~~l~~k~~LlVlDdv~~~~------~~~~l~~~l~--~~~~g~s~IiiTtr~~~v~~~-~~~~~~~-~l~~L  303 (337)
                      +.....+..  ..+.-++|+|.+....      ....+...+.  ....| ..||+|+....-... .+..... .| .+
T Consensus       136 ~~ii~~l~~--~~~~~lVVIDsLq~l~~~~~~~el~~~~~~Lk~~Ak~~g-itvIl~sQl~r~~e~~~~~~P~laDl-R~  211 (237)
T PRK05973        136 DYIIARLAS--APRGTLVVIDYLQLLDQRREKPDLSVQVRALKSFARERG-LIIVFISQIDRSFDPSAKPLPDIRDV-RL  211 (237)
T ss_pred             HHHHHHHHH--hhCCCEEEEEcHHHHhhcccchhHHHHHHHHHHHHHhCC-CeEEEEecCccccccCCCCCCChhhc-CC
Confidence            333333333  1234599999875331      1111100010  12345 788888764332211 1111111 11 11


Q ss_pred             CHHHHHHHHhHhhCCCC
Q 045709          304 RYDDAWKLFEQKVGADT  320 (337)
Q Consensus       304 ~~~ea~~Lf~~~~~~~~  320 (337)
                      +..--..||.+++|-.+
T Consensus       212 ~~~~d~~~f~~~~~~~~  228 (237)
T PRK05973        212 PNPLDLSLFDKACFLNN  228 (237)
T ss_pred             CChhhHHHhhhhheecC
Confidence            22333578998887554

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=96.79  E-value=0.0076  Score=58.66  Aligned_cols=126  Identities=19%  Similarity=0.265  Sum_probs=68.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--Cc---EEEEEEecC------ccCHHH-------------HHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--FD---FVIWVVVSR------DLQLEK-------------IQESIAK  219 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f~---~~~wv~~~~------~~~~~~-------------~~~~i~~  219 (337)
                      ...+++|+|++|+|||||++.++.......+.  |+   .+.|+.-..      ..++.+             ....++.
T Consensus       344 ~Ge~~~l~G~NGsGKSTLl~~i~G~~~p~~G~i~~~~~~~i~~~~q~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~  423 (530)
T PRK15064        344 AGERLAIIGENGVGKTTLLRTLVGELEPDSGTVKWSENANIGYYAQDHAYDFENDLTLFDWMSQWRQEGDDEQAVRGTLG  423 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCceEEEEEcccccccCCCCCcHHHHHHHhccCCccHHHHHHHHH
Confidence            56799999999999999999998754111111  11   123332111      012221             1233444


Q ss_pred             HhCCCC----ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc---cccCCCCCCCCCCcEEEEeeCChhHHhh
Q 045709          220 KIGLFN----ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD---QVGLPIPSRTSVSNKVVFTTREFGVCGQ  291 (337)
Q Consensus       220 ~l~~~~----~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~~~~g~s~IiiTtr~~~v~~~  291 (337)
                      .++...    ......+..+..+. +...+..++-+|+||+.-+..+..   .+...+...  + ..||++|++......
T Consensus       424 ~~~l~~~~~~~~~~~LSgGq~qrv~la~al~~~p~lllLDEPt~~LD~~~~~~l~~~l~~~--~-~tvi~vsHd~~~~~~  500 (530)
T PRK15064        424 RLLFSQDDIKKSVKVLSGGEKGRMLFGKLMMQKPNVLVMDEPTNHMDMESIESLNMALEKY--E-GTLIFVSHDREFVSS  500 (530)
T ss_pred             HcCCChhHhcCcccccCHHHHHHHHHHHHHhcCCCEEEEcCCCCCCCHHHHHHHHHHHHHC--C-CEEEEEeCCHHHHHH
Confidence            444421    11233444444333 556667788899999886653321   111112211  3 378999998876654


Q ss_pred             c
Q 045709          292 M  292 (337)
Q Consensus       292 ~  292 (337)
                      +
T Consensus       501 ~  501 (530)
T PRK15064        501 L  501 (530)
T ss_pred             h
Confidence            4

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=96.78  E-value=0.01  Score=58.02  Aligned_cols=27  Identities=30%  Similarity=0.466  Sum_probs=24.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||.+.++...
T Consensus        31 ~~Ge~~~iiG~NGsGKSTLlk~i~G~~   57 (556)
T PRK11819         31 FPGAKIGVLGLNGAGKSTLLRIMAGVD   57 (556)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            356799999999999999999998865

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=96.78  E-value=0.0033  Score=58.58  Aligned_cols=91  Identities=21%  Similarity=0.252  Sum_probs=53.4

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc-CHHHHHHHHHHHhCCCCcc----ccCCCHHH--
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL-QLEKIQESIAKKIGLFNES----WKNKSMQE--  235 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~----~~~~~~~~--  235 (337)
                      .....++|+|.+|+|||||++.+.+..     ..+.++.+-+.... .+.++...++..-+.....    ..+.+...  
T Consensus       160 ~~GqrigI~G~sG~GKSTLL~~I~~~~-----~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~  234 (444)
T PRK08972        160 GKGQRMGLFAGSGVGKSVLLGMMTRGT-----TADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRL  234 (444)
T ss_pred             cCCCEEEEECCCCCChhHHHHHhccCC-----CCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHH
Confidence            356789999999999999999997644     22455556565443 3455555554432221100    01111111  


Q ss_pred             ----HHHHHHHHh--cCCcEEEEEecCCC
Q 045709          236 ----KAQEIFKIL--SKKKFVLLLDDIWE  258 (337)
Q Consensus       236 ----~~~~l~~~l--~~k~~LlVlDdv~~  258 (337)
                          ..-.+.+++  +++.+||++||+-.
T Consensus       235 ~a~~~A~tiAEyfrd~G~~VLl~~DslTR  263 (444)
T PRK08972        235 KGCETATTIAEYFRDQGLNVLLLMDSLTR  263 (444)
T ss_pred             HHHHHHHHHHHHHHHcCCCEEEEEcChHH
Confidence                112233444  58999999999853

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.78  E-value=0.0056  Score=59.54  Aligned_cols=27  Identities=30%  Similarity=0.442  Sum_probs=24.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++...++|+|++|+|||||++.+..-+
T Consensus       359 ~~G~~vaIvG~SGsGKSTLl~lL~g~~  385 (529)
T TIGR02868       359 PPGERVAILGPSGSGKSTLLMLLTGLL  385 (529)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            467899999999999999999997765

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>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=96.77  E-value=0.0043  Score=48.73  Aligned_cols=41  Identities=34%  Similarity=0.360  Sum_probs=30.1

Q ss_pred             EEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHH
Q 045709          168 VGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQ  214 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~  214 (337)
                      |.|+|.+|+|||+||+.+++..   ...   ..-+.++...+..++.
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~---~~~---~~~i~~~~~~~~~dl~   42 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL---GRP---VIRINCSSDTTEEDLI   42 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH---TCE---EEEEE-TTTSTHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---hcc---eEEEEeccccccccce
Confidence            6799999999999999999887   222   3335677766666654

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.

>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional

Probab=96.77  E-value=0.014  Score=54.14  Aligned_cols=126  Identities=18%  Similarity=0.162  Sum_probs=66.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--C------------cEEEEEEecC----ccCH---------------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--F------------DFVIWVVVSR----DLQL---------------  210 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f------------~~~~wv~~~~----~~~~---------------  210 (337)
                      ...+++|+|++|+|||||.+.++.-.....+.  +            ..+.++.-..    ..++               
T Consensus        44 ~Ge~~~llGpsGsGKSTLLr~IaGl~~p~~G~I~i~g~~i~~~~~~~r~ig~vfQ~~~lfp~ltv~eNi~~~l~~~~~~~  123 (377)
T PRK11607         44 KGEIFALLGASGCGKSTLLRMLAGFEQPTAGQIMLDGVDLSHVPPYQRPINMMFQSYALFPHMTVEQNIAFGLKQDKLPK  123 (377)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCCCCceEEEECCEECCCCCHHHCCEEEEeCCCccCCCCCHHHHHHHHHHHcCCCH
Confidence            56799999999999999999998654110000  0            0122221100    0011               


Q ss_pred             ---HHHHHHHHHHhCCCC---ccccCCCHHHHHH-HHHHHhcCCcEEEEEecCCCcccc-------ccccCCCCCCCCCC
Q 045709          211 ---EKIQESIAKKIGLFN---ESWKNKSMQEKAQ-EIFKILSKKKFVLLLDDIWELVDL-------DQVGLPIPSRTSVS  276 (337)
Q Consensus       211 ---~~~~~~i~~~l~~~~---~~~~~~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~~-------~~l~~~l~~~~~g~  276 (337)
                         .+-...+++.++...   ......+..+.++ .|.+.|..++=+|+||+--+..+.       ..+.....  ..| 
T Consensus       124 ~~~~~~v~~~l~~l~L~~~~~~~~~~LSgGq~QRVaLARAL~~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~--~~g-  200 (377)
T PRK11607        124 AEIASRVNEMLGLVHMQEFAKRKPHQLSGGQRQRVALARSLAKRPKLLLLDEPMGALDKKLRDRMQLEVVDILE--RVG-  200 (377)
T ss_pred             HHHHHHHHHHHHHcCCchhhcCChhhCCHHHHHHHHHHHHHhcCCCEEEEeCCcccCCHHHHHHHHHHHHHHHH--hcC-
Confidence               112234444444431   1113344444433 356677788899999987654331       11211111  135 


Q ss_pred             cEEEEeeCChhHHhhc
Q 045709          277 NKVVFTTREFGVCGQM  292 (337)
Q Consensus       277 s~IiiTtr~~~v~~~~  292 (337)
                      ..+|++|++...+..+
T Consensus       201 ~tii~vTHd~~ea~~l  216 (377)
T PRK11607        201 VTCVMVTHDQEEAMTM  216 (377)
T ss_pred             CEEEEEcCCHHHHHHh
Confidence            6888899987765443

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=96.77  E-value=0.013  Score=53.97  Aligned_cols=26  Identities=38%  Similarity=0.551  Sum_probs=23.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|++|+|||||.+.++.-.
T Consensus        30 ~Ge~~~llGpsGsGKSTLLr~iaGl~   55 (362)
T TIGR03258        30 AGELLALIGKSGCGKTTLLRAIAGFV   55 (362)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            56789999999999999999998754

This ATP-binding component of an ABC transport system is found in Salmonella and Burkholderia lineages in the vicinity of enzymes for the breakdown of 2-aminoethylphosphonate.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.76  E-value=0.0089  Score=56.70  Aligned_cols=26  Identities=38%  Similarity=0.625  Sum_probs=23.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+++++|++|+||||++.+++..+
T Consensus       255 ~g~Vi~LvGpnGvGKTTTiaKLA~~~  280 (484)
T PRK06995        255 RGGVFALMGPTGVGKTTTTAKLAARC  280 (484)
T ss_pred             CCcEEEEECCCCccHHHHHHHHHHHH
Confidence            35799999999999999999998876

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=96.75  E-value=0.0064  Score=56.94  Aligned_cols=92  Identities=20%  Similarity=0.201  Sum_probs=50.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHH----
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQE----  235 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~----  235 (337)
                      .....++|+|.+|+|||||++.+....    .....+++.......++.++....+.......-.+   .+.+...    
T Consensus       163 ~~Gqri~I~G~SGsGKTTLL~~Ia~l~----~pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~  238 (450)
T PRK06002        163 CAGQRIGIFAGSGVGKSTLLAMLARAD----AFDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLA  238 (450)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCC----CCCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHH
Confidence            356789999999999999998886544    22334555544344455554444433321000000   1111111    


Q ss_pred             --HHHHHHHHh--cCCcEEEEEecCCC
Q 045709          236 --KAQEIFKIL--SKKKFVLLLDDIWE  258 (337)
Q Consensus       236 --~~~~l~~~l--~~k~~LlVlDdv~~  258 (337)
                        ..-.+.+++  +++.+||++||+-.
T Consensus       239 ~~~a~~iAEyfrd~G~~Vll~~DslTr  265 (450)
T PRK06002        239 PLTATAIAEYFRDRGENVLLIVDSVTR  265 (450)
T ss_pred             HHHHHHHHHHHHHcCCCEEEeccchHH
Confidence              112233333  48899999999853

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=96.75  E-value=0.0014  Score=55.91  Aligned_cols=121  Identities=13%  Similarity=0.053  Sum_probs=59.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc-cCCCHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW-KNKSMQEKAQEIFK  242 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~~  242 (337)
                      ...++.|.|++|.||||+.+.+......  .+-.+..|..-..    -..+.+|...++...... ...+...-...+..
T Consensus        30 ~g~~~~itG~N~~GKStll~~i~~~~~l--a~~G~~v~a~~~~----~~~~~~i~~~~~~~d~~~~~~StF~~e~~~~~~  103 (222)
T cd03287          30 GGYCQIITGPNMGGKSSYIRQVALITIM--AQIGSFVPASSAT----LSIFDSVLTRMGASDSIQHGMSTFMVELSETSH  103 (222)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHH--HhCCCEEEcCceE----EeccceEEEEecCccccccccchHHHHHHHHHH
Confidence            4578899999999999999998762211  1111112211000    000111111111111000 11122223333444


Q ss_pred             Hhc--CCcEEEEEecCCCccc-------cccccCCCCCCCCCCcEEEEeeCChhHHhhc
Q 045709          243 ILS--KKKFVLLLDDIWELVD-------LDQVGLPIPSRTSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       243 ~l~--~k~~LlVlDdv~~~~~-------~~~l~~~l~~~~~g~s~IiiTtr~~~v~~~~  292 (337)
                      .++  +++-|++||++-...+       ...+...+... .+ +.+|++|+..+++...
T Consensus       104 il~~~~~~sLvllDE~~~gT~~~d~~~i~~~il~~l~~~-~~-~~~i~~TH~~~l~~~~  160 (222)
T cd03287         104 ILSNCTSRSLVILDELGRGTSTHDGIAIAYATLHYLLEE-KK-CLVLFVTHYPSLGEIL  160 (222)
T ss_pred             HHHhCCCCeEEEEccCCCCCChhhHHHHHHHHHHHHHhc-cC-CeEEEEcccHHHHHHH
Confidence            442  5789999999754322       11122222222 35 8999999998886543

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

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.74  E-value=0.015  Score=50.39  Aligned_cols=143  Identities=13%  Similarity=0.131  Sum_probs=74.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhhccCC---------CCCcEEEEEEecCcc-CHHHHHHHHHHHhCCCC-----------
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRFFDTP---------NHFDFVIWVVVSRDL-QLEKIQESIAKKIGLFN-----------  225 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~~~~~---------~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~-----------  225 (337)
                      +..|+|++|+|||+|+..++.......         ..-..+++++...+. .+..-+..+...++...           
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~~~i~~Rl~~i~~~~~~~~~~~rl~~~~g~   82 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPREEIHRRLEAILQHLEPDDAGDRLFIDSGR   82 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCHHHHHHHHHHHHhhcCCcCcccceEEeccC
Confidence            567899999999999999987652111         112246666665543 23334444444442110           


Q ss_pred             -ccc--cC---CCHHHHHHHHHHHh-cCCcEEEEEecCCC--------ccccccccCCCCC--CCCCCcEEEEeeCChhH
Q 045709          226 -ESW--KN---KSMQEKAQEIFKIL-SKKKFVLLLDDIWE--------LVDLDQVGLPIPS--RTSVSNKVVFTTREFGV  288 (337)
Q Consensus       226 -~~~--~~---~~~~~~~~~l~~~l-~~k~~LlVlDdv~~--------~~~~~~l~~~l~~--~~~g~s~IiiTtr~~~v  288 (337)
                       ...  ..   .........+.+.+ ..+.-+||+|-+-.        ......+...+..  ...+ +.||++++...-
T Consensus        83 ~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~~lvviDpl~~~~~~~~~d~~~~~~~~~~L~~~a~~~g-~avl~v~H~~K~  161 (239)
T cd01125          83 IQPISIAREGRIIVVPEFERIIEQLLIRRIDLVVIDPLVSFHGVSENDNGAMDAVIKALRRIAAQTG-AAILLVHHVRKG  161 (239)
T ss_pred             CCceecccCCcccccHHHHHHHHHHHhcCCCEEEECChHHhCCCCcCCHHHHHHHHHHHHHHHHHhC-CEEEEEeccCcc
Confidence             000  00   01222333344333 45677999996532        1112222111111  1235 788888875422


Q ss_pred             Hh--------h-----c--cCCceeecCCCCHHHHHH
Q 045709          289 CG--------Q-----M--EAHRSFKVECLRYDDAWK  310 (337)
Q Consensus       289 ~~--------~-----~--~~~~~~~l~~L~~~ea~~  310 (337)
                      ..        .     +  .....+.+.+++++++.+
T Consensus       162 ~~~~~~~~~~~rGssal~~~~r~~~~l~~~~~~~~~~  198 (239)
T cd01125         162 SAKDGDTQEAARGASALVDGARWVRALTRMTSEEAEK  198 (239)
T ss_pred             cccCcccccccCcHHHHhcccceEEEEeeCCHHHHHh
Confidence            11        0     0  123477889999999887

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>PRK03839 putative kinase; Provisional

Probab=96.74  E-value=0.0014  Score=53.99  Aligned_cols=23  Identities=35%  Similarity=0.638  Sum_probs=21.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|.|++|+||||+++.+++.+
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~   24 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999887

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.73  E-value=0.017  Score=52.25  Aligned_cols=69  Identities=7%  Similarity=0.043  Sum_probs=38.7

Q ss_pred             CCcEEEEEecCCCccc--cccccCCCCCCCCCCcEEEEeeCChh-HHhhc-cCCceeecCCCCHHHHHHHHhHh
Q 045709          246 KKKFVLLLDDIWELVD--LDQVGLPIPSRTSVSNKVVFTTREFG-VCGQM-EAHRSFKVECLRYDDAWKLFEQK  315 (337)
Q Consensus       246 ~k~~LlVlDdv~~~~~--~~~l~~~l~~~~~g~s~IiiTtr~~~-v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~  315 (337)
                      +++-++|+|+++....  -..+...+.....+ +.+|++|++.. +...+ +....+.+.+++.+++.+.+...
T Consensus       112 ~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~-~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~  184 (325)
T PRK08699        112 GGLRVILIHPAESMNLQAANSLLKVLEEPPPQ-VVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRER  184 (325)
T ss_pred             CCceEEEEechhhCCHHHHHHHHHHHHhCcCC-CEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhc
Confidence            3344556687765421  12221112111234 56777777654 33332 22357899999999998888654

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=96.73  E-value=0.0017  Score=54.75  Aligned_cols=120  Identities=16%  Similarity=0.098  Sum_probs=60.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccC-CCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccC-CCHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDT-PNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKN-KSMQEKAQEIF  241 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~-~~~~~~~~~l~  241 (337)
                      ...++.|.|++|.||||+.+.+....... -+.|     +.+.. .. -.+...|...++........ .....-...+.
T Consensus        28 ~~~~~~l~G~n~~GKstll~~i~~~~~la~~G~~-----vpa~~-~~-l~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~  100 (204)
T cd03282          28 SSRFHIITGPNMSGKSTYLKQIALLAIMAQIGCF-----VPAEY-AT-LPIFNRLLSRLSNDDSMERNLSTFASEMSETA  100 (204)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHHHcCCC-----cchhh-cC-ccChhheeEecCCccccchhhhHHHHHHHHHH
Confidence            45889999999999999999886433100 1111     11111 01 12223333333322110011 11111111222


Q ss_pred             HHh--cCCcEEEEEecCCCcccc-------ccccCCCCCCCCCCcEEEEeeCChhHHhhcc
Q 045709          242 KIL--SKKKFVLLLDDIWELVDL-------DQVGLPIPSRTSVSNKVVFTTREFGVCGQME  293 (337)
Q Consensus       242 ~~l--~~k~~LlVlDdv~~~~~~-------~~l~~~l~~~~~g~s~IiiTtr~~~v~~~~~  293 (337)
                      ..+  ..++-|+++|+.....+.       ..+...+..  .+ +.+|++|+..+++..+.
T Consensus       101 ~il~~~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l~~--~~-~~~i~~TH~~~l~~~~~  158 (204)
T cd03282         101 YILDYADGDSLVLIDELGRGTSSADGFAISLAILECLIK--KE-STVFFATHFRDIAAILG  158 (204)
T ss_pred             HHHHhcCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHh--cC-CEEEEECChHHHHHHhh
Confidence            222  356789999998543221       112222222  25 89999999998877654

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

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=96.72  E-value=0.0089  Score=54.93  Aligned_cols=127  Identities=18%  Similarity=0.176  Sum_probs=66.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--Cc------------EEEEEEecC----ccCH---------------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--FD------------FVIWVVVSR----DLQL---------------  210 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f~------------~~~wv~~~~----~~~~---------------  210 (337)
                      ...+++|+|++|+|||||.+.++.-.....+.  |+            .+.++.-..    ..++               
T Consensus        29 ~Ge~~~llG~sGsGKSTLLr~iaGl~~p~~G~I~~~g~~i~~~~~~~r~ig~v~Q~~~lfp~~tv~eNi~~~~~~~~~~~  108 (356)
T PRK11650         29 DGEFIVLVGPSGCGKSTLLRMVAGLERITSGEIWIGGRVVNELEPADRDIAMVFQNYALYPHMSVRENMAYGLKIRGMPK  108 (356)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHCCCCCCceEEEECCEECCCCCHHHCCEEEEeCCccccCCCCHHHHHHhHHhhcCCCH
Confidence            56789999999999999999997754111110  00            122221100    0011               


Q ss_pred             ---HHHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCcccc---ccccCCCC--CCCCCCcE
Q 045709          211 ---EKIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDL---DQVGLPIP--SRTSVSNK  278 (337)
Q Consensus       211 ---~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~---~~l~~~l~--~~~~g~s~  278 (337)
                         ..-..++++.++...   ......+..+.++. |.+.|..++-+|+||+.-+..+.   ..+...+.  ....| ..
T Consensus       109 ~~~~~~~~~~l~~~gL~~~~~~~~~~LSgGq~QRvalARAL~~~P~llLLDEP~s~LD~~~r~~l~~~l~~l~~~~g-~t  187 (356)
T PRK11650        109 AEIEERVAEAARILELEPLLDRKPRELSGGQRQRVAMGRAIVREPAVFLFDEPLSNLDAKLRVQMRLEIQRLHRRLK-TT  187 (356)
T ss_pred             HHHHHHHHHHHHHcCChhHhhCChhhCCHHHHHHHHHHHHHhcCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcC-CE
Confidence               112234444444421   11133444444433 56677788999999997654331   11111111  11225 78


Q ss_pred             EEEeeCChhHHhh
Q 045709          279 VVFTTREFGVCGQ  291 (337)
Q Consensus       279 IiiTtr~~~v~~~  291 (337)
                      +|++|++...+..
T Consensus       188 ii~vTHd~~ea~~  200 (356)
T PRK11650        188 SLYVTHDQVEAMT  200 (356)
T ss_pred             EEEEeCCHHHHHH
Confidence            9999998765443

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=96.72  E-value=0.011  Score=56.81  Aligned_cols=27  Identities=19%  Similarity=0.362  Sum_probs=23.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|.+|+|||||++.++...
T Consensus        27 ~~Ge~~~liG~nGsGKSTLl~~l~G~~   53 (490)
T PRK10938         27 NAGDSWAFVGANGSGKSALARALAGEL   53 (490)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            356899999999999999999997754

>PRK05922 type III secretion system ATPase; Validated

Probab=96.72  E-value=0.0054  Score=57.28  Aligned_cols=91  Identities=12%  Similarity=0.240  Sum_probs=51.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC-ccCHHHHHHHHHHHhCCCCccc----cCCCHHH--
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR-DLQLEKIQESIAKKIGLFNESW----KNKSMQE--  235 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~----~~~~~~~--  235 (337)
                      .+...++|+|.+|+|||||++.+.+..     ..+...++.++. .....+.+.+............    .+.+...  
T Consensus       155 ~~GqrigI~G~nG~GKSTLL~~Ia~~~-----~~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~  229 (434)
T PRK05922        155 GKGQRIGVFSEPGSGKSSLLSTIAKGS-----KSTINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKV  229 (434)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHhccC-----CCCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHH
Confidence            456789999999999999999998754     123333333322 3334455555544332221100    1111111  


Q ss_pred             ----HHHHHHHHh--cCCcEEEEEecCCC
Q 045709          236 ----KAQEIFKIL--SKKKFVLLLDDIWE  258 (337)
Q Consensus       236 ----~~~~l~~~l--~~k~~LlVlDdv~~  258 (337)
                          ..-.+.+++  +++.+||++||+-.
T Consensus       230 ~a~~~a~tiAEyfrd~G~~VLl~~DslTR  258 (434)
T PRK05922        230 IAGRAAMTIAEYFRDQGHRVLFIMDSLSR  258 (434)
T ss_pred             HHHHHHHHHHHHHHHcCCCEEEeccchhH
Confidence                122233444  58999999999854

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=96.72  E-value=0.0092  Score=59.36  Aligned_cols=126  Identities=17%  Similarity=0.178  Sum_probs=66.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--Cc---EEEEEEecC-----ccCHHHH----------------HHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--FD---FVIWVVVSR-----DLQLEKI----------------QESI  217 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f~---~~~wv~~~~-----~~~~~~~----------------~~~i  217 (337)
                      ...+++|+|.+|+|||||.+.++.......+.  +.   .+.|+.-..     ..++.+.                ...+
T Consensus       344 ~Ge~~~l~G~NGsGKSTLlk~l~G~~~p~~G~i~~~~~~~i~y~~q~~~~l~~~~tv~e~l~~~~~~~~~~~~~~~~~~~  423 (635)
T PRK11147        344 RGDKIALIGPNGCGKTTLLKLMLGQLQADSGRIHCGTKLEVAYFDQHRAELDPEKTVMDNLAEGKQEVMVNGRPRHVLGY  423 (635)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCCCCCcEEEECCCcEEEEEeCcccccCCCCCHHHHHHhhcccccccchHHHHHHH
Confidence            56789999999999999999998765211111  11   123332111     0122111                1222


Q ss_pred             HHHhCCCC----ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCcccc---ccccCCCCCCCCCCcEEEEeeCChhHH
Q 045709          218 AKKIGLFN----ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDL---DQVGLPIPSRTSVSNKVVFTTREFGVC  289 (337)
Q Consensus       218 ~~~l~~~~----~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~---~~l~~~l~~~~~g~s~IiiTtr~~~v~  289 (337)
                      +..++...    ......+..+..+. |...+..++-+|+||+.-+..+.   +.+...+...  + ..||++|++....
T Consensus       424 l~~~~l~~~~~~~~~~~LSgGekqRl~la~al~~~p~lLlLDEPt~~LD~~~~~~l~~~l~~~--~-~tvi~vSHd~~~~  500 (635)
T PRK11147        424 LQDFLFHPKRAMTPVKALSGGERNRLLLARLFLKPSNLLILDEPTNDLDVETLELLEELLDSY--Q-GTVLLVSHDRQFV  500 (635)
T ss_pred             HHhcCCCHHHHhChhhhCCHHHHHHHHHHHHHhcCCCEEEEcCCCCCCCHHHHHHHHHHHHhC--C-CeEEEEECCHHHH
Confidence            33333321    11133444444433 45566678899999988765432   2222222221  3 4789999987765


Q ss_pred             hhc
Q 045709          290 GQM  292 (337)
Q Consensus       290 ~~~  292 (337)
                      ..+
T Consensus       501 ~~~  503 (635)
T PRK11147        501 DNT  503 (635)
T ss_pred             HHh
Confidence            443

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=96.72  E-value=0.01  Score=49.05  Aligned_cols=119  Identities=20%  Similarity=0.237  Sum_probs=63.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC---ccCHHHHHHHHH--HH--hCCCCccccCCCH---
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR---DLQLEKIQESIA--KK--IGLFNESWKNKSM---  233 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~---~~~~~~~~~~i~--~~--l~~~~~~~~~~~~---  233 (337)
                      +...|-|+|.+|-||||.|.-+.-+..   .+-..+..+..-.   .......+..+-  ..  .+.. -.+...+.   
T Consensus        21 ~~g~v~v~~g~GkGKtt~a~g~a~ra~---g~G~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~-~~~~~~~~~e~   96 (191)
T PRK05986         21 EKGLLIVHTGNGKGKSTAAFGMALRAV---GHGKKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTG-FTWETQDRERD   96 (191)
T ss_pred             cCCeEEEECCCCCChHHHHHHHHHHHH---HCCCeEEEEEEecCCCccCHHHHHhcCCCcEEEECCCC-CcccCCCcHHH
Confidence            457899999999999999998887762   3323333333222   223333333210  00  0110 00111111   


Q ss_pred             ----HHHHHHHHHHhcCCcE-EEEEecCCCc-----cccccccCCCCCCCCCCcEEEEeeCChh
Q 045709          234 ----QEKAQEIFKILSKKKF-VLLLDDIWEL-----VDLDQVGLPIPSRTSVSNKVVFTTREFG  287 (337)
Q Consensus       234 ----~~~~~~l~~~l~~k~~-LlVlDdv~~~-----~~~~~l~~~l~~~~~g~s~IiiTtr~~~  287 (337)
                          .......++.+....| |||||++-..     -+.+++...+.....+ ..||+|-|+..
T Consensus        97 ~~~~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~-~evVlTGR~~p  159 (191)
T PRK05986         97 IAAAREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGM-QHVVITGRGAP  159 (191)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCC-CEEEEECCCCC
Confidence                1233444555555554 9999998543     2334444444444445 79999999853

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.71  E-value=0.0036  Score=48.66  Aligned_cols=39  Identities=26%  Similarity=0.363  Sum_probs=29.9

Q ss_pred             hhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          151 LTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       151 ~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++..++-..|..  ....++.+.|.-|+|||||++.++...
T Consensus         6 ~~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         6 KAMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            344445444443  356799999999999999999999987

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.71  E-value=0.0019  Score=53.34  Aligned_cols=135  Identities=15%  Similarity=0.255  Sum_probs=64.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHH--HHhCCCCccccCCCHHHHHHHHHHH
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIA--KKIGLFNESWKNKSMQEKAQEIFKI  243 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~--~~l~~~~~~~~~~~~~~~~~~l~~~  243 (337)
                      +.|.+.|.+|+||||+|+++...+.   ..-..++  +++.+     -..-++  +.++...+.....-.+.....|-..
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~---~~i~~vi--~l~kd-----y~~~i~~DEslpi~ke~yres~~ks~~rlldSa   71 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELR---QEIWRVI--HLEKD-----YLRGILWDESLPILKEVYRESFLKSVERLLDSA   71 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHH---Hhhhhcc--ccchh-----hhhheecccccchHHHHHHHHHHHHHHHHHHHH
Confidence            4678899999999999999988773   1111111  01110     000000  0000000000000011122233334


Q ss_pred             hcCCcEEEEEecCCCcccccc-ccCCCCCCCCCCcEEEEeeCChhHHhhccCCceeecCCCCHHHHHHHHhHhh
Q 045709          244 LSKKKFVLLLDDIWELVDLDQ-VGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       244 l~~k~~LlVlDdv~~~~~~~~-l~~~l~~~~~g~s~IiiTtr~~~v~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      +  +.+++|.||..-...+.. +...-...... -.||-+--..+++...+.   -+-+|..++--.+|..+.-
T Consensus        72 l--kn~~VIvDdtNYyksmRrqL~ceak~~~tt-~ciIyl~~plDtc~rrN~---ergepip~Evl~qly~RfE  139 (261)
T COG4088          72 L--KNYLVIVDDTNYYKSMRRQLACEAKERKTT-WCIIYLRTPLDTCLRRNR---ERGEPIPEEVLRQLYDRFE  139 (261)
T ss_pred             h--cceEEEEecccHHHHHHHHHHHHHHhcCCc-eEEEEEccCHHHHHHhhc---cCCCCCCHHHHHHHHHhhc
Confidence            4  389999999865432211 10001111223 467777766777765542   2345666666666665543

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.70  E-value=0.012  Score=46.98  Aligned_cols=23  Identities=26%  Similarity=0.638  Sum_probs=21.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++.|+|.+|+||||||+.+....
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l   23 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKL   23 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHH
Confidence            47899999999999999998877

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=96.70  E-value=0.0022  Score=51.31  Aligned_cols=36  Identities=31%  Similarity=0.361  Sum_probs=27.4

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEE
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVV  203 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~  203 (337)
                      ..+|-|.|.+|+||||||+.+...+.   ..-..+.++.
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L~---~~g~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRLF---ARGIKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHHH---HTTS-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEec
Confidence            46899999999999999999999883   3334455554

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>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=96.70  E-value=0.0013  Score=53.80  Aligned_cols=42  Identities=24%  Similarity=0.170  Sum_probs=32.7

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCC-CCCcEEEEEEecCccC
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTP-NHFDFVIWVVVSRDLQ  209 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~~f~~~~wv~~~~~~~  209 (337)
                      ..++.+.|+.|+|||.||+.+...+   . +.....+-++++.-..
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l---~~~~~~~~~~~d~s~~~~   45 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELL---FVGSERPLIRIDMSEYSE   45 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHH---T-SSCCEEEEEEGGGHCS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHh---ccCCccchHHHhhhcccc
Confidence            5678899999999999999999988   3 4555666666665433

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 ....

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=96.70  E-value=0.0099  Score=58.44  Aligned_cols=27  Identities=33%  Similarity=0.533  Sum_probs=24.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++...++|+|.+|+|||||++.+...+
T Consensus       364 ~~G~~~aivG~sGsGKSTL~~ll~g~~  390 (574)
T PRK11160        364 KAGEKVALLGRTGCGKSTLLQLLTRAW  390 (574)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            467899999999999999999998765

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=96.70  E-value=0.009  Score=54.79  Aligned_cols=27  Identities=33%  Similarity=0.466  Sum_probs=23.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||.+.+..-.
T Consensus        30 ~~Ge~~~llGpsGsGKSTLLr~IaGl~   56 (351)
T PRK11432         30 KQGTMVTLLGPSGCGKTTVLRLVAGLE   56 (351)
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            356799999999999999999997754

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=96.69  E-value=0.0044  Score=51.13  Aligned_cols=23  Identities=39%  Similarity=0.755  Sum_probs=21.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l   23 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQL   23 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999887

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=96.69  E-value=0.0039  Score=61.31  Aligned_cols=74  Identities=12%  Similarity=0.153  Sum_probs=54.8

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      ..++|.++.++.|...+...  +.+.++|.+|+||||+|+.+.....  ...++..+|..-+ ..+...+++.+...++
T Consensus        31 ~~vigq~~a~~~L~~~~~~~--~~~l~~G~~G~GKttla~~l~~~l~--~~~~~~~~~~~np-~~~~~~~~~~v~~~~G  104 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQR--RHVMMIGSPGTGKSMLAKAMAELLP--KEELQDILVYPNP-EDPNNPKIRTVPAGKG  104 (637)
T ss_pred             HHcCChHHHHHHHHHHHHhC--CeEEEECCCCCcHHHHHHHHHHHcC--hHhHHHheEeeCC-CcchHHHHHHHHHhcC
Confidence            45889999888888877654  4788999999999999999988762  3446777886653 3355666666665544

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

Probab=96.68  E-value=0.075  Score=51.97  Aligned_cols=163  Identities=17%  Similarity=0.133  Sum_probs=87.8

Q ss_pred             cccchhhHHHHHHHHhcC-------------CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHH
Q 045709          146 VVGLQLTFDRVWRCLMEE-------------HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEK  212 (337)
Q Consensus       146 ~vGr~~~~~~l~~~L~~~-------------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~  212 (337)
                      +-|..+..+-+.+.+.-+             ...-|.++|++|+|||.||..+....   .     .-++++..+    +
T Consensus       669 igg~~~~k~~l~~~i~~P~kyp~if~~~plr~~~giLLyGppGcGKT~la~a~a~~~---~-----~~fisvKGP----E  736 (952)
T KOG0735|consen  669 IGGLFEAKKVLEEVIEWPSKYPQIFANCPLRLRTGILLYGPPGCGKTLLASAIASNS---N-----LRFISVKGP----E  736 (952)
T ss_pred             cccHHHHHHHHHHHHhccccchHHHhhCCcccccceEEECCCCCcHHHHHHHHHhhC---C-----eeEEEecCH----H
Confidence            445555555555555321             23458899999999999999998766   2     224555543    2


Q ss_pred             HHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc-------------cccccCCCC--CCCCCCc
Q 045709          213 IQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD-------------LDQVGLPIP--SRTSVSN  277 (337)
Q Consensus       213 ~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-------------~~~l~~~l~--~~~~g~s  277 (337)
                      ++.+.   +|        .+.+.....+.+.-.-++|+|.+|++++...             ..++...+.  .+-.| -
T Consensus       737 lL~Ky---IG--------aSEq~vR~lF~rA~~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~G-V  804 (952)
T KOG0735|consen  737 LLSKY---IG--------ASEQNVRDLFERAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDG-V  804 (952)
T ss_pred             HHHHH---hc--------ccHHHHHHHHHHhhccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccce-E
Confidence            22221   22        1222333333344456999999999986411             223322221  12334 4


Q ss_pred             EEEE-eeCChhHHhh-ccC---CceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHH
Q 045709          278 KVVF-TTREFGVCGQ-MEA---HRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAE  332 (337)
Q Consensus       278 ~Iii-Ttr~~~v~~~-~~~---~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~  332 (337)
                      -|+- |||..-+-.. +.+   ++.+..+.-++.+-.++|+...-.-....+.+++.+|.
T Consensus       805 ~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~~~~~vdl~~~a~  864 (952)
T KOG0735|consen  805 YILAATSRPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSNSLLKDTDVDLECLAQ  864 (952)
T ss_pred             EEEEecCCccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhhccCCccccchHHHhh
Confidence            4443 5564333211 122   34455566677777788876654333334556666654

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=96.68  E-value=0.0059  Score=53.71  Aligned_cols=24  Identities=25%  Similarity=0.361  Sum_probs=19.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.|.|+|.||+||||+|+.+...+
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~   25 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYL   25 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHH
Confidence            578999999999999999999887

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=96.68  E-value=0.011  Score=55.58  Aligned_cols=87  Identities=26%  Similarity=0.277  Sum_probs=46.3

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccC-HHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQ-LEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKI  243 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  243 (337)
                      .+++.++|++|+||||++..++..+ ........+..++...... ...-+......++.+..  ...+..+....+.. 
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~-~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~--~~~~~~~l~~~l~~-  296 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARY-ALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVE--VVYDPKELAKALEQ-  296 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceE--ccCCHHhHHHHHHH-
Confidence            4699999999999999999988776 2012234566666544211 11223333333443321  12233334333333 


Q ss_pred             hcCCcEEEEEecC
Q 045709          244 LSKKKFVLLLDDI  256 (337)
Q Consensus       244 l~~k~~LlVlDdv  256 (337)
                      +. ..=++++|..
T Consensus       297 ~~-~~DlVlIDt~  308 (424)
T PRK05703        297 LR-DCDVILIDTA  308 (424)
T ss_pred             hC-CCCEEEEeCC
Confidence            22 2346777755

>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional

Probab=96.68  E-value=0.012  Score=56.81  Aligned_cols=26  Identities=31%  Similarity=0.639  Sum_probs=22.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|++|+|||||.+.+....
T Consensus       278 ~Ge~~~iiG~NGsGKSTLlk~l~G~~  303 (501)
T PRK11288        278 AGEIVGLFGLVGAGRSELMKLLYGAT  303 (501)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHcCCC
Confidence            56799999999999999999997643

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=96.67  E-value=0.0035  Score=60.75  Aligned_cols=45  Identities=22%  Similarity=0.283  Sum_probs=38.7

Q ss_pred             ccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          145 TVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +++|.+..+..+...+......-+.|+|.+|+|||++|+.+++..
T Consensus        66 ~iiGqs~~i~~l~~al~~~~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        66 EIIGQEEGIKALKAALCGPNPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             HeeCcHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999888776666677899999999999999998754

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.

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=96.67  E-value=0.0048  Score=58.07  Aligned_cols=33  Identities=36%  Similarity=0.559  Sum_probs=26.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHF  196 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f  196 (337)
                      ..+-.+|+|.+|+||||+.+.++.+......++
T Consensus       100 ~g~rygLiG~nG~Gkst~L~~i~~~e~P~p~~~  132 (614)
T KOG0927|consen  100 RGRRYGLIGPNGSGKSTFLRAIAGREVPIPEHI  132 (614)
T ss_pred             CCceEEEEcCCCCcHhHHHHHHhcCCCCCCccc
Confidence            567899999999999999999998764333333

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=96.66  E-value=0.0072  Score=55.96  Aligned_cols=47  Identities=19%  Similarity=0.191  Sum_probs=38.5

Q ss_pred             CCccccchhhHHHHHHHHhcC--------------CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          143 PPTVVGLQLTFDRVWRCLMEE--------------HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~~--------------~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...++|.++.+..+..++.+.              ..+.+.++|++|+|||+||+.+....
T Consensus        14 d~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l   74 (443)
T PRK05201         14 DKYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (443)
T ss_pred             ccccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            356899999998888777431              14678999999999999999998877

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=96.66  E-value=0.015  Score=57.04  Aligned_cols=134  Identities=19%  Similarity=0.200  Sum_probs=71.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--Cc---EEEEEEecC-----ccCHHH----------------HHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--FD---FVIWVVVSR-----DLQLEK----------------IQES  216 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f~---~~~wv~~~~-----~~~~~~----------------~~~~  216 (337)
                      ....+++|+|.+|+|||||++.++.......+.  +.   .+.|+.-..     ..++.+                ....
T Consensus       348 ~~Ge~~~l~G~NGsGKSTLl~~i~G~~~p~~G~i~~~~~~~i~~v~q~~~~~~~~~tv~e~l~~~~~~~~~~~~~~~~~~  427 (556)
T PRK11819        348 PPGGIVGIIGPNGAGKSTLFKMITGQEQPDSGTIKIGETVKLAYVDQSRDALDPNKTVWEEISGGLDIIKVGNREIPSRA  427 (556)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCceEEEEEeCchhhcCCCCCHHHHHHhhcccccccccHHHHHH
Confidence            356789999999999999999998754111111  11   123332111     011111                1123


Q ss_pred             HHHHhCCCC----ccccCCCHHHHHH-HHHHHhcCCcEEEEEecCCCcccc---ccccCCCCCCCCCCcEEEEeeCChhH
Q 045709          217 IAKKIGLFN----ESWKNKSMQEKAQ-EIFKILSKKKFVLLLDDIWELVDL---DQVGLPIPSRTSVSNKVVFTTREFGV  288 (337)
Q Consensus       217 i~~~l~~~~----~~~~~~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~~---~~l~~~l~~~~~g~s~IiiTtr~~~v  288 (337)
                      ++..++...    ......+..+..+ .+...+..++-+|+||+.-+..+.   ..+...+... .+  .||++|++...
T Consensus       428 ~l~~~~l~~~~~~~~~~~LSgG~~qrv~la~al~~~p~lllLDEPt~~LD~~~~~~l~~~l~~~-~~--tvi~vtHd~~~  504 (556)
T PRK11819        428 YVGRFNFKGGDQQKKVGVLSGGERNRLHLAKTLKQGGNVLLLDEPTNDLDVETLRALEEALLEF-PG--CAVVISHDRWF  504 (556)
T ss_pred             HHHhCCCChhHhcCchhhCCHHHHHHHHHHHHHhcCCCEEEEcCCCCCCCHHHHHHHHHHHHhC-CC--eEEEEECCHHH
Confidence            445555431    1123445544444 355666788999999987655331   1111112211 24  58889998776


Q ss_pred             HhhccCCceeec
Q 045709          289 CGQMEAHRSFKV  300 (337)
Q Consensus       289 ~~~~~~~~~~~l  300 (337)
                      ...+ ++.++.+
T Consensus       505 ~~~~-~d~i~~l  515 (556)
T PRK11819        505 LDRI-ATHILAF  515 (556)
T ss_pred             HHHh-CCEEEEE
Confidence            5543 2344444

>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein

Probab=96.66  E-value=0.0095  Score=54.70  Aligned_cols=128  Identities=22%  Similarity=0.174  Sum_probs=67.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCC--CCc------------EEEEEEecC----ccC----------------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPN--HFD------------FVIWVVVSR----DLQ----------------  209 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--~f~------------~~~wv~~~~----~~~----------------  209 (337)
                      ...+++|+|++|+|||||.+.++.-.....+  .++            .+.++.-..    ..+                
T Consensus        29 ~Ge~~~l~GpsGsGKSTLLr~iaGl~~p~~G~I~i~g~~~~~~~~~~r~ig~v~Q~~~lfp~~tv~eNi~~~~~~~~~~~  108 (353)
T TIGR03265        29 KGEFVCLLGPSGCGKTTLLRIIAGLERQTAGTIYQGGRDITRLPPQKRDYGIVFQSYALFPNLTVADNIAYGLKNRGMGR  108 (353)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCCCCceEEEECCEECCCCCHHHCCEEEEeCCcccCCCCcHHHHHHHHHHhcCCCH
Confidence            5679999999999999999999875421111  010            111221000    001                


Q ss_pred             --HHHHHHHHHHHhCCCC---ccccCCCHHHHHH-HHHHHhcCCcEEEEEecCCCcccc---ccccCCCCC--CCCCCcE
Q 045709          210 --LEKIQESIAKKIGLFN---ESWKNKSMQEKAQ-EIFKILSKKKFVLLLDDIWELVDL---DQVGLPIPS--RTSVSNK  278 (337)
Q Consensus       210 --~~~~~~~i~~~l~~~~---~~~~~~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~~---~~l~~~l~~--~~~g~s~  278 (337)
                        ...-..++++.+++..   ......+..+.++ .|.+.|..++=+|+||+.-+..+.   ..+...+..  ...+ ..
T Consensus       109 ~~~~~~~~~~l~~l~L~~~~~~~~~~LSgGq~QRvaLARaL~~~P~llLLDEP~s~LD~~~r~~l~~~L~~l~~~~~-~t  187 (353)
T TIGR03265       109 AEVAERVAELLDLVGLPGSERKYPGQLSGGQQQRVALARALATSPGLLLLDEPLSALDARVREHLRTEIRQLQRRLG-VT  187 (353)
T ss_pred             HHHHHHHHHHHHHcCCCchhhCChhhCCHHHHHHHHHHHHHhcCCCEEEEcCCcccCCHHHHHHHHHHHHHHHHhcC-CE
Confidence              1122344555555432   1123344444433 356677778889999987654331   111111111  1124 68


Q ss_pred             EEEeeCChhHHhhc
Q 045709          279 VVFTTREFGVCGQM  292 (337)
Q Consensus       279 IiiTtr~~~v~~~~  292 (337)
                      +|++|++...+..+
T Consensus       188 vi~vTHd~~ea~~l  201 (353)
T TIGR03265       188 TIMVTHDQEEALSM  201 (353)
T ss_pred             EEEEcCCHHHHHHh
Confidence            88888887765433

This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=96.66  E-value=0.0052  Score=52.89  Aligned_cols=60  Identities=20%  Similarity=0.239  Sum_probs=36.2

Q ss_pred             HHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHH
Q 045709          153 FDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKI  213 (337)
Q Consensus       153 ~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~  213 (337)
                      ...++..+..  .+..+|+|.|+||+|||||...+...+ ...++--.++-|+-|.+++=-.+
T Consensus        15 ~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~-~~~g~~VaVlAVDPSSp~tGGAl   76 (266)
T PF03308_consen   15 ARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIREL-RERGKRVAVLAVDPSSPFTGGAL   76 (266)
T ss_dssp             HHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHH-HHTT--EEEEEE-GGGGCC---S
T ss_pred             HHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHH-hhcCCceEEEEECCCCCCCCCcc
Confidence            3445555543  467899999999999999999998888 33333335555555555544333

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=96.65  E-value=0.002  Score=52.62  Aligned_cols=26  Identities=27%  Similarity=0.406  Sum_probs=23.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +...|.|+|++|+||||+|+.+....
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999999887

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=96.65  E-value=0.011  Score=59.47  Aligned_cols=27  Identities=30%  Similarity=0.400  Sum_probs=24.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++...++|+|.+|+|||||++.+..-+
T Consensus       489 ~~G~~iaIvG~sGsGKSTLlklL~gl~  515 (694)
T TIGR03375       489 RPGEKVAIIGRIGSGKSTLLKLLLGLY  515 (694)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            467899999999999999999997765

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.64  E-value=0.0039  Score=51.95  Aligned_cols=27  Identities=33%  Similarity=0.471  Sum_probs=23.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..|.++.|++|+|||||.+.+-.-.
T Consensus        31 ~~~~VTAlIGPSGcGKST~LR~lNRmn   57 (253)
T COG1117          31 PKNKVTALIGPSGCGKSTLLRCLNRMN   57 (253)
T ss_pred             cCCceEEEECCCCcCHHHHHHHHHhhc
Confidence            467899999999999999999985433

>PRK09099 type III secretion system ATPase; Provisional

Probab=96.64  E-value=0.0086  Score=56.18  Aligned_cols=92  Identities=21%  Similarity=0.259  Sum_probs=53.4

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCcc----ccCCCHHH---
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNES----WKNKSMQE---  235 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~----~~~~~~~~---  235 (337)
                      .+...++|.|.+|+|||||++.+.... .   .-..+++..-.+...+.++.+.+...-+.....    ..+.+...   
T Consensus       161 ~~Gq~~~I~G~sG~GKTtLl~~ia~~~-~---~d~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~  236 (441)
T PRK09099        161 GEGQRMGIFAPAGVGKSTLMGMFARGT-Q---CDVNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAK  236 (441)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCC-C---CCeEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHH
Confidence            467899999999999999999998765 1   112444444444445555555555432221100    01111111   


Q ss_pred             ---HHHHHHHHh--cCCcEEEEEecCCC
Q 045709          236 ---KAQEIFKIL--SKKKFVLLLDDIWE  258 (337)
Q Consensus       236 ---~~~~l~~~l--~~k~~LlVlDdv~~  258 (337)
                         ..-.+.+++  +++.+||++||+-.
T Consensus       237 a~~~a~tiAEyfrd~G~~VLl~~DslTr  264 (441)
T PRK09099        237 AAYVATAIAEYFRDRGLRVLLMMDSLTR  264 (441)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccchhH
Confidence               112233444  48899999999853

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=96.63  E-value=0.017  Score=58.26  Aligned_cols=27  Identities=30%  Similarity=0.528  Sum_probs=24.4

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+...++|+|++|+|||||++.+..-+
T Consensus       505 ~~Ge~vaIvG~SGsGKSTLl~lL~gl~  531 (711)
T TIGR00958       505 HPGEVVALVGPSGSGKSTVAALLQNLY  531 (711)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            467899999999999999999998766

>PRK00625 shikimate kinase; Provisional

Probab=96.63  E-value=0.0019  Score=52.84  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=21.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.++|++|+||||+++.+.+..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l   24 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFL   24 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998876

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=96.63  E-value=0.008  Score=59.14  Aligned_cols=74  Identities=15%  Similarity=0.126  Sum_probs=48.8

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      +.++|.++.+..+...+...  ..+.++|++|+||||+++.+.+...  ...|...+++.-+. .+...++..++..++
T Consensus        18 ~~viG~~~a~~~l~~a~~~~--~~~ll~G~pG~GKT~la~~la~~l~--~~~~~~~~~~~n~~-~~~~~~~~~v~~~~g   91 (608)
T TIGR00764        18 DQVIGQEEAVEIIKKAAKQK--RNVLLIGEPGVGKSMLAKAMAELLP--DEELEDILVYPNPE-DPNMPRIVEVPAGEG   91 (608)
T ss_pred             hhccCHHHHHHHHHHHHHcC--CCEEEECCCCCCHHHHHHHHHHHcC--chhheeEEEEeCCC-CCchHHHHHHHHhhc
Confidence            56789998888887777654  3566999999999999999998872  23344444443222 233444555554443

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=96.63  E-value=0.0059  Score=53.60  Aligned_cols=89  Identities=20%  Similarity=0.197  Sum_probs=59.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCC-----------------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFN-----------------  225 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~-----------------  225 (337)
                      +..+++.|+|.+|+|||+++.++....   ......++|++....  ...+...+.+ ++...                 
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~~~---~~~ge~vlyvs~~e~--~~~l~~~~~~-~g~d~~~~~~~g~l~i~d~~~~   94 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLYEG---AREGEPVLYVSTEES--PEELLENARS-FGWDLEVYIEKGKLAILDAFLS   94 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHHHH---HhcCCcEEEEEecCC--HHHHHHHHHH-cCCCHHHHhhcCCEEEEEcccc
Confidence            467899999999999999999998887   345788999988764  3444444432 22110                 


Q ss_pred             -cc-----c-cCCCHHHHHHHHHHHhcC-CcEEEEEecCC
Q 045709          226 -ES-----W-KNKSMQEKAQEIFKILSK-KKFVLLLDDIW  257 (337)
Q Consensus       226 -~~-----~-~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~  257 (337)
                       ..     . ...+...+...+...... +...+|+|.+-
T Consensus        95 ~~~~~~~~~~~~~~~~~l~~~I~~~~~~~~~~~~ViDsi~  134 (260)
T COG0467          95 EKGLVSIVVGDPLDLEELLDRIREIVEKEGADRVVIDSIT  134 (260)
T ss_pred             ccccccccccCCccHHHHHHHHHHHHHHhCCCEEEEeCCc
Confidence             00     0 023455566666665543 37789999986

>PRK04040 adenylate kinase; Provisional

Probab=96.63  E-value=0.0021  Score=53.43  Aligned_cols=25  Identities=36%  Similarity=0.565  Sum_probs=22.9

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|+|+|++|+||||+++.+...+
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l   26 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKL   26 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999998887

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.62  E-value=0.011  Score=54.94  Aligned_cols=25  Identities=28%  Similarity=0.491  Sum_probs=22.2

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++.++|++|+||||++..++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998754

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=96.62  E-value=0.0052  Score=61.65  Aligned_cols=45  Identities=20%  Similarity=0.257  Sum_probs=36.9

Q ss_pred             ccccchhhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          145 TVVGLQLTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|+...+..+.+.+..  .....|.|+|.+|+|||++|+.+++..
T Consensus       377 ~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s  423 (686)
T PRK15429        377 EIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLS  423 (686)
T ss_pred             ceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            589999888888766643  345578899999999999999998765

>COG3910 Predicted ATPase [General function prediction only]

Probab=96.62  E-value=0.0082  Score=48.99  Aligned_cols=26  Identities=38%  Similarity=0.478  Sum_probs=22.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.++..|+|-+|+|||||...++-..
T Consensus        36 ~apIT~i~GENGsGKSTLLEaiA~~~   61 (233)
T COG3910          36 RAPITFITGENGSGKSTLLEAIAAGM   61 (233)
T ss_pred             cCceEEEEcCCCccHHHHHHHHHhhc
Confidence            67899999999999999999886544

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=96.61  E-value=0.0085  Score=48.52  Aligned_cols=116  Identities=16%  Similarity=0.147  Sum_probs=59.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCC----------CCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHH
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTP----------NHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQE  235 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~----------~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~  235 (337)
                      ++..|+|++|.|||++.+.+.--.....          ..+....| .+.-          +....+.+       ....
T Consensus        22 ~~~~i~G~NgsGKS~~l~~i~~~~~~~~~~~~~~~~~~~g~~~~~~-~~~~----------i~~~~~lS-------~G~~   83 (162)
T cd03227          22 SLTIITGPNGSGKSTILDAIGLALGGAQSATRRRSGVKAGCIVAAV-SAEL----------IFTRLQLS-------GGEK   83 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhcchhhhccCcccCCCcceee-EEEE----------ehheeecc-------ccHH
Confidence            6899999999999999998643331111          11111111 1100          11111111       1122


Q ss_pred             HHHHHHHHhc----CCcEEEEEecCCCcccccc---ccCCCCC-CCCCCcEEEEeeCChhHHhhccCCceeecCC
Q 045709          236 KAQEIFKILS----KKKFVLLLDDIWELVDLDQ---VGLPIPS-RTSVSNKVVFTTREFGVCGQMEAHRSFKVEC  302 (337)
Q Consensus       236 ~~~~l~~~l~----~k~~LlVlDdv~~~~~~~~---l~~~l~~-~~~g~s~IiiTtr~~~v~~~~~~~~~~~l~~  302 (337)
                      ....+...+.    +++-++++|+.....+...   +...+.. ...+ +.+|++|.+.++....  ...+.+.+
T Consensus        84 ~~~~la~~L~~~~~~~~~llllDEp~~gld~~~~~~l~~~l~~~~~~~-~~vii~TH~~~~~~~~--d~~~~l~~  155 (162)
T cd03227          84 ELSALALILALASLKPRPLYILDEIDRGLDPRDGQALAEAILEHLVKG-AQVIVITHLPELAELA--DKLIHIKK  155 (162)
T ss_pred             HHHHHHHHHHhcCCCCCCEEEEeCCCCCCCHHHHHHHHHHHHHHHhcC-CEEEEEcCCHHHHHhh--hhEEEEEE
Confidence            2223334442    3678999999876544221   1111111 1125 7999999998887653  44555543

These families are characterised by the fact that the ABC subunit is made up of duplicated, fused ABC modules (ABC2). No known transmembrane proteins or domains are associated with these proteins.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.60  E-value=0.0038  Score=49.20  Aligned_cols=39  Identities=21%  Similarity=0.297  Sum_probs=28.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      ++|.|+|..|+|||||++.+.+...  ...+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~--~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELK--RRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHH--HTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHh--HcCCceEEEEEccC
Confidence            5799999999999999999999983  34555555666554

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=96.60  E-value=0.00098  Score=56.99  Aligned_cols=120  Identities=16%  Similarity=0.149  Sum_probs=58.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhcc-CCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccC-CCHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFD-TPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKN-KSMQEKAQEIF  241 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~-~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~-~~~~~~~~~l~  241 (337)
                      +..++.|.|++|.||||+.+.+.--..- ..+     ++|.+...  ...+...++..++........ .........+.
T Consensus        29 ~~~~~~l~G~n~~GKstll~~i~~~~~la~~g-----~~vpa~~~--~~~~~~~il~~~~l~d~~~~~lS~~~~e~~~~a  101 (222)
T cd03285          29 KSRFLIITGPNMGGKSTYIRQIGVIVLMAQIG-----CFVPCDSA--DIPIVDCILARVGASDSQLKGVSTFMAEMLETA  101 (222)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHHHHHHhC-----CCcCcccE--EEeccceeEeeeccccchhcCcChHHHHHHHHH
Confidence            5679999999999999999887542100 011     12211110  001122223333322111111 12222223333


Q ss_pred             HHh--cCCcEEEEEecCC---Ccccccc----ccCCCCCCCCCCcEEEEeeCChhHHhhc
Q 045709          242 KIL--SKKKFVLLLDDIW---ELVDLDQ----VGLPIPSRTSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       242 ~~l--~~k~~LlVlDdv~---~~~~~~~----l~~~l~~~~~g~s~IiiTtr~~~v~~~~  292 (337)
                      ..+  ...+-|++||+.-   +..+-..    +...+.. ..+ +.+|+||+..++...+
T Consensus       102 ~il~~~~~~sLvLLDEp~~gT~~lD~~~~~~~il~~l~~-~~~-~~vlisTH~~el~~~~  159 (222)
T cd03285         102 AILKSATENSLIIIDELGRGTSTYDGFGLAWAIAEYIAT-QIK-CFCLFATHFHELTALA  159 (222)
T ss_pred             HHHHhCCCCeEEEEecCcCCCChHHHHHHHHHHHHHHHh-cCC-CeEEEEechHHHHHHh
Confidence            334  3578899999993   3222111    1111221 235 7899999987665433

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

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=96.60  E-value=0.0084  Score=55.85  Aligned_cols=47  Identities=19%  Similarity=0.173  Sum_probs=36.3

Q ss_pred             CCccccchhhHHHHHHHHh-------c---C--------CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          143 PPTVVGLQLTFDRVWRCLM-------E---E--------HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~-------~---~--------~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...++|.++.++.+...+.       .   .        ....+.++|++|+|||+||+.+....
T Consensus        76 ~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l  140 (413)
T TIGR00382        76 DEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARIL  140 (413)
T ss_pred             cceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhc
Confidence            4567999988888865551       1   1        12579999999999999999998766

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.

>cd03276 ABC_SMC6_euk Eukaryotic SMC6 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains

Probab=96.59  E-value=0.038  Score=46.36  Aligned_cols=23  Identities=26%  Similarity=0.416  Sum_probs=20.0

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      ..+.+|+|.+|.|||||...++.
T Consensus        21 ~gl~~i~G~NGsGKStll~ai~~   43 (198)
T cd03276          21 PRVNFIVGNNGSGKSAILTALTI   43 (198)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH
Confidence            45778999999999999988874

Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (for

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=96.59  E-value=0.0099  Score=58.39  Aligned_cols=27  Identities=37%  Similarity=0.533  Sum_probs=23.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+...++|+|.+|+|||||++.+...+
T Consensus       356 ~~G~~v~IvG~sGsGKSTLl~lL~gl~  382 (571)
T TIGR02203       356 EPGETVALVGRSGSGKSTLVNLIPRFY  382 (571)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            367899999999999999999997765

This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.

>PLN03073 ABC transporter F family; Provisional

Probab=96.59  E-value=0.012  Score=59.02  Aligned_cols=25  Identities=36%  Similarity=0.494  Sum_probs=22.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      ....++|+|.+|+|||||.+.+...
T Consensus       202 ~Ge~~gLvG~NGsGKSTLLr~l~g~  226 (718)
T PLN03073        202 FGRHYGLVGRNGTGKTTFLRYMAMH  226 (718)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCC
Confidence            5678999999999999999999764

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.59  E-value=0.0039  Score=51.56  Aligned_cols=36  Identities=31%  Similarity=0.468  Sum_probs=30.2

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEE
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVV  203 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~  203 (337)
                      .+++.|+|++|+|||||++.+....   ...|...++.+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~---~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEF---PDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHS---TTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc---ccccccceeec
Confidence            5789999999999999999999988   67786555544

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.59  E-value=0.021  Score=51.61  Aligned_cols=26  Identities=27%  Similarity=0.577  Sum_probs=23.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+++++|++|+||||++..++..+
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l  138 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKY  138 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46899999999999999999998887

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=96.59  E-value=0.0048  Score=52.07  Aligned_cols=41  Identities=29%  Similarity=0.506  Sum_probs=28.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccC
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQ  209 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~  209 (337)
                      .|+|+|-||+||||+|..++..+.. ++.|+ +.-|+...+++
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~-~~~~~-VLvVDaDpd~n   42 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLS-KGGYN-VLVVDADPDSN   42 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHh-cCCce-EEEEeCCCCCC
Confidence            5899999999999999997777632 22233 44455555443

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=96.58  E-value=0.012  Score=54.52  Aligned_cols=27  Identities=33%  Similarity=0.427  Sum_probs=23.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||.+.++.-.
T Consensus        38 ~~Ge~~~LlGpsGsGKSTLLr~IaGl~   64 (375)
T PRK09452         38 NNGEFLTLLGPSGCGKTTVLRLIAGFE   64 (375)
T ss_pred             eCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            356799999999999999999998754

>PRK15453 phosphoribulokinase; Provisional

Probab=96.58  E-value=0.017  Score=50.65  Aligned_cols=81  Identities=16%  Similarity=0.076  Sum_probs=45.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc--CHHHHHHHHH--HHhCCCCcc--ccCCCHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL--QLEKIQESIA--KKIGLFNES--WKNKSMQEK  236 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~i~--~~l~~~~~~--~~~~~~~~~  236 (337)
                      .+..+|+|.|.+|+||||+++.+...+.   ..-.....++...-.  +....-..+.  ..-+..-+.  ....+.+.+
T Consensus         3 ~k~piI~ItG~SGsGKTTva~~l~~if~---~~~~~~~vi~~D~yh~ydr~~~~~~~~~~~r~g~nfdhf~PdAnd~dlL   79 (290)
T PRK15453          3 AKHPIIAVTGSSGAGTTTVKRAFEKIFR---RENINAAVVEGDSFHRYTRPEMKAAIAKARAAGRHFSHFGPEANLFDEL   79 (290)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHh---hcCCCeEEEecccccccChhhHhhhhHHHHhcCCCCCCCCCCcccHHHH
Confidence            4568999999999999999999987662   111123444443322  2222222221  112211111  255566777


Q ss_pred             HHHHHHHhcC
Q 045709          237 AQEIFKILSK  246 (337)
Q Consensus       237 ~~~l~~~l~~  246 (337)
                      .+.++.+..+
T Consensus        80 ~~~l~~l~~~   89 (290)
T PRK15453         80 EQLFREYGET   89 (290)
T ss_pred             HHHHHHHhcC
Confidence            7777766553

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=96.58  E-value=0.0032  Score=52.91  Aligned_cols=22  Identities=23%  Similarity=0.323  Sum_probs=20.3

Q ss_pred             CeEEEEEecCCCcHHHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQIN  186 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~  186 (337)
                      .+++.|.|++|.|||||.+.+.
T Consensus        28 ~~~~~ltG~Ng~GKStll~~i~   49 (200)
T cd03280          28 KRVLVITGPNAGGKTVTLKTLG   49 (200)
T ss_pred             ceEEEEECCCCCChHHHHHHHH
Confidence            3689999999999999999987

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

>PRK06851 hypothetical protein; Provisional

Probab=96.57  E-value=0.035  Score=50.88  Aligned_cols=46  Identities=24%  Similarity=0.193  Sum_probs=34.9

Q ss_pred             cCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccC
Q 045709          162 EEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQ  209 (337)
Q Consensus       162 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~  209 (337)
                      .+-.+++.|.|.+|+|||||++.++....  ...++..++-|.+.+.+
T Consensus       211 ~~~~~~~~i~G~pG~GKstl~~~i~~~a~--~~G~~v~~~hC~~dPds  256 (367)
T PRK06851        211 EGVKNRYFLKGRPGTGKSTMLKKIAKAAE--ERGFDVEVYHCGFDPDS  256 (367)
T ss_pred             cccceEEEEeCCCCCcHHHHHHHHHHHHH--hCCCeEEEEeCCCCCCC
Confidence            34468899999999999999999999883  45566666666555433

>PRK04132 replication factor C small subunit; Provisional

Probab=96.57  E-value=0.036  Score=56.16  Aligned_cols=125  Identities=12%  Similarity=0.084  Sum_probs=74.4

Q ss_pred             cCCCcHHHHHHHHHHhhccCCCCC-cEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEE
Q 045709          173 MGGVGKTTLLTQINNRFFDTPNHF-DFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVL  251 (337)
Q Consensus       173 ~~GiGKTtLa~~v~~~~~~~~~~f-~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~Ll  251 (337)
                      +.++||||+|..++++..  ...+ ..++-++++.......+ ++++..+....+  .              -..+.-++
T Consensus       574 Ph~lGKTT~A~ala~~l~--g~~~~~~~lElNASd~rgid~I-R~iIk~~a~~~~--~--------------~~~~~KVv  634 (846)
T PRK04132        574 PTVLHNTTAALALARELF--GENWRHNFLELNASDERGINVI-REKVKEFARTKP--I--------------GGASFKII  634 (846)
T ss_pred             CCcccHHHHHHHHHHhhh--cccccCeEEEEeCCCcccHHHH-HHHHHHHHhcCC--c--------------CCCCCEEE
Confidence            778999999999999873  1222 24666777765444433 333333211100  0              01245799


Q ss_pred             EEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCCh-hHHhhc-cCCceeecCCCCHHHHHHHHhHhhC
Q 045709          252 LLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREF-GVCGQM-EAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       252 VlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~-~v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      |||+++...  ....++..+-.-... +++|++|.+. .+...+ +....+.+.+++.++-...+...+-
T Consensus       635 IIDEaD~Lt~~AQnALLk~lEep~~~-~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~  703 (846)
T PRK04132        635 FLDEADALTQDAQQALRRTMEMFSSN-VRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAE  703 (846)
T ss_pred             EEECcccCCHHHHHHHHHHhhCCCCC-eEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHH
Confidence            999998763  344444333322234 6777766653 333222 2346889999999999888877654

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=96.56  E-value=0.07  Score=48.56  Aligned_cols=155  Identities=9%  Similarity=0.022  Sum_probs=80.3

Q ss_pred             hhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCC-----
Q 045709          151 LTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLF-----  224 (337)
Q Consensus       151 ~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~-----  224 (337)
                      ..-+++.+.+..++ ..-+.+.|+.|+||+++|..++....-. ......   .+    ......+.+.......     
T Consensus         9 ~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~-~~~~~~---~C----g~C~sC~~~~~g~HPD~~~i~   80 (334)
T PRK07993          9 PDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQ-QPQGHK---SC----GHCRGCQLMQAGTHPDYYTLT   80 (334)
T ss_pred             HHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCC-CCCCCC---CC----CCCHHHHHHHcCCCCCEEEEe
Confidence            34566777776654 5678899999999999999988766210 110000   00    1111111111100000     


Q ss_pred             Cccc-cCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCCh-hHHhhc-cC
Q 045709          225 NESW-KNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREF-GVCGQM-EA  294 (337)
Q Consensus       225 ~~~~-~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~-~v~~~~-~~  294 (337)
                      .+.. .....++ ++.+.+.+     .+++-++|+|+++...  .-..+...+-.-..+ +.+|++|.+. .+...+ +.
T Consensus        81 p~~~~~~I~idq-iR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~-t~fiL~t~~~~~lLpTIrSR  158 (334)
T PRK07993         81 PEKGKSSLGVDA-VREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPEN-TWFFLACREPARLLATLRSR  158 (334)
T ss_pred             cccccccCCHHH-HHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCC-eEEEEEECChhhChHHHHhc
Confidence            0000 0112222 23333333     2556699999998653  222232222221234 6777776654 344332 33


Q ss_pred             CceeecCCCCHHHHHHHHhHh
Q 045709          295 HRSFKVECLRYDDAWKLFEQK  315 (337)
Q Consensus       295 ~~~~~l~~L~~~ea~~Lf~~~  315 (337)
                      ...+.+.+++.+++.+.+...
T Consensus       159 Cq~~~~~~~~~~~~~~~L~~~  179 (334)
T PRK07993        159 CRLHYLAPPPEQYALTWLSRE  179 (334)
T ss_pred             cccccCCCCCHHHHHHHHHHc
Confidence            457899999999998888654

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=96.55  E-value=0.0039  Score=54.54  Aligned_cols=60  Identities=25%  Similarity=0.351  Sum_probs=42.7

Q ss_pred             HHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHH
Q 045709          154 DRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQ  214 (337)
Q Consensus       154 ~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~  214 (337)
                      .+|+..+..  ++..+|+|.|.||+|||||.-.+...+ ...++--.++=|+-|++++--.++
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l-~~~G~rVaVlAVDPSSp~TGGsiL   99 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGREL-RERGHRVAVLAVDPSSPFTGGSIL   99 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHH-HHCCcEEEEEEECCCCCCCCcccc
Confidence            345555543  467899999999999999999999888 444554456666666666554444

>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family

Probab=96.53  E-value=0.018  Score=56.43  Aligned_cols=27  Identities=30%  Similarity=0.466  Sum_probs=24.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|.+|+|||||.+.++...
T Consensus        29 ~~Ge~~~liG~NGsGKSTLl~~i~G~~   55 (552)
T TIGR03719        29 FPGAKIGVLGLNGAGKSTLLRIMAGVD   55 (552)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            356799999999999999999998765

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.

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=96.52  E-value=0.007  Score=56.46  Aligned_cols=92  Identities=24%  Similarity=0.279  Sum_probs=51.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc----cCCCHHH---
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW----KNKSMQE---  235 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~----~~~~~~~---  235 (337)
                      .+...++|+|.+|+|||||++.+....    .....++.....+...+.++....+..-+......    .+.+...   
T Consensus       138 ~~Gq~i~I~G~sG~GKTtLl~~I~~~~----~~~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~  213 (418)
T TIGR03498       138 CRGQRLGIFAGSGVGKSTLLSMLARNT----DADVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQ  213 (418)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHhCCC----CCCEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHH
Confidence            356789999999999999998887654    22223333333334445555555444332211000    1111111   


Q ss_pred             ---HHHHHHHHh--cCCcEEEEEecCCC
Q 045709          236 ---KAQEIFKIL--SKKKFVLLLDDIWE  258 (337)
Q Consensus       236 ---~~~~l~~~l--~~k~~LlVlDdv~~  258 (337)
                         ..-.+.+++  +++.+||++||+-.
T Consensus       214 a~~~a~~iAEyfrd~G~~Vll~~DslTr  241 (418)
T TIGR03498       214 AAYTATAIAEYFRDQGKDVLLLMDSVTR  241 (418)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEeccchhH
Confidence               112234444  57899999999854

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

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

Probab=96.52  E-value=0.038  Score=53.51  Aligned_cols=165  Identities=16%  Similarity=0.161  Sum_probs=84.7

Q ss_pred             CccccchhhHHH---HHHHHhcCC---------CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDR---VWRCLMEEH---------AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~---l~~~L~~~~---------~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .++-|.++..++   +++.|.++.         ++-+.++|++|.|||.||+.+....   .-+|-     +.|..    
T Consensus       150 ~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA---~VPFf-----~iSGS----  217 (596)
T COG0465         150 ADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEA---GVPFF-----SISGS----  217 (596)
T ss_pred             hhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhccc---CCCce-----eccch----
Confidence            456787765554   555565431         4568899999999999999998877   22331     22221    


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc----------------ccccccCCCCCCCCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV----------------DLDQVGLPIPSRTSV  275 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------------~~~~l~~~l~~~~~g  275 (337)
                          ++++.+       -.-......+...+..+.-+|++++|.++...                .+.++..-. ++..+
T Consensus       218 ----~FVemf-------VGvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEm-DGF~~  285 (596)
T COG0465         218 ----DFVEMF-------VGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEM-DGFGG  285 (596)
T ss_pred             ----hhhhhh-------cCCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhh-ccCCC
Confidence                111111       11111222333444555668999999887431                122332211 11111


Q ss_pred             C-cEEEE-eeCChhHHhh--cc---CCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHH
Q 045709          276 S-NKVVF-TTREFGVCGQ--ME---AHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAE  332 (337)
Q Consensus       276 ~-s~Iii-Ttr~~~v~~~--~~---~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~  332 (337)
                      + .-|++ .|...+|...  +.   -+..+.++.-+-..-.+.++-++........-++..|++
T Consensus       286 ~~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~Vdl~~iAr  349 (596)
T COG0465         286 NEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDLKKIAR  349 (596)
T ss_pred             CCceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcCCHHHHhh
Confidence            0 23333 3333444311  11   235566666666777777776664433333444555544

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=96.52  E-value=0.002  Score=48.25  Aligned_cols=22  Identities=32%  Similarity=0.688  Sum_probs=19.8

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |-|+|.+|+|||+||..++...
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l   22 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDL   22 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999988877

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

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=96.51  E-value=0.037  Score=46.93  Aligned_cols=88  Identities=22%  Similarity=0.353  Sum_probs=53.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc-cCHHHHHHHHHHHhCCCCcc----ccCCCHH----
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD-LQLEKIQESIAKKIGLFNES----WKNKSMQ----  234 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~----~~~~~~~----  234 (337)
                      +...++|+|.+|+|||+|+..+.+..     .-+.++++.+... ..+.++.+.+...-......    ....+..    
T Consensus        14 ~Gqr~~I~g~~g~GKt~Ll~~i~~~~-----~~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~   88 (215)
T PF00006_consen   14 RGQRIGIFGGAGVGKTVLLQEIANNQ-----DADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYR   88 (215)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHC-----TTTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHH
T ss_pred             cCCEEEEEcCcccccchhhHHHHhcc-----cccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhh
Confidence            56789999999999999999999887     2333477777654 44555555554331111100    0111111    


Q ss_pred             ------HHHHHHHHHhcCCcEEEEEecCCC
Q 045709          235 ------EKAQEIFKILSKKKFVLLLDDIWE  258 (337)
Q Consensus       235 ------~~~~~l~~~l~~k~~LlVlDdv~~  258 (337)
                            ..++.++.  +++..|+++||+-.
T Consensus        89 ~~~~a~t~AEyfrd--~G~dVlli~Dsltr  116 (215)
T PF00006_consen   89 APYTALTIAEYFRD--QGKDVLLIIDSLTR  116 (215)
T ss_dssp             HHHHHHHHHHHHHH--TTSEEEEEEETHHH
T ss_pred             hhccchhhhHHHhh--cCCceeehhhhhHH
Confidence                  12223333  68999999999853

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.51  E-value=0.0019  Score=54.14  Aligned_cols=23  Identities=39%  Similarity=0.667  Sum_probs=20.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +|+|.|.+|+|||||++.+....
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999997765

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.51  E-value=0.0032  Score=51.69  Aligned_cols=25  Identities=20%  Similarity=0.363  Sum_probs=22.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|.+.|++|+||||+|+.+....
T Consensus         2 ~~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           2 GRIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998776

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK12678 transcription termination factor Rho; Provisional

Probab=96.51  E-value=0.0067  Score=58.07  Aligned_cols=89  Identities=24%  Similarity=0.208  Sum_probs=49.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEE-EEEecCccCHHHHHHHHHHHhC---CCCccccCCCH-----
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVI-WVVVSRDLQLEKIQESIAKKIG---LFNESWKNKSM-----  233 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~-wv~~~~~~~~~~~~~~i~~~l~---~~~~~~~~~~~-----  233 (337)
                      ....-.+|+|.+|+|||||++.+.+...  ..+-++.+ .+-+.......   ..|...+.   ... . ...+.     
T Consensus       414 GkGQR~LIvgpp~aGKTtLL~~IAn~i~--~n~~~~~~ivvLIgERpeEV---tdm~rsVkgeVVas-T-~D~p~~~~~~  486 (672)
T PRK12678        414 GKGQRGLIVSPPKAGKTTILQNIANAIT--TNNPECHLMVVLVDERPEEV---TDMQRSVKGEVIAS-T-FDRPPSDHTT  486 (672)
T ss_pred             ccCCEeEEeCCCCCCHHHHHHHHHHHHh--hcCCCeEEEEEEEeCchhhH---HHHHHhccceEEEE-C-CCCCHHHHHH
Confidence            3567789999999999999999998762  23334443 33444433221   22222221   000 0 11111     


Q ss_pred             -HHHHHHHHHHh--cCCcEEEEEecCCC
Q 045709          234 -QEKAQEIFKIL--SKKKFVLLLDDIWE  258 (337)
Q Consensus       234 -~~~~~~l~~~l--~~k~~LlVlDdv~~  258 (337)
                       ..+.-.+.+++  .++.+||++|++-.
T Consensus       487 ~a~~ai~~Ae~fre~G~dVlillDSlTR  514 (672)
T PRK12678        487 VAELAIERAKRLVELGKDVVVLLDSITR  514 (672)
T ss_pred             HHHHHHHHHHHHHHcCCCEEEEEeCchH
Confidence             11222233444  68899999999853

>PRK05439 pantothenate kinase; Provisional

Probab=96.50  E-value=0.028  Score=50.32  Aligned_cols=27  Identities=26%  Similarity=0.334  Sum_probs=23.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...-+|+|.|.+|+||||+|+.+....
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~l  110 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQALL  110 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            356799999999999999999998765

>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family

Probab=96.50  E-value=0.018  Score=56.41  Aligned_cols=127  Identities=20%  Similarity=0.208  Sum_probs=68.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--Cc---EEEEEEecC-----ccCHHH----------------HHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--FD---FVIWVVVSR-----DLQLEK----------------IQES  216 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f~---~~~wv~~~~-----~~~~~~----------------~~~~  216 (337)
                      ....+++|+|.+|+|||||++.++.......+.  +.   .+.++.-..     ..++.+                -...
T Consensus       346 ~~Ge~~~l~G~NGsGKSTLl~~l~G~~~p~~G~i~~~~~~~i~~v~q~~~~~~~~~tv~e~l~~~~~~~~~~~~~~~~~~  425 (552)
T TIGR03719       346 PPGGIVGVIGPNGAGKSTLFRMITGQEQPDSGTIKIGETVKLAYVDQSRDALDPNKTVWEEISGGLDIIQLGKREVPSRA  425 (552)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHcCCCCCCCeEEEECCceEEEEEeCCccccCCCCcHHHHHHhhccccccCcchHHHHH
Confidence            356799999999999999999998754111110  11   122332111     011111                1223


Q ss_pred             HHHHhCCCC----ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc---cccCCCCCCCCCCcEEEEeeCChhH
Q 045709          217 IAKKIGLFN----ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD---QVGLPIPSRTSVSNKVVFTTREFGV  288 (337)
Q Consensus       217 i~~~l~~~~----~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~~~~g~s~IiiTtr~~~v  288 (337)
                      ++..++...    ......+..+..+. +...+..++-+|+||+.-+..+..   .+...+... .+  .||++|++...
T Consensus       426 ~l~~~~l~~~~~~~~~~~LSgGe~qrv~la~al~~~p~lllLDEPt~~LD~~~~~~l~~~l~~~-~~--~viivsHd~~~  502 (552)
T TIGR03719       426 YVGRFNFKGSDQQKKVGQLSGGERNRVHLAKTLKSGGNVLLLDEPTNDLDVETLRALEEALLEF-AG--CAVVISHDRWF  502 (552)
T ss_pred             HHHhCCCChhHhcCchhhCCHHHHHHHHHHHHHhhCCCEEEEeCCCCCCCHHHHHHHHHHHHHC-CC--eEEEEeCCHHH
Confidence            455555431    11234444444433 556667788999999986653321   111112211 24  48899998876


Q ss_pred             Hhhc
Q 045709          289 CGQM  292 (337)
Q Consensus       289 ~~~~  292 (337)
                      ...+
T Consensus       503 ~~~~  506 (552)
T TIGR03719       503 LDRI  506 (552)
T ss_pred             HHHh
Confidence            5543

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.

>PRK08149 ATP synthase SpaL; Validated

Probab=96.48  E-value=0.016  Score=54.08  Aligned_cols=91  Identities=16%  Similarity=0.223  Sum_probs=52.4

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC-ccCHHHHHHHHHHHhCCCCccc----cCCCHH---
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR-DLQLEKIQESIAKKIGLFNESW----KNKSMQ---  234 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~----~~~~~~---  234 (337)
                      .+...++|+|.+|+|||||+..+++..     ..+.+++..+.. ...+.++...+..........+    .+.+..   
T Consensus       149 ~~Gq~i~I~G~sG~GKTTLl~~i~~~~-----~~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~  223 (428)
T PRK08149        149 GVGQRMGIFASAGCGKTSLMNMLIEHS-----EADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRC  223 (428)
T ss_pred             ecCCEEEEECCCCCChhHHHHHHhcCC-----CCCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHH
Confidence            366789999999999999999987754     223333343332 3345566666655432211000    111111   


Q ss_pred             ---HHHHHHHHHh--cCCcEEEEEecCCC
Q 045709          235 ---EKAQEIFKIL--SKKKFVLLLDDIWE  258 (337)
Q Consensus       235 ---~~~~~l~~~l--~~k~~LlVlDdv~~  258 (337)
                         ...-.+.+++  +++.+||++||+-.
T Consensus       224 ~a~~~a~tiAE~fr~~G~~Vll~~DslTr  252 (428)
T PRK08149        224 NAALVATTVAEYFRDQGKRVVLFIDSMTR  252 (428)
T ss_pred             hHHHHHHHHHHHHHHcCCCEEEEccchHH
Confidence               1222233443  58999999999854

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=96.48  E-value=0.025  Score=52.98  Aligned_cols=91  Identities=15%  Similarity=0.216  Sum_probs=52.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc-CHHHHHHHHHHHhCCCCcc----ccCCCHHH--
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL-QLEKIQESIAKKIGLFNES----WKNKSMQE--  235 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~----~~~~~~~~--  235 (337)
                      .+...++|+|.+|+|||||++.+++..     ..+.++++-+.... .+.++....+..-+.....    ..+.+...  
T Consensus       156 ~~Gqri~I~G~sG~GKTtLL~~I~~~~-----~~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~  230 (442)
T PRK08927        156 CRGQRMGIFAGSGVGKSVLLSMLARNA-----DADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRR  230 (442)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhcc-----CCCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHH
Confidence            367789999999999999999998765     22345555555433 3445554444432221100    01111111  


Q ss_pred             ----HHHHHHHHh--cCCcEEEEEecCCC
Q 045709          236 ----KAQEIFKIL--SKKKFVLLLDDIWE  258 (337)
Q Consensus       236 ----~~~~l~~~l--~~k~~LlVlDdv~~  258 (337)
                          ..-.+.+++  +++.+||++||+-.
T Consensus       231 ~a~~~a~tiAEyfrd~G~~Vll~~DslTr  259 (442)
T PRK08927        231 QAAYLTLAIAEYFRDQGKDVLCLMDSVTR  259 (442)
T ss_pred             HHHHHHHHHHHHHHHCCCcEEEEEeCcHH
Confidence                112233444  58999999999853

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.47  E-value=0.0026  Score=52.36  Aligned_cols=24  Identities=33%  Similarity=0.520  Sum_probs=21.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++.|+|++|+|||||++.+....
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            478999999999999999998876

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=96.47  E-value=0.034  Score=48.99  Aligned_cols=41  Identities=24%  Similarity=0.214  Sum_probs=31.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      ...++.|.|.+|+|||||+.+++....  ..+-..++|++...
T Consensus        29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~--~~~g~~vl~iS~E~   69 (271)
T cd01122          29 KGELIILTAGTGVGKTTFLREYALDLI--TQHGVRVGTISLEE   69 (271)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHH--HhcCceEEEEEccc
Confidence            567889999999999999999987762  22245688888755

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=96.46  E-value=0.018  Score=44.07  Aligned_cols=48  Identities=17%  Similarity=0.341  Sum_probs=35.1

Q ss_pred             CccccchhhHHHHHHHHh----c---CCCeEEEEEecCCCcHHHHHHHHHHhhcc
Q 045709          144 PTVVGLQLTFDRVWRCLM----E---EHAGIVGLYGMGGVGKTTLLTQINNRFFD  191 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~----~---~~~~vi~I~G~~GiGKTtLa~~v~~~~~~  191 (337)
                      ..++|..-..+.+.+.+.    +   .++-|++.+|.+|+|||.+++.+++...+
T Consensus        25 ~~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~ly~   79 (127)
T PF06309_consen   25 RNLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHLYK   79 (127)
T ss_pred             HHccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHHHh
Confidence            346776655555555553    3   25668999999999999999999888543

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=96.46  E-value=0.037  Score=50.77  Aligned_cols=72  Identities=21%  Similarity=0.283  Sum_probs=38.8

Q ss_pred             hHHHHHHHHhcC----CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc-CHHHHHHHHHHHhCCC
Q 045709          152 TFDRVWRCLMEE----HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL-QLEKIQESIAKKIGLF  224 (337)
Q Consensus       152 ~~~~l~~~L~~~----~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~  224 (337)
                      ....+..++..+    +.+++.++|+.|+||||-..+++..+ .....-..+..++..... ...+-+...++-++.+
T Consensus       186 ~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~-~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp  262 (407)
T COG1419         186 KLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARY-VMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVP  262 (407)
T ss_pred             HHHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHH-HhhccCcceEEEEeccchhhHHHHHHHHHHHhCCc
Confidence            334444444433    48999999999999997555555554 112333345555544321 2223334444444443

>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=96.46  E-value=0.004  Score=58.26  Aligned_cols=123  Identities=23%  Similarity=0.201  Sum_probs=69.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcE-----EEEEEec---------------Cc------cCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDF-----VIWVVVS---------------RD------LQLEKIQESI  217 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~-----~~wv~~~---------------~~------~~~~~~~~~i  217 (337)
                      ..+..++||.+|+|||||.+.+.+..   -..|..     ..++...               ..      .+..++...+
T Consensus       105 ~GrRYGLvGrNG~GKsTLLRaia~~~---v~~f~veqE~~g~~t~~~~~~l~~D~~~~dfl~~e~~l~~~~~l~ei~~~~  181 (582)
T KOG0062|consen  105 RGRRYGLVGRNGIGKSTLLRAIANGQ---VSGFHVEQEVRGDDTEALQSVLESDTERLDFLAEEKELLAGLTLEEIYDKI  181 (582)
T ss_pred             cccccceeCCCCCcHHHHHHHHHhcC---cCccCchhheeccchHHHhhhhhccHHHHHHHHhhhhhhccchHHHHHHHH
Confidence            56788999999999999999999843   223321     1121100               00      0234444446


Q ss_pred             HHHhCCCCcc----ccCCC-HHHHHHHHHHHhcCCcEEEEEecCCCccccc---cccCCCCCCCCCCcEEEEeeCChhHH
Q 045709          218 AKKIGLFNES----WKNKS-MQEKAQEIFKILSKKKFVLLLDDIWELVDLD---QVGLPIPSRTSVSNKVVFTTREFGVC  289 (337)
Q Consensus       218 ~~~l~~~~~~----~~~~~-~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~~~~g~s~IiiTtr~~~v~  289 (337)
                      +..++...+.    ..+.+ .-.+.-.|.+.+-.++=||.||+--+..+..   .+..++..  .+ ..+||.|++....
T Consensus       182 L~glGFt~emq~~pt~slSGGWrMrlaLARAlf~~pDlLLLDEPTNhLDv~av~WLe~yL~t--~~-~T~liVSHDr~FL  258 (582)
T KOG0062|consen  182 LAGLGFTPEMQLQPTKSLSGGWRMRLALARALFAKPDLLLLDEPTNHLDVVAVAWLENYLQT--WK-ITSLIVSHDRNFL  258 (582)
T ss_pred             HHhCCCCHHHHhccccccCcchhhHHHHHHHHhcCCCEEeecCCcccchhHHHHHHHHHHhh--CC-ceEEEEeccHHHH
Confidence            6666654321    11111 1123334556666788899999887664422   22233322  22 5789999998876


Q ss_pred             hhc
Q 045709          290 GQM  292 (337)
Q Consensus       290 ~~~  292 (337)
                      ...
T Consensus       259 n~V  261 (582)
T KOG0062|consen  259 NTV  261 (582)
T ss_pred             HHH
Confidence            554

>PRK00889 adenylylsulfate kinase; Provisional

Probab=96.46  E-value=0.0034  Score=51.50  Aligned_cols=26  Identities=27%  Similarity=0.479  Sum_probs=23.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+|.|+|.+|+||||+|+.+....
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l   28 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKL   28 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45799999999999999999999887

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.45  E-value=0.0052  Score=50.97  Aligned_cols=26  Identities=15%  Similarity=0.313  Sum_probs=23.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+|.|+|++|+|||||++.+....
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            46789999999999999999998765

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=96.45  E-value=0.0049  Score=55.97  Aligned_cols=45  Identities=20%  Similarity=0.253  Sum_probs=38.6

Q ss_pred             ccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          145 TVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+||.++.+..+.-.+.++...-+.|.|.+|+|||||++.+..-.
T Consensus         5 ~ivgq~~~~~al~~~~~~~~~g~vli~G~~G~gKttl~r~~~~~~   49 (337)
T TIGR02030         5 AIVGQDEMKLALLLNVIDPKIGGVMVMGDRGTGKSTAVRALAALL   49 (337)
T ss_pred             ccccHHHHHHHHHHHhcCCCCCeEEEEcCCCCCHHHHHHHHHHhh
Confidence            479999999888777777667778899999999999999997655

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.

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

Probab=96.45  E-value=0.1  Score=44.68  Aligned_cols=44  Identities=27%  Similarity=0.352  Sum_probs=33.1

Q ss_pred             cccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          146 VVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       146 ~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +=|.+-..+++.+...-             +.++-|.++|++|+|||.||+.++++-
T Consensus       157 iggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t  213 (408)
T KOG0727|consen  157 IGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHT  213 (408)
T ss_pred             cccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhcc
Confidence            34566666666555421             356778899999999999999999876

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=96.45  E-value=0.0042  Score=52.90  Aligned_cols=23  Identities=30%  Similarity=0.320  Sum_probs=20.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      ..++.|.|++|.||||+.+.+..
T Consensus        30 ~~~~~l~Gpn~sGKstllr~i~~   52 (216)
T cd03284          30 RQILLITGPNMAGKSTYLRQVAL   52 (216)
T ss_pred             ceEEEEECCCCCChHHHHHHHHH
Confidence            37899999999999999999853

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 clam

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=96.44  E-value=0.0024  Score=58.20  Aligned_cols=134  Identities=22%  Similarity=0.262  Sum_probs=71.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCC-CCc---EEEEEE-------e----cCccCHHHHHHHH-----------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPN-HFD---FVIWVV-------V----SRDLQLEKIQESI-----------  217 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-~f~---~~~wv~-------~----~~~~~~~~~~~~i-----------  217 (337)
                      ...++.|+|.+|+||||+.+++......... .|.   ..+-+.       +    ...++-..++.++           
T Consensus       408 pGdvvaVvGqSGaGKttllRmi~G~~~~~~ee~y~p~sg~v~vp~nt~~a~iPge~Ep~f~~~tilehl~s~tGD~~~Av  487 (593)
T COG2401         408 PGDVVAVVGQSGAGKTTLLRMILGAQKGRGEEKYRPDSGKVEVPKNTVSALIPGEYEPEFGEVTILEHLRSKTGDLNAAV  487 (593)
T ss_pred             CCCeEEEEecCCCCcchHHHHHHHHhhcccccccCCCCCceeccccchhhccCcccccccCchhHHHHHhhccCchhHHH
Confidence            5678999999999999999999876621111 010   111110       1    1112222333333           


Q ss_pred             --HHHhCCCCcc-----ccCCC-HHHHHHHHHHHhcCCcEEEEEecCCCccccc-c--ccCCCC--CCCCCCcEEEEeeC
Q 045709          218 --AKKIGLFNES-----WKNKS-MQEKAQEIFKILSKKKFVLLLDDIWELVDLD-Q--VGLPIP--SRTSVSNKVVFTTR  284 (337)
Q Consensus       218 --~~~l~~~~~~-----~~~~~-~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~-~--l~~~l~--~~~~g~s~IiiTtr  284 (337)
                        ++..+.....     +...+ .+.-..+|.+.+.++.-+++.|.+....+-. .  +...+.  ....| +.+++.|+
T Consensus       488 eILnraGlsDAvlyRr~f~ELStGQKeR~KLAkllaerpn~~~iDEF~AhLD~~TA~rVArkiselaRe~g-iTlivvTh  566 (593)
T COG2401         488 EILNRAGLSDAVLYRRKFSELSTGQKERAKLAKLLAERPNVLLIDEFAAHLDELTAVRVARKISELAREAG-ITLIVVTH  566 (593)
T ss_pred             HHHHhhccchhhhhhccHhhcCcchHHHHHHHHHHhcCCCcEEhhhhhhhcCHHHHHHHHHHHHHHHHHhC-CeEEEEec
Confidence              3333333211     11222 2333456778888999999999987653211 0  001111  11245 77787788


Q ss_pred             ChhHHhhccCCcee
Q 045709          285 EFGVCGQMEAHRSF  298 (337)
Q Consensus       285 ~~~v~~~~~~~~~~  298 (337)
                      ++++...+.++..+
T Consensus       567 rpEv~~AL~PD~li  580 (593)
T COG2401         567 RPEVGNALRPDTLI  580 (593)
T ss_pred             CHHHHhccCCceeE
Confidence            88887777555433

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

Probab=96.44  E-value=0.013  Score=51.20  Aligned_cols=91  Identities=21%  Similarity=0.327  Sum_probs=57.7

Q ss_pred             ccccchhhHHHHHHHHhc------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHH
Q 045709          145 TVVGLQLTFDRVWRCLME------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEK  212 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~  212 (337)
                      ++-|-+...+.|.+...-            ...+-|.++|++|.|||.||+.|+...   ...     |+++|..    +
T Consensus       134 DVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEA---nST-----FFSvSSS----D  201 (439)
T KOG0739|consen  134 DVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEA---NST-----FFSVSSS----D  201 (439)
T ss_pred             hhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhc---CCc-----eEEeehH----H
Confidence            456777777777766431            135779999999999999999998876   222     2344432    1


Q ss_pred             HHHHHHHHhCCCCccccCCCHHHHHHHHHHHh-cCCcEEEEEecCCCc
Q 045709          213 IQESIAKKIGLFNESWKNKSMQEKAQEIFKIL-SKKKFVLLLDDIWEL  259 (337)
Q Consensus       213 ~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~  259 (337)
                      +.   -..++.         .+.+...|.+.- .+++-+|.+|++++.
T Consensus       202 Lv---SKWmGE---------SEkLVknLFemARe~kPSIIFiDEiDsl  237 (439)
T KOG0739|consen  202 LV---SKWMGE---------SEKLVKNLFEMARENKPSIIFIDEIDSL  237 (439)
T ss_pred             HH---HHHhcc---------HHHHHHHHHHHHHhcCCcEEEeehhhhh
Confidence            11   112221         134445555544 468899999999854

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=96.43  E-value=0.022  Score=49.90  Aligned_cols=91  Identities=12%  Similarity=0.133  Sum_probs=50.6

Q ss_pred             CCeEEEEEecCCCcHHHHH-HHHHHhhccCCCCCcEE-EEEEecCc-cCHHHHHHHHHHHhCCCCcc----ccCCCHHH-
Q 045709          164 HAGIVGLYGMGGVGKTTLL-TQINNRFFDTPNHFDFV-IWVVVSRD-LQLEKIQESIAKKIGLFNES----WKNKSMQE-  235 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~~f~~~-~wv~~~~~-~~~~~~~~~i~~~l~~~~~~----~~~~~~~~-  235 (337)
                      +...++|+|.+|+|||+|+ ..+.++.     .-+.+ +++-+... ....++.+.+...-......    ..+.+... 
T Consensus        68 rGQr~~Ifg~~g~GKt~L~l~~i~~~~-----~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r  142 (274)
T cd01132          68 RGQRELIIGDRQTGKTAIAIDTIINQK-----GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQ  142 (274)
T ss_pred             cCCEEEeeCCCCCCccHHHHHHHHHhc-----CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHH
Confidence            5678999999999999996 5555443     22333 55555544 34556666665432211100    01111111 


Q ss_pred             -----HHHHHHHHh--cCCcEEEEEecCCCc
Q 045709          236 -----KAQEIFKIL--SKKKFVLLLDDIWEL  259 (337)
Q Consensus       236 -----~~~~l~~~l--~~k~~LlVlDdv~~~  259 (337)
                           ..-.+.+++  +++..||++||+-..
T Consensus       143 ~~a~~~a~aiAE~fr~~G~~Vlvl~DslTr~  173 (274)
T cd01132         143 YLAPYTGCAMGEYFMDNGKHALIIYDDLSKQ  173 (274)
T ss_pred             HHHHHHHHHHHHHHHHCCCCEEEEEcChHHH
Confidence                 112223333  588999999998643

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=96.42  E-value=0.0026  Score=50.28  Aligned_cols=23  Identities=26%  Similarity=0.563  Sum_probs=21.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +|.|.|.+|+||||+|+.+...+
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999999876

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=96.42  E-value=0.012  Score=55.31  Aligned_cols=92  Identities=21%  Similarity=0.231  Sum_probs=50.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCc----cccCCCHH----
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNE----SWKNKSMQ----  234 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----~~~~~~~~----  234 (337)
                      .+...++|+|.+|+|||||++.+....    ..-..++++.-.+.....++....+..-+....    ...+.+..    
T Consensus       156 ~~Gq~i~I~G~sG~GKStLl~~I~~~~----~~~~gvI~~~Gerg~ev~e~~~~~l~~~~l~r~v~vv~~~~~~~~~r~~  231 (438)
T PRK07721        156 GKGQRVGIFAGSGVGKSTLMGMIARNT----SADLNVIALIGERGREVREFIERDLGPEGLKRSIVVVATSDQPALMRIK  231 (438)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhccc----CCCeEEEEEEecCCccHHHHHHhhcChhhhcCeEEEEECCCCCHHHHHH
Confidence            467899999999999999999887755    122244554433444455443332221111000    00111111    


Q ss_pred             --HHHHHHHHHh--cCCcEEEEEecCCC
Q 045709          235 --EKAQEIFKIL--SKKKFVLLLDDIWE  258 (337)
Q Consensus       235 --~~~~~l~~~l--~~k~~LlVlDdv~~  258 (337)
                        ...-.+.+++  +++..||++||+-.
T Consensus       232 ~~~~a~~iAEyfr~~g~~Vll~~Dsltr  259 (438)
T PRK07721        232 GAYTATAIAEYFRDQGLNVMLMMDSVTR  259 (438)
T ss_pred             HHHHHHHHHHHHHHCCCcEEEEEeChHH
Confidence              1122233444  58999999999853

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=96.42  E-value=0.031  Score=50.43  Aligned_cols=91  Identities=23%  Similarity=0.296  Sum_probs=51.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEec-CccCHHHHHHHHHHHhCCCCcc----ccCCCHHH--
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVS-RDLQLEKIQESIAKKIGLFNES----WKNKSMQE--  235 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~~~----~~~~~~~~--  235 (337)
                      .....++|+|.+|+|||||++.+.+..   .  -+..+..-+. ....+.++.......-+.....    ..+.+...  
T Consensus        67 ~~Gqri~I~G~sG~GKTtLl~~Ia~~~---~--~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~  141 (326)
T cd01136          67 GKGQRLGIFAGSGVGKSTLLGMIARGT---T--ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRV  141 (326)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHhCCC---C--CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHH
Confidence            356789999999999999999888765   1  2233333333 3345555555555443221100    01111111  


Q ss_pred             ----HHHHHHHHh--cCCcEEEEEecCCC
Q 045709          236 ----KAQEIFKIL--SKKKFVLLLDDIWE  258 (337)
Q Consensus       236 ----~~~~l~~~l--~~k~~LlVlDdv~~  258 (337)
                          ..-.+.+++  +++.+||++||+-.
T Consensus       142 ~~~~~a~~~AEyfr~~g~~Vll~~Dsltr  170 (326)
T cd01136         142 KAAYTATAIAEYFRDQGKDVLLLMDSLTR  170 (326)
T ss_pred             HHHHHHHHHHHHHHHcCCCeEEEeccchH
Confidence                111223333  58899999999753

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>PRK06217 hypothetical protein; Validated

Probab=96.40  E-value=0.0028  Score=52.49  Aligned_cols=23  Identities=30%  Similarity=0.492  Sum_probs=21.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|.|.+|+|||||++.+....
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999999876

>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=96.39  E-value=0.02  Score=56.28  Aligned_cols=27  Identities=37%  Similarity=0.689  Sum_probs=23.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+...++|+|++|+|||||++.+...+
T Consensus       339 ~~G~~~~ivG~sGsGKSTLl~ll~g~~  365 (569)
T PRK10789        339 KPGQMLGICGPTGSGKSTLLSLIQRHF  365 (569)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            467899999999999999999997755

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=96.38  E-value=0.0052  Score=55.92  Aligned_cols=46  Identities=20%  Similarity=0.264  Sum_probs=40.3

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+||.++.+..|...+.++..+-+.|.|..|+||||+|+.+++-.
T Consensus        17 ~~ivGq~~~k~al~~~~~~p~~~~vli~G~~GtGKs~~ar~~~~~l   62 (350)
T CHL00081         17 TAIVGQEEMKLALILNVIDPKIGGVMIMGDRGTGKSTTIRALVDLL   62 (350)
T ss_pred             HHHhChHHHHHHHHHhccCCCCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            3579999999999888888777778899999999999999997766

>PRK13949 shikimate kinase; Provisional

Probab=96.38  E-value=0.0033  Score=51.29  Aligned_cols=23  Identities=35%  Similarity=0.400  Sum_probs=21.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|+|++|+||||+++.+....
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l   25 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAREL   25 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            58899999999999999999887

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.38  E-value=0.0059  Score=51.95  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=20.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|+|++|+||||+++.+...+
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998776

>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=96.38  E-value=0.0062  Score=49.60  Aligned_cols=44  Identities=23%  Similarity=0.229  Sum_probs=32.5

Q ss_pred             cccchhhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          146 VVGLQLTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       146 ~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++|....+.++.+.+..  ....-|.|+|..|+||+.+|+.+++..
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~s   46 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNNS   46 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHCS
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHhh
Confidence            46777788887777654  334566799999999999999998865

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 ....

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=96.38  E-value=0.61  Score=47.52  Aligned_cols=24  Identities=21%  Similarity=0.236  Sum_probs=20.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      +.+++.|.|+++.||||+.+.+.-
T Consensus       326 ~~~~~iITGpN~gGKTt~lktigl  349 (782)
T PRK00409        326 DKTVLVITGPNTGGKTVTLKTLGL  349 (782)
T ss_pred             CceEEEEECCCCCCcHHHHHHHHH
Confidence            467899999999999999998854

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=96.37  E-value=0.0061  Score=47.68  Aligned_cols=105  Identities=14%  Similarity=0.143  Sum_probs=55.3

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL  244 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  244 (337)
                      .+-|.|.|-||+|||||+..++...     .|   -|+++++-..-..+....=+..     .....+.+.+.+.|-..+
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~-----~~---~~i~isd~vkEn~l~~gyDE~y-----~c~i~DEdkv~D~Le~~m   73 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKT-----GL---EYIEISDLVKENNLYEGYDEEY-----KCHILDEDKVLDELEPLM   73 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHh-----CC---ceEehhhHHhhhcchhcccccc-----cCccccHHHHHHHHHHHH
Confidence            4678899999999999999998654     22   3555554322222211111110     113345666777777766


Q ss_pred             cCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHHhhcc
Q 045709          245 SKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQME  293 (337)
Q Consensus       245 ~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~~~~  293 (337)
                      .+..+++  |       |.. ...||..--. --+++||-+..+...+.
T Consensus        74 ~~Gg~IV--D-------yHg-Cd~Fperwfd-lVvVLr~~~s~LY~RL~  111 (176)
T KOG3347|consen   74 IEGGNIV--D-------YHG-CDFFPERWFD-LVVVLRTPNSVLYDRLK  111 (176)
T ss_pred             hcCCcEE--e-------ecc-cCccchhhee-EEEEEecCchHHHHHHH
Confidence            5544322  1       111 1223332223 35666776666555443

>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=96.37  E-value=0.0023  Score=49.04  Aligned_cols=28  Identities=39%  Similarity=0.459  Sum_probs=19.9

Q ss_pred             EEEEecCCCcHHHHHHHHHHhhccCCCCCcE
Q 045709          168 VGLYGMGGVGKTTLLTQINNRFFDTPNHFDF  198 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~  198 (337)
                      |.|.|.+|+||||+|+.++...   ...|..
T Consensus         2 vLleg~PG~GKT~la~~lA~~~---~~~f~R   29 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSL---GLSFKR   29 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHT---T--EEE
T ss_pred             EeeECCCccHHHHHHHHHHHHc---CCceeE
Confidence            6799999999999999999987   566754

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.

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=96.37  E-value=0.017  Score=54.42  Aligned_cols=93  Identities=22%  Similarity=0.303  Sum_probs=58.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc-cCHHHHHHHHHHHhCCCCcc----ccCCCHHH--
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD-LQLEKIQESIAKKIGLFNES----WKNKSMQE--  235 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~----~~~~~~~~--  235 (337)
                      .+...++|+|.+|+|||||+.++.+...  ..+-+.++++-+... ....++...+...-......    ..+.+...  
T Consensus       141 gkGQR~gIfa~~G~GKt~Ll~~~~~~~~--~~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~  218 (461)
T PRK12597        141 AKGGKTGLFGGAGVGKTVLMMELIFNIS--KQHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARM  218 (461)
T ss_pred             ccCCEEEeecCCCCChhHHHHHHHHHHH--hhCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHH
Confidence            3567899999999999999999988873  235677777776544 34556666665432221100    01122211  


Q ss_pred             ----HHHHHHHHh---cCCcEEEEEecCC
Q 045709          236 ----KAQEIFKIL---SKKKFVLLLDDIW  257 (337)
Q Consensus       236 ----~~~~l~~~l---~~k~~LlVlDdv~  257 (337)
                          ..-.+.+++   .++.+||++|++-
T Consensus       219 ~a~~~a~tiAEyfrd~~G~~VLl~~DslT  247 (461)
T PRK12597        219 RVVLTGLTIAEYLRDEEKEDVLLFIDNIF  247 (461)
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEEeccch
Confidence                222344555   3789999999984

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=96.37  E-value=0.0028  Score=50.52  Aligned_cols=23  Identities=30%  Similarity=0.592  Sum_probs=20.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++.++|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            47899999999999999997764

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=96.37  E-value=0.023  Score=56.08  Aligned_cols=27  Identities=30%  Similarity=0.429  Sum_probs=24.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++...++|+|.+|+|||||++.+...+
T Consensus       374 ~~G~~vaIvG~SGsGKSTL~~lL~g~~  400 (588)
T PRK11174        374 PAGQRIALVGPSGAGKTSLLNALLGFL  400 (588)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            467899999999999999999997755

>PRK13947 shikimate kinase; Provisional

Probab=96.37  E-value=0.0034  Score=51.21  Aligned_cols=23  Identities=30%  Similarity=0.443  Sum_probs=21.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|+|++|+||||+++.+.+.+
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~l   25 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTL   25 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHh
Confidence            48899999999999999999887

>PLN02165 adenylate isopentenyltransferase

Probab=96.37  E-value=0.0042  Score=55.84  Aligned_cols=30  Identities=27%  Similarity=0.424  Sum_probs=25.9

Q ss_pred             HhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          160 LMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       160 L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.+....+++|+|+.|+|||+||..++...
T Consensus        38 ~~~~~g~iivIiGPTGSGKStLA~~LA~~l   67 (334)
T PLN02165         38 EQNCKDKVVVIMGATGSGKSRLSVDLATRF   67 (334)
T ss_pred             ccCCCCCEEEEECCCCCcHHHHHHHHHHHc
Confidence            345567799999999999999999998876

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins

Probab=96.36  E-value=0.009  Score=55.17  Aligned_cols=38  Identities=26%  Similarity=0.339  Sum_probs=31.7

Q ss_pred             hHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          152 TFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       152 ~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++.+++.+.......+.|.|.||+|||+|.+.+.+..
T Consensus         9 ~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~   46 (364)
T PF05970_consen    9 VFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYL   46 (364)
T ss_pred             HHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHh
Confidence            44556666666677899999999999999999999888

The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=96.36  E-value=0.005  Score=52.30  Aligned_cols=127  Identities=18%  Similarity=0.261  Sum_probs=70.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccC------------CC-----CCcEE--EEEE----ecCccCHHHH------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDT------------PN-----HFDFV--IWVV----VSRDLQLEKI------  213 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~------------~~-----~f~~~--~wv~----~~~~~~~~~~------  213 (337)
                      ....+++|+|.+|+|||||++.+..-....            ..     .|..+  +|-+    +.+..++.++      
T Consensus        31 ~~Ge~lgivGeSGsGKSTL~r~l~Gl~~p~~G~I~~~G~~~~~~~~~~~~~~~VQmVFQDp~~SLnP~~tv~~~l~Epl~  110 (252)
T COG1124          31 ERGETLGIVGESGSGKSTLARLLAGLEKPSSGSILLDGKPLAPKKRAKAFYRPVQMVFQDPYSSLNPRRTVGRILSEPLR  110 (252)
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHhcccCCCCceEEECCcccCccccchhhccceeEEecCCccccCcchhHHHHHhhhhc
Confidence            367899999999999999999997644100            00     11111  2211    1111122222      


Q ss_pred             ----------HHHHHHHhCCCCcc----ccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccc-------cccccCCCCC
Q 045709          214 ----------QESIAKKIGLFNES----WKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVD-------LDQVGLPIPS  271 (337)
Q Consensus       214 ----------~~~i~~~l~~~~~~----~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~-------~~~l~~~l~~  271 (337)
                                ..+++.+.+.+..-    ....+..++++. +.+.|.-++-+||+|+.-+..|       |+-+.. +. 
T Consensus       111 ~~~~~~~~~~i~~~L~~VgL~~~~l~R~P~eLSGGQ~QRiaIARAL~~~PklLIlDEptSaLD~siQa~IlnlL~~-l~-  188 (252)
T COG1124         111 PHGLSKSQQRIAELLDQVGLPPSFLDRRPHELSGGQRQRIAIARALIPEPKLLILDEPTSALDVSVQAQILNLLLE-LK-  188 (252)
T ss_pred             cCCccHHHHHHHHHHHHcCCCHHHHhcCchhcChhHHHHHHHHHHhccCCCEEEecCchhhhcHHHHHHHHHHHHH-HH-
Confidence                      23444555554311    133455555554 6677888889999999765422       322211 11 


Q ss_pred             CCCCCcEEEEeeCChhHHhhc
Q 045709          272 RTSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       272 ~~~g~s~IiiTtr~~~v~~~~  292 (337)
                      ...+ -.+|+.|++-.+...+
T Consensus       189 ~~~~-lt~l~IsHdl~~v~~~  208 (252)
T COG1124         189 KERG-LTYLFISHDLALVEHM  208 (252)
T ss_pred             HhcC-ceEEEEeCcHHHHHHH
Confidence            1233 5789999998776554

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=96.36  E-value=0.033  Score=48.15  Aligned_cols=41  Identities=12%  Similarity=0.161  Sum_probs=30.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      ...++.|.|.+|+|||+++..++.+..  ..+-..++|++...
T Consensus        12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~--~~~g~~vly~s~E~   52 (242)
T cd00984          12 PGDLIIIAARPSMGKTAFALNIAENIA--KKQGKPVLFFSLEM   52 (242)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH--HhCCCceEEEeCCC
Confidence            557999999999999999999877762  22234577777554

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>PRK00300 gmk guanylate kinase; Provisional

Probab=96.35  E-value=0.0035  Score=52.85  Aligned_cols=26  Identities=31%  Similarity=0.425  Sum_probs=23.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|++|+|||||++.+....
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            46789999999999999999998876

>PHA02774 E1; Provisional

Probab=96.35  E-value=0.0097  Score=57.11  Aligned_cols=48  Identities=13%  Similarity=0.121  Sum_probs=34.7

Q ss_pred             hHHHHHHHHhcC-CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEe
Q 045709          152 TFDRVWRCLMEE-HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVV  204 (337)
Q Consensus       152 ~~~~l~~~L~~~-~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~  204 (337)
                      -+..|..+|.+. +...+.|+|++|+|||.||..+.+-+   .  ...+.|++.
T Consensus       420 fl~~lk~~l~~~PKknciv~~GPP~TGKS~fa~sL~~~L---~--G~vi~fvN~  468 (613)
T PHA02774        420 FLTALKDFLKGIPKKNCLVIYGPPDTGKSMFCMSLIKFL---K--GKVISFVNS  468 (613)
T ss_pred             HHHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHh---C--CCEEEEEEC
Confidence            445566666543 35689999999999999999998876   2  334566664

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=96.34  E-value=0.014  Score=57.25  Aligned_cols=56  Identities=20%  Similarity=0.233  Sum_probs=35.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAK  219 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  219 (337)
                      ..++..|.|.+|+||||++..+.....+....-...+.+.....-....+...+..
T Consensus       166 ~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~  221 (615)
T PRK10875        166 TRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGK  221 (615)
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHh
Confidence            35789999999999999999888765221111124555655554444455444443

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.34  E-value=0.19  Score=45.23  Aligned_cols=23  Identities=22%  Similarity=0.270  Sum_probs=20.2

Q ss_pred             eeecCCCCHHHHHHHHhHhhCCC
Q 045709          297 SFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       297 ~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      ++++++++.+|+..++..+.-..
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~  280 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSG  280 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCC
Confidence            78999999999999999887544

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).

>TIGR01351 adk adenylate kinases

Probab=96.33  E-value=0.0056  Score=51.89  Aligned_cols=22  Identities=32%  Similarity=0.502  Sum_probs=20.1

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.|+|++|+||||+|+.+...+
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6799999999999999998766

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=96.33  E-value=0.018  Score=53.95  Aligned_cols=27  Identities=37%  Similarity=0.447  Sum_probs=23.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+...++|+|.+|+|||||++.+....
T Consensus       153 ~~GQ~igI~G~sGaGKSTLl~~I~g~~  179 (434)
T PRK07196        153 GKGQRVGLMAGSGVGKSVLLGMITRYT  179 (434)
T ss_pred             ecceEEEEECCCCCCccHHHHHHhccc
Confidence            467889999999999999999887754

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=96.33  E-value=0.02  Score=57.78  Aligned_cols=27  Identities=26%  Similarity=0.416  Sum_probs=24.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+...++|+|.+|+|||||++.+..-+
T Consensus       503 ~~Ge~vaIvG~sGsGKSTLlklL~gl~  529 (710)
T TIGR03796       503 QPGQRVALVGGSGSGKSTIAKLVAGLY  529 (710)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            467899999999999999999997765

This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=96.33  E-value=0.024  Score=55.23  Aligned_cols=27  Identities=33%  Similarity=0.391  Sum_probs=24.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++...++|+|.+|+|||||++.+..-+
T Consensus       346 ~~G~~~~ivG~sGsGKSTL~~ll~g~~  372 (529)
T TIGR02857       346 PPGERVALVGPSGAGKSTLLNLLLGFV  372 (529)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            467899999999999999999997755

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.33  E-value=0.0046  Score=51.35  Aligned_cols=121  Identities=15%  Similarity=0.063  Sum_probs=60.9

Q ss_pred             HHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCC--CCccccC
Q 045709          153 FDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGL--FNESWKN  230 (337)
Q Consensus       153 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~--~~~~~~~  230 (337)
                      ...++..... ....+.|+|.+|+|||||++.+....   .... .++.+  ...   .++...-......  ..+....
T Consensus        14 ~~~~l~~~v~-~g~~i~I~G~tGSGKTTll~aL~~~i---~~~~-~~i~i--ed~---~E~~~~~~~~~~~~~~~~~~~~   83 (186)
T cd01130          14 QAAYLWLAVE-ARKNILISGGTGSGKTTLLNALLAFI---PPDE-RIITI--EDT---AELQLPHPNWVRLVTRPGNVEG   83 (186)
T ss_pred             HHHHHHHHHh-CCCEEEEECCCCCCHHHHHHHHHhhc---CCCC-CEEEE--CCc---cccCCCCCCEEEEEEecCCCCC
Confidence            3344443333 46789999999999999999988765   2221 22222  111   0100000000000  0000001


Q ss_pred             CCHHHHHHHHHHHhcCCcEEEEEecCCCccccccccCCCCCCCCCCcE-EEEeeCChhH
Q 045709          231 KSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNK-VVFTTREFGV  288 (337)
Q Consensus       231 ~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~-IiiTtr~~~v  288 (337)
                      .......+.+...++..+=.++++++.+.+.+.-+...    ..| .. ++.|.+-.+.
T Consensus        84 ~~~~~~~~~l~~~lR~~pd~i~igEir~~ea~~~~~a~----~tG-h~g~~~T~Ha~s~  137 (186)
T cd01130          84 SGEVTMADLLRSALRMRPDRIIVGEVRGGEALDLLQAM----NTG-HPGGMTTIHANSA  137 (186)
T ss_pred             CCccCHHHHHHHHhccCCCEEEEEccCcHHHHHHHHHH----hcC-CCCceeeecCCCH
Confidence            11223445566677777888999999887766543322    234 44 5555554443

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.32  E-value=0.0061  Score=51.13  Aligned_cols=27  Identities=19%  Similarity=0.417  Sum_probs=24.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..++.|+|++|+||||||+.+....
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l   48 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEAL   48 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            467899999999999999999998876

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.32  E-value=0.0041  Score=50.67  Aligned_cols=26  Identities=27%  Similarity=0.429  Sum_probs=23.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++++|+|..|+|||||+..+....
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l   30 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPAL   30 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHH
Confidence            46799999999999999999999887

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.32  E-value=0.0036  Score=49.19  Aligned_cols=23  Identities=43%  Similarity=0.736  Sum_probs=20.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|+|++|+|||||++.+....
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~   23 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEF   23 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcC
Confidence            37899999999999999998875

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>TIGR01192 chvA glucan exporter ATP-binding protein

Probab=96.31  E-value=0.022  Score=56.08  Aligned_cols=27  Identities=30%  Similarity=0.521  Sum_probs=23.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+...++|+|.+|+|||||++.+...+
T Consensus       359 ~~G~~~~ivG~sGsGKSTL~~ll~g~~  385 (585)
T TIGR01192       359 KAGQTVAIVGPTGAGKTTLINLLQRVY  385 (585)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHccCC
Confidence            467899999999999999999997655

This model describes glucan exporter ATP binding protein in bacteria. It belongs to the larger ABC transporter superfamily with the characteristic ATP binding motif. The In general, this protein is in some ways implicated in osmoregulation and suggested to participate in the export of glucan from the cytoplasm to periplasm. The cyclic beta-1,2-glucan in the bactrerial periplasmic space is suggested to confer the property of high osmolority. It has also been demonstrated that mutants in this loci have lost functions of virulence and motility. It is unclear as to how virulence and osmoadaptaion are related.

>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase

Probab=96.31  E-value=0.023  Score=53.35  Aligned_cols=91  Identities=21%  Similarity=0.303  Sum_probs=50.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEec-CccCHHHHHHHHHHHhCCCCc----cccCCCHH---
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVS-RDLQLEKIQESIAKKIGLFNE----SWKNKSMQ---  234 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~i~~~l~~~~~----~~~~~~~~---  234 (337)
                      .....++|+|.+|+|||||.+.+....    . .+......+. +...+.++..+..........    .....+..   
T Consensus       143 ~~Gq~~~I~G~sG~GKStLl~~I~~~~----~-~~~~vi~~iG~~~~ev~~~~~~~~~~~~~~~tvvv~~~s~~p~~~r~  217 (422)
T TIGR02546       143 GEGQRIGIFAGAGVGKSTLLGMIARGA----S-ADVNVIALIGERGREVREFIEHHLGEEGRKRSVLVVSTSDRPSLERL  217 (422)
T ss_pred             cCCCEEEEECCCCCChHHHHHHHhCCC----C-CCEEEEEEEccCCcCHHHHHHHHhccccccceEEEeccccCCHHHHH
Confidence            456788999999999999999998755    1 2223333333 334455555444433211110    00111111   


Q ss_pred             ---HHHHHHHHHh--cCCcEEEEEecCCC
Q 045709          235 ---EKAQEIFKIL--SKKKFVLLLDDIWE  258 (337)
Q Consensus       235 ---~~~~~l~~~l--~~k~~LlVlDdv~~  258 (337)
                         .....+.+++  ++++.|+++|++-.
T Consensus       218 ~~~~~a~~~AE~f~~~g~~Vl~~~Dsltr  246 (422)
T TIGR02546       218 KAAYTATAIAEYFRDQGKRVLLMMDSLTR  246 (422)
T ss_pred             HHHHHHHHHHHHHHHCCCcEEEEEeCchH
Confidence               1122233444  47899999999863

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=96.30  E-value=0.0031  Score=52.20  Aligned_cols=23  Identities=39%  Similarity=0.593  Sum_probs=21.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +|+|.|.+|+||||||+.+....
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999998876

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.30  E-value=0.0034  Score=51.67  Aligned_cols=24  Identities=29%  Similarity=0.415  Sum_probs=21.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++++|+|++|+|||||++.+....
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            579999999999999999998754

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PRK14528 adenylate kinase; Provisional

Probab=96.30  E-value=0.0071  Score=50.20  Aligned_cols=24  Identities=25%  Similarity=0.293  Sum_probs=21.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.|.|.|++|+||||+++.+...+
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            458899999999999999998766

>PRK14530 adenylate kinase; Provisional

Probab=96.30  E-value=0.0037  Score=53.16  Aligned_cols=24  Identities=29%  Similarity=0.421  Sum_probs=21.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.|.|+|++|+||||+++.+...+
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998876

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=96.27  E-value=0.035  Score=48.64  Aligned_cols=95  Identities=14%  Similarity=0.135  Sum_probs=57.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhcc-CCCCCcEEEEEEecCcc-CHHHHHHHHHHHhCCCCccc----cCCCHHH--
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFD-TPNHFDFVIWVVVSRDL-QLEKIQESIAKKIGLFNESW----KNKSMQE--  235 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~-~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~----~~~~~~~--  235 (337)
                      +...++|+|-.|+|||+|+..+.++..- ...+-+.++++-+.+.. ...++...+...-.......    .+.+...  
T Consensus        68 ~GQR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~  147 (276)
T cd01135          68 RGQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERI  147 (276)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHH
Confidence            5678899999999999999998877510 11235677888876653 45566666655422211000    1111111  


Q ss_pred             ----HHHHHHHHh---cCCcEEEEEecCCC
Q 045709          236 ----KAQEIFKIL---SKKKFVLLLDDIWE  258 (337)
Q Consensus       236 ----~~~~l~~~l---~~k~~LlVlDdv~~  258 (337)
                          ..-.+.+++   .+++.||++||+-.
T Consensus       148 ~a~~~a~aiAEyfrd~~g~~VLl~~D~ltr  177 (276)
T cd01135         148 ITPRMALTTAEYLAYEKGKHVLVILTDMTN  177 (276)
T ss_pred             HHHHHHHHHHHHHHhccCCeEEEEEcChhH
Confidence                122244444   26899999999854

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

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

Probab=96.26  E-value=0.13  Score=44.41  Aligned_cols=46  Identities=20%  Similarity=0.264  Sum_probs=36.6

Q ss_pred             CccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +++=|-+..+++|++.+.-             ..++-+..+|++|.|||-+|+..+.+-
T Consensus       171 sDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT  229 (424)
T KOG0652|consen  171 SDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQT  229 (424)
T ss_pred             cccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhc
Confidence            3456788889998887632             246678899999999999999998765

>PF13245 AAA_19: Part of AAA domain

Probab=96.25  E-value=0.014  Score=40.69  Aligned_cols=26  Identities=27%  Similarity=0.281  Sum_probs=19.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.+++.|.|++|.|||+++.......
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l   34 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAEL   34 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHH
Confidence            46788889999999996555544444

>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]

Probab=96.24  E-value=0.021  Score=50.57  Aligned_cols=60  Identities=28%  Similarity=0.294  Sum_probs=38.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCC-------CcEEEEEEecCc-cCHHHHHHHHHHHhCCCC
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNH-------FDFVIWVVVSRD-LQLEKIQESIAKKIGLFN  225 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~-------f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~  225 (337)
                      .++.|+|.||+|||||+..++=.....++.       ...+++|++... .++-.-++.+..+++++.
T Consensus        90 ~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~~L~Rl~~v~a~mgLsP  157 (402)
T COG3598          90 YVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYREDILERLEPVRARMGLSP  157 (402)
T ss_pred             eeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHHHHHHHHHHHHHcCCCh
Confidence            455677999999999998765433222222       336778877543 345555677788887754

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=96.24  E-value=0.035  Score=53.76  Aligned_cols=89  Identities=13%  Similarity=0.154  Sum_probs=56.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCc-------------cccC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNE-------------SWKN  230 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-------------~~~~  230 (337)
                      ...++.|.|.+|+|||+|+..++...   ...-..++|++....  ...+...+ ..++....             ....
T Consensus       272 ~g~~~li~G~~G~GKT~l~~~~~~~~---~~~g~~~~yis~e~~--~~~i~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~  345 (509)
T PRK09302        272 RGSIILVSGATGTGKTLLASKFAEAA---CRRGERCLLFAFEES--RAQLIRNA-RSWGIDLEKMEEKGLLKIICARPES  345 (509)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH---HhCCCcEEEEEecCC--HHHHHHHH-HHcCCChHHHhhcCCceeecCCccc
Confidence            56789999999999999999998776   234467888877653  44444433 34432210             0012


Q ss_pred             CCHHHHHHHHHHHhcC-CcEEEEEecCCC
Q 045709          231 KSMQEKAQEIFKILSK-KKFVLLLDDIWE  258 (337)
Q Consensus       231 ~~~~~~~~~l~~~l~~-k~~LlVlDdv~~  258 (337)
                      .+.++....+...+.. +.-++|+|.+..
T Consensus       346 ~~~~~~~~~i~~~i~~~~~~~vVIDslt~  374 (509)
T PRK09302        346 YGLEDHLIIIKREIEEFKPSRVAIDPLSA  374 (509)
T ss_pred             CCHHHHHHHHHHHHHHcCCCEEEEcCHHH
Confidence            2345566666666543 555899999853

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=96.24  E-value=0.012  Score=49.12  Aligned_cols=23  Identities=35%  Similarity=0.667  Sum_probs=21.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +|+|.|+.|+||||+++.+.+.+
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l   24 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERL   24 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999999887

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>TIGR00665 DnaB replicative DNA helicase

Probab=96.23  E-value=0.37  Score=45.69  Aligned_cols=41  Identities=15%  Similarity=0.087  Sum_probs=29.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      +..++.|-|.+|+|||+++..+..+...  .+-..++|++...
T Consensus       194 ~G~l~vi~g~pg~GKT~~~l~~a~~~a~--~~g~~vl~~SlEm  234 (434)
T TIGR00665       194 PSDLIILAARPSMGKTAFALNIAENAAI--KEGKPVAFFSLEM  234 (434)
T ss_pred             CCeEEEEEeCCCCChHHHHHHHHHHHHH--hCCCeEEEEeCcC
Confidence            5678999999999999999999877521  1223566766543

This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=96.23  E-value=0.017  Score=44.49  Aligned_cols=37  Identities=19%  Similarity=-0.040  Sum_probs=26.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEe
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVV  204 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~  204 (337)
                      .+.|.|..|+|||+.+..+..... .......++|++.
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~-~~~~~~~~lv~~p   38 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELL-DSLKGGQVLVLAP   38 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHH-hcccCCCEEEEcC
Confidence            467999999999999988877773 2234556666643

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=96.23  E-value=0.039  Score=51.99  Aligned_cols=94  Identities=19%  Similarity=0.340  Sum_probs=57.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc-cCHHHHHHHHHHHhCCCCcc----ccCCCHHH--
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD-LQLEKIQESIAKKIGLFNES----WKNKSMQE--  235 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~----~~~~~~~~--  235 (337)
                      .....++|+|.+|+|||||+.++.....  .++-..++++-+... ..+.++...+...-......    ..+.+...  
T Consensus       142 gkGQR~gIfa~~GvGKt~Ll~~i~~~~~--~~~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~  219 (463)
T PRK09280        142 AKGGKIGLFGGAGVGKTVLIQELINNIA--KEHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARL  219 (463)
T ss_pred             ccCCEEEeecCCCCChhHHHHHHHHHHH--hcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHH
Confidence            3567899999999999999999877762  122245667766544 34566666666543221100    01122211  


Q ss_pred             ----HHHHHHHHh---cCCcEEEEEecCCC
Q 045709          236 ----KAQEIFKIL---SKKKFVLLLDDIWE  258 (337)
Q Consensus       236 ----~~~~l~~~l---~~k~~LlVlDdv~~  258 (337)
                          ..-.+.+++   +++.+||++|++-.
T Consensus       220 ~a~~~a~tiAEyfrd~~G~~VLll~DslTR  249 (463)
T PRK09280        220 RVALTGLTMAEYFRDVEGQDVLLFIDNIFR  249 (463)
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEEecchHH
Confidence                122344555   67899999999853

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=96.22  E-value=0.014  Score=49.85  Aligned_cols=53  Identities=28%  Similarity=0.344  Sum_probs=32.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhhccC----CCCCcEEEEEEecCccCHHHHHHHHHH
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRFFDT----PNHFDFVIWVVVSRDLQLEKIQESIAK  219 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~~~~----~~~f~~~~wv~~~~~~~~~~~~~~i~~  219 (337)
                      +..|.|++|.||||++..+.......    .......+-++...+..+..++..+..
T Consensus        19 ~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~   75 (236)
T PF13086_consen   19 ITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK   75 (236)
T ss_dssp             -EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence            78899999999998776666655110    133444455555555567777777666

>TIGR01842 type_I_sec_PrtD type I secretion system ABC transporter, PrtD family

Probab=96.21  E-value=0.033  Score=54.38  Aligned_cols=27  Identities=26%  Similarity=0.404  Sum_probs=24.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+...++|+|.+|+|||||++.+...+
T Consensus       342 ~~G~~~~ivG~sGsGKSTL~~ll~g~~  368 (544)
T TIGR01842       342 QAGEALAIIGPSGSGKSTLARLIVGIW  368 (544)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            467899999999999999999998765

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	337
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-26
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	2e-23
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	6e-21
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	6e-10

>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 =  107 bits (267), Expect = 9e-26
 Identities = 54/361 (14%), Positives = 119/361 (32%), Gaps = 97/361 (26%)

Query: 7   PSFTCDDTISRCLDCTVRKAGYVCNLQDNIRAL--KEEVRRLTEVRNDVK-----IRIIV 59
            +F  +       DC         ++QD  +++  KEE+  +   ++ V         ++
Sbjct: 27  DAFVDN------FDCK--------DVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLL 72

Query: 60  AEQQQM------KPLEQVHGWI-SRVQEVGSKVEKLKEEEYPESRCSKSTYKLGKKVFRT 112
           ++Q++M      + L   + ++ S ++    +   +    Y E R          +++  
Sbjct: 73  SKQEEMVQKFVEEVLRINYKFLMSPIKTE-QRQPSMMTRMYIEQR---------DRLYND 122

Query: 113 LREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDRVWRCLME-EHAGIVGLY 171
                            Q   +  V         + L+       + L+E   A  V + 
Sbjct: 123 ----------------NQVFAKYNV---SRLQPYLKLR-------QALLELRPAKNVLID 156

Query: 172 GMGGVGKTTLLTQINNRFFDTPNHFDF-VIWVVVSR----DLQLEKIQ--------ESIA 218
           G+ G GKT +   +    +      DF + W+ +      +  LE +Q           +
Sbjct: 157 GVLGSGKTWVALDV-CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTS 215

Query: 219 KKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNK 278
           +     N   +  S+Q + + + K    +  +L+L ++      +   L        S K
Sbjct: 216 RSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL--------SCK 267

Query: 279 VVFTTREFGVCGQMEAHRSFKV------ECLRYDDAWKLFEQKVGADTLDSHPDIPELAE 332
           ++ TTR   V   + A  +  +        L  D+   L  + +         D+P    
Sbjct: 268 ILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRP----QDLPREVL 323

Query: 333 T 333
           T
Sbjct: 324 T 324

>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* Length = 549

 Score =  100 bits (249), Expect = 2e-23
 Identities = 37/317 (11%), Positives = 91/317 (28%), Gaps = 31/317 (9%)

Query: 36  IRALKEEVRRLTEVRNDVKIRIIVAEQQQMKPLEQVHGWISRVQEVGSKVEKLKEEEYPE 95
            R     +        D    I     +  +    +  +  +  E+G  ++         
Sbjct: 23  PRDALTYLEGKNIFTEDHSELISKMSTRLERIANFLRIYRRQASELGPLIDFFNYNNQSH 82

Query: 96  SRCSKSTYKLGKKVFRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPPTVVGLQLTFDR 155
                  Y         L     +  +   + + + +    V   P   T    +   DR
Sbjct: 83  LADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNV---PKQMTCYIREYHVDR 139

Query: 156 VWRCLMEEH---AGIVGLYGMGGVGKTTLLTQI-NNRFFDTPNHFDFVIWVVVSRDL--- 208
           V + L E     +  + L+G  G GK+ + +Q  +        ++D ++W+  S      
Sbjct: 140 VIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKS 199

Query: 209 ---QLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFK--ILSKKKFVLLLDDIWE---LV 260
                  I   +  +  L N            + +    ++ +   + + DD+ +   + 
Sbjct: 200 TFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIR 259

Query: 261 DLDQVGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRS-FKVECLRYDDAWKLFEQKVGAD 319
              ++ L          + + TTR+  +           +V  L  D+ +   E      
Sbjct: 260 WAQELRL----------RCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAY--GM 307

Query: 320 TLDSHPDIPELAETLAK 336
            +       ++     +
Sbjct: 308 PMPVGEKEEDVLNKTIE 324

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score = 92.6 bits (230), Expect = 6e-21
 Identities = 44/287 (15%), Positives = 99/287 (34%), Gaps = 31/287 (10%)

Query: 69  EQVHGWISRVQEVGSKVEKL--KEEEYPESRCSKSTYKLGKKVFRTLREVRSLRQEGDFK 126
           E+V    ++ Q     ++ +  K+ +   S  +   ++  K +   L +   +      K
Sbjct: 41  EKVRNEPTQQQRAAMLIKMILKKDNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGK 100

Query: 127 DVAQPVPENPVDERP------LPPTVVGLQLTFDRVWRCLMEEHA--GIVGLYGMGGVGK 178
           D    +                P   V  +   + + + L +     G V ++GM G GK
Sbjct: 101 DSVSGITSYVRTVLCEGGVPQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGK 160

Query: 179 TTLLTQINNRFFDTPNHF-DFVIWVVVSRDLQLEKI--QESIAKKIGLFNESWKNKSM-Q 234
           + L  +           F   V WV V +  +   +   +++  ++       +   +  
Sbjct: 161 SVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNI 220

Query: 235 EKAQEI---FKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQ 291
           E+A++      +    + +L+LDD+W+   L               +++ TTR+  V   
Sbjct: 221 EEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFDS--------QCQILLTTRDKSVTDS 272

Query: 292 MEAHRS--FKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK 336
           +   +        L  +   ++    V         D+PE A ++ K
Sbjct: 273 VMGPKYVVPVESSLGKEKGLEILSLFVNMK----KADLPEQAHSIIK 315

>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* Length = 1249

 Score = 59.5 bits (144), Expect = 6e-10
 Identities = 48/269 (17%), Positives = 86/269 (31%), Gaps = 40/269 (14%)

Query: 85  VEKLKEEEYPESRCSKSTYKLGKKVFRTLREVRSLRQEGDFKDVAQPVPENPVDERPLPP 144
              L  E Y +         L +     +        +G      + V          P 
Sbjct: 72  YNALLHEGYKD------LAALLQSGLPLVSSSSGKDTDGGITSFVRTVLCEG-GVPQRPV 124

Query: 145 TVVG----LQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHF-DFV 199
             V     +     ++W+  +    G V +YGM G GK+ L  +           F   V
Sbjct: 125 IFVTRKKLVHAIQQKLWK--LNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGV 182

Query: 200 IWVVVSRDLQ---LEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSK------KKFV 250
            WV + +  +   L K+Q    +   L  E   ++ +    +E    L         + +
Sbjct: 183 HWVSIGKQDKSGLLMKLQNLCMR---LDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSL 239

Query: 251 LLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVC-GQMEAHRSFKVE-CLRYDDA 308
           L+LDD+W+   L               +++ TTR+  V    M       VE  L  +  
Sbjct: 240 LILDDVWDPWVLKAFDNQC--------QILLTTRDKSVTDSVMGPKHVVPVESGLGREKG 291

Query: 309 WKLFEQKVGADTLDSHPDIPELAETLAKD 337
            ++    V         D+P  A ++ K+
Sbjct: 292 LEILSLFVNMKK----EDLPAEAHSIIKE 316

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	337
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	99.97
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	99.91
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	99.91
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	99.88
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	99.66
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.55
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.51
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.47
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.46
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.44
2fna_A	357	Conserved hypothetical protein; structural genomic	99.44
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.44
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.26
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.23
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.09
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.09
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.04
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.96
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.92
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.86
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.74
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.72
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.69
3bos_A	242	Putative DNA replication factor; P-loop containing	98.69
3pvs_A	447	Replication-associated recombination protein A; ma	98.64
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.58
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.58
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.58
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.55
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.54
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.53
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.52
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.52
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.52
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.5
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	98.5
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.49
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.46
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.45
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	98.43
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.42
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.42
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	98.4
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	98.4
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.39
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.37
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.37
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.36
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	98.35
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	98.34
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.34
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.33
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	98.32
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.31
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	98.31
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	98.3
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	98.29
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	98.27
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	98.25
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.25
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.24
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	98.23
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	98.22
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	98.16
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	98.14
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	98.11
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	98.1
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	98.1
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	98.03
3co5_A	143	Putative two-component system transcriptional RES	98.03
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	98.0
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.97
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	97.94
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	97.93
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.92
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	97.88
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.86
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	97.83
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.81
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.69
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.69
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.64
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.62
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	97.61
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.58
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.53
3io5_A	333	Recombination and repair protein; storage dimer, i	97.52
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.51
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.49
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.49
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	97.44
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.43
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.42
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.42
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	97.42
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.38
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	97.35
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.29
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.28
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.26
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	97.21
2qgz_A	308	Helicase loader, putative primosome component; str	97.19
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.16
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.14
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	97.09
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.08
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.08
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.01
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.0
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.96
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.94
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	96.92
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.92
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.91
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	96.91
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.89
3ice_A	422	Transcription termination factor RHO; transcriptio	96.89
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.88
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	96.85
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.85
2r44_A	331	Uncharacterized protein; putative ATPase, structur	96.85
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.84
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.83
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.83
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.78
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.77
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.76
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.74
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.72
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.72
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.7
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	96.69
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	96.67
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	96.66
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.66
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	96.65
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	96.64
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.64
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.63
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.63
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.63
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.62
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	96.61
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.61
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.6
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.6
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.6
2hf9_A	226	Probable hydrogenase nickel incorporation protein	96.6
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.59
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.59
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	96.58
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.57
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.57
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.55
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	96.54
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.54
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.53
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.53
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.53
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.53
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.52
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.51
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.51
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.49
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	96.49
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.48
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.48
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.47
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	96.47
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.46
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.45
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	96.45
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.43
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.43
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.42
1via_A	175	Shikimate kinase; structural genomics, transferase	96.42
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	96.42
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	96.41
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.41
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.39
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.39
2r6a_A	454	DNAB helicase, replicative helicase; replication,	96.39
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.39
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.38
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.38
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.38
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.37
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.36
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.35
2xxa_A	433	Signal recognition particle protein; protein trans	96.35
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.34
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.33
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.32
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.32
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.32
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.31
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.31
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.3
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	96.3
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.3
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.3
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.29
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.29
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.28
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.25
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.24
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.24
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.23
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.23
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.21
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.21
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	96.21
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.2
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.2
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.19
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.18
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.18
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.17
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.17
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.15
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.15
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	96.14
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.13
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.12
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.11
3fwy_A	314	Light-independent protochlorophyllide reductase I	96.11
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.11
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.1
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.1
1tue_A	212	Replication protein E1; helicase, replication, E1E	96.09
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.09
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	96.08
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	96.08
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.08
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	96.07
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.07
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.07
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.06
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.05
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.05
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	96.03
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.01
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	95.99
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	95.99
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	95.98
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	95.98
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.97
1g6h_A	257	High-affinity branched-chain amino acid transport	95.97
1ji0_A	240	ABC transporter; ATP binding protein, structural g	95.97
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	95.96
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	95.96
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.96
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.96
1sgw_A	214	Putative ABC transporter; structural genomics, P p	95.95
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	95.94
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.93
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	95.93
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	95.93
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.92
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	95.91
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.9
2og2_A	359	Putative signal recognition particle receptor; nuc	95.9
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.89
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.89
3l0o_A	427	Transcription termination factor RHO; helicase, RH	95.87
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.86
2ghi_A	260	Transport protein; multidrug resistance protein, M	95.83
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	95.82
3end_A	307	Light-independent protochlorophyllide reductase ir	95.82
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	95.81
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	95.81
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.8
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	95.8
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	95.77
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	95.77
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.75
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	95.74
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.74
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.71
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.68
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.67
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	95.67
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.67
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.66
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.65
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.64
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.59
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.59
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	95.58
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.57
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.55
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	95.54
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.52
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	95.51
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	95.51
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.48
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	95.48
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	95.46
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.45
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.45
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	95.44
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	95.42
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.42
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.39
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	95.39
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.38
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	95.37
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	95.36
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	95.36
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	95.35
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	95.35
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.34
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.34
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	95.34
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.33
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.33
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	95.32
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.32
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	95.31
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.3
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.29
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.28
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.27
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	95.25
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.25
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.23
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.21
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	95.2
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	95.17
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.15
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	95.13
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	95.12
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.08
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	95.08
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	95.08
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.05
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	95.04
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	95.02
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	95.0
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.0
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	94.99
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	94.98
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	94.98
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	94.96
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	94.96
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	94.94
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	94.93
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	94.92
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	94.92
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	94.9
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	94.9
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	94.9
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	94.89
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	94.88
2ewv_A	372	Twitching motility protein PILT; pilus retraction	94.88
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	94.88
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	94.88
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	94.86
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	94.79
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	94.79
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	94.74
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	94.74
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	94.73
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	94.72
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	94.71
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	94.7
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	94.69
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	94.68
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	94.65
2ged_A	193	SR-beta, signal recognition particle receptor beta	94.64
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	94.64
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	94.59
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	94.58
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.58
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	94.54
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	94.54
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.54
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	94.53
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	94.53
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	94.51
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	94.5
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	94.47
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	94.47
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	94.47
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	94.47
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	94.47
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	94.45
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	94.45
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.44
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	94.43
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	94.43
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	94.41
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	94.41
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.41
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	94.4
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	94.39
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	94.39
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	94.36
1nrj_B	218	SR-beta, signal recognition particle receptor beta	94.36
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	94.36
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	94.35
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	94.35
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	94.35
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	94.34
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	94.34
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	94.31
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	94.31
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	94.3
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.3
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.29
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	94.28
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	94.28
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	94.26
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	94.24
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	94.21
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	94.2
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	94.2
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.19
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	94.18
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	94.17
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	94.16
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	94.16
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	94.14
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	94.13
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	94.12
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	94.12
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	94.1
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	94.09
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	94.09
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	94.08
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	94.07
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	94.06
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	94.05
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	94.05
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.04
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	94.03
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	94.01
3cwq_A	209	Para family chromosome partitioning protein; alpha	94.0
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	94.0
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	93.99
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	93.98
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	93.97
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	93.96
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	93.95
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	93.94
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	93.93
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	93.93
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	93.93
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	93.92
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	93.91
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	93.89
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.89
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	93.89
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	93.88
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	93.88
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	93.86
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	93.86
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	93.85
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	93.84
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	93.84
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	93.83
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	93.83
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	93.83
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	93.83
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	93.81
3llu_A	196	RAS-related GTP-binding protein C; structural geno	93.78
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	93.75
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	93.73
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	93.71
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	93.71
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	93.7
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	93.69
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	93.67
2fh5_B	214	SR-beta, signal recognition particle receptor beta	93.67
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	93.67
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	93.67
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	93.64
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	93.6
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	93.6
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	93.6
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	93.58
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	93.57
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	93.56
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	93.54
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	93.53
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	93.53
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	93.53
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	93.53
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	93.5
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	93.49
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	93.49
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	93.48
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	93.46
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	93.43
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	93.43
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	93.41
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	93.39
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	93.38
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	93.38
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	93.37

>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=99.97  E-value=9.6e-30  Score=245.27  Aligned_cols=181  Identities=15%  Similarity=0.143  Sum_probs=149.1

Q ss_pred             ccchhhHHHHHHHHhcC---CCeEEEEEecCCCcHHHHHHHHHH--hhccCCCCCcEEEEEEecCcc--CHHHHHHHHHH
Q 045709          147 VGLQLTFDRVWRCLMEE---HAGIVGLYGMGGVGKTTLLTQINN--RFFDTPNHFDFVIWVVVSRDL--QLEKIQESIAK  219 (337)
Q Consensus       147 vGr~~~~~~l~~~L~~~---~~~vi~I~G~~GiGKTtLa~~v~~--~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~i~~  219 (337)
                      |||+.++++|.++|...   ..++|+|+||||+||||||+.+|+  +. +...+|+.++|++++..+  ++..++..|+.
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~-~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~  209 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQ-LIGINYDSIVWLKDSGTAPKSTFDLFTDILL  209 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSS-TBTTTBSEEEEEECCCCSTTHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhH-HHhccCCcEEEEEECCCCCCCHHHHHHHHHH
Confidence            59999999999999754   579999999999999999999998  33 457899999999999875  78999999999


Q ss_pred             HhCCCCc-----cccCCCHHHHHHHHHHHhcCC-cEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHHhhcc
Q 045709          220 KIGLFNE-----SWKNKSMQEKAQEIFKILSKK-KFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQME  293 (337)
Q Consensus       220 ~l~~~~~-----~~~~~~~~~~~~~l~~~l~~k-~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~~~~  293 (337)
                      +++....     .....+...+...+++.|.++ ||||||||||+..++ .+    +. .+| |+||||||+..++..++
T Consensus       210 ~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~----~~-~~g-s~ilvTTR~~~v~~~~~  282 (549)
T 2a5y_B          210 MLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RW----AQ-ELR-LRCLVTTRDVEISNAAS  282 (549)
T ss_dssp             HHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HH----HH-HTT-CEEEEEESBGGGGGGCC
T ss_pred             HHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-cc----cc-cCC-CEEEEEcCCHHHHHHcC
Confidence            9986521     112334567788999999996 999999999997654 22    11 157 99999999999998775


Q ss_pred             -CCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHHHhhcC
Q 045709          294 -AHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD  337 (337)
Q Consensus       294 -~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~i~~k  337 (337)
                       ...+|+|++|+.++||+||.+++|...  .++++.+++++|+++
T Consensus       283 ~~~~~~~l~~L~~~ea~~Lf~~~a~~~~--~~~~~~~~~~~I~~~  325 (549)
T 2a5y_B          283 QTCEFIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIEL  325 (549)
T ss_dssp             SCEEEEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHH
T ss_pred             CCCeEEECCCCCHHHHHHHHHHHhcCCC--CchhHHHHHHHHHHH
Confidence             336799999999999999999998754  257888999999864

>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=99.91  E-value=1e-23  Score=221.21  Aligned_cols=185  Identities=20%  Similarity=0.295  Sum_probs=142.2

Q ss_pred             CCCCCccccchhhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhhccCCC-CCcEEEEEEecCcc--CHHHHH
Q 045709          140 RPLPPTVVGLQLTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPN-HFDFVIWVVVSRDL--QLEKIQ  214 (337)
Q Consensus       140 ~~~~~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-~f~~~~wv~~~~~~--~~~~~~  214 (337)
                      |+.++.||||++++++|.++|..  ++.++|+|+||||+||||||+++|++...... .++.++|++++...  .....+
T Consensus       120 p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  199 (1249)
T 3sfz_A          120 PQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKL  199 (1249)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCHHHHHHHH
T ss_pred             CCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCchHHHHHH
Confidence            34456799999999999999963  56789999999999999999999987522234 45688899998853  344556


Q ss_pred             HHHHHHhCCCCcc--ccCCCHHHHHHHHHHHhcCC--cEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHHh
Q 045709          215 ESIAKKIGLFNES--WKNKSMQEKAQEIFKILSKK--KFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG  290 (337)
Q Consensus       215 ~~i~~~l~~~~~~--~~~~~~~~~~~~l~~~l~~k--~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~  290 (337)
                      ..++..+......  ....+.+.+...++..+.++  ||||||||+|+..+|..+       .+| |+||||||++.++.
T Consensus       200 ~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~-~~ilvTtR~~~~~~  271 (1249)
T 3sfz_A          200 QNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQ-CQILLTTRDKSVTD  271 (1249)
T ss_dssp             HHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSS-CEEEEEESSTTTTT
T ss_pred             HHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCC-CEEEEEcCCHHHHH
Confidence            7777777654321  13456788888999999877  999999999998777664       356 99999999999985


Q ss_pred             h-ccCCceeecCC-CCHHHHHHHHhHhhCCCCCCCCCChHHHHHHhhc
Q 045709          291 Q-MEAHRSFKVEC-LRYDDAWKLFEQKVGADTLDSHPDIPELAETLAK  336 (337)
Q Consensus       291 ~-~~~~~~~~l~~-L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~i~~  336 (337)
                      . .+....+.+++ |++++|++||...++...    +.+.+++++|++
T Consensus       272 ~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~----~~~~~~~~~i~~  315 (1249)
T 3sfz_A          272 SVMGPKHVVPVESGLGREKGLEILSLFVNMKK----EDLPAEAHSIIK  315 (1249)
T ss_dssp             TCCSCBCCEECCSSCCHHHHHHHHHHHHTSCS----TTCCTHHHHHHH
T ss_pred             hhcCCceEEEecCCCCHHHHHHHHHHhhCCCh----hhCcHHHHHHHH
Confidence            4 44567889996 999999999999996543    334455666654

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=99.91  E-value=1.5e-24  Score=215.03  Aligned_cols=165  Identities=18%  Similarity=0.218  Sum_probs=128.7

Q ss_pred             CccccchhhHHHHHHHHhc-CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcE-EEEEEecCccCHHHHHHHHHHHh
Q 045709          144 PTVVGLQLTFDRVWRCLME-EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDF-VIWVVVSRDLQLEKIQESIAKKI  221 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~i~~~l  221 (337)
                      +..|||+.++++|.++|.. +..++|+|+||||+||||||+.++++. ++..+|+. ++|++++..++...++..|+..+
T Consensus       128 k~~VGRe~eLeeL~elL~~~d~~RVV~IvGmGGIGKTTLAk~Vy~d~-rV~~~Fd~gV~WVsVs~~~d~~~IL~~Ll~lL  206 (1221)
T 1vt4_I          128 KYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSY-KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLL  206 (1221)
T ss_dssp             CSCCCCHHHHHHHHHHHHHCCSSCEEEECCSTTSSHHHHHHHHHHHC-HHHHHHSSCEEEEECCCSSSHHHHHHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHHHhccCCCeEEEEEcCCCccHHHHHHHHHHhh-HHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            3459999999999999976 467899999999999999999999865 34678886 99999999988888888887754


Q ss_pred             CCCCcc----cc-----CCCHHHHHHHHHHHh---cCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHH
Q 045709          222 GLFNES----WK-----NKSMQEKAQEIFKIL---SKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVC  289 (337)
Q Consensus       222 ~~~~~~----~~-----~~~~~~~~~~l~~~l---~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~  289 (337)
                      +.....    ..     ..+.+.....++..|   .++++||||||+|+...|+.+.       +| |+||||||++.++
T Consensus       207 ~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pG-SRILVTTRd~~Va  278 (1221)
T 1vt4_I          207 YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LS-CKILLTTRFKQVT  278 (1221)
T ss_dssp             HHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SS-CCEEEECSCSHHH
T ss_pred             hhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CC-eEEEEeccChHHH
Confidence            321100    00     112344566677665   6899999999999988887652       56 9999999999988


Q ss_pred             hhccCCceeecC------CCCHHHHHHHHhHhhC
Q 045709          290 GQMEAHRSFKVE------CLRYDDAWKLFEQKVG  317 (337)
Q Consensus       290 ~~~~~~~~~~l~------~L~~~ea~~Lf~~~~~  317 (337)
                      ..+.....|.++      +|+.+|||+||+++..
T Consensus       279 ~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~g  312 (1221)
T 1vt4_I          279 DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD  312 (1221)
T ss_dssp             HHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHHC
T ss_pred             HhcCCCeEEEecCccccCCcCHHHHHHHHHHHcC
Confidence            654433456666      9999999999999954

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=99.88  E-value=2.5e-22  Score=195.43  Aligned_cols=168  Identities=18%  Similarity=0.297  Sum_probs=125.5

Q ss_pred             CCCCccccchhhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhhccC-CCCC-cEEEEEEecCccCHHHHHHH
Q 045709          141 PLPPTVVGLQLTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRFFDT-PNHF-DFVIWVVVSRDLQLEKIQES  216 (337)
Q Consensus       141 ~~~~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~~f-~~~~wv~~~~~~~~~~~~~~  216 (337)
                      +.++.||||+.+++.|.++|..  ++.++|+|+|+||+||||||..++++. .. ..+| +.++|++++.. +...++..
T Consensus       121 ~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~-~~~~~~f~~~v~wv~~~~~-~~~~~~~~  198 (591)
T 1z6t_A          121 QRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDH-SLLEGCFPGGVHWVSVGKQ-DKSGLLMK  198 (591)
T ss_dssp             CCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCH-HHHHHHCTTCEEEEEEESC-CHHHHHHH
T ss_pred             CCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhch-hHHHhhCCCceEEEECCCC-chHHHHHH
Confidence            3456799999999999999974  467899999999999999999999865 22 4567 48999999875 33333333


Q ss_pred             ---HHHHhCCCC--ccccCCCHHHHHHHHHHHhcC--CcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHH
Q 045709          217 ---IAKKIGLFN--ESWKNKSMQEKAQEIFKILSK--KKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVC  289 (337)
Q Consensus       217 ---i~~~l~~~~--~~~~~~~~~~~~~~l~~~l~~--k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~  289 (337)
                         ++..++...  ......+.......+...+.+  +++||||||+|+...+..+       .++ ++||||||+..++
T Consensus       199 l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~-~~ilvTsR~~~~~  270 (591)
T 1z6t_A          199 LQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQ-CQILLTTRDKSVT  270 (591)
T ss_dssp             HHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSS-CEEEEEESCGGGG
T ss_pred             HHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCC-CeEEEECCCcHHH
Confidence               344554211  112345667778888888876  7899999999987655443       346 9999999999987


Q ss_pred             hhccCCceeec---CCCCHHHHHHHHhHhhCCC
Q 045709          290 GQMEAHRSFKV---ECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       290 ~~~~~~~~~~l---~~L~~~ea~~Lf~~~~~~~  319 (337)
                      ..+. ...+.+   ++|+.+|+++||...++..
T Consensus       271 ~~~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~  302 (591)
T 1z6t_A          271 DSVM-GPKYVVPVESSLGKEKGLEILSLFVNMK  302 (591)
T ss_dssp             TTCC-SCEEEEECCSSCCHHHHHHHHHHHHTSC
T ss_pred             HhcC-CCceEeecCCCCCHHHHHHHHHHHhCCC
Confidence            6553 334444   5899999999999999764

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare}

Probab=99.66  E-value=2.1e-16  Score=119.18  Aligned_cols=78  Identities=13%  Similarity=0.132  Sum_probs=71.2

Q ss_pred             cchhhHHHHHHHHhhhhcccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-cCChHHHHHHHHHHHHHHHHHHH
Q 045709            9 FTCDDTISRCLDCTVRKAGYVCNLQDNIRALKEEVRRLTEVRNDVKIRIIVAEQQQ-MKPLEQVHGWISRVQEVGSKVEK   87 (337)
Q Consensus         9 ~~~~~~~~kl~~~l~~~~~~~~~~~~~~~~l~~el~~l~~~l~~~~~~~~~ae~~~-~~~~~~~~~Wl~~l~~~a~~~ed   87 (337)
                      |+++++++||.+++.+|+.++.+++++++.|+++|++|+++|.+       |+.+. ...++.++.|+++||+++||+||
T Consensus         1 a~v~~ll~KL~~ll~~E~~l~~gv~~~i~~Lk~eL~~m~a~L~d-------a~~~~~~~~d~~vk~W~~~vrdlaYD~ED   73 (115)
T 3qfl_A            1 AAISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESMNAALIK-------IGEVPREQLDSQDKLWADEVRELSYVIED   73 (115)
T ss_dssp             CTTCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HTTSCGGGCCHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHH-------HHHhccccCCHHHHHHHHHHHHHHHHHHH
Confidence            46789999999999999999999999999999999999999999       66652 23578999999999999999999


Q ss_pred             HHhhcC
Q 045709           88 LKEEEY   93 (337)
Q Consensus        88 ~ld~~~   93 (337)
                      ++|+|.
T Consensus        74 ~iD~f~   79 (115)
T 3qfl_A           74 VVDKFL   79 (115)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999997

>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=99.55  E-value=2.7e-14  Score=132.40  Aligned_cols=172  Identities=15%  Similarity=0.162  Sum_probs=116.4

Q ss_pred             CCccccchhhHHHHHHHH-hc------CCCeEEEE--EecCCCcHHHHHHHHHHhhccC--CCCC-cEEEEEEecCccCH
Q 045709          143 PPTVVGLQLTFDRVWRCL-ME------EHAGIVGL--YGMGGVGKTTLLTQINNRFFDT--PNHF-DFVIWVVVSRDLQL  210 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L-~~------~~~~vi~I--~G~~GiGKTtLa~~v~~~~~~~--~~~f-~~~~wv~~~~~~~~  210 (337)
                      +..|+||+.+++.|.+++ ..      .....+.|  +|++|+|||||++.+++.....  ...+ ..++|+++....+.
T Consensus        21 p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (412)
T 1w5s_A           21 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL  100 (412)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCH
Confidence            367999999999999888 42      24567777  9999999999999999876210  0012 24678887777788


Q ss_pred             HHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhc--CCcEEEEEecCCCccc--------cccccCCC---CCCC--CC
Q 045709          211 EKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILS--KKKFVLLLDDIWELVD--------LDQVGLPI---PSRT--SV  275 (337)
Q Consensus       211 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~--------~~~l~~~l---~~~~--~g  275 (337)
                      ..++..++..++...+. ...+.......+...+.  +++++|||||++....        +..+...+   +...  ..
T Consensus       101 ~~~~~~l~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~~~~~~~  179 (412)
T 1w5s_A          101 YTILSLIVRQTGYPIQV-RGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNR  179 (412)
T ss_dssp             HHHHHHHHHHHTCCCCC-TTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCB
T ss_pred             HHHHHHHHHHhCCCCCC-CCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhcccCCCCce
Confidence            89999999998764321 23345566667776664  6799999999986421        22221111   1111  33


Q ss_pred             CcEEEEeeCChhHHhhc--------c-CCceeecCCCCHHHHHHHHhHhh
Q 045709          276 SNKVVFTTREFGVCGQM--------E-AHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       276 ~s~IiiTtr~~~v~~~~--------~-~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                       ..+|+||+...+...+        . ....+.+++|+.++++++|..++
T Consensus       180 -v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~  228 (412)
T 1w5s_A          180 -IGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRA  228 (412)
T ss_dssp             -EEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             -EEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHH
Confidence             5688888765532111        1 12238999999999999998664

>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=99.51  E-value=1.9e-13  Score=125.57  Aligned_cols=171  Identities=13%  Similarity=0.048  Sum_probs=118.8

Q ss_pred             CccccchhhHHHHHHHHhc----CCCeEEEEEecCCCcHHHHHHHHHHhhccC----CCC-CcEEEEEEecCcc-CHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLME----EHAGIVGLYGMGGVGKTTLLTQINNRFFDT----PNH-FDFVIWVVVSRDL-QLEKI  213 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~----~~~-f~~~~wv~~~~~~-~~~~~  213 (337)
                      ..++||+.+++.+..++..    ...+.+.|+|++|+|||+||+.+++.....    ... ....+|+++.... +...+
T Consensus        20 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   99 (384)
T 2qby_B           20 KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAV   99 (384)
T ss_dssp             SSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHH
Confidence            6799999999999877753    346789999999999999999999876211    011 3467888887766 88888


Q ss_pred             HHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc---ccc-ccCCCCCCCCCCcEEEEeeCChhHH
Q 045709          214 QESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD---LDQ-VGLPIPSRTSVSNKVVFTTREFGVC  289 (337)
Q Consensus       214 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~---~~~-l~~~l~~~~~g~s~IiiTtr~~~v~  289 (337)
                      +..++..+..........+.......+...+..++.+|||||++....   .+. + ..+.....+ ..||+||+.....
T Consensus       100 ~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l-~~l~~~~~~-~~iI~~t~~~~~~  177 (384)
T 2qby_B          100 LSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVL-YQLLRSDAN-ISVIMISNDINVR  177 (384)
T ss_dssp             HHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHH-HHHHTSSSC-EEEEEECSSTTTT
T ss_pred             HHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeH-HHHhcCCcc-eEEEEEECCCchH
Confidence            888888883322222344456677788888877777999999986422   122 1 111111145 7899998865321


Q ss_pred             ----hhc--cCCceeecCCCCHHHHHHHHhHhh
Q 045709          290 ----GQM--EAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       290 ----~~~--~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                          ..+  .....+.+++++.++..++|..++
T Consensus       178 ~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~  210 (384)
T 2qby_B          178 DYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYA  210 (384)
T ss_dssp             TTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHH
T ss_pred             hhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHH
Confidence                111  112389999999999999999985

>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=99.47  E-value=1.5e-13  Score=126.02  Aligned_cols=172  Identities=12%  Similarity=0.134  Sum_probs=116.8

Q ss_pred             CCccccchhhHHHHHHHHhc----CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHH
Q 045709          143 PPTVVGLQLTFDRVWRCLME----EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIA  218 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  218 (337)
                      +..|+||+.+++.+.+++..    .....+.|+|++|+|||||++.+++........-...+|+++....+...++..++
T Consensus        19 p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~   98 (386)
T 2qby_A           19 PDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLL   98 (386)
T ss_dssp             CSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHT
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHH
Confidence            36799999999999998863    45678999999999999999999987721111023577888777777778888888


Q ss_pred             HHhCCCCccccCCCHHHHHHHHHHHhc--CCcEEEEEecCCCcc------ccccccCCCCC-CCCCCcEEEEeeCChhHH
Q 045709          219 KKIGLFNESWKNKSMQEKAQEIFKILS--KKKFVLLLDDIWELV------DLDQVGLPIPS-RTSVSNKVVFTTREFGVC  289 (337)
Q Consensus       219 ~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~------~~~~l~~~l~~-~~~g~s~IiiTtr~~~v~  289 (337)
                      ..++...+. ...+.......+...+.  +++.+||||+++...      .+..+...+.. ...+ ..+|+||+.....
T Consensus        99 ~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~-~~~I~~~~~~~~~  176 (386)
T 2qby_A           99 ESLDVKVPF-TGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSK-ISFIGITNDVKFV  176 (386)
T ss_dssp             TTTSCCCCS-SSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC---EEEEEEESCGGGG
T ss_pred             HHhCCCCCC-CCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCe-EEEEEEECCCChH
Confidence            777654321 23345666666666664  458999999997642      12222111111 1234 6778888876543


Q ss_pred             hhcc-------CCceeecCCCCHHHHHHHHhHhh
Q 045709          290 GQME-------AHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       290 ~~~~-------~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ..+.       ....+.+++++.++..++|...+
T Consensus       177 ~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~  210 (386)
T 2qby_A          177 DLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRA  210 (386)
T ss_dssp             GGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHH
T ss_pred             hhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHH
Confidence            2221       11479999999999999999865

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.46  E-value=3.6e-13  Score=121.86  Aligned_cols=162  Identities=17%  Similarity=0.193  Sum_probs=109.0

Q ss_pred             CCccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc------CHHHHHHH
Q 045709          143 PPTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL------QLEKIQES  216 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~------~~~~~~~~  216 (337)
                      ++.|+||+.+++.|.+++...  +++.|+|++|+|||||++.+++..   .     .+|+++....      +...++..
T Consensus        11 ~~~~~gR~~el~~L~~~l~~~--~~v~i~G~~G~GKT~Ll~~~~~~~---~-----~~~~~~~~~~~~~~~~~~~~~~~~   80 (350)
T 2qen_A           11 REDIFDREEESRKLEESLENY--PLTLLLGIRRVGKSSLLRAFLNER---P-----GILIDCRELYAERGHITREELIKE   80 (350)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHC--SEEEEECCTTSSHHHHHHHHHHHS---S-----EEEEEHHHHHHTTTCBCHHHHHHH
T ss_pred             hHhcCChHHHHHHHHHHHhcC--CeEEEECCCcCCHHHHHHHHHHHc---C-----cEEEEeecccccccCCCHHHHHHH
Confidence            457999999999999988754  799999999999999999998765   1     6788765432      55666666


Q ss_pred             HHHHhCCC----------------CccccCCCHHHHHHHHHHHhcC-CcEEEEEecCCCccc---------cccccCCCC
Q 045709          217 IAKKIGLF----------------NESWKNKSMQEKAQEIFKILSK-KKFVLLLDDIWELVD---------LDQVGLPIP  270 (337)
Q Consensus       217 i~~~l~~~----------------~~~~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~~~~---------~~~l~~~l~  270 (337)
                      +...+...                .......+..+....+...... ++++|||||++....         +..+.... 
T Consensus        81 l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L~~~~-  159 (350)
T 2qen_A           81 LQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAY-  159 (350)
T ss_dssp             HHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHHHHHH-
T ss_pred             HHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHHHHHH-
Confidence            66655320                0000123455666666665543 489999999987543         11121111 


Q ss_pred             CCCCCCcEEEEeeCChhHHhh----------c-cC-CceeecCCCCHHHHHHHHhHhh
Q 045709          271 SRTSVSNKVVFTTREFGVCGQ----------M-EA-HRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       271 ~~~~g~s~IiiTtr~~~v~~~----------~-~~-~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ....+ .++|+|++.......          + +. ...+++.||+.+|+.+++...+
T Consensus       160 ~~~~~-~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~  216 (350)
T 2qen_A          160 DSLPN-LKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGF  216 (350)
T ss_dssp             HHCTT-EEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHH
T ss_pred             HhcCC-eEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHH
Confidence            11135 799999987653211          1 11 2478999999999999998765

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.44  E-value=1.3e-12  Score=119.92  Aligned_cols=170  Identities=18%  Similarity=0.188  Sum_probs=118.0

Q ss_pred             CccccchhhHHHHHHHHhc----CCCeEEEEEecCCCcHHHHHHHHHHhhccCC---CCCcEEEEEEecCccCHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLME----EHAGIVGLYGMGGVGKTTLLTQINNRFFDTP---NHFDFVIWVVVSRDLQLEKIQES  216 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~wv~~~~~~~~~~~~~~  216 (337)
                      +.++||+.+++.+..++..    ...+.+.|+|++|+||||||+.+++......   +.-...+|+++....+...++..
T Consensus        19 ~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   98 (387)
T 2v1u_A           19 DVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASA   98 (387)
T ss_dssp             SCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHH
Confidence            6799999999999998843    4567899999999999999999998762100   11235678888888888899999


Q ss_pred             HHHHhCCCCccccCCCHHHHHHHHHHHhc--CCcEEEEEecCCCcccc----ccc---cCCCCCC--CCCCcEEEEeeCC
Q 045709          217 IAKKIGLFNESWKNKSMQEKAQEIFKILS--KKKFVLLLDDIWELVDL----DQV---GLPIPSR--TSVSNKVVFTTRE  285 (337)
Q Consensus       217 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~~----~~l---~~~l~~~--~~g~s~IiiTtr~  285 (337)
                      ++..++...+ ....+.......+...+.  +++.+|+|||++.....    +.+   .......  ..+ ..+|.||+.
T Consensus        99 l~~~l~~~~~-~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~-~~~I~~t~~  176 (387)
T 2v1u_A           99 IAEAVGVRVP-FTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVW-VSLVGITNS  176 (387)
T ss_dssp             HHHHHSCCCC-SSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC------CEEEEECSC
T ss_pred             HHHHhCCCCC-CCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCce-EEEEEEECC
Confidence            9999976432 134456666777777773  46889999999865321    212   1111111  234 678888876


Q ss_pred             hhH--------HhhccCCceeecCCCCHHHHHHHHhHhh
Q 045709          286 FGV--------CGQMEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       286 ~~v--------~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ...        ...+ ....+.+++++.++..++|...+
T Consensus       177 ~~~~~~l~~~l~~r~-~~~~i~l~~l~~~~~~~il~~~~  214 (387)
T 2v1u_A          177 LGFVENLEPRVKSSL-GEVELVFPPYTAPQLRDILETRA  214 (387)
T ss_dssp             STTSSSSCHHHHTTT-TSEECCBCCCCHHHHHHHHHHHH
T ss_pred             CchHhhhCHHHHhcC-CCeEEeeCCCCHHHHHHHHHHHH
Confidence            532        2211 11478999999999999999885

>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=99.44  E-value=1.3e-12  Score=118.47  Aligned_cols=162  Identities=12%  Similarity=0.163  Sum_probs=102.9

Q ss_pred             CCccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc-----cCHHHHHHHH
Q 045709          143 PPTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD-----LQLEKIQESI  217 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~-----~~~~~~~~~i  217 (337)
                      ++.|+||+.+++.|.+ +..   +++.|+|++|+|||+|++.+.+..   ...   .+|+++...     .+...++..+
T Consensus        12 ~~~~~gR~~el~~L~~-l~~---~~v~i~G~~G~GKT~L~~~~~~~~---~~~---~~~~~~~~~~~~~~~~~~~~~~~l   81 (357)
T 2fna_A           12 RKDFFDREKEIEKLKG-LRA---PITLVLGLRRTGKSSIIKIGINEL---NLP---YIYLDLRKFEERNYISYKDFLLEL   81 (357)
T ss_dssp             GGGSCCCHHHHHHHHH-TCS---SEEEEEESTTSSHHHHHHHHHHHH---TCC---EEEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             HHHhcChHHHHHHHHH-hcC---CcEEEECCCCCCHHHHHHHHHHhc---CCC---EEEEEchhhccccCCCHHHHHHHH
Confidence            3579999999999999 754   699999999999999999999887   222   578887643     3444444444


Q ss_pred             HHHhCC------------------CCc----cc-----cCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc-----ccccc
Q 045709          218 AKKIGL------------------FNE----SW-----KNKSMQEKAQEIFKILSKKKFVLLLDDIWELV-----DLDQV  265 (337)
Q Consensus       218 ~~~l~~------------------~~~----~~-----~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-----~~~~l  265 (337)
                      ...+..                  ..+    ..     ...........+.+... ++++|||||++...     ++..+
T Consensus        82 ~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~-~~~vlvlDe~~~~~~~~~~~~~~~  160 (357)
T 2fna_A           82 QKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASK-DNVIIVLDEAQELVKLRGVNLLPA  160 (357)
T ss_dssp             HHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCS-SCEEEEEETGGGGGGCTTCCCHHH
T ss_pred             HHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCC-CCeEEEEECHHHhhccCchhHHHH
Confidence            443310                  000    00     01234444444443322 49999999997642     22222


Q ss_pred             cCCCCCCCCCCcEEEEeeCChhHHhh----------c-cC-CceeecCCCCHHHHHHHHhHhh
Q 045709          266 GLPIPSRTSVSNKVVFTTREFGVCGQ----------M-EA-HRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       266 ~~~l~~~~~g~s~IiiTtr~~~v~~~----------~-~~-~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ...+.....+ .++|+|++.......          + +. ...+.+.+|+.+|+.+++...+
T Consensus       161 l~~~~~~~~~-~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~  222 (357)
T 2fna_A          161 LAYAYDNLKR-IKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGF  222 (357)
T ss_dssp             HHHHHHHCTT-EEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHH
T ss_pred             HHHHHHcCCC-eEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHH
Confidence            1111111235 799999998653221          1 11 2578999999999999998765

>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=99.44  E-value=3.7e-12  Score=117.00  Aligned_cols=169  Identities=14%  Similarity=0.098  Sum_probs=120.0

Q ss_pred             CccccchhhHHHHHHHHhc----CCCe--EEEEEecCCCcHHHHHHHHHHhhccCCCC-CcEEEEEEecCccCHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLME----EHAG--IVGLYGMGGVGKTTLLTQINNRFFDTPNH-FDFVIWVVVSRDLQLEKIQES  216 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~----~~~~--vi~I~G~~GiGKTtLa~~v~~~~~~~~~~-f~~~~wv~~~~~~~~~~~~~~  216 (337)
                      +.++||+.+++.+..++..    ....  .+.|+|++|+|||||++.+++..   ... -..++|++++...+...++..
T Consensus        17 ~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~---~~~~~~~~~~i~~~~~~~~~~~~~~   93 (389)
T 1fnn_A           17 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY---KDKTTARFVYINGFIYRNFTAIIGE   93 (389)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH---TTSCCCEEEEEETTTCCSHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHH---hhhcCeeEEEEeCccCCCHHHHHHH
Confidence            5699999999999988865    3334  89999999999999999999987   232 235778888887788899999


Q ss_pred             HHHHhCCCCccccCCCHHHHHHHHHHHhc--CCcEEEEEecCCCc--cccccccCCCCCCC----CCCcEEEEeeCChhH
Q 045709          217 IAKKIGLFNESWKNKSMQEKAQEIFKILS--KKKFVLLLDDIWEL--VDLDQVGLPIPSRT----SVSNKVVFTTREFGV  288 (337)
Q Consensus       217 i~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~--~~~~~l~~~l~~~~----~g~s~IiiTtr~~~v  288 (337)
                      ++..++...+. ...+.......+...+.  +++.+|||||++..  ..+..+...+....    .+ ..||++|+....
T Consensus        94 l~~~l~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~-~~iI~~~~~~~~  171 (389)
T 1fnn_A           94 IARSLNIPFPR-RGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFR-IALVIVGHNDAV  171 (389)
T ss_dssp             HHHHTTCCCCS-SCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCC-EEEEEEESSTHH
T ss_pred             HHHHhCccCCC-CCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCC-EEEEEEECCchH
Confidence            99988754321 23455666666666664  56889999999875  22333322222111    34 788888887644


Q ss_pred             Hhhcc-------CCceeecCCCCHHHHHHHHhHhhC
Q 045709          289 CGQME-------AHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       289 ~~~~~-------~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      ...+.       ....+.+++++.++..+++...+.
T Consensus       172 ~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~  207 (389)
T 1fnn_A          172 LNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAK  207 (389)
T ss_dssp             HHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHH
T ss_pred             HHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHH
Confidence            32221       123699999999999999988763

>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=99.26  E-value=5.1e-11  Score=100.24  Aligned_cols=155  Identities=14%  Similarity=0.110  Sum_probs=96.6

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGL  223 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  223 (337)
                      ..++|++..++.+..++.....+.+.|+|++|+|||+||+.+++.... ...-...+.++.+.......+...+......
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   95 (226)
T 2chg_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFG-ENWRDNFIEMNASDERGIDVVRHKIKEFART   95 (226)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSTTSSHHHHHHHHHHHHHG-GGGGGGEEEEETTCTTCHHHHHHHHHHHHTS
T ss_pred             HHHcCcHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHhc-cccccceEEeccccccChHHHHHHHHHHhcc
Confidence            458999999999999998766656999999999999999999987621 1111123344444333332222221111110


Q ss_pred             CCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCChhH-Hhh-ccCCceee
Q 045709          224 FNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREFGV-CGQ-MEAHRSFK  299 (337)
Q Consensus       224 ~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~~v-~~~-~~~~~~~~  299 (337)
                      ..                 ...+++.+|||||++...  .+..+...+.....+ +.+|+||+.... ... ......+.
T Consensus        96 ~~-----------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~-~~~i~~~~~~~~~~~~l~~r~~~i~  157 (226)
T 2chg_A           96 AP-----------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKS-CRFILSCNYVSRIIEPIQSRCAVFR  157 (226)
T ss_dssp             CC-----------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTT-EEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             cC-----------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCC-CeEEEEeCChhhcCHHHHHhCceee
Confidence            00                 012568899999998652  233333223222345 788888876532 111 12234789


Q ss_pred             cCCCCHHHHHHHHhHhhC
Q 045709          300 VECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       300 l~~L~~~ea~~Lf~~~~~  317 (337)
                      +++++.++..+++.+.+.
T Consensus       158 ~~~~~~~~~~~~l~~~~~  175 (226)
T 2chg_A          158 FKPVPKEAMKKRLLEICE  175 (226)
T ss_dssp             CCCCCHHHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHH
Confidence            999999999999998774

>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=99.23  E-value=8.1e-11  Score=100.34  Aligned_cols=166  Identities=13%  Similarity=0.123  Sum_probs=94.9

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      ..++||+..++.|..++.... .+.+.|+|++|+|||||++.+++... ....+..   ..+.   .... ...+.....
T Consensus        23 ~~~~g~~~~~~~l~~~l~~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~-~~~~~~~---~~~~---~~~~-~~~~~~~~~   94 (250)
T 1njg_A           23 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN-CETGITA---TPCG---VCDN-CREIEQGRF   94 (250)
T ss_dssp             GGCCSCHHHHHHHHHHHHHTCCCSEEEEECSTTSCHHHHHHHHHHHHH-CTTCSCS---SCCS---CSHH-HHHHHTTCC
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhc-CCCCCCC---CCCc---ccHH-HHHHhccCC
Confidence            458999999999999987653 45889999999999999999998772 1111100   0000   0000 001110000


Q ss_pred             CCCccc--cCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEeeCChhHH-hh-
Q 045709          223 LFNESW--KNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTTREFGVC-GQ-  291 (337)
Q Consensus       223 ~~~~~~--~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~-~~-  291 (337)
                      ...-..  ...........+...+     .+++.+|||||++..  ..+..+...+.....+ ..+|+||+..... .. 
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~-~~~i~~t~~~~~~~~~l  173 (250)
T 1njg_A           95 VDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEH-VKFLLATTDPQKLPVTI  173 (250)
T ss_dssp             SSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTT-EEEEEEESCGGGSCHHH
T ss_pred             cceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCc-eEEEEEeCChHhCCHHH
Confidence            000000  0001111122222222     346799999999764  3344443333333345 7888888765421 11 


Q ss_pred             ccCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          292 MEAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       292 ~~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      ......+++++++.++..+++...+..
T Consensus       174 ~~r~~~i~l~~l~~~e~~~~l~~~~~~  200 (250)
T 1njg_A          174 LSRCLQFHLKALDVEQIRHQLEHILNE  200 (250)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             HHHhhhccCCCCCHHHHHHHHHHHHHh
Confidence            122467899999999999999988753

>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=99.09  E-value=3.2e-10  Score=101.29  Aligned_cols=155  Identities=17%  Similarity=0.189  Sum_probs=95.6

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGL  223 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  223 (337)
                      ..++|++..++.+.+++..+..+.+.|+|++|+|||++|+.+++.... .......++++.+.......+ ..++..+..
T Consensus        21 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~~-~~~~~~~~~~~~~~~~~~~~i-~~~~~~~~~   98 (323)
T 1sxj_B           21 SDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLG-RSYADGVLELNASDDRGIDVV-RNQIKHFAQ   98 (323)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHHG-GGHHHHEEEECTTSCCSHHHH-HTHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhcC-CcccCCEEEecCccccChHHH-HHHHHHHHh
Confidence            458999999999999998766555999999999999999999988621 111112344443332222221 122221110


Q ss_pred             CCccccCCCHHHHHHHHHHHh-cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCChhH-Hhh-ccCCcee
Q 045709          224 FNESWKNKSMQEKAQEIFKIL-SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREFGV-CGQ-MEAHRSF  298 (337)
Q Consensus       224 ~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~~v-~~~-~~~~~~~  298 (337)
                      ..                ..+ .+++.++||||++...  .+..+...+.....+ +.+|+||....- ... .+....+
T Consensus        99 ~~----------------~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~-~~~il~~~~~~~l~~~l~sr~~~i  161 (323)
T 1sxj_B           99 KK----------------LHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNS-TRFAFACNQSNKIIEPLQSQCAIL  161 (323)
T ss_dssp             BC----------------CCCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTT-EEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             cc----------------ccCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCC-ceEEEEeCChhhchhHHHhhceEE
Confidence            00                001 3468899999998642  233333223222345 788888876432 111 1233588


Q ss_pred             ecCCCCHHHHHHHHhHhhC
Q 045709          299 KVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       299 ~l~~L~~~ea~~Lf~~~~~  317 (337)
                      .+.+++.++..+++...+.
T Consensus       162 ~~~~~~~~~~~~~l~~~~~  180 (323)
T 1sxj_B          162 RYSKLSDEDVLKRLLQIIK  180 (323)
T ss_dssp             ECCCCCHHHHHHHHHHHHH
T ss_pred             eecCCCHHHHHHHHHHHHH
Confidence            9999999999999998764

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.09  E-value=1.2e-09  Score=96.95  Aligned_cols=168  Identities=10%  Similarity=0.082  Sum_probs=106.0

Q ss_pred             cccchhhHHHHHHHHhc----CCCeEEEEEecCCCcHHHHHHHHHHhhccCCC--CC--cEEEEEEecCccCHHHHHHHH
Q 045709          146 VVGLQLTFDRVWRCLME----EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPN--HF--DFVIWVVVSRDLQLEKIQESI  217 (337)
Q Consensus       146 ~vGr~~~~~~l~~~L~~----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--~f--~~~~wv~~~~~~~~~~~~~~i  217 (337)
                      +.||+++++.|...|..    ...+.+.|+|++|+|||++++.+++.......  ..  -..+++++....+...++..|
T Consensus        22 L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I  101 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKI  101 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHH
Confidence            78999999999877753    57788999999999999999999998832111  11  146677877778888999999


Q ss_pred             HHHhCCCCccccCCCHHHHHHHHHHHh---cCCcEEEEEecCCCccccccccCCC--CCCCCCCcEEEEeeCChh-----
Q 045709          218 AKKIGLFNESWKNKSMQEKAQEIFKIL---SKKKFVLLLDDIWELVDLDQVGLPI--PSRTSVSNKVVFTTREFG-----  287 (337)
Q Consensus       218 ~~~l~~~~~~~~~~~~~~~~~~l~~~l---~~k~~LlVlDdv~~~~~~~~l~~~l--~~~~~g~s~IiiTtr~~~-----  287 (337)
                      ++++...... ..... .....+...+   .+++++++||+++...+-+-+...+  +....+...||.++...+     
T Consensus       102 ~~~L~g~~~~-~~~~~-~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~d~~~~~  179 (318)
T 3te6_A          102 WFAISKENLC-GDISL-EALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHNVTIREQ  179 (318)
T ss_dssp             HHHHSCCC---CCCCH-HHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSSCCCHHH
T ss_pred             HHHhcCCCCC-chHHH-HHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCcccchhh
Confidence            9999653211 12222 3333333333   4668999999998764322221111  111111023333443321     


Q ss_pred             H----HhhccCCceeecCCCCHHHHHHHHhHhh
Q 045709          288 V----CGQMEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       288 v----~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      +    .+.++ ...+.++|++.+|-.+++.+++
T Consensus       180 L~~~v~SR~~-~~~i~F~pYt~~el~~Il~~Rl  211 (318)
T 3te6_A          180 INIMPSLKAH-FTEIKLNKVDKNELQQMIITRL  211 (318)
T ss_dssp             HHTCHHHHTT-EEEEECCCCCHHHHHHHHHHHH
T ss_pred             cchhhhccCC-ceEEEeCCCCHHHHHHHHHHHH
Confidence            1    11221 2468999999999999999987

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.04  E-value=4.5e-10  Score=92.13  Aligned_cols=151  Identities=17%  Similarity=0.189  Sum_probs=85.9

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCC----CCcEEEEEEecCccCHHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPN----HFDFVIWVVVSRDLQLEKIQESIAK  219 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~  219 (337)
                      ..++||++.++.+.+.+.......+.|+|++|+|||+||+.+++.......    .....++++++      .+.     
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~-----   90 (195)
T 1jbk_A           22 DPVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMG------ALV-----   90 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHH------HHH-----
T ss_pred             cccccchHHHHHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeHH------HHh-----
Confidence            458999999999999998776778899999999999999999887632111    11234444332      111     


Q ss_pred             HhCCCCccccCCCHHHHHHHHHHHh--cCCcEEEEEecCCCcc---------ccccccCCCCCCCCCCcEEEEeeCChhH
Q 045709          220 KIGLFNESWKNKSMQEKAQEIFKIL--SKKKFVLLLDDIWELV---------DLDQVGLPIPSRTSVSNKVVFTTREFGV  288 (337)
Q Consensus       220 ~l~~~~~~~~~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~~~---------~~~~l~~~l~~~~~g~s~IiiTtr~~~v  288 (337)
                        ....   ...........+...+  .+++.+|+|||++...         .+..+...+... .+ ..+|.||.....
T Consensus        91 --~~~~---~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~~l~~~~~~-~~-~~~i~~~~~~~~  163 (195)
T 1jbk_A           91 --AGAK---YRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR-GE-LHCVGATTLDEY  163 (195)
T ss_dssp             --TTTC---SHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHT-TS-CCEEEEECHHHH
T ss_pred             --ccCC---ccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchHHHHHHHHHhhcc-CC-eEEEEeCCHHHH
Confidence              0000   0001111222222222  3568899999997642         111111111111 23 567777765542


Q ss_pred             Hh------hc-cCCceeecCCCCHHHHHHHH
Q 045709          289 CG------QM-EAHRSFKVECLRYDDAWKLF  312 (337)
Q Consensus       289 ~~------~~-~~~~~~~l~~L~~~ea~~Lf  312 (337)
                      ..      .+ .....+.+++++.++..+++
T Consensus       164 ~~~~~~~~~l~~r~~~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          164 RQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHhcCHHHHHHhceeecCCCCHHHHHHHh
Confidence            21      11 11236889999998877654

>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=98.96  E-value=1.1e-09  Score=98.00  Aligned_cols=153  Identities=16%  Similarity=0.167  Sum_probs=93.9

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCC-cEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHF-DFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f-~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|++..++.+..++..+..+.+.++|++|+||||+|+.+++...  ...+ ...+.++.+.......+ ...+.   
T Consensus        25 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~~~~-~~~~~---   98 (327)
T 1iqp_A           25 DDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELF--GENWRHNFLELNASDERGINVI-REKVK---   98 (327)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHH--GGGHHHHEEEEETTCHHHHHTT-HHHHH---
T ss_pred             HHhhCCHHHHHHHHHHHHcCCCCeEEEECcCCCCHHHHHHHHHHHhc--CCcccCceEEeeccccCchHHH-HHHHH---
Confidence            45899999999999999877666699999999999999999998862  1111 12333333321111110 00010   


Q ss_pred             CCCccccCCCHHHHHHHHHHH--h-cCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEeeCChhH-Hhhc-cCC
Q 045709          223 LFNESWKNKSMQEKAQEIFKI--L-SKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTTREFGV-CGQM-EAH  295 (337)
Q Consensus       223 ~~~~~~~~~~~~~~~~~l~~~--l-~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTtr~~~v-~~~~-~~~  295 (337)
                                      .....  + .+++.++|+||++..  ..+..+...+.....+ +++|+||....- ...+ ...
T Consensus        99 ----------------~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~-~~~i~~~~~~~~l~~~l~sr~  161 (327)
T 1iqp_A           99 ----------------EFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSN-VRFILSCNYSSKIIEPIQSRC  161 (327)
T ss_dssp             ----------------HHHHSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTT-EEEEEEESCGGGSCHHHHHTE
T ss_pred             ----------------HHHhhCCcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCC-CeEEEEeCCccccCHHHHhhC
Confidence                            01000  1 256789999999865  2333333323222345 788888876432 1111 122


Q ss_pred             ceeecCCCCHHHHHHHHhHhhCCC
Q 045709          296 RSFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       296 ~~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      ..+.+.+++.++...++...+...
T Consensus       162 ~~~~~~~l~~~~~~~~l~~~~~~~  185 (327)
T 1iqp_A          162 AIFRFRPLRDEDIAKRLRYIAENE  185 (327)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTT
T ss_pred             cEEEecCCCHHHHHHHHHHHHHhc
Confidence            478999999999999998876433

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.92  E-value=4.8e-09  Score=92.09  Aligned_cols=166  Identities=17%  Similarity=0.175  Sum_probs=97.5

Q ss_pred             CccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH
Q 045709          144 PTVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL  210 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~  210 (337)
                      .+++|.+..++.|.+.+..             .....+.|+|++|+|||+||+.+++..   ...|   +.+..+.-.. 
T Consensus        17 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~---~~~~---~~v~~~~~~~-   89 (285)
T 3h4m_A           17 EDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATET---NATF---IRVVGSELVK-   89 (285)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHT---TCEE---EEEEGGGGCC-
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCCE---EEEehHHHHH-
Confidence            4689999999999887643             345679999999999999999999877   2222   2232221100 


Q ss_pred             HHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc----------------ccccccCCCC--CC
Q 045709          211 EKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV----------------DLDQVGLPIP--SR  272 (337)
Q Consensus       211 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------------~~~~l~~~l~--~~  272 (337)
                                   .   ............+.......+.+|+|||++...                .+..+...+.  ..
T Consensus        90 -------------~---~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~  153 (285)
T 3h4m_A           90 -------------K---FIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDA  153 (285)
T ss_dssp             -------------C---STTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCS
T ss_pred             -------------h---ccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCC
Confidence                         0   011111112222233334567899999997531                0111111110  11


Q ss_pred             CCCCcEEEEeeCChhHHh-h-c---cCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHHH
Q 045709          273 TSVSNKVVFTTREFGVCG-Q-M---EAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAET  333 (337)
Q Consensus       273 ~~g~s~IiiTtr~~~v~~-~-~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~  333 (337)
                      ..+ ..||.||....... . .   .....+.+++.+.++..++|...+.......+.++..++..
T Consensus       154 ~~~-~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~l~~~  218 (285)
T 3h4m_A          154 RGD-VKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVNLEEIAKM  218 (285)
T ss_dssp             SSS-EEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHH
T ss_pred             CCC-EEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCcCCHHHHHHH
Confidence            224 67777887543311 0 1   11246899999999999999998865543444556666553

>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=98.86  E-value=9.7e-09  Score=91.40  Aligned_cols=152  Identities=13%  Similarity=0.156  Sum_probs=94.3

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCc-EEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFD-FVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|++..++.+.+++..+..+.+.++|++|+|||++|+.+++...  ...+. ..+.++.+......           
T Consensus        17 ~~~~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKt~la~~l~~~l~--~~~~~~~~~~~~~~~~~~~~-----------   83 (319)
T 2chq_A           17 DEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLF--GENWRDNFIEMNASDERGID-----------   83 (319)
T ss_dssp             GGSCSCHHHHHHHHTTTTTTCCCCEEEESSSSSSHHHHHHHHHHHHH--TTCHHHHCEEEETTSTTCTT-----------
T ss_pred             HHHhCCHHHHHHHHHHHhCCCCCeEEEECcCCcCHHHHHHHHHHHhc--CCcccCCeEEEeCccccChH-----------
Confidence            45899999999999988776655699999999999999999998762  11111 22333333211100           


Q ss_pred             CCCccccCCCHHHHHHHHHHH--h-cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCChh-HHhh-ccCC
Q 045709          223 LFNESWKNKSMQEKAQEIFKI--L-SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREFG-VCGQ-MEAH  295 (337)
Q Consensus       223 ~~~~~~~~~~~~~~~~~l~~~--l-~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~~-v~~~-~~~~  295 (337)
                               ........+...  + .+++.++|+|+++...  ....+...+.....+ +.+|+||.... +... ....
T Consensus        84 ---------~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~-~~~i~~~~~~~~l~~~l~sr~  153 (319)
T 2chq_A           84 ---------VVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKS-CRFILSCNYVSRIIEPIQSRC  153 (319)
T ss_dssp             ---------TSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSS-EEEEEEESCGGGSCHHHHTTC
T ss_pred             ---------HHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCC-CeEEEEeCChhhcchHHHhhC
Confidence                     011111111111  1 2567899999997652  234444444333345 78888887643 2111 1223


Q ss_pred             ceeecCCCCHHHHHHHHhHhhCC
Q 045709          296 RSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       296 ~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      ..+.+.+++.++...++...+..
T Consensus       154 ~~i~~~~~~~~~~~~~l~~~~~~  176 (319)
T 2chq_A          154 AVFRFKPVPKEAMKKRLLEICEK  176 (319)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHT
T ss_pred             eEEEecCCCHHHHHHHHHHHHHH
Confidence            57899999999999999887643

>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=98.74  E-value=4.6e-08  Score=91.26  Aligned_cols=154  Identities=17%  Similarity=0.161  Sum_probs=90.6

Q ss_pred             ccc-cchhh--HHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHH
Q 045709          145 TVV-GLQLT--FDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKK  220 (337)
Q Consensus       145 ~~v-Gr~~~--~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  220 (337)
                      +|+ |....  ...+........ ...+.|+|++|+||||||+.+++.... ...-..+++++..      .+...+...
T Consensus       106 ~fv~g~~n~~a~~~~~~~a~~~~~~~~lll~Gp~G~GKTtLa~aia~~l~~-~~~~~~v~~v~~~------~~~~~~~~~  178 (440)
T 2z4s_A          106 NFVVGPGNSFAYHAALEVAKHPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQ-NEPDLRVMYITSE------KFLNDLVDS  178 (440)
T ss_dssp             GCCCCTTTHHHHHHHHHHHHSTTSSCCEEEECSSSSSHHHHHHHHHHHHHH-HCCSSCEEEEEHH------HHHHHHHHH
T ss_pred             hcCCCCchHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHH-hCCCCeEEEeeHH------HHHHHHHHH
Confidence            455 64433  334444443333 678999999999999999999987721 1111234555443      234444444


Q ss_pred             hCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc----cccccCCCCC-CCCCCcEEEEeeCCh---------
Q 045709          221 IGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD----LDQVGLPIPS-RTSVSNKVVFTTREF---------  286 (337)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----~~~l~~~l~~-~~~g~s~IiiTtr~~---------  286 (337)
                      +...       .    ...+...+..+.-+|+|||++....    .+.+...+.. ...| ..||+||.+.         
T Consensus       179 ~~~~-------~----~~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~-~~iIitt~~~~~~l~~l~~  246 (440)
T 2z4s_A          179 MKEG-------K----LNEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSG-KQIVICSDREPQKLSEFQD  246 (440)
T ss_dssp             HHTT-------C----HHHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTT-CEEEEEESSCGGGCSSCCH
T ss_pred             HHcc-------c----HHHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCC-CeEEEEECCCHHHHHHHHH
Confidence            4221       1    1223344444677999999976532    1222222110 1245 7888888863         


Q ss_pred             hHHhhccCCceeecCCCCHHHHHHHHhHhhC
Q 045709          287 GVCGQMEAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       287 ~v~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      .+...+..+..+.+++++.++-..++.+.+.
T Consensus       247 ~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~  277 (440)
T 2z4s_A          247 RLVSRFQMGLVAKLEPPDEETRKSIARKMLE  277 (440)
T ss_dssp             HHHHHHHSSBCCBCCCCCHHHHHHHHHHHHH
T ss_pred             HHHhhccCCeEEEeCCCCHHHHHHHHHHHHH
Confidence            2333344456789999999999999998874

>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=98.72  E-value=1e-07  Score=86.79  Aligned_cols=160  Identities=13%  Similarity=0.118  Sum_probs=90.4

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|++..++.+.+.+..+. .+.+.|+|++|+||||+|+.+++... ....+..   ..+..   .. ....+.....
T Consensus        16 ~~~vg~~~~~~~L~~~l~~~~~~~~~ll~G~~G~GKT~la~~la~~l~-~~~~~~~---~~~~~---~~-~~~~~~~~~~   87 (373)
T 1jr3_A           16 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLN-CETGITA---TPCGV---CD-NCREIEQGRF   87 (373)
T ss_dssp             TTSCSCHHHHHHHHHHHHHTCCCSEEEEESCTTSSHHHHHHHHHHHHS-CTTCSCS---SCCSS---SH-HHHHHHTSCC
T ss_pred             hhccCcHHHHHHHHHHHHhCCCCeEEEEECCCCCCHHHHHHHHHHHhC-CCCCCCC---CCCcc---cH-HHHHHhccCC
Confidence            458999999999999987654 45789999999999999999988772 1111100   00000   00 1111111000


Q ss_pred             C-----CCc-cccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCChh-H
Q 045709          223 L-----FNE-SWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREFG-V  288 (337)
Q Consensus       223 ~-----~~~-~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~~-v  288 (337)
                      .     ... .......    ..+...+     .+++.+||+||++...  .++.+...+.....+ ..+|++|.... +
T Consensus        88 ~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~-~~~Il~~~~~~~l  162 (373)
T 1jr3_A           88 VDLIEIDAASRTKVEDT----RDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEH-VKFLLATTDPQKL  162 (373)
T ss_dssp             SSCEEEETTCSCCSSCH----HHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSS-EEEEEEESCGGGS
T ss_pred             CceEEecccccCCHHHH----HHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCc-eEEEEEeCChHhC
Confidence            0     000 0011112    2222222     3567899999997642  233333223222234 67777776543 2


Q ss_pred             Hh-hccCCceeecCCCCHHHHHHHHhHhh
Q 045709          289 CG-QMEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       289 ~~-~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      .. .......+++.+++.++..+++.+.+
T Consensus       163 ~~~l~sr~~~i~~~~l~~~~~~~~l~~~~  191 (373)
T 1jr3_A          163 PVTILSRCLQFHLKALDVEQIRHQLEHIL  191 (373)
T ss_dssp             CHHHHTTSEEEECCCCCHHHHHHHHHHHH
T ss_pred             cHHHHhheeEeeCCCCCHHHHHHHHHHHH
Confidence            11 11233678999999999999998766

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.69  E-value=8e-08  Score=85.20  Aligned_cols=151  Identities=13%  Similarity=0.143  Sum_probs=85.7

Q ss_pred             ccccchhhHHHHHHHHh---------------cCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccC
Q 045709          145 TVVGLQLTFDRVWRCLM---------------EEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQ  209 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~---------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~  209 (337)
                      .++|.+..++.|.+.+.               ......+.|+|++|+|||+||+.+++.... ........++.++..  
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~-~~~~~~~~~~~~~~~--  108 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHR-LGYVRKGHLVSVTRD--  108 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHH-TTSSSSCCEEEECGG--
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHh-cCCcCCCcEEEEcHH--
Confidence            47899888888876653               234557899999999999999988887632 111111112222211  


Q ss_pred             HHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCc-----------cccccccCCCCCCCCCCcE
Q 045709          210 LEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWEL-----------VDLDQVGLPIPSRTSVSNK  278 (337)
Q Consensus       210 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~-----------~~~~~l~~~l~~~~~g~s~  278 (337)
                        .        +...   ............+...   +..+|+||+++..           .....+...+.....+ ..
T Consensus       109 --~--------l~~~---~~g~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~-~~  171 (309)
T 3syl_A          109 --D--------LVGQ---YIGHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDD-LV  171 (309)
T ss_dssp             --G--------TCCS---STTCHHHHHHHHHHHH---TTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTT-CE
T ss_pred             --H--------hhhh---cccccHHHHHHHHHhc---CCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCC-EE
Confidence              0        0000   0111111122222222   3469999999843           1122332223223334 67


Q ss_pred             EEEeeCChh----------HHhhccCCceeecCCCCHHHHHHHHhHhhC
Q 045709          279 VVFTTREFG----------VCGQMEAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       279 IiiTtr~~~----------v~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      ||.||....          +...+  ...+.+++++.++-..++...+.
T Consensus       172 ~i~~~~~~~~~~~~~~~~~l~~R~--~~~i~~~~~~~~~~~~il~~~l~  218 (309)
T 3syl_A          172 VILAGYADRMENFFQSNPGFRSRI--AHHIEFPDYSDEELFEIAGHMLD  218 (309)
T ss_dssp             EEEEECHHHHHHHHHHSTTHHHHE--EEEEEECCCCHHHHHHHHHHHHH
T ss_pred             EEEeCChHHHHHHHhhCHHHHHhC--CeEEEcCCcCHHHHHHHHHHHHH
Confidence            888876432          22222  26789999999999999988764

>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=98.69  E-value=9.5e-09  Score=87.48  Aligned_cols=144  Identities=8%  Similarity=0.079  Sum_probs=85.3

Q ss_pred             Cccccc---hhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHH
Q 045709          144 PTVVGL---QLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKK  220 (337)
Q Consensus       144 ~~~vGr---~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  220 (337)
                      .+|+|.   +..+..+..++.....+.+.|+|++|+||||||+.+++...   .....+.|++++.....      +   
T Consensus        28 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~ll~G~~G~GKT~la~~l~~~~~---~~~~~~~~~~~~~~~~~------~---   95 (242)
T 3bos_A           28 TSYYPAAGNDELIGALKSAASGDGVQAIYLWGPVKSGRTHLIHAACARAN---ELERRSFYIPLGIHASI------S---   95 (242)
T ss_dssp             TTSCC--CCHHHHHHHHHHHHTCSCSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEEGGGGGGS------C---
T ss_pred             hhccCCCCCHHHHHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEHHHHHHH------H---
Confidence            356763   35566666666655678899999999999999999998873   22334566665432110      0   


Q ss_pred             hCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc----cccccCCCCC-CCCCCcEEEEeeCChh--------
Q 045709          221 IGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD----LDQVGLPIPS-RTSVSNKVVFTTREFG--------  287 (337)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----~~~l~~~l~~-~~~g~s~IiiTtr~~~--------  287 (337)
                          .   .          ....+ .++.+|||||++....    ...+...+.. ...+..++|+||+...        
T Consensus        96 ----~---~----------~~~~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~~~~  157 (242)
T 3bos_A           96 ----T---A----------LLEGL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGFVLP  157 (242)
T ss_dssp             ----G---G----------GGTTG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTCCCH
T ss_pred             ----H---H----------HHHhc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHhhh
Confidence                0   0          00011 3467999999976522    1222111110 0112135888876422        


Q ss_pred             -HHhhccCCceeecCCCCHHHHHHHHhHhhC
Q 045709          288 -VCGQMEAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       288 -v~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                       +...+.....+.+++++.++..+++...+.
T Consensus       158 ~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~  188 (242)
T 3bos_A          158 DLVSRMHWGLTYQLQPMMDDEKLAALQRRAA  188 (242)
T ss_dssp             HHHHHHHHSEEEECCCCCGGGHHHHHHHHHH
T ss_pred             hhhhHhhcCceEEeCCCCHHHHHHHHHHHHH
Confidence             222222236789999999999999998774

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.64  E-value=3.6e-07  Score=85.16  Aligned_cols=144  Identities=17%  Similarity=0.203  Sum_probs=87.3

Q ss_pred             CccccchhhH---HHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHH
Q 045709          144 PTVVGLQLTF---DRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKK  220 (337)
Q Consensus       144 ~~~vGr~~~~---~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  220 (337)
                      ..++|.+..+   ..|...+.....+.+.|+|++|+||||||+.+.+..   ...|.   .++... .....+ ..++  
T Consensus        26 ~~ivGq~~~~~~~~~L~~~i~~~~~~~vLL~GppGtGKTtlAr~ia~~~---~~~f~---~l~a~~-~~~~~i-r~~~--   95 (447)
T 3pvs_A           26 AQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIARYA---NADVE---RISAVT-SGVKEI-REAI--   95 (447)
T ss_dssp             TTCCSCHHHHSTTSHHHHHHHHTCCCEEEEECSTTSSHHHHHHHHHHHT---TCEEE---EEETTT-CCHHHH-HHHH--
T ss_pred             HHhCCcHHHHhchHHHHHHHHcCCCcEEEEECCCCCcHHHHHHHHHHHh---CCCeE---EEEecc-CCHHHH-HHHH--
Confidence            4589998888   778888877777889999999999999999999887   33332   122111 111111 1111  


Q ss_pred             hCCCCccccCCCHHHHHHHHHH-HhcCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEE-eeCChhH---Hhhcc
Q 045709          221 IGLFNESWKNKSMQEKAQEIFK-ILSKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVF-TTREFGV---CGQME  293 (337)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~Iii-Ttr~~~v---~~~~~  293 (337)
                                       ..... ...+++.+|+||+++..  ...+.+...+..   +...+|. ||.+...   .....
T Consensus        96 -----------------~~a~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~---~~v~lI~att~n~~~~l~~aL~s  155 (447)
T 3pvs_A           96 -----------------ERARQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED---GTITFIGATTENPSFELNSALLS  155 (447)
T ss_dssp             -----------------HHHHHHHHTTCCEEEEEETTTCC------CCHHHHHT---TSCEEEEEESSCGGGSSCHHHHT
T ss_pred             -----------------HHHHHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc---CceEEEecCCCCcccccCHHHhC
Confidence                             11111 12467889999999865  233334333332   2134443 5555431   11122


Q ss_pred             CCceeecCCCCHHHHHHHHhHhhC
Q 045709          294 AHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       294 ~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      ...++.+++++.++...++.+.+.
T Consensus       156 R~~v~~l~~l~~edi~~il~~~l~  179 (447)
T 3pvs_A          156 RARVYLLKSLSTEDIEQVLTQAME  179 (447)
T ss_dssp             TEEEEECCCCCHHHHHHHHHHHHH
T ss_pred             ceeEEeeCCcCHHHHHHHHHHHHH
Confidence            335789999999999999988864

>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=98.58  E-value=1.8e-06  Score=76.31  Aligned_cols=165  Identities=15%  Similarity=0.132  Sum_probs=94.8

Q ss_pred             CccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH
Q 045709          144 PTVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL  210 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~  210 (337)
                      .+++|.+..++.|.+++..             .....+.|+|++|+|||+||+.+++..   ...|   +.++      .
T Consensus        15 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~---~~~~---i~v~------~   82 (301)
T 3cf0_A           15 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QANF---ISIK------G   82 (301)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHT---TCEE---EEEC------H
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHh---CCCE---EEEE------h
Confidence            4588999888888777642             345679999999999999999999877   2222   2222      2


Q ss_pred             HHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc----------------cccccCCCC--CC
Q 045709          211 EKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD----------------LDQVGLPIP--SR  272 (337)
Q Consensus       211 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~l~--~~  272 (337)
                      ..+....   .+..        .......+.......+.+|+||+++....                ...+...+.  ..
T Consensus        83 ~~l~~~~---~g~~--------~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~  151 (301)
T 3cf0_A           83 PELLTMW---FGES--------EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST  151 (301)
T ss_dssp             HHHHHHH---HTTC--------TTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCT
T ss_pred             HHHHhhh---cCch--------HHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccC
Confidence            2232221   1211        11122223333345789999999974210                111211111  11


Q ss_pred             CCCCcEEEEeeCChhHH-hh-cc---CCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHH
Q 045709          273 TSVSNKVVFTTREFGVC-GQ-ME---AHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAE  332 (337)
Q Consensus       273 ~~g~s~IiiTtr~~~v~-~~-~~---~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~  332 (337)
                      ..+ ..||.||...... .. ..   ....+.++..+.++-.++|...+.......+.++..++.
T Consensus       152 ~~~-v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~~~~la~  215 (301)
T 3cf0_A          152 KKN-VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAK  215 (301)
T ss_dssp             TSS-EEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHH
T ss_pred             CCC-EEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccchHHHHHH
Confidence            223 5677777655322 11 11   235788999999999999988775433233344555544

>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=98.58  E-value=2.8e-07  Score=79.55  Aligned_cols=150  Identities=15%  Similarity=0.168  Sum_probs=83.5

Q ss_pred             CccccchhhHHHHHHHHh---c---------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCLM---E---------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|.+..++.|.+++.   .         ...+.+.|+|++|+|||++|+.+++..   ...|   +.++.+.-.+. 
T Consensus         6 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~---~~~~---~~~~~~~~~~~-   78 (262)
T 2qz4_A            6 KDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEA---QVPF---LAMAGAEFVEV-   78 (262)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHH---TCCE---EEEETTTTSSS-
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHh---CCCE---EEechHHHHhh-
Confidence            458999888877766542   1         234568899999999999999999987   2332   33343321100 


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc-------------c----cccccCCCCC--C
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV-------------D----LDQVGLPIPS--R  272 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-------------~----~~~l~~~l~~--~  272 (337)
                                      +...........+.......+.+|+|||++...             .    +..+...+..  .
T Consensus        79 ----------------~~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~  142 (262)
T 2qz4_A           79 ----------------IGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGT  142 (262)
T ss_dssp             ----------------STTHHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCT
T ss_pred             ----------------ccChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCC
Confidence                            011111122222333334567899999998641             0    1111111111  1


Q ss_pred             CCCCcEEEEeeCChhHH-hhc-c---CCceeecCCCCHHHHHHHHhHhhC
Q 045709          273 TSVSNKVVFTTREFGVC-GQM-E---AHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       273 ~~g~s~IiiTtr~~~v~-~~~-~---~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      ..+ ..||.||...... ..+ .   ....+.+++.+.++-.++|...+.
T Consensus       143 ~~~-~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~  191 (262)
T 2qz4_A          143 TDH-VIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLK  191 (262)
T ss_dssp             TCC-EEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHH
T ss_pred             CCC-EEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHH
Confidence            223 5666677654421 111 1   235678999999999999988763

>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=98.58  E-value=1.2e-07  Score=85.71  Aligned_cols=167  Identities=11%  Similarity=0.144  Sum_probs=92.4

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccC-CCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDT-PNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      ..++|+++.++.+..++.....+.+.|+|++|+||||+|+.+.+..... ...+ ....++.+.......+ .+....+.
T Consensus        37 ~~i~g~~~~~~~l~~~l~~~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~  114 (353)
T 1sxj_D           37 DEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKS-RILELNASDERGISIV-REKVKNFA  114 (353)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTT-SEEEECSSSCCCHHHH-TTHHHHHH
T ss_pred             HHhhCCHHHHHHHHHHHhcCCCCEEEEECCCCCCHHHHHHHHHHHhCCCccccc-ceEEEccccccchHHH-HHHHHHHh
Confidence            4589999999999999877655558999999999999999998875100 0111 2233333332222222 22121111


Q ss_pred             CCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCChh-HHhh-ccCCcee
Q 045709          223 LFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREFG-VCGQ-MEAHRSF  298 (337)
Q Consensus       223 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~~-v~~~-~~~~~~~  298 (337)
                      ..... .....     .....-.++.-+|++|+++...  ....+...+...... .++|++|.... +... ......+
T Consensus       115 ~~~~~-~~~~~-----~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~-~~~il~~~~~~~l~~~l~sR~~~i  187 (353)
T 1sxj_D          115 RLTVS-KPSKH-----DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGV-TRFCLICNYVTRIIDPLASQCSKF  187 (353)
T ss_dssp             HSCCC-CCCTT-----HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTT-EEEEEEESCGGGSCHHHHHHSEEE
T ss_pred             hhccc-ccchh-----hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCC-ceEEEEeCchhhCcchhhccCceE
Confidence            00000 00000     0001112355699999987642  222232222222234 67777775433 1111 1122478


Q ss_pred             ecCCCCHHHHHHHHhHhhCCC
Q 045709          299 KVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       299 ~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      .+.+++.++....+...+...
T Consensus       188 ~~~~~~~~~~~~~l~~~~~~~  208 (353)
T 1sxj_D          188 RFKALDASNAIDRLRFISEQE  208 (353)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTT
T ss_pred             EeCCCCHHHHHHHHHHHHHHh
Confidence            999999999999999877433

>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=98.55  E-value=3.2e-07  Score=82.00  Aligned_cols=142  Identities=18%  Similarity=0.219  Sum_probs=81.7

Q ss_pred             HHHHHHHHhcC--CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccC
Q 045709          153 FDRVWRCLMEE--HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKN  230 (337)
Q Consensus       153 ~~~l~~~L~~~--~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~  230 (337)
                      ...+...+..+  ....+.|+|++|+||||||+.+++.....  . ..++++++.      .+...+...+..       
T Consensus        23 ~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~--~-~~~~~i~~~------~~~~~~~~~~~~-------   86 (324)
T 1l8q_A           23 YEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKR--G-YRVIYSSAD------DFAQAMVEHLKK-------   86 (324)
T ss_dssp             HHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHT--T-CCEEEEEHH------HHHHHHHHHHHH-------
T ss_pred             HHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHC--C-CEEEEEEHH------HHHHHHHHHHHc-------
Confidence            34445544443  34689999999999999999999887321  2 234455432      333333333321       


Q ss_pred             CCHHHHHHHHHHHhcCCcEEEEEecCCCccc----cccccCCCCC-CCCCCcEEEEeeCChh---------HHhhccCCc
Q 045709          231 KSMQEKAQEIFKILSKKKFVLLLDDIWELVD----LDQVGLPIPS-RTSVSNKVVFTTREFG---------VCGQMEAHR  296 (337)
Q Consensus       231 ~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----~~~l~~~l~~-~~~g~s~IiiTtr~~~---------v~~~~~~~~  296 (337)
                      ....    .+...+ .+..+|+|||++....    ...+...+.. ...+ ..||+||.+..         +...+....
T Consensus        87 ~~~~----~~~~~~-~~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~-~~iii~~~~~~~~l~~l~~~L~sR~~~~~  160 (324)
T 1l8q_A           87 GTIN----EFRNMY-KSVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLE-KQIILASDRHPQKLDGVSDRLVSRFEGGI  160 (324)
T ss_dssp             TCHH----HHHHHH-HTCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTT-CEEEEEESSCGGGCTTSCHHHHHHHHTSE
T ss_pred             CcHH----HHHHHh-cCCCEEEEcCcccccCChHHHHHHHHHHHHHHHCC-CeEEEEecCChHHHHHhhhHhhhcccCce
Confidence            0111    122222 2367999999976532    1222211110 1234 67888876432         233333446


Q ss_pred             eeecCCCCHHHHHHHHhHhhC
Q 045709          297 SFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       297 ~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      .+.+++ +.++...++...+.
T Consensus       161 ~i~l~~-~~~e~~~il~~~~~  180 (324)
T 1l8q_A          161 LVEIEL-DNKTRFKIIKEKLK  180 (324)
T ss_dssp             EEECCC-CHHHHHHHHHHHHH
T ss_pred             EEEeCC-CHHHHHHHHHHHHH
Confidence            789999 99999999998874

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.54  E-value=3.6e-06  Score=75.06  Aligned_cols=152  Identities=14%  Similarity=0.154  Sum_probs=86.9

Q ss_pred             CccccchhhHHHHHHHHhc------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCLME------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|.+..++.|.+.+..            ...+.+.|+|++|+|||+||+.+++...  ..   ..+.++.+.-.+  
T Consensus        12 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~--~~---~~~~i~~~~l~~--   84 (322)
T 1xwi_A           12 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN--NS---TFFSISSSDLVS--   84 (322)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTT--SC---EEEEEECCSSCC--
T ss_pred             HHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcC--CC---cEEEEEhHHHHh--
Confidence            4578999888888776631            2346789999999999999999998761  11   223333332110  


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHH-HhcCCcEEEEEecCCCccc-------------cccccCC---CCCCCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFK-ILSKKKFVLLLDDIWELVD-------------LDQVGLP---IPSRTS  274 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~-------------~~~l~~~---l~~~~~  274 (337)
                                     .+..... .....+.. .-..++.+|+||+++....             ...+...   +.....
T Consensus        85 ---------------~~~g~~~-~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~~~  148 (322)
T 1xwi_A           85 ---------------KWLGESE-KLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDND  148 (322)
T ss_dssp             ---------------SSCCSCH-HHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSCCT
T ss_pred             ---------------hhhhHHH-HHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccccCC
Confidence                           0011222 22233332 3346788999999986411             0111111   111123


Q ss_pred             CCcEEEEeeCChhHH-hhc--cCCceeecCCCCHHHHHHHHhHhhCCC
Q 045709          275 VSNKVVFTTREFGVC-GQM--EAHRSFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       275 g~s~IiiTtr~~~v~-~~~--~~~~~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      + ..||.||...... ..+  .....+.++..+.++-.++|...+...
T Consensus       149 ~-v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~  195 (322)
T 1xwi_A          149 G-ILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTT  195 (322)
T ss_dssp             T-EEEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTC
T ss_pred             C-EEEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcC
Confidence            3 4555566543221 111  233578899999999999998887543

>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=98.53  E-value=4.7e-07  Score=80.86  Aligned_cols=149  Identities=17%  Similarity=0.182  Sum_probs=88.9

Q ss_pred             CccccchhhHHHHHHHHhc------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCLME------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|.+..++.|.+.+..            ...+-+.|+|++|+|||+||+.+++..   ...|   +.++.+      
T Consensus        18 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~---~~~~---~~v~~~------   85 (322)
T 3eie_A           18 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA---NSTF---FSVSSS------   85 (322)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHH---TCEE---EEEEHH------
T ss_pred             HHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHH---CCCE---EEEchH------
Confidence            4589999999999887721            134678999999999999999999887   3332   222221      


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHH-HhcCCcEEEEEecCCCccc-------------cccccCC---CCCCCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFK-ILSKKKFVLLLDDIWELVD-------------LDQVGLP---IPSRTS  274 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~-------------~~~l~~~---l~~~~~  274 (337)
                      .+.    ...       .. ........+.. .-..++.+|+||+++....             ...+...   +.....
T Consensus        86 ~l~----~~~-------~g-~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  153 (322)
T 3eie_A           86 DLV----SKW-------MG-ESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQ  153 (322)
T ss_dssp             HHH----TTT-------GG-GHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGTSCC
T ss_pred             HHh----hcc-------cc-hHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccccCC
Confidence            111    000       11 11222223322 2345678999999985421             1111111   111223


Q ss_pred             CCcEEEEeeCChhH-----HhhccCCceeecCCCCHHHHHHHHhHhhCCC
Q 045709          275 VSNKVVFTTREFGV-----CGQMEAHRSFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       275 g~s~IiiTtr~~~v-----~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      + ..||.||.....     ..  .....+.++..+.++-.++|..++...
T Consensus       154 ~-v~vi~atn~~~~ld~al~~--Rf~~~i~~~~p~~~~r~~il~~~~~~~  200 (322)
T 3eie_A          154 G-VLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDT  200 (322)
T ss_dssp             C-EEEEEEESCGGGSCHHHHH--HCCEEEECCCCCHHHHHHHHHHHHTTC
T ss_pred             c-eEEEEecCChhhCCHHHHc--ccCeEEEeCCCCHHHHHHHHHHHhccC
Confidence            4 566667765432     22  234577899999999999999988643

>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=98.52  E-value=1.2e-07  Score=85.67  Aligned_cols=165  Identities=8%  Similarity=0.071  Sum_probs=87.1

Q ss_pred             CccccchhhHHHHHHHH-hcCCCeEEEEEecCCCcHHHHHHHHHHhhccCC-CC--CcE--------------------E
Q 045709          144 PTVVGLQLTFDRVWRCL-MEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTP-NH--FDF--------------------V  199 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L-~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~~--f~~--------------------~  199 (337)
                      .+++|++..++.+.+++ ...+.+.+.|+|++|+||||+++.+++...... +.  ++.                    .
T Consensus        14 ~~~vg~~~~~~~l~~~~~~~~~~~~~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~   93 (354)
T 1sxj_E           14 NALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYH   93 (354)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECSSE
T ss_pred             HHhcCCHHHHHHHHHHHhhCCCCCeEEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeeecccce
Confidence            45899999999998888 555544499999999999999999988541111 10  000                    0


Q ss_pred             EEEEecCcc-CHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc--cccccCCCCCCCCCC
Q 045709          200 IWVVVSRDL-QLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD--LDQVGLPIPSRTSVS  276 (337)
Q Consensus       200 ~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~--~~~l~~~l~~~~~g~  276 (337)
                      +.+..+... .......+++..+.....      ..... .+. .+.+++-++|||++.....  ...+...+.....+ 
T Consensus        94 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~------~~~~~-~ls-~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~~~-  164 (354)
T 1sxj_E           94 LEITPSDMGNNDRIVIQELLKEVAQMEQ------VDFQD-SKD-GLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKN-  164 (354)
T ss_dssp             EEECCC----CCHHHHHHHHHHHTTTTC--------------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTT-
T ss_pred             EEecHhhcCCcchHHHHHHHHHHHHhcc------ccccc-ccc-ccCCCCeEEEEeCccccCHHHHHHHHHHHHhhcCC-
Confidence            111111000 000011222222211000      00000 000 0234677999999987421  22222222111235 


Q ss_pred             cEEEEeeCChh-HHhhc-cCCceeecCCCCHHHHHHHHhHhhC
Q 045709          277 NKVVFTTREFG-VCGQM-EAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       277 s~IiiTtr~~~-v~~~~-~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      +.+|++|.+.. +...+ +....+++++++.++....+.+.+.
T Consensus       165 ~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~  207 (354)
T 1sxj_E          165 IRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVT  207 (354)
T ss_dssp             EEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             CEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHH
Confidence            78888887632 22111 2236789999999999999998764

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.52  E-value=4e-07  Score=82.75  Aligned_cols=46  Identities=22%  Similarity=0.257  Sum_probs=36.7

Q ss_pred             CccccchhhHHH---HHHHHhcCC--CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDR---VWRCLMEEH--AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~---l~~~L~~~~--~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..|+|++..+..   +...+....  .+.+.|+|++|+|||+||+.+++..
T Consensus        44 ~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l   94 (368)
T 3uk6_A           44 QGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQAL   94 (368)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             hhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            468999988766   444444443  3589999999999999999999988

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.52  E-value=2.6e-07  Score=75.10  Aligned_cols=46  Identities=24%  Similarity=0.318  Sum_probs=41.5

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++||+.++..+.+.+.......+.|+|++|+|||+||+.+++..
T Consensus        22 ~~~~g~~~~~~~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           22 DPVIGRDTEIRRAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             chhhcchHHHHHHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            4589999999999999987767788999999999999999999877

>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=98.50  E-value=7.7e-07  Score=77.41  Aligned_cols=149  Identities=17%  Similarity=0.139  Sum_probs=80.5

Q ss_pred             CccccchhhHHHHHH-------HHh---cCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHH
Q 045709          144 PTVVGLQLTFDRVWR-------CLM---EEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKI  213 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~-------~L~---~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~  213 (337)
                      ..++|....++.+..       .+.   ......+.|+|++|+|||+||+.+++..   ...|   +.++.+...     
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~---~~~~---~~i~~~~~~-----  101 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES---NFPF---IKICSPDKM-----  101 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH---TCSE---EEEECGGGC-----
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHh---CCCE---EEEeCHHHh-----
Confidence            357888777666655       232   2356789999999999999999999876   2332   222222110     


Q ss_pred             HHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc-----------c-cccccCCCC---CCCCCCcE
Q 045709          214 QESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV-----------D-LDQVGLPIP---SRTSVSNK  278 (337)
Q Consensus       214 ~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-----------~-~~~l~~~l~---~~~~g~s~  278 (337)
                             .+. .   ...........+......+..+|+|||++...           . +..+...+.   ..... ..
T Consensus       102 -------~g~-~---~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~-~~  169 (272)
T 1d2n_A          102 -------IGF-S---ETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRK-LL  169 (272)
T ss_dssp             -------TTC-C---HHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCE-EE
T ss_pred             -------cCC-c---hHHHHHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCC-EE
Confidence                   000 0   00000111222233334668899999986530           0 111211111   12223 45


Q ss_pred             EEEeeCChhHHhh---ccC-CceeecCCCCH-HHHHHHHhHh
Q 045709          279 VVFTTREFGVCGQ---MEA-HRSFKVECLRY-DDAWKLFEQK  315 (337)
Q Consensus       279 IiiTtr~~~v~~~---~~~-~~~~~l~~L~~-~ea~~Lf~~~  315 (337)
                      ||.||........   .+. ...+.+++++. ++...++...
T Consensus       170 ii~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~  211 (272)
T 1d2n_A          170 IIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELL  211 (272)
T ss_dssp             EEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHH
T ss_pred             EEEecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhc
Confidence            6677776654332   111 35689999998 6666666553

>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=98.50  E-value=6.5e-07  Score=79.19  Aligned_cols=147  Identities=10%  Similarity=0.104  Sum_probs=90.5

Q ss_pred             cchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCC-CCCcEEEEEEecC-ccCHHHHHHHHHHHhCCCC
Q 045709          148 GLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTP-NHFDFVIWVVVSR-DLQLEKIQESIAKKIGLFN  225 (337)
Q Consensus       148 Gr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~  225 (337)
                      |.++.++.|.+.+.+++.+.+.++|++|+||||+|+.+.+...... .+.+ ..+++.+. ...+.. .+++...+....
T Consensus         1 g~~~~~~~L~~~i~~~~~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d-~~~l~~~~~~~~id~-ir~li~~~~~~p   78 (305)
T 2gno_A            1 GAKDQLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDD-IRTIKDFLNYSP   78 (305)
T ss_dssp             ---CHHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHH-HHHHHHHHTSCC
T ss_pred             ChHHHHHHHHHHHHCCCCcEEEEECCCCCCHHHHHHHHHHhCchhhccCCC-EEEEcCCcCCCCHHH-HHHHHHHHhhcc
Confidence            4456677888888777778999999999999999999987631111 2333 34454432 223222 233444443211


Q ss_pred             ccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCCh-hHHhhccCCceeecCC
Q 045709          226 ESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREF-GVCGQMEAHRSFKVEC  302 (337)
Q Consensus       226 ~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~-~v~~~~~~~~~~~l~~  302 (337)
                                        ..+++-++|+|+++...  ..+.+...+..-... +.+|++|.+. .+...+... .+++.+
T Consensus        79 ------------------~~~~~kvviIdead~lt~~a~naLLk~LEep~~~-t~fIl~t~~~~kl~~tI~SR-~~~f~~  138 (305)
T 2gno_A           79 ------------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEY-AVIVLNTRRWHYLLPTIKSR-VFRVVV  138 (305)
T ss_dssp             ------------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTT-EEEEEEESCGGGSCHHHHTT-SEEEEC
T ss_pred             ------------------ccCCceEEEeccHHHhCHHHHHHHHHHHhCCCCC-eEEEEEECChHhChHHHHce-eEeCCC
Confidence                              02456799999998652  233343333222234 7777776554 344444445 899999


Q ss_pred             CCHHHHHHHHhHhh
Q 045709          303 LRYDDAWKLFEQKV  316 (337)
Q Consensus       303 L~~~ea~~Lf~~~~  316 (337)
                      +++++..+.+.+.+
T Consensus       139 l~~~~i~~~L~~~~  152 (305)
T 2gno_A          139 NVPKEFRDLVKEKI  152 (305)
T ss_dssp             CCCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            99999999998876

>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=98.49  E-value=7.4e-07  Score=84.83  Aligned_cols=159  Identities=13%  Similarity=0.054  Sum_probs=91.5

Q ss_pred             CccccchhhHHHHHHHHhc-----------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          144 PTVVGLQLTFDRVWRCLME-----------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-----------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      .+++|++..++.|.+++..                 +..+.+.|+|++|+||||+|+.+++..   .  + .++.++++.
T Consensus        39 ~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l---~--~-~~i~in~s~  112 (516)
T 1sxj_A           39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL---G--Y-DILEQNASD  112 (516)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT---T--C-EEEEECTTS
T ss_pred             HHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHc---C--C-CEEEEeCCC
Confidence            4689999999999999865                 134789999999999999999999876   1  2 234455554


Q ss_pred             ccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHH--hcCCcEEEEEecCCCccc-----cccccCCCCCCCCCCcEE
Q 045709          207 DLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKI--LSKKKFVLLLDDIWELVD-----LDQVGLPIPSRTSVSNKV  279 (337)
Q Consensus       207 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~--l~~k~~LlVlDdv~~~~~-----~~~l~~~l~~~~~g~s~I  279 (337)
                      ..... +....+.......      +...........  ..+++.+|+||+++....     +..+...+..  .+ ..|
T Consensus       113 ~~~~~-~~~~~i~~~~~~~------~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~--~~-~~i  182 (516)
T 1sxj_A          113 VRSKT-LLNAGVKNALDNM------SVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TS-TPL  182 (516)
T ss_dssp             CCCHH-HHHHTGGGGTTBC------CSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CS-SCE
T ss_pred             cchHH-HHHHHHHHHhccc------cHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHh--cC-CCE
Confidence            43332 2222222111100      000000000001  135688999999976522     1222222211  22 456


Q ss_pred             EEeeCChh---HHhhccCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          280 VFTTREFG---VCGQMEAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       280 iiTtr~~~---v~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      |+++....   +.........+.+++++.++..+++...+..
T Consensus       183 Ili~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~  224 (516)
T 1sxj_A          183 ILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIR  224 (516)
T ss_dssp             EEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             EEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHH
Confidence            66555432   2222223457899999999999999887643

>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=98.46  E-value=7.4e-07  Score=79.56  Aligned_cols=137  Identities=10%  Similarity=0.057  Sum_probs=83.0

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.+..+..+.+++.... .+++.+.|++|+|||++|+.+++..   .   ...+.++.+.. .... +...+....
T Consensus        26 ~~ivg~~~~~~~l~~~l~~~~~~~~~L~~G~~G~GKT~la~~la~~l---~---~~~~~i~~~~~-~~~~-i~~~~~~~~   97 (324)
T 3u61_B           26 DECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDV---N---ADMMFVNGSDC-KIDF-VRGPLTNFA   97 (324)
T ss_dssp             TTSCCCHHHHHHHHHHHHTTCCCSEEEECSSTTSSHHHHHHHHHHHT---T---EEEEEEETTTC-CHHH-HHTHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHcCCCCeEEEeeCcCCCCHHHHHHHHHHHh---C---CCEEEEccccc-CHHH-HHHHHHHHH
Confidence            568999999999999998654 4577778889999999999998876   1   22344554332 1221 222111110


Q ss_pred             CCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc---ccccccCCCCCCCCCCcEEEEeeCChh-----HHhhccC
Q 045709          223 LFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV---DLDQVGLPIPSRTSVSNKVVFTTREFG-----VCGQMEA  294 (337)
Q Consensus       223 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~---~~~~l~~~l~~~~~g~s~IiiTtr~~~-----v~~~~~~  294 (337)
                      ...                 ...+++.+|+|||++...   ....+...+.....+ ..+|+||....     +.+.   
T Consensus        98 ~~~-----------------~~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~-~~iI~~~n~~~~l~~~l~sR---  156 (324)
T 3u61_B           98 SAA-----------------SFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSN-CSIIITANNIDGIIKPLQSR---  156 (324)
T ss_dssp             HBC-----------------CCSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGG-CEEEEEESSGGGSCTTHHHH---
T ss_pred             hhc-----------------ccCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCC-cEEEEEeCCccccCHHHHhh---
Confidence            000                 012367899999998754   223332222211234 68888887643     2222   


Q ss_pred             CceeecCCCCHHHHH
Q 045709          295 HRSFKVECLRYDDAW  309 (337)
Q Consensus       295 ~~~~~l~~L~~~ea~  309 (337)
                      ...+.+++++.++-.
T Consensus       157 ~~~i~~~~~~~~e~~  171 (324)
T 3u61_B          157 CRVITFGQPTDEDKI  171 (324)
T ss_dssp             SEEEECCCCCHHHHH
T ss_pred             CcEEEeCCCCHHHHH
Confidence            247899999988743

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.45  E-value=1.2e-06  Score=82.29  Aligned_cols=149  Identities=15%  Similarity=0.156  Sum_probs=82.5

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCC--CCC-c-EEEEEEecCccCHHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTP--NHF-D-FVIWVVVSRDLQLEKIQESIAK  219 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--~~f-~-~~~wv~~~~~~~~~~~~~~i~~  219 (337)
                      ..++||+.++..+...|......-+.|+|++|+|||++|+.++.......  ... . ..+.++++            ..
T Consensus       180 d~iiGr~~~i~~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~------------~~  247 (468)
T 3pxg_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG------------TK  247 (468)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----------------
T ss_pred             CCccCcHHHHHHHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC------------cc
Confidence            35899999999999999776666778999999999999999998862111  000 1 12222222            00


Q ss_pred             HhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHHh-------hc
Q 045709          220 KIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG-------QM  292 (337)
Q Consensus       220 ~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~-------~~  292 (337)
                      ..+.     .......   .+...-..++.+|++|  -.......+...+.   .|..++|.+|.......       ..
T Consensus       248 ~~g~-----~e~~~~~---~~~~~~~~~~~iLfiD--~~~~a~~~L~~~L~---~g~v~vI~at~~~e~~~~~~~~~al~  314 (468)
T 3pxg_A          248 YRGE-----FEDRLKK---VMDEIRQAGNIILFID--AAIDASNILKPSLA---RGELQCIGATTLDEYRKYIEKDAALE  314 (468)
T ss_dssp             ----------CTTHHH---HHHHHHTCCCCEEEEC--C--------CCCTT---SSSCEEEEECCTTTTHHHHTTCSHHH
T ss_pred             ccch-----HHHHHHH---HHHHHHhcCCeEEEEe--CchhHHHHHHHhhc---CCCEEEEecCCHHHHHHHhhcCHHHH
Confidence            0000     0111112   2222223567899999  22222222333332   23246666555443111       01


Q ss_pred             cCCceeecCCCCHHHHHHHHhHhhC
Q 045709          293 EAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       293 ~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      .....+.+++.+.++..+++...+.
T Consensus       315 ~Rf~~i~v~~p~~e~~~~iL~~~~~  339 (468)
T 3pxg_A          315 RRFQPIQVDQPSVDESIQILQGLRD  339 (468)
T ss_dssp             HSEEEEECCCCCHHHHHHHHHHTTT
T ss_pred             HhCccceeCCCCHHHHHHHHHHHHH
Confidence            1224689999999999999987653

>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=98.43  E-value=3e-06  Score=79.84  Aligned_cols=166  Identities=12%  Similarity=0.137  Sum_probs=96.6

Q ss_pred             CccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH
Q 045709          144 PTVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL  210 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~  210 (337)
                      ..++|.+..++.|.+++..             ....-+.|+|++|+|||+||+.+++..   ...   .+.++++     
T Consensus       204 ~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~---~~~---fv~vn~~-----  272 (489)
T 3hu3_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAF---FFLINGP-----  272 (489)
T ss_dssp             GGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHC---SSE---EEEEEHH-----
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHh---CCC---EEEEEch-----
Confidence            3579999999998887642             345678999999999999999998876   222   2333321     


Q ss_pred             HHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc-------------cccccCCCC--CCCCC
Q 045709          211 EKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD-------------LDQVGLPIP--SRTSV  275 (337)
Q Consensus       211 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-------------~~~l~~~l~--~~~~g  275 (337)
                       .+.    ..+       ...........+.....+++.+|+||+++....             ...+...+.  ....+
T Consensus       273 -~l~----~~~-------~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~  340 (489)
T 3hu3_A          273 -EIM----SKL-------AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH  340 (489)
T ss_dssp             -HHH----TSC-------TTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSC
T ss_pred             -Hhh----hhh-------cchhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCc
Confidence             111    100       111112223334444456788999999953210             111111111  11223


Q ss_pred             CcEEEEeeCChhH-Hhhc----cCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHHH
Q 045709          276 SNKVVFTTREFGV-CGQM----EAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAET  333 (337)
Q Consensus       276 ~s~IiiTtr~~~v-~~~~----~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~  333 (337)
                       ..||.||..... ...+    .....+.++..+.++-.++|..++..-....+..+..++..
T Consensus       341 -v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~~~l~~la~~  402 (489)
T 3hu3_A          341 -VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANE  402 (489)
T ss_dssp             -EEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTTCCHHHHHHT
T ss_pred             -eEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcchhhHHHHHHH
Confidence             466667765432 1111    12346899999999999999988754443344556666653

>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=98.42  E-value=1.1e-06  Score=79.58  Aligned_cols=149  Identities=17%  Similarity=0.190  Sum_probs=86.8

Q ss_pred             CccccchhhHHHHHHHHhc------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCLME------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|.+..++.|.+.+..            ...+-+.|+|++|+|||+||+.+++..   ...|   +.++.+      
T Consensus        51 ~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~---~~~~---~~v~~~------  118 (355)
T 2qp9_X           51 EDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEA---NSTF---FSVSSS------  118 (355)
T ss_dssp             GGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHH---TCEE---EEEEHH------
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh---CCCE---EEeeHH------
Confidence            4589999999998887631            123568899999999999999999987   2322   222221      


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHH-HHhcCCcEEEEEecCCCccc-------------cccccCCC---CCCCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIF-KILSKKKFVLLLDDIWELVD-------------LDQVGLPI---PSRTS  274 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~-~~l~~k~~LlVlDdv~~~~~-------------~~~l~~~l---~~~~~  274 (337)
                      .+.    ...       ..... .....+. ..-..++.+|+||+++....             ...+...+   .....
T Consensus       119 ~l~----~~~-------~g~~~-~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~~~  186 (355)
T 2qp9_X          119 DLV----SKW-------MGESE-KLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQ  186 (355)
T ss_dssp             HHH----SCC----------CH-HHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC---C
T ss_pred             HHh----hhh-------cchHH-HHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccccCC
Confidence            111    100       11111 2222222 22345789999999985421             11121111   11123


Q ss_pred             CCcEEEEeeCChh-----HHhhccCCceeecCCCCHHHHHHHHhHhhCCC
Q 045709          275 VSNKVVFTTREFG-----VCGQMEAHRSFKVECLRYDDAWKLFEQKVGAD  319 (337)
Q Consensus       275 g~s~IiiTtr~~~-----v~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~  319 (337)
                      + ..||.||....     +..  .....+.++..+.++-.++|..++...
T Consensus       187 ~-v~vI~atn~~~~ld~al~r--Rf~~~i~i~~P~~~~r~~il~~~l~~~  233 (355)
T 2qp9_X          187 G-VLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDT  233 (355)
T ss_dssp             C-EEEEEEESCGGGSCHHHHH--TCCEEEECCCCCHHHHHHHHHHHHTTS
T ss_pred             C-eEEEeecCCcccCCHHHHc--ccCEEEEeCCcCHHHHHHHHHHHHhhC
Confidence            3 55666676542     222  234577899999999999999887543

>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=98.42  E-value=7e-07  Score=90.12  Aligned_cols=153  Identities=14%  Similarity=0.209  Sum_probs=84.7

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCC--CC--CcEEEEEEecCccCHHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTP--NH--FDFVIWVVVSRDLQLEKIQESIAK  219 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--~~--f~~~~wv~~~~~~~~~~~~~~i~~  219 (337)
                      ..++||++++..+...|.....+.+.++|.+|+|||+||+.+++......  ..  -..+++++++.-.          .
T Consensus       170 d~viGr~~~i~~l~~~l~~~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~l~----------~  239 (854)
T 1qvr_A          170 DPVIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLL----------A  239 (854)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC---------------
T ss_pred             cccCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHHhh----------c
Confidence            45899999999999999876666788999999999999999998762111  11  1233444332110          0


Q ss_pred             HhCCCCccccCCCHHHHHHHHHHHhc--CCcEEEEEecCCCccc-------cc---cccCCCCCCCCCCcEEEEeeCChh
Q 045709          220 KIGLFNESWKNKSMQEKAQEIFKILS--KKKFVLLLDDIWELVD-------LD---QVGLPIPSRTSVSNKVVFTTREFG  287 (337)
Q Consensus       220 ~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~-------~~---~l~~~l~~~~~g~s~IiiTtr~~~  287 (337)
                        +..    ...........+...+.  +++.+|+||+++....       ++   .+...+..  .+ ..+|.+|....
T Consensus       240 --g~~----~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~~L~~~l~~--~~-i~~I~at~~~~  310 (854)
T 1qvr_A          240 --GAK----YRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GE-LRLIGATTLDE  310 (854)
T ss_dssp             ------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHT--TC-CCEEEEECHHH
T ss_pred             --cCc----cchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHHHHHHHHhC--CC-eEEEEecCchH
Confidence              000    01122333333333332  3678999999976421       11   11111211  12 45666555433


Q ss_pred             H-----Hhhc-cCCceeecCCCCHHHHHHHHhHh
Q 045709          288 V-----CGQM-EAHRSFKVECLRYDDAWKLFEQK  315 (337)
Q Consensus       288 v-----~~~~-~~~~~~~l~~L~~~ea~~Lf~~~  315 (337)
                      .     ...+ .....+.+++++.++..+++...
T Consensus       311 ~~~~~~d~aL~rRf~~i~l~~p~~~e~~~iL~~~  344 (854)
T 1qvr_A          311 YREIEKDPALERRFQPVYVDEPTVEETISILRGL  344 (854)
T ss_dssp             HHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHH
T ss_pred             HhhhccCHHHHhCCceEEeCCCCHHHHHHHHHhh
Confidence            2     1111 12245899999999999999754

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.40  E-value=3.3e-06  Score=76.80  Aligned_cols=165  Identities=16%  Similarity=0.200  Sum_probs=96.3

Q ss_pred             CccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH
Q 045709          144 PTVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL  210 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~  210 (337)
                      .++.|-++.++.|.+.+.-             ...+-+.++|++|+|||.||+.+++..   ..+|   +.++.+.-.+ 
T Consensus       148 ~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~---~~~f---~~v~~s~l~s-  220 (405)
T 4b4t_J          148 DMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHT---DCKF---IRVSGAELVQ-  220 (405)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHH---TCEE---EEEEGGGGSC-
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhh---CCCc---eEEEhHHhhc-
Confidence            3467888888887766531             245678899999999999999999988   3333   2333322110 


Q ss_pred             HHHHHHHHHHhCCCCccccCCCHHHHHHHHHH-HhcCCcEEEEEecCCCccc----------------cccccCCCC--C
Q 045709          211 EKIQESIAKKIGLFNESWKNKSMQEKAQEIFK-ILSKKKFVLLLDDIWELVD----------------LDQVGLPIP--S  271 (337)
Q Consensus       211 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~----------------~~~l~~~l~--~  271 (337)
                                      .+.+.+ +...+.+.. .-...+++|+||+++....                ...+...+.  .
T Consensus       221 ----------------k~vGes-e~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  283 (405)
T 4b4t_J          221 ----------------KYIGEG-SRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFE  283 (405)
T ss_dssp             ----------------SSTTHH-HHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTT
T ss_pred             ----------------cccchH-HHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccC
Confidence                            001111 122222222 2246789999999985410                111111111  1


Q ss_pred             CCCCCcEEEEeeCChhHHh-h-c---cCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHHH
Q 045709          272 RTSVSNKVVFTTREFGVCG-Q-M---EAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAET  333 (337)
Q Consensus       272 ~~~g~s~IiiTtr~~~v~~-~-~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~  333 (337)
                      ...+ -.||.||...+... . .   .-+..+.++.-+.++-.++|+.+...-....+-++..+|+.
T Consensus       284 ~~~~-V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvdl~~lA~~  349 (405)
T 4b4t_J          284 TSKN-IKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGINLRKVAEK  349 (405)
T ss_dssp             CCCC-EEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCCHHHHHHH
T ss_pred             CCCC-eEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHH
Confidence            1223 45666776544321 1 1   23568899999999999999888755443445567777754

>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=98.40  E-value=1.5e-06  Score=78.16  Aligned_cols=147  Identities=15%  Similarity=0.201  Sum_probs=86.6

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCc-EEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFD-FVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      ..++|.+..++.|...+..++.+.+.++|++|+||||+|+.+++...  ...+. .+..++.+.......+         
T Consensus        25 ~~~~g~~~~~~~L~~~i~~g~~~~~ll~Gp~G~GKTtla~~la~~l~--~~~~~~~~~~~~~~~~~~~~~i---------   93 (340)
T 1sxj_C           25 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY--GKNYSNMVLELNASDDRGIDVV---------   93 (340)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHH--TTSHHHHEEEECTTSCCSHHHH---------
T ss_pred             HHhcCcHHHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHc--CCCccceEEEEcCcccccHHHH---------
Confidence            34689998999998888776655589999999999999999998862  11211 1222222221122111         


Q ss_pred             CCCccccCCCHHHHHHHHHHHh------cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCChh-HHhh-c
Q 045709          223 LFNESWKNKSMQEKAQEIFKIL------SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREFG-VCGQ-M  292 (337)
Q Consensus       223 ~~~~~~~~~~~~~~~~~l~~~l------~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~~-v~~~-~  292 (337)
                                    ...+....      .+..-++|+|+++...  ..+.+...+...... +.+|++|.... +... .
T Consensus        94 --------------r~~i~~~~~~~~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~-~~~il~~n~~~~i~~~i~  158 (340)
T 1sxj_C           94 --------------RNQIKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKN-TRFCVLANYAHKLTPALL  158 (340)
T ss_dssp             --------------HTHHHHHHHBCCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTT-EEEEEEESCGGGSCHHHH
T ss_pred             --------------HHHHHHHHhhcccCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCC-eEEEEEecCccccchhHH
Confidence                          11111111      2346789999997542  222222222111234 67777775432 1111 1


Q ss_pred             cCCceeecCCCCHHHHHHHHhHhh
Q 045709          293 EAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       293 ~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      +....+.+.+++.++..+.+...+
T Consensus       159 sR~~~~~~~~l~~~~~~~~l~~~~  182 (340)
T 1sxj_C          159 SQCTRFRFQPLPQEAIERRIANVL  182 (340)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHH
T ss_pred             hhceeEeccCCCHHHHHHHHHHHH
Confidence            223478899999999988888766

>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=98.39  E-value=4.1e-06  Score=74.54  Aligned_cols=144  Identities=13%  Similarity=0.090  Sum_probs=84.8

Q ss_pred             CccccchhhHHHHHHHHhc-----CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLME-----EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIA  218 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  218 (337)
                      ..++|++..+..+..++..     .....+.|+|++|+|||+||+.+++..   ...   ..+++++.......+..   
T Consensus        12 ~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~---~~~---~~~~~~~~~~~~~~l~~---   82 (324)
T 1hqc_A           12 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL---GVN---LRVTSGPAIEKPGDLAA---   82 (324)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHH---TCC---EEEECTTTCCSHHHHHH---
T ss_pred             HHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHh---CCC---EEEEeccccCChHHHHH---
Confidence            4689999999988887752     244678899999999999999999877   222   23444333222222111   


Q ss_pred             HHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc--cccccCCCC---------C---------CCCCCcE
Q 045709          219 KKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD--LDQVGLPIP---------S---------RTSVSNK  278 (337)
Q Consensus       219 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~--~~~l~~~l~---------~---------~~~g~s~  278 (337)
                       .+                   ... ..+..+|+|||++....  ...+...+.         .         ...+ ..
T Consensus        83 -~l-------------------~~~-~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~-~~  140 (324)
T 1hqc_A           83 -IL-------------------ANS-LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPR-FT  140 (324)
T ss_dssp             -HH-------------------TTT-CCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCC-CE
T ss_pred             -HH-------------------HHh-ccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCC-EE
Confidence             11                   110 13456888898876421  111110000         0         0023 46


Q ss_pred             EEEeeCChh-HHhhc-c-CCceeecCCCCHHHHHHHHhHhhCC
Q 045709          279 VVFTTREFG-VCGQM-E-AHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       279 IiiTtr~~~-v~~~~-~-~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      +|.||.... +...+ . ....+.+++++.++...++...+..
T Consensus       141 ~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~  183 (324)
T 1hqc_A          141 LIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARL  183 (324)
T ss_dssp             EEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHT
T ss_pred             EEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHh
Confidence            666665432 21111 1 1257899999999999999887743

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.37  E-value=2e-06  Score=77.18  Aligned_cols=142  Identities=13%  Similarity=0.111  Sum_probs=83.6

Q ss_pred             CccccchhhHHHHHHHHhc-----CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLME-----EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIA  218 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  218 (337)
                      ..++|++..++.+..++..     .....+.|+|++|+|||+||+.+++..   ...|   +.++++.......+     
T Consensus        29 ~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~---~~~~---~~~~~~~~~~~~~~-----   97 (338)
T 3pfi_A           29 DGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEM---SANI---KTTAAPMIEKSGDL-----   97 (338)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHT---TCCE---EEEEGGGCCSHHHH-----
T ss_pred             HHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHh---CCCe---EEecchhccchhHH-----
Confidence            4589999999998888853     345678999999999999999998876   3333   22333221111111     


Q ss_pred             HHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc--ccccccCCC------------------CCCCCCCcE
Q 045709          219 KKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV--DLDQVGLPI------------------PSRTSVSNK  278 (337)
Q Consensus       219 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~l------------------~~~~~g~s~  278 (337)
                                        ...+..  ..+..+|+||+++...  ....+...+                  ....++ ..
T Consensus        98 ------------------~~~~~~--~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~  156 (338)
T 3pfi_A           98 ------------------AAILTN--LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPK-FT  156 (338)
T ss_dssp             ------------------HHHHHT--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCC-CE
T ss_pred             ------------------HHHHHh--ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCC-eE
Confidence                              111111  2356788889887541  111111000                  001112 45


Q ss_pred             EEEeeCChhH-Hhh-cc-CCceeecCCCCHHHHHHHHhHhhC
Q 045709          279 VVFTTREFGV-CGQ-ME-AHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       279 IiiTtr~~~v-~~~-~~-~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      +|.+|..... ... .. ....+.+++++.++...++.+.+.
T Consensus       157 ~i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~  198 (338)
T 3pfi_A          157 LIGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAAL  198 (338)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             EEEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHH
Confidence            6666665332 111 11 235789999999999999988764

>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=98.37  E-value=5.5e-06  Score=77.26  Aligned_cols=152  Identities=14%  Similarity=0.146  Sum_probs=86.1

Q ss_pred             CccccchhhHHHHHHHHh------------cCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCLM------------EEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|.+..++.|.+.+.            ....+.+.|+|++|+|||+||+.+++..   ..  .  .++.++..    
T Consensus       134 ~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~---~~--~--~~~~v~~~----  202 (444)
T 2zan_A          134 SDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEA---NN--S--TFFSISSS----  202 (444)
T ss_dssp             GGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHC---CS--S--EEEEECCC----
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHc---CC--C--CEEEEeHH----
Confidence            458999999998888763            1235678999999999999999999876   11  1  12233222    


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc-------------cccccCCCCC---CCCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD-------------LDQVGLPIPS---RTSV  275 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-------------~~~l~~~l~~---~~~g  275 (337)
                      .+....   .+.     .........   ...-...+.+|+||+++....             ...+...+..   ...+
T Consensus       203 ~l~~~~---~g~-----~~~~~~~~f---~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~  271 (444)
T 2zan_A          203 DLVSKW---LGE-----SEKLVKNLF---QLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDNDG  271 (444)
T ss_dssp             -----------------CCCTHHHHH---HHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCCCSS
T ss_pred             HHHhhh---cch-----HHHHHHHHH---HHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccCCCC
Confidence            111110   111     111122222   222235788999999986410             1122222211   1233


Q ss_pred             CcEEEEeeCChhHH-hh-c-cCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          276 SNKVVFTTREFGVC-GQ-M-EAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       276 ~s~IiiTtr~~~v~-~~-~-~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                       ..||.||...... .. . .....+.++..+.++-..+|..++..
T Consensus       272 -v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~  316 (444)
T 2zan_A          272 -ILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGS  316 (444)
T ss_dssp             -CEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             -EEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhc
Confidence             5666677654321 11 1 12356788888999999999888754

>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=98.36  E-value=4.4e-06  Score=75.68  Aligned_cols=149  Identities=13%  Similarity=0.121  Sum_probs=85.6

Q ss_pred             CccccchhhHHHHHHHHhc------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCLME------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|.+..++.|.+.+..            ...+.+.|+|++|+|||+||+.+++..   ...   .+.++++.-..  
T Consensus        84 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~---~~~---~~~i~~~~l~~--  155 (357)
T 3d8b_A           84 EDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQS---GAT---FFSISASSLTS--  155 (357)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHHHHHT---TCE---EEEEEGGGGCC--
T ss_pred             HHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHHHHHc---CCe---EEEEehHHhhc--
Confidence            4589999999998887642            345688999999999999999998876   222   33444432110  


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHH-HhcCCcEEEEEecCCCccc-------------cccccCCC---C-CCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFK-ILSKKKFVLLLDDIWELVD-------------LDQVGLPI---P-SRT  273 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~-------------~~~l~~~l---~-~~~  273 (337)
                                  .   +.. ........+.. .-..++.+|+||+++....             +..+...+   . ...
T Consensus       156 ------------~---~~g-~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~  219 (357)
T 3d8b_A          156 ------------K---WVG-EGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSE  219 (357)
T ss_dssp             ------------S---STT-HHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CC
T ss_pred             ------------c---ccc-hHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCC
Confidence                        0   000 11122222222 2235678999999964310             11221111   1 111


Q ss_pred             CCCcEEEEeeCChh-HHhhc--cCCceeecCCCCHHHHHHHHhHhhC
Q 045709          274 SVSNKVVFTTREFG-VCGQM--EAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       274 ~g~s~IiiTtr~~~-v~~~~--~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      .+ ..||.||.... +...+  .....+.++..+.++..+++...+.
T Consensus       220 ~~-v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~  265 (357)
T 3d8b_A          220 DR-ILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMS  265 (357)
T ss_dssp             CC-EEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHH
T ss_pred             CC-EEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHh
Confidence            23 45665665432 21111  1234678999999999999887763

>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=98.35  E-value=1.4e-06  Score=75.54  Aligned_cols=150  Identities=14%  Similarity=0.092  Sum_probs=81.6

Q ss_pred             CccccchhhHHHHHHHHhc------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCLME------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|.+..++.+.+.+..            ...+-+.|+|++|+|||+||+.+++..   ...|-.   ++.+.-.+  
T Consensus        11 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~---~~~~~~---v~~~~~~~--   82 (268)
T 2r62_A           11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA---HVPFFS---MGGSSFIE--   82 (268)
T ss_dssp             TTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHH---TCCCCC---CCSCTTTT--
T ss_pred             HHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHh---CCCEEE---echHHHHH--
Confidence            4589998888877765531            123447799999999999999999987   223211   11111000  


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc-----------------ccccccCCCCC---
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV-----------------DLDQVGLPIPS---  271 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-----------------~~~~l~~~l~~---  271 (337)
                              .+...    .......   .+......++.+|+|||++...                 .+..+...+..   
T Consensus        83 --------~~~~~----~~~~~~~---~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  147 (268)
T 2r62_A           83 --------MFVGL----GASRVRD---LFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGS  147 (268)
T ss_dssp             --------SCSSS----CSSSSST---THHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSC
T ss_pred             --------hhcch----HHHHHHH---HHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCccc
Confidence                    00000    0011111   1222223467899999996531                 12223222211   


Q ss_pred             CCCCCcEEEEeeCChhHHh-h-cc---CCceeecCCCCHHHHHHHHhHhhC
Q 045709          272 RTSVSNKVVFTTREFGVCG-Q-ME---AHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       272 ~~~g~s~IiiTtr~~~v~~-~-~~---~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      .... ..||.||....... . ..   ....+.+++.+.++-.+++...+.
T Consensus       148 ~~~~-v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~  197 (268)
T 2r62_A          148 ENAP-VIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIK  197 (268)
T ss_dssp             SCSC-CEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTS
T ss_pred             CCCC-EEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHh
Confidence            1122 35666766543211 1 11   235678899999999999887763

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.34  E-value=3.8e-06  Score=77.53  Aligned_cols=164  Identities=15%  Similarity=0.205  Sum_probs=94.2

Q ss_pred             CccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH
Q 045709          144 PTVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL  210 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~  210 (337)
                      .++.|-++.++.|.+.+.-             ..++-|.++|++|+|||+||+.+++..   ..+|   +.++.+.-.+ 
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~---~~~~---~~v~~s~l~s-  253 (437)
T 4b4t_L          181 DGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATI---GANF---IFSPASGIVD-  253 (437)
T ss_dssp             GGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH---TCEE---EEEEGGGTCC-
T ss_pred             hHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHh---CCCE---EEEehhhhcc-
Confidence            3467888888887766531             245788999999999999999999988   3332   2333332110 


Q ss_pred             HHHHHHHHHHhCCCCccccCCCHHHHHHHHH-HHhcCCcEEEEEecCCCccc----------------cccccCCCC--C
Q 045709          211 EKIQESIAKKIGLFNESWKNKSMQEKAQEIF-KILSKKKFVLLLDDIWELVD----------------LDQVGLPIP--S  271 (337)
Q Consensus       211 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~-~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~l~--~  271 (337)
                                      .+...+ ......+. ..-...+++|++|+++....                +..+...+.  .
T Consensus       254 ----------------k~~Ges-e~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  316 (437)
T 4b4t_L          254 ----------------KYIGES-ARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFD  316 (437)
T ss_dssp             ----------------SSSSHH-HHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSS
T ss_pred             ----------------ccchHH-HHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhccc
Confidence                            001111 12222222 23346789999999985310                111111111  1


Q ss_pred             CCCCCcEEEEeeCChhHHhh--ccC---CceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHH
Q 045709          272 RTSVSNKVVFTTREFGVCGQ--MEA---HRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAE  332 (337)
Q Consensus       272 ~~~g~s~IiiTtr~~~v~~~--~~~---~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~  332 (337)
                      ...+ ..||.||...+....  +..   ...+.++.-+.++-.++|+.++..-....+-++..+|+
T Consensus       317 ~~~~-vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~dl~~lA~  381 (437)
T 4b4t_L          317 NLGQ-TKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDFEAAVK  381 (437)
T ss_dssp             CTTS-SEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCCHHHHHH
T ss_pred             CCCC-eEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccCHHHHHH
Confidence            1223 567777765543221  112   35688888888888889987764433233456766664

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.34  E-value=5.9e-06  Score=75.73  Aligned_cols=151  Identities=12%  Similarity=0.043  Sum_probs=84.0

Q ss_pred             CccccchhhHHHHHHHHhc------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCLME------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|.+..++.|..++..            ...+.+.|+|.+|+|||+||+.+++..   ...   .+.++++.-..  
T Consensus       115 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~---~~~---~~~v~~~~l~~--  186 (389)
T 3vfd_A          115 DDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAES---NAT---FFNISAASLTS--  186 (389)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHT---TCE---EEEECSCCC----
T ss_pred             HHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhh---cCc---EEEeeHHHhhc--
Confidence            4589999999999887732            235689999999999999999998876   222   23333322110  


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc-------------cccccCCC---CC-CCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD-------------LDQVGLPI---PS-RTS  274 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-------------~~~l~~~l---~~-~~~  274 (337)
                      ..               ...........+...-...+.+|+||+++....             ...+...+   .. ...
T Consensus       187 ~~---------------~g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  251 (389)
T 3vfd_A          187 KY---------------VGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDD  251 (389)
T ss_dssp             --------------------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----
T ss_pred             cc---------------cchHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCC
Confidence            00               011111112222222234668999999975410             01111101   11 112


Q ss_pred             CCcEEEEeeCChhHH-hh-c-cCCceeecCCCCHHHHHHHHhHhhCC
Q 045709          275 VSNKVVFTTREFGVC-GQ-M-EAHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       275 g~s~IiiTtr~~~v~-~~-~-~~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      . ..||.||...... .. . .....+.++..+.++..+++...+..
T Consensus       252 ~-v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~  297 (389)
T 3vfd_A          252 R-VLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCK  297 (389)
T ss_dssp             C-EEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             C-EEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHh
Confidence            2 4555566543221 11 1 12346889999999999999888754

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.33  E-value=9.8e-06  Score=71.21  Aligned_cols=147  Identities=12%  Similarity=0.086  Sum_probs=85.0

Q ss_pred             CccccchhhHHHHHHHHhc------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCLME------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|.+..++.|.+.+..            ...+.+.|+|++|+|||+||+.+++..   ...   .+.++++.-..  
T Consensus        21 ~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~---~~~---~~~i~~~~l~~--   92 (297)
T 3b9p_A           21 TDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATEC---SAT---FLNISAASLTS--   92 (297)
T ss_dssp             GGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHT---TCE---EEEEESTTTSS--
T ss_pred             HHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHh---CCC---eEEeeHHHHhh--
Confidence            4589999999998887632            235688999999999999999999876   222   22333322110  


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHH-HhcCCcEEEEEecCCCcccc-------------cccc---CCCCCC--
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFK-ILSKKKFVLLLDDIWELVDL-------------DQVG---LPIPSR--  272 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~-------------~~l~---~~l~~~--  272 (337)
                                  .    ...........+.. ....++.+|+||+++....-             ..+.   ..++..  
T Consensus        93 ------------~----~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  156 (297)
T 3b9p_A           93 ------------K----YVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPD  156 (297)
T ss_dssp             ------------S----SCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC----
T ss_pred             ------------c----ccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCC
Confidence                        0    01112223333222 33457789999999754210             0110   111111  


Q ss_pred             CCCCcEEEEeeCChh-----HHhhccCCceeecCCCCHHHHHHHHhHhhC
Q 045709          273 TSVSNKVVFTTREFG-----VCGQMEAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       273 ~~g~s~IiiTtr~~~-----v~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      ..+ ..||.||....     +...  ....+.++..+.++...++...+.
T Consensus       157 ~~~-v~vi~~tn~~~~l~~~l~~R--~~~~i~~~~p~~~~r~~il~~~~~  203 (297)
T 3b9p_A          157 GDR-IVVLAATNRPQELDEAALRR--FTKRVYVSLPDEQTRELLLNRLLQ  203 (297)
T ss_dssp             --C-EEEEEEESCGGGBCHHHHHH--CCEEEECCCCCHHHHHHHHHHHHG
T ss_pred             CCc-EEEEeecCChhhCCHHHHhh--CCeEEEeCCcCHHHHHHHHHHHHH
Confidence            123 45666776543     2222  235677888888888888877653

>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=98.32  E-value=8.9e-06  Score=81.08  Aligned_cols=154  Identities=13%  Similarity=0.213  Sum_probs=91.1

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCC---CcEEEEE-EecCccCHHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH---FDFVIWV-VVSRDLQLEKIQESIAK  219 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~---f~~~~wv-~~~~~~~~~~~~~~i~~  219 (337)
                      ..++||+.++..+.+.|.......+.|+|.+|+|||++|+.+++......-.   ....+|. +.+.      +      
T Consensus       186 d~~iGr~~~i~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~------l------  253 (758)
T 1r6b_X          186 DPLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGS------L------  253 (758)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC--------------
T ss_pred             CCccCCHHHHHHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHH------H------
Confidence            4589999999999999987777778999999999999999998876211111   1222221 1111      0      


Q ss_pred             HhCCCCccccCCCHHHHHHHHHHHhc-CCcEEEEEecCCCcc--------c---cccccCCCCCCCCCCcEEEEeeCChh
Q 045709          220 KIGLFNESWKNKSMQEKAQEIFKILS-KKKFVLLLDDIWELV--------D---LDQVGLPIPSRTSVSNKVVFTTREFG  287 (337)
Q Consensus       220 ~l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~~--------~---~~~l~~~l~~~~~g~s~IiiTtr~~~  287 (337)
                       +...  . .....+.....+...+. .++.+|+|||++...        .   ...+...+. . .. ..+|.+|....
T Consensus       254 -~~~~--~-~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~-~-~~-~~~I~at~~~~  326 (758)
T 1r6b_X          254 -LAGT--K-YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-S-GK-IRVIGSTTYQE  326 (758)
T ss_dssp             --CCC--C-CSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS-S-CC-CEEEEEECHHH
T ss_pred             -hccc--c-ccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHh-C-CC-eEEEEEeCchH
Confidence             0000  0 11233444444444443 457899999998541        1   112223232 2 23 56776666443


Q ss_pred             HHhhc-------cCCceeecCCCCHHHHHHHHhHhh
Q 045709          288 VCGQM-------EAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       288 v~~~~-------~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ....+       .....+.+++.+.++..+++....
T Consensus       327 ~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          327 FSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             HHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HhhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHH
Confidence            22111       111368899999999988887654

>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=98.31  E-value=7.4e-06  Score=73.44  Aligned_cols=157  Identities=10%  Similarity=0.058  Sum_probs=84.5

Q ss_pred             hhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCC-----
Q 045709          150 QLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGL-----  223 (337)
Q Consensus       150 ~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~-----  223 (337)
                      ++..+.+.+.+.+++ .+.+.++|++|+|||++|+.+.+.... .....       ............+......     
T Consensus         8 ~~~~~~l~~~i~~~~~~~a~L~~G~~G~GKt~~a~~la~~l~~-~~~~~-------~~~c~~c~~c~~~~~~~~~d~~~~   79 (334)
T 1a5t_A            8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLC-QQPQG-------HKSCGHCRGCQLMQAGTHPDYYTL   79 (334)
T ss_dssp             HHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTC-SSCBT-------TBCCSCSHHHHHHHHTCCTTEEEE
T ss_pred             HHHHHHHHHHHHcCCcceeEEEECCCCchHHHHHHHHHHHHhC-CCCCC-------CCCCCCCHHHHHHhcCCCCCEEEE
Confidence            556677777777655 457999999999999999999987721 11100       0000000001111110000     


Q ss_pred             CCc-cccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCChh-HHhhc-c
Q 045709          224 FNE-SWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREFG-VCGQM-E  293 (337)
Q Consensus       224 ~~~-~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~~-v~~~~-~  293 (337)
                      ... .-.....++ .+.+.+.+     .+++-++|+|+++...  ..+.+...+..-..+ +.+|++|.+.+ +...+ +
T Consensus        80 ~~~~~~~~~~i~~-ir~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~-~~~Il~t~~~~~l~~ti~S  157 (334)
T 1a5t_A           80 APEKGKNTLGVDA-VREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAE-TWFFLATREPERLLATLRS  157 (334)
T ss_dssp             CCCTTCSSBCHHH-HHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTT-EEEEEEESCGGGSCHHHHT
T ss_pred             eccccCCCCCHHH-HHHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCC-eEEEEEeCChHhCcHHHhh
Confidence            000 001112222 22233333     2467799999998652  223332223222334 77777776643 22222 2


Q ss_pred             CCceeecCCCCHHHHHHHHhHhh
Q 045709          294 AHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       294 ~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ....+++.+++.++..+.+.+..
T Consensus       158 Rc~~~~~~~~~~~~~~~~L~~~~  180 (334)
T 1a5t_A          158 RCRLHYLAPPPEQYAVTWLSREV  180 (334)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHHC
T ss_pred             cceeeeCCCCCHHHHHHHHHHhc
Confidence            34578999999999999998876

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=98.31  E-value=3.9e-07  Score=71.42  Aligned_cols=45  Identities=24%  Similarity=0.239  Sum_probs=36.0

Q ss_pred             ccccchhhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          145 TVVGLQLTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|+...+.++.+.+..  ....-|.|+|.+|+|||++|+.+++..
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            478999999998887753  334567899999999999999998865

>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=98.30  E-value=8e-06  Score=76.43  Aligned_cols=164  Identities=14%  Similarity=0.131  Sum_probs=91.0

Q ss_pred             CccccchhhHHHHHHHHh---cC---------CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCLM---EE---------HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~---~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|.++.++++.+.+.   ..         ..+-+.|+|++|+|||+||+.+++..   ...|   +.++++.-... 
T Consensus        16 ~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~---~~~f---~~is~~~~~~~-   88 (476)
T 2ce7_A           16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEA---NVPF---FHISGSDFVEL-   88 (476)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHH---TCCE---EEEEGGGTTTC-
T ss_pred             HHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHc---CCCe---eeCCHHHHHHH-
Confidence            457898887777665542   21         23458899999999999999999987   3333   23333321110 


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc----------------cccccCCCC--CCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD----------------LDQVGLPIP--SRT  273 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~l~--~~~  273 (337)
                                      +...........+.......+.+|+||+++....                +..+...+.  ...
T Consensus        89 ----------------~~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~  152 (476)
T 2ce7_A           89 ----------------FVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSK  152 (476)
T ss_dssp             ----------------CTTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGG
T ss_pred             ----------------HhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCC
Confidence                            0011111222333444456789999999965311                112211110  112


Q ss_pred             CCCcEEEEeeCChhHHh-h-cc---CCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHH
Q 045709          274 SVSNKVVFTTREFGVCG-Q-ME---AHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELA  331 (337)
Q Consensus       274 ~g~s~IiiTtr~~~v~~-~-~~---~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~  331 (337)
                      .+ ..||.||...+... . ..   ....+.+++.+.++-.++|..++.......+.++..++
T Consensus       153 ~~-viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v~l~~la  214 (476)
T 2ce7_A          153 EG-IIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIA  214 (476)
T ss_dssp             GT-EEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHH
T ss_pred             CC-EEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchhhHHHHH
Confidence            34 56777777655422 1 11   23477888888888888888776543322233354444

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.29  E-value=8.2e-06  Score=75.30  Aligned_cols=164  Identities=17%  Similarity=0.216  Sum_probs=94.6

Q ss_pred             ccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          145 TVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      ++.|-++.++.|.+.+.-             ...+-|.++|++|+|||+||+.+++..   ...|   +.++.+.-.+  
T Consensus       210 DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~---~~~f---i~vs~s~L~s--  281 (467)
T 4b4t_H          210 DVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRT---DATF---IRVIGSELVQ--  281 (467)
T ss_dssp             SCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHH---TCEE---EEEEGGGGCC--
T ss_pred             HhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhcc---CCCe---EEEEhHHhhc--
Confidence            467888888888765421             356788999999999999999999988   3333   2333321100  


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHH-HHhcCCcEEEEEecCCCccc----------------cccccCCCC--CC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIF-KILSKKKFVLLLDDIWELVD----------------LDQVGLPIP--SR  272 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~-~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~l~--~~  272 (337)
                                     .+...+ +...+.+. ..-...+++|++|+++....                ...+...+.  ..
T Consensus       282 ---------------k~vGes-ek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~  345 (467)
T 4b4t_H          282 ---------------KYVGEG-ARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDP  345 (467)
T ss_dssp             ---------------CSSSHH-HHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCC
T ss_pred             ---------------ccCCHH-HHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCC
Confidence                           001111 12222222 23346789999999985411                011111110  11


Q ss_pred             CCCCcEEEEeeCChhHHh-h-c---cCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHHH
Q 045709          273 TSVSNKVVFTTREFGVCG-Q-M---EAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAET  333 (337)
Q Consensus       273 ~~g~s~IiiTtr~~~v~~-~-~---~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~  333 (337)
                      ..+ ..||.||....... . .   .-...+.++..+.++-.++|+.++..-....+-++..+|+.
T Consensus       346 ~~~-ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvdl~~LA~~  410 (467)
T 4b4t_H          346 RGN-IKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIRWELISRL  410 (467)
T ss_dssp             TTT-EEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHHH
T ss_pred             CCc-EEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCCHHHHHHH
Confidence            223 45566665543311 1 1   23567899999999999999888755443444567777653

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=98.27  E-value=2e-05  Score=67.78  Aligned_cols=151  Identities=15%  Similarity=0.093  Sum_probs=82.7

Q ss_pred             CccccchhhHHHHHHHHh---c---------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCLM---E---------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|.+..++.+.+.+.   .         ...+-+.|+|++|+||||||+.+++..   ...|   +.++.+.-..  
T Consensus        12 ~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~---~~~~---~~i~~~~~~~--   83 (257)
T 1lv7_A           12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVPF---FTISGSDFVE--   83 (257)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH---TCCE---EEECSCSSTT--
T ss_pred             HHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHc---CCCE---EEEeHHHHHH--
Confidence            458898887777655432   1         123458899999999999999999887   2332   3333221100  


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc----------------cccccCCCC--CCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD----------------LDQVGLPIP--SRT  273 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~l~--~~~  273 (337)
                                     .............+.......+.++++|+++....                ...+...+.  ...
T Consensus        84 ---------------~~~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  148 (257)
T 1lv7_A           84 ---------------MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN  148 (257)
T ss_dssp             ---------------SCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSS
T ss_pred             ---------------HhhhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCcccC
Confidence                           00111222222333333445678999999853210                011110010  112


Q ss_pred             CCCcEEEEeeCChhH-Hhhc-c---CCceeecCCCCHHHHHHHHhHhhCC
Q 045709          274 SVSNKVVFTTREFGV-CGQM-E---AHRSFKVECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       274 ~g~s~IiiTtr~~~v-~~~~-~---~~~~~~l~~L~~~ea~~Lf~~~~~~  318 (337)
                      .+ ..||.||..... ...+ .   ....+.++..+.++-.+++..++..
T Consensus       149 ~~-~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~  197 (257)
T 1lv7_A          149 EG-IIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRR  197 (257)
T ss_dssp             SC-EEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTT
T ss_pred             CC-EEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhc
Confidence            23 466667765432 1111 1   2346788888888888888777643

>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=98.25  E-value=5.3e-06  Score=73.19  Aligned_cols=46  Identities=20%  Similarity=0.190  Sum_probs=38.5

Q ss_pred             CccccchhhHHHHHHHHhc--------------CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLME--------------EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++|++..++.+...+..              .....+.++|++|+|||++|+.+++..
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l   74 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999988877754              235678899999999999999999887

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.25  E-value=6.2e-06  Score=82.18  Aligned_cols=151  Identities=13%  Similarity=0.106  Sum_probs=83.6

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCC--cEEEEEEecCccCHHHHHHHHHHHh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHF--DFVIWVVVSRDLQLEKIQESIAKKI  221 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f--~~~~wv~~~~~~~~~~~~~~i~~~l  221 (337)
                      ..++||+.++..+...|......-+.++|++|+|||++|+.+++........+  ...-++.++-               
T Consensus       180 d~iiG~~~~i~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~---------------  244 (758)
T 3pxi_A          180 DPVIGRSKEIQRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM---------------  244 (758)
T ss_dssp             CCCCCCHHHHHHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC-----------------
T ss_pred             CCccCchHHHHHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc---------------
Confidence            35899999999999999876666788999999999999999998862211111  0111111111               


Q ss_pred             CCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHHh------hc-cC
Q 045709          222 GLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG------QM-EA  294 (337)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~------~~-~~  294 (337)
                      +...   ...........+......++.+|++|  ........+...+.   .+..++|.||.......      .+ ..
T Consensus       245 g~~~---~G~~e~~l~~~~~~~~~~~~~iLfiD--~~~~~~~~L~~~l~---~~~v~~I~at~~~~~~~~~~~d~al~rR  316 (758)
T 3pxi_A          245 GTKY---RGEFEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLA---RGELQCIGATTLDEYRKYIEKDAALERR  316 (758)
T ss_dssp             -----------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTT---SSSCEEEEECCTTTTHHHHTTCSHHHHS
T ss_pred             cccc---cchHHHHHHHHHHHHHhcCCEEEEEc--CchhHHHHHHHHHh---cCCEEEEeCCChHHHHHHhhccHHHHhh
Confidence            0000   00000111222233334678899999  22222222333332   23256666665444111      00 11


Q ss_pred             CceeecCCCCHHHHHHHHhHhhC
Q 045709          295 HRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       295 ~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      ...+.+++.+.++..+++.....
T Consensus       317 f~~i~v~~p~~~~~~~il~~~~~  339 (758)
T 3pxi_A          317 FQPIQVDQPSVDESIQILQGLRD  339 (758)
T ss_dssp             EEEEECCCCCHHHHHHHHHHTTT
T ss_pred             CcEEEeCCCCHHHHHHHHHHHHH
Confidence            25689999999999999986653

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=98.24  E-value=5.3e-07  Score=73.29  Aligned_cols=116  Identities=16%  Similarity=0.199  Sum_probs=62.0

Q ss_pred             chhhHHHHHHHHhc---CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCC
Q 045709          149 LQLTFDRVWRCLME---EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFN  225 (337)
Q Consensus       149 r~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~  225 (337)
                      ....++.+.+++.+   .....+.|+|++|+|||||++.+++......+ + .+.++      +..++...+........
T Consensus        19 ~~~~~~~~~~~~~~~~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g-~-~~~~~------~~~~~~~~~~~~~~~~~   90 (180)
T 3ec2_A           19 QNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKG-I-RGYFF------DTKDLIFRLKHLMDEGK   90 (180)
T ss_dssp             HHHHHHHHHHHHHSCCGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSC-C-CCCEE------EHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHhccccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcC-C-eEEEE------EHHHHHHHHHHHhcCch
Confidence            34445555555443   24678999999999999999999988721111 1 12333      34444544444332111


Q ss_pred             ccccCCCHHHHHHHHHHHhcCCcEEEEEecCCC--ccccc--cccCCCCC-CCCCCcEEEEeeCC
Q 045709          226 ESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWE--LVDLD--QVGLPIPS-RTSVSNKVVFTTRE  285 (337)
Q Consensus       226 ~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~--~~~~~--~l~~~l~~-~~~g~s~IiiTtr~  285 (337)
                          . .  .    +...+. +.-+|||||++.  ...|.  .+...+.. ...+ ..+|+||..
T Consensus        91 ----~-~--~----~~~~~~-~~~llilDE~~~~~~~~~~~~~l~~ll~~~~~~~-~~ii~tsn~  142 (180)
T 3ec2_A           91 ----D-T--K----FLKTVL-NSPVLVLDDLGSERLSDWQRELISYIITYRYNNL-KSTIITTNY  142 (180)
T ss_dssp             ----C-S--H----HHHHHH-TCSEEEEETCSSSCCCHHHHHHHHHHHHHHHHTT-CEEEEECCC
T ss_pred             ----H-H--H----HHHHhc-CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHHHcC-CCEEEEcCC
Confidence                0 0  1    112222 566999999974  22332  11111111 1135 688888874

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.23  E-value=1.9e-05  Score=72.19  Aligned_cols=164  Identities=18%  Similarity=0.211  Sum_probs=94.1

Q ss_pred             ccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          145 TVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      ++.|-++.++.|.+.+.-             ...+-|.++|++|+|||.||+.+++..   ...|   +.++.+.-.   
T Consensus       183 DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~---~~~f---i~v~~s~l~---  253 (437)
T 4b4t_I          183 DIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQT---SATF---LRIVGSELI---  253 (437)
T ss_dssp             GTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHH---TCEE---EEEESGGGC---
T ss_pred             ecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHh---CCCE---EEEEHHHhh---
Confidence            467888888887766531             245779999999999999999999988   3333   222222110   


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHH-HhcCCcEEEEEecCCCccc----------------cccccCCC--CCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFK-ILSKKKFVLLLDDIWELVD----------------LDQVGLPI--PSR  272 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~----------------~~~l~~~l--~~~  272 (337)
                                 .   .+... .+.....+.. .-...+++|++|+++....                +..+...+  ...
T Consensus       254 -----------s---k~vGe-sek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~  318 (437)
T 4b4t_I          254 -----------Q---KYLGD-GPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDD  318 (437)
T ss_dssp             -----------C---SSSSH-HHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCC
T ss_pred             -----------h---ccCch-HHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCC
Confidence                       0   00111 1222233332 2245789999999975311                11111111  011


Q ss_pred             CCCCcEEEEeeCChhHHhh-c-c---CCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHHH
Q 045709          273 TSVSNKVVFTTREFGVCGQ-M-E---AHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAET  333 (337)
Q Consensus       273 ~~g~s~IiiTtr~~~v~~~-~-~---~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~  333 (337)
                      ..+ ..||.||...+.... + .   -+..+.++.-+.++-.++|+.++..-....+-++..+|+.
T Consensus       319 ~~~-ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvdl~~LA~~  383 (437)
T 4b4t_I          319 RGD-VKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVNLETLVTT  383 (437)
T ss_dssp             SSS-EEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCCHHHHHHH
T ss_pred             CCC-EEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHh
Confidence            223 456667765554221 1 1   1346788888999989999888755443445567777653

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=98.22  E-value=7.1e-06  Score=72.52  Aligned_cols=59  Identities=24%  Similarity=0.328  Sum_probs=43.4

Q ss_pred             ccccchhhHHHHHHHHhcC---------CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          145 TVVGLQLTFDRVWRCLMEE---------HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      .++|.+..++.+...+...         ....+.++|++|+|||++|+.+++...   ..-...+.++++.
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~---~~~~~~~~~~~~~   85 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLF---DTEEAMIRIDMTE   85 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHH---SCGGGEEEEEGGG
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHc---CCCcceEEeeccc
Confidence            4789999988888877542         235899999999999999999998873   2222345555544

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.16  E-value=2.3e-05  Score=72.21  Aligned_cols=166  Identities=17%  Similarity=0.216  Sum_probs=88.7

Q ss_pred             CccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH
Q 045709          144 PTVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL  210 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~  210 (337)
                      .++.|-++.++.|.+.+.-             ...+-+.++|++|+|||+||+.+++..   ..+|   +.++.+.-.+ 
T Consensus       172 ~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~---~~~~---~~v~~~~l~~-  244 (428)
T 4b4t_K          172 ADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANST---KAAF---IRVNGSEFVH-  244 (428)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHH---TCEE---EEEEGGGTCC-
T ss_pred             HHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHh---CCCe---EEEecchhhc-
Confidence            3567888888888776531             245678999999999999999999988   3333   2333332110 


Q ss_pred             HHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc----------------cccccCCCC--CC
Q 045709          211 EKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD----------------LDQVGLPIP--SR  272 (337)
Q Consensus       211 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~l~--~~  272 (337)
                                      .+.+.+...+...+...-...+++|++|+++....                +..+...+.  ..
T Consensus       245 ----------------~~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~  308 (428)
T 4b4t_K          245 ----------------KYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQ  308 (428)
T ss_dssp             ----------------SSCSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCS
T ss_pred             ----------------cccchhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCC
Confidence                            00111111122222223346789999999863210                111111111  11


Q ss_pred             CCCCcEEEEeeCChhHHh-h-cc---CCceeecCCCC-HHHHHHHHhHhhCCCCCCCCCChHHHHHH
Q 045709          273 TSVSNKVVFTTREFGVCG-Q-ME---AHRSFKVECLR-YDDAWKLFEQKVGADTLDSHPDIPELAET  333 (337)
Q Consensus       273 ~~g~s~IiiTtr~~~v~~-~-~~---~~~~~~l~~L~-~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~  333 (337)
                      ..+ -.||.||...+... . ..   -...+.++.++ .++-..+|..++..-....+.++..+|+.
T Consensus       309 ~~~-v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~dl~~lA~~  374 (428)
T 4b4t_K          309 STN-VKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEADLDSLIIR  374 (428)
T ss_dssp             SCS-EEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCCHHHHHHH
T ss_pred             CCC-EEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHH
Confidence            233 45666776544311 1 11   23467787664 45555666665533332334567777653

>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=98.14  E-value=4.5e-06  Score=72.20  Aligned_cols=46  Identities=17%  Similarity=0.190  Sum_probs=34.5

Q ss_pred             CccccchhhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++|.+..+..+.+.+..  .....+.|+|.+|+|||+||+.+++..
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhc
Confidence            3478999888888776643  334567899999999999999998876

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=98.11  E-value=4.6e-06  Score=73.78  Aligned_cols=46  Identities=13%  Similarity=0.189  Sum_probs=37.8

Q ss_pred             CccccchhhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.++|+...+..+.+.+..  .....|.|+|.+|+|||++|+.+.+..
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            3589999999988887754  345667899999999999999998866

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.10  E-value=9.3e-06  Score=74.85  Aligned_cols=165  Identities=16%  Similarity=0.189  Sum_probs=92.3

Q ss_pred             CccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH
Q 045709          144 PTVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL  210 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~  210 (337)
                      .++.|-++.++.|.+.+..             ...+-|.++|++|+|||.||+.+++..   ..+|   +.++.+.-.+ 
T Consensus       181 ~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~---~~~f---~~v~~s~l~~-  253 (434)
T 4b4t_M          181 SDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQT---NATF---LKLAAPQLVQ-  253 (434)
T ss_dssp             GGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHH---TCEE---EEEEGGGGCS-
T ss_pred             HhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHh---CCCE---EEEehhhhhh-
Confidence            3467888888888766421             246778999999999999999999988   3332   2233322100 


Q ss_pred             HHHHHHHHHHhCCCCccccCCCHHHHHHHHHH-HhcCCcEEEEEecCCCcc-------c---------cccccCCCCC--
Q 045709          211 EKIQESIAKKIGLFNESWKNKSMQEKAQEIFK-ILSKKKFVLLLDDIWELV-------D---------LDQVGLPIPS--  271 (337)
Q Consensus       211 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~-------~---------~~~l~~~l~~--  271 (337)
                                      .+.+. .+...+.+.. .-...+++|++|+++...       .         ...+...+..  
T Consensus       254 ----------------~~vGe-se~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~  316 (434)
T 4b4t_M          254 ----------------MYIGE-GAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFS  316 (434)
T ss_dssp             ----------------SCSSH-HHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSC
T ss_pred             ----------------cccch-HHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccC
Confidence                            00111 1222222222 223568999999987420       0         1112111111  


Q ss_pred             CCCCCcEEEEeeCChhHHh-hc-c---CCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHHH
Q 045709          272 RTSVSNKVVFTTREFGVCG-QM-E---AHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAET  333 (337)
Q Consensus       272 ~~~g~s~IiiTtr~~~v~~-~~-~---~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~  333 (337)
                      ...+ -.||.||...+... .+ .   -...+.++..+.++-.++|+.++..-....+-++..+|+.
T Consensus       317 ~~~~-ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvdl~~lA~~  382 (434)
T 4b4t_M          317 SDDR-VKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDINWQELARS  382 (434)
T ss_dssp             SSCS-SEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCCHHHHHHH
T ss_pred             CCCC-EEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHh
Confidence            1123 35555776554322 11 1   2356888888998888888877633222334467777653

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=98.10  E-value=1.2e-06  Score=68.97  Aligned_cols=39  Identities=18%  Similarity=0.295  Sum_probs=29.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEec
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVS  205 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~  205 (337)
                      ....+.|+|.+|+|||||++.+++... . ..+ .+++++..
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~-~-~g~-~~~~~~~~   73 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQAL-E-AGK-NAAYIDAA   73 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHH-T-TTC-CEEEEETT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHH-h-cCC-cEEEEcHH
Confidence            567899999999999999999999873 2 222 25565544

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=98.03  E-value=1.5e-05  Score=65.72  Aligned_cols=113  Identities=25%  Similarity=0.176  Sum_probs=60.6

Q ss_pred             hHHHHHHHHhcC----CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCcc
Q 045709          152 TFDRVWRCLMEE----HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNES  227 (337)
Q Consensus       152 ~~~~l~~~L~~~----~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~  227 (337)
                      .++.+..++...    ....+.|+|++|+|||+||+.+++...   .....++|++++      .+...+.....     
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~---~~~~~~~~~~~~------~~~~~~~~~~~-----  102 (202)
T 2w58_A           37 AIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELA---KRNVSSLIVYVP------ELFRELKHSLQ-----  102 (202)
T ss_dssp             HHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHH---TTTCCEEEEEHH------HHHHHHHHC-------
T ss_pred             HHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEEEhH------HHHHHHHHHhc-----
Confidence            445555555443    127889999999999999999999883   223345566543      33444433221     


Q ss_pred             ccCCCHHHHHHHHHHHhcCCcEEEEEecCCCc--ccccc--ccC-CCCCC-CCCCcEEEEeeCCh
Q 045709          228 WKNKSMQEKAQEIFKILSKKKFVLLLDDIWEL--VDLDQ--VGL-PIPSR-TSVSNKVVFTTREF  286 (337)
Q Consensus       228 ~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~--l~~-~l~~~-~~g~s~IiiTtr~~  286 (337)
                        ..........    +.. .-+|||||++..  ..|..  +.. .+... ..+ .++|+||...
T Consensus       103 --~~~~~~~~~~----~~~-~~~lilDei~~~~~~~~~~~~ll~~~l~~~~~~~-~~~i~tsn~~  159 (202)
T 2w58_A          103 --DQTMNEKLDY----IKK-VPVLMLDDLGAEAMSSWVRDDVFGPILQYRMFEN-LPTFFTSNFD  159 (202)
T ss_dssp             ---CCCHHHHHH----HHH-SSEEEEEEECCC---CCGGGTTHHHHHHHHHHTT-CCEEEEESSC
T ss_pred             --cchHHHHHHH----hcC-CCEEEEcCCCCCcCCHHHHHHHHHHHHHHHHhCC-CCEEEEcCCC
Confidence              1112222222    222 239999999653  33322  211 11111 234 5788888743

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=98.03  E-value=2.1e-06  Score=67.02  Aligned_cols=45  Identities=16%  Similarity=0.081  Sum_probs=34.2

Q ss_pred             ccccchhhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          145 TVVGLQLTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|++..+.++.+.+..  ....-|.|+|.+|+|||++|+.+++..
T Consensus         5 ~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ---CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            478999988888887653  334557899999999999999997654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=98.00  E-value=4.4e-06  Score=83.26  Aligned_cols=145  Identities=16%  Similarity=0.158  Sum_probs=81.5

Q ss_pred             CccccchhhHHHHHHHHhcC---------CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEE---------HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQ  214 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~  214 (337)
                      ..++|.+..+..+...+...         ....+.++|++|+|||++|+.+++...   ......+.++++......   
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~---~~~~~~i~i~~s~~~~~~---  564 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIF---GDEESMIRIDMSEYMEKH---  564 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHH---SCTTCEEEEEGGGGCSSC---
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhc---CCCcceEEEechhccccc---
Confidence            45799999998888877531         123699999999999999999998873   222234455554321100   


Q ss_pred             HHHHHHhCCCCccccCCCHHHHHHHHHHHhc-CCcEEEEEecCCCccc--cccccCC-----CCC------CCCCCcEEE
Q 045709          215 ESIAKKIGLFNESWKNKSMQEKAQEIFKILS-KKKFVLLLDDIWELVD--LDQVGLP-----IPS------RTSVSNKVV  280 (337)
Q Consensus       215 ~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~~~~--~~~l~~~-----l~~------~~~g~s~Ii  280 (337)
                                     ..+...    +...+. ....+|+||+++....  ...+...     +..      .... ..||
T Consensus       565 ---------------~~~~~~----l~~~~~~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~-~~iI  624 (758)
T 3pxi_A          565 ---------------STSGGQ----LTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRN-TILI  624 (758)
T ss_dssp             ---------------CCC-------CHHHHHHCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTT-CEEE
T ss_pred             ---------------ccccch----hhHHHHhCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCC-eEEE
Confidence                           000011    111221 2345899999975421  1111111     110      1123 6888


Q ss_pred             EeeCC-----------------hhHHhhccCCceeecCCCCHHHHHHHHhHhh
Q 045709          281 FTTRE-----------------FGVCGQMEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       281 iTtr~-----------------~~v~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      +||..                 +.+...+  ...+.+++|+.++-..++...+
T Consensus       625 ~ttn~~~~~~~~~~~~~~~~f~p~l~~Rl--~~~i~~~~l~~~~~~~i~~~~l  675 (758)
T 3pxi_A          625 MTSNVGASEKDKVMGELKRAFRPEFINRI--DEIIVFHSLEKKHLTEIVSLMS  675 (758)
T ss_dssp             EEESSSTTCCHHHHHHHHHHSCHHHHTTS--SEEEECC--CHHHHHHHHHHHH
T ss_pred             EeCCCChhhHHHHHHHHHhhCCHHHHhhC--CeEEecCCCCHHHHHHHHHHHH
Confidence            88873                 1112222  3578999999999888776544

>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=97.97  E-value=5.4e-05  Score=74.98  Aligned_cols=165  Identities=12%  Similarity=0.151  Sum_probs=93.7

Q ss_pred             ccccchhhHHHHHHHHh----c---------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          145 TVVGLQLTFDRVWRCLM----E---------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      ++.|.++.+++|.+.+.    .         ...+-|.++|++|+|||+||+.+++..   ..+|   +.++.+      
T Consensus       205 dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~el---g~~~---~~v~~~------  272 (806)
T 3cf2_A          205 DIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFF---FLINGP------  272 (806)
T ss_dssp             GCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTT---TCEE---EEEEHH------
T ss_pred             hhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCeE---EEEEhH------
Confidence            46788888877776642    1         245679999999999999999999877   3332   333322      


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc-------------cccccCCCC--CCCCCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD-------------LDQVGLPIP--SRTSVS  276 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-------------~~~l~~~l~--~~~~g~  276 (337)
                      ++.       +.    +...+...+...+.......+++|+||+++....             ..++...+.  ....+ 
T Consensus       273 ~l~-------sk----~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~-  340 (806)
T 3cf2_A          273 EIM-------SK----LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH-  340 (806)
T ss_dssp             HHH-------SS----CTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGC-
T ss_pred             Hhh-------cc----cchHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCC-
Confidence            111       00    0111122222233334456789999999975421             111111110  01122 


Q ss_pred             cEEEEeeCChh-HHhhc----cCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHHH
Q 045709          277 NKVVFTTREFG-VCGQM----EAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAET  333 (337)
Q Consensus       277 s~IiiTtr~~~-v~~~~----~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~  333 (337)
                      -.||-||...+ +-..+    .-...++++..+.++-.++|+.+........+.++..+|+.
T Consensus       341 V~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvdl~~lA~~  402 (806)
T 3cf2_A          341 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANE  402 (806)
T ss_dssp             EEEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCCHHHHHHH
T ss_pred             EEEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHh
Confidence            34455555433 22212    12457889999999999999887755443445667777654

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=97.94  E-value=0.00028  Score=61.28  Aligned_cols=164  Identities=15%  Similarity=0.148  Sum_probs=84.0

Q ss_pred             CccccchhhHHHHHHHHh---c---------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCLM---E---------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|.+..+..+.+...   .         .-.+-+.|+|++|+|||||++.++...   ..   ..+.++..      
T Consensus        40 ~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~---~~---~~i~~~~~------  107 (278)
T 1iy2_A           40 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---RV---PFITASGS------  107 (278)
T ss_dssp             GGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHT---TC---CEEEEEHH------
T ss_pred             HHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHc---CC---CEEEecHH------
Confidence            468898877666654432   1         112238999999999999999999876   22   22333221      


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh-cCCcEEEEEecCCCcc------------c----cccccCCCCCCCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL-SKKKFVLLLDDIWELV------------D----LDQVGLPIPSRTS  274 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~------------~----~~~l~~~l~~~~~  274 (337)
                      .+    ....       .. ........+.+.. ...+.++++||++...            .    ...+...+..+..
T Consensus       108 ~~----~~~~-------~~-~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~  175 (278)
T 1iy2_A          108 DF----VEMF-------VG-VGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK  175 (278)
T ss_dssp             HH----HHST-------TT-HHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCT
T ss_pred             HH----HHHH-------hh-HHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCC
Confidence            11    1100       00 0111122222222 3457899999995321            0    1112111221111


Q ss_pred             C-CcEEEEeeCChhHHh-----hccCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHH
Q 045709          275 V-SNKVVFTTREFGVCG-----QMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELA  331 (337)
Q Consensus       275 g-~s~IiiTtr~~~v~~-----~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~  331 (337)
                      . ...++.||....+..     .......+.++..+.++-.+++..++.......+..+..++
T Consensus       176 ~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la  238 (278)
T 1iy2_A          176 DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLA  238 (278)
T ss_dssp             TCCEEEEEEESCTTSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHH
T ss_pred             CCCEEEEEecCCchhCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCcccCHHHHH
Confidence            1 023444565544321     11234578899999998888888776433222233344443

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.92  E-value=0.00026  Score=61.46  Aligned_cols=164  Identities=15%  Similarity=0.127  Sum_probs=86.9

Q ss_pred             CccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH
Q 045709          144 PTVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL  210 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~  210 (337)
                      .++.|.++.++.|.+.+..             .-.+-+.|+|++|+|||||++.++...   ..   ..+++....-.+.
T Consensus        10 ~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~l~~~~GvlL~Gp~GtGKTtLakala~~~---~~---~~i~i~g~~l~~~   83 (274)
T 2x8a_A           10 ADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANES---GL---NFISVKGPELLNM   83 (274)
T ss_dssp             --CCHHHHHHHHHHHHHTHHHHSHHHHHHTTCCCCSEEEEESSTTSCHHHHHHHHHHHT---TC---EEEEEETTTTCSS
T ss_pred             HHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCCeEEEECCCCCcHHHHHHHHHHHc---CC---CEEEEEcHHHHhh
Confidence            3467877777777665421             112239999999999999999999876   22   2344443221100


Q ss_pred             HHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh-cCCcEEEEEecCCCcccc-------------ccccCCCCCC--CC
Q 045709          211 EKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL-SKKKFVLLLDDIWELVDL-------------DQVGLPIPSR--TS  274 (337)
Q Consensus       211 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~~-------------~~l~~~l~~~--~~  274 (337)
                                        ...........+.+.. ...++++++|+++.....             ..+...+..+  ..
T Consensus        84 ------------------~~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~  145 (274)
T 2x8a_A           84 ------------------YVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQ  145 (274)
T ss_dssp             ------------------TTHHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTT
T ss_pred             ------------------hhhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccC
Confidence                              0000111122222222 346789999999753110             0111111111  12


Q ss_pred             CCcEEEEeeCChhHHhhc-----cCCceeecCCCCHHHHHHHHhHhhCCC---CCCCCCChHHHHH
Q 045709          275 VSNKVVFTTREFGVCGQM-----EAHRSFKVECLRYDDAWKLFEQKVGAD---TLDSHPDIPELAE  332 (337)
Q Consensus       275 g~s~IiiTtr~~~v~~~~-----~~~~~~~l~~L~~~ea~~Lf~~~~~~~---~~~~~~~l~~i~~  332 (337)
                      . .-++.+|....+....     .-...+.++..+.++-.++|+......   ....+-++..++.
T Consensus       146 ~-~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~~~~la~  210 (274)
T 2x8a_A          146 Q-VFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAG  210 (274)
T ss_dssp             C-EEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTTTTBTTBBCTTCCHHHHHT
T ss_pred             C-EEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHhcccCCCCccccCHHHHHH
Confidence            2 3455667666553211     234678899999999999998776321   1123445666654

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=97.88  E-value=0.00019  Score=67.44  Aligned_cols=146  Identities=14%  Similarity=0.123  Sum_probs=81.2

Q ss_pred             CccccchhhHHHHHHHHh---cC---------CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCLM---EE---------HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~---~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|.++.+..+.+...   ..         -.+-+.|+|++|+||||||+.+++..   ...   .+.++.+.-..  
T Consensus        31 ~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~---~~~---~i~i~g~~~~~--  102 (499)
T 2dhr_A           31 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---RVP---FITASGSDFVE--  102 (499)
T ss_dssp             TSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHT---TCC---EEEEEGGGGTS--
T ss_pred             HHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHh---CCC---EEEEehhHHHH--
Confidence            468998887776655432   21         12348999999999999999999876   222   23344332110  


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhc----CCcEEEEEecCCCccc----------------cccccCCCCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILS----KKKFVLLLDDIWELVD----------------LDQVGLPIPS  271 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~----~k~~LlVlDdv~~~~~----------------~~~l~~~l~~  271 (337)
                                         .........+...++    ..+.++++|+++....                +..+...+..
T Consensus       103 -------------------~~~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg  163 (499)
T 2dhr_A          103 -------------------MFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDG  163 (499)
T ss_dssp             -------------------SCTTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGG
T ss_pred             -------------------hhhhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhcc
Confidence                               000111222333332    2358999999964310                1122111111


Q ss_pred             C--CCCCcEEEEeeCChhHHhh--c---cCCceeecCCCCHHHHHHHHhHhhC
Q 045709          272 R--TSVSNKVVFTTREFGVCGQ--M---EAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       272 ~--~~g~s~IiiTtr~~~v~~~--~---~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      .  ..+ ..|+.||....+...  .   .....+.++..+.++-.++|..++.
T Consensus       164 ~~~~~~-viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~  215 (499)
T 2dhr_A          164 FEKDTA-IVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR  215 (499)
T ss_dssp             CCSSCC-CEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTS
T ss_pred             cccCcc-EEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHh
Confidence            1  122 345556666554221  1   1235788999999988888887663

>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=97.86  E-value=0.00028  Score=60.29  Aligned_cols=164  Identities=15%  Similarity=0.166  Sum_probs=83.6

Q ss_pred             CccccchhhHHHHHHHHh---c---------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCLM---E---------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~---~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|.+..+..+.+...   .         .-.+-+.|+|++|+|||||++.+++..   ...   .+.++..      
T Consensus        16 ~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~---~~~---~i~~~~~------   83 (254)
T 1ixz_A           16 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---RVP---FITASGS------   83 (254)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT---TCC---EEEEEHH------
T ss_pred             HHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHh---CCC---EEEeeHH------
Confidence            457888776665544332   1         112238999999999999999999876   222   2233221      


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh-cCCcEEEEEecCCCccc----------------cccccCCCCCCCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL-SKKKFVLLLDDIWELVD----------------LDQVGLPIPSRTS  274 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~----------------~~~l~~~l~~~~~  274 (337)
                      .+    ....       .. ........+.+.. ...+.++++|+++....                ...+...+..+..
T Consensus        84 ~~----~~~~-------~~-~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~  151 (254)
T 1ixz_A           84 DF----VEMF-------VG-VGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK  151 (254)
T ss_dssp             HH----HHSC-------TT-HHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCT
T ss_pred             HH----HHHH-------hh-HHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCC
Confidence            11    1100       00 0111222233332 24568999999953210                1122111111111


Q ss_pred             -CCcEEEEeeCChhHHhh-c----cCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHH
Q 045709          275 -VSNKVVFTTREFGVCGQ-M----EAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELA  331 (337)
Q Consensus       275 -g~s~IiiTtr~~~v~~~-~----~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~  331 (337)
                       ...-++.||....+... +    .....+.++..+.++-.+++...+.......+.++..++
T Consensus       152 ~~~~i~~a~t~~p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la  214 (254)
T 1ixz_A          152 DTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLA  214 (254)
T ss_dssp             TCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHH
T ss_pred             CCCEEEEEccCCchhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCcccCHHHHH
Confidence             10234456665554221 1    124578899999998888888776432222233344444

>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=97.83  E-value=0.00017  Score=68.83  Aligned_cols=154  Identities=18%  Similarity=0.189  Sum_probs=78.2

Q ss_pred             CccccchhhHHHHHHHHh------cCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLM------EEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESI  217 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~------~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  217 (337)
                      .+++|.++....+.+.+.      ......+.++|++|+||||||+.++...   ...|.   -++++...+...+....
T Consensus        81 ~di~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l---~~~~~---~i~~~~~~~~~~~~g~~  154 (543)
T 3m6a_A           81 EEHHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSL---GRKFV---RISLGGVRDESEIRGHR  154 (543)
T ss_dssp             HHCSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHH---TCEEE---EECCCC-----------
T ss_pred             HHhccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhc---CCCeE---EEEecccchhhhhhhHH
Confidence            346887777776655432      1246789999999999999999999887   23322   22232221211111111


Q ss_pred             HHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc------cccccCCCCCC---------------CCCC
Q 045709          218 AKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD------LDQVGLPIPSR---------------TSVS  276 (337)
Q Consensus       218 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~------~~~l~~~l~~~---------------~~g~  276 (337)
                      ....+.        ........+ .......-+|+||+++....      ...+...+...               ... 
T Consensus       155 ~~~ig~--------~~~~~~~~~-~~a~~~~~vl~lDEid~l~~~~~~~~~~~LL~~ld~~~~~~~~~~~~~~~~~~~~-  224 (543)
T 3m6a_A          155 RTYVGA--------MPGRIIQGM-KKAGKLNPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEETFDLSK-  224 (543)
T ss_dssp             -----------------CHHHHH-HTTCSSSEEEEEEESSSCC---------CCGGGTCTTTTTBCCCSSSCCCCBCSS-
T ss_pred             HHHhcc--------CchHHHHHH-HHhhccCCEEEEhhhhhhhhhhccCHHHHHHHHHhhhhcceeecccCCeeecccc-
Confidence            111110        011111111 12222344889999986421      12222222110               022 


Q ss_pred             cEEEEeeCChh-----HHhhccCCceeecCCCCHHHHHHHHhHhh
Q 045709          277 NKVVFTTREFG-----VCGQMEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       277 s~IiiTtr~~~-----v~~~~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      ..||.||....     +...+   ..+.+++++.++-..++..+.
T Consensus       225 v~iI~ttN~~~~l~~aL~~R~---~vi~~~~~~~~e~~~Il~~~l  266 (543)
T 3m6a_A          225 VLFIATANNLATIPGPLRDRM---EIINIAGYTEIEKLEIVKDHL  266 (543)
T ss_dssp             CEEEEECSSTTTSCHHHHHHE---EEEECCCCCHHHHHHHHHHTH
T ss_pred             eEEEeccCccccCCHHHHhhc---ceeeeCCCCHHHHHHHHHHHH
Confidence            45666665432     23333   478999999999988888764

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.81  E-value=0.00016  Score=63.36  Aligned_cols=26  Identities=23%  Similarity=0.376  Sum_probs=23.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+.++|++|+|||+||+.+++..
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l   60 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKM   60 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34678899999999999999999988

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=97.69  E-value=0.00016  Score=60.18  Aligned_cols=90  Identities=20%  Similarity=0.218  Sum_probs=54.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCcc-------ccCCC---
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNES-------WKNKS---  232 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~---  232 (337)
                      ....++.|+|.+|+|||||+..++. .     .-..++|++.....+...+.. +....+.....       ....+   
T Consensus        18 ~~G~~~~i~G~~GsGKTtl~~~l~~-~-----~~~~v~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (220)
T 2cvh_A           18 APGVLTQVYGPYASGKTTLALQTGL-L-----SGKKVAYVDTEGGFSPERLVQ-MAETRGLNPEEALSRFILFTPSDFKE   90 (220)
T ss_dssp             CTTSEEEEECSTTSSHHHHHHHHHH-H-----HCSEEEEEESSCCCCHHHHHH-HHHTTTCCHHHHHHHEEEECCTTTSH
T ss_pred             cCCEEEEEECCCCCCHHHHHHHHHH-H-----cCCcEEEEECCCCCCHHHHHH-HHHhcCCChHHHhhcEEEEecCCHHH
Confidence            3567999999999999999999987 3     123678888766555554432 33332221000       01111   


Q ss_pred             HHHHHHHHHHHhcCCcEEEEEecCCCc
Q 045709          233 MQEKAQEIFKILSKKKFVLLLDDIWEL  259 (337)
Q Consensus       233 ~~~~~~~l~~~l~~k~~LlVlDdv~~~  259 (337)
                      .......++..+..+.-+||||.+...
T Consensus        91 ~~~~~~~~~~l~~~~~~lliiD~~~~~  117 (220)
T 2cvh_A           91 QRRVIGSLKKTVDSNFALVVVDSITAH  117 (220)
T ss_dssp             HHHHHHHHHHHCCTTEEEEEEECCCCC
T ss_pred             HHHHHHHHHHHhhcCCCEEEEcCcHHH
Confidence            223444555555445779999998654

>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=97.69  E-value=0.00019  Score=64.55  Aligned_cols=88  Identities=17%  Similarity=0.188  Sum_probs=60.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEI  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  240 (337)
                      ...++.|+|++|+|||||+..++....   ..-..++|++....++..     .+.+++...+..   ...+.++....+
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~~~---~~gg~VlyId~E~s~~~~-----ra~rlgv~~~~l~i~~~~~~e~~l~~~  131 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAEAQ---KMGGVAAFIDAEHALDPV-----YAKNLGVDLKSLLISQPDHGEQALEIV  131 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH-----HHHHHTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH---hcCCeEEEEecccccchH-----HHHHcCCchhhhhhhhccCHHHHHHHH
Confidence            568999999999999999999988772   222357788877666543     455666543221   234566666666


Q ss_pred             HHHhc-CCcEEEEEecCCCc
Q 045709          241 FKILS-KKKFVLLLDDIWEL  259 (337)
Q Consensus       241 ~~~l~-~k~~LlVlDdv~~~  259 (337)
                      ...+. .+.-++|+|.+...
T Consensus       132 ~~l~~~~~~dlvVIDSi~~l  151 (356)
T 3hr8_A          132 DELVRSGVVDLIVVDSVAAL  151 (356)
T ss_dssp             HHHHHTSCCSEEEEECTTTC
T ss_pred             HHHhhhcCCCeEEehHhhhh
Confidence            65554 45669999998654

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=97.64  E-value=0.00035  Score=59.03  Aligned_cols=94  Identities=14%  Similarity=0.189  Sum_probs=57.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCC----CCcEEEEEEecCccCHHHHHHHHHHHhCCCCc----c---ccCCC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPN----HFDFVIWVVVSRDLQLEKIQESIAKKIGLFNE----S---WKNKS  232 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----~---~~~~~  232 (337)
                      ...++.|+|.+|+|||||+..++..... ..    .-..++|++....+....+ ..++..++....    .   ....+
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~-~~~~g~~~~~~~~i~~~~~~~~~~~-~~~~~~~g~~~~~~~~~~~~~~~~~  100 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVTCQL-PIDRGGGEGKAMYIDTEGTFRPERL-LAVAERYGLSGSDVLDNVAYARAFN  100 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHTTS-CGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhC-chhcCCCCCeEEEEECCCCcCHHHH-HHHHHHcCCCHHHHhhCeEEEecCC
Confidence            5679999999999999999999886411 11    2357888887765444443 234455543210    0   01223


Q ss_pred             HHH---HHHHHHHHhc-CCcEEEEEecCCCc
Q 045709          233 MQE---KAQEIFKILS-KKKFVLLLDDIWEL  259 (337)
Q Consensus       233 ~~~---~~~~l~~~l~-~k~~LlVlDdv~~~  259 (337)
                      ..+   ....+...+. .+.-+||||++...
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~lliiD~~~~~  131 (243)
T 1n0w_A          101 TDHQTQLLYQASAMMVESRYALLIVDSATAL  131 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHSCEEEEEEETSSGG
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEEEeCchHH
Confidence            333   2333445553 46789999998654

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.62  E-value=9.4e-05  Score=62.11  Aligned_cols=116  Identities=15%  Similarity=0.121  Sum_probs=62.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---------------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---------------  228 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---------------  228 (337)
                      ...++.|+|.+|+|||||++.++.....   .-..++|+....  ....+...+. .++......               
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~---~~~~v~~~~~~~--~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~   95 (235)
T 2w0m_A           22 QGFFIALTGEPGTGKTIFSLHFIAKGLR---DGDPCIYVTTEE--SRDSIIRQAK-QFNWDFEEYIEKKLIIIDALMKEK   95 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHHHH---HTCCEEEEESSS--CHHHHHHHHH-HTTCCCGGGBTTTEEEEECCC---
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHH---CCCeEEEEEccc--CHHHHHHHHH-HhcchHHHHhhCCEEEEecccccc
Confidence            5679999999999999999999876521   112456665543  3344433332 343221100               


Q ss_pred             ------cCCCHHHHHHHHHHHhc-CCcE--EEEEecCCCcc--c---cccccCCCCC--CCCCCcEEEEeeCCh
Q 045709          229 ------KNKSMQEKAQEIFKILS-KKKF--VLLLDDIWELV--D---LDQVGLPIPS--RTSVSNKVVFTTREF  286 (337)
Q Consensus       229 ------~~~~~~~~~~~l~~~l~-~k~~--LlVlDdv~~~~--~---~~~l~~~l~~--~~~g~s~IiiTtr~~  286 (337)
                            ...+..+....+...+. .+.-  +||||.+....  +   ...+...+..  ...+ ..||++|+..
T Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~~~~~d~~~~~~~~~~l~~~~~~~~-~~vi~~~h~~  168 (235)
T 2w0m_A           96 EDQWSLVNLTPEELVNKVIEAKQKLGYGKARLVIDSVSALFLDKPAMARKISYYLKRVLNKWN-FTIYATSQYA  168 (235)
T ss_dssp             -CTTBCSSCCHHHHHHHHHHHHHHHCSSCEEEEEETGGGGSSSCGGGHHHHHHHHHHHHHHTT-EEEEEEEC--
T ss_pred             CceeeecCCCHHHHHHHHHHHHHhhCCCceEEEEECchHhhcCCHHHHHHHHHHHHHHHHhCC-CeEEEEeccC
Confidence                  11245555555555442 2444  99999986432  1   1111111111  1235 7899999876

>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=97.61  E-value=9.1e-05  Score=74.74  Aligned_cols=45  Identities=27%  Similarity=0.333  Sum_probs=36.9

Q ss_pred             ccccchhhHHHHHHHHhcC---------CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          145 TVVGLQLTFDRVWRCLMEE---------HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~~---------~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|.+..+..+...+...         ....+.|+|++|+|||++|+.+.+..
T Consensus       559 ~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~  612 (854)
T 1qvr_A          559 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL  612 (854)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             ccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999888887776431         22578999999999999999999887

>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=97.58  E-value=0.00033  Score=62.98  Aligned_cols=88  Identities=17%  Similarity=0.226  Sum_probs=58.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEI  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  240 (337)
                      ...++.|+|.+|+|||||+..++....   ..-..++|++....++..     .+..++...+..   ...+.++....+
T Consensus        60 ~G~iv~I~G~pGsGKTtLal~la~~~~---~~g~~vlyi~~E~~~~~~-----~a~~lG~~~~~l~i~~~~~~e~~l~~~  131 (349)
T 2zr9_A           60 RGRVIEIYGPESSGKTTVALHAVANAQ---AAGGIAAFIDAEHALDPE-----YAKKLGVDTDSLLVSQPDTGEQALEIA  131 (349)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---hCCCeEEEEECCCCcCHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            568999999999999999999987762   223467888887765543     245555432211   223455555555


Q ss_pred             HHHhc-CCcEEEEEecCCCc
Q 045709          241 FKILS-KKKFVLLLDDIWEL  259 (337)
Q Consensus       241 ~~~l~-~k~~LlVlDdv~~~  259 (337)
                      ..... .+.-+||+|.+...
T Consensus       132 ~~l~~~~~~~lIVIDsl~~l  151 (349)
T 2zr9_A          132 DMLVRSGALDIIVIDSVAAL  151 (349)
T ss_dssp             HHHHTTTCCSEEEEECGGGC
T ss_pred             HHHHhcCCCCEEEEcChHhh
Confidence            55554 45679999998654

>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=97.53  E-value=0.00081  Score=59.78  Aligned_cols=94  Identities=17%  Similarity=0.289  Sum_probs=60.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCC---CCCcEEEEEEecCccCHHHHHHHHHHHhCCCCcc-------ccCCCH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTP---NHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNES-------WKNKSM  233 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~  233 (337)
                      ...++.|+|.+|+|||||+..++.......   ..-..++|++....++...+. .++..++.....       ....+.
T Consensus       106 ~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~-~~~~~~g~~~~~~~~~l~~~~~~~~  184 (324)
T 2z43_A          106 TRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIE-NMAKALGLDIDNVMNNIYYIRAINT  184 (324)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHH-HHHHHhCCCHHHHhccEEEEeCCCH
Confidence            567999999999999999999987752110   013578999988876666654 345556543210       012233


Q ss_pred             H---HHHHHHHHHhc--CCcEEEEEecCCC
Q 045709          234 Q---EKAQEIFKILS--KKKFVLLLDDIWE  258 (337)
Q Consensus       234 ~---~~~~~l~~~l~--~k~~LlVlDdv~~  258 (337)
                      +   +....+...+.  .+.-+||+|.+..
T Consensus       185 ~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~  214 (324)
T 2z43_A          185 DHQIAIVDDLQELVSKDPSIKLIVVDSVTS  214 (324)
T ss_dssp             HHHHHHHHHHHHHHHHCTTEEEEEETTTTH
T ss_pred             HHHHHHHHHHHHHHHhccCCCEEEEeCcHH
Confidence            3   23445555554  4567999999864

>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=97.52  E-value=0.00098  Score=58.50  Aligned_cols=89  Identities=12%  Similarity=0.178  Sum_probs=59.3

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHH-HHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEK-AQEI  240 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~-~~~l  240 (337)
                      ..++.|+|.+|+|||||+.+++....+ ...-..++|++....++..     .+++++...+..   ...+.++. ...+
T Consensus        28 ~GiteI~G~pGsGKTtL~Lq~~~~~~~-~g~g~~vlyId~E~s~~~~-----ra~~lGvd~d~llv~~~~~~E~~~l~i~  101 (333)
T 3io5_A           28 SGLLILAGPSKSFKSNFGLTMVSSYMR-QYPDAVCLFYDSEFGITPA-----YLRSMGVDPERVIHTPVQSLEQLRIDMV  101 (333)
T ss_dssp             SEEEEEEESSSSSHHHHHHHHHHHHHH-HCTTCEEEEEESSCCCCHH-----HHHHTTCCGGGEEEEECSBHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHh-cCCCceEEEEeccchhhHH-----HHHHhCCCHHHeEEEcCCCHHHHHHHHH
Confidence            347899999999999999998877631 1123578999988777653     367777654322   23355555 4333


Q ss_pred             HHH--h-cCCcEEEEEecCCCc
Q 045709          241 FKI--L-SKKKFVLLLDDIWEL  259 (337)
Q Consensus       241 ~~~--l-~~k~~LlVlDdv~~~  259 (337)
                      ...  + .++.-|||+|.+...
T Consensus       102 ~~l~~i~~~~~~lvVIDSI~aL  123 (333)
T 3io5_A          102 NQLDAIERGEKVVVFIDSLGNL  123 (333)
T ss_dssp             HHHHTCCTTCCEEEEEECSTTC
T ss_pred             HHHHHhhccCceEEEEeccccc
Confidence            332  3 356789999998765

>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=97.51  E-value=0.0011  Score=59.51  Aligned_cols=94  Identities=16%  Similarity=0.184  Sum_probs=59.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCC----CCcEEEEEEecCccCHHHHHHHHHHHhCCCCc----c---ccCCC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPN----HFDFVIWVVVSRDLQLEKIQESIAKKIGLFNE----S---WKNKS  232 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----~---~~~~~  232 (337)
                      ...++.|+|.+|+|||||+..++..... ..    .-..++|++....++...+. .++..++....    .   ....+
T Consensus       121 ~G~i~~I~G~~GsGKTtla~~la~~~~~-~~~~gg~~~~vlyi~~E~~~~~~~l~-~~~~~~g~~~~~~l~~l~~~~~~~  198 (343)
T 1v5w_A          121 SMAITEAFGEFRTGKTQLSHTLCVTAQL-PGAGGYPGGKIIFIDTENTFRPDRLR-DIADRFNVDHDAVLDNVLYARAYT  198 (343)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTS-CBTTTBCCCEEEEEESSSCCCHHHHH-HHHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhc-ccccCCCCCeEEEEECCCCCCHHHHH-HHHHHcCCCHHHHHhceeEeecCC
Confidence            5689999999999999999999887521 11    23578899988876666554 34455544321    0   01112


Q ss_pred             H---HHHHHHHHHHhc---CCcEEEEEecCCCc
Q 045709          233 M---QEKAQEIFKILS---KKKFVLLLDDIWEL  259 (337)
Q Consensus       233 ~---~~~~~~l~~~l~---~k~~LlVlDdv~~~  259 (337)
                      .   .+....+...+.   .+.-+||+|.+...
T Consensus       199 ~e~~~~ll~~l~~~i~~~~~~~~lvVIDsl~~l  231 (343)
T 1v5w_A          199 SEHQMELLDYVAAKFHEEAGIFKLLIIDSIMAL  231 (343)
T ss_dssp             TTHHHHHHHHHHHHHHHSCSSEEEEEEETSGGG
T ss_pred             HHHHHHHHHHHHHHHHhcCCCccEEEEechHHH
Confidence            2   233344455553   45679999998643

>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=97.49  E-value=0.0002  Score=71.36  Aligned_cols=46  Identities=22%  Similarity=0.297  Sum_probs=37.3

Q ss_pred             CccccchhhHHHHHHHHhc---------CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLME---------EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++|.+..++.+...+..         .....+.++|++|+|||++|+.+.+..
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l  512 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            4578999988888777642         123478999999999999999999877

>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=97.49  E-value=0.00053  Score=61.95  Aligned_cols=88  Identities=17%  Similarity=0.191  Sum_probs=59.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEI  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  240 (337)
                      ...++.|+|.+|+||||||..++....   ..-..++|++....++..     .+..++...+..   ...+.++....+
T Consensus        73 ~G~li~I~G~pGsGKTtlal~la~~~~---~~g~~vlyi~~E~s~~~~-----~a~~~g~d~~~l~i~~~~~~e~~l~~l  144 (366)
T 1xp8_A           73 RGRITEIYGPESGGKTTLALAIVAQAQ---KAGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  144 (366)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHHH---HCCCeEEEEECCCChhHH-----HHHHcCCCHHHceeecCCcHHHHHHHH
Confidence            567899999999999999999988762   122468899988766543     245555432211   234556666666


Q ss_pred             HHHhc-CCcEEEEEecCCCc
Q 045709          241 FKILS-KKKFVLLLDDIWEL  259 (337)
Q Consensus       241 ~~~l~-~k~~LlVlDdv~~~  259 (337)
                      ...++ ...-+||+|.+...
T Consensus       145 ~~l~~~~~~~lVVIDsl~~l  164 (366)
T 1xp8_A          145 ELLVRSGAIDVVVVDSVAAL  164 (366)
T ss_dssp             HHHHTTTCCSEEEEECTTTC
T ss_pred             HHHHhcCCCCEEEEeChHHh
Confidence            66654 34569999998643

>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=97.44  E-value=0.00016  Score=63.70  Aligned_cols=71  Identities=18%  Similarity=0.337  Sum_probs=46.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEe--cCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVV--SRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIF  241 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~--~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  241 (337)
                      ..+++.|+|++|+|||+||..++... .  .   .++|++.  ...             +..     ...+.+.....+.
T Consensus       122 ~gsviLI~GpPGsGKTtLAlqlA~~~-G--~---~VlyIs~~~eE~-------------v~~-----~~~~le~~l~~i~  177 (331)
T 2vhj_A          122 ASGMVIVTGKGNSGKTPLVHALGEAL-G--G---KDKYATVRFGEP-------------LSG-----YNTDFNVFVDDIA  177 (331)
T ss_dssp             ESEEEEEECSCSSSHHHHHHHHHHHH-H--T---TSCCEEEEBSCS-------------STT-----CBCCHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHhC-C--C---CEEEEEecchhh-------------hhh-----hhcCHHHHHHHHH
Confidence            45678899999999999999998752 1  1   2345555  221             010     1134566666677


Q ss_pred             HHhcCCcEEEEEecCCCc
Q 045709          242 KILSKKKFVLLLDDIWEL  259 (337)
Q Consensus       242 ~~l~~k~~LlVlDdv~~~  259 (337)
                      +.+...+ +||+|++...
T Consensus       178 ~~l~~~~-LLVIDsI~aL  194 (331)
T 2vhj_A          178 RAMLQHR-VIVIDSLKNV  194 (331)
T ss_dssp             HHHHHCS-EEEEECCTTT
T ss_pred             HHHhhCC-EEEEeccccc
Confidence            7776666 9999999754

>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=97.43  E-value=0.00047  Score=62.08  Aligned_cols=88  Identities=19%  Similarity=0.189  Sum_probs=57.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEI  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  240 (337)
                      ...++.|.|.+|+||||||..++....   ..-..++|++....++..     .+..++...+.+   ...+.++....+
T Consensus        62 ~G~ii~I~G~pGsGKTtLal~la~~~~---~~g~~vlyid~E~s~~~~-----~a~~~g~~~~~l~i~~~~~~e~~~~~~  133 (356)
T 1u94_A           62 MGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEIC  133 (356)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEeCCCCccHH-----HHHHcCCChhheeeeCCCCHHHHHHHH
Confidence            567999999999999999999988763   122368899887766543     245555432211   122445555555


Q ss_pred             HHHhc-CCcEEEEEecCCCc
Q 045709          241 FKILS-KKKFVLLLDDIWEL  259 (337)
Q Consensus       241 ~~~l~-~k~~LlVlDdv~~~  259 (337)
                      ..... .+.-+||+|.+...
T Consensus       134 ~~l~~~~~~~lVVIDsl~~l  153 (356)
T 1u94_A          134 DALARSGAVDVIVVDSVAAL  153 (356)
T ss_dssp             HHHHHHTCCSEEEEECGGGC
T ss_pred             HHHHhccCCCEEEEcCHHHh
Confidence            44432 45569999987543

>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=97.42  E-value=8.8e-05  Score=60.54  Aligned_cols=116  Identities=20%  Similarity=0.210  Sum_probs=63.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC---ccCHHHHHHHHHHHhCCC----Cccc--cCC---
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR---DLQLEKIQESIAKKIGLF----NESW--KNK---  231 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~---~~~~~~~~~~i~~~l~~~----~~~~--~~~---  231 (337)
                      ....|.|++.+|.||||+|--..-+..   ++-..+.++....   ......++..    ++..    ...+  ...   
T Consensus        27 ~~g~i~v~tG~GkGKTTaA~GlalRA~---g~G~rV~~vQF~Kg~~~~gE~~~l~~----L~v~~~~~g~gf~~~~~~~~   99 (196)
T 1g5t_A           27 ERGIIIVFTGNGKGKTTAAFGTAARAV---GHGKNVGVVQFIKGTWPNGERNLLEP----HGVEFQVMATGFTWETQNRE   99 (196)
T ss_dssp             CCCCEEEEESSSSCHHHHHHHHHHHHH---HTTCCEEEEESSCCSSCCHHHHHHGG----GTCEEEECCTTCCCCGGGHH
T ss_pred             cCceEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEEeeCCCCCccHHHHHHh----CCcEEEEcccccccCCCCcH
Confidence            346777888888999999998887772   3333455554333   2233333333    3210    0011  111   


Q ss_pred             ----CHHHHHHHHHHHhcCCcE-EEEEecCCCc-----cccccccCCCCCCCCCCcEEEEeeCChh
Q 045709          232 ----SMQEKAQEIFKILSKKKF-VLLLDDIWEL-----VDLDQVGLPIPSRTSVSNKVVFTTREFG  287 (337)
Q Consensus       232 ----~~~~~~~~l~~~l~~k~~-LlVlDdv~~~-----~~~~~l~~~l~~~~~g~s~IiiTtr~~~  287 (337)
                          ........+++.+.+.+| |||||++-..     ...+.+...+...... ..||+|+|+..
T Consensus       100 ~~~~~a~~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~-~~vIlTGr~ap  164 (196)
T 1g5t_A          100 ADTAACMAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGH-QTVIITGRGCH  164 (196)
T ss_dssp             HHHHHHHHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTT-CEEEEECSSCC
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCC-CEEEEECCCCc
Confidence                112234455566666555 9999998432     2233333333333344 79999999853

>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=97.42  E-value=5.2e-05  Score=63.57  Aligned_cols=112  Identities=15%  Similarity=-0.030  Sum_probs=61.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFK  242 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  242 (337)
                      .+..++.|+|..|+||||++..+.++..   .+-..++.+.......   ....++..++...+.....+..+....+.+
T Consensus        10 ~~G~i~litG~mGsGKTT~ll~~~~r~~---~~g~kVli~~~~~d~r---~~~~i~srlG~~~~~~~~~~~~~i~~~i~~   83 (223)
T 2b8t_A           10 KIGWIEFITGPMFAGKTAELIRRLHRLE---YADVKYLVFKPKIDTR---SIRNIQSRTGTSLPSVEVESAPEILNYIMS   83 (223)
T ss_dssp             -CCEEEEEECSTTSCHHHHHHHHHHHHH---HTTCCEEEEEECCCGG---GCSSCCCCCCCSSCCEEESSTHHHHHHHHS
T ss_pred             CCcEEEEEECCCCCcHHHHHHHHHHHHH---hcCCEEEEEEeccCch---HHHHHHHhcCCCccccccCCHHHHHHHHHH
Confidence            3567999999999999999999888872   2222344443332211   122344445543322222334445555555


Q ss_pred             HhcCCcE-EEEEecCCCc--cccccccCCCCCCCCCCcEEEEeeC
Q 045709          243 ILSKKKF-VLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTTR  284 (337)
Q Consensus       243 ~l~~k~~-LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTtr  284 (337)
                      .+.+.++ +||+|++...  +.++.+ ..+.+  .+ -.||+|-+
T Consensus        84 ~~~~~~~dvViIDEaQ~l~~~~ve~l-~~L~~--~g-i~Vil~Gl  124 (223)
T 2b8t_A           84 NSFNDETKVIGIDEVQFFDDRICEVA-NILAE--NG-FVVIISGL  124 (223)
T ss_dssp             TTSCTTCCEEEECSGGGSCTHHHHHH-HHHHH--TT-CEEEEECC
T ss_pred             HhhCCCCCEEEEecCccCcHHHHHHH-HHHHh--CC-CeEEEEec
Confidence            4444444 9999999653  222222 11212  24 67888887

>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=97.42  E-value=0.00068  Score=57.42  Aligned_cols=27  Identities=26%  Similarity=0.505  Sum_probs=23.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||++.+..-.
T Consensus        29 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           29 PEGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            356799999999999999999997654

>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=97.38  E-value=0.00037  Score=65.06  Aligned_cols=46  Identities=24%  Similarity=0.229  Sum_probs=36.3

Q ss_pred             CccccchhhHHHHHHHH---hcC--CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCL---MEE--HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L---~~~--~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++|.++.++.+..++   ...  ..+-+.++|++|+|||+||+.+++..
T Consensus        37 ~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l   87 (456)
T 2c9o_A           37 SGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQEL   87 (456)
T ss_dssp             TTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHh
Confidence            56899998877655443   332  34578899999999999999999988

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=97.35  E-value=0.0026  Score=53.49  Aligned_cols=26  Identities=31%  Similarity=0.519  Sum_probs=23.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|++|+|||||.+.++.-.
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           33 RGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            56799999999999999999997765

>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=97.29  E-value=0.0006  Score=67.56  Aligned_cols=165  Identities=15%  Similarity=0.124  Sum_probs=77.8

Q ss_pred             CccccchhhHHHHHHHHhc-------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH
Q 045709          144 PTVVGLQLTFDRVWRCLME-------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL  210 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~  210 (337)
                      .++.|.++.++.|.+.+.-             ...+-+.++|++|+|||.||+.+++..   ...|     +.++    .
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~---~~~f-----~~v~----~  544 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QANF-----ISIK----G  544 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTT---TCEE-----EECC----H
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHh---CCce-----EEec----c
Confidence            4466778777777665431             134557899999999999999999987   2222     2222    2


Q ss_pred             HHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc----------------cccccCCCC--CC
Q 045709          211 EKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD----------------LDQVGLPIP--SR  272 (337)
Q Consensus       211 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~l~--~~  272 (337)
                      .++    +...       ...+...+.+.+...-+..+++|+||+++....                ..++...+.  ..
T Consensus       545 ~~l----~s~~-------vGese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~  613 (806)
T 3cf2_A          545 PEL----LTMW-------FGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST  613 (806)
T ss_dssp             HHH----HTTT-------CSSCHHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCS
T ss_pred             chh----hccc-------cchHHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCC
Confidence            222    1111       223333333333333356789999999975311                111111111  11


Q ss_pred             CCCCcEEEEeeCChhH-----HhhccCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHH
Q 045709          273 TSVSNKVVFTTREFGV-----CGQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAE  332 (337)
Q Consensus       273 ~~g~s~IiiTtr~~~v-----~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~  332 (337)
                      ..+ --||-||.....     ...-.-...+.++.-+.++-.++|+.+........+-++..+|+
T Consensus       614 ~~~-V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~~~~dl~~la~  677 (806)
T 3cf2_A          614 KKN-VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAK  677 (806)
T ss_dssp             SSS-EEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--CCC--------
T ss_pred             CCC-EEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCCCCCCHHHHHH
Confidence            122 223335543332     11112346777877777777778876664332222334444443

>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=97.28  E-value=0.0015  Score=57.98  Aligned_cols=94  Identities=14%  Similarity=0.241  Sum_probs=59.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccC-----------CCCC--cEEEEEEecCccCHHHHHHHHHHHhCCCCcc---
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDT-----------PNHF--DFVIWVVVSRDLQLEKIQESIAKKIGLFNES---  227 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-----------~~~f--~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~---  227 (337)
                      ...++.|+|.+|+|||+||..++......           .+..  ..++|++....++...+. .++..++.....   
T Consensus        97 ~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~~~l~-~~~~~~g~~~~~~~~  175 (322)
T 2i1q_A           97 SQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPERIM-QMAEHAGIDGQTVLD  175 (322)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHHHHH-HHHHHHTCCHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCHHHHH-HHHHHcCCCHHHHhc
Confidence            56899999999999999999998763110           1111  578999988877666655 345556543210   


Q ss_pred             ----ccCCCHH---HHHHHHHHHhcC--CcEEEEEecCCC
Q 045709          228 ----WKNKSMQ---EKAQEIFKILSK--KKFVLLLDDIWE  258 (337)
Q Consensus       228 ----~~~~~~~---~~~~~l~~~l~~--k~~LlVlDdv~~  258 (337)
                          ....+.+   +....+...+..  +.-+||+|.+..
T Consensus       176 ~l~~~~~~~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~  215 (322)
T 2i1q_A          176 NTFVARAYNSDMQMLFAEKIEDLIQEGNNIKLVVIDSLTS  215 (322)
T ss_dssp             TEEEEECSSHHHHHHHHHTHHHHHHTTCEEEEEEEECSSH
T ss_pred             CEEEEeCCCHHHHHHHHHHHHHHHhhccCccEEEEECcHH
Confidence                1122333   234455555543  456999999854

>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=97.26  E-value=0.0019  Score=53.96  Aligned_cols=94  Identities=20%  Similarity=0.249  Sum_probs=52.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCC---CCCcEEEEEEecCccCHHHHHHHHHHHhCCCCcc-------ccCCCH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTP---NHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNES-------WKNKSM  233 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~---~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~  233 (337)
                      ...+++|+|++|+|||||++.++.......   ......+|+.......... ...+.+..+.....       ....+.
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~~-i~~~~~~~~~~~~~~~~~~~~~~~~~~  102 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPER-IREIAQNRGLDPDEVLKHIYVARAFNS  102 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHH-HHHHHHHTTSCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHHH-HHHHHHHcCCCHHHHhhcEEEEecCCh
Confidence            568999999999999999999987541100   1234678887655433333 23344444332110       011111


Q ss_pred             H---HHHHHHHHHh------cCCcEEEEEecCCC
Q 045709          234 Q---EKAQEIFKIL------SKKKFVLLLDDIWE  258 (337)
Q Consensus       234 ~---~~~~~l~~~l------~~k~~LlVlDdv~~  258 (337)
                      .   .....+...+      ..++-+||||+...
T Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~~llilDe~~~  136 (231)
T 4a74_A          103 NHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTS  136 (231)
T ss_dssp             HHHHHHHHHHHHHHHHHTTSSSCEEEEEEETSSH
T ss_pred             HHHHHHHHHHHHHHHHhcccCCceeEEEECChHH
Confidence            1   1123333333      34677999998865

>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=97.21  E-value=0.0033  Score=57.41  Aligned_cols=94  Identities=13%  Similarity=0.184  Sum_probs=56.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccC---CCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCcc-------ccCCCH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDT---PNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNES-------WKNKSM  233 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~  233 (337)
                      ...++.|+|.+|+|||||+..++-.....   ...-..++|++....+....+ ..++..++.....       ....+.
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl-~~~a~~~gl~~~~vleni~~~~~~~~  255 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL-VSIAQRFGLDPDDALNNVAYARAYNA  255 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH-HHHHHHTTCCHHHHHHTEEEEECCSH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHH-HHHHHHcCCChHhHhhcEEEeccCCh
Confidence            56899999999999999999876443110   113356889887766555543 3466666543210       012222


Q ss_pred             HH---HHHHHHHHh-cCCcEEEEEecCCC
Q 045709          234 QE---KAQEIFKIL-SKKKFVLLLDDIWE  258 (337)
Q Consensus       234 ~~---~~~~l~~~l-~~k~~LlVlDdv~~  258 (337)
                      ..   ....+...+ ..+.-+||+|.+..
T Consensus       256 ~~~~~~l~~~~~~l~~~~~~llVIDs~t~  284 (400)
T 3lda_A          256 DHQLRLLDAAAQMMSESRFSLIVVDSVMA  284 (400)
T ss_dssp             HHHHHHHHHHHHHHHHSCEEEEEEETGGG
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEecchhh
Confidence            22   223333333 34677999998754

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.19  E-value=0.00048  Score=60.83  Aligned_cols=40  Identities=23%  Similarity=0.346  Sum_probs=30.0

Q ss_pred             hhhHHHHHHHHhcC---CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          150 QLTFDRVWRCLMEE---HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       150 ~~~~~~l~~~L~~~---~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+..+.+++...   ....+.|+|++|+|||+||..+++..
T Consensus       134 ~~~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~  176 (308)
T 2qgz_A          134 MEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHEL  176 (308)
T ss_dssp             HHHHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            33444555565542   25788999999999999999999987

>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=97.16  E-value=0.00029  Score=62.97  Aligned_cols=46  Identities=28%  Similarity=0.272  Sum_probs=37.0

Q ss_pred             CccccchhhHHHHHHHHhc-----CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLME-----EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++|.+..++.+...+..     .....+.|+|++|+||||||+.+++..
T Consensus        25 ~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           25 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            4578988877777666643     234679999999999999999999987

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.14  E-value=0.00061  Score=56.07  Aligned_cols=42  Identities=24%  Similarity=0.410  Sum_probs=33.9

Q ss_pred             cchhhHHHHHHHHhc---CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          148 GLQLTFDRVWRCLME---EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       148 Gr~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|++.++.|.+.+..   ....+++|.|.+|+|||||++.+....
T Consensus         2 ~~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~   46 (201)
T 1rz3_A            2 ELRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (201)
T ss_dssp             CHHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            355667777777764   356799999999999999999998766

>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=97.09  E-value=0.0053  Score=55.18  Aligned_cols=128  Identities=20%  Similarity=0.174  Sum_probs=70.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCC--CC-----------------cEEEEEEecC----ccCH---------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPN--HF-----------------DFVIWVVVSR----DLQL---------  210 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--~f-----------------~~~~wv~~~~----~~~~---------  210 (337)
                      ....+++|+|++|+|||||++.+..-.....+  .|                 ..+.++.-..    ..++         
T Consensus        52 ~~Gei~~IiGpnGaGKSTLlr~i~GL~~p~~G~I~i~G~~i~~~~~~~~~~~r~~Ig~v~Q~~~l~~~~TV~env~~~~~  131 (366)
T 3tui_C           52 PAGQIYGVIGASGAGKSTLIRCVNLLERPTEGSVLVDGQELTTLSESELTKARRQIGMIFQHFNLLSSRTVFGNVALPLE  131 (366)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECSSCCHHHHHHHHTTEEEECSSCCCCTTSCHHHHHHHHHH
T ss_pred             cCCCEEEEEcCCCchHHHHHHHHhcCCCCCceEEEECCEECCcCCHHHHHHHhCcEEEEeCCCccCCCCCHHHHHHHHHH
Confidence            46789999999999999999999764410000  00                 0122332110    1111         


Q ss_pred             ---------HHHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc---cccCCCCC--C
Q 045709          211 ---------EKIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD---QVGLPIPS--R  272 (337)
Q Consensus       211 ---------~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~--~  272 (337)
                               .+-..+++..++...   ......+..+.++. |.+.|..++-+|++|+.-+..+..   .+...+..  .
T Consensus       132 ~~~~~~~~~~~~v~~lL~~vgL~~~~~~~~~~LSGGqkQRVaIArAL~~~P~lLLlDEPTs~LD~~~~~~i~~lL~~l~~  211 (366)
T 3tui_C          132 LDNTPKDEVKRRVTELLSLVGLGDKHDSYPSNLSGGQKQRVAIARALASNPKVLLCDQATSALDPATTRSILELLKDINR  211 (366)
T ss_dssp             HSCCCHHHHHHHHHHHHHHHTCGGGTTCCTTTSCHHHHHHHHHHHHTTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHH
T ss_pred             hcCCCHHHHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHHhcCCCEEEEECCCccCCHHHHHHHHHHHHHHHH
Confidence                     112334555555532   11244555555443 667788889999999986643311   11111111  1


Q ss_pred             CCCCcEEEEeeCChhHHhh
Q 045709          273 TSVSNKVVFTTREFGVCGQ  291 (337)
Q Consensus       273 ~~g~s~IiiTtr~~~v~~~  291 (337)
                      ..| ..||++|++-+++..
T Consensus       212 ~~g-~Tii~vTHdl~~~~~  229 (366)
T 3tui_C          212 RLG-LTILLITHEMDVVKR  229 (366)
T ss_dssp             HSC-CEEEEEESCHHHHHH
T ss_pred             hCC-CEEEEEecCHHHHHH
Confidence            235 789999999776544

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.08  E-value=0.00053  Score=56.74  Aligned_cols=39  Identities=26%  Similarity=0.282  Sum_probs=30.7

Q ss_pred             hhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          151 LTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       151 ~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.++.|.+.+..  .+..+++|+|++|+|||||++.+....
T Consensus         6 ~~~~~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A            6 ALCQGVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             HHHHHHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            345556565543  457899999999999999999998877

>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=97.08  E-value=0.0027  Score=56.98  Aligned_cols=95  Identities=21%  Similarity=0.268  Sum_probs=55.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC---CcEEEEEEecCccCHHHHHHHHHHHhCCCCcc------c-cCCC-
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH---FDFVIWVVVSRDLQLEKIQESIAKKIGLFNES------W-KNKS-  232 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~---f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~------~-~~~~-  232 (337)
                      ...++.|+|.+|+|||||+..++.........   -..++|++....+....+ ..+.+..+.....      . ...+ 
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i-~~i~q~~~~~~~~v~~ni~~~~~~~~  208 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI-REIAQNRGLDPDEVLKHIYVARAFNS  208 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH-HHHHHTTTCCHHHHGGGEEEEECCSH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHH-HHHHHHcCCCHHHHhhCEEEEecCCh
Confidence            67899999999999999999998876211001   124588887665433333 3344444332100      0 1111 


Q ss_pred             --HHHHHHHHHHHhc------CCcEEEEEecCCCc
Q 045709          233 --MQEKAQEIFKILS------KKKFVLLLDDIWEL  259 (337)
Q Consensus       233 --~~~~~~~l~~~l~------~k~~LlVlDdv~~~  259 (337)
                        ..+....+...+.      .+.-+||+|.+-..
T Consensus       209 ~~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta~  243 (349)
T 1pzn_A          209 NHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSH  243 (349)
T ss_dssp             HHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSSTT
T ss_pred             HHHHHHHHHHHHHHHHhccccCCCCEEEEeCchHh
Confidence              2233444555554      46789999998654

>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=97.01  E-value=0.0046  Score=57.03  Aligned_cols=26  Identities=31%  Similarity=0.539  Sum_probs=23.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+|.++|.+|+||||++..++..+
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l  124 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYF  124 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHH
Confidence            46899999999999999999998877

>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=97.00  E-value=0.00013  Score=65.83  Aligned_cols=116  Identities=15%  Similarity=0.166  Sum_probs=64.0

Q ss_pred             cCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHH
Q 045709          162 EEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIF  241 (337)
Q Consensus       162 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~  241 (337)
                      .....+++|+|++|+|||||.+.+......  ..-..++.+.-...+....       ....-...............+.
T Consensus       120 ~~~~g~i~I~GptGSGKTTlL~~l~g~~~~--~~~~~i~t~ed~~e~~~~~-------~~~~v~q~~~~~~~~~~~~~La  190 (356)
T 3jvv_A          120 DVPRGLVLVTGPTGSGKSTTLAAMLDYLNN--TKYHHILTIEDPIEFVHES-------KKCLVNQREVHRDTLGFSEALR  190 (356)
T ss_dssp             HCSSEEEEEECSTTSCHHHHHHHHHHHHHH--HCCCEEEEEESSCCSCCCC-------SSSEEEEEEBTTTBSCHHHHHH
T ss_pred             hCCCCEEEEECCCCCCHHHHHHHHHhcccC--CCCcEEEEccCcHHhhhhc-------cccceeeeeeccccCCHHHHHH
Confidence            345669999999999999999998776621  1111222221111110000       0000000000011122344788


Q ss_pred             HHhcCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHHh
Q 045709          242 KILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG  290 (337)
Q Consensus       242 ~~l~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~  290 (337)
                      ..|...+=+|++|++.+.+.++.+...   ...| ..||+||+..+...
T Consensus       191 ~aL~~~PdvillDEp~d~e~~~~~~~~---~~~G-~~vl~t~H~~~~~~  235 (356)
T 3jvv_A          191 SALREDPDIILVGEMRDLETIRLALTA---AETG-HLVFGTLHTTSAAK  235 (356)
T ss_dssp             HHTTSCCSEEEESCCCSHHHHHHHHHH---HHTT-CEEEEEESCSSHHH
T ss_pred             HHhhhCcCEEecCCCCCHHHHHHHHHH---HhcC-CEEEEEEccChHHH
Confidence            888889999999999876555543222   1235 67999998866543

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=96.94  E-value=0.0034  Score=54.94  Aligned_cols=86  Identities=16%  Similarity=0.166  Sum_probs=46.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc-cCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD-LQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFK  242 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  242 (337)
                      +..+++++|.+|+||||++..++..+....+  ..+..+..... ....+.+.......+.+..  ...+...+...+. 
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G--~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~--~~~~~~~l~~al~-  178 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKH--KKIAFITTDTYRIAAVEQLKTYAELLQAPLE--VCYTKEEFQQAKE-  178 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTC--CCEEEEECCCSSTTHHHHHHHHHTTTTCCCC--BCSSHHHHHHHHH-
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcC--CEEEEEecCcccchHHHHHHHHHHhcCCCeE--ecCCHHHHHHHHH-
Confidence            4679999999999999999999887721122  23555554332 2233333333333333221  1223333332233 


Q ss_pred             HhcCCcEEEEEec
Q 045709          243 ILSKKKFVLLLDD  255 (337)
Q Consensus       243 ~l~~k~~LlVlDd  255 (337)
                      .+ .+.=++|+|-
T Consensus       179 ~~-~~~dlvIiDT  190 (296)
T 2px0_A          179 LF-SEYDHVFVDT  190 (296)
T ss_dssp             HG-GGSSEEEEEC
T ss_pred             Hh-cCCCEEEEeC
Confidence            33 3345788883

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=96.92  E-value=0.0065  Score=55.92  Aligned_cols=26  Identities=31%  Similarity=0.363  Sum_probs=23.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..++.++|.+|+||||++..++..+
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l  121 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFY  121 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999999998877

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.92  E-value=0.0051  Score=54.33  Aligned_cols=52  Identities=12%  Similarity=0.081  Sum_probs=36.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAK  219 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  219 (337)
                      ....++.|.|.+|+|||||+..++.... ..+  ..++|++...  +...+...+..
T Consensus        66 ~~G~l~li~G~pG~GKTtl~l~ia~~~a-~~g--~~vl~~slE~--s~~~l~~R~~~  117 (315)
T 3bh0_A           66 KRRNFVLIAARPSMGKTAFALKQAKNMS-DND--DVVNLHSLEM--GKKENIKRLIV  117 (315)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHHHHH-TTT--CEEEEEESSS--CHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHH-HcC--CeEEEEECCC--CHHHHHHHHHH
Confidence            3567999999999999999999987762 222  5788887653  44444444443

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.91  E-value=0.0062  Score=53.14  Aligned_cols=41  Identities=15%  Similarity=0.115  Sum_probs=30.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEec
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVS  205 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~  205 (337)
                      ....+++|+|.+|+|||||++.++.....  ..-..++|++..
T Consensus        33 ~~G~~~~i~G~~G~GKTTl~~~ia~~~~~--~~G~~v~~~~~e   73 (296)
T 1cr0_A           33 RGGEVIMVTSGSGMGKSTFVRQQALQWGT--AMGKKVGLAMLE   73 (296)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHHHHHH--TSCCCEEEEESS
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHHHHH--HcCCeEEEEeCc
Confidence            46679999999999999999999887721  111246666543

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=96.91  E-value=4.5e-05  Score=62.13  Aligned_cols=25  Identities=24%  Similarity=0.173  Sum_probs=21.3

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++.|+|+.|+||||++..++.+.
T Consensus         3 g~i~vi~G~~gsGKTT~ll~~~~~~   27 (184)
T 2orw_A            3 GKLTVITGPMYSGKTTELLSFVEIY   27 (184)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHH
Confidence            3578899999999999997777665

>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=96.89  E-value=0.0048  Score=54.81  Aligned_cols=27  Identities=30%  Similarity=0.537  Sum_probs=24.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|++|+||||+++.++..+
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            457899999999999999999998877

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=96.89  E-value=0.00061  Score=61.37  Aligned_cols=51  Identities=14%  Similarity=0.062  Sum_probs=33.5

Q ss_pred             HHHHHhc-CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc
Q 045709          156 VWRCLME-EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD  207 (337)
Q Consensus       156 l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~  207 (337)
                      .++.+.. .....++|+|.+|+|||||++.+.+........+.+ +++-+...
T Consensus       164 aID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~-I~~lIGER  215 (422)
T 3ice_A          164 VLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVL-MVLLIDER  215 (422)
T ss_dssp             HHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEE-EEEEESSC
T ss_pred             eeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeE-EEEEecCC
Confidence            3344433 467799999999999999999988765211123333 45666654

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=96.88  E-value=0.00067  Score=55.08  Aligned_cols=26  Identities=31%  Similarity=0.369  Sum_probs=22.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      .+..+++|+|++|+|||||++.+...
T Consensus         7 ~~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            7 LGGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             CTTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHhc
Confidence            34678999999999999999999765

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=96.85  E-value=0.0048  Score=54.19  Aligned_cols=90  Identities=16%  Similarity=0.182  Sum_probs=49.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH--HHHHHHHHHHhCCCCcc-ccCCCHHHH-HHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL--EKIQESIAKKIGLFNES-WKNKSMQEK-AQE  239 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~~~-~~~~~~~~~-~~~  239 (337)
                      ...++.|+|.+|+||||++..++..+.   ..-..+.++.... +..  .+-+...+...+...-. ....+.... ...
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~---~~g~kV~lv~~D~-~r~~a~eqL~~~~~~~gl~~~~~~s~~~~~~v~~~a  178 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFV---DEGKSVVLAAADT-FRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDA  178 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH---HTTCCEEEEEECT-TCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHH---hcCCEEEEEcccc-ccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHH
Confidence            467999999999999999999988772   1222345555432 222  12233445555432110 012223222 233


Q ss_pred             HHHHhcCCcEEEEEecCC
Q 045709          240 IFKILSKKKFVLLLDDIW  257 (337)
Q Consensus       240 l~~~l~~k~~LlVlDdv~  257 (337)
                      +...+..+.-++|+|..-
T Consensus       179 l~~a~~~~~dvvIiDtpg  196 (306)
T 1vma_A          179 VAHALARNKDVVIIDTAG  196 (306)
T ss_dssp             HHHHHHTTCSEEEEEECC
T ss_pred             HHHHHhcCCCEEEEECCC
Confidence            444454555588889764

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.85  E-value=0.0038  Score=52.58  Aligned_cols=40  Identities=25%  Similarity=0.184  Sum_probs=30.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      ...++.|.|.+|+|||||+..++.....   .-..++|++...
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~~~~~---~~~~v~~~~~e~   61 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLWNGLK---MGEPGIYVALEE   61 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHHHH---TTCCEEEEESSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHh---cCCeEEEEEccC
Confidence            5679999999999999999888766521   223577777554

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=96.85  E-value=0.00093  Score=59.44  Aligned_cols=44  Identities=23%  Similarity=0.357  Sum_probs=37.8

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.++|++..+..+...+...  ..+.++|++|+|||+||+.+.+..
T Consensus        27 ~~i~g~~~~~~~l~~~l~~~--~~vll~G~pGtGKT~la~~la~~~   70 (331)
T 2r44_A           27 KVVVGQKYMINRLLIGICTG--GHILLEGVPGLAKTLSVNTLAKTM   70 (331)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT--CCEEEESCCCHHHHHHHHHHHHHT
T ss_pred             cceeCcHHHHHHHHHHHHcC--CeEEEECCCCCcHHHHHHHHHHHh
Confidence            35899999999888887654  468899999999999999998876

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.84  E-value=0.00089  Score=54.96  Aligned_cols=29  Identities=24%  Similarity=0.544  Sum_probs=25.6

Q ss_pred             hcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          161 MEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       161 ~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ......+|.|+|++|+|||||++.+....
T Consensus        21 ~~~~g~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           21 LDQKGCVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             HTSCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            33567899999999999999999998877

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.83  E-value=0.00077  Score=55.37  Aligned_cols=27  Identities=30%  Similarity=0.422  Sum_probs=23.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||++.+....
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            456799999999999999999998766

>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=96.83  E-value=0.00076  Score=54.07  Aligned_cols=25  Identities=16%  Similarity=0.320  Sum_probs=22.7

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|.|.|++|+||||+++.+....
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            3578999999999999999998876

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.78  E-value=0.00085  Score=54.12  Aligned_cols=25  Identities=20%  Similarity=0.372  Sum_probs=22.7

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+++|+|++|+|||||++.+....
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999998865

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.77  E-value=0.0009  Score=54.88  Aligned_cols=26  Identities=31%  Similarity=0.289  Sum_probs=23.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+|.|+|++|+||||+++.+....
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999999877

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.76  E-value=0.00086  Score=53.29  Aligned_cols=24  Identities=17%  Similarity=0.217  Sum_probs=22.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+|.|.|++|+||||+++.+...+
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            478999999999999999998876

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.74  E-value=0.00085  Score=53.33  Aligned_cols=23  Identities=22%  Similarity=0.404  Sum_probs=20.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+|.|.|++|+||||+++.+ ...
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L-~~~   24 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL-KER   24 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH-HHT
T ss_pred             cEEEEECCCCCCHHHHHHHH-HHC
Confidence            47899999999999999999 544

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.72  E-value=0.00097  Score=54.73  Aligned_cols=26  Identities=23%  Similarity=0.384  Sum_probs=23.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|++|+|||||++.+....
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            45789999999999999999998765

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.72  E-value=0.0011  Score=53.71  Aligned_cols=27  Identities=37%  Similarity=0.533  Sum_probs=24.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+|.|.|++|+||||+++.+....
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~~l   37 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLADLL   37 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            356789999999999999999998887

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.70  E-value=0.0009  Score=53.34  Aligned_cols=24  Identities=29%  Similarity=0.360  Sum_probs=22.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+|+|+|++|+|||||++.+....
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998876

>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=96.69  E-value=0.0019  Score=58.23  Aligned_cols=45  Identities=20%  Similarity=0.172  Sum_probs=36.7

Q ss_pred             ccccchhhHHHHHHHHh-------------c--CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          145 TVVGLQLTFDRVWRCLM-------------E--EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~-------------~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|.+..++.+...+.             .  .....+.++|++|+|||++|+.+++..
T Consensus        16 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           16 YVIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             HCCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             hccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            36899988888887772             1  134678999999999999999999877

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=96.67  E-value=0.006  Score=61.67  Aligned_cols=124  Identities=18%  Similarity=0.165  Sum_probs=69.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhcc---CCCCCcEEEEEEec-----CccCH-----------HHHHHHHHHHhCCC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFD---TPNHFDFVIWVVVS-----RDLQL-----------EKIQESIAKKIGLF  224 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~~~f~~~~wv~~~-----~~~~~-----------~~~~~~i~~~l~~~  224 (337)
                      ...+++|+|.+|+|||||++.+......   ..... ...++.-.     ...++           ..-...++..++..
T Consensus       460 ~Ge~v~LiGpNGsGKSTLLk~LagG~i~g~~~~~~~-~~~~v~q~~~~~~~~ltv~e~l~~~~~~~~~~v~~~L~~lgL~  538 (986)
T 2iw3_A          460 RARRYGICGPNGCGKSTLMRAIANGQVDGFPTQEEC-RTVYVEHDIDGTHSDTSVLDFVFESGVGTKEAIKDKLIEFGFT  538 (986)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHTCSTTCCCTTTS-CEEETTCCCCCCCTTSBHHHHHHTTCSSCHHHHHHHHHHTTCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcCCCccccce-eEEEEcccccccccCCcHHHHHHHhhcCHHHHHHHHHHHcCCC
Confidence            5678999999999999999999853100   00111 12222110     01111           22334566666663


Q ss_pred             C----ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCcccc---ccccCCCCCCCCCCcEEEEeeCChhHHhh
Q 045709          225 N----ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDL---DQVGLPIPSRTSVSNKVVFTTREFGVCGQ  291 (337)
Q Consensus       225 ~----~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~---~~l~~~l~~~~~g~s~IiiTtr~~~v~~~  291 (337)
                      .    ......+..+.++. |...|-.++-+|+||+--+..+.   ..+...+..  .| ..||++|++......
T Consensus       539 ~~~~~~~~~~LSGGqkQRvaLArAL~~~P~lLLLDEPTs~LD~~~~~~l~~~L~~--~g-~tvIivSHdl~~l~~  610 (986)
T 2iw3_A          539 DEMIAMPISALSGGWKMKLALARAVLRNADILLLDEPTNHLDTVNVAWLVNYLNT--CG-ITSITISHDSVFLDN  610 (986)
T ss_dssp             HHHHHSBGGGCCHHHHHHHHHHHHHHTTCSEEEEESTTTTCCHHHHHHHHHHHHH--SC-SEEEEECSCHHHHHH
T ss_pred             hhhhcCCcccCCHHHHHHHHHHHHHhcCCCEEEEECCccCCCHHHHHHHHHHHHh--CC-CEEEEEECCHHHHHH
Confidence            1    12245565554443 55666778889999997665332   112222222  35 789999998776544

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=96.66  E-value=0.0086  Score=55.02  Aligned_cols=26  Identities=27%  Similarity=0.377  Sum_probs=23.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..++.++|.+|+||||++..++..+
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l  122 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYY  122 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35789999999999999999998887

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.66  E-value=0.0068  Score=50.00  Aligned_cols=23  Identities=26%  Similarity=0.352  Sum_probs=21.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +|.|.|++|+||+|.|+.+...+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999999887

>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=96.65  E-value=0.00098  Score=59.60  Aligned_cols=46  Identities=20%  Similarity=0.246  Sum_probs=34.9

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++|.+..+..+...+......-+.|+|.+|+|||+||+.+.+..
T Consensus        24 ~~i~G~~~~~~~l~~~~~~~~~~~vLl~G~~GtGKT~la~~la~~~   69 (350)
T 1g8p_A           24 SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAALL   69 (350)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHHHS
T ss_pred             hhccChHHHHHHHHHHhhCCCCceEEEECCCCccHHHHHHHHHHhC
Confidence            3589988866665444443333458899999999999999999876

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=96.64  E-value=0.0016  Score=61.21  Aligned_cols=44  Identities=14%  Similarity=0.135  Sum_probs=37.4

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.++|++..++.+...+..+  .-+.|+|++|+|||+||+.+++..
T Consensus        22 ~~ivGq~~~i~~l~~al~~~--~~VLL~GpPGtGKT~LAraLa~~l   65 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG--ESVFLLGPPGIAKSLIARRLKFAF   65 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT--CEEEEECCSSSSHHHHHHHGGGGB
T ss_pred             hhhHHHHHHHHHHHHHHhcC--CeeEeecCchHHHHHHHHHHHHHH
Confidence            34799999998888777654  578899999999999999998876

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.64  E-value=0.0014  Score=52.33  Aligned_cols=26  Identities=23%  Similarity=0.501  Sum_probs=23.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|++|+||||+++.+....
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            35789999999999999999998765

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.63  E-value=0.0055  Score=66.16  Aligned_cols=87  Identities=20%  Similarity=0.178  Sum_probs=58.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQE  239 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~  239 (337)
                      .+.+.+.|+|++|+|||+||..+.....   ..-..++|+++....+...     +..++...+.+   ...+.++....
T Consensus      1425 ~~g~~vll~GppGtGKT~LA~ala~ea~---~~G~~v~Fi~~e~~~~~l~-----a~~~G~dl~~l~v~~~~~~E~~l~~ 1496 (2050)
T 3cmu_A         1425 PMGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEI 1496 (2050)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHHHH---TTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCcEEEEEcccccCHHH-----HHHcCCCchhceeecCChHHHHHHH
Confidence            3678999999999999999999988773   3334577888777665554     44555332111   22234455555


Q ss_pred             HHHHh-cCCcEEEEEecCC
Q 045709          240 IFKIL-SKKKFVLLLDDIW  257 (337)
Q Consensus       240 l~~~l-~~k~~LlVlDdv~  257 (337)
                      +.... ..+.-+||+|.+.
T Consensus      1497 ~~~lvr~~~~~lVVIDsi~ 1515 (2050)
T 3cmu_A         1497 CDALARSGAVDVIVVDSVA 1515 (2050)
T ss_dssp             HHHHHHHTCCSEEEESCGG
T ss_pred             HHHHHhcCCCCEEEEcChh
Confidence            55554 3567899999995

>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=96.63  E-value=0.0012  Score=53.14  Aligned_cols=23  Identities=43%  Similarity=0.609  Sum_probs=21.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|+|++|+|||||++.++...
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998876

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.63  E-value=0.0013  Score=52.71  Aligned_cols=22  Identities=27%  Similarity=0.314  Sum_probs=20.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHH
Q 045709          166 GIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      .+|.|.|++|+||||+|+.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5789999999999999999987

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.62  E-value=0.0013  Score=53.05  Aligned_cols=25  Identities=28%  Similarity=0.324  Sum_probs=22.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+.|.|+|++|+||||+++.+....
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4678999999999999999999876

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=96.61  E-value=0.027  Score=52.07  Aligned_cols=63  Identities=24%  Similarity=0.401  Sum_probs=44.4

Q ss_pred             HHHHHhc-CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc-CHHHHHHHHHHH
Q 045709          156 VWRCLME-EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL-QLEKIQESIAKK  220 (337)
Q Consensus       156 l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~  220 (337)
                      .++.|.. .+...++|+|.+|+|||+|+..+.+...  ..+-+.++++-+.... ...++.+++...
T Consensus       143 ~ID~l~pigkGQr~~Ifgg~G~GKT~L~~~i~~~~~--~~~~~v~V~~~iGER~rEv~e~~~~~~~~  207 (482)
T 2ck3_D          143 VVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA--KAHGGYSVFAGVGERTREGNDLYHEMIES  207 (482)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHTT--TTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             EEecccccccCCeeeeecCCCCChHHHHHHHHHhhH--hhCCCEEEEEECCCcchHHHHHHHHhhhc
Confidence            3444433 4678899999999999999999988762  3344667777776654 455666777655

>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=96.61  E-value=0.003  Score=57.22  Aligned_cols=45  Identities=18%  Similarity=0.200  Sum_probs=35.8

Q ss_pred             ccccchhhHHHHHHHHhc------------------------------CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          145 TVVGLQLTFDRVWRCLME------------------------------EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~------------------------------~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|.+..++.|...+..                              .....+.++|++|+|||++|+.+++..
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHh
Confidence            478988888888766620                              124568899999999999999999876

>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=96.60  E-value=0.0016  Score=52.86  Aligned_cols=26  Identities=23%  Similarity=0.341  Sum_probs=23.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+|.|.|++|+||||+++.+...+
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence            35689999999999999999998876

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.60  E-value=0.0013  Score=54.37  Aligned_cols=27  Identities=30%  Similarity=0.332  Sum_probs=24.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||++.+....
T Consensus         6 ~~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            6 ERGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            356799999999999999999998876

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=96.60  E-value=0.0026  Score=52.93  Aligned_cols=39  Identities=21%  Similarity=0.256  Sum_probs=30.5

Q ss_pred             hhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          151 LTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       151 ~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+.+...+.......|.|+|.+|+|||||+..+....
T Consensus        24 ~~a~~~r~~~~~~~~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           24 RLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            334455555555567899999999999999999998876

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.59  E-value=0.0012  Score=54.26  Aligned_cols=25  Identities=24%  Similarity=0.452  Sum_probs=22.9

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|.|.|++|+||||+++.+...+
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998876

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.59  E-value=0.0016  Score=53.76  Aligned_cols=27  Identities=26%  Similarity=0.397  Sum_probs=23.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|++|+|||||++.+....
T Consensus         4 ~~~~~i~i~G~~GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            4 PKPFVIGIAGGTASGKTTLAQALARTL   30 (211)
T ss_dssp             -CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356799999999999999999998876

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=96.58  E-value=0.017  Score=55.66  Aligned_cols=77  Identities=16%  Similarity=0.079  Sum_probs=44.0

Q ss_pred             HHHHHHHHhCCCCc---cccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCcccc------ccccCCCCCCCCCCcEEEEe
Q 045709          213 IQESIAKKIGLFNE---SWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDL------DQVGLPIPSRTSVSNKVVFT  282 (337)
Q Consensus       213 ~~~~i~~~l~~~~~---~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~------~~l~~~l~~~~~g~s~IiiT  282 (337)
                      -..+++..++....   .....+..+.+.. |...|..++-+|+||+--+..+.      ..+...+..  .| ..||++
T Consensus       201 ~~~~~l~~~gl~~~~~~~~~~LSgGe~Qrv~iAraL~~~p~llllDEPts~LD~~~~~~l~~~l~~l~~--~g-~tvi~v  277 (608)
T 3j16_B          201 DVKRYIKILQLENVLKRDIEKLSGGELQRFAIGMSCVQEADVYMFDEPSSYLDVKQRLNAAQIIRSLLA--PT-KYVICV  277 (608)
T ss_dssp             HHHHHHHHHTCTGGGGSCTTTCCHHHHHHHHHHHHHHSCCSEEEEECTTTTCCHHHHHHHHHHHHGGGT--TT-CEEEEE
T ss_pred             HHHHHHHHcCCcchhCCChHHCCHHHHHHHHHHHHHHhCCCEEEEECcccCCCHHHHHHHHHHHHHHHh--CC-CEEEEE
Confidence            34556666665421   1244555554433 55666677889999987665332      222222322  35 678999


Q ss_pred             eCChhHHhhc
Q 045709          283 TREFGVCGQM  292 (337)
Q Consensus       283 tr~~~v~~~~  292 (337)
                      |++......+
T Consensus       278 tHdl~~~~~~  287 (608)
T 3j16_B          278 EHDLSVLDYL  287 (608)
T ss_dssp             CSCHHHHHHH
T ss_pred             eCCHHHHHHh
Confidence            9987765543

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.57  E-value=0.0015  Score=55.57  Aligned_cols=26  Identities=27%  Similarity=0.323  Sum_probs=23.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+++|+|++|+|||||++.+...+
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999999766

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.57  E-value=0.0012  Score=52.77  Aligned_cols=22  Identities=32%  Similarity=0.471  Sum_probs=19.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQI  185 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v  185 (337)
                      +..+++|+|++|+|||||++.+
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~   29 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKH   29 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            4679999999999999999953

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.55  E-value=0.0016  Score=52.72  Aligned_cols=24  Identities=33%  Similarity=0.537  Sum_probs=22.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+|.|.|++|+||||+++.+...+
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l   25 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            478999999999999999999887

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=96.54  E-value=0.0094  Score=52.14  Aligned_cols=89  Identities=17%  Similarity=0.086  Sum_probs=48.0

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc-CHHHHHHHHHHHhCCCCcc-ccCCCHHHHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL-QLEKIQESIAKKIGLFNES-WKNKSMQEKAQEIFK  242 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~-~~~~~~~~~~~~l~~  242 (337)
                      ..++.++|.+|+||||++..++....   ..-..+.++...... .....+.......+...-. ....+..........
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~---~~g~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~  174 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYK---KKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVE  174 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHH---HTTCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH---HCCCeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHH
Confidence            67899999999999999999988772   122345555544321 2222233344444432110 012344444444444


Q ss_pred             Hhc-CCcEEEEEecC
Q 045709          243 ILS-KKKFVLLLDDI  256 (337)
Q Consensus       243 ~l~-~k~~LlVlDdv  256 (337)
                      .+. ..-=++|+|-.
T Consensus       175 ~~~~~~~D~ViIDTp  189 (297)
T 1j8m_F          175 KFLSEKMEIIIVDTA  189 (297)
T ss_dssp             HHHHTTCSEEEEECC
T ss_pred             HHHhCCCCEEEEeCC
Confidence            443 22236777754

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.54  E-value=0.0013  Score=54.01  Aligned_cols=25  Identities=36%  Similarity=0.458  Sum_probs=22.0

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+++|+|++|+|||||++.+...+
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4689999999999999999998765

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.53  E-value=0.003  Score=55.11  Aligned_cols=56  Identities=14%  Similarity=0.077  Sum_probs=34.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIA  218 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  218 (337)
                      .+..+|+|+|.+|+|||||++.+...+.........+..|+...-.-.......+.
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~~~g~~~~~~~iv~~D~f~~~~~~~~~l~   84 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLN   84 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhhhcCCCCceEEEeccccccCChHHHHHHh
Confidence            35679999999999999999999877621000123444445544333334444443

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.53  E-value=0.0013  Score=54.05  Aligned_cols=26  Identities=31%  Similarity=0.488  Sum_probs=23.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+|.|+|++|+|||||++.+....
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            46789999999999999999998876

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.53  E-value=0.0016  Score=53.49  Aligned_cols=26  Identities=31%  Similarity=0.336  Sum_probs=23.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|++|+||||+++.+....
T Consensus         5 ~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            5 KGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            45689999999999999999998765

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.53  E-value=0.0016  Score=52.62  Aligned_cols=24  Identities=29%  Similarity=0.363  Sum_probs=22.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+|.|.|++|+||||+++.+...+
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l   27 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNL   27 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999999999877

>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=96.52  E-value=0.0015  Score=52.45  Aligned_cols=25  Identities=36%  Similarity=0.389  Sum_probs=22.7

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|.|+|++|+||||+++.+....
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            4678899999999999999998876

>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=96.51  E-value=0.0016  Score=53.69  Aligned_cols=27  Identities=30%  Similarity=0.443  Sum_probs=23.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||++.+..-.
T Consensus        18 ~~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           18 AVGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            456799999999999999999998765

>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=96.51  E-value=0.0019  Score=50.94  Aligned_cols=27  Identities=41%  Similarity=0.359  Sum_probs=24.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|+.|+|||||++.++...
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            456799999999999999999998865

>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=96.49  E-value=0.0017  Score=52.70  Aligned_cols=23  Identities=26%  Similarity=0.407  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      .+++|+|++|+|||||++.+...
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~~   25 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAAQ   25 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhcc
Confidence            57899999999999999999763

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=96.49  E-value=0.0025  Score=52.92  Aligned_cols=42  Identities=24%  Similarity=0.251  Sum_probs=32.7

Q ss_pred             cchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          148 GLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       148 Gr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.++..+.+...+......++.|+|.+|+|||||+..+....
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKTTl~~~l~~~~   54 (221)
T 2wsm_A           13 ENKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIERI   54 (221)
T ss_dssp             HHHHHHHHHHHHHHHHTCEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hcHHHHHHHHHhhcccCceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            334555555555555578899999999999999999998876

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=96.48  E-value=0.0086  Score=55.47  Aligned_cols=93  Identities=17%  Similarity=0.308  Sum_probs=51.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc-CHHHHHHHHHHHhCCCCc----cccCCCHHHHH-
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL-QLEKIQESIAKKIGLFNE----SWKNKSMQEKA-  237 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~----~~~~~~~~~~~-  237 (337)
                      +...++|+|.+|+|||||+..+.....  ......++++.+.... ...++..++...-.....    .....+..... 
T Consensus       150 kGq~~~i~G~sGvGKTtL~~~l~~~~~--~~~~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~  227 (473)
T 1sky_E          150 KGGKIGLFGGAGVGKTVLIQELIHNIA--QEHGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMR  227 (473)
T ss_dssp             TTCEEEEECCSSSCHHHHHHHHHHHHH--HHTCCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHH
T ss_pred             cCCEEEEECCCCCCccHHHHHHHhhhh--hccCcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHH
Confidence            455789999999999999999988762  1222345666666543 344555545432110000    00111111111 


Q ss_pred             -----HHHHHHh---cCCcEEEEEecCCC
Q 045709          238 -----QEIFKIL---SKKKFVLLLDDIWE  258 (337)
Q Consensus       238 -----~~l~~~l---~~k~~LlVlDdv~~  258 (337)
                           -.+.+++   +++..||++||+..
T Consensus       228 ~~~~~ltiAEyFrd~~G~~VLl~~D~itR  256 (473)
T 1sky_E          228 VALTGLTMAEYFRDEQGQDGLLFIDNIFR  256 (473)
T ss_dssp             HHHHHHHHHHHHHHHSCCEEEEEEECTHH
T ss_pred             HHHHHHHHHHHHHHhcCCcEEEEeccHHH
Confidence                 1223332   58899999999853

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.48  E-value=0.0013  Score=53.37  Aligned_cols=24  Identities=29%  Similarity=0.509  Sum_probs=21.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.|.|+|++|+|||||++.+....
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhC
Confidence            457899999999999999998876

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.47  E-value=0.005  Score=50.54  Aligned_cols=25  Identities=20%  Similarity=0.452  Sum_probs=23.1

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|.|.|++|+||||+++.+...+
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l   28 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWI   28 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999999987

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=96.47  E-value=0.011  Score=51.53  Aligned_cols=90  Identities=14%  Similarity=0.134  Sum_probs=48.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccC-HHHHHHHHHHHhCCCCccc-cCCCHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQ-LEKIQESIAKKIGLFNESW-KNKSMQEKAQEIF  241 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~l~  241 (337)
                      ...+++++|.+|+||||++..++....   ..-..+.++....... ....+..+....+...-.. ...+..++.....
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~---~~~~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l  173 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYK---GKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVE  173 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH---HTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH---HcCCeEEEecCCcccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHH
Confidence            357899999999999999999988772   1222345555432211 1112333444444432110 1234444443333


Q ss_pred             HHh-cCCcEEEEEecC
Q 045709          242 KIL-SKKKFVLLLDDI  256 (337)
Q Consensus       242 ~~l-~~k~~LlVlDdv  256 (337)
                      ..+ ..+.=++|+|..
T Consensus       174 ~~~~~~~~D~viiDtp  189 (295)
T 1ls1_A          174 EKARLEARDLILVDTA  189 (295)
T ss_dssp             HHHHHHTCCEEEEECC
T ss_pred             HHHHhCCCCEEEEeCC
Confidence            333 244457888976

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.46  E-value=0.0021  Score=52.23  Aligned_cols=26  Identities=27%  Similarity=0.400  Sum_probs=23.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+|.|.|++|+||||+++.+...+
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998876

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.45  E-value=0.002  Score=52.19  Aligned_cols=25  Identities=28%  Similarity=0.373  Sum_probs=22.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|.|.|++|+||||+++.+...+
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998876

>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=96.45  E-value=0.0027  Score=58.57  Aligned_cols=46  Identities=20%  Similarity=0.190  Sum_probs=36.7

Q ss_pred             CccccchhhHHHHHHHHhc--------------CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLME--------------EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++|.++.+..|...+..              ...+-+.++|++|+||||+|+.++...
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l   74 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHc
Confidence            4578988888888666632              134568999999999999999999887

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.43  E-value=0.0035  Score=54.59  Aligned_cols=26  Identities=31%  Similarity=0.263  Sum_probs=23.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+|.|.|++|+||||+++.+....
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998765

>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=96.43  E-value=0.013  Score=54.75  Aligned_cols=26  Identities=31%  Similarity=0.570  Sum_probs=23.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|.+|+|||||++.++..+
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHh
Confidence            46799999999999999999998876

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.42  E-value=0.02  Score=50.51  Aligned_cols=26  Identities=27%  Similarity=0.337  Sum_probs=23.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|.|.+|+|||||++.+....
T Consensus        91 ~p~iigI~GpsGSGKSTl~~~L~~ll  116 (321)
T 3tqc_A           91 VPYIIGIAGSVAVGKSTTSRVLKALL  116 (321)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            35599999999999999999998776

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.42  E-value=0.0017  Score=51.92  Aligned_cols=24  Identities=25%  Similarity=0.400  Sum_probs=21.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..|.|.|++|+||||+++.+...+
T Consensus         5 ~~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            5 KNIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHc
Confidence            368999999999999999998877

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=96.42  E-value=0.017  Score=51.44  Aligned_cols=91  Identities=13%  Similarity=0.093  Sum_probs=56.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC--------------------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG--------------------  222 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~--------------------  222 (337)
                      ....++.|.|.+|+||||||..++.....   .-..++|++...  +...+...++....                    
T Consensus        44 ~~G~LiiIaG~pG~GKTt~al~ia~~~a~---~g~~Vl~fSlEm--s~~ql~~Rlls~~~~v~~~~l~~g~Ls~~e~~~l  118 (338)
T 4a1f_A           44 NKGSLVIIGARPSMGKTSLMMNMVLSALN---DDRGVAVFSLEM--SAEQLALRALSDLTSINMHDLESGRLDDDQWENL  118 (338)
T ss_dssp             CTTCEEEEEECTTSCHHHHHHHHHHHHHH---TTCEEEEEESSS--CHHHHHHHHHHHHHCCCHHHHHHTCCCHHHHHHH
T ss_pred             CCCcEEEEEeCCCCCHHHHHHHHHHHHHH---cCCeEEEEeCCC--CHHHHHHHHHHHhhCCCHHHHhcCCCCHHHHHHH
Confidence            35679999999999999999999888732   334677776543  44455444433210                    


Q ss_pred             -----------CCCccccCCCHHHHHHHHHHHhcC--CcEEEEEecCCC
Q 045709          223 -----------LFNESWKNKSMQEKAQEIFKILSK--KKFVLLLDDIWE  258 (337)
Q Consensus       223 -----------~~~~~~~~~~~~~~~~~l~~~l~~--k~~LlVlDdv~~  258 (337)
                                 ..-......+..++...++...+.  +.-+||+|-+..
T Consensus       119 ~~a~~~l~~~~l~I~d~~~~si~~i~~~ir~l~~~~gg~~lIVIDyLql  167 (338)
T 4a1f_A          119 AKCFDHLSQKKLFFYDKSYVRIEQIRLQLRKLKSQHKELGIAFIDYLQL  167 (338)
T ss_dssp             HHHHHHHHHSCEEEECCTTCCHHHHHHHHHHHHHHCTTEEEEEEEEEEC
T ss_pred             HHHHHHHhcCCeEEeCCCCCcHHHHHHHHHHHHHhcCCCCEEEEechHH
Confidence                       000011233566666666665433  567999997653

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=96.41  E-value=0.0044  Score=55.32  Aligned_cols=42  Identities=24%  Similarity=0.217  Sum_probs=30.4

Q ss_pred             cchhhHHHHHHHHh----cCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          148 GLQLTFDRVWRCLM----EEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       148 Gr~~~~~~l~~~L~----~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +-+...+.+++.+.    .+....|.|+|++|+||||+++.++...
T Consensus         3 ~~~~L~~~il~~l~~~i~~g~~~~i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A            3 DTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             CHHHHHHHHHHHHHHTTTTCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhccCCeeEEEEECCCCCcHHHHHHHHHHHh
Confidence            34445555555553    3455679999999999999999887755

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.41  E-value=0.0021  Score=53.68  Aligned_cols=25  Identities=28%  Similarity=0.472  Sum_probs=22.4

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|+|+|++|+||||+++.+...+
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3589999999999999999998765

>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=96.39  E-value=0.0026  Score=56.66  Aligned_cols=109  Identities=15%  Similarity=0.054  Sum_probs=60.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKI  243 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  243 (337)
                      ...+++|+|.+|+|||||++.+.....    .-...+.+.-.........    -+.++.    ... ........+...
T Consensus       170 ~g~~v~i~G~~GsGKTTll~~l~g~~~----~~~g~i~i~~~~e~~~~~~----~~~i~~----~~g-gg~~~r~~la~a  236 (330)
T 2pt7_A          170 IGKNVIVCGGTGSGKTTYIKSIMEFIP----KEERIISIEDTEEIVFKHH----KNYTQL----FFG-GNITSADCLKSC  236 (330)
T ss_dssp             HTCCEEEEESTTSCHHHHHHHGGGGSC----TTSCEEEEESSCCCCCSSC----SSEEEE----ECB-TTBCHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCc----CCCcEEEECCeeccccccc----hhEEEE----EeC-CChhHHHHHHHH
Confidence            356899999999999999999987661    2234444442221110000    000000    000 112233456667


Q ss_pred             hcCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHH
Q 045709          244 LSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVC  289 (337)
Q Consensus       244 l~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~  289 (337)
                      |..++-+|++|++.+.+.++.+. .+.   .|+.-+|+||+..+..
T Consensus       237 L~~~p~ilildE~~~~e~~~~l~-~~~---~g~~tvi~t~H~~~~~  278 (330)
T 2pt7_A          237 LRMRPDRIILGELRSSEAYDFYN-VLC---SGHKGTLTTLHAGSSE  278 (330)
T ss_dssp             TTSCCSEEEECCCCSTHHHHHHH-HHH---TTCCCEEEEEECSSHH
T ss_pred             hhhCCCEEEEcCCChHHHHHHHH-HHh---cCCCEEEEEEcccHHH
Confidence            77888899999998754444332 222   2312478888766543

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.39  E-value=0.0021  Score=54.92  Aligned_cols=24  Identities=29%  Similarity=0.297  Sum_probs=22.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++.|.|++|+||||||+.++...
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcC
Confidence            478999999999999999998876

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=96.39  E-value=0.33  Score=44.98  Aligned_cols=92  Identities=8%  Similarity=0.054  Sum_probs=55.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHH-HhCCCC----------------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAK-KIGLFN----------------  225 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~-~l~~~~----------------  225 (337)
                      ....++.|.|.+|+|||||+..++.....  ..-..++|++...  +...+...++. ..+...                
T Consensus       201 ~~G~liiI~G~pG~GKTtl~l~ia~~~~~--~~g~~Vl~~s~E~--s~~~l~~r~~~~~~~~~~~~l~~g~l~~~~~~~~  276 (454)
T 2r6a_A          201 QRSDLIIVAARPSVGKTAFALNIAQNVAT--KTNENVAIFSLEM--SAQQLVMRMLCAEGNINAQNLRTGKLTPEDWGKL  276 (454)
T ss_dssp             CTTCEEEEECCTTSCHHHHHHHHHHHHHH--HSSCCEEEEESSS--CHHHHHHHHHHHHHTCCHHHHHTSCCCHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHHH--hCCCcEEEEECCC--CHHHHHHHHHHHHcCCCHHHHhcCCCCHHHHHHH
Confidence            35679999999999999999999887721  1223577777543  33444444321 111100                


Q ss_pred             --------------ccccCCCHHHHHHHHHHHhc-CCcEEEEEecCCC
Q 045709          226 --------------ESWKNKSMQEKAQEIFKILS-KKKFVLLLDDIWE  258 (337)
Q Consensus       226 --------------~~~~~~~~~~~~~~l~~~l~-~k~~LlVlDdv~~  258 (337)
                                    ......+..++...++.... .+.-+||+|.+..
T Consensus       277 ~~a~~~l~~~~l~i~d~~~~s~~~i~~~~~~l~~~~~~~livID~l~~  324 (454)
T 2r6a_A          277 TMAMGSLSNAGIYIDDTPSIRVSDIRAKCRRLKQESGLGMIVIDYLQL  324 (454)
T ss_dssp             HHHHHHHHSSCEEEECCTTCCHHHHHHHHHHHHTTTCCCEEEEECGGG
T ss_pred             HHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEccHHH
Confidence                          00122356666666666553 3566999998754

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.39  E-value=0.0022  Score=51.73  Aligned_cols=25  Identities=24%  Similarity=0.347  Sum_probs=22.5

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...|.|.|++|+||||+++.+...+
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4579999999999999999998766

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.38  E-value=0.0021  Score=52.53  Aligned_cols=23  Identities=26%  Similarity=0.667  Sum_probs=21.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|+|.|++|+||||+++.+...+
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l   24 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKL   24 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHhc
Confidence            68999999999999999999887

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.38  E-value=0.0019  Score=53.92  Aligned_cols=27  Identities=33%  Similarity=0.503  Sum_probs=23.4

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||++.+....
T Consensus        21 ~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           21 NNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             -CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            356789999999999999999998765

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.38  E-value=0.0023  Score=51.67  Aligned_cols=25  Identities=24%  Similarity=0.302  Sum_probs=22.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      ....|.|+|++|+||||+++.+...
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4568999999999999999999887

>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=96.37  E-value=0.0023  Score=52.38  Aligned_cols=26  Identities=19%  Similarity=0.322  Sum_probs=23.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++++|+|++|+|||||++.+....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            56789999999999999999998776

>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=96.36  E-value=0.015  Score=55.82  Aligned_cols=27  Identities=26%  Similarity=0.436  Sum_probs=23.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++..+++|+|++|+|||||++.+..-.
T Consensus       367 ~~G~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          367 PQGKTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            467799999999999999999997654

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.35  E-value=0.0019  Score=52.01  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=22.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+|.|.|++|+||||+|+.+...+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            468999999999999999998876

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.35  E-value=0.021  Score=52.65  Aligned_cols=26  Identities=27%  Similarity=0.452  Sum_probs=23.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.++|.++|.+|+||||++..++..+
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l  124 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFL  124 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46799999999999999999998877

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.34  E-value=0.0027  Score=52.85  Aligned_cols=27  Identities=26%  Similarity=0.400  Sum_probs=24.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+.++|.|.|++|+||||.|+.+...+
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            357899999999999999999999887

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.33  E-value=0.0026  Score=51.81  Aligned_cols=25  Identities=24%  Similarity=0.392  Sum_probs=23.0

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|+|.|++|+||||+++.+...+
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998876

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.32  E-value=0.0023  Score=52.49  Aligned_cols=22  Identities=32%  Similarity=0.462  Sum_probs=20.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHH
Q 045709          166 GIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      .+|+|+|++|+||||+++.+..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            3789999999999999999977

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.32  E-value=0.0025  Score=56.19  Aligned_cols=43  Identities=23%  Similarity=0.177  Sum_probs=30.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      ....+++|+|.+|+|||||++.+..-.....+. ..+.++....
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~~~~G~-~~v~~v~qd~  130 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLARWDHH-PRVDLVTTDG  130 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHHTSTTC-CCEEEEEGGG
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhccccCCC-CeEEEEecCc
Confidence            456799999999999999999998876211111 2355555443

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.32  E-value=0.018  Score=50.58  Aligned_cols=27  Identities=22%  Similarity=0.261  Sum_probs=24.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|.+|+|||||++.+....
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l  104 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALL  104 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            346799999999999999999998876

>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=96.31  E-value=0.0025  Score=53.20  Aligned_cols=27  Identities=15%  Similarity=0.250  Sum_probs=23.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||++.+....
T Consensus        14 ~~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           14 AQGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhccC
Confidence            356799999999999999999998876

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.31  E-value=0.0027  Score=53.84  Aligned_cols=27  Identities=22%  Similarity=0.318  Sum_probs=23.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+|+|.|++|+|||||++.+....
T Consensus        23 ~~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           23 MRPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            456799999999999999999998765

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.30  E-value=0.0026  Score=50.45  Aligned_cols=26  Identities=27%  Similarity=0.425  Sum_probs=22.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+|+|.|++|+||||+++.+...+
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ccceEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998876

>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=96.30  E-value=0.026  Score=50.28  Aligned_cols=135  Identities=8%  Similarity=-0.116  Sum_probs=78.7

Q ss_pred             HHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHH
Q 045709          157 WRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEK  236 (337)
Q Consensus       157 ~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~  236 (337)
                      .+.+.+.-.++..++|..|.||++.+..+.....  ...|+....+......++.++..                     
T Consensus        10 ~~~l~~~~~~~yl~~G~e~~~~~~~~~~l~~~~~--~~~~~~~~~~~~~~~~~~~~l~~---------------------   66 (343)
T 1jr3_D           10 RAQLNEGLRAAYLLLGNDPLLLQESQDAVRQVAA--AQGFEEHHTFSIDPNTDWNAIFS---------------------   66 (343)
T ss_dssp             HHHHHHCCCSEEEEEESCHHHHHHHHHHHHHHHH--HHTCCEEEEEECCTTCCHHHHHH---------------------
T ss_pred             HHHHhcCCCcEEEEECCcHHHHHHHHHHHHHHHH--hCCCCeeEEEEecCCCCHHHHHH---------------------
Confidence            3344434567999999999999999999987652  12332211122322333333322                     


Q ss_pred             HHHHHH-HhcCCcEEEEEecCCC-c--cccccccCCCCCCCCCCcEEEEeeCC-------hhHHhhc-cCCceeecCCCC
Q 045709          237 AQEIFK-ILSKKKFVLLLDDIWE-L--VDLDQVGLPIPSRTSVSNKVVFTTRE-------FGVCGQM-EAHRSFKVECLR  304 (337)
Q Consensus       237 ~~~l~~-~l~~k~~LlVlDdv~~-~--~~~~~l~~~l~~~~~g~s~IiiTtr~-------~~v~~~~-~~~~~~~l~~L~  304 (337)
                        .+.. -+.+++-++|+|+++. .  ..++.+...+..-..+ +.+|++|..       ..+...+ +....++..+++
T Consensus        67 --~~~~~plf~~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~-~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~l~  143 (343)
T 1jr3_D           67 --LCQAMSLFASRQTLLLLLPENGPNAAINEQLLTLTGLLHDD-LLLIVRGNKLSKAQENAAWFTALANRSVQVTCQTPE  143 (343)
T ss_dssp             --HHHHHHHCCSCEEEEEECCSSCCCTTHHHHHHHHHTTCBTT-EEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECCCC
T ss_pred             --HhcCcCCccCCeEEEEECCCCCCChHHHHHHHHHHhcCCCC-eEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeCCC
Confidence              2221 1335677889999876 3  3444454434332345 777766643       2343333 334678999999


Q ss_pred             HHHHHHHHhHhhC
Q 045709          305 YDDAWKLFEQKVG  317 (337)
Q Consensus       305 ~~ea~~Lf~~~~~  317 (337)
                      .++....+.+.+-
T Consensus       144 ~~~l~~~l~~~~~  156 (343)
T 1jr3_D          144 QAQLPRWVAARAK  156 (343)
T ss_dssp             TTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9888877777653

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.30  E-value=0.0029  Score=51.80  Aligned_cols=26  Identities=19%  Similarity=0.365  Sum_probs=23.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+|+|.|++|+||||+++.+...+
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            45789999999999999999998765

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.30  E-value=0.0018  Score=52.06  Aligned_cols=25  Identities=32%  Similarity=0.452  Sum_probs=18.7

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|.|.|++|+||||+++.+...+
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l   29 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERL   29 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999998876

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.29  E-value=0.0028  Score=52.16  Aligned_cols=26  Identities=31%  Similarity=0.544  Sum_probs=22.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+|+|+|++|+||||+++.+....
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999997654

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.29  E-value=0.0054  Score=51.95  Aligned_cols=40  Identities=18%  Similarity=0.134  Sum_probs=29.2

Q ss_pred             hhhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          150 QLTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       150 ~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+.++.+.+..  .....|.|.|++|+||||+|+.+...+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           12 IDLLNELKRRYACLSKPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             HHHHHHHHHHHHHHTSCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3444444443322  356789999999999999999998776

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.28  E-value=0.0031  Score=51.52  Aligned_cols=26  Identities=31%  Similarity=0.500  Sum_probs=22.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      .+..+|+|.|+.|+||||+++.+...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            35679999999999999999999763

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.25  E-value=0.0032  Score=50.86  Aligned_cols=25  Identities=32%  Similarity=0.389  Sum_probs=22.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|+|.|++|+||||+++.+...+
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998876

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.24  E-value=0.0032  Score=51.81  Aligned_cols=26  Identities=15%  Similarity=0.231  Sum_probs=23.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+|+|.|++|+||||+++.+...+
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~~l   34 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVEYL   34 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999998876

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.24  E-value=0.0024  Score=50.70  Aligned_cols=24  Identities=21%  Similarity=0.293  Sum_probs=22.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+|.|.|++|+||||+++.+...+
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999998876

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.23  E-value=0.0031  Score=52.45  Aligned_cols=26  Identities=31%  Similarity=0.396  Sum_probs=23.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +...|.|.|++|+||||+++.+...+
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            34679999999999999999998877

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.23  E-value=0.003  Score=53.86  Aligned_cols=27  Identities=26%  Similarity=0.406  Sum_probs=23.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+|+|+|++|+||||+++.+...+
T Consensus        25 ~~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           25 AIAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TTSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            345799999999999999999998654

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.21  E-value=0.0032  Score=51.52  Aligned_cols=26  Identities=27%  Similarity=0.301  Sum_probs=23.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+|.|.|++|+||||+|+.+...+
T Consensus        19 ~~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           19 SHMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34589999999999999999998876

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.21  E-value=0.0027  Score=52.20  Aligned_cols=22  Identities=45%  Similarity=0.536  Sum_probs=20.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHH
Q 045709          166 GIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      .+|+|+|++|+||||+++.+..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999965

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=96.21  E-value=0.023  Score=52.74  Aligned_cols=99  Identities=19%  Similarity=0.279  Sum_probs=61.1

Q ss_pred             HHHHhc-CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc-CHHHHHHHHHHHhCCC-------Ccc
Q 045709          157 WRCLME-EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL-QLEKIQESIAKKIGLF-------NES  227 (337)
Q Consensus       157 ~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~~~  227 (337)
                      ++.|.. .+...++|+|.+|+|||+|+..+.++..  ..+-+.++++-+.... ...++..++...-...       ...
T Consensus       156 ID~l~pigkGqr~gIfgg~GvGKT~L~~~l~~~~a--~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rtv  233 (498)
T 1fx0_B          156 VNLLAPYRRGGKIGLFGGAGVGKTVLIMELINNIA--KAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVA  233 (498)
T ss_dssp             HHHHSCCCTTCCEEEEECSSSSHHHHHHHHHHHTT--TTCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEE
T ss_pred             eeeecccccCCeEEeecCCCCCchHHHHHHHHHHH--hhCCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceE
Confidence            344433 4667899999999999999999998762  3445677888777654 4556666666542221       000


Q ss_pred             ----ccCCCHH------HHHHHHHHHhc---CCcEEEEEecCC
Q 045709          228 ----WKNKSMQ------EKAQEIFKILS---KKKFVLLLDDIW  257 (337)
Q Consensus       228 ----~~~~~~~------~~~~~l~~~l~---~k~~LlVlDdv~  257 (337)
                          ..+.+..      ...-.+.++++   ++.+||++||+-
T Consensus       234 vV~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~Dsit  276 (498)
T 1fx0_B          234 LVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIF  276 (498)
T ss_dssp             EEEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSH
T ss_pred             EEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHH
Confidence                0111111      12223345553   579999999985

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.20  E-value=0.0041  Score=53.04  Aligned_cols=26  Identities=31%  Similarity=0.360  Sum_probs=23.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+|.|+|++|+||||+++.+...+
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999998876

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.20  E-value=0.0035  Score=51.71  Aligned_cols=26  Identities=19%  Similarity=0.350  Sum_probs=23.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+|+|.|++|+||||+++.+...+
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~l   33 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEAL   33 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999999876

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.19  E-value=0.0033  Score=53.86  Aligned_cols=25  Identities=28%  Similarity=0.460  Sum_probs=22.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|.|.|++|+||||+|+.+...+
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L   28 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKIL   28 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            5689999999999999999998875

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.18  E-value=0.0026  Score=53.32  Aligned_cols=132  Identities=21%  Similarity=0.223  Sum_probs=71.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCC----------CC----------cEEEEEEecC----ccCHH--------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPN----------HF----------DFVIWVVVSR----DLQLE--------  211 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----------~f----------~~~~wv~~~~----~~~~~--------  211 (337)
                      ...+++|+|++|+|||||++.+..-.....+          ..          ..+.++.-..    ..++.        
T Consensus        29 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~~~~~~~~~~~~~~~~~i~~v~q~~~l~~~~tv~e~l~~~~~  108 (224)
T 2pcj_A           29 KGEFVSIIGASGSGKSTLLYILGLLDAPTEGKVFLEGKEVDYTNEKELSLLRNRKLGFVFQFHYLIPELTALENVIVPML  108 (224)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHTTSSCCSEEEEEETTEECCSSCHHHHHHHHHHHEEEECSSCCCCTTSCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEECCEECCCCCHHHHHHHHhCcEEEEecCcccCCCCCHHHHHHhHHH
Confidence            5679999999999999999998764310000          00          1133332111    11111        


Q ss_pred             ----------HHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc------cccCCCCC
Q 045709          212 ----------KIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD------QVGLPIPS  271 (337)
Q Consensus       212 ----------~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~------~l~~~l~~  271 (337)
                                +-..++++.++...   ......+..+.++. +...|-.++-+|+||+.-+..+..      .+...+..
T Consensus       109 ~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSgGq~qrv~laral~~~p~lllLDEPt~~LD~~~~~~~~~~l~~l~~  188 (224)
T 2pcj_A          109 KMGKPKKEAKERGEYLLSELGLGDKLSRKPYELSGGEQQRVAIARALANEPILLFADEPTGNLDSANTKRVMDIFLKINE  188 (224)
T ss_dssp             HTTCCHHHHHHHHHHHHHHTTCTTCTTCCGGGSCHHHHHHHHHHHHTTTCCSEEEEESTTTTCCHHHHHHHHHHHHHHHH
T ss_pred             HcCCCHHHHHHHHHHHHHHcCCchhhhCChhhCCHHHHHHHHHHHHHHcCCCEEEEeCCCCCCCHHHHHHHHHHHHHHHH
Confidence                      12234455555432   11234555554443 556777888899999986543321      11111211


Q ss_pred             CCCCCcEEEEeeCChhHHhhccCCceeec
Q 045709          272 RTSVSNKVVFTTREFGVCGQMEAHRSFKV  300 (337)
Q Consensus       272 ~~~g~s~IiiTtr~~~v~~~~~~~~~~~l  300 (337)
                        .| ..||++|++.+.+. + +++++.+
T Consensus       189 --~g-~tvi~vtHd~~~~~-~-~d~v~~l  212 (224)
T 2pcj_A          189 --GG-TSIVMVTHERELAE-L-THRTLEM  212 (224)
T ss_dssp             --TT-CEEEEECSCHHHHT-T-SSEEEEE
T ss_pred             --CC-CEEEEEcCCHHHHH-h-CCEEEEE
Confidence              25 78999999977653 2 3444443

>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=96.17  E-value=0.003  Score=53.30  Aligned_cols=127  Identities=20%  Similarity=0.144  Sum_probs=68.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCC----------CC----------cEEEEEEecC----ccCHH-------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPN----------HF----------DFVIWVVVSR----DLQLE-------  211 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----------~f----------~~~~wv~~~~----~~~~~-------  211 (337)
                      ....+++|+|++|+|||||++.+..-.....+          .+          ..+.|+.-..    ..++.       
T Consensus        29 ~~Ge~~~iiG~nGsGKSTLl~~l~Gl~~p~~G~I~~~g~~~~~~~~~~~~~~~~~~i~~v~Q~~~l~~~~tv~enl~~~~  108 (235)
T 3tif_A           29 KEGEFVSIMGPSGSGKSTMLNIIGCLDKPTEGEVYIDNIKTNDLDDDELTKIRRDKIGFVFQQFNLIPLLTALENVELPL  108 (235)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEETTEECTTCCHHHHHHHHHHHEEEECTTCCCCTTSCHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCCCCCceEEEECCEEcccCCHHHHHHHhhccEEEEecCCccCCCCcHHHHHHHHH
Confidence            35679999999999999999999664410000          00          0133432111    01111       


Q ss_pred             --------------HHHHHHHHHhCCCC----ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc---cccCCC
Q 045709          212 --------------KIQESIAKKIGLFN----ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD---QVGLPI  269 (337)
Q Consensus       212 --------------~~~~~i~~~l~~~~----~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l  269 (337)
                                    +...+++..++...    ......+..+.++. +...|..++=+|+||+.-+..+..   .+...+
T Consensus       109 ~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~~LSgGq~QRv~iAral~~~p~llllDEPts~LD~~~~~~i~~~l  188 (235)
T 3tif_A          109 IFKYRGAMSGEERRKRALECLKMAELEERFANHKPNQLSGGQQQRVAIARALANNPPIILADQPTWALDSKTGEKIMQLL  188 (235)
T ss_dssp             HTCSSSCCCHHHHHHHHHHHHHHTTCCGGGTTCCGGGSCHHHHHHHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHH
T ss_pred             HhhhccCCCHHHHHHHHHHHHHHCCCChhhhhCChhhCCHHHHHHHHHHHHHHcCCCEEEEeCCcccCCHHHHHHHHHHH
Confidence                          11223444445432    11234555555443 566777788899999986653311   111111


Q ss_pred             CC--CCCCCcEEEEeeCChhHHh
Q 045709          270 PS--RTSVSNKVVFTTREFGVCG  290 (337)
Q Consensus       270 ~~--~~~g~s~IiiTtr~~~v~~  290 (337)
                      ..  ...| ..||++|++.+++.
T Consensus       189 ~~l~~~~g-~tvi~vtHd~~~~~  210 (235)
T 3tif_A          189 KKLNEEDG-KTVVVVTHDINVAR  210 (235)
T ss_dssp             HHHHHHHC-CEEEEECSCHHHHT
T ss_pred             HHHHHHcC-CEEEEEcCCHHHHH
Confidence            11  1125 78999999988764

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=96.17  E-value=0.0035  Score=55.04  Aligned_cols=26  Identities=31%  Similarity=0.599  Sum_probs=23.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+++|+|++|+|||||++.++..+
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            46799999999999999999998776

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.15  E-value=0.003  Score=51.43  Aligned_cols=24  Identities=42%  Similarity=0.466  Sum_probs=21.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+++|+|++|+|||||++.++...
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhhc
Confidence            468999999999999999998876

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=96.14  E-value=0.0085  Score=60.56  Aligned_cols=83  Identities=14%  Similarity=0.149  Sum_probs=46.4

Q ss_pred             HHHHHHHhCCCC-----ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc---cccCCCCCCCCCCcEEEEeeC
Q 045709          214 QESIAKKIGLFN-----ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD---QVGLPIPSRTSVSNKVVFTTR  284 (337)
Q Consensus       214 ~~~i~~~l~~~~-----~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~~~~g~s~IiiTtr  284 (337)
                      ..+++..++...     ......+..+.++. |...+-.++-+||||+--+..+..   .+...+...  + ..||++|+
T Consensus       880 i~~~Le~lGL~~~~~~~~~~~~LSGGQkQRVaLArAL~~~P~LLLLDEPT~gLD~~s~~~L~~~L~~~--g-~tVIiISH  956 (986)
T 2iw3_A          880 IEEHCSMLGLDPEIVSHSRIRGLSGGQKVKLVLAAGTWQRPHLIVLDEPTNYLDRDSLGALSKALKEF--E-GGVIIITH  956 (986)
T ss_dssp             HHHHHHHTTCCHHHHHHSCGGGCCHHHHHHHHHHHHHTTCCSEEEEECGGGTCCHHHHHHHHHHHHSC--S-SEEEEECS
T ss_pred             HHHHHHHcCCCchhhcCCCccccCHHHHHHHHHHHHHHhCCCEEEEECCccCCCHHHHHHHHHHHHHh--C-CEEEEEEC
Confidence            345566666532     11245565555544 556777889999999876543322   121112111  3 47888999


Q ss_pred             ChhHHhhccCCceeec
Q 045709          285 EFGVCGQMEAHRSFKV  300 (337)
Q Consensus       285 ~~~v~~~~~~~~~~~l  300 (337)
                      +.+....+ +++++.|
T Consensus       957 D~e~v~~l-~DrVivL  971 (986)
T 2iw3_A          957 SAEFTKNL-TEEVWAV  971 (986)
T ss_dssp             CHHHHTTT-CCEEECC
T ss_pred             CHHHHHHh-CCEEEEE
Confidence            87766543 2344444

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.13  E-value=0.0035  Score=52.45  Aligned_cols=26  Identities=27%  Similarity=0.365  Sum_probs=22.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +...|.|.|++|+||||+++.+...+
T Consensus         6 ~~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            6 RLLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             -CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            34689999999999999999998876

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.12  E-value=0.0033  Score=53.25  Aligned_cols=122  Identities=19%  Similarity=0.173  Sum_probs=67.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEE------------------EEEec----CccCH----------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVI------------------WVVVS----RDLQL----------  210 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~------------------wv~~~----~~~~~----------  210 (337)
                      .. .+++|+|++|+|||||.+.+..-..    .....+                  |+.-.    ...++          
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl~~----p~~G~i~~~g~~~~~~~~~~~~i~~v~q~~~l~~~ltv~enl~~~~~~   97 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGIVK----PDRGEVRLNGADITPLPPERRGIGFVPQDYALFPHLSVYRNIAYGLRN   97 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTSSC----CSEEEEEETTEECTTSCTTTSCCBCCCSSCCCCTTSCHHHHHHTTCTT
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCCCC----CCceEEEECCEECCcCchhhCcEEEEcCCCccCCCCcHHHHHHHHHHH
Confidence            46 8999999999999999999976441    111111                  11100    00011          


Q ss_pred             ------HHHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc---cccCCCCCC--CCC
Q 045709          211 ------EKIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD---QVGLPIPSR--TSV  275 (337)
Q Consensus       211 ------~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~~--~~g  275 (337)
                            .+-..++++.++...   ......+..+.++. +...|-.++-+|+||+.-+..+..   .+...+...  ..|
T Consensus        98 ~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSgGqkqRv~lAral~~~p~lllLDEPts~LD~~~~~~~~~~l~~l~~~~g  177 (240)
T 2onk_A           98 VERVERDRRVREMAEKLGIAHLLDRKPARLSGGERQRVALARALVIQPRLLLLDEPLSAVDLKTKGVLMEELRFVQREFD  177 (240)
T ss_dssp             SCHHHHHHHHHHHHHTTTCTTTTTCCGGGSCHHHHHHHHHHHHHTTCCSSBEEESTTSSCCHHHHHHHHHHHHHHHHHHT
T ss_pred             cCCchHHHHHHHHHHHcCCHHHhcCChhhCCHHHHHHHHHHHHHHcCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhcC
Confidence                  122344555555532   11234555555443 566777888899999976543321   111111111  124


Q ss_pred             CcEEEEeeCChhHHh
Q 045709          276 SNKVVFTTREFGVCG  290 (337)
Q Consensus       276 ~s~IiiTtr~~~v~~  290 (337)
                       ..||++|++.+.+.
T Consensus       178 -~tvi~vtHd~~~~~  191 (240)
T 2onk_A          178 -VPILHVTHDLIEAA  191 (240)
T ss_dssp             -CCEEEEESCHHHHH
T ss_pred             -CEEEEEeCCHHHHH
Confidence             67999999866543

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.11  E-value=0.0036  Score=49.45  Aligned_cols=23  Identities=22%  Similarity=0.271  Sum_probs=21.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|.|++|+||||+++.+...+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998876

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=96.11  E-value=0.0054  Score=54.11  Aligned_cols=41  Identities=24%  Similarity=0.363  Sum_probs=30.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      ++.++|+|.|-||+||||.+..+..-+.   ..-..+.-+.+..
T Consensus        46 ~~aKVIAIaGKGGVGKTTtavNLA~aLA---~~GkkVllID~Dp   86 (314)
T 3fwy_A           46 TGAKVFAVYGKGGIGKSTTSSNLSAAFS---ILGKRVLQIGCDP   86 (314)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEEESS
T ss_pred             CCceEEEEECCCccCHHHHHHHHHHHHH---HCCCeEEEEecCC
Confidence            4689999999999999999999888773   2222466666654

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.11  E-value=0.0036  Score=50.63  Aligned_cols=23  Identities=26%  Similarity=0.531  Sum_probs=21.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +|+|.|++|+||||+++.+...+
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998876

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.10  E-value=0.0039  Score=54.75  Aligned_cols=26  Identities=31%  Similarity=0.580  Sum_probs=23.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+++|+|++|+||||+++.++..+
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            46799999999999999999998876

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.10  E-value=0.0057  Score=50.49  Aligned_cols=27  Identities=22%  Similarity=0.433  Sum_probs=24.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+|.|.|++|+||||+++.+...+
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            456899999999999999999998876

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=96.09  E-value=0.0053  Score=50.32  Aligned_cols=37  Identities=11%  Similarity=0.079  Sum_probs=28.2

Q ss_pred             HHHHHHHHhc-CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          153 FDRVWRCLME-EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       153 ~~~l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+..++.. ++...+.|+|++|+||||+|..+++..
T Consensus        45 ~~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           45 LGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             HHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            4555555544 234579999999999999999998877

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.09  E-value=0.0045  Score=49.61  Aligned_cols=26  Identities=31%  Similarity=0.450  Sum_probs=23.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+|+|.|++|+||||+++.+....
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~l   29 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEYL   29 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999998876

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=96.08  E-value=0.017  Score=62.40  Aligned_cols=88  Identities=20%  Similarity=0.193  Sum_probs=60.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEI  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  240 (337)
                      ...++.|+|.+|+||||||.+++....   ..-..++|++.....+...     +..++...+..   ...+.++....+
T Consensus       382 ~G~lilI~G~pGsGKTtLaLqia~~~a---~~G~~vlyis~E~s~~~~~-----a~~lGvd~~~L~I~~~~~~e~il~~~  453 (2050)
T 3cmu_A          382 MGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC  453 (2050)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHHH---TTTCCEEEECTTSCCCHHH-----HHHTTCCTTTCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH---hcCCeEEEEEcCCCHHHHH-----HHHcCCCHHHeEEeCCCCHHHHHHHH
Confidence            678999999999999999999988873   2234688888877666432     55666543221   234566666666


Q ss_pred             HHHh-cCCcEEEEEecCCCc
Q 045709          241 FKIL-SKKKFVLLLDDIWEL  259 (337)
Q Consensus       241 ~~~l-~~k~~LlVlDdv~~~  259 (337)
                      .... ..+.-+||+|.+...
T Consensus       454 ~~lv~~~~~~lIVIDSL~al  473 (2050)
T 3cmu_A          454 DALARSGAVDVIVVDSVAAL  473 (2050)
T ss_dssp             HHHHHHTCCSEEEESCGGGC
T ss_pred             HHHHHhcCCcEEEECCHHHh
Confidence            5544 345679999988643

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=96.08  E-value=0.025  Score=52.40  Aligned_cols=51  Identities=10%  Similarity=-0.068  Sum_probs=35.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIA  218 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  218 (337)
                      ...++.|.|.+|+|||||+..++.....  ..-..++|++...  +...+...++
T Consensus       199 ~G~l~ii~G~pg~GKT~lal~ia~~~a~--~~g~~vl~~slE~--~~~~l~~R~~  249 (444)
T 2q6t_A          199 PGSLNIIAARPAMGKTAFALTIAQNAAL--KEGVGVGIYSLEM--PAAQLTLRMM  249 (444)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHHHHHHH--TTCCCEEEEESSS--CHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHHH--hCCCeEEEEECCC--CHHHHHHHHH
Confidence            5679999999999999999999887631  1223577776653  3445555544

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.08  E-value=0.0039  Score=51.91  Aligned_cols=26  Identities=23%  Similarity=0.236  Sum_probs=23.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....|.|.|++|+||||+++.+...+
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l   29 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKY   29 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34678999999999999999999887

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=96.07  E-value=0.062  Score=50.46  Aligned_cols=26  Identities=23%  Similarity=0.485  Sum_probs=22.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+|.|+|.+|+||||++..++..+
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l  125 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYY  125 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35789999999999999999998776

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.07  E-value=0.0043  Score=49.38  Aligned_cols=26  Identities=23%  Similarity=0.230  Sum_probs=23.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+++.|+|.+|+|||||+..+...+
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l   28 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAA   28 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhh
Confidence            35789999999999999999998877

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.07  E-value=0.0046  Score=53.47  Aligned_cols=127  Identities=19%  Similarity=0.224  Sum_probs=67.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--C----------------cEEEEEEecCc-----cCHH---------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--F----------------DFVIWVVVSRD-----LQLE---------  211 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f----------------~~~~wv~~~~~-----~~~~---------  211 (337)
                      +..+++|+|++|+|||||++.+..-.....+.  +                ..+.|+.-...     .++.         
T Consensus        33 ~Ge~~~iiGpnGsGKSTLl~~l~Gl~~p~~G~I~~~G~~i~~~~~~~~~~~~~ig~v~Q~~~~~~~~~tv~e~l~~~~~~  112 (275)
T 3gfo_A           33 RGEVTAILGGNGVGKSTLFQNFNGILKPSSGRILFDNKPIDYSRKGIMKLRESIGIVFQDPDNQLFSASVYQDVSFGAVN  112 (275)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEECCCSHHHHHHHHHSEEEECSSGGGTCCSSBHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCCCCCCeEEEECCEECCcccccHHHHhCcEEEEEcCcccccccCcHHHHHHHHHHH
Confidence            56799999999999999999997644100000  0                01233321110     0111         


Q ss_pred             ---------HHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc---cccCCCCCC--C
Q 045709          212 ---------KIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD---QVGLPIPSR--T  273 (337)
Q Consensus       212 ---------~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~~--~  273 (337)
                               +...+++..++...   ......+..+.++. |...|..++-+|+||+.-+..+..   .+...+...  .
T Consensus       113 ~~~~~~~~~~~~~~~l~~~~L~~~~~~~~~~LSgGqkQRv~iAraL~~~P~lLlLDEPts~LD~~~~~~i~~~l~~l~~~  192 (275)
T 3gfo_A          113 MKLPEDEIRKRVDNALKRTGIEHLKDKPTHCLSFGQKKRVAIAGVLVMEPKVLILDEPTAGLDPMGVSEIMKLLVEMQKE  192 (275)
T ss_dssp             SCCCHHHHHHHHHHHHHHTTCGGGTTSBGGGSCHHHHHHHHHHHHHTTCCSEEEEECTTTTCCHHHHHHHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHHHcCCchhhcCCcccCCHHHHHHHHHHHHHHcCCCEEEEECccccCCHHHHHHHHHHHHHHHhh
Confidence                     12234445555432   11234555554443 666777888999999976543311   111111111  1


Q ss_pred             CCCcEEEEeeCChhHHhh
Q 045709          274 SVSNKVVFTTREFGVCGQ  291 (337)
Q Consensus       274 ~g~s~IiiTtr~~~v~~~  291 (337)
                      .| ..||++|.+.+.+..
T Consensus       193 ~g-~tvi~vtHdl~~~~~  209 (275)
T 3gfo_A          193 LG-ITIIIATHDIDIVPL  209 (275)
T ss_dssp             HC-CEEEEEESCCSSGGG
T ss_pred             CC-CEEEEEecCHHHHHH
Confidence            25 788999988665543

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.06  E-value=0.0024  Score=53.65  Aligned_cols=26  Identities=27%  Similarity=0.271  Sum_probs=17.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHH-Hhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQIN-NRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~-~~~  189 (337)
                      ...+++|+|++|+|||||++.+. ...
T Consensus        26 ~G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           26 VGVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCCEEEEECSCC----CHHHHHHC---
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            45789999999999999999998 543

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.05  E-value=0.0039  Score=50.94  Aligned_cols=25  Identities=24%  Similarity=0.343  Sum_probs=22.5

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...|+|.|+.|+||||+++.+...+
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998765

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.05  E-value=0.0033  Score=54.03  Aligned_cols=27  Identities=30%  Similarity=0.444  Sum_probs=23.4

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||++.+..-.
T Consensus        30 ~~Ge~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           30 RAGDVISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            356799999999999999999997644

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=96.03  E-value=0.01  Score=52.51  Aligned_cols=26  Identities=38%  Similarity=0.598  Sum_probs=23.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+++|+|.+|+||||++..++..+
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l  129 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYY  129 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999999998877

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.01  E-value=0.0042  Score=51.37  Aligned_cols=23  Identities=35%  Similarity=0.525  Sum_probs=20.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|.|++|+||||+|+.+...+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998876

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=95.99  E-value=0.0041  Score=52.98  Aligned_cols=25  Identities=28%  Similarity=0.417  Sum_probs=22.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      ...+++|+|++|+|||||++.++.-
T Consensus        28 ~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           28 KGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            5679999999999999999999874

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=95.99  E-value=0.033  Score=52.48  Aligned_cols=51  Identities=14%  Similarity=0.094  Sum_probs=36.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIA  218 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  218 (337)
                      ...++.|.|.+|+|||||+..++.... . .+-..++|++...  +..++...++
T Consensus       241 ~G~l~li~G~pG~GKT~lal~~a~~~a-~-~~g~~vl~~s~E~--s~~~l~~r~~  291 (503)
T 1q57_A          241 GGEVIMVTSGSGMVMSTFVRQQALQWG-T-AMGKKVGLAMLEE--SVEETAEDLI  291 (503)
T ss_dssp             TTCEEEEEESSCHHHHHHHHHHHHHHT-T-TSCCCEEEEESSS--CHHHHHHHHH
T ss_pred             CCeEEEEeecCCCCchHHHHHHHHHHH-H-hcCCcEEEEeccC--CHHHHHHHHH
Confidence            567899999999999999999988872 1 2133577777654  3445555443

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=95.98  E-value=0.0044  Score=53.39  Aligned_cols=26  Identities=27%  Similarity=0.479  Sum_probs=23.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      ....+++|+|++|+|||||++.++.-
T Consensus        44 ~~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           44 HPGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            36679999999999999999999874

>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=95.98  E-value=0.0037  Score=53.72  Aligned_cols=126  Identities=19%  Similarity=0.151  Sum_probs=68.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCC------C------CC------cEEEEEEecC----ccCHHH--------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTP------N------HF------DFVIWVVVSR----DLQLEK--------  212 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~------~------~f------~~~~wv~~~~----~~~~~~--------  212 (337)
                      ....+++|+|++|+|||||++.+..-.....      +      ..      ..+.|+.-..    ..++.+        
T Consensus        48 ~~Gei~~liG~NGsGKSTLlk~l~Gl~~p~~G~I~~~g~~i~~~~~~~~~~~~~i~~v~Q~~~l~~~~tv~e~l~~~~~~  127 (263)
T 2olj_A           48 REGEVVVVIGPSGSGKSTFLRCLNLLEDFDEGEIIIDGINLKAKDTNLNKVREEVGMVFQRFNLFPHMTVLNNITLAPMK  127 (263)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEESSSTTCCHHHHHHHEEEECSSCCCCTTSCHHHHHHHHHHH
T ss_pred             cCCCEEEEEcCCCCcHHHHHHHHHcCCCCCCcEEEECCEECCCccccHHHHhCcEEEEeCCCcCCCCCCHHHHHHHHHHH
Confidence            3667999999999999999999976441000      0      00      0133332111    111111        


Q ss_pred             -----------HHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCcccc------ccccCCCCC
Q 045709          213 -----------IQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDL------DQVGLPIPS  271 (337)
Q Consensus       213 -----------~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~------~~l~~~l~~  271 (337)
                                 ...++++.++...   ......+..+.++. +...|-.++-+|+||+.-+..+.      .++...+. 
T Consensus       128 ~~~~~~~~~~~~~~~~l~~~~L~~~~~~~~~~LSgGqkQRv~lAraL~~~p~lllLDEPts~LD~~~~~~~~~~l~~l~-  206 (263)
T 2olj_A          128 VRKWPREKAEAKAMELLDKVGLKDKAHAYPDSLSGGQAQRVAIARALAMEPKIMLFDEPTSALDPEMVGEVLSVMKQLA-  206 (263)
T ss_dssp             TSCCCHHHHHHHHHHHHHHTTCGGGTTSCGGGSCHHHHHHHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHH-
T ss_pred             HcCCCHHHHHHHHHHHHHHCCCchHhcCChhhCCHHHHHHHHHHHHHHCCCCEEEEeCCcccCCHHHHHHHHHHHHHHH-
Confidence                       1233445554421   11234555554443 55677778889999998655331      12211121 


Q ss_pred             CCCCCcEEEEeeCChhHHhh
Q 045709          272 RTSVSNKVVFTTREFGVCGQ  291 (337)
Q Consensus       272 ~~~g~s~IiiTtr~~~v~~~  291 (337)
                       ..| ..||++|++.+.+..
T Consensus       207 -~~g-~tvi~vtHd~~~~~~  224 (263)
T 2olj_A          207 -NEG-MTMVVVTHEMGFARE  224 (263)
T ss_dssp             -HTT-CEEEEECSCHHHHHH
T ss_pred             -hCC-CEEEEEcCCHHHHHH
Confidence             125 789999998766543

>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=95.97  E-value=0.017  Score=61.62  Aligned_cols=88  Identities=20%  Similarity=0.198  Sum_probs=60.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEI  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  240 (337)
                      ...++.|+|.+|+||||||.+++....   ..-..++|++.....+..     .+..++...+..   ...+.++....+
T Consensus       382 ~G~lilI~G~pGsGKTtLaLq~a~~~~---~~G~~vlyis~E~s~~~~-----~a~~lGvd~~~L~i~~~~~~e~~l~~l  453 (1706)
T 3cmw_A          382 MGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEIC  453 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEECTTSCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH---HhCCCeEEEEccCchHHH-----HHHHcCCCHHHeEEcCCCCHHHHHHHH
Confidence            578999999999999999999988773   223468899887776653     255666543221   233456666656


Q ss_pred             HHHh-cCCcEEEEEecCCCc
Q 045709          241 FKIL-SKKKFVLLLDDIWEL  259 (337)
Q Consensus       241 ~~~l-~~k~~LlVlDdv~~~  259 (337)
                      .... ..+.-+||+|.+...
T Consensus       454 ~~lv~~~~~~lVVIDSL~al  473 (1706)
T 3cmw_A          454 DALARSGAVDVIVVDSVAAL  473 (1706)
T ss_dssp             HHHHHHTCCSEEEESCSTTC
T ss_pred             HHHHHhcCCCEEEECCHHHh
Confidence            5544 345669999998654

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=95.97  E-value=0.0036  Score=53.64  Aligned_cols=26  Identities=27%  Similarity=0.456  Sum_probs=22.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|++|+|||||.+.++.-.
T Consensus        32 ~Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           32 KGDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            56799999999999999999996643

>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=95.97  E-value=0.0036  Score=53.02  Aligned_cols=123  Identities=20%  Similarity=0.107  Sum_probs=66.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCC----------CC-------cEEEEEEecC----ccC-------------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPN----------HF-------DFVIWVVVSR----DLQ-------------  209 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~----------~f-------~~~~wv~~~~----~~~-------------  209 (337)
                      ...+++|+|++|+|||||.+.++.-.....+          ..       ..+.|+.-..    ..+             
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~~~~~~~~~~~~~~i~~v~q~~~l~~~ltv~enl~~~~~~~~  110 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAGLVRAQKGKIIFNGQDITNKPAHVINRMGIALVPEGRRIFPELTVYENLMMGAYNRK  110 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEETTEECTTCCHHHHHHTTEEEECSSCCCCTTSBHHHHHHGGGTTCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCEECCCCCHHHHHhCCEEEEecCCccCCCCcHHHHHHHhhhcCC
Confidence            5679999999999999999999764310000          00       0133332110    001             


Q ss_pred             ----HHHHHHHHHHHhC-CC---CccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc------cccCCCCCCCC
Q 045709          210 ----LEKIQESIAKKIG-LF---NESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD------QVGLPIPSRTS  274 (337)
Q Consensus       210 ----~~~~~~~i~~~l~-~~---~~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~------~l~~~l~~~~~  274 (337)
                          ..+....+++.++ ..   .......+..+.++. +...|..++-+|+||+.-+..+..      .+...+..  .
T Consensus       111 ~~~~~~~~~~~~l~~~~~l~~~~~~~~~~LSgGq~qrv~lAraL~~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~--~  188 (240)
T 1ji0_A          111 DKEGIKRDLEWIFSLFPRLKERLKQLGGTLSGGEQQMLAIGRALMSRPKLLMMDEPSLGLAPILVSEVFEVIQKINQ--E  188 (240)
T ss_dssp             CSSHHHHHHHHHHHHCHHHHTTTTSBSSSSCHHHHHHHHHHHHHTTCCSEEEEECTTTTCCHHHHHHHHHHHHHHHH--T
T ss_pred             CHHHHHHHHHHHHHHcccHhhHhcCChhhCCHHHHHHHHHHHHHHcCCCEEEEcCCcccCCHHHHHHHHHHHHHHHH--C
Confidence                1122334444442 21   112244555554443 556777788899999986653321      11111211  3


Q ss_pred             CCcEEEEeeCChhHH
Q 045709          275 VSNKVVFTTREFGVC  289 (337)
Q Consensus       275 g~s~IiiTtr~~~v~  289 (337)
                      | ..||++|++.+.+
T Consensus       189 g-~tvi~vtHd~~~~  202 (240)
T 1ji0_A          189 G-TTILLVEQNALGA  202 (240)
T ss_dssp             T-CCEEEEESCHHHH
T ss_pred             C-CEEEEEecCHHHH
Confidence            5 6789999987544

>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=95.96  E-value=0.0057  Score=52.02  Aligned_cols=26  Identities=31%  Similarity=0.618  Sum_probs=23.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|++|+|||||++.+..-.
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            56799999999999999999997654

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=95.96  E-value=0.013  Score=56.64  Aligned_cols=43  Identities=21%  Similarity=0.264  Sum_probs=36.9

Q ss_pred             ccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          145 TVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|.+..++.+...+...  ..+.|+|++|+||||||+.++...
T Consensus        42 ~i~G~~~~l~~l~~~i~~g--~~vll~Gp~GtGKTtlar~ia~~l   84 (604)
T 3k1j_A           42 QVIGQEHAVEVIKTAANQK--RHVLLIGEPGTGKSMLGQAMAELL   84 (604)
T ss_dssp             HCCSCHHHHHHHHHHHHTT--CCEEEECCTTSSHHHHHHHHHHTS
T ss_pred             eEECchhhHhhccccccCC--CEEEEEeCCCCCHHHHHHHHhccC
Confidence            4799988888887777544  688999999999999999999876

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=95.96  E-value=0.0024  Score=52.70  Aligned_cols=23  Identities=30%  Similarity=0.743  Sum_probs=21.5

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +|+|.|.+|+||||+++.+...+
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            68999999999999999998877

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.96  E-value=0.0034  Score=51.90  Aligned_cols=25  Identities=32%  Similarity=0.211  Sum_probs=22.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      ...+++|+|++|+|||||++.+..-
T Consensus        21 ~Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           21 TNTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             HCSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4578999999999999999999765

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=95.95  E-value=0.0032  Score=52.30  Aligned_cols=126  Identities=18%  Similarity=0.204  Sum_probs=67.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--C---------cEEEEEEecC----ccCHH----------------H
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--F---------DFVIWVVVSR----DLQLE----------------K  212 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f---------~~~~wv~~~~----~~~~~----------------~  212 (337)
                      ...+++|+|++|+|||||++.++.-.....+.  +         ..+.|+.-..    ..++.                .
T Consensus        34 ~Ge~~~iiG~NGsGKSTLlk~l~Gl~~p~~G~I~~~g~~~~~~~~~i~~v~q~~~~~~~~tv~enl~~~~~~~~~~~~~~  113 (214)
T 1sgw_A           34 KGNVVNFHGPNGIGKTTLLKTISTYLKPLKGEIIYNGVPITKVKGKIFFLPEEIIVPRKISVEDYLKAVASLYGVKVNKN  113 (214)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEEGGGGGGGEEEECSSCCCCTTSBHHHHHHHHHHHTTCCCCHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCCeEEEECCEEhhhhcCcEEEEeCCCcCCCCCCHHHHHHHHHHhcCCchHHH
Confidence            56789999999999999999997654100000  0         1123332111    11111                1


Q ss_pred             HHHHHHHHhCCCC--ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc---cccCCCCCC-CCCCcEEEEeeCC
Q 045709          213 IQESIAKKIGLFN--ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD---QVGLPIPSR-TSVSNKVVFTTRE  285 (337)
Q Consensus       213 ~~~~i~~~l~~~~--~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~~-~~g~s~IiiTtr~  285 (337)
                      -...+++.++...  ......+..+.++. +...|..++-+|+||+.-+..+..   .+...+... ..| ..||++|++
T Consensus       114 ~~~~~l~~~gl~~~~~~~~~LSgGqkqrv~laraL~~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~g-~tiiivtHd  192 (214)
T 1sgw_A          114 EIMDALESVEVLDLKKKLGELSQGTIRRVQLASTLLVNAEIYVLDDPVVAIDEDSKHKVLKSILEILKEK-GIVIISSRE  192 (214)
T ss_dssp             HHHHHHHHTTCCCTTSBGGGSCHHHHHHHHHHHHTTSCCSEEEEESTTTTSCTTTHHHHHHHHHHHHHHH-SEEEEEESS
T ss_pred             HHHHHHHHcCCCcCCCChhhCCHHHHHHHHHHHHHHhCCCEEEEECCCcCCCHHHHHHHHHHHHHHHhCC-CEEEEEeCC
Confidence            2334555555432  11234455554443 566777888899999876543321   111111110 124 678888887


Q ss_pred             hhHHh
Q 045709          286 FGVCG  290 (337)
Q Consensus       286 ~~v~~  290 (337)
                      ...+.
T Consensus       193 ~~~~~  197 (214)
T 1sgw_A          193 ELSYC  197 (214)
T ss_dssp             CCTTS
T ss_pred             HHHHH
Confidence            65443

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=95.94  E-value=0.0061  Score=52.58  Aligned_cols=27  Identities=26%  Similarity=0.444  Sum_probs=23.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||++.++.-.
T Consensus        43 ~~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           43 YPGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            466799999999999999999997654

>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=95.93  E-value=0.0046  Score=51.19  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=20.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|+|.|++|+||||+|+.+...+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998766

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=95.93  E-value=0.0054  Score=52.21  Aligned_cols=27  Identities=19%  Similarity=0.324  Sum_probs=23.4

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+|+|.|++|+||||+|+.+...+
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~l   46 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLL   46 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356789999999999999999998865

>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=95.93  E-value=0.004  Score=53.25  Aligned_cols=126  Identities=17%  Similarity=0.162  Sum_probs=69.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--C-------------cEEEEEEecC----ccCHHH-----------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--F-------------DFVIWVVVSR----DLQLEK-----------  212 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f-------------~~~~wv~~~~----~~~~~~-----------  212 (337)
                      ....+++|+|++|+|||||.+.++.-.....+.  +             ..+.++.-..    ..++.+           
T Consensus        39 ~~Gei~~l~G~NGsGKSTLlk~l~Gl~~p~~G~I~~~g~~~~~~~~~~~~~i~~v~q~~~l~~~ltv~enl~~~~~~~~~  118 (256)
T 1vpl_A           39 EEGEIFGLIGPNGAGKTTTLRIISTLIKPSSGIVTVFGKNVVEEPHEVRKLISYLPEEAGAYRNMQGIEYLRFVAGFYAS  118 (256)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEETTTCHHHHHTTEEEECTTCCCCTTSBHHHHHHHHHHHHCC
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhcCCCCCceEEEECCEECCccHHHHhhcEEEEcCCCCCCCCCcHHHHHHHHHHHcCC
Confidence            356799999999999999999997644100000  0             0123332110    111111           


Q ss_pred             -------HHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCcccc------ccccCCCCCCCCC
Q 045709          213 -------IQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDL------DQVGLPIPSRTSV  275 (337)
Q Consensus       213 -------~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~------~~l~~~l~~~~~g  275 (337)
                             -..++++.++...   ......+..+.++. +...|..++-+|+||+.-+..+.      .++...+.  ..|
T Consensus       119 ~~~~~~~~~~~~l~~~gL~~~~~~~~~~LSgGq~qRv~lAraL~~~p~lllLDEPts~LD~~~~~~l~~~l~~l~--~~g  196 (256)
T 1vpl_A          119 SSSEIEEMVERATEIAGLGEKIKDRVSTYSKGMVRKLLIARALMVNPRLAILDEPTSGLDVLNAREVRKILKQAS--QEG  196 (256)
T ss_dssp             CHHHHHHHHHHHHHHHCCGGGGGSBGGGCCHHHHHHHHHHHHHTTCCSEEEEESTTTTCCHHHHHHHHHHHHHHH--HTT
T ss_pred             ChHHHHHHHHHHHHHCCCchHhcCChhhCCHHHHHHHHHHHHHHcCCCEEEEeCCccccCHHHHHHHHHHHHHHH--hCC
Confidence                   2234455555532   11234555554443 55677788889999998665331      11111121  135


Q ss_pred             CcEEEEeeCChhHHhh
Q 045709          276 SNKVVFTTREFGVCGQ  291 (337)
Q Consensus       276 ~s~IiiTtr~~~v~~~  291 (337)
                       ..||++|.+.+.+..
T Consensus       197 -~tiiivtHd~~~~~~  211 (256)
T 1vpl_A          197 -LTILVSSHNMLEVEF  211 (256)
T ss_dssp             -CEEEEEECCHHHHTT
T ss_pred             -CEEEEEcCCHHHHHH
Confidence             789999998766544

>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=95.92  E-value=0.0043  Score=52.63  Aligned_cols=27  Identities=22%  Similarity=0.500  Sum_probs=23.4

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||++.++.-.
T Consensus        26 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           26 QPNSIIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            456899999999999999999996643

>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=95.91  E-value=0.0044  Score=53.33  Aligned_cols=126  Identities=14%  Similarity=0.179  Sum_probs=68.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--C--------------cEEEEEEecC----cc---------------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--F--------------DFVIWVVVSR----DL---------------  208 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f--------------~~~~wv~~~~----~~---------------  208 (337)
                      ...+++|+|++|+|||||++.+..-.....+.  |              ..+.++.-..    ..               
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl~~p~~G~I~~~g~~~~~~~~~~~~~~i~~v~q~~~~~~~~tv~e~l~~~~~~~~~  115 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGYLSPSHGECHLLGQNLNSWQPKALARTRAVMRQYSELAFPFSVSEVIQMGRAPYGG  115 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSSSCCSSCEEEETTEETTTSCHHHHHHHEEEECSCCCCCSCCBHHHHHHGGGTTSCS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCCCCCCcEEEECCEECCcCCHHHHhheEEEEecCCccCCCCCHHHHHHhhhhhcCc
Confidence            56899999999999999999997644110000  0              0122221100    01               


Q ss_pred             -CHHHHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcC------CcEEEEEecCCCcccc------ccccCCCCC
Q 045709          209 -QLEKIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSK------KKFVLLLDDIWELVDL------DQVGLPIPS  271 (337)
Q Consensus       209 -~~~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~------k~~LlVlDdv~~~~~~------~~l~~~l~~  271 (337)
                       ...+...+++..++...   ......+..+.++. |...|-.      ++-+|+||+.-+..+.      .++...+..
T Consensus       116 ~~~~~~~~~~l~~~~l~~~~~~~~~~LSgGq~QRv~iAraL~~~~~~~~~p~lLllDEPts~LD~~~~~~i~~~l~~l~~  195 (266)
T 4g1u_C          116 SQDRQALQQVMAQTDCLALAQRDYRVLSGGEQQRVQLARVLAQLWQPQPTPRWLFLDEPTSALDLYHQQHTLRLLRQLTR  195 (266)
T ss_dssp             TTHHHHHHHHHHHTTCSTTTTSBGGGCCHHHHHHHHHHHHHHHTCCSSCCCEEEEECCCCSSCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChhHhcCCcccCCHHHHHHHHHHHHHhcccccCCCCCEEEEeCccccCCHHHHHHHHHHHHHHHH
Confidence             12233455666666532   12234555554443 4455555      8889999997654331      111111111


Q ss_pred             CCCCCcEEEEeeCChhHHhh
Q 045709          272 RTSVSNKVVFTTREFGVCGQ  291 (337)
Q Consensus       272 ~~~g~s~IiiTtr~~~v~~~  291 (337)
                       ..+ ..||++|++-+.+..
T Consensus       196 -~~~-~tvi~vtHdl~~~~~  213 (266)
T 4g1u_C          196 -QEP-LAVCCVLHDLNLAAL  213 (266)
T ss_dssp             -HSS-EEEEEECSCHHHHHH
T ss_pred             -cCC-CEEEEEEcCHHHHHH
Confidence             123 689999999776543

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.90  E-value=0.0046  Score=52.64  Aligned_cols=25  Identities=32%  Similarity=0.347  Sum_probs=23.1

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|+|+|++|+||||+++.+....
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhc
Confidence            5789999999999999999998876

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.90  E-value=0.0056  Score=55.00  Aligned_cols=26  Identities=31%  Similarity=0.580  Sum_probs=23.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+++|+|++|+||||+++.++..+
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            46799999999999999999998876

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=95.89  E-value=0.011  Score=49.62  Aligned_cols=26  Identities=27%  Similarity=0.549  Sum_probs=24.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....|.|.|++|+||||+++.+...+
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l   50 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRL   50 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            46789999999999999999999988

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.89  E-value=0.0052  Score=50.11  Aligned_cols=26  Identities=31%  Similarity=0.629  Sum_probs=23.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+|+|.|+.|+||||+++.+...+
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~l   36 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNKY   36 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHhc
Confidence            56799999999999999999998764

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=95.87  E-value=0.025  Score=50.94  Aligned_cols=52  Identities=17%  Similarity=0.140  Sum_probs=34.4

Q ss_pred             HHHHHHhc-CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc
Q 045709          155 RVWRCLME-EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD  207 (337)
Q Consensus       155 ~l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~  207 (337)
                      +.++.+.. .+...++|+|.+|+|||+|+..+.+........+.+ +++-+...
T Consensus       164 raID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~~-V~~lIGER  216 (427)
T 3l0o_A          164 RLIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGIAENHPDTIR-IILLIDER  216 (427)
T ss_dssp             HHHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSEE-EEEECSCC
T ss_pred             hhhhhcccccCCceEEEecCCCCChhHHHHHHHHHHhhcCCCeEE-EEEEeccC
Confidence            34555544 467789999999999999999998875211123333 45655543

>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=95.86  E-value=0.018  Score=61.53  Aligned_cols=88  Identities=19%  Similarity=0.193  Sum_probs=64.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEI  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  240 (337)
                      +.++|-|+|+.|+||||||.++....   +..-...+|+...+..++.-     +..++...+..   ...+.++....+
T Consensus      1430 rg~~iei~g~~~sGkttl~~~~~a~~---~~~g~~~~~i~~e~~~~~~~-----~~~~Gv~~~~l~~~~p~~~e~~l~~~ 1501 (1706)
T 3cmw_A         1430 MGRIVEIYGPESSGKTTLTLQVIAAA---QREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEIC 1501 (1706)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHH---HHTTCCEEEECTTSCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHH---HhcCCeEEEEecCCCCCHHH-----HHHcCCCHHHeEEeCCCcHHHHHHHH
Confidence            56899999999999999999998776   34456788888887766653     77777765433   334456666666


Q ss_pred             HHHhc-CCcEEEEEecCCCc
Q 045709          241 FKILS-KKKFVLLLDDIWEL  259 (337)
Q Consensus       241 ~~~l~-~k~~LlVlDdv~~~  259 (337)
                      ...++ +..-++|+|-|-..
T Consensus      1502 ~~~~~s~~~~~vvvDsv~al 1521 (1706)
T 3cmw_A         1502 DALARSGAVDVIVVDSVAAL 1521 (1706)
T ss_dssp             HHHHHHTCCSEEEESCSTTC
T ss_pred             HHHHHcCCCCEEEEccHHhC
Confidence            66665 45669999988543

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=95.83  E-value=0.0047  Score=52.99  Aligned_cols=27  Identities=22%  Similarity=0.357  Sum_probs=23.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||++.+..-.
T Consensus        44 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           44 PSGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            356799999999999999999997654

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=95.82  E-value=0.0045  Score=52.70  Aligned_cols=26  Identities=35%  Similarity=0.515  Sum_probs=23.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|++|+|||||.+.++.-.
T Consensus        25 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           25 AGEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            56789999999999999999997654

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=95.81  E-value=0.0048  Score=53.12  Aligned_cols=125  Identities=15%  Similarity=0.110  Sum_probs=68.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--C-----------cEEEEEEecC-----ccCH--------------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--F-----------DFVIWVVVSR-----DLQL--------------  210 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f-----------~~~~wv~~~~-----~~~~--------------  210 (337)
                      ....+++|+|++|+|||||++.++.-.....+.  +           ..+.|+.-..     ..++              
T Consensus        31 ~~Ge~~~liG~nGsGKSTLl~~i~Gl~~p~~G~I~~~g~~~~~~~~~~~i~~v~q~~~~~~~~~tv~enl~~~~~~~~~~  110 (266)
T 2yz2_A           31 NEGECLLVAGNTGSGKSTLLQIVAGLIEPTSGDVLYDGERKKGYEIRRNIGIAFQYPEDQFFAERVFDEVAFAVKNFYPD  110 (266)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEETTEECCHHHHGGGEEEECSSGGGGCCCSSHHHHHHHTTTTTCTT
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCCCCCcEEEECCEECchHHhhhhEEEEeccchhhcCCCcHHHHHHHHHHhcCCH
Confidence            356799999999999999999997644100000  0           1123332110     0011              


Q ss_pred             ---HHHHHHHHHHhCCC--C---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc------cccCCCCCCCCC
Q 045709          211 ---EKIQESIAKKIGLF--N---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD------QVGLPIPSRTSV  275 (337)
Q Consensus       211 ---~~~~~~i~~~l~~~--~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~------~l~~~l~~~~~g  275 (337)
                         .+-...+++.++..  .   ......+..+.++. +...|..++-+|+||+.-+..+..      ++...+..  .|
T Consensus       111 ~~~~~~~~~~l~~~gl~~~~~~~~~~~~LSgGq~qRv~lAraL~~~p~lllLDEPts~LD~~~~~~l~~~l~~l~~--~g  188 (266)
T 2yz2_A          111 RDPVPLVKKAMEFVGLDFDSFKDRVPFFLSGGEKRRVAIASVIVHEPDILILDEPLVGLDREGKTDLLRIVEKWKT--LG  188 (266)
T ss_dssp             SCSHHHHHHHHHHTTCCHHHHTTCCGGGSCHHHHHHHHHHHHHTTCCSEEEEESTTTTCCHHHHHHHHHHHHHHHH--TT
T ss_pred             HHHHHHHHHHHHHcCcCCcccccCChhhCCHHHHHHHHHHHHHHcCCCEEEEcCccccCCHHHHHHHHHHHHHHHH--cC
Confidence               11233455555554  1   11234555544443 556777888899999987653321      11111211  25


Q ss_pred             CcEEEEeeCChhHHh
Q 045709          276 SNKVVFTTREFGVCG  290 (337)
Q Consensus       276 ~s~IiiTtr~~~v~~  290 (337)
                       ..||++|++.+.+.
T Consensus       189 -~tii~vtHd~~~~~  202 (266)
T 2yz2_A          189 -KTVILISHDIETVI  202 (266)
T ss_dssp             -CEEEEECSCCTTTG
T ss_pred             -CEEEEEeCCHHHHH
Confidence             68889998865543

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=95.81  E-value=0.0056  Score=50.81  Aligned_cols=25  Identities=28%  Similarity=0.300  Sum_probs=22.5

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...|.|.|++|+||||+++.+...+
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3578999999999999999998877

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.80  E-value=0.01  Score=50.88  Aligned_cols=27  Identities=22%  Similarity=0.423  Sum_probs=24.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||++.+....
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhC
Confidence            567899999999999999999998765

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=95.80  E-value=0.031  Score=51.80  Aligned_cols=41  Identities=17%  Similarity=0.118  Sum_probs=31.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      .+..++.|.|.+|+||||||..++..... .  -..++|++...
T Consensus       195 ~~G~liiIaG~pG~GKTtlal~ia~~~a~-~--g~~vl~fSlEm  235 (444)
T 3bgw_A          195 KRRNFVLIAARPSMGKTAFALKQAKNMSD-N--DDVVNLHSLEM  235 (444)
T ss_dssp             CSSCEEEEEECSSSSHHHHHHHHHHHHHH-T--TCEEEEECSSS
T ss_pred             CCCcEEEEEeCCCCChHHHHHHHHHHHHH-c--CCEEEEEECCC
Confidence            35679999999999999999999887732 2  24677776543

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=95.77  E-value=0.0047  Score=53.52  Aligned_cols=26  Identities=42%  Similarity=0.543  Sum_probs=23.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|++|+|||||++.++.-.
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            56799999999999999999997644

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=95.77  E-value=0.0066  Score=50.30  Aligned_cols=23  Identities=35%  Similarity=0.395  Sum_probs=20.9

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999965

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.75  E-value=0.0036  Score=50.02  Aligned_cols=24  Identities=33%  Similarity=0.468  Sum_probs=22.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+++|+|.+|+|||||++.+...+
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998877

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=95.74  E-value=0.0049  Score=52.61  Aligned_cols=125  Identities=18%  Similarity=0.214  Sum_probs=68.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC---CcEEEEEEecC----ccCH----------------------HHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH---FDFVIWVVVSR----DLQL----------------------EKIQ  214 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~---f~~~~wv~~~~----~~~~----------------------~~~~  214 (337)
                      ...+++|+|++|+|||||.+.++.-.....+.   ...+.|+.-..    ..++                      .+-.
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~I~~~~~i~~v~q~~~~~~~~tv~enl~~~~~~~~~~~~~~~~~~~~~~  109 (253)
T 2nq2_C           30 KGDILAVLGQNGCGKSTLLDLLLGIHRPIQGKIEVYQSIGFVPQFFSSPFAYSVLDIVLMGRSTHINTFAKPKSHDYQVA  109 (253)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHTTSSCCSEEEEEECSCEEEECSCCCCSSCCBHHHHHHGGGGGGSCTTCCCCHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEEeccEEEEcCCCccCCCCCHHHHHHHhhhhhcccccCCCHHHHHHH
Confidence            56789999999999999999997754110010   01123332100    0011                      1223


Q ss_pred             HHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc------cccCCCCCCCCCCcEEEEeeC
Q 045709          215 ESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD------QVGLPIPSRTSVSNKVVFTTR  284 (337)
Q Consensus       215 ~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~------~l~~~l~~~~~g~s~IiiTtr  284 (337)
                      ..++..++...   ......+..+.++. +...|..++-+|+||+.-+..+..      ++...+.. ..| ..||++|+
T Consensus       110 ~~~l~~~~l~~~~~~~~~~LSgGq~qrv~lAraL~~~p~lllLDEPts~LD~~~~~~l~~~l~~l~~-~~g-~tvi~vtH  187 (253)
T 2nq2_C          110 MQALDYLNLTHLAKREFTSLSGGQRQLILIARAIASECKLILLDEPTSALDLANQDIVLSLLIDLAQ-SQN-MTVVFTTH  187 (253)
T ss_dssp             HHHHHHTTCGGGTTSBGGGSCHHHHHHHHHHHHHHTTCSEEEESSSSTTSCHHHHHHHHHHHHHHHH-TSC-CEEEEEES
T ss_pred             HHHHHHcCChHHhcCChhhCCHHHHHHHHHHHHHHcCCCEEEEeCCcccCCHHHHHHHHHHHHHHHH-hcC-CEEEEEec
Confidence            45556665532   11234555554443 556667788899999987653321      11111111 125 78999999


Q ss_pred             ChhHHh
Q 045709          285 EFGVCG  290 (337)
Q Consensus       285 ~~~v~~  290 (337)
                      +.+.+.
T Consensus       188 d~~~~~  193 (253)
T 2nq2_C          188 QPNQVV  193 (253)
T ss_dssp             CHHHHH
T ss_pred             CHHHHH
Confidence            876653

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=95.74  E-value=0.0064  Score=53.31  Aligned_cols=27  Identities=15%  Similarity=0.242  Sum_probs=23.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++..+++|+|++|+|||||++.+..-+
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            467899999999999999999997654

>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=95.71  E-value=0.0071  Score=50.85  Aligned_cols=25  Identities=20%  Similarity=0.394  Sum_probs=22.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|.|.|++|+||||+++.+...+
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998876

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=95.68  E-value=0.022  Score=52.21  Aligned_cols=29  Identities=28%  Similarity=0.347  Sum_probs=25.3

Q ss_pred             hcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          161 MEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       161 ~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ......+++|+|++|+|||||++.+....
T Consensus       163 ~~~~ggii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          163 IKRPHGIILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             HTSSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             HHhcCCeEEEECCCCCCHHHHHHHHHhhc
Confidence            34567899999999999999999998876

>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=95.67  E-value=0.012  Score=50.93  Aligned_cols=120  Identities=15%  Similarity=0.126  Sum_probs=61.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCC-------CCcEEEEEEecCccCHHHHHHH---------------HHHHh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPN-------HFDFVIWVVVSRDLQLEKIQES---------------IAKKI  221 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-------~f~~~~wv~~~~~~~~~~~~~~---------------i~~~l  221 (337)
                      ...++.|+|.+|+|||||+..++........       .-..++|++.....  ..+...               ++..+
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~~~~~g~~~~g~~~~~~~~v~~~~~e~~~--~~~~~r~~~~g~~~~~~~~~~~~~~l  106 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPP--TAIHHRLHALGAHLSAEERQAVADGL  106 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSCH--HHHHHHHHHHHTTSCHHHHHHHHHHE
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHhcCCCcCCCccCCCccEEEEECCCCH--HHHHHHHHHHHhhcChhhhhhccCce
Confidence            5689999999999999999999876521100       02346677765543  222111               12222


Q ss_pred             CCCCc---cccCCCHHHHHHHHHHHhcCCcEEEEEecCCCc--ccc------ccccCCCCC--CCCCCcEEEEeeCChhH
Q 045709          222 GLFNE---SWKNKSMQEKAQEIFKILSKKKFVLLLDDIWEL--VDL------DQVGLPIPS--RTSVSNKVVFTTREFGV  288 (337)
Q Consensus       222 ~~~~~---~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~------~~l~~~l~~--~~~g~s~IiiTtr~~~v  288 (337)
                      .....   .....+..+ .+.+...+. +.-+||||.+-..  .+-      ..+...+..  ...| +.||++|+....
T Consensus       107 ~l~~~~~~~~~~ls~g~-~~~i~~l~~-~~~livlDe~~~~~~~d~~~~~~~~~~~~~L~~l~~~~g-~tvi~i~H~~~~  183 (279)
T 1nlf_A          107 LIQPLIGSLPNIMAPEW-FDGLKRAAE-GRRLMVLDTLRRFHIEEENASGPMAQVIGRMEAIAADTG-CSIVFLHHASKG  183 (279)
T ss_dssp             EECCCTTSCCCTTSHHH-HHHHHHHHT-TCSEEEEECGGGGCCSCTTCHHHHHHHHHHHHHHHHHHC-CEEEEEEEC---
T ss_pred             EEeecCCCCcccCCHHH-HHHHHHhcC-CCCEEEECCHHHhcCCCcCchHHHHHHHHHHHHHHHHcC-CEEEEEecCCCc
Confidence            21110   112223332 445555554 4679999998652  111      122111211  1235 788888886544

>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=95.67  E-value=0.0077  Score=50.56  Aligned_cols=26  Identities=27%  Similarity=0.336  Sum_probs=23.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....|.|.|++|+||||+++.+...+
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~~l   40 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAKNF   40 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34679999999999999999999887

>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=95.67  E-value=0.0074  Score=49.89  Aligned_cols=23  Identities=26%  Similarity=0.257  Sum_probs=21.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|.|++|+||||+++.+...+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998876

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.66  E-value=0.0072  Score=49.45  Aligned_cols=24  Identities=25%  Similarity=0.495  Sum_probs=22.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++|+|.|+.|+||||+++.+...+
T Consensus         3 ~~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            3 GIVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            389999999999999999998876

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=95.65  E-value=0.0082  Score=48.08  Aligned_cols=25  Identities=28%  Similarity=0.453  Sum_probs=22.9

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+++.|+|.+|+|||||+..+....
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            5789999999999999999998876

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.64  E-value=0.0073  Score=50.37  Aligned_cols=23  Identities=22%  Similarity=0.465  Sum_probs=21.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|.|++|+||||+++.+...+
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998876

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=95.59  E-value=0.026  Score=50.65  Aligned_cols=37  Identities=27%  Similarity=0.443  Sum_probs=28.5

Q ss_pred             HHHHHHHHh--cCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          153 FDRVWRCLM--EEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       153 ~~~l~~~L~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+...+.  ..+..+|+|+|.+|+|||||+..+....
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l  103 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHL  103 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHH
Confidence            334444443  3467899999999999999999998776

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.59  E-value=0.0084  Score=52.00  Aligned_cols=23  Identities=26%  Similarity=0.589  Sum_probs=21.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQIN  186 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~  186 (337)
                      ...+|+|.|++|+||||+|+.+.
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            45789999999999999999997

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=95.58  E-value=0.0079  Score=48.68  Aligned_cols=25  Identities=36%  Similarity=0.400  Sum_probs=22.0

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .-.++|+|.+|+|||||.+.+....
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3578999999999999999998765

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.57  E-value=0.0075  Score=52.01  Aligned_cols=23  Identities=26%  Similarity=0.432  Sum_probs=20.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|+|.+|+|||||.+.++...
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998765

>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=95.55  E-value=0.0083  Score=53.79  Aligned_cols=127  Identities=17%  Similarity=0.198  Sum_probs=71.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCC--CC----------------cEEEEEEecC----ccC-----------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPN--HF----------------DFVIWVVVSR----DLQ-----------  209 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--~f----------------~~~~wv~~~~----~~~-----------  209 (337)
                      ....+++|+|++|+|||||.+.++.-.....+  .|                ..+.++.-..    ..+           
T Consensus        28 ~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~G~I~i~G~~i~~~~~~~~~~~r~ig~vfQ~~~l~p~ltV~eni~~~l~~  107 (359)
T 3fvq_A           28 DPGEILFIIGASGCGKTTLLRCLAGFEQPDSGEISLSGKTIFSKNTNLPVRERRLGYLVQEGVLFPHLTVYRNIAYGLGN  107 (359)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTSSCCSEEEEEETTEEEESSSCBCCGGGSCCEEECTTCCCCTTSCHHHHHHTTSTT
T ss_pred             cCCCEEEEECCCCchHHHHHHHHhcCCCCCCcEEEECCEECcccccccchhhCCEEEEeCCCcCCCCCCHHHHHHHHHHH
Confidence            35679999999999999999999774410000  00                1122221000    001           


Q ss_pred             -------HHHHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCcccc-------ccccCCCCC
Q 045709          210 -------LEKIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDL-------DQVGLPIPS  271 (337)
Q Consensus       210 -------~~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~-------~~l~~~l~~  271 (337)
                             ..+-..++++.++...   ......+..+.++. |.+.|-.++-+|+||+--+..+.       ..+..... 
T Consensus       108 ~~~~~~~~~~~v~~~l~~~gL~~~~~r~~~~LSGGq~QRValArAL~~~P~lLLLDEPts~LD~~~r~~l~~~l~~~~~-  186 (359)
T 3fvq_A          108 GKGRTAQERQRIEAMLELTGISELAGRYPHELSGGQQQRAALARALAPDPELILLDEPFSALDEQLRRQIREDMIAALR-  186 (359)
T ss_dssp             SSCCSHHHHHHHHHHHHHHTCGGGTTSCGGGSCHHHHHHHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHH-
T ss_pred             cCCChHHHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHHHcCCCEEEEeCCcccCCHHHHHHHHHHHHHHHH-
Confidence                   1223445666666532   11244555555443 66677788889999997654331       12211111 


Q ss_pred             CCCCCcEEEEeeCChhHHhhc
Q 045709          272 RTSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       272 ~~~g~s~IiiTtr~~~v~~~~  292 (337)
                       ..| ..||++|++.+.+..+
T Consensus       187 -~~g-~tvi~vTHd~~ea~~~  205 (359)
T 3fvq_A          187 -ANG-KSAVFVSHDREEALQY  205 (359)
T ss_dssp             -HTT-CEEEEECCCHHHHHHH
T ss_pred             -hCC-CEEEEEeCCHHHHHHH
Confidence             235 7899999987765443

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=95.54  E-value=0.023  Score=50.48  Aligned_cols=46  Identities=22%  Similarity=0.180  Sum_probs=31.9

Q ss_pred             HhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc
Q 045709          160 LMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL  208 (337)
Q Consensus       160 L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~  208 (337)
                      +.....+++.+.|.||+||||+|..++....   ..-..++-++.....
T Consensus        11 l~~~~~~i~~~sgkGGvGKTt~a~~lA~~la---~~g~~vllid~D~~~   56 (334)
T 3iqw_A           11 LDQRSLRWIFVGGKGGVGKTTTSCSLAIQLA---KVRRSVLLLSTDPAH   56 (334)
T ss_dssp             HHCTTCCEEEEECSTTSSHHHHHHHHHHHHT---TSSSCEEEEECCSSC
T ss_pred             hcCCCeEEEEEeCCCCccHHHHHHHHHHHHH---hCCCcEEEEECCCCC
Confidence            3445577888899999999999999988772   223345555554333

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=95.52  E-value=0.0074  Score=52.60  Aligned_cols=27  Identities=33%  Similarity=0.544  Sum_probs=23.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||++.+..-.
T Consensus        62 ~~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           62 ERGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            356799999999999999999997654

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=95.51  E-value=0.037  Score=51.51  Aligned_cols=90  Identities=17%  Similarity=0.155  Sum_probs=51.6

Q ss_pred             CCCeEEEEEecCCCcHHHHH-HHHHHhhccCCCCCc-EEEEEEecCcc-CHHHHHHHHHHHhCCCCcc----ccCCCHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLL-TQINNRFFDTPNHFD-FVIWVVVSRDL-QLEKIQESIAKKIGLFNES----WKNKSMQE  235 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~~f~-~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~----~~~~~~~~  235 (337)
                      .+...++|+|.+|+|||+|| ..+.+..   .  -+ .++++-+.... ...++.+.+...-......    ..+.+...
T Consensus       160 grGQR~~Ifg~~g~GKT~Lal~~I~~~~---~--~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~  234 (502)
T 2qe7_A          160 GRGQRELIIGDRQTGKTTIAIDTIINQK---G--QDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPL  234 (502)
T ss_dssp             BTTCBCEEEECSSSCHHHHHHHHHHGGG---S--CSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEECTTSCHHH
T ss_pred             ccCCEEEEECCCCCCchHHHHHHHHHhh---c--CCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEECCCCCHHH
Confidence            35678899999999999995 4666654   2  33 34566666543 4556666665532221110    01111111


Q ss_pred             H------HHHHHHHh--cCCcEEEEEecCC
Q 045709          236 K------AQEIFKIL--SKKKFVLLLDDIW  257 (337)
Q Consensus       236 ~------~~~l~~~l--~~k~~LlVlDdv~  257 (337)
                      .      .-.+.+++  +++..||++||+-
T Consensus       235 r~~a~~~a~tiAEyfrd~G~dVLl~~Dslt  264 (502)
T 2qe7_A          235 LYLAPYAGCAMGEYFMYKGKHALVVYDDLS  264 (502)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCcEEEEEecHH
Confidence            1      11233333  5789999999975

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=95.51  E-value=0.03  Score=56.60  Aligned_cols=22  Identities=23%  Similarity=0.132  Sum_probs=20.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQI  185 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v  185 (337)
                      ...+++|+|++|.||||+.+.+
T Consensus       661 ~g~i~~ItGpNGsGKSTlLr~i  682 (934)
T 3thx_A          661 KQMFHIITGPNMGGKSTYIRQT  682 (934)
T ss_dssp             TBCEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHH
Confidence            4689999999999999999998

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.48  E-value=0.0091  Score=53.04  Aligned_cols=24  Identities=25%  Similarity=0.420  Sum_probs=22.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+|+|.|++|+||||||..++..+
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc
Confidence            589999999999999999998876

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=95.48  E-value=0.013  Score=55.81  Aligned_cols=26  Identities=31%  Similarity=0.460  Sum_probs=24.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..++.|+|++|+|||||++.+....
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~L  393 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAARL  393 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHhh
Confidence            56799999999999999999999887

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=95.46  E-value=0.032  Score=51.97  Aligned_cols=90  Identities=13%  Similarity=0.168  Sum_probs=51.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHH-HHHHhhccCCCCCc-EEEEEEecCcc-CHHHHHHHHHHHhCCCCcc----ccCCCHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLT-QINNRFFDTPNHFD-FVIWVVVSRDL-QLEKIQESIAKKIGLFNES----WKNKSMQE  235 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~-~v~~~~~~~~~~f~-~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~----~~~~~~~~  235 (337)
                      .+...++|+|.+|+|||+||. .+.+..     ..+ .++++-+.... .+.++.+.+...-......    ..+.+...
T Consensus       173 grGQR~~I~g~~g~GKT~Lal~~I~~~~-----~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~atad~p~~~  247 (515)
T 2r9v_A          173 GRGQRELIIGDRQTGKTAIAIDTIINQK-----GQGVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASL  247 (515)
T ss_dssp             ETTCBEEEEEETTSSHHHHHHHHHHTTT-----TTTEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEECTTSCHHH
T ss_pred             ccCCEEEEEcCCCCCccHHHHHHHHHhh-----cCCcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEECCCCCHHH
Confidence            366789999999999999964 666654     234 34666666543 4556666665432111100    01111111


Q ss_pred             H------HHHHHHHh--cCCcEEEEEecCC
Q 045709          236 K------AQEIFKIL--SKKKFVLLLDDIW  257 (337)
Q Consensus       236 ~------~~~l~~~l--~~k~~LlVlDdv~  257 (337)
                      .      .-.+.+++  +++..||++||+-
T Consensus       248 r~~a~~~a~tiAEyfrd~G~dVLli~DslT  277 (515)
T 2r9v_A          248 QYIAPYAGCAMGEYFAYSGRDALVVYDDLS  277 (515)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCcEEEEeccHH
Confidence            1      11223333  5789999999975

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=95.45  E-value=0.029  Score=45.82  Aligned_cols=86  Identities=19%  Similarity=0.137  Sum_probs=44.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHHHHH
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEIFKI  243 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l~~~  243 (337)
                      .|+|=|.-|+||||.++.+.+.+.   .....+++..-.......+....++..-.......   -..+..+....+...
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~---~~g~~v~~treP~~t~~~~~ir~~l~~~~~~~~~~~ll~~a~r~~~~~~I~~~   78 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLE---KRGKKVILKREPGGTETGEKIRKILLEEEVTPKAELFLFLASRNLLVTEIKQY   78 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCSSHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH---HCCCcEEEEECCCCCcHHHHHHHHhhcccCChHHHHHHHHHHHHHHHHHHHHH
Confidence            467889999999999999999883   22223344433333334445555543322110000   001112233445555


Q ss_pred             hcCCcEEEEEecC
Q 045709          244 LSKKKFVLLLDDI  256 (337)
Q Consensus       244 l~~k~~LlVlDdv  256 (337)
                      |... ..+|.|-.
T Consensus        79 L~~g-~~Vi~DRy   90 (197)
T 3hjn_A           79 LSEG-YAVLLDRY   90 (197)
T ss_dssp             HTTT-CEEEEESC
T ss_pred             HHCC-CeEEeccc
Confidence            6544 45677754

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=95.45  E-value=0.025  Score=47.58  Aligned_cols=38  Identities=21%  Similarity=0.355  Sum_probs=28.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEE
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVV  203 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~  203 (337)
                      ....|.|.|++|+||||+++.+...+.  ...+..+....
T Consensus        26 ~~~~i~~eG~~GsGKsT~~~~l~~~l~--~~~~~~~~~~r   63 (236)
T 3lv8_A           26 NAKFIVIEGLEGAGKSTAIQVVVETLQ--QNGIDHITRTR   63 (236)
T ss_dssp             CCCEEEEEESTTSCHHHHHHHHHHHHH--HTTCCCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH--hcCCCeeeeec
Confidence            357899999999999999999998873  33455344443

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=95.44  E-value=0.02  Score=51.18  Aligned_cols=30  Identities=27%  Similarity=0.382  Sum_probs=25.1

Q ss_pred             HhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          160 LMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       160 L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.....+++.+.|.||+||||+|..++...
T Consensus        13 l~~~~~~i~~~~gkGGvGKTt~a~~lA~~l   42 (348)
T 3io3_A           13 VQHDSLKWIFVGGKGGVGKTTTSSSVAVQL   42 (348)
T ss_dssp             HTCTTCSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hcCCCcEEEEEeCCCCCcHHHHHHHHHHHH
Confidence            334567899999999999999999988766

>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=95.42  E-value=0.02  Score=53.37  Aligned_cols=39  Identities=28%  Similarity=0.382  Sum_probs=29.1

Q ss_pred             hhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          150 QLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       150 ~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+..+...+.+.+ +.+.|.|.+|+||||++..+....
T Consensus        31 ~~av~~~~~~i~~~~-~~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           31 KNAFNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             HHHHHHHHHHHHSSS-CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCC-CEEEEEeCCCCCHHHHHHHHHHHH
Confidence            344445555554433 489999999999999999998877

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=95.42  E-value=0.03  Score=46.35  Aligned_cols=32  Identities=25%  Similarity=0.281  Sum_probs=26.0

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcE
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDF  198 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~  198 (337)
                      ...|.|-|+.|+||||+++.+...+.  ...+..
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~--~~~~~v   37 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLR--ERGIEV   37 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHH--TTTCCE
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHH--HcCCCc
Confidence            56899999999999999999998883  234544

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.39  E-value=0.0095  Score=52.81  Aligned_cols=26  Identities=27%  Similarity=0.502  Sum_probs=23.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++|.|+|+.|+|||||+..++..+
T Consensus        39 ~~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           39 KEKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHC
Confidence            44689999999999999999998765

>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=95.39  E-value=0.0089  Score=52.46  Aligned_cols=27  Identities=26%  Similarity=0.409  Sum_probs=23.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||++.+..-+
T Consensus        78 ~~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           78 MPGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             CTTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            467899999999999999999997644

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.38  E-value=0.0099  Score=52.43  Aligned_cols=25  Identities=24%  Similarity=0.317  Sum_probs=22.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|.|+|++|+|||||++.++...
T Consensus         5 ~~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            5 PPAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            3589999999999999999998876

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=95.37  E-value=0.0089  Score=48.62  Aligned_cols=24  Identities=38%  Similarity=0.433  Sum_probs=21.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -.++|+|.+|+|||||.+.+....
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~~   29 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRNE   29 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECcCCCCHHHHHHHHhcCC
Confidence            468999999999999999998764

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=95.36  E-value=0.031  Score=46.26  Aligned_cols=53  Identities=17%  Similarity=0.160  Sum_probs=33.9

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAK  219 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  219 (337)
                      ...|.+-|..|+||||+++.+...+.  ...+..+.+..-.....+.+.+++++.
T Consensus         3 g~~i~~eG~~gsGKsT~~~~l~~~l~--~~~~~~v~~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            3 SKYIVIEGLEGAGKTTARNVVVETLE--QLGIRDMVFTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHH--HTTCCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH--HcCCCcceeeeCCCCCHHHHHHHHHHh
Confidence            46889999999999999999998873  233423343333322234444555554

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=95.36  E-value=0.014  Score=53.40  Aligned_cols=25  Identities=20%  Similarity=0.332  Sum_probs=22.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      ...+++|+|.+|+|||||.+.+...
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~Gl   92 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRGI   92 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCC
Confidence            5679999999999999999999873

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=95.35  E-value=0.0097  Score=53.31  Aligned_cols=126  Identities=21%  Similarity=0.204  Sum_probs=69.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCC--------------CCcEEEEEEec----CccCH---------------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPN--------------HFDFVIWVVVS----RDLQL---------------  210 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--------------~f~~~~wv~~~----~~~~~---------------  210 (337)
                      ...+++|+|++|+|||||.+.++.-.....+              .-..+.++.-.    ...++               
T Consensus        40 ~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~eni~~~l~~~~~~~  119 (355)
T 1z47_A           40 EGEMVGLLGPSGSGKTTILRLIAGLERPTKGDVWIGGKRVTDLPPQKRNVGLVFQNYALFQHMTVYDNVSFGLREKRVPK  119 (355)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTCCGGGSSEEEECGGGCCCTTSCHHHHHHHHHHHTTCCH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCCCCccEEEECCEECCcCChhhCcEEEEecCcccCCCCCHHHHHHHHHHHcCCCH
Confidence            5679999999999999999999765410000              00113333211    00111               


Q ss_pred             ---HHHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCcccc-------ccccCCCCCCCCCC
Q 045709          211 ---EKIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDL-------DQVGLPIPSRTSVS  276 (337)
Q Consensus       211 ---~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~-------~~l~~~l~~~~~g~  276 (337)
                         .+-..++++.++...   ......+..+.++. |...|-.++-+|+||+--+..+.       +.+.. +.. ..| 
T Consensus       120 ~~~~~~v~~~l~~~gL~~~~~r~~~~LSGGq~QRvalArAL~~~P~lLLLDEP~s~LD~~~r~~l~~~l~~-l~~-~~g-  196 (355)
T 1z47_A          120 DEMDARVRELLRFMRLESYANRFPHELSGGQQQRVALARALAPRPQVLLFDEPFAAIDTQIRRELRTFVRQ-VHD-EMG-  196 (355)
T ss_dssp             HHHHHHHHHHHHHTTCGGGTTSCGGGSCHHHHHHHHHHHHHTTCCSEEEEESTTCCSSHHHHHHHHHHHHH-HHH-HHT-
T ss_pred             HHHHHHHHHHHHHcCChhHhcCCcccCCHHHHHHHHHHHHHHcCCCEEEEeCCcccCCHHHHHHHHHHHHH-HHH-hcC-
Confidence               112334555555532   11234555554443 66677788889999997654331       12211 111 124 


Q ss_pred             cEEEEeeCChhHHhhc
Q 045709          277 NKVVFTTREFGVCGQM  292 (337)
Q Consensus       277 s~IiiTtr~~~v~~~~  292 (337)
                      ..||++|++.+.+..+
T Consensus       197 ~tvi~vTHd~~~a~~~  212 (355)
T 1z47_A          197 VTSVFVTHDQEEALEV  212 (355)
T ss_dssp             CEEEEECSCHHHHHHH
T ss_pred             CEEEEECCCHHHHHHh
Confidence            6899999987765443

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=95.35  E-value=0.011  Score=51.73  Aligned_cols=25  Identities=28%  Similarity=0.432  Sum_probs=22.4

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|.|.|+.|+|||||+..++...
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhC
Confidence            4689999999999999999998765

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.34  E-value=0.0061  Score=53.14  Aligned_cols=26  Identities=23%  Similarity=0.469  Sum_probs=20.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+|+|.|..|+||||+++.+...+
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~l   29 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIF   29 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999998765

>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=95.34  E-value=0.01  Score=53.25  Aligned_cols=127  Identities=23%  Similarity=0.231  Sum_probs=70.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCC--------------CCcEEEEEEecC----ccCH--------------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPN--------------HFDFVIWVVVSR----DLQL--------------  210 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--------------~f~~~~wv~~~~----~~~~--------------  210 (337)
                      ....+++|+|++|+|||||.+.++.-.....+              .-..+.++.-..    ..++              
T Consensus        27 ~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~eni~~~~~~~~~~  106 (359)
T 2yyz_A           27 KDGEFVALLGPSGCGKTTTLLMLAGIYKPTSGEIYFDDVLVNDIPPKYREVGMVFQNYALYPHMTVFENIAFPLRARRIS  106 (359)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTSCGGGTTEEEECSSCCCCTTSCHHHHHHGGGSSSCSH
T ss_pred             cCCCEEEEEcCCCchHHHHHHHHHCCCCCCccEEEECCEECCCCChhhCcEEEEecCcccCCCCCHHHHHHHHHHhcCCC
Confidence            35679999999999999999999764410000              001123332110    0011              


Q ss_pred             ----HHHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccc-------cccccCCCCCCCCC
Q 045709          211 ----EKIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVD-------LDQVGLPIPSRTSV  275 (337)
Q Consensus       211 ----~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~-------~~~l~~~l~~~~~g  275 (337)
                          .+-..++++.++...   ......+..+.++. |...|-.++-+|+||+--+..+       ++.+.. +.. ..|
T Consensus       107 ~~~~~~~v~~~l~~~~L~~~~~r~~~~LSgGq~QRvalArAL~~~P~lLLLDEP~s~LD~~~r~~l~~~l~~-l~~-~~g  184 (359)
T 2yyz_A          107 KDEVEKRVVEIARKLLIDNLLDRKPTQLSGGQQQRVALARALVKQPKVLLFDEPLSNLDANLRMIMRAEIKH-LQQ-ELG  184 (359)
T ss_dssp             HHHTTHHHHHHHHHTTCGGGTTSCGGGSCHHHHHHHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHH-HHH-HHC
T ss_pred             HHHHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHHHcCCCEEEEECCcccCCHHHHHHHHHHHHH-HHH-hcC
Confidence                122345666666532   11234555555443 6667778888999999765433       111211 111 124


Q ss_pred             CcEEEEeeCChhHHhhc
Q 045709          276 SNKVVFTTREFGVCGQM  292 (337)
Q Consensus       276 ~s~IiiTtr~~~v~~~~  292 (337)
                       ..||++|++.+.+..+
T Consensus       185 -~tvi~vTHd~~~~~~~  200 (359)
T 2yyz_A          185 -ITSVYVTHDQAEAMTM  200 (359)
T ss_dssp             -CEEEEEESCHHHHHHH
T ss_pred             -CEEEEEcCCHHHHHHh
Confidence             6899999997765433

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=95.34  E-value=0.0077  Score=51.68  Aligned_cols=123  Identities=18%  Similarity=0.145  Sum_probs=66.2

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCC-------------CcEEE-EEEecC--ccCHH--------------HHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNH-------------FDFVI-WVVVSR--DLQLE--------------KIQ  214 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~-------------f~~~~-wv~~~~--~~~~~--------------~~~  214 (337)
                      ..+++|+|++|+|||||.+.++.-. ...+.             ...+. |+.-..  ..++.              +-.
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~-p~~G~I~~~g~~~~~~~~~~~i~~~v~Q~~~l~~tv~enl~~~~~~~~~~~~~~  108 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL-PYSGNIFINGMEVRKIRNYIRYSTNLPEAYEIGVTVNDIVYLYEELKGLDRDLF  108 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS-CCEEEEEETTEEGGGCSCCTTEEECCGGGSCTTSBHHHHHHHHHHHTCCCHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC-CCCcEEEECCEECcchHHhhheEEEeCCCCccCCcHHHHHHHhhhhcchHHHHH
Confidence            5689999999999999999997543 11000             01122 221110  11111              123


Q ss_pred             HHHHHHhCCC-C---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc---cccCCCCCCCCCCcEEEEeeCCh
Q 045709          215 ESIAKKIGLF-N---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD---QVGLPIPSRTSVSNKVVFTTREF  286 (337)
Q Consensus       215 ~~i~~~l~~~-~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~~~~g~s~IiiTtr~~  286 (337)
                      .+++..++.. .   ......+..+.++. +...|..++-+|+||+.-+..+..   .+...+... ..  .||++|++.
T Consensus       109 ~~~l~~~gl~~~~~~~~~~~LSgGqkqRv~lAraL~~~p~lllLDEPts~LD~~~~~~l~~~L~~~-~~--tviivtHd~  185 (263)
T 2pjz_A          109 LEMLKALKLGEEILRRKLYKLSAGQSVLVRTSLALASQPEIVGLDEPFENVDAARRHVISRYIKEY-GK--EGILVTHEL  185 (263)
T ss_dssp             HHHHHHTTCCGGGGGSBGGGSCHHHHHHHHHHHHHHTCCSEEEEECTTTTCCHHHHHHHHHHHHHS-CS--EEEEEESCG
T ss_pred             HHHHHHcCCChhHhcCChhhCCHHHHHHHHHHHHHHhCCCEEEEECCccccCHHHHHHHHHHHHHh-cC--cEEEEEcCH
Confidence            4556666654 2   11234555554443 556677788899999986653321   111111111 11  688899986


Q ss_pred             hHHhh
Q 045709          287 GVCGQ  291 (337)
Q Consensus       287 ~v~~~  291 (337)
                      +.+..
T Consensus       186 ~~~~~  190 (263)
T 2pjz_A          186 DMLNL  190 (263)
T ss_dssp             GGGGG
T ss_pred             HHHHH
Confidence            65443

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.33  E-value=0.013  Score=49.32  Aligned_cols=26  Identities=23%  Similarity=0.339  Sum_probs=23.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+|+|.|++|+||||+++.+...+
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            46789999999999999999998765

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=95.33  E-value=0.011  Score=47.23  Aligned_cols=25  Identities=24%  Similarity=0.391  Sum_probs=21.9

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+.+|+|.+|+|||||+..++.-.
T Consensus        26 ~g~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           26 KGFTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             SSEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHH
Confidence            3589999999999999999997654

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=95.32  E-value=0.018  Score=54.08  Aligned_cols=45  Identities=9%  Similarity=-0.051  Sum_probs=33.6

Q ss_pred             ccccchhhHHHHHHHH--hcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          145 TVVGLQLTFDRVWRCL--MEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L--~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+.|.+..+.+.+..  ...+..+|.+.|++|+||||+++.+...+
T Consensus       373 ~~f~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L  419 (511)
T 1g8f_A          373 EWFSYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTF  419 (511)
T ss_dssp             TTTSCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             ccccChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHH
Confidence            3455555555555554  22356789999999999999999999998

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.32  E-value=0.011  Score=53.23  Aligned_cols=128  Identities=22%  Similarity=0.187  Sum_probs=69.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCC--------------CCcEEEEEEecC----ccCH--------------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPN--------------HFDFVIWVVVSR----DLQL--------------  210 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--------------~f~~~~wv~~~~----~~~~--------------  210 (337)
                      ....+++|+|++|+|||||.+.++.-.....+              .-..+.++.-..    ..++              
T Consensus        27 ~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~eni~~~~~~~~~~  106 (362)
T 2it1_A           27 KDGEFMALLGPSGSGKSTLLYTIAGIYKPTSGKIYFDEKDVTELPPKDRNVGLVFQNWALYPHMTVYKNIAFPLELRKAP  106 (362)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTSCGGGTTEEEECTTCCCCTTSCHHHHHHHHHHHTTCC
T ss_pred             CCCCEEEEECCCCchHHHHHHHHhcCCCCCceEEEECCEECCcCCHhHCcEEEEecCcccCCCCCHHHHHHHHHHhcCCC
Confidence            35679999999999999999999765410000              001123332110    0111              


Q ss_pred             ----HHHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc---cccCCCCC--CCCCCc
Q 045709          211 ----EKIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD---QVGLPIPS--RTSVSN  277 (337)
Q Consensus       211 ----~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~--~~~g~s  277 (337)
                          .+-..++++.++...   ......+..+.++. |.+.|-.++-+|+||+--+..+..   .+...+..  ...| .
T Consensus       107 ~~~~~~~v~~~l~~~~L~~~~~r~~~~LSGGq~QRvalArAL~~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g-~  185 (362)
T 2it1_A          107 REEIDKKVREVAKMLHIDKLLNRYPWQLSGGQQQRVAIARALVKEPEVLLLDEPLSNLDALLRLEVRAELKRLQKELG-I  185 (362)
T ss_dssp             HHHHHHHHHHHHHHTTCTTCTTCCGGGSCHHHHHHHHHHHHHTTCCSEEEEESGGGGSCHHHHHHHHHHHHHHHHHHT-C
T ss_pred             HHHHHHHHHHHHHHcCCchHhhCChhhCCHHHHHHHHHHHHHHcCCCEEEEECccccCCHHHHHHHHHHHHHHHHhCC-C
Confidence                112334555565532   11234555555443 667777888899999876543311   11111111  1125 6


Q ss_pred             EEEEeeCChhHHhh
Q 045709          278 KVVFTTREFGVCGQ  291 (337)
Q Consensus       278 ~IiiTtr~~~v~~~  291 (337)
                      .||++|++.+.+..
T Consensus       186 tvi~vTHd~~~a~~  199 (362)
T 2it1_A          186 TTVYVTHDQAEALA  199 (362)
T ss_dssp             EEEEEESCHHHHHH
T ss_pred             EEEEECCCHHHHHH
Confidence            89999998766543

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=95.31  E-value=0.026  Score=47.91  Aligned_cols=26  Identities=35%  Similarity=0.436  Sum_probs=23.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...++.+.|.||+||||++..+....
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l   38 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYL   38 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            46788999999999999999999877

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=95.30  E-value=0.0074  Score=50.62  Aligned_cols=25  Identities=32%  Similarity=0.291  Sum_probs=22.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      +..+|+|.|..|+|||||++.+...
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            4679999999999999999998664

>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=95.29  E-value=0.011  Score=53.45  Aligned_cols=129  Identities=22%  Similarity=0.176  Sum_probs=69.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCC--------------CCcEEEEEEec----CccCH--------------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPN--------------HFDFVIWVVVS----RDLQL--------------  210 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--------------~f~~~~wv~~~----~~~~~--------------  210 (337)
                      ....+++|+|++|+|||||.+.+..-.....+              .-..+.+|.-.    ...++              
T Consensus        27 ~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~G~I~i~G~~~~~~~~~~r~ig~VfQ~~~l~p~ltV~eni~~~~~~~~~~  106 (381)
T 3rlf_A           27 HEGEFVVFVGPSGCGKSTLLRMIAGLETITSGDLFIGEKRMNDTPPAERGVGMVFQSYALYPHLSVAENMSFGLKLAGAK  106 (381)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTCCGGGSCEEEECTTCCCCTTSCHHHHHTHHHHHTTCC
T ss_pred             CCCCEEEEEcCCCchHHHHHHHHHcCCCCCCeEEEECCEECCCCCHHHCCEEEEecCCcCCCCCCHHHHHHHHHHHcCCC
Confidence            35679999999999999999999775410000              00112222111    00111              


Q ss_pred             ----HHHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCcccc---ccccCCCCC--CCCCCc
Q 045709          211 ----EKIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDL---DQVGLPIPS--RTSVSN  277 (337)
Q Consensus       211 ----~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~---~~l~~~l~~--~~~g~s  277 (337)
                          .+-..++++.++...   ......+..+.++. |.+.|..++-+|+||+--+..+.   ..+...+..  ...| .
T Consensus       107 ~~~~~~~v~~~l~~~~L~~~~~r~p~~LSGGqrQRVaiArAL~~~P~lLLLDEPts~LD~~~~~~l~~~l~~l~~~~g-~  185 (381)
T 3rlf_A          107 KEVINQRVNQVAEVLQLAHLLDRKPKALSGGQRQRVAIGRTLVAEPSVFLLDEPLSNLDAALRVQMRIEISRLHKRLG-R  185 (381)
T ss_dssp             HHHHHHHHHHHHHHTTCGGGTTCCGGGSCHHHHHHHHHHHHHHHCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHC-C
T ss_pred             HHHHHHHHHHHHHHcCCchhhcCChhHCCHHHHHHHHHHHHHHcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHhCC-C
Confidence                122344555555532   11234555554443 55666677889999987654331   111111111  1125 7


Q ss_pred             EEEEeeCChhHHhhc
Q 045709          278 KVVFTTREFGVCGQM  292 (337)
Q Consensus       278 ~IiiTtr~~~v~~~~  292 (337)
                      .||++|.+.+.+..+
T Consensus       186 tii~vTHd~~ea~~~  200 (381)
T 3rlf_A          186 TMIYVTHDQVEAMTL  200 (381)
T ss_dssp             EEEEECSCHHHHHHH
T ss_pred             EEEEEECCHHHHHHh
Confidence            889999987665443

>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=95.28  E-value=0.063  Score=50.85  Aligned_cols=86  Identities=16%  Similarity=0.149  Sum_probs=50.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCC-------------CccccC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLF-------------NESWKN  230 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~-------------~~~~~~  230 (337)
                      ...+++|.|.+|+|||||++.++.... ..  -..++++.....  ...+...+ ..++..             ......
T Consensus       280 ~G~i~~i~G~~GsGKSTLl~~l~g~~~-~~--G~~vi~~~~ee~--~~~l~~~~-~~~g~~~~~~~~~g~~~~~~~~p~~  353 (525)
T 1tf7_A          280 KDSIILATGATGTGKTLLVSRFVENAC-AN--KERAILFAYEES--RAQLLRNA-YSWGMDFEEMERQNLLKIVCAYPES  353 (525)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHHH-TT--TCCEEEEESSSC--HHHHHHHH-HTTSCCHHHHHHTTSEEECCCCGGG
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHHHH-hC--CCCEEEEEEeCC--HHHHHHHH-HHcCCCHHHHHhCCCEEEEEecccc
Confidence            568999999999999999999988762 22  123455544332  23333222 112211             011123


Q ss_pred             CCHHHHHHHHH-HHhcCCcEEEEEec
Q 045709          231 KSMQEKAQEIF-KILSKKKFVLLLDD  255 (337)
Q Consensus       231 ~~~~~~~~~l~-~~l~~k~~LlVlDd  255 (337)
                      .+..+.++.+. ..+..++-+||||-
T Consensus       354 LS~g~~q~~~~a~~l~~~p~llilDp  379 (525)
T 1tf7_A          354 AGLEDHLQIIKSEINDFKPARIAIDS  379 (525)
T ss_dssp             SCHHHHHHHHHHHHHTTCCSEEEEEC
T ss_pred             CCHHHHHHHHHHHHHhhCCCEEEEcC
Confidence            45555555544 45567788999993

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=95.27  E-value=0.011  Score=51.51  Aligned_cols=23  Identities=26%  Similarity=0.339  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      .+|.|.|++|+||||+++.+...
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999874

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=95.25  E-value=0.012  Score=48.09  Aligned_cols=37  Identities=24%  Similarity=0.188  Sum_probs=21.9

Q ss_pred             HHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          153 FDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       153 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+.+.+.....+.-.|.++|.+|+|||||...+.+..
T Consensus        18 ~~~m~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~   54 (204)
T 4gzl_A           18 GSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNA   54 (204)
T ss_dssp             ------------CEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             hhHHHhHhhcCCeEEEEEECcCCCCHHHHHHHHHhCC
Confidence            3333333444456678999999999999999988654

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=95.25  E-value=0.0092  Score=54.85  Aligned_cols=27  Identities=22%  Similarity=0.308  Sum_probs=23.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+|.|+|++|+||||+|+.+....
T Consensus       256 ~~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          256 PNPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SSCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            456899999999999999999997765

>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=95.23  E-value=0.012  Score=53.16  Aligned_cols=129  Identities=18%  Similarity=0.112  Sum_probs=67.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCC-----------C---CCcEEEEEEec----Ccc---------------C
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTP-----------N---HFDFVIWVVVS----RDL---------------Q  209 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-----------~---~f~~~~wv~~~----~~~---------------~  209 (337)
                      ....+++|+|++|+|||||.+.++.-.....           .   .-..+.++.-.    ...               .
T Consensus        35 ~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~eni~~~~~~~~~~  114 (372)
T 1v43_A           35 KDGEFLVLLGPSGCGKTTTLRMIAGLEEPTEGRIYFGDRDVTYLPPKDRNISMVFQSYAVWPHMTVYENIAFPLKIKKFP  114 (372)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTSCGGGGTEEEEEC------CCCHHHHHHTTCC--CCC
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCCCCCceEEEECCEECCCCChhhCcEEEEecCcccCCCCCHHHHHHHHHHhcCCC
Confidence            3567999999999999999999976441000           0   00112232210    000               1


Q ss_pred             H---HHHHHHHHHHhCCCC---ccccCCCHHHHH-HHHHHHhcCCcEEEEEecCCCccccc---cccCCCCC--CCCCCc
Q 045709          210 L---EKIQESIAKKIGLFN---ESWKNKSMQEKA-QEIFKILSKKKFVLLLDDIWELVDLD---QVGLPIPS--RTSVSN  277 (337)
Q Consensus       210 ~---~~~~~~i~~~l~~~~---~~~~~~~~~~~~-~~l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~--~~~g~s  277 (337)
                      .   .+-..++++.++...   ......+..+.+ -.|.+.|-.++-+|+||+--+..+..   .+...+..  ...| .
T Consensus       115 ~~~~~~~v~~~l~~~~L~~~~~r~~~~LSGGq~QRvalArAL~~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~~~g-~  193 (372)
T 1v43_A          115 KDEIDKRVRWAAELLQIEELLNRYPAQLSGGQRQRVAVARAIVVEPDVLLMDEPLSNLDAKLRVAMRAEIKKLQQKLK-V  193 (372)
T ss_dssp             HHHHHHHHHHHHHHTTCGGGTTSCTTTCCSSCHHHHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHHHHHT-C
T ss_pred             HHHHHHHHHHHHHHcCChhHhcCChhhCCHHHHHHHHHHHHHhcCCCEEEEcCCCccCCHHHHHHHHHHHHHHHHhCC-C
Confidence            1   123445666666532   111233333322 23556677788899999976543311   11111111  1124 6


Q ss_pred             EEEEeeCChhHHhhc
Q 045709          278 KVVFTTREFGVCGQM  292 (337)
Q Consensus       278 ~IiiTtr~~~v~~~~  292 (337)
                      .||++|++...+..+
T Consensus       194 tvi~vTHd~~~a~~~  208 (372)
T 1v43_A          194 TTIYVTHDQVEAMTM  208 (372)
T ss_dssp             EEEEEESCHHHHHHH
T ss_pred             EEEEEeCCHHHHHHh
Confidence            899999987665433

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=95.21  E-value=0.011  Score=46.50  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      ..|+|+|.+|+|||||...+...
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~~   26 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTGE   26 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999764

>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=95.20  E-value=0.012  Score=53.25  Aligned_cols=126  Identities=17%  Similarity=0.168  Sum_probs=68.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCC--CC------------------cEEEEEEec----CccCHH--------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPN--HF------------------DFVIWVVVS----RDLQLE--------  211 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--~f------------------~~~~wv~~~----~~~~~~--------  211 (337)
                      ...+++|+|++|+|||||.+.++.-.....+  .+                  ..+.++.-.    ...++.        
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~i~g~~~~~~~~~~~~~~~~r~ig~v~Q~~~l~~~ltv~eni~~~~~  107 (372)
T 1g29_1           28 DGEFMILLGPSGCGKTTTLRMIAGLEEPSRGQIYIGDKLVADPEKGIFVPPKDRDIAMVFQSYALYPHMTVYDNIAFPLK  107 (372)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEEEETTEEEEEGGGTEECCGGGSSEEEECSCCCCCTTSCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHcCCCCCccEEEECCEECccccccccCCHhHCCEEEEeCCCccCCCCCHHHHHHHHHH
Confidence            5679999999999999999999765410000  00                  012222110    001111        


Q ss_pred             ----------HHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccc-------cccccCCCC
Q 045709          212 ----------KIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVD-------LDQVGLPIP  270 (337)
Q Consensus       212 ----------~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~-------~~~l~~~l~  270 (337)
                                +-..++++.++...   ......+..+.++. |...|-.++-+|+||+--+..+       +..+.. +.
T Consensus       108 ~~~~~~~~~~~~v~~~l~~~~L~~~~~r~~~~LSGGq~QRvalArAL~~~P~lLLLDEP~s~LD~~~r~~l~~~l~~-l~  186 (372)
T 1g29_1          108 LRKVPRQEIDQRVREVAELLGLTELLNRKPRELSGGQRQRVALGRAIVRKPQVFLMDEPLSNLDAKLRVRMRAELKK-LQ  186 (372)
T ss_dssp             HTTCCHHHHHHHHHHHHHHHTCGGGTTCCGGGSCHHHHHHHHHHHHHHTCCSEEEEECTTTTSCHHHHHHHHHHHHH-HH
T ss_pred             HcCCCHHHHHHHHHHHHHHCCCchHhcCCcccCCHHHHHHHHHHHHHhcCCCEEEECCCCccCCHHHHHHHHHHHHH-HH
Confidence                      12334555555532   11234555554443 5667777888999998765433       111211 11


Q ss_pred             CCCCCCcEEEEeeCChhHHhhc
Q 045709          271 SRTSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       271 ~~~~g~s~IiiTtr~~~v~~~~  292 (337)
                      . ..| ..||++|++.+.+..+
T Consensus       187 ~-~~g-~tvi~vTHd~~~a~~~  206 (372)
T 1g29_1          187 R-QLG-VTTIYVTHDQVEAMTM  206 (372)
T ss_dssp             H-HHT-CEEEEEESCHHHHHHH
T ss_pred             H-hcC-CEEEEECCCHHHHHHh
Confidence            1 124 6899999987765433

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=95.17  E-value=0.024  Score=45.35  Aligned_cols=35  Identities=37%  Similarity=0.679  Sum_probs=27.2

Q ss_pred             HHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          153 FDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       153 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      +..+.+ +...+...|.|+|.+|+|||||...+.+.
T Consensus         5 ~~~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~~   39 (187)
T 1zj6_A            5 FTRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMN   39 (187)
T ss_dssp             HHHHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHH-hcCCCccEEEEECCCCCCHHHHHHHHhcC
Confidence            344555 44456778999999999999999999854

>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=95.15  E-value=0.013  Score=52.94  Aligned_cols=27  Identities=22%  Similarity=0.069  Sum_probs=24.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||++.+....
T Consensus       167 ~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          167 PKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            456799999999999999999998765

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=95.13  E-value=0.0067  Score=58.45  Aligned_cols=46  Identities=17%  Similarity=0.169  Sum_probs=32.4

Q ss_pred             CccccchhhHHHHHHHHhcCCCe-----------EEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAG-----------IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~-----------vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.++|.+.....+.-.|.....+           -+.++|.+|+|||+||+.+++..
T Consensus       295 ~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             chhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            44677776666554444333211           58899999999999999997665

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=95.12  E-value=0.0094  Score=53.29  Aligned_cols=122  Identities=17%  Similarity=0.145  Sum_probs=69.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEE------------------EEEEec----CccCHH---------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFV------------------IWVVVS----RDLQLE---------  211 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~------------------~wv~~~----~~~~~~---------  211 (337)
                      ....+++|+|++|+|||||.+.++.-..    .....                  .++.-.    ...++.         
T Consensus        24 ~~Ge~~~llGpnGsGKSTLLr~iaGl~~----p~~G~I~~~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~enl~~~~~~   99 (348)
T 3d31_A           24 ESGEYFVILGPTGAGKTLFLELIAGFHV----PDSGRILLDGKDVTDLSPEKHDIAFVYQNYSLFPHMNVKKNLEFGMRM   99 (348)
T ss_dssp             CTTCEEEEECCCTHHHHHHHHHHHTSSC----CSEEEEEETTEECTTSCHHHHTCEEECTTCCCCTTSCHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCccHHHHHHHHHcCCC----CCCcEEEECCEECCCCchhhCcEEEEecCcccCCCCCHHHHHHHHHHH
Confidence            3567999999999999999999976541    11112                  222110    001111         


Q ss_pred             ------HHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccc-------cccccCCCCCCCC
Q 045709          212 ------KIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVD-------LDQVGLPIPSRTS  274 (337)
Q Consensus       212 ------~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~-------~~~l~~~l~~~~~  274 (337)
                            +-..++++.++...   ......+..+.++. |.+.|-.++-+|+||+--+..+       ++.+. .+.. ..
T Consensus       100 ~~~~~~~~v~~~l~~~~L~~~~~~~~~~LSgGq~QRvalAraL~~~P~lLLLDEP~s~LD~~~~~~l~~~l~-~l~~-~~  177 (348)
T 3d31_A          100 KKIKDPKRVLDTARDLKIEHLLDRNPLTLSGGEQQRVALARALVTNPKILLLDEPLSALDPRTQENAREMLS-VLHK-KN  177 (348)
T ss_dssp             HCCCCHHHHHHHHHHTTCTTTTTSCGGGSCHHHHHHHHHHHHTTSCCSEEEEESSSTTSCHHHHHHHHHHHH-HHHH-HT
T ss_pred             cCCCHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHHHcCCCEEEEECccccCCHHHHHHHHHHHH-HHHH-hc
Confidence                  12344556665532   11234555555443 6677788889999999765433       11221 1111 12


Q ss_pred             CCcEEEEeeCChhHHhh
Q 045709          275 VSNKVVFTTREFGVCGQ  291 (337)
Q Consensus       275 g~s~IiiTtr~~~v~~~  291 (337)
                      | ..||++|++...+..
T Consensus       178 g-~tii~vTHd~~~~~~  193 (348)
T 3d31_A          178 K-LTVLHITHDQTEARI  193 (348)
T ss_dssp             T-CEEEEEESCHHHHHH
T ss_pred             C-CEEEEEeCCHHHHHH
Confidence            5 689999998765543

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=95.08  E-value=0.015  Score=50.89  Aligned_cols=26  Identities=23%  Similarity=0.272  Sum_probs=23.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+++.|.|+.|+||||||..++...
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhC
Confidence            35789999999999999999998775

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=95.08  E-value=0.027  Score=48.13  Aligned_cols=38  Identities=24%  Similarity=0.390  Sum_probs=28.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      ++|+|.|.||+||||++..++..+.   ..-..++-++...
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la---~~G~~VlliD~D~   39 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLH---AMGKTIMVVGCDP   39 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH---TTTCCEEEEEECT
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHH---HCCCcEEEEcCCC
Confidence            5788899999999999999998883   2223456666553

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=95.08  E-value=0.046  Score=44.40  Aligned_cols=43  Identities=21%  Similarity=0.247  Sum_probs=30.4

Q ss_pred             eEEEEE-ecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          166 GIVGLY-GMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       166 ~vi~I~-G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      ++|+|+ +.||+||||++..++..+.   ..-..++.++.....+..
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la---~~g~~vlliD~D~~~~~~   45 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALS---RSGYNIAVVDTDPQMSLT   45 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHH---HTTCCEEEEECCTTCHHH
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHH---HCCCeEEEEECCCCCCHH
Confidence            577777 6799999999999988873   222346667776554433

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.05  E-value=0.017  Score=48.74  Aligned_cols=25  Identities=20%  Similarity=0.376  Sum_probs=22.9

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...|.|.|..|+||||+++.+...+
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHc
Confidence            4689999999999999999999876

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=95.04  E-value=0.041  Score=50.60  Aligned_cols=93  Identities=14%  Similarity=0.171  Sum_probs=53.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCC-CCCc-EEEEEEecCc-cCHHHHHHHHHHHhCCCCc----cccCCCHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTP-NHFD-FVIWVVVSRD-LQLEKIQESIAKKIGLFNE----SWKNKSMQEK  236 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~-~~f~-~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~----~~~~~~~~~~  236 (337)
                      +...++|+|.+|+|||+|+.++.++. ... ++-+ .++++-+... ....++...+...-.....    ...+.+....
T Consensus       150 rGQr~~Ifgg~G~GKt~L~~~Ia~~~-~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~r  228 (465)
T 3vr4_D          150 RGQKLPVFSGSGLPHKELAAQIARQA-TVLDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIER  228 (465)
T ss_dssp             TTCBCCEEECTTSCHHHHHHHHHHHC-BCSSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEETTSCHHHH
T ss_pred             cCCEEEEeCCCCcChHHHHHHHHHHH-HhccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEECCCCCHHHH
Confidence            45668899999999999999998876 221 1111 5566666543 3455666665543211100    0011222211


Q ss_pred             ------HHHHHHHh---cCCcEEEEEecCC
Q 045709          237 ------AQEIFKIL---SKKKFVLLLDDIW  257 (337)
Q Consensus       237 ------~~~l~~~l---~~k~~LlVlDdv~  257 (337)
                            .-.+.+++   +++..||++||+-
T Consensus       229 ~~a~~~a~tiAEyfrd~~G~~VLl~~DslT  258 (465)
T 3vr4_D          229 IATPRMALTAAEYLAYEKGMHVLVIMTDMT  258 (465)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence                  12234444   3789999999985

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=95.02  E-value=0.033  Score=46.37  Aligned_cols=27  Identities=22%  Similarity=0.317  Sum_probs=24.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .....|.|.|..|+||||+++.+...+
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l   45 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYL   45 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            457899999999999999999999887

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=95.00  E-value=0.085  Score=49.17  Aligned_cols=101  Identities=13%  Similarity=0.141  Sum_probs=54.9

Q ss_pred             HHHHhc-CCCeEEEEEecCCCcHHHHH-HHHHHhhcc---CCCCCc-EEEEEEecCcc-CHHHHHHHHHHHhCCCCcc--
Q 045709          157 WRCLME-EHAGIVGLYGMGGVGKTTLL-TQINNRFFD---TPNHFD-FVIWVVVSRDL-QLEKIQESIAKKIGLFNES--  227 (337)
Q Consensus       157 ~~~L~~-~~~~vi~I~G~~GiGKTtLa-~~v~~~~~~---~~~~f~-~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~--  227 (337)
                      ++.|.. .+...++|+|.+|+|||+|| ..+.+....   ..++-+ .++++-+.... .+.++.+.+...-......  
T Consensus       153 ID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvvV  232 (510)
T 2ck3_A          153 VDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVV  232 (510)
T ss_dssp             HHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEE
T ss_pred             eccccccccCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceEE
Confidence            344433 35678899999999999995 566666510   012233 46667776543 4555666665432111100  


Q ss_pred             --ccCCCHHHH------HHHHHHHh--cCCcEEEEEecCC
Q 045709          228 --WKNKSMQEK------AQEIFKIL--SKKKFVLLLDDIW  257 (337)
Q Consensus       228 --~~~~~~~~~------~~~l~~~l--~~k~~LlVlDdv~  257 (337)
                        ..+.+....      .-.+.+++  +++..||++||+-
T Consensus       233 ~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dslt  272 (510)
T 2ck3_A          233 SATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLS  272 (510)
T ss_dssp             EECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHH
T ss_pred             EECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCHH
Confidence              011111111      11223333  5789999999985

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=95.00  E-value=0.012  Score=52.03  Aligned_cols=26  Identities=42%  Similarity=0.466  Sum_probs=22.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.+++.|+|+.|+|||||.+.+....
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhhc
Confidence            45799999999999999999998653

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=94.99  E-value=0.13  Score=47.77  Aligned_cols=89  Identities=16%  Similarity=0.152  Sum_probs=51.8

Q ss_pred             CCCeEEEEEecCCCcHHHHH-HHHHHhhccCCCCCcEEEEEEecCcc-CHHHHHHHHHHHhCCCCccc----cCCCHH--
Q 045709          163 EHAGIVGLYGMGGVGKTTLL-TQINNRFFDTPNHFDFVIWVVVSRDL-QLEKIQESIAKKIGLFNESW----KNKSMQ--  234 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~----~~~~~~--  234 (337)
                      .+...++|+|..|+|||+|+ ..+.++.    ..--.++++-+.... .+.++...+...-.......    .+.+..  
T Consensus       160 grGQR~~Ifg~~g~GKT~l~l~~I~n~~----~~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r  235 (513)
T 3oaa_A          160 GRGQRELIIGDRQTGKTALAIDAIINQR----DSGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQ  235 (513)
T ss_dssp             BTTCBCEEEESSSSSHHHHHHHHHHTTS----SSSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHH
T ss_pred             ccCCEEEeecCCCCCcchHHHHHHHhhc----cCCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHH
Confidence            35678899999999999996 5666543    222245677776653 45566666554322211000    111111  


Q ss_pred             --------HHHHHHHHHhcCCcEEEEEecCC
Q 045709          235 --------EKAQEIFKILSKKKFVLLLDDIW  257 (337)
Q Consensus       235 --------~~~~~l~~~l~~k~~LlVlDdv~  257 (337)
                              ..++.++.  +++..||++||+-
T Consensus       236 ~~a~~~a~tiAEyfrd--~G~dVLli~Dslt  264 (513)
T 3oaa_A          236 YLAPYAGCAMGEYFRD--RGEDALIIYDDLS  264 (513)
T ss_dssp             HHHHHHHHHHHHHHHH--TTCEEEEEEETHH
T ss_pred             HHHHHHHHHHHHHHHh--cCCCEEEEecChH
Confidence                    12233332  5899999999985

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=94.98  E-value=0.012  Score=47.11  Aligned_cols=22  Identities=41%  Similarity=0.508  Sum_probs=19.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHHh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      -|+|+|.+|+|||||+..+...
T Consensus         4 kv~ivG~~gvGKStLl~~l~~~   25 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMKT   25 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTCC
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            5789999999999999998763

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=94.98  E-value=0.016  Score=44.84  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.|.++|.+|+|||||+..+.+..
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~   25 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKR   25 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            468899999999999999997653

>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=94.96  E-value=0.016  Score=52.63  Aligned_cols=26  Identities=38%  Similarity=0.498  Sum_probs=23.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      ....+++|+|++|+|||||.+.+..-
T Consensus        45 ~~Ge~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           45 SPGQRVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCC
Confidence            46789999999999999999999763

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=94.96  E-value=0.042  Score=51.19  Aligned_cols=87  Identities=11%  Similarity=0.163  Sum_probs=49.0

Q ss_pred             CCeEEEEEecCCCcHHHHH-HHHHHhhccCCCCCc-EEEEEEecCcc-CHHHHHHHHHHHhCCC---------CccccC-
Q 045709          164 HAGIVGLYGMGGVGKTTLL-TQINNRFFDTPNHFD-FVIWVVVSRDL-QLEKIQESIAKKIGLF---------NESWKN-  230 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa-~~v~~~~~~~~~~f~-~~~wv~~~~~~-~~~~~~~~i~~~l~~~---------~~~~~~-  230 (337)
                      +...++|+|.+|+|||+|| ..+.+..   .  .+ .++++-+.... ...++.+.+...-...         +++... 
T Consensus       162 rGQR~~Ifg~~g~GKT~Lal~~I~~~~---~--~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r  236 (507)
T 1fx0_A          162 RGQRELIIGDRQTGKTAVATDTILNQQ---G--QNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQ  236 (507)
T ss_dssp             TTCBCBEEESSSSSHHHHHHHHHHTCC---T--TTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGT
T ss_pred             cCCEEEEecCCCCCccHHHHHHHHHhh---c--CCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHH
Confidence            5667899999999999996 4666643   2  33 34666666543 3445544444321111         000000 


Q ss_pred             C----CHHHHHHHHHHHhcCCcEEEEEecCC
Q 045709          231 K----SMQEKAQEIFKILSKKKFVLLLDDIW  257 (337)
Q Consensus       231 ~----~~~~~~~~l~~~l~~k~~LlVlDdv~  257 (337)
                      .    ..-..++.++.  +++..||++||+-
T Consensus       237 ~~a~~~a~tiAEyfrd--~G~dVLli~Dslt  265 (507)
T 1fx0_A          237 YLAPYTGAALAEYFMY--RERHTLIIYDDLS  265 (507)
T ss_dssp             THHHHHHHHHHHHHHH--TTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHHH--cCCcEEEEEecHH
Confidence            0    11123344444  5899999999974

>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=94.94  E-value=0.0089  Score=53.61  Aligned_cols=129  Identities=18%  Similarity=0.175  Sum_probs=70.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCC-------------------CCcEEEEEEecC----ccCH---------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPN-------------------HFDFVIWVVVSR----DLQL---------  210 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-------------------~f~~~~wv~~~~----~~~~---------  210 (337)
                      ....+++|+|++|+|||||.+.++.-.....+                   .-..+.++.-..    ..++         
T Consensus        29 ~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~i~g~~i~~~~~~~~~~~~r~ig~v~Q~~~l~~~ltv~eni~~~~~  108 (353)
T 1oxx_K           29 ENGERFGILGPSGAGKTTFMRIIAGLDVPSTGELYFDDRLVASNGKLIVPPEDRKIGMVFQTWALYPNLTAFENIAFPLT  108 (353)
T ss_dssp             CTTCEEEEECSCHHHHHHHHHHHHTSSCCSEEEEEETTEEEEETTEESSCGGGSCEEEEETTSCCCTTSCHHHHHHGGGT
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCCCCCceEEEECCEECcccccccCChhhCCEEEEeCCCccCCCCCHHHHHHHHHH
Confidence            35679999999999999999999764410000                   001233332110    0011         


Q ss_pred             ---------HHHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc---cccCCCCC--C
Q 045709          211 ---------EKIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD---QVGLPIPS--R  272 (337)
Q Consensus       211 ---------~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~--~  272 (337)
                               .+-..++++.++...   ......+..+.++. |...|-.++-+|+||+--+..+..   .+...+..  .
T Consensus       109 ~~~~~~~~~~~~v~~~l~~~~L~~~~~~~~~~LSGGq~QRvalAraL~~~P~lLLLDEP~s~LD~~~r~~l~~~l~~l~~  188 (353)
T 1oxx_K          109 NMKMSKEEIRKRVEEVAKILDIHHVLNHFPRELSGAQQQRVALARALVKDPSLLLLDEPFSNLDARMRDSARALVKEVQS  188 (353)
T ss_dssp             TSSCCHHHHHHHHHHHHHHTTCGGGTTSCGGGSCHHHHHHHHHHHHHTTCCSEEEEESTTTTSCGGGHHHHHHHHHHHHH
T ss_pred             HcCCCHHHHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHHHhCCCEEEEECCcccCCHHHHHHHHHHHHHHHH
Confidence                     123345666666532   11244565555443 667777888899999876543311   11111111  1


Q ss_pred             CCCCcEEEEeeCChhHHhhc
Q 045709          273 TSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       273 ~~g~s~IiiTtr~~~v~~~~  292 (337)
                      ..| ..||++|++.+.+..+
T Consensus       189 ~~g-~tvi~vTHd~~~~~~~  207 (353)
T 1oxx_K          189 RLG-VTLLVVSHDPADIFAI  207 (353)
T ss_dssp             HHC-CEEEEEESCHHHHHHH
T ss_pred             hcC-CEEEEEeCCHHHHHHh
Confidence            125 6899999997765443

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=94.93  E-value=0.029  Score=51.60  Aligned_cols=93  Identities=11%  Similarity=0.177  Sum_probs=52.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCC--------CCCc-EEEEEEecCc-cCHHHHHHHHHHHhCCCC-----ccc
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTP--------NHFD-FVIWVVVSRD-LQLEKIQESIAKKIGLFN-----ESW  228 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--------~~f~-~~~wv~~~~~-~~~~~~~~~i~~~l~~~~-----~~~  228 (337)
                      +...++|+|.+|+|||+|+.++.++. ...        ++-+ .++++-+... ....++...+...-....     ...
T Consensus       146 rGQr~~Ifgg~G~GKt~L~~~Ia~~~-~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~rtvvv~~t~  224 (464)
T 3gqb_B          146 RGQKLPIFSGSGLPANEIAAQIARQA-TVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKA  224 (464)
T ss_dssp             TTCBCCEEEETTSCHHHHHHHHHHHC-BCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHHTSGGGGEEEEEEET
T ss_pred             cCCEEEEecCCCCCchHHHHHHHHHH-HhcccccccccCCCceEEEEEEecCchHHHHHHHHHhhhcccccceEEEEECC
Confidence            56678899999999999999998876 221        1222 5566666543 345555555544211110     000


Q ss_pred             cCCCHHH-----HHHHHHHHh---cCCcEEEEEecCC
Q 045709          229 KNKSMQE-----KAQEIFKIL---SKKKFVLLLDDIW  257 (337)
Q Consensus       229 ~~~~~~~-----~~~~l~~~l---~~k~~LlVlDdv~  257 (337)
                      +......     ..-.+.+++   +++..||++||+-
T Consensus       225 d~p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlT  261 (464)
T 3gqb_B          225 DDPTIERILTPRMALTVAEYLAFEHDYHVLVILTDMT  261 (464)
T ss_dssp             TSCTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence            1111111     112234444   3789999999985

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=94.92  E-value=0.033  Score=49.86  Aligned_cols=26  Identities=35%  Similarity=0.432  Sum_probs=23.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+|+|+|.+|+|||||...+....
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~~   98 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKML   98 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHh
Confidence            46899999999999999999998754

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=94.92  E-value=0.04  Score=50.91  Aligned_cols=93  Identities=14%  Similarity=0.162  Sum_probs=54.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCC--CCcEEEEEEecCc-cCHHHHHHHHHHHhCCCCcc----ccCCCHHH-
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPN--HFDFVIWVVVSRD-LQLEKIQESIAKKIGLFNES----WKNKSMQE-  235 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~--~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~----~~~~~~~~-  235 (337)
                      +...++|+|.+|+|||+|+.+++++. ....  .-+.++++-+... ....++...+...-......    ..+.+... 
T Consensus       151 rGQr~~Ifgg~G~GKt~Ll~~Ia~~~-~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~tsd~p~~~r  229 (469)
T 2c61_A          151 RGQKLPIFSASGLPHNEIALQIARQA-SVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVER  229 (469)
T ss_dssp             TTCBCCEEECTTSCHHHHHHHHHHHC-BCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEEETTSCHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHHH-hhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEECCCCCHHHH
Confidence            56778899999999999999999887 2211  1135666666544 34566666666542211100    01111111 


Q ss_pred             -----HHHHHHHHh---cCCcEEEEEecCC
Q 045709          236 -----KAQEIFKIL---SKKKFVLLLDDIW  257 (337)
Q Consensus       236 -----~~~~l~~~l---~~k~~LlVlDdv~  257 (337)
                           ..-.+.+++   +++..||++||+-
T Consensus       230 ~~~~~~a~tiAEyfrdd~G~dVLl~~Dslt  259 (469)
T 2c61_A          230 IVTPRMALTAAEYLAYEHGMHVLVILTDIT  259 (469)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCeEEEEEeCHH
Confidence                 112233343   3789999999964

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=94.90  E-value=0.016  Score=46.42  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      ..|+++|.+|+|||||...+...
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~~   30 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTGE   30 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            57899999999999999999874

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=94.90  E-value=0.017  Score=51.62  Aligned_cols=27  Identities=37%  Similarity=0.513  Sum_probs=24.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|.+|+|||||.+.+.+..
T Consensus        69 ~~Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           69 GIGQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             ETTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            467899999999999999999999886

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=94.90  E-value=0.015  Score=45.05  Aligned_cols=23  Identities=35%  Similarity=0.540  Sum_probs=20.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.++|.+|+|||||+..+....
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~~   27 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCc
Confidence            47899999999999999998754

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=94.89  E-value=0.024  Score=49.63  Aligned_cols=33  Identities=30%  Similarity=0.416  Sum_probs=26.4

Q ss_pred             HHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          153 FDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       153 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +++|.+.+   ...+++++|++|+|||||.+.+. ..
T Consensus       156 i~~L~~~l---~G~i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          156 IDELVDYL---EGFICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             HHHHHHHT---TTCEEEEECSTTSSHHHHHHHHH-SC
T ss_pred             HHHHHhhc---cCcEEEEECCCCCCHHHHHHHHH-Hh
Confidence            55565554   35689999999999999999998 54

>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=94.88  E-value=0.062  Score=56.66  Aligned_cols=27  Identities=26%  Similarity=0.503  Sum_probs=24.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +....++|+|+.|+|||||++.+...+
T Consensus       442 ~~G~~vaivG~sGsGKSTll~ll~~~~  468 (1321)
T 4f4c_A          442 NAGQTVALVGSSGCGKSTIISLLLRYY  468 (1321)
T ss_dssp             CTTCEEEEEECSSSCHHHHHHHHTTSS
T ss_pred             cCCcEEEEEecCCCcHHHHHHHhcccc
Confidence            467899999999999999999997765

>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=94.88  E-value=0.025  Score=51.14  Aligned_cols=112  Identities=13%  Similarity=0.142  Sum_probs=56.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFK  242 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  242 (337)
                      ....+++|+|++|+|||||++.+......  ..-..+.++.-.-.....       ...+.-....-..+.......+..
T Consensus       134 ~~g~~i~ivG~~GsGKTTll~~l~~~~~~--~~~g~I~~~e~~~e~~~~-------~~~~~v~Q~~~g~~~~~~~~~l~~  204 (372)
T 2ewv_A          134 RKMGLILVTGPTGSGKSTTIASMIDYINQ--TKSYHIITIEDPIEYVFK-------HKKSIVNQREVGEDTKSFADALRA  204 (372)
T ss_dssp             SSSEEEEEECSSSSSHHHHHHHHHHHHHH--HSCCEEEEEESSCCSCCC-------CSSSEEEEEEBTTTBSCSHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhcCc--CCCcEEEEecccHhhhhc-------cCceEEEeeecCCCHHHHHHHHHH
Confidence            45789999999999999999999876621  101222232211000000       000000000000011112345666


Q ss_pred             HhcCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChh
Q 045709          243 ILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFG  287 (337)
Q Consensus       243 ~l~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~  287 (337)
                      .|...+-+|++|++.+.+.+..+....   ..| ..|+.|+...+
T Consensus       205 ~L~~~pd~illdE~~d~e~~~~~l~~~---~~g-~~vi~t~H~~~  245 (372)
T 2ewv_A          205 ALREDPDVIFVGEMRDLETVETALRAA---ETG-HLVFGTLHTNT  245 (372)
T ss_dssp             HTTSCCSEEEESCCCSHHHHHHHHHHH---TTT-CEEEECCCCCS
T ss_pred             HhhhCcCEEEECCCCCHHHHHHHHHHH---hcC-CEEEEEECcch
Confidence            776677788899887554433322111   235 56777777654

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.88  E-value=0.018  Score=45.84  Aligned_cols=33  Identities=24%  Similarity=0.389  Sum_probs=24.9

Q ss_pred             HHHHHHhc-CCCeEEEEEecCCCcHHHHHHHHHH
Q 045709          155 RVWRCLME-EHAGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       155 ~l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      ++.+.+.. .+...|.|+|.+|+|||||...+..
T Consensus         7 ~~~~~~~~~~~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A            7 SMFDKLWGSNKELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             HHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             HHHHHhcCCCCccEEEEECCCCCCHHHHHHHHhc
Confidence            34343444 4567899999999999999988864

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=94.88  E-value=0.017  Score=47.12  Aligned_cols=26  Identities=27%  Similarity=0.171  Sum_probs=22.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....|.|.|++|+||||||..+....
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhC
Confidence            45778999999999999999998765

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=94.86  E-value=0.019  Score=51.09  Aligned_cols=27  Identities=33%  Similarity=0.517  Sum_probs=24.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|.+|+|||||.+.+....
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhh
Confidence            467899999999999999999998655

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=94.79  E-value=0.017  Score=52.03  Aligned_cols=25  Identities=28%  Similarity=0.473  Sum_probs=22.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...++|+|.+|+|||||++.+...+
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999998776

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=94.79  E-value=0.025  Score=45.17  Aligned_cols=25  Identities=36%  Similarity=0.502  Sum_probs=21.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      ....|.|+|.+|+|||||...+.+.
T Consensus        15 ~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           15 QEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcC
Confidence            4567999999999999999998654

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=94.74  E-value=0.033  Score=46.38  Aligned_cols=38  Identities=29%  Similarity=0.144  Sum_probs=26.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      -.|.+.|.||+||||++..+.....  ...++ +..+.+..
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~--~~G~~-V~v~d~D~   44 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQL--RQGVR-VMAGVVET   44 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHH--HTTCC-EEEEECCC
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHH--HCCCC-EEEEEeCC
Confidence            3578899999999999999988873  22333 44455544

>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=94.74  E-value=0.038  Score=47.26  Aligned_cols=36  Identities=17%  Similarity=0.252  Sum_probs=27.6

Q ss_pred             HHHHHHHhcC--CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          154 DRVWRCLMEE--HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       154 ~~l~~~L~~~--~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .-+..+|...  +...+.++|++|+|||.||..+++..
T Consensus        91 ~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A           91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            3455555543  24579999999999999999998864

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=94.73  E-value=0.018  Score=44.83  Aligned_cols=24  Identities=21%  Similarity=0.356  Sum_probs=21.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      --|.|+|.+|+|||||+..+.+..
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~~   29 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKGI   29 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcCC
Confidence            468899999999999999998754

>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=94.72  E-value=0.45  Score=39.74  Aligned_cols=22  Identities=23%  Similarity=0.131  Sum_probs=19.3

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.|+|..|.|||.+|..+....
T Consensus       111 ~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A          111 GCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             EEEEESSSTTHHHHHHHHHHHS
T ss_pred             EEEEeCCCCCHHHHHHHHHHHc
Confidence            7889999999999998887654

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=94.71  E-value=0.036  Score=46.57  Aligned_cols=40  Identities=30%  Similarity=0.368  Sum_probs=29.3

Q ss_pred             EEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH
Q 045709          168 VGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL  210 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~  210 (337)
                      |+|.|.||+||||+|..++..+.   ..-..++-++.....++
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la---~~g~~VlliD~D~~~~l   42 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMA---SDYDKIYAVDGDPDSCL   42 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHT---TTCSCEEEEEECTTSCH
T ss_pred             EEEecCCCCCHHHHHHHHHHHHH---HCCCeEEEEeCCCCcCh
Confidence            56699999999999999999883   22245666776554443

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=94.70  E-value=0.023  Score=51.57  Aligned_cols=25  Identities=32%  Similarity=0.602  Sum_probs=22.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|.|.|+.|+|||||+..++..+
T Consensus         2 ~~~i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            2 KKVIVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CcEEEEECcchhhHHHHHHHHHHHC
Confidence            3689999999999999999998876

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=94.69  E-value=0.83  Score=40.70  Aligned_cols=26  Identities=31%  Similarity=0.350  Sum_probs=22.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +...++++|.+|+|||||...+....
T Consensus       166 ~~~~v~lvG~~gvGKSTLin~L~~~~  191 (357)
T 2e87_A          166 EIPTVVIAGHPNVGKSTLLKALTTAK  191 (357)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHCSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45789999999999999999987643

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=94.68  E-value=0.03  Score=48.48  Aligned_cols=39  Identities=23%  Similarity=0.322  Sum_probs=28.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      .++|+|.|.||+||||+|..++..+.+   .-..++-++...
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La~---~G~rVlliD~D~   40 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALAE---MGKKVMIVGCDP   40 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHH---TTCCEEEEEECS
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHHH---CCCeEEEEecCC
Confidence            367888999999999999999888731   222455666554

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=94.65  E-value=0.018  Score=53.60  Aligned_cols=27  Identities=22%  Similarity=0.133  Sum_probs=23.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|+|++|+|||||++.++.-.
T Consensus       136 ~~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          136 FEGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             SSCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            466899999999999999999997754

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=94.64  E-value=0.023  Score=45.64  Aligned_cols=26  Identities=27%  Similarity=0.250  Sum_probs=22.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....|.|+|.+|+|||||...+....
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~~   72 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTDS   72 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678999999999999999998754

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=94.64  E-value=0.023  Score=45.02  Aligned_cols=25  Identities=28%  Similarity=0.324  Sum_probs=21.5

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...|+|+|.+|+|||||...+....
T Consensus         4 ~~ki~ivG~~g~GKStLl~~l~~~~   28 (172)
T 2gj8_A            4 GMKVVIAGRPNAGKSSLLNALAGRE   28 (172)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3568999999999999999998653

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=94.59  E-value=0.024  Score=44.77  Aligned_cols=26  Identities=35%  Similarity=0.411  Sum_probs=22.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +...|.|+|.+|+|||||...+.+..
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~~~   32 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRHSK   32 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHTTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            45678999999999999999997643

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=94.58  E-value=0.02  Score=44.56  Aligned_cols=24  Identities=38%  Similarity=0.392  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .-|.++|.+|+|||||...+....
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~~   28 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCc
Confidence            468899999999999999998754

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.58  E-value=0.031  Score=46.72  Aligned_cols=26  Identities=31%  Similarity=0.520  Sum_probs=20.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +...|.|-|+.|+||||+++.+...+
T Consensus        24 ~g~~I~~eG~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           24 RGKFITFEGIDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             CCCEEEEECCC---CHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999999887

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=94.54  E-value=0.021  Score=47.14  Aligned_cols=24  Identities=21%  Similarity=0.361  Sum_probs=21.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+|+|.|+.|+||||+++.+...+
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            579999999999999999998765

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=94.54  E-value=0.035  Score=45.05  Aligned_cols=25  Identities=32%  Similarity=0.597  Sum_probs=21.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      .+...|+++|.+|+|||||...+.+
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhc
Confidence            3455789999999999999999865

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.54  E-value=0.018  Score=51.76  Aligned_cols=26  Identities=27%  Similarity=0.423  Sum_probs=23.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++|+|++|+|||||++.+....
T Consensus       174 ~G~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          174 LERVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             TTCCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            56789999999999999999998866

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=94.53  E-value=0.02  Score=45.91  Aligned_cols=24  Identities=33%  Similarity=0.462  Sum_probs=21.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -.|.++|.+|+|||||+..+....
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~~   45 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQNH   45 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468899999999999999998754

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=94.53  E-value=0.019  Score=45.21  Aligned_cols=25  Identities=36%  Similarity=0.351  Sum_probs=20.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..-|.|+|.+|+|||||...+....
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~~~   28 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAGKQ   28 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCC-
T ss_pred             EEEEEEECCCCccHHHHHHHHhcCC
Confidence            3468999999999999999987654

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=94.51  E-value=0.015  Score=47.61  Aligned_cols=26  Identities=23%  Similarity=0.385  Sum_probs=22.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      .....++|+|.+|+|||||.+.+...
T Consensus        24 ~~~~~v~lvG~~g~GKSTLl~~l~g~   49 (210)
T 1pui_A           24 DTGIEVAFAGRSNAGKSSALNTLTNQ   49 (210)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            45678999999999999999987643

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=94.50  E-value=0.024  Score=44.10  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=19.7

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.++|.+|+|||||...+....
T Consensus         3 i~~~G~~~~GKssl~~~l~~~~   24 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLGE   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7899999999999999997654

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=94.47  E-value=0.021  Score=44.65  Aligned_cols=24  Identities=38%  Similarity=0.343  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -.|.++|.+|+|||||...+.+..
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCENK   30 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468899999999999999998654

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=94.47  E-value=0.023  Score=44.20  Aligned_cols=23  Identities=35%  Similarity=0.534  Sum_probs=20.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.|+|.+|+|||||...+.+..
T Consensus         5 ki~v~G~~~~GKssli~~l~~~~   27 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            57899999999999999998754

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=94.47  E-value=0.025  Score=47.58  Aligned_cols=50  Identities=20%  Similarity=0.199  Sum_probs=32.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESI  217 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  217 (337)
                      ...++.|.|.+|+|||+||.+++.+..  ...-..++|++...  +...+...+
T Consensus        29 ~G~l~~i~G~pG~GKT~l~l~~~~~~~--~~~~~~v~~~s~E~--~~~~~~~~~   78 (251)
T 2zts_A           29 EGTTVLLTGGTGTGKTTFAAQFIYKGA--EEYGEPGVFVTLEE--RARDLRREM   78 (251)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHHHHH--HHHCCCEEEEESSS--CHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH--HhcCCCceeecccC--CHHHHHHHH
Confidence            567999999999999999998765431  12223466666543  344444433

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=94.47  E-value=0.023  Score=44.09  Aligned_cols=24  Identities=38%  Similarity=0.432  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      --|.++|.+|+|||||...+....
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~~   27 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            358899999999999999987654

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=94.47  E-value=0.022  Score=45.51  Aligned_cols=25  Identities=24%  Similarity=0.248  Sum_probs=21.4

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .--|.|+|.+|+|||||+..+.+..
T Consensus         7 ~~ki~v~G~~~vGKSsli~~l~~~~   31 (184)
T 1m7b_A            7 KCKIVVVGDSQCGKTALLHVFAKDC   31 (184)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3467899999999999999998754

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.45  E-value=0.022  Score=44.44  Aligned_cols=23  Identities=22%  Similarity=0.327  Sum_probs=20.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.++|.+|+|||||...+.+..
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999988654

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=94.45  E-value=0.022  Score=44.50  Aligned_cols=24  Identities=29%  Similarity=0.340  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      --|.++|.+|+|||||...+.+..
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~~   30 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVEDS   30 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            358899999999999999998764

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.44  E-value=0.025  Score=47.35  Aligned_cols=25  Identities=32%  Similarity=0.365  Sum_probs=22.1

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...++|.|++|+||||+|+.+...+
T Consensus         8 ~~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            8 HMRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             -CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ccceeeECCCCCCHHHHHHHHHHHh
Confidence            4568999999999999999998877

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=94.43  E-value=0.028  Score=53.16  Aligned_cols=27  Identities=15%  Similarity=0.338  Sum_probs=23.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+|.++|++|+||||+|+.+...+
T Consensus        33 ~~~~lIvlvGlpGSGKSTia~~La~~L   59 (520)
T 2axn_A           33 NSPTVIVMVGLPARGKTYISKKLTRYL   59 (520)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            345789999999999999999998876

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=94.43  E-value=0.051  Score=51.69  Aligned_cols=44  Identities=14%  Similarity=0.055  Sum_probs=31.6

Q ss_pred             cccchhhHHHHHHHH--hcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          146 VVGLQLTFDRVWRCL--MEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       146 ~vGr~~~~~~l~~~L--~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+.|.+....+.+..  ......+|.+.|++|+||||+|+.+...+
T Consensus       351 ~~~r~eV~~~lr~~~~~~~~~~~~I~l~G~~GsGKSTia~~La~~L  396 (546)
T 2gks_A          351 WFTRPEVAEILAETYVPKHKQGFCVWLTGLPCAGKSTIAEILATML  396 (546)
T ss_dssp             TTSCHHHHHHHHHHSCCGGGCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cccchhHHHHHHHhhccccccceEEEccCCCCCCHHHHHHHHHHHh
Confidence            444444445555544  22346789999999999999999998876

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=94.41  E-value=0.022  Score=45.67  Aligned_cols=25  Identities=24%  Similarity=0.230  Sum_probs=21.2

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .--|.|+|.+|+|||||+..+.+..
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~~   44 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTGT   44 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHSS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568899999999999998887654

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=94.41  E-value=0.031  Score=43.38  Aligned_cols=25  Identities=36%  Similarity=0.509  Sum_probs=21.4

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++.+|+|++|+||||+...++--.
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            5688999999999999999886544

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=94.41  E-value=0.018  Score=53.12  Aligned_cols=25  Identities=28%  Similarity=0.468  Sum_probs=22.7

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|.|+|.+|+||||++..++...
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l  123 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYI  123 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998876

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=94.40  E-value=0.023  Score=44.32  Aligned_cols=22  Identities=36%  Similarity=0.419  Sum_probs=19.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      -|.++|.+|+|||||...+.+.
T Consensus         4 ki~~vG~~~~GKSsli~~l~~~   25 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGGV   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCc
Confidence            5789999999999999988543

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=94.39  E-value=0.026  Score=45.36  Aligned_cols=25  Identities=28%  Similarity=0.460  Sum_probs=22.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      +...|.|+|.+|+|||||...+.+.
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4577899999999999999999765

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=94.39  E-value=0.022  Score=44.47  Aligned_cols=24  Identities=33%  Similarity=0.585  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      --|.++|.+|+|||||...+....
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVKGT   27 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            457899999999999999998643

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=94.36  E-value=0.024  Score=44.78  Aligned_cols=25  Identities=32%  Similarity=0.488  Sum_probs=21.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...|.|+|.+|+|||||...+.+..
T Consensus         9 ~~~i~v~G~~~~GKssli~~l~~~~   33 (181)
T 2fn4_A            9 THKLVVVGGGGVGKSALTIQFIQSY   33 (181)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCc
Confidence            4578999999999999999998764

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.36  E-value=0.029  Score=46.16  Aligned_cols=26  Identities=27%  Similarity=0.250  Sum_probs=22.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....|.|+|.+|+|||||+..+.+..
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45678999999999999999998765

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=94.36  E-value=0.039  Score=48.27  Aligned_cols=34  Identities=32%  Similarity=0.546  Sum_probs=26.9

Q ss_pred             HHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          153 FDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       153 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++++...+.   ..+++|+|++|+|||||.+.+....
T Consensus       160 v~~lf~~l~---geiv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          160 IEELKEYLK---GKISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             HHHHHHHHS---SSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HHHHHHHhc---CCeEEEECCCCCcHHHHHHHhcccc
Confidence            555555553   4689999999999999999997654

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=94.35  E-value=0.023  Score=44.90  Aligned_cols=26  Identities=35%  Similarity=0.369  Sum_probs=22.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....|.|+|.+|+|||||...+....
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~~   32 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVNDK   32 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCc
Confidence            34578999999999999999987754

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=94.35  E-value=0.024  Score=44.22  Aligned_cols=24  Identities=33%  Similarity=0.373  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      --|.|+|.+|+|||||...+....
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~~   27 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVEDK   27 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHhCC
Confidence            358899999999999999997654

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=94.35  E-value=0.022  Score=44.56  Aligned_cols=21  Identities=43%  Similarity=0.525  Sum_probs=18.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHH
Q 045709          167 IVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      -|.|+|.+|+|||||+..+..
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            578999999999999999864

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=94.34  E-value=0.024  Score=44.74  Aligned_cols=24  Identities=38%  Similarity=0.445  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .-|.|+|.+|+|||||...+....
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~~   31 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTNK   31 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999997654

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=94.34  E-value=0.026  Score=44.55  Aligned_cols=24  Identities=29%  Similarity=0.293  Sum_probs=20.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      --|.|+|.+|+|||||...+.+..
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~~~   30 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQET   30 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHGGG
T ss_pred             EEEEEECcCCCCHHHHHHHHHhCc
Confidence            468899999999999999987643

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=94.31  E-value=0.022  Score=49.93  Aligned_cols=22  Identities=27%  Similarity=0.450  Sum_probs=18.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      -|+|+|.+|+|||||.+.++..
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g~   41 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFLT   41 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4599999999999999998754

>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=94.31  E-value=0.3  Score=40.66  Aligned_cols=32  Identities=25%  Similarity=0.355  Sum_probs=22.2

Q ss_pred             HHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHH
Q 045709          153 FDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQIN  186 (337)
Q Consensus       153 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~  186 (337)
                      ..+++..+..  ...+.|.|..|+||||+...+.
T Consensus        66 q~~~i~~i~~--g~~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           66 ESEILEAISQ--NSVVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             HHHHHHHHHH--CSEEEEECCTTSSHHHHHHHHH
T ss_pred             HHHHHHHHhc--CCEEEEEeCCCCCcHHhHHHHH
Confidence            3444444433  3688999999999998665553

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=94.30  E-value=0.042  Score=52.55  Aligned_cols=26  Identities=15%  Similarity=0.167  Sum_probs=23.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+|.|.|++|+||||+|+.+...+
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L  420 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTL  420 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998876

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.30  E-value=0.023  Score=53.93  Aligned_cols=125  Identities=15%  Similarity=0.174  Sum_probs=68.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCC----------------------------cEEEEEEecC---c-----
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHF----------------------------DFVIWVVVSR---D-----  207 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f----------------------------~~~~wv~~~~---~-----  207 (337)
                      +..+++|+|++|+|||||.+.+........+..                            ...+......   .     
T Consensus        24 ~Gei~gLiGpNGaGKSTLlkiL~Gl~~p~~G~i~~~~~~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (538)
T 3ozx_A           24 NNTILGVLGKNGVGKTTVLKILAGEIIPNFGDPNSKVGKDEVLKRFRGKEIYNYFKELYSNELKIVHKIQYVEYASKFLK  103 (538)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSSCCCTTCTTSCCCHHHHHHHHTTSTTHHHHHHHHTTCCCEEEECSCTTGGGTTCC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCCCCCCCccccccchhhHHhhcCCeeHHHHHHHHhhcccchhhccchhhhhhhhcc
Confidence            467999999999999999999976441111110                            0001111100   0     


Q ss_pred             cCHHH---------HHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCcccc------ccccCC
Q 045709          208 LQLEK---------IQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDL------DQVGLP  268 (337)
Q Consensus       208 ~~~~~---------~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~------~~l~~~  268 (337)
                      .+..+         ....++..++...   ......+..+.+.. |...|..++-+|+||+--+..+.      ..+...
T Consensus       104 ~~v~~~l~~~~~~~~~~~~l~~l~l~~~~~~~~~~LSgGe~Qrv~iA~aL~~~p~illlDEPts~LD~~~~~~l~~~l~~  183 (538)
T 3ozx_A          104 GTVNEILTKIDERGKKDEVKELLNMTNLWNKDANILSGGGLQRLLVAASLLREADVYIFDQPSSYLDVRERMNMAKAIRE  183 (538)
T ss_dssp             SBHHHHHHHHCCSSCHHHHHHHTTCGGGTTSBGGGCCHHHHHHHHHHHHHHSCCSEEEEESTTTTCCHHHHHHHHHHHHH
T ss_pred             CcHHHHhhcchhHHHHHHHHHHcCCchhhcCChhhCCHHHHHHHHHHHHHHcCCCEEEEECCcccCCHHHHHHHHHHHHH
Confidence            01111         2344556665432   12244555554443 66677788889999998665332      122222


Q ss_pred             CCCCCCCCcEEEEeeCChhHHhhc
Q 045709          269 IPSRTSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       269 l~~~~~g~s~IiiTtr~~~v~~~~  292 (337)
                      +.   .| ..||++|++......+
T Consensus       184 l~---~g-~tii~vsHdl~~~~~~  203 (538)
T 3ozx_A          184 LL---KN-KYVIVVDHDLIVLDYL  203 (538)
T ss_dssp             HC---TT-SEEEEECSCHHHHHHH
T ss_pred             Hh---CC-CEEEEEEeChHHHHhh
Confidence            22   25 6788999987665443

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=94.29  E-value=0.015  Score=49.75  Aligned_cols=26  Identities=15%  Similarity=0.235  Sum_probs=23.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +...|+|.|..|+||||+++.+...+
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhc
Confidence            56799999999999999999998765

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=94.28  E-value=0.029  Score=44.92  Aligned_cols=26  Identities=38%  Similarity=0.533  Sum_probs=22.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....|.|+|.+|+|||||...+.+..
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~~   47 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNRK   47 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTSC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCc
Confidence            34578999999999999999998764

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=94.28  E-value=0.025  Score=45.39  Aligned_cols=24  Identities=38%  Similarity=0.351  Sum_probs=20.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      --|.|+|.+|+|||||++.+.+..
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHTS
T ss_pred             cEEEEECCCCCCHHHHHHHHHhhc
Confidence            468899999999999997776544

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=94.26  E-value=0.028  Score=45.32  Aligned_cols=26  Identities=35%  Similarity=0.502  Sum_probs=21.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +...|+++|.+|+|||||...+.+..
T Consensus        22 ~~~ki~~vG~~~vGKSsli~~l~~~~   47 (190)
T 1m2o_B           22 KHGKLLFLGLDNAGKTTLLHMLKNDR   47 (190)
T ss_dssp             --CEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCC
Confidence            34578999999999999999998743

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=94.24  E-value=0.037  Score=45.28  Aligned_cols=25  Identities=12%  Similarity=0.193  Sum_probs=23.1

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+|+|.|+.|+||||+++.+...+
T Consensus         6 ~~iI~i~g~~GsGk~ti~~~la~~l   30 (201)
T 3fdi_A            6 QIIIAIGREFGSGGHLVAKKLAEHY   30 (201)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999877

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=94.21  E-value=0.026  Score=45.32  Aligned_cols=25  Identities=20%  Similarity=0.317  Sum_probs=21.4

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .--|.|+|.+|+|||||+..+.+..
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~~   45 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTKR   45 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhCC
Confidence            4568899999999999999887654

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=94.20  E-value=0.028  Score=43.76  Aligned_cols=24  Identities=25%  Similarity=0.264  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      --|.++|.+|+|||||...+....
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~~   30 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            458899999999999999998653

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=94.20  E-value=0.024  Score=52.00  Aligned_cols=25  Identities=28%  Similarity=0.365  Sum_probs=21.3

Q ss_pred             CCeE--EEEEecCCCcHHHHHHHHHHh
Q 045709          164 HAGI--VGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       164 ~~~v--i~I~G~~GiGKTtLa~~v~~~  188 (337)
                      ...+  ++|+|.+|+|||||.+.++..
T Consensus        39 ~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           39 QGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             -CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             CCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            4456  999999999999999999764

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.19  E-value=0.028  Score=53.41  Aligned_cols=125  Identities=17%  Similarity=0.178  Sum_probs=69.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC-----------Cc----------------EEEEEE--ecCc-----cC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH-----------FD----------------FVIWVV--VSRD-----LQ  209 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~-----------f~----------------~~~wv~--~~~~-----~~  209 (337)
                      ...+++|+|.+|+|||||++.+........+.           +.                .+.++.  ....     .+
T Consensus        46 ~Ge~~~LvG~NGaGKSTLlk~l~Gl~~p~~G~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~q~~~~~~~~~~~~  125 (538)
T 1yqt_A           46 EGMVVGIVGPNGTGKSTAVKILAGQLIPNLCGDNDSWDGVIRAFRGNELQNYFEKLKNGEIRPVVKPQYVDLIPKAVKGK  125 (538)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHTSSCCCTTTTCCSHHHHHHHTTTSTHHHHHHHHHTTSCCCEEECSCGGGSGGGCCSB
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCCccCcchhhhHHhhCCccHHHHHHHHHHHhhhhhhhhhhhhhcchhhhcc
Confidence            56799999999999999999998754111111           00                011111  0000     02


Q ss_pred             HHH---------HHHHHHHHhCCCCc---cccCCCHHHHHH-HHHHHhcCCcEEEEEecCCCccccc------cccCCCC
Q 045709          210 LEK---------IQESIAKKIGLFNE---SWKNKSMQEKAQ-EIFKILSKKKFVLLLDDIWELVDLD------QVGLPIP  270 (337)
Q Consensus       210 ~~~---------~~~~i~~~l~~~~~---~~~~~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~~~------~l~~~l~  270 (337)
                      +.+         -..+++..++....   .....+..+.+. .|...|..++-+|+||+--+..+..      .+...+.
T Consensus       126 v~e~~~~~~~~~~~~~~l~~lgl~~~~~~~~~~LSgGekQRv~iAraL~~~P~lLlLDEPTs~LD~~~~~~l~~~L~~l~  205 (538)
T 1yqt_A          126 VIELLKKADETGKLEEVVKALELENVLEREIQHLSGGELQRVAIAAALLRNATFYFFDEPSSYLDIRQRLNAARAIRRLS  205 (538)
T ss_dssp             HHHHHHHHCSSSCHHHHHHHTTCTTTTTSBGGGCCHHHHHHHHHHHHHHSCCSEEEEESTTTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHcCCChhhhCChhhCCHHHHHHHHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHH
Confidence            221         12456666665321   123445555444 3666777888899999986653321      1211122


Q ss_pred             CCCCCCcEEEEeeCChhHHhh
Q 045709          271 SRTSVSNKVVFTTREFGVCGQ  291 (337)
Q Consensus       271 ~~~~g~s~IiiTtr~~~v~~~  291 (337)
                      .  .| ..||++|++......
T Consensus       206 ~--~g-~tvi~vsHd~~~~~~  223 (538)
T 1yqt_A          206 E--EG-KSVLVVEHDLAVLDY  223 (538)
T ss_dssp             H--TT-CEEEEECSCHHHHHH
T ss_pred             h--cC-CEEEEEeCCHHHHHH
Confidence            1  25 689999998776544

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=94.18  E-value=0.03  Score=45.28  Aligned_cols=23  Identities=39%  Similarity=0.362  Sum_probs=20.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      --|.|+|.+|+|||||...+...
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~~   29 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAGV   29 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46889999999999999998754

>2woj_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; HET: ADP; 1.99A {Saccharomyces cerevisiae} PDB: 3h84_A 3zs8_A 3zs9_A* 3sja_A 3sjb_A 3sjc_A 3sjd_A* 3idq_A 3a36_A 3a37_A*

Probab=94.17  E-value=0.083  Score=47.29  Aligned_cols=27  Identities=33%  Similarity=0.343  Sum_probs=21.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....++...|.||+||||++..++..+
T Consensus        16 ~~~~i~v~sgKGGvGKTTvaanLA~~l   42 (354)
T 2woj_A           16 TTHKWIFVGGKGGVGKTTSSCSIAIQM   42 (354)
T ss_dssp             SSCCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHHH
Confidence            335566677999999999999988777

>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=94.16  E-value=0.14  Score=57.26  Aligned_cols=80  Identities=23%  Similarity=0.261  Sum_probs=47.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL  244 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l  244 (337)
                      .+-+.++|++|+|||++|+.+....    ..+ ....++.+...+...+...+-..+...... ...-..       -.-
T Consensus      1267 ~~~vLL~GPpGtGKT~la~~~l~~~----~~~-~~~~infsa~ts~~~~~~~i~~~~~~~~~~-~g~~~~-------P~~ 1333 (2695)
T 4akg_A         1267 KRGIILCGPPGSGKTMIMNNALRNS----SLY-DVVGINFSKDTTTEHILSALHRHTNYVTTS-KGLTLL-------PKS 1333 (2695)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHSC----SSC-EEEEEECCTTCCHHHHHHHHHHHBCCEEET-TTEEEE-------EBS
T ss_pred             CCeEEEECCCCCCHHHHHHHHHhcC----CCC-ceEEEEeecCCCHHHHHHHHHHHhhhcccc-CCcccc-------CCC
Confidence            3577899999999999998877654    223 345677777766666665555544321100 000000       000


Q ss_pred             cCCcEEEEEecCC
Q 045709          245 SKKKFVLLLDDIW  257 (337)
Q Consensus       245 ~~k~~LlVlDdv~  257 (337)
                      .+++++|.+||+.
T Consensus      1334 ~gk~~VlFiDEin 1346 (2695)
T 4akg_A         1334 DIKNLVLFCDEIN 1346 (2695)
T ss_dssp             SSSCEEEEEETTT
T ss_pred             CCceEEEEecccc
Confidence            3678899999975

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=94.16  E-value=0.031  Score=51.62  Aligned_cols=27  Identities=30%  Similarity=0.461  Sum_probs=24.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+...++|+|.+|+|||||++.+.+..
T Consensus       155 ~~Gq~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          155 GRGQRMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             BTTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            467899999999999999999998876

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=94.14  E-value=0.038  Score=49.23  Aligned_cols=27  Identities=26%  Similarity=0.397  Sum_probs=23.9

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|.+|+|||||+..+....
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            467899999999999999999997655

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=94.13  E-value=0.028  Score=44.31  Aligned_cols=25  Identities=32%  Similarity=0.288  Sum_probs=21.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...|.|+|.+|+|||||...+....
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~~   39 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEKK   39 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            4568999999999999999998754

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=94.12  E-value=0.029  Score=44.68  Aligned_cols=25  Identities=28%  Similarity=0.262  Sum_probs=21.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..-|.|+|.+|+|||||+..+.+..
T Consensus        10 ~~ki~v~G~~~~GKSsli~~l~~~~   34 (186)
T 2bme_A           10 LFKFLVIGNAGTGKSCLLHQFIEKK   34 (186)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCC
Confidence            3568899999999999999998754

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=94.12  E-value=0.028  Score=44.82  Aligned_cols=24  Identities=29%  Similarity=0.372  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      --|.|+|.+|+|||||...+.+..
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~~   28 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQNH   28 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCC
Confidence            358899999999999999998754

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=94.10  E-value=0.031  Score=50.07  Aligned_cols=25  Identities=32%  Similarity=0.405  Sum_probs=22.3

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+++|+|++|+|||||++.+....
T Consensus       215 G~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          215 GRISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             CCEEEEECCCCccHHHHHHHHhccc
Confidence            4689999999999999999998755

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=94.09  E-value=0.03  Score=44.14  Aligned_cols=24  Identities=29%  Similarity=0.272  Sum_probs=20.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -.|.|+|.+|+|||||...+....
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~~~   38 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMYDS   38 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468899999999999999998654

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=94.09  E-value=0.027  Score=44.98  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.|+|.+|+|||||...+.+..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~~   25 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGKK   25 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCcC
Confidence            47899999999999999987654

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=94.08  E-value=0.029  Score=44.59  Aligned_cols=25  Identities=32%  Similarity=0.440  Sum_probs=21.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .-.|.|+|.+|+|||||...+.+..
T Consensus        18 ~~ki~v~G~~~~GKSsl~~~l~~~~   42 (183)
T 3kkq_A           18 TYKLVVVGDGGVGKSALTIQFFQKI   42 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCC
Confidence            3568899999999999999998654

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=94.07  E-value=0.077  Score=47.00  Aligned_cols=27  Identities=30%  Similarity=0.335  Sum_probs=22.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....++.+.|.||+||||++..++...
T Consensus        17 ~~~~i~v~sgkGGvGKTTva~~LA~~l   43 (329)
T 2woo_A           17 TSLKWIFVGGKGGVGKTTTSCSLAIQM   43 (329)
T ss_dssp             TTCCEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCcHHHHHHHHHHHH
Confidence            345677778999999999999998877

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=94.06  E-value=0.034  Score=44.70  Aligned_cols=25  Identities=24%  Similarity=0.240  Sum_probs=21.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .--|.|+|.+|+|||||+..+.+..
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eeEEEEECCCCcCHHHHHHHHhcCC
Confidence            4568899999999999999998765

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=94.05  E-value=0.03  Score=44.34  Aligned_cols=25  Identities=24%  Similarity=0.365  Sum_probs=21.4

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...|.|+|.+|+|||||+..+.+..
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~~~   30 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVEGQ   30 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            4568899999999999999998544

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=94.05  E-value=0.037  Score=44.66  Aligned_cols=26  Identities=23%  Similarity=0.470  Sum_probs=22.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..--|.|+|.+|+|||||+..+....
T Consensus        27 ~~~ki~v~G~~~vGKSsli~~l~~~~   52 (196)
T 2atv_A           27 AEVKLAIFGRAGVGKSALVVRFLTKR   52 (196)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCC
Confidence            45678999999999999999998754

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.04  E-value=0.03  Score=53.17  Aligned_cols=128  Identities=19%  Similarity=0.246  Sum_probs=70.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--Cc-EEEEEEecC----ccCHHHHHHHH--------------HHHhC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--FD-FVIWVVVSR----DLQLEKIQESI--------------AKKIG  222 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f~-~~~wv~~~~----~~~~~~~~~~i--------------~~~l~  222 (337)
                      ...+++|+|++|+|||||++.++.......+.  +. .+.|+.-..    ..++.+.+...              +..++
T Consensus       311 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~~p~~G~i~~~~~i~~v~Q~~~~~~~~tv~~~~~~~~~~~~~~~~~~~~~l~~~~  390 (538)
T 1yqt_A          311 KGEVIGIVGPNGIGKTTFVKMLAGVEEPTEGKIEWDLTVAYKPQYIKADYEGTVYELLSKIDASKLNSNFYKTELLKPLG  390 (538)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSCCSBCCCCCCCCEEEECSSCCCCCSSBHHHHHHHHHHHHHTCHHHHHHTTTTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECceEEEEecCCcCCCCCcHHHHHHhhhccCCCHHHHHHHHHHHcC
Confidence            46799999999999999999998865211111  11 244443211    12333332221              11222


Q ss_pred             CCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCcccccc---ccCCCCCC--CCCCcEEEEeeCChhHHhhc
Q 045709          223 LFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLDQ---VGLPIPSR--TSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       223 ~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~~---l~~~l~~~--~~g~s~IiiTtr~~~v~~~~  292 (337)
                      ...   ......+..+.++. |...|..++-+|+||+--+..+...   +...+...  ..| ..||++|++.+.+..+
T Consensus       391 l~~~~~~~~~~LSGGe~qrv~lAraL~~~p~lLlLDEPt~~LD~~~~~~i~~~l~~l~~~~g-~tvi~vsHd~~~~~~~  468 (538)
T 1yqt_A          391 IIDLYDREVNELSGGELQRVAIAATLLRDADIYLLDEPSAYLDVEQRLAVSRAIRHLMEKNE-KTALVVEHDVLMIDYV  468 (538)
T ss_dssp             CGGGTTSBGGGCCHHHHHHHHHHHHHTSCCSEEEEECTTTTCCHHHHHHHHHHHHHHHHHHT-CEEEEECSCHHHHHHH
T ss_pred             ChhhhcCChhhCCHHHHHHHHHHHHHHhCCCEEEEeCCcccCCHHHHHHHHHHHHHHHHhCC-CEEEEEeCCHHHHHHh
Confidence            211   11234555555544 5667788899999999866543221   11111110  124 6789999987765543

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=94.03  E-value=0.088  Score=47.02  Aligned_cols=26  Identities=31%  Similarity=0.392  Sum_probs=21.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...++.+.|.||+||||+|..++...
T Consensus        25 ~~~i~v~sgKGGvGKTTvA~~LA~~l   50 (349)
T 3ug7_A           25 GTKYIMFGGKGGVGKTTMSAATGVYL   50 (349)
T ss_dssp             SCEEEEEECSSSTTHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCccHHHHHHHHHHHH
Confidence            34566666999999999999988776

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=94.01  E-value=0.03  Score=44.45  Aligned_cols=24  Identities=33%  Similarity=0.315  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      --|.++|.+|+|||||...+.+..
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~~   29 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTNA   29 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcCC
Confidence            358899999999999999987654

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=94.00  E-value=0.077  Score=43.56  Aligned_cols=42  Identities=19%  Similarity=0.142  Sum_probs=30.3

Q ss_pred             EEEEE-ecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHH
Q 045709          167 IVGLY-GMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEK  212 (337)
Q Consensus       167 vi~I~-G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~  212 (337)
                      +|+|+ +.||+||||++..++..+. .  .- .++.++.....+...
T Consensus         2 vI~v~s~KGGvGKTT~a~~LA~~la-~--~g-~VlliD~D~q~~~~~   44 (209)
T 3cwq_A            2 IITVASFKGGVGKTTTAVHLSAYLA-L--QG-ETLLIDGDPNRSATG   44 (209)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHH-T--TS-CEEEEEECTTCHHHH
T ss_pred             EEEEEcCCCCCcHHHHHHHHHHHHH-h--cC-CEEEEECCCCCCHHH
Confidence            55665 7899999999999998883 2  22 677777776654443

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=94.00  E-value=0.032  Score=44.56  Aligned_cols=25  Identities=32%  Similarity=0.252  Sum_probs=21.4

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..-|.|+|.+|+|||||+..+.+..
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~~~   35 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTDGK   35 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            3468899999999999999998754

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=93.99  E-value=0.04  Score=43.00  Aligned_cols=25  Identities=28%  Similarity=0.393  Sum_probs=21.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...|.++|.+|+|||||...+....
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~~   31 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVGE   31 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568999999999999999997654

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=93.98  E-value=0.032  Score=44.81  Aligned_cols=25  Identities=40%  Similarity=0.444  Sum_probs=21.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .--|+|+|.+|+|||||...+....
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~~   49 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTRNE   49 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3568999999999999999988754

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=93.97  E-value=0.038  Score=51.58  Aligned_cols=26  Identities=15%  Similarity=0.322  Sum_probs=23.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+|.++|++|+||||+++.+....
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l   63 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYL   63 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999998876

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=93.96  E-value=0.022  Score=45.07  Aligned_cols=24  Identities=21%  Similarity=0.293  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      --|.++|.+|+|||||+..+.+..
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~~   31 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTGS   31 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC
Confidence            458899999999999999998754

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=93.95  E-value=0.031  Score=44.34  Aligned_cols=25  Identities=36%  Similarity=0.360  Sum_probs=21.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..-|.|+|.+|+|||||+..+....
T Consensus        18 ~~ki~v~G~~~~GKSsli~~l~~~~   42 (187)
T 2a9k_A           18 LHKVIMVGSGGVGKSALTLQFMYDE   42 (187)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCC
Confidence            4568899999999999999998654

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=93.94  E-value=0.028  Score=45.33  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=21.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      .+..-|.|+|.+|+|||||+..+..
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCS
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHh
Confidence            4556799999999999999999854

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=93.93  E-value=0.032  Score=44.18  Aligned_cols=25  Identities=32%  Similarity=0.238  Sum_probs=21.2

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .--|.|+|.+|+|||||...+....
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~~   32 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSNT   32 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568899999999999999987653

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=93.93  E-value=0.11  Score=42.91  Aligned_cols=26  Identities=19%  Similarity=0.351  Sum_probs=23.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +...|.+-|..|+||||+++.+...+
T Consensus         4 ~g~~i~~eG~~g~GKst~~~~l~~~l   29 (216)
T 3tmk_A            4 RGKLILIEGLDRTGKTTQCNILYKKL   29 (216)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35689999999999999999999988

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=93.93  E-value=0.031  Score=44.17  Aligned_cols=24  Identities=25%  Similarity=0.326  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .-|.|+|.+|+|||||...+....
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~~   36 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKDQ   36 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468899999999999999988754

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=93.92  E-value=0.03  Score=44.62  Aligned_cols=27  Identities=30%  Similarity=0.395  Sum_probs=22.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+...|.++|.+|+|||||...+.+..
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~   42 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED   42 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            456778999999999999999987644

>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=93.91  E-value=0.049  Score=52.32  Aligned_cols=27  Identities=30%  Similarity=0.460  Sum_probs=23.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|++|+|||||++.+..-.
T Consensus       367 ~~G~~~~ivG~sGsGKSTLl~~l~g~~  393 (582)
T 3b60_A          367 PAGKTVALVGRSGSGKSTIASLITRFY  393 (582)
T ss_dssp             CTTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            467899999999999999999997654

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=93.89  E-value=0.025  Score=45.82  Aligned_cols=24  Identities=38%  Similarity=0.357  Sum_probs=20.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      ....|.|+|.+|+|||||...+..
T Consensus        22 ~~~ki~vvG~~~vGKSsLi~~l~~   45 (195)
T 3cbq_A           22 GIFKVMLVGESGVGKSTLAGTFGG   45 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHTCC
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHh
Confidence            345789999999999999999853

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=93.89  E-value=0.079  Score=43.45  Aligned_cols=24  Identities=29%  Similarity=0.598  Sum_probs=22.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..|+|=|..|+||||+++.+...+
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L   26 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRL   26 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHH
Confidence            568899999999999999999988

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=93.89  E-value=0.028  Score=53.32  Aligned_cols=127  Identities=16%  Similarity=0.227  Sum_probs=67.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--C--cEEEEEEecC----ccCHHHHHH---------------HHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--F--DFVIWVVVSR----DLQLEKIQE---------------SIAKK  220 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f--~~~~wv~~~~----~~~~~~~~~---------------~i~~~  220 (337)
                      ...+++|+|++|+|||||++.++.-.....+.  +  ..+.++.-..    ..++.+.+.               .++..
T Consensus       293 ~Gei~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~~~~i~~~~q~~~~~~~~tv~~~l~~~~~~~~~~~~~~~~~~l~~  372 (538)
T 3ozx_A          293 EGEIIGILGPNGIGKTTFARILVGEITADEGSVTPEKQILSYKPQRIFPNYDGTVQQYLENASKDALSTSSWFFEEVTKR  372 (538)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSCCSBCCEESSCCCEEEECSSCCCCCSSBHHHHHHHHCSSTTCTTSHHHHHTTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCeeeEeechhcccccCCCHHHHHHHhhhhccchhHHHHHHHHHH
Confidence            46789999999999999999998755211111  1  1122222110    112222221               11122


Q ss_pred             hCCC---CccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc------cccCCCCCCCCCCcEEEEeeCChhHHh
Q 045709          221 IGLF---NESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD------QVGLPIPSRTSVSNKVVFTTREFGVCG  290 (337)
Q Consensus       221 l~~~---~~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~------~l~~~l~~~~~g~s~IiiTtr~~~v~~  290 (337)
                      ++..   .......|..+.++. |...|..++-+|+||+--+..+..      .+...+.. ..| ..||++|.+.+.+.
T Consensus       373 ~~l~~~~~~~~~~LSGGq~QRv~iAraL~~~p~lLlLDEPT~gLD~~~~~~i~~~l~~l~~-~~g-~tvi~vsHdl~~~~  450 (538)
T 3ozx_A          373 LNLHRLLESNVNDLSGGELQKLYIAATLAKEADLYVLDQPSSYLDVEERYIVAKAIKRVTR-ERK-AVTFIIDHDLSIHD  450 (538)
T ss_dssp             TTGGGCTTSBGGGCCHHHHHHHHHHHHHHSCCSEEEEESTTTTCCHHHHHHHHHHHHHHHH-HTT-CEEEEECSCHHHHH
T ss_pred             cCCHHHhcCChhhCCHHHHHHHHHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHH-hCC-CEEEEEeCCHHHHH
Confidence            2211   111234555555443 566777888899999876653321      11111111 134 68888999877665


Q ss_pred             hc
Q 045709          291 QM  292 (337)
Q Consensus       291 ~~  292 (337)
                      .+
T Consensus       451 ~~  452 (538)
T 3ozx_A          451 YI  452 (538)
T ss_dssp             HH
T ss_pred             Hh
Confidence            43

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=93.88  E-value=0.032  Score=45.21  Aligned_cols=25  Identities=36%  Similarity=0.360  Sum_probs=21.5

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...|.|+|.+|+|||||...+....
T Consensus        14 ~~ki~v~G~~~~GKSsli~~l~~~~   38 (206)
T 2bov_A           14 LHKVIMVGSGGVGKSALTLQFMYDE   38 (206)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCC
Confidence            4578999999999999999987654

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.88  E-value=0.033  Score=43.99  Aligned_cols=25  Identities=44%  Similarity=0.453  Sum_probs=21.5

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .--|.++|.+|+|||||...+....
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~~   34 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDGA   34 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            3468999999999999999997754

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=93.86  E-value=0.19  Score=47.43  Aligned_cols=55  Identities=20%  Similarity=0.306  Sum_probs=38.0

Q ss_pred             HHHHhc-CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc-cCHHHHHHH
Q 045709          157 WRCLME-EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD-LQLEKIQES  216 (337)
Q Consensus       157 ~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~  216 (337)
                      ++.|.. .+...++|.|..|+|||+|+..+.+..     +-+.++++-+... ....+++..
T Consensus       223 ID~l~PigrGqr~~Ifgg~g~GKT~L~~~ia~~~-----~~~v~V~~~iGER~~Ev~e~~~~  279 (600)
T 3vr4_A          223 IDTFFPVTKGGAAAVPGPFGAGKTVVQHQIAKWS-----DVDLVVYVGCGERGNEMTDVVNE  279 (600)
T ss_dssp             HHHHSCCBTTCEEEEECCTTSCHHHHHHHHHHHS-----SCSEEEEEEEEECHHHHHHHHHH
T ss_pred             hhccCCccCCCEEeeecCCCccHHHHHHHHHhcc-----CCCEEEEEEecccHHHHHHHHHH
Confidence            444443 467889999999999999999998865     2256777777654 234444433

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=93.86  E-value=0.034  Score=53.58  Aligned_cols=127  Identities=15%  Similarity=0.200  Sum_probs=72.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC--C-cEEEEEEecC----ccCHHHHH--------------HHHHHHhC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH--F-DFVIWVVVSR----DLQLEKIQ--------------ESIAKKIG  222 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~--f-~~~~wv~~~~----~~~~~~~~--------------~~i~~~l~  222 (337)
                      ...+++|+|++|+|||||++.++.......+.  + ..+.|+.-..    ..++.+.+              ..++..++
T Consensus       381 ~Gei~~i~G~NGsGKSTLlk~l~Gl~~p~~G~I~~~~~i~~v~Q~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~l~~~~  460 (607)
T 3bk7_A          381 KGEVIGIVGPNGIGKTTFVKMLAGVEEPTEGKVEWDLTVAYKPQYIKAEYEGTVYELLSKIDSSKLNSNFYKTELLKPLG  460 (607)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSCCSBSCCCCCCCEEEECSSCCCCCSSBHHHHHHHHHHHHHHCHHHHHHTHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEEeeEEEEEecCccCCCCCcHHHHHHhhhccCCCHHHHHHHHHHHcC
Confidence            46799999999999999999998865211111  1 1244443211    11232222              23444455


Q ss_pred             CCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc------cccCCCCCCCCCCcEEEEeeCChhHHhhc
Q 045709          223 LFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD------QVGLPIPSRTSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       223 ~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~------~l~~~l~~~~~g~s~IiiTtr~~~v~~~~  292 (337)
                      ...   ......+..+.++. |...|...+-+|+||+--+..+..      .+...+.. ..| ..||++|++...+..+
T Consensus       461 l~~~~~~~~~~LSGGe~QRv~iAraL~~~p~lLlLDEPt~~LD~~~~~~l~~~l~~l~~-~~g-~tvi~vsHd~~~~~~~  538 (607)
T 3bk7_A          461 IIDLYDRNVEDLSGGELQRVAIAATLLRDADIYLLDEPSAYLDVEQRLAVSRAIRHLME-KNE-KTALVVEHDVLMIDYV  538 (607)
T ss_dssp             CTTTTTSBGGGCCHHHHHHHHHHHHHTSCCSEEEEECTTTTCCHHHHHHHHHHHHHHHH-HTT-CEEEEECSCHHHHHHH
T ss_pred             CchHhcCChhhCCHHHHHHHHHHHHHHhCCCEEEEeCCccCCCHHHHHHHHHHHHHHHH-hCC-CEEEEEeCCHHHHHHh
Confidence            432   12244566555544 566778888999999976653322      11111111 134 6899999987766543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=93.85  E-value=0.032  Score=44.03  Aligned_cols=25  Identities=28%  Similarity=0.361  Sum_probs=21.1

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..-|+|+|.+|+|||||+..+....
T Consensus         9 ~~~i~v~G~~~~GKssl~~~l~~~~   33 (181)
T 3tw8_B            9 LFKLLIIGDSGVGKSSLLLRFADNT   33 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHCSCC
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568999999999999999986543

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=93.84  E-value=0.034  Score=45.46  Aligned_cols=26  Identities=23%  Similarity=0.213  Sum_probs=22.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..--|.|+|.+|+|||||+..+....
T Consensus        27 ~~~ki~vvG~~~vGKSsLi~~l~~~~   52 (205)
T 1gwn_A           27 VKCKIVVVGDSQCGKTALLHVFAKDC   52 (205)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCC
Confidence            34578899999999999999998764

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=93.84  E-value=0.037  Score=44.88  Aligned_cols=26  Identities=31%  Similarity=0.243  Sum_probs=22.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..-|+|+|.+|+|||||+..+.+..
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~~   48 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEGE   48 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCC
Confidence            34678999999999999999998765

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.83  E-value=0.037  Score=45.12  Aligned_cols=25  Identities=32%  Similarity=0.422  Sum_probs=21.5

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..-|+|+|.+|+|||||+..+....
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~~   50 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQGL   50 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            3568999999999999999987654

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=93.83  E-value=0.033  Score=45.21  Aligned_cols=25  Identities=40%  Similarity=0.429  Sum_probs=21.7

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...|.|+|.+|+|||||...+....
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~   32 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYVNKK   32 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcCC
Confidence            4578999999999999999997754

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=93.83  E-value=0.035  Score=48.55  Aligned_cols=26  Identities=31%  Similarity=0.520  Sum_probs=22.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +...|+|+|.+|+|||||...+....
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~~   32 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQK   32 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCS
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCCC
Confidence            35689999999999999999998753

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=93.83  E-value=0.035  Score=44.70  Aligned_cols=25  Identities=28%  Similarity=0.387  Sum_probs=21.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .--|+|+|.+|+|||||...+....
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~~   47 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQDH   47 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHCC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCC
Confidence            3468999999999999999998754

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=93.81  E-value=0.035  Score=51.74  Aligned_cols=24  Identities=25%  Similarity=0.355  Sum_probs=22.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+++|+|++|+|||||++.+..-.
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl~   53 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTAL   53 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCC
Confidence            899999999999999999998755

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=93.78  E-value=0.03  Score=45.30  Aligned_cols=26  Identities=15%  Similarity=0.289  Sum_probs=20.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...-|.++|.+|+|||||+..+.+..
T Consensus        19 ~~~ki~~vG~~~vGKTsLi~~l~~~~   44 (196)
T 3llu_A           19 SKPRILLMGLRRSGKSSIQKVVFHKM   44 (196)
T ss_dssp             -CCEEEEEESTTSSHHHHHHHHHSCC
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhcC
Confidence            34578899999999999999776643

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=93.75  E-value=0.035  Score=44.69  Aligned_cols=25  Identities=20%  Similarity=0.317  Sum_probs=21.9

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .--|+|+|.+|+|||||+..+....
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~~   31 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKDT   31 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCc
Confidence            4568999999999999999998764

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=93.73  E-value=0.036  Score=44.59  Aligned_cols=25  Identities=36%  Similarity=0.356  Sum_probs=21.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .--|.++|.+|+|||||...+.+..
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~~   47 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKGE   47 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcCC
Confidence            4568899999999999999998764

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=93.71  E-value=0.29  Score=46.07  Aligned_cols=56  Identities=18%  Similarity=0.273  Sum_probs=39.2

Q ss_pred             HHHHhc-CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccC-HHHHHHHH
Q 045709          157 WRCLME-EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQ-LEKIQESI  217 (337)
Q Consensus       157 ~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~i  217 (337)
                      ++.|.. .+...++|+|..|+|||+|+..+.+..     +-+.++++-+..... ..++...+
T Consensus       218 ID~l~PigkGqr~~I~g~~g~GKT~L~~~ia~~~-----~~~~~V~~~iGER~~Ev~e~~~~~  275 (588)
T 3mfy_A          218 IDTFFPQAKGGTAAIPGPAGSGKTVTQHQLAKWS-----DAQVVIYIGCGERGNEMTDVLEEF  275 (588)
T ss_dssp             HHHHSCEETTCEEEECSCCSHHHHHHHHHHHHHS-----SCSEEEEEECCSSSSHHHHHHHHT
T ss_pred             hhccCCcccCCeEEeecCCCCCHHHHHHHHHhcc-----CCCEEEEEEecccHHHHHHHHHHH
Confidence            344433 367889999999999999999987754     224778888776554 44444443

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=93.71  E-value=0.037  Score=44.33  Aligned_cols=25  Identities=28%  Similarity=0.248  Sum_probs=21.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .--|.|+|.+|+|||||...+....
T Consensus        22 ~~ki~vvG~~~~GKSsli~~l~~~~   46 (189)
T 2gf9_A           22 MFKLLLIGNSSVGKTSFLFRYADDS   46 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCC
Confidence            3568999999999999999998754

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=93.70  E-value=0.064  Score=43.79  Aligned_cols=27  Identities=15%  Similarity=0.193  Sum_probs=23.5

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+|+|+|++|+||+|+|..+.+.+
T Consensus         9 ~~~~II~itGk~~SGKd~va~~l~~~~   35 (202)
T 3ch4_B            9 APRLVLLFSGKRKSGKDFVTEALQSRL   35 (202)
T ss_dssp             CCSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCChHHHHHHHHHHc
Confidence            356799999999999999999997755

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.69  E-value=0.041  Score=44.31  Aligned_cols=26  Identities=31%  Similarity=0.503  Sum_probs=22.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...-|.|+|.+|+|||||...+....
T Consensus         7 ~~~ki~vvG~~~~GKSsli~~l~~~~   32 (199)
T 2gf0_A            7 NDYRVVVFGAGGVGKSSLVLRFVKGT   32 (199)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHSC
T ss_pred             CeeEEEEECCCCCcHHHHHHHHHcCC
Confidence            34578999999999999999998754

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=93.67  E-value=0.037  Score=44.41  Aligned_cols=24  Identities=33%  Similarity=0.373  Sum_probs=21.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      --|.|+|.+|+|||||...+....
T Consensus        17 ~ki~v~G~~~~GKSsli~~l~~~~   40 (196)
T 3tkl_A           17 FKLLLIGDSGVGKSCLLLRFADDT   40 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcCC
Confidence            468999999999999999998754

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=93.67  E-value=0.037  Score=45.33  Aligned_cols=26  Identities=23%  Similarity=0.250  Sum_probs=21.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....|.|+|.+|+|||||...+....
T Consensus         6 ~~~ki~vvG~~~~GKTsli~~l~~~~   31 (214)
T 2fh5_B            6 SQRAVLFVGLCDSGKTLLFVRLLTGQ   31 (214)
T ss_dssp             --CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34578899999999999999998754

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=93.67  E-value=0.04  Score=44.12  Aligned_cols=25  Identities=28%  Similarity=0.260  Sum_probs=21.5

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .--|.|+|.+|+|||||...+.+..
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~~   46 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASGQ   46 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcCC
Confidence            3568899999999999999998654

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=93.67  E-value=0.056  Score=42.94  Aligned_cols=25  Identities=24%  Similarity=0.255  Sum_probs=21.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      ...-+.|.|.+|+||||||..+..+
T Consensus        15 ~G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           15 DKMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            3567889999999999999999774

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=93.64  E-value=0.053  Score=48.93  Aligned_cols=39  Identities=21%  Similarity=0.264  Sum_probs=28.9

Q ss_pred             CCeEEEEEe-cCCCcHHHHHHHHHHhhccCCCCCcEEEEEEec
Q 045709          164 HAGIVGLYG-MGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVS  205 (337)
Q Consensus       164 ~~~vi~I~G-~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~  205 (337)
                      +.++|+|+| .||+||||+|..++..+.   ..-..++.+++.
T Consensus       142 ~~kvIav~s~KGGvGKTT~a~nLA~~La---~~g~rVlliD~D  181 (373)
T 3fkq_A          142 KSSVVIFTSPCGGVGTSTVAAACAIAHA---NMGKKVFYLNIE  181 (373)
T ss_dssp             SCEEEEEECSSTTSSHHHHHHHHHHHHH---HHTCCEEEEECC
T ss_pred             CceEEEEECCCCCChHHHHHHHHHHHHH---hCCCCEEEEECC
Confidence            568899985 899999999999988773   222346666654

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=93.60  E-value=0.037  Score=44.91  Aligned_cols=25  Identities=28%  Similarity=0.240  Sum_probs=20.4

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .--|.|+|.+|+|||||...+....
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~~   49 (200)
T 2o52_A           25 LFKFLVIGSAGTGKSCLLHQFIENK   49 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHC--
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCC
Confidence            4568899999999999999987543

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=93.60  E-value=0.039  Score=44.33  Aligned_cols=24  Identities=33%  Similarity=0.350  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      --|.|+|.+|+|||||...+.+..
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~~   45 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDKR   45 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcCC
Confidence            468899999999999999998654

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=93.60  E-value=0.046  Score=46.87  Aligned_cols=25  Identities=32%  Similarity=0.384  Sum_probs=21.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...|+++|.+|+|||||...+....
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~   27 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLR   27 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTC
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCC
Confidence            3578999999999999999997654

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=93.58  E-value=0.04  Score=44.13  Aligned_cols=25  Identities=24%  Similarity=0.111  Sum_probs=21.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...|.|+|.+|+|||||...+....
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~~   44 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAGR   44 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCC
Confidence            4578999999999999999987654

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=93.57  E-value=0.039  Score=44.71  Aligned_cols=24  Identities=25%  Similarity=0.270  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      --|.|+|.+|+|||||+..+.+..
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADDS   32 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            468999999999999999997654

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=93.56  E-value=0.038  Score=46.35  Aligned_cols=26  Identities=27%  Similarity=0.207  Sum_probs=22.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....|+|+|.+|+|||||...+....
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~~   53 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGRK   53 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCCC
Confidence            45678999999999999999998754

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=93.54  E-value=0.041  Score=52.98  Aligned_cols=126  Identities=16%  Similarity=0.146  Sum_probs=69.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCC-C--cEEEEEEecC----ccCHH--------------HHHHHHHHHhCCC
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNH-F--DFVIWVVVSR----DLQLE--------------KIQESIAKKIGLF  224 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~-f--~~~~wv~~~~----~~~~~--------------~~~~~i~~~l~~~  224 (337)
                      .+++|+|++|+|||||++.++.-.....+. .  ..+.++.-..    ..++.              .....++..++..
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l~Gl~~p~~G~~~~~~~i~~~~q~~~~~~~~tv~e~~~~~~~~~~~~~~~~~~~l~~l~l~  458 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLLAGALKPDEGQDIPKLNVSMKPQKIAPKFPGTVRQLFFKKIRGQFLNPQFQTDVVKPLRID  458 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHTSSCCSBCCCCCSCCEEEECSSCCCCCCSBHHHHHHHHCSSTTTSHHHHHHTHHHHTST
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCcCccCCcEEEecccccccCCccHHHHHHHHhhcccccHHHHHHHHHHcCCh
Confidence            579999999999999999998755211111 0  0122322110    01111              2233445555543


Q ss_pred             C---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc---cccCCCCC--CCCCCcEEEEeeCChhHHhhc
Q 045709          225 N---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD---QVGLPIPS--RTSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       225 ~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~---~l~~~l~~--~~~g~s~IiiTtr~~~v~~~~  292 (337)
                      .   ......|..+.++. |...|..++-+|+||+--+..+..   .+...+..  ...| ..||++|++.+.+..+
T Consensus       459 ~~~~~~~~~LSGGqkQRv~iAraL~~~p~lLlLDEPT~gLD~~~~~~i~~ll~~l~~~~g-~tviivtHdl~~~~~~  534 (608)
T 3j16_B          459 DIIDQEVQHLSGGELQRVAIVLALGIPADIYLIDEPSAYLDSEQRIICSKVIRRFILHNK-KTAFIVEHDFIMATYL  534 (608)
T ss_dssp             TTSSSBSSSCCHHHHHHHHHHHHTTSCCSEEEECCTTTTCCHHHHHHHHHHHHHHHHHHT-CEEEEECSCHHHHHHH
T ss_pred             hhhcCChhhCCHHHHHHHHHHHHHHhCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHhCC-CEEEEEeCCHHHHHHh
Confidence            2   12245566665554 667788889999999876553321   11111111  1125 6899999987766543

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=93.53  E-value=0.041  Score=44.09  Aligned_cols=24  Identities=29%  Similarity=0.439  Sum_probs=21.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -.|.|+|.+|+|||||...+.+..
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~~   39 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDDT   39 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC
Confidence            468899999999999999998754

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=93.53  E-value=0.041  Score=44.70  Aligned_cols=24  Identities=33%  Similarity=0.401  Sum_probs=21.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .-|.|+|.+|+|||||...+.+..
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~~   32 (206)
T 2bcg_Y            9 FKLLLIGNSGVGKSCLLLRFSDDT   32 (206)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCC
Confidence            468899999999999999997754

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=93.53  E-value=0.038  Score=43.92  Aligned_cols=25  Identities=32%  Similarity=0.343  Sum_probs=21.5

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...|.|+|.+|+|||||...+....
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~~   45 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMNE   45 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTTS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCC
Confidence            4578999999999999999997643

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=93.53  E-value=0.038  Score=44.73  Aligned_cols=26  Identities=31%  Similarity=0.317  Sum_probs=20.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..--|.|+|.+|+|||||...+.+..
T Consensus        19 ~~~ki~~~G~~~~GKssl~~~l~~~~   44 (201)
T 2q3h_A           19 RGVKCVLVGDGAVGKTSLVVSYTTNG   44 (201)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHC--
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCC
Confidence            34578899999999999999987643

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=93.50  E-value=0.042  Score=52.95  Aligned_cols=126  Identities=19%  Similarity=0.215  Sum_probs=70.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCC-----------Cc----------------EEEEEE--ecCc-----cC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNH-----------FD----------------FVIWVV--VSRD-----LQ  209 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~-----------f~----------------~~~wv~--~~~~-----~~  209 (337)
                      ...+++|+|++|+|||||++.+........+.           |.                .+.++.  +...     .+
T Consensus       116 ~Ge~~~LiG~NGsGKSTLlkiL~Gll~p~~G~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~i~~~~q~~~~~~~~~~~t  195 (607)
T 3bk7_A          116 DGMVVGIVGPNGTGKTTAVKILAGQLIPNLCEDNDSWDNVIRAFRGNELQNYFERLKNGEIRPVVKPQYVDLLPKAVKGK  195 (607)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTTSSCCCTTTTCCCHHHHHHHTTTSTHHHHHHHHHHTSCCCEEECSCGGGGGGTCCSB
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCCCCCCCccccccchhhheeCCEehhhhhhhhhhhhcceEEeechhhhchhhcccc
Confidence            56799999999999999999997644111111           00                011110  0000     01


Q ss_pred             HHH---------HHHHHHHHhCCCCc---cccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccccc------cccCCCC
Q 045709          210 LEK---------IQESIAKKIGLFNE---SWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVDLD------QVGLPIP  270 (337)
Q Consensus       210 ~~~---------~~~~i~~~l~~~~~---~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~~~------~l~~~l~  270 (337)
                      +.+         ...+++..++....   .....+..+.++. |...|..++=+|+||+.-+..+..      .+...+.
T Consensus       196 v~e~l~~~~~~~~~~~~L~~lgL~~~~~~~~~~LSGGekQRvaIAraL~~~P~lLlLDEPTs~LD~~~~~~l~~~L~~l~  275 (607)
T 3bk7_A          196 VRELLKKVDEVGKFEEVVKELELENVLDRELHQLSGGELQRVAIAAALLRKAHFYFFDEPSSYLDIRQRLKVARVIRRLA  275 (607)
T ss_dssp             HHHHHHHTCCSSCHHHHHHHTTCTTGGGSBGGGCCHHHHHHHHHHHHHHSCCSEEEEECTTTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHcCCCchhCCChhhCCHHHHHHHHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHH
Confidence            211         12456666665421   1234555555443 666777888899999987654321      1211222


Q ss_pred             CCCCCCcEEEEeeCChhHHhhc
Q 045709          271 SRTSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       271 ~~~~g~s~IiiTtr~~~v~~~~  292 (337)
                      .  .| ..||++|++...+..+
T Consensus       276 ~--~g-~tvIivsHdl~~~~~~  294 (607)
T 3bk7_A          276 N--EG-KAVLVVEHDLAVLDYL  294 (607)
T ss_dssp             H--TT-CEEEEECSCHHHHHHH
T ss_pred             h--cC-CEEEEEecChHHHHhh
Confidence            1  25 7899999997765543

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=93.49  E-value=0.04  Score=44.57  Aligned_cols=26  Identities=27%  Similarity=0.314  Sum_probs=21.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...-|.|+|.+|+|||||+..+....
T Consensus        27 ~~~ki~v~G~~~~GKSsli~~l~~~~   52 (199)
T 2p5s_A           27 KAYKIVLAGDAAVGKSSFLMRLCKNE   52 (199)
T ss_dssp             -CEEEEEESSTTSSHHHHHHHHHHCC
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhCC
Confidence            45678999999999999999997654

>1x6v_B Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthethase 1; transferase, ATP sulfurylase, APS kinase, PAPS; HET: ADP; 1.75A {Homo sapiens} SCOP: b.122.1.3 c.26.1.5 c.37.1.4 PDB: 1xjq_B* 1xnj_B* 2qjf_A* 2ofx_A* 2ofw_A*

Probab=93.49  E-value=0.051  Score=52.31  Aligned_cols=26  Identities=31%  Similarity=0.450  Sum_probs=23.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+|.|.|++|+||||+|+.+...+
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L   76 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYL   76 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            56789999999999999999998876

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=93.48  E-value=0.096  Score=46.23  Aligned_cols=25  Identities=36%  Similarity=0.419  Sum_probs=21.0

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++...|.||+||||+|..++...
T Consensus        14 ~~i~v~sgKGGvGKTTvA~~LA~~l   38 (324)
T 3zq6_A           14 TTFVFIGGKGGVGKTTISAATALWM   38 (324)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCchHHHHHHHHHHHH
Confidence            3566777999999999999988776

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=93.46  E-value=0.043  Score=45.27  Aligned_cols=23  Identities=39%  Similarity=0.359  Sum_probs=20.1

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      ..-|.|+|.+|+|||||...+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            35689999999999999999874

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=93.43  E-value=0.043  Score=45.47  Aligned_cols=23  Identities=30%  Similarity=0.359  Sum_probs=19.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.|+|.+|+|||+|+..+.++.
T Consensus        15 KivlvGd~~VGKTsLi~r~~~~~   37 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMYDS   37 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCcCHHHHHHHHHhCC
Confidence            47899999999999999987643

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=93.43  E-value=0.088  Score=51.22  Aligned_cols=62  Identities=18%  Similarity=0.253  Sum_probs=38.6

Q ss_pred             hhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHH
Q 045709          151 LTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIA  218 (337)
Q Consensus       151 ~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  218 (337)
                      ...+.+...|..  ..+..|.|++|+|||+.+..+......  .  ...+.++...+..+..++..+.
T Consensus       193 ~Q~~AV~~al~~--~~~~lI~GPPGTGKT~ti~~~I~~l~~--~--~~~ILv~a~TN~AvD~i~erL~  254 (646)
T 4b3f_X          193 SQKEAVLFALSQ--KELAIIHGPPGTGKTTTVVEIILQAVK--Q--GLKVLCCAPSNIAVDNLVERLA  254 (646)
T ss_dssp             HHHHHHHHHHHC--SSEEEEECCTTSCHHHHHHHHHHHHHH--T--TCCEEEEESSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC--CCceEEECCCCCCHHHHHHHHHHHHHh--C--CCeEEEEcCchHHHHHHHHHHH
Confidence            344556555543  357789999999999755554444422  1  2356777776666666666654

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=93.41  E-value=0.08  Score=48.87  Aligned_cols=43  Identities=30%  Similarity=0.401  Sum_probs=32.6

Q ss_pred             ccchhhHHHHHHHHhcC-----------CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          147 VGLQLTFDRVWRCLMEE-----------HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       147 vGr~~~~~~l~~~L~~~-----------~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.++.++.|.+.+...           ....++|+|.+|+|||||...+....
T Consensus       151 ~gv~~L~~~i~~~l~~~~~~~~~~~~~~~~~kvaivG~~gvGKSTLln~l~g~~  204 (439)
T 1mky_A          151 INLDTMLETIIKKLEEKGLDLESKPEITDAIKVAIVGRPNVGKSTLFNAILNKE  204 (439)
T ss_dssp             BSHHHHHHHHHHHHHHTTCCSSSCCCCCSCEEEEEECSTTSSHHHHHHHHHTST
T ss_pred             CCHHHHHHHHHHhcccccccchhccccccCceEEEECCCCCCHHHHHHHHhCCc
Confidence            46677777777666421           23579999999999999999998754

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=93.39  E-value=0.053  Score=44.61  Aligned_cols=25  Identities=24%  Similarity=0.220  Sum_probs=21.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .--|.|+|.+|+|||||+..+....
T Consensus        27 ~~ki~vvG~~~vGKSsL~~~l~~~~   51 (214)
T 3q3j_B           27 RCKLVLVGDVQCGKTAMLQVLAKDC   51 (214)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCC
Confidence            4568899999999999999997754

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=93.38  E-value=0.042  Score=45.15  Aligned_cols=25  Identities=40%  Similarity=0.465  Sum_probs=20.4

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .--|.|+|.+|+|||||+..+.+..
T Consensus        34 ~~ki~vvG~~~vGKSsli~~l~~~~   58 (214)
T 2j1l_A           34 SVKVVLVGDGGCGKTSLLMVFADGA   58 (214)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHC--
T ss_pred             eEEEEEECcCCCCHHHHHHHHHcCC
Confidence            4568899999999999999987643

>2orv_A Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2'deoxythymidil))tetraphosphate, transferase; HET: 4TA; 2.30A {Homo sapiens} SCOP: c.37.1.24 g.39.1.14

Probab=93.38  E-value=0.082  Score=44.06  Aligned_cols=107  Identities=13%  Similarity=0.074  Sum_probs=52.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC-ccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR-DLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFK  242 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~  242 (337)
                      ...+..++|.-|.||||.+.....+..  .......++-..-+ .+.     ..+...++.........+..+    +.+
T Consensus        18 ~g~l~v~~G~MgsGKTT~lL~~~~r~~--~~g~kvli~kp~~D~Ryg-----~~i~sr~G~~~~a~~i~~~~d----i~~   86 (234)
T 2orv_A           18 RGQIQVILGPMFSGKSTELMRRVRRFQ--IAQYKCLVIKYAKDTRYS-----SSFCTHDRNTMEALPACLLRD----VAQ   86 (234)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHH--TTTCCEEEEEETTCCCC----------------CEEEEESSGGG----GHH
T ss_pred             ceEEEEEECCCCCcHHHHHHHHHHHHH--HCCCeEEEEeecCCccch-----HHHHhhcCCeeEEEecCCHHH----HHH
Confidence            357889999999999987777766662  23344444332222 222     234555544322111112222    222


Q ss_pred             HhcCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCC
Q 045709          243 ILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTRE  285 (337)
Q Consensus       243 ~l~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~  285 (337)
                      .. ++--+|++|++.-.....++...+.+  .| -.||+|-++
T Consensus        87 ~~-~~~dvViIDEaQF~~~v~el~~~l~~--~g-i~VI~~GL~  125 (234)
T 2orv_A           87 EA-LGVAVIGIDEGQFFPDIVEFCEAMAN--AG-KTVIVAALD  125 (234)
T ss_dssp             HH-TTCSEEEESSGGGCTTHHHHHHHHHH--TT-CEEEEECCS
T ss_pred             Hh-ccCCEEEEEchhhhhhHHHHHHHHHh--CC-CEEEEEecc
Confidence            22 23339999998654334443332322  45 688988887

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=93.37  E-value=0.048  Score=45.30  Aligned_cols=26  Identities=23%  Similarity=0.379  Sum_probs=22.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....|.|+|.+|+|||||+..+....
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~~   53 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRAN   53 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            45678999999999999999987653

---

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	337
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	5e-23

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

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]

 Score = 94.5 bits (234), Expect = 5e-23
 Identities = 29/200 (14%), Positives = 64/200 (32%), Gaps = 20/200 (10%)

Query: 141 PLPPTVVGLQLTFDRVWRCLME---EHAGIVGLYGMGGVGKTTLLTQI-NNRFFDTPNHF 196
           P   T    +   DRV + L E     +  + L+G  G GK+ + +Q  +        ++
Sbjct: 17  PKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINY 76

Query: 197 DFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNK--------SMQEKAQEIFKILSKKK 248
           D ++W+  S               + L +E             S+  K      ++ +  
Sbjct: 77  DSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPN 136

Query: 249 FVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCGQM-EAHRSFKVECLRYDD 307
            + + DD+ +   +               + + TTR+  +     +     +V  L  D+
Sbjct: 137 TLFVFDDVVQEETIRWAQEL-------RLRCLVTTRDVEISNAASQTCEFIEVTSLEIDE 189

Query: 308 AWKLFEQKVGADTLDSHPDI 327
            +   E       +    + 
Sbjct: 190 CYDFLEAYGMPMPVGEKEED 209

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	337
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	99.97
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.2
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.09
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.05
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.94
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.9
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.89
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.88
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.86
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.86
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.74
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.7
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.68
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.63
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.63
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.62
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.53
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.48
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.47
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.4
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.39
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.37
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.26
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.93
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.71
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.69
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.66
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.56
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.5
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.49
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.48
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	97.45
d1g2912	240	Maltose transport protein MalK, N-terminal domain	97.43
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.42
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	97.41
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	97.41
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.41
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.39
d1okkd2	207	GTPase domain of the signal recognition particle r	97.37
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.34
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.32
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.32
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.31
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.31
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.28
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.26
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.25
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.25
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.24
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	97.23
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	97.21
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.21
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.19
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.17
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.13
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.13
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.12
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	97.11
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.1
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.08
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.08
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.07
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.07
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.05
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.04
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.02
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.02
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.01
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.99
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.99
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.96
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.92
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.89
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.87
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.87
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.86
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.83
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.81
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.79
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.75
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.74
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.72
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.62
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.62
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.57
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.57
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.54
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.53
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.53
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.52
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.51
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.5
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.48
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.45
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.44
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.43
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.41
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.39
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.39
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	96.35
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.33
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.31
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.3
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.24
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.23
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.14
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.12
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.08
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.07
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.05
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.03
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.01
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	95.99
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.95
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	95.92
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	95.89
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	95.88
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	95.87
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	95.85
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.84
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	95.8
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.77
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.76
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.75
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.75
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.72
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.67
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.62
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.61
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.59
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	95.56
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.52
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	95.38
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	95.36
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.32
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.29
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	95.28
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	95.17
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.16
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	95.15
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	95.12
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	95.12
d1nrjb_	209	Signal recognition particle receptor beta-subunit	95.08
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	95.07
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.06
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	95.05
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.03
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	95.0
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	94.99
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	94.96
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	94.96
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.94
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	94.94
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.93
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.92
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.92
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.92
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	94.91
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	94.91
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.9
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	94.9
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	94.89
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.87
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	94.85
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.85
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	94.84
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.84
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	94.83
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.83
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	94.82
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.81
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.78
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.77
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	94.76
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	94.72
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	94.72
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	94.68
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	94.68
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.67
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.64
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	94.62
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	94.62
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	94.61
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	94.57
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	94.55
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	94.54
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.5
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	94.48
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	94.47
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	94.45
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	94.44
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	94.37
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	94.35
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	94.32
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	94.32
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.31
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.27
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	94.19
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	94.18
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.14
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	94.13
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	94.09
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	94.08
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	94.08
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	94.04
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	94.02
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	93.92
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	93.89
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	93.88
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	93.86
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	93.75
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	93.71
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	93.69
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	93.67
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.61
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	93.59
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	93.52
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	93.37
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	93.29
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	93.25
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	93.17
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	93.05
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	93.03
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	92.54
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.13
d1tuea_	205	Replication protein E1 helicase domain {Human papi	92.07
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	91.76
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	91.37
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	91.24
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	91.14
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	90.98
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	90.85
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	90.47
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	90.32
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	90.26
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	90.07
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	89.0
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	88.6
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	88.57
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	88.29
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	87.99
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	87.96
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	87.94
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	86.22
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	86.13
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	86.0
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	85.81
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	85.75
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	85.59
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	85.58
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	85.12
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	84.95
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	84.56
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	82.74
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	81.95
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	81.69
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	81.64
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	81.46
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	80.05

>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=99.97  E-value=1.6e-31  Score=233.44  Aligned_cols=186  Identities=14%  Similarity=0.102  Sum_probs=144.0

Q ss_pred             CCccccchhhHHHHHHHHhc---CCCeEEEEEecCCCcHHHHHHHHHHhhcc-CCCCCcEEEEEEecCccCHHHHHHHHH
Q 045709          143 PPTVVGLQLTFDRVWRCLME---EHAGIVGLYGMGGVGKTTLLTQINNRFFD-TPNHFDFVIWVVVSRDLQLEKIQESIA  218 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~---~~~~vi~I~G~~GiGKTtLa~~v~~~~~~-~~~~f~~~~wv~~~~~~~~~~~~~~i~  218 (337)
                      .++++||+.++++|+++|..   .+..+|+|+||||+||||||+++|++... ...+|++++|++++..++...+...+.
T Consensus        19 ~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~   98 (277)
T d2a5yb3          19 QMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTD   98 (277)
T ss_dssp             CCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHH
T ss_pred             CCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHHH
Confidence            45688999999999999854   46789999999999999999999998522 467899999999999888777666554


Q ss_pred             HHh---CCCCcc-----ccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhHHh
Q 045709          219 KKI---GLFNES-----WKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGVCG  290 (337)
Q Consensus       219 ~~l---~~~~~~-----~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v~~  290 (337)
                      ..+   +.....     ............+...+.++++|+||||+|+..+|..+.      ..| |+||||||+..++.
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~------~~~-srilvTTR~~~v~~  171 (277)
T d2a5yb3          99 ILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQ------ELR-LRCLVTTRDVEISN  171 (277)
T ss_dssp             HHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHH------HTT-CEEEEEESBGGGGG
T ss_pred             HHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhc------ccC-ceEEEEeehHHHHH
Confidence            433   221110     011223334456778899999999999999998887653      236 99999999999998


Q ss_pred             hccCC-ceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHHHhhcC
Q 045709          291 QMEAH-RSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAETLAKD  337 (337)
Q Consensus       291 ~~~~~-~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~i~~k  337 (337)
                      .+... +.|+|++|+.+|||+||++++|...  .++..++++++|+++
T Consensus       172 ~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~--~~~~~~~~~~~iv~~  217 (277)
T d2a5yb3         172 AASQTCEFIEVTSLEIDECYDFLEAYGMPMP--VGEKEEDVLNKTIEL  217 (277)
T ss_dssp             GCCSCEEEEECCCCCHHHHHHHHHHTSCCCC----CHHHHHHHHHHHH
T ss_pred             hcCCCCceEECCCCCHHHHHHHHHHHhCCcc--CchhhHHHHHHHHHH
Confidence            77554 6799999999999999999998654  345678888888863

>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=99.20  E-value=5.8e-10  Score=94.85  Aligned_cols=170  Identities=14%  Similarity=0.154  Sum_probs=112.4

Q ss_pred             CccccchhhHHHHHHHHhc------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLME------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESI  217 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  217 (337)
                      ..++||+.+++.|..+|..      ...+.+.|+|++|+|||++|+.+++.. .... ....+|+..............+
T Consensus        16 ~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l-~~~~-~~~~~~~~~~~~~~~~~~~~~~   93 (276)
T d1fnna2          16 KRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELY-KDKT-TARFVYINGFIYRNFTAIIGEI   93 (276)
T ss_dssp             SCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHH-TTSC-CCEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHH-hccc-CCcEEEecchhhhhhhhhhhhh
Confidence            4689999999999988853      245789999999999999999999998 2222 2345677777778888888888


Q ss_pred             HHHhCCCCccccCCCHHHHHHHHHHHhc--CCcEEEEEecCCCccc-----cccccCCCCCCCCCCcEEEEeeCChhHHh
Q 045709          218 AKKIGLFNESWKNKSMQEKAQEIFKILS--KKKFVLLLDDIWELVD-----LDQVGLPIPSRTSVSNKVVFTTREFGVCG  290 (337)
Q Consensus       218 ~~~l~~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~-----~~~l~~~l~~~~~g~s~IiiTtr~~~v~~  290 (337)
                      ....+..... ...........+...+.  ....++++|+++....     ...+....+........+|.++.......
T Consensus        94 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~  172 (276)
T d1fnna2          94 ARSLNIPFPR-RGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLN  172 (276)
T ss_dssp             HHHTTCCCCS-SCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHH
T ss_pred             HHhhhhhhhh-hccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCCchhhhh
Confidence            8887665432 34455566666665553  4567788888776422     11121111111112145555665544322


Q ss_pred             hcc-------CCceeecCCCCHHHHHHHHhHhh
Q 045709          291 QME-------AHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       291 ~~~-------~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      .+.       ....+.+.+++.++.++++.+++
T Consensus       173 ~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         173 NLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             TSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             hcchhhhhhhcchhccccchhHHHHHHHHHHHH
Confidence            211       23568899999999999998875

>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=99.09  E-value=3.7e-10  Score=96.31  Aligned_cols=162  Identities=14%  Similarity=0.205  Sum_probs=92.2

Q ss_pred             CCccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEec-----CccCHHHHHHHH
Q 045709          143 PPTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVS-----RDLQLEKIQESI  217 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~-----~~~~~~~~~~~i  217 (337)
                      +..|+||++++++|.+.    ..+++.|+|++|+|||+|++.+.+..   ...+   .|+.+.     .......+...+
T Consensus        11 ~~~f~GR~~el~~l~~~----~~~~i~i~G~~G~GKTsLl~~~~~~~---~~~~---~~i~~~~~~~~~~~~~~~~~~~~   80 (283)
T d2fnaa2          11 RKDFFDREKEIEKLKGL----RAPITLVLGLRRTGKSSIIKIGINEL---NLPY---IYLDLRKFEERNYISYKDFLLEL   80 (283)
T ss_dssp             GGGSCCCHHHHHHHHHT----CSSEEEEEESTTSSHHHHHHHHHHHH---TCCE---EEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             hhhCCChHHHHHHHHhc----cCCEEEEEcCCCCcHHHHHHHHHHHC---CCCe---EEEEeccccccccccHHHHHHHH
Confidence            46799999999998763    45789999999999999999998877   3333   344432     122234444333


Q ss_pred             HHHhC--------------CCC-------------ccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcccc------cc
Q 045709          218 AKKIG--------------LFN-------------ESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDL------DQ  264 (337)
Q Consensus       218 ~~~l~--------------~~~-------------~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~------~~  264 (337)
                      .....              ...             ......+..+..+.+. ...++++++++|++......      ..
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~~~~~~~~i~id~~~~~~~~~~~~~~~~  159 (283)
T d2fnaa2          81 QKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFE-QASKDNVIIVLDEAQELVKLRGVNLLPA  159 (283)
T ss_dssp             HHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHH-HTCSSCEEEEEETGGGGGGCTTCCCHHH
T ss_pred             HHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHH-hhcccccccccchhhhhcccchHHHHHH
Confidence            33221              000             0001122333333222 34578899999998643221      11


Q ss_pred             ccCCCCCCCCCCcEEEEeeCChhHHhhcc------------CCceeecCCCCHHHHHHHHhHhhC
Q 045709          265 VGLPIPSRTSVSNKVVFTTREFGVCGQME------------AHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       265 l~~~l~~~~~g~s~IiiTtr~~~v~~~~~------------~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      +.... ..... ...+++.+.......+.            ....+.|.+|+.+++.+++.+.+.
T Consensus       160 l~~~~-~~~~~-~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~  222 (283)
T d2fnaa2         160 LAYAY-DNLKR-IKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQ  222 (283)
T ss_dssp             HHHHH-HHCTT-EEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHH
T ss_pred             HHHHH-Hhhhh-hhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhh
Confidence            11111 11233 45566655543321110            124678999999999999988764

>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=99.05  E-value=2e-09  Score=90.86  Aligned_cols=154  Identities=16%  Similarity=0.246  Sum_probs=101.2

Q ss_pred             ccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCC--C-CCcEEEE-EEecCccCHHHHHHHHHHH
Q 045709          145 TVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTP--N-HFDFVIW-VVVSRDLQLEKIQESIAKK  220 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--~-~f~~~~w-v~~~~~~~~~~~~~~i~~~  220 (337)
                      .++||+++++++...|.......+.++|.+|+|||+++..++.......  . .....+| ++.+.      ++      
T Consensus        19 ~~igRd~Ei~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~------li------   86 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGS------LL------   86 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---------------
T ss_pred             cccChHHHHHHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeech------Hh------
Confidence            3799999999999999877677788999999999999999988763211  1 1223444 32221      10      


Q ss_pred             hCCCCccccCCCHHHHHHHHHHHh-cCCcEEEEEecCCCcc----------ccccccCCCCCCCCCCcEEEEeeCChhHH
Q 045709          221 IGLFNESWKNKSMQEKAQEIFKIL-SKKKFVLLLDDIWELV----------DLDQVGLPIPSRTSVSNKVVFTTREFGVC  289 (337)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~----------~~~~l~~~l~~~~~g~s~IiiTtr~~~v~  289 (337)
                       ....   .....++....+...+ ..++.+|++|++...-          +...+..|...  .|.-++|.||..++..
T Consensus        87 -ag~~---~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~--rg~i~vIgatT~eey~  160 (268)
T d1r6bx2          87 -AGTK---YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTTYQEFS  160 (268)
T ss_dssp             -CCCC---CSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEEECHHHHH
T ss_pred             -ccCc---cchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh--CCCCeEEEeCCHHHHH
Confidence             0000   2334566666655555 4567899999987651          22333333222  3336899899887776


Q ss_pred             hhccC-------CceeecCCCCHHHHHHHHhHhh
Q 045709          290 GQMEA-------HRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       290 ~~~~~-------~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      .....       ...+++++++.+++..++....
T Consensus       161 ~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         161 NIFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             CCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence            54432       2578999999999999997654

>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=98.94  E-value=1.9e-09  Score=89.41  Aligned_cols=157  Identities=15%  Similarity=0.195  Sum_probs=96.0

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCc-EEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFD-FVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.++.++.|.+++.+...+.+.++|++|+||||+|+.+++...  ...+. .+.-.+.+...........+.....
T Consensus        14 ~divg~~~~~~~L~~~i~~~~~~~lLl~Gp~G~GKttl~~~la~~l~--~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~   91 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIY--GKNYSNMVLELNASDDRGIDVVRNQIKDFAS   91 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTCCCCEEEECSSSSSHHHHHHHHHHHHH--TTSHHHHEEEECTTSCCSHHHHHTHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChhHHHHHHHHHhh--cCCCcceeEEecccccCCeeeeecchhhccc
Confidence            46899999999999999887776688999999999999999999862  12222 2222333333222222111111110


Q ss_pred             CCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc--cccccCCCCCCCCCCcEEEEeeCChh-HHh-hccCCcee
Q 045709          223 LFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD--LDQVGLPIPSRTSVSNKVVFTTREFG-VCG-QMEAHRSF  298 (337)
Q Consensus       223 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~--~~~l~~~l~~~~~g~s~IiiTtr~~~-v~~-~~~~~~~~  298 (337)
                      ..                 ....++.-++|+|+++....  ...+...+...... +.++++|.... +.. .......+
T Consensus        92 ~~-----------------~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~-~~~~~~~~~~~~i~~~i~sr~~~i  153 (227)
T d1sxjc2          92 TR-----------------QIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKN-TRFCVLANYAHKLTPALLSQCTRF  153 (227)
T ss_dssp             BC-----------------CSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTT-EEEEEEESCGGGSCHHHHTTSEEE
T ss_pred             cc-----------------cccCCCeEEEEEeccccchhhHHHHHHHHhhhcccc-eeeccccCcHHHhHHHHHHHHhhh
Confidence            00                 00123455889999976522  22222223233345 78888877643 222 12344678


Q ss_pred             ecCCCCHHHHHHHHhHhhCCCC
Q 045709          299 KVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       299 ~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      .+.+++.++-..++.+.+....
T Consensus       154 ~~~~~~~~~i~~~l~~I~~~e~  175 (227)
T d1sxjc2         154 RFQPLPQEAIERRIANVLVHEK  175 (227)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTT
T ss_pred             cccccccccccccccccccccc
Confidence            9999999999999988775544

>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=98.90  E-value=3.9e-10  Score=94.20  Aligned_cols=169  Identities=11%  Similarity=0.134  Sum_probs=98.4

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGL  223 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  223 (337)
                      .+++|.++.++.|..++.+...+.+.++|++|+||||+++.+++...............+.+.......+...+-.....
T Consensus        12 ~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARL   91 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTTCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHHHS
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheeccccccchHHHHHHHHHhhh
Confidence            45899999999999999887777789999999999999999988752111112233444444444443333322222111


Q ss_pred             CCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCChh-HH-hhccCCceee
Q 045709          224 FNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREFG-VC-GQMEAHRSFK  299 (337)
Q Consensus       224 ~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~~-v~-~~~~~~~~~~  299 (337)
                      ..   .....    ..+......+.-++|+|+++...  .+..+...+...... +.+++|+.+.. +. ...+....++
T Consensus        92 ~~---~~~~~----~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~-~~~i~~~~~~~~~~~~l~sr~~~i~  163 (237)
T d1sxjd2          92 TV---SKPSK----HDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGV-TRFCLICNYVTRIIDPLASQCSKFR  163 (237)
T ss_dssp             CC---CCCCT----THHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTT-EEEEEEESCGGGSCHHHHHHSEEEE
T ss_pred             hh---hhhhH----HHHhhccccCceEEEEecccccCHHHHHHHhhcccccccc-ccccccccccccccccccchhhhhc
Confidence            11   00000    11112223344479999997652  222222222222334 67777766532 21 1112236789


Q ss_pred             cCCCCHHHHHHHHhHhhCCCC
Q 045709          300 VECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       300 l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      +++++.++...++.+.+....
T Consensus       164 f~~~~~~~~~~~L~~i~~~e~  184 (237)
T d1sxjd2         164 FKALDASNAIDRLRFISEQEN  184 (237)
T ss_dssp             CCCCCHHHHHHHHHHHHHTTT
T ss_pred             cccccccccchhhhhhhhhhc
Confidence            999999999999998876544

>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=98.89  E-value=2.7e-08  Score=84.66  Aligned_cols=172  Identities=15%  Similarity=0.166  Sum_probs=107.8

Q ss_pred             CCccccchhhHHHHHHHHhc----C-C----CeEEEEEecCCCcHHHHHHHHHHhhcc---CCCCCcEEEEEEecCccCH
Q 045709          143 PPTVVGLQLTFDRVWRCLME----E-H----AGIVGLYGMGGVGKTTLLTQINNRFFD---TPNHFDFVIWVVVSRDLQL  210 (337)
Q Consensus       143 ~~~~vGr~~~~~~l~~~L~~----~-~----~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~~~f~~~~wv~~~~~~~~  210 (337)
                      |+.++||+.+++.|.+++..    + .    ..++.++|++|+|||++++.+++....   .........++++....+.
T Consensus        15 P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~   94 (287)
T d1w5sa2          15 PPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNL   94 (287)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccch
Confidence            46789999999999887632    1 1    224567899999999999999987621   1122345677888888788


Q ss_pred             HHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHh--cCCcEEEEEecCCCccc-----------cccc---cCCCCCCCC
Q 045709          211 EKIQESIAKKIGLFNESWKNKSMQEKAQEIFKIL--SKKKFVLLLDDIWELVD-----------LDQV---GLPIPSRTS  274 (337)
Q Consensus       211 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~~~~-----------~~~l---~~~l~~~~~  274 (337)
                      ......+...++..... ...........+....  .+...++++|.++....           +..+   ...+.....
T Consensus        95 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~  173 (287)
T d1w5sa2          95 YTILSLIVRQTGYPIQV-RGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNR  173 (287)
T ss_dssp             HHHHHHHHHHHTCCCCC-TTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCB
T ss_pred             hhHHHHHhhhccccccc-ccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcchhhcccc
Confidence            88888888887654432 3445555566665555  35667888888764311           1111   111111122


Q ss_pred             CCcEEEEeeCChhHHh------h--ccCCceeecCCCCHHHHHHHHhHhh
Q 045709          275 VSNKVVFTTREFGVCG------Q--MEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       275 g~s~IiiTtr~~~v~~------~--~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      . ..|++++.......      .  ......+.+++++.++..+++..++
T Consensus       174 ~-~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~  222 (287)
T d1w5sa2         174 I-GFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRA  222 (287)
T ss_dssp             E-EEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHH
T ss_pred             e-eEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhH
Confidence            2 23444444432211      1  1124578999999999999999876

>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=98.88  E-value=3.6e-09  Score=87.58  Aligned_cols=157  Identities=16%  Similarity=0.181  Sum_probs=96.5

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGL  223 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  223 (337)
                      .+++|.++.++.|.+++.+...+.+.++|++|+||||+|+.+++... ....-..+.-++.+.......+...+......
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~la~~l~-~~~~~~~~~~~n~~~~~~~~~i~~~~~~~~~~   93 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELL-GRSYADGVLELNASDDRGIDVVRNQIKHFAQK   93 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCCCCCEEEECSTTSSHHHHHHHHHHHHH-GGGHHHHEEEECTTSCCSHHHHHTHHHHHHHB
T ss_pred             HHhcCCHHHHHHHHHHHHcCCCCeEEEECCCCCCchhhHHHHHHHHh-ccccccccccccccccCCceehhhHHHHHHHh
Confidence            46899999999999999888777788999999999999999988762 11111123344444444443333322222211


Q ss_pred             CCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc--cccccCCCCCCCCCCcEEEEeeCChh-HHhh-ccCCceee
Q 045709          224 FNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD--LDQVGLPIPSRTSVSNKVVFTTREFG-VCGQ-MEAHRSFK  299 (337)
Q Consensus       224 ~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~--~~~l~~~l~~~~~g~s~IiiTtr~~~-v~~~-~~~~~~~~  299 (337)
                      ...                ...++.-++|+|+++....  ...++..+...... ++++++|.+.. +... .+....++
T Consensus        94 ~~~----------------~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~-~~~i~~~~~~~~i~~~l~sr~~~i~  156 (224)
T d1sxjb2          94 KLH----------------LPPGKHKIVILDEADSMTAGAQQALRRTMELYSNS-TRFAFACNQSNKIIEPLQSQCAILR  156 (224)
T ss_dssp             CCC----------------CCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTT-EEEEEEESCGGGSCHHHHTTSEEEE
T ss_pred             hcc----------------CCCcceEEEEEecccccchhHHHHHhhhccccccc-eeeeeccCchhhhhhHHHHHHHHhh
Confidence            100                0023556889999986522  22222222222334 67777766533 2222 23446789


Q ss_pred             cCCCCHHHHHHHHhHhhCC
Q 045709          300 VECLRYDDAWKLFEQKVGA  318 (337)
Q Consensus       300 l~~L~~~ea~~Lf~~~~~~  318 (337)
                      +++++.++-...+.+.+..
T Consensus       157 ~~~~~~~~i~~~l~~i~~~  175 (224)
T d1sxjb2         157 YSKLSDEDVLKRLLQIIKL  175 (224)
T ss_dssp             CCCCCHHHHHHHHHHHHHH
T ss_pred             hcccchhhhHHHHHHHHHh
Confidence            9999999999999887743

>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=98.86  E-value=5.5e-09  Score=83.41  Aligned_cols=150  Identities=15%  Similarity=0.191  Sum_probs=92.0

Q ss_pred             ccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCC--C-CCcEEEEEEecCccCHHHHHHHHHHHh
Q 045709          145 TVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTP--N-HFDFVIWVVVSRDLQLEKIQESIAKKI  221 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--~-~f~~~~wv~~~~~~~~~~~~~~i~~~l  221 (337)
                      .++||+++++++...|......-+.++|.+|+|||+++..++.+.....  . ..+..+|.-     +...++    .  
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~l-----d~~~Li----A--   91 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL-----DMGALV----A--   91 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEE-----CHHHHH----T--
T ss_pred             CCcCcHHHHHHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEe-----eHHHHh----c--
Confidence            3799999999999999877777888999999999999999888663211  1 122334421     222221    1  


Q ss_pred             CCCCccccCCCHHHHHHHHHHHh-c-CCcEEEEEecCCCcc---------ccccc-cCCCCCCCCCCcEEEEeeCChhHH
Q 045709          222 GLFNESWKNKSMQEKAQEIFKIL-S-KKKFVLLLDDIWELV---------DLDQV-GLPIPSRTSVSNKVVFTTREFGVC  289 (337)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~l~~~l-~-~k~~LlVlDdv~~~~---------~~~~l-~~~l~~~~~g~s~IiiTtr~~~v~  289 (337)
                       ...   .....++....+...+ . ..+.+|++|++...-         +...+ ...+.   .|.-++|.||..++..
T Consensus        92 -g~~---~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~---rg~l~~IgatT~eey~  164 (195)
T d1jbka_          92 -GAK---YRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA---RGELHCVGATTLDEYR  164 (195)
T ss_dssp             -TTC---SHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH---TTSCCEEEEECHHHHH
T ss_pred             -cCC---ccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh---CCCceEEecCCHHHHH
Confidence             000   0112344444444443 2 457999999997641         12222 22222   2336788888776655


Q ss_pred             hhccC-------CceeecCCCCHHHHHHHH
Q 045709          290 GQMEA-------HRSFKVECLRYDDAWKLF  312 (337)
Q Consensus       290 ~~~~~-------~~~~~l~~L~~~ea~~Lf  312 (337)
                      ..+..       ...+.+++.+.+++..++
T Consensus       165 ~~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         165 QYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence            44332       367899999999887654

>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=98.86  E-value=2.4e-09  Score=89.02  Aligned_cols=157  Identities=15%  Similarity=0.146  Sum_probs=94.4

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCc-EEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFD-FVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.++.++.|..++.+...+.+.++|++|+||||+|+.+++...  ...+. ..+-++.+.......+...+.....
T Consensus        24 ~diig~~~~~~~l~~~i~~~~~~~lll~Gp~G~GKTtla~~iak~l~--~~~~~~~~~e~n~s~~~~~~~~~~~~~~~~~  101 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELF--GENWRHNFLELNASDERGINVIREKVKEFAR  101 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHTCCCEEEEESCTTSSHHHHHHHHHHHHH--GGGHHHHEEEEETTCHHHHHTTHHHHHHHHH
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCeEEEECCCCCcHHHHHHHHHHHHH--hcccCCCeeEEecCcccchhHHHHHHHHHHh
Confidence            46899999999999999988888899999999999999999988762  11222 1222333332111111111111110


Q ss_pred             CCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEeeCChh-HHhhc-cCCcee
Q 045709          223 LFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTTREFG-VCGQM-EAHRSF  298 (337)
Q Consensus       223 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTtr~~~-v~~~~-~~~~~~  298 (337)
                      ..                 .....+..++++||++..  ..+..+...+...... ..+|+||.... +...+ +....+
T Consensus       102 ~~-----------------~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~-~~~i~~~n~~~~i~~~l~sR~~~i  163 (231)
T d1iqpa2         102 TK-----------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSN-VRFILSCNYSSKIIEPIQSRCAIF  163 (231)
T ss_dssp             SC-----------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTT-EEEEEEESCGGGSCHHHHHTEEEE
T ss_pred             hh-----------------hccCCCceEEeehhhhhcchhHHHHHhhhcccCCcc-eEEEeccCChhhchHhHhCccccc
Confidence            00                 011246778999999754  2233332222222233 56666665433 22221 233678


Q ss_pred             ecCCCCHHHHHHHHhHhhCCCC
Q 045709          299 KVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       299 ~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      .+.+.+.++....+.+.+....
T Consensus       164 ~~~~~~~~~~~~~l~~~~~~e~  185 (231)
T d1iqpa2         164 RFRPLRDEDIAKRLRYIAENEG  185 (231)
T ss_dssp             ECCCCCHHHHHHHHHHHHHTTT
T ss_pred             cccccchhhHHHHHHHHHHHhC
Confidence            9999999999999988875544

>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=98.74  E-value=6.8e-08  Score=80.50  Aligned_cols=164  Identities=12%  Similarity=0.123  Sum_probs=92.1

Q ss_pred             CccccchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          144 PTVVGLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      .+++|.++.++.|..++.+.+ .+.+.|+|++|+||||+|+.+.+.... ......       ...........+...-.
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~-~~~~~~-------~~~~~~~~~~~i~~~~~   83 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNC-ETGITA-------TPCGVCDNCREIEQGRF   83 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTCCCSEEEEECSTTSSHHHHHHHHHHHHHC-TTCSCS-------SCCSCSHHHHHHHHTCC
T ss_pred             HHccChHHHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcC-cccccc-------CccccchHHHHHHcCCC
Confidence            458999999999999998765 456889999999999999999887621 111110       00011111111221110


Q ss_pred             CCC---ccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCChh-HHhh
Q 045709          223 LFN---ESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREFG-VCGQ  291 (337)
Q Consensus       223 ~~~---~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~~-v~~~  291 (337)
                      ...   ........+. .+.+.+.+     .++.-++|||+++...  ....++..+...... +.+|++|.+.. +...
T Consensus        84 ~~~~~~~~~~~~~i~~-ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~-~~~il~tn~~~~i~~~  161 (239)
T d1njfa_          84 VDLIEIDAASRTKVED-TRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEH-VKFLLATTDPQKLPVT  161 (239)
T ss_dssp             TTEEEEETTCSSSHHH-HHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTT-EEEEEEESCGGGSCHH
T ss_pred             CeEEEecchhcCCHHH-HHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCC-eEEEEEcCCccccChh
Confidence            000   0000111222 12222222     2455699999998752  222333333222345 78888877643 2222


Q ss_pred             c-cCCceeecCCCCHHHHHHHHhHhhC
Q 045709          292 M-EAHRSFKVECLRYDDAWKLFEQKVG  317 (337)
Q Consensus       292 ~-~~~~~~~l~~L~~~ea~~Lf~~~~~  317 (337)
                      + +....+.+.+++.++-...+...+.
T Consensus       162 i~SRc~~i~~~~~~~~~i~~~l~~i~~  188 (239)
T d1njfa_         162 ILSRCLQFHLKALDVEQIRHQLEHILN  188 (239)
T ss_dssp             HHTTSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             HhhhhcccccccCcHHHhhhHHHHHHh
Confidence            2 2346789999999999888887764

>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=98.70  E-value=1.3e-07  Score=78.96  Aligned_cols=164  Identities=15%  Similarity=0.183  Sum_probs=92.6

Q ss_pred             CccccchhhHHHHHHHH---hc---------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCL---ME---------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|-++.++.|.+.+   ..         ...+-+.++|++|+|||+||+.+++..   ..+|   +.++.      .
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~---~~~~---~~i~~------~   76 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA---RVPF---ITASG------S   76 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT---TCCE---EEEEH------H
T ss_pred             HHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHc---CCCE---EEEEh------H
Confidence            35789888776665433   21         234568999999999999999999877   2222   22222      1


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHH-hcCCcEEEEEecCCCcc----------------ccccccCCCC--CC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKI-LSKKKFVLLLDDIWELV----------------DLDQVGLPIP--SR  272 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~----------------~~~~l~~~l~--~~  272 (337)
                      .+.    ...       ... .+.....+.+. -...+++|+|||++...                .+..+...+.  ..
T Consensus        77 ~l~----~~~-------~g~-~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~  144 (247)
T d1ixza_          77 DFV----EMF-------VGV-GAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK  144 (247)
T ss_dssp             HHH----HSC-------TTH-HHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCT
T ss_pred             Hhh----hcc-------ccH-HHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCC
Confidence            221    100       111 12222333333 34678999999986421                0111211111  11


Q ss_pred             CCCCcEEEEeeCChhHH-hhc----cCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHH
Q 045709          273 TSVSNKVVFTTREFGVC-GQM----EAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAE  332 (337)
Q Consensus       273 ~~g~s~IiiTtr~~~v~-~~~----~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~  332 (337)
                      ..+ .-||-||....-. ..+    .-...+.+++.+.++-.++|+.+........+.++..+++
T Consensus       145 ~~~-vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~~~~la~  208 (247)
T d1ixza_         145 DTA-IVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAK  208 (247)
T ss_dssp             TCC-EEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHHH
T ss_pred             CCC-EEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccCHHHHHH
Confidence            122 2333466654332 222    1346889999999999999998886544344556766665

>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=98.68  E-value=1.5e-08  Score=85.06  Aligned_cols=164  Identities=10%  Similarity=0.084  Sum_probs=83.4

Q ss_pred             CccccchhhHHHHHHHHhcC-CCeEEEEEecCCCcHHHHHHHHHHhhccC---CCCCcEEEEEEecCc------------
Q 045709          144 PTVVGLQLTFDRVWRCLMEE-HAGIVGLYGMGGVGKTTLLTQINNRFFDT---PNHFDFVIWVVVSRD------------  207 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~-~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~~~~~------------  207 (337)
                      .+++|.++..+.|.+++... ..+.+.|+|++|+||||+|+.+++.....   ....+...|......            
T Consensus        11 ~diig~~~~~~~L~~~~~~~~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYH   90 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTTCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCEECSSE
T ss_pred             HHccCcHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhccCCcc
Confidence            45899999888888887654 45567899999999999999999876211   111111111111000            


Q ss_pred             ---------cCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCc--cccccccCCCCCCCCCC
Q 045709          208 ---------LQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVS  276 (337)
Q Consensus       208 ---------~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~  276 (337)
                               ...................    .    ....-......+.-++|||+++..  ..+..+...+...... 
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~----~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~~-  161 (252)
T d1sxje2          91 LEITPSDMGNNDRIVIQELLKEVAQMEQ----V----DFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKN-  161 (252)
T ss_dssp             EEECCC----CCHHHHHHHHHHHTTTTC--------------------CCEEEEEECTTSSCHHHHHHHHHHHHHSTTT-
T ss_pred             ceeeecccccCCcceeeehhhhhhhhhh----h----hhhhcccccCCCceEEEeccccccccccchhhhccccccccc-
Confidence                     0001111111111110000    0    000000111234458899999875  2223232222222344 


Q ss_pred             cEEEEeeCChh-HHhh-ccCCceeecCCCCHHHHHHHHhHhh
Q 045709          277 NKVVFTTREFG-VCGQ-MEAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       277 s~IiiTtr~~~-v~~~-~~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      +++|+||.+.+ +... .+....+++.+++.++..+++.+.+
T Consensus       162 ~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~  203 (252)
T d1sxje2         162 IRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVV  203 (252)
T ss_dssp             EEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHH
T ss_pred             ccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHH
Confidence            77788776543 2111 1223578999999999999997765

>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=98.63  E-value=3.9e-07  Score=76.66  Aligned_cols=165  Identities=13%  Similarity=0.139  Sum_probs=96.8

Q ss_pred             ccccchhhHHHHHHHH----hc---------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          145 TVVGLQLTFDRVWRCL----ME---------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L----~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      ++.|.++.++.|.+.+    ..         ...+-+.++|++|+|||++|+.+++..   ..+|   +.++.      .
T Consensus         5 dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~---~~~~---~~i~~------~   72 (258)
T d1e32a2           5 DVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANET---GAFF---FLING------P   72 (258)
T ss_dssp             GCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHT---TCEE---EEECH------H
T ss_pred             hhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHh---CCeE---EEEEc------h
Confidence            4789888888887764    21         235678999999999999999999877   2332   22211      1


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc-------------cccccCCC--CCCCCCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD-------------LDQVGLPI--PSRTSVS  276 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-------------~~~l~~~l--~~~~~g~  276 (337)
                      .+.        ..   +...........+...-...+++|+|||++....             ...+...+  .....+ 
T Consensus        73 ~l~--------~~---~~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~-  140 (258)
T d1e32a2          73 EIM--------SK---LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH-  140 (258)
T ss_dssp             HHT--------TS---CTTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSC-
T ss_pred             hhc--------cc---ccccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCC-
Confidence            110        00   0111112222223333357899999999986411             11111111  122223 


Q ss_pred             cEEEEeeCChhHHh-hc----cCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHHH
Q 045709          277 NKVVFTTREFGVCG-QM----EAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAET  333 (337)
Q Consensus       277 s~IiiTtr~~~v~~-~~----~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~  333 (337)
                      .-||.||....-.. .+    .-...++++..+.++-..+|...........+.++..+++.
T Consensus       141 vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~  202 (258)
T d1e32a2         141 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANE  202 (258)
T ss_dssp             EEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCCHHHHHHH
T ss_pred             ccEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCcccccccchhhhhhc
Confidence            45566887654422 11    13468899999999999999988755443445567777654

>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=98.63  E-value=1.3e-07  Score=83.86  Aligned_cols=151  Identities=15%  Similarity=0.221  Sum_probs=89.7

Q ss_pred             cccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhcc--CC-CCCcEEEE-EEecCccCHHHHHHHHHHHh
Q 045709          146 VVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFD--TP-NHFDFVIW-VVVSRDLQLEKIQESIAKKI  221 (337)
Q Consensus       146 ~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~--~~-~~f~~~~w-v~~~~~~~~~~~~~~i~~~l  221 (337)
                      ++||+.++++++..|.......+.++|.+|+|||+++..++.+...  +. .-.+..+| ++++.      ++    ...
T Consensus        24 ~~gr~~ei~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~------l~----ag~   93 (387)
T d1qvra2          24 VIGRDEEIRRVIQILLRRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGS------LL----AGA   93 (387)
T ss_dssp             CCSCHHHHHHHHHHHHCSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------------
T ss_pred             CcCcHHHHHHHHHHHhcCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhh------hh----ccc
Confidence            7999999999999998766666788999999999998877765421  11 12334444 33321      11    100


Q ss_pred             CCCCccccCCCHHHHHHHHHHHh-c-CCcEEEEEecCCCcc---------ccccc-cCCCCCCCCCCcEEEEeeCChhHH
Q 045709          222 GLFNESWKNKSMQEKAQEIFKIL-S-KKKFVLLLDDIWELV---------DLDQV-GLPIPSRTSVSNKVVFTTREFGVC  289 (337)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~l~~~l-~-~k~~LlVlDdv~~~~---------~~~~l-~~~l~~~~~g~s~IiiTtr~~~v~  289 (337)
                      .      .....++....+...+ . ..+++|++|++...-         +...+ .++|.   .|.-++|-+|...+..
T Consensus        94 ~------~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~---rg~~~~I~~tT~~ey~  164 (387)
T d1qvra2          94 K------YRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA---RGELRLIGATTLDEYR  164 (387)
T ss_dssp             ----------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH---TTCCCEEEEECHHHHH
T ss_pred             C------cchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHh---CCCcceeeecCHHHHH
Confidence            0      1123445555554444 3 347899999998651         12222 22222   2325777777766653


Q ss_pred             hhcc-------CCceeecCCCCHHHHHHHHhHhh
Q 045709          290 GQME-------AHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       290 ~~~~-------~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                      . +.       ....+.+++.+.+++..++....
T Consensus       165 ~-~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         165 E-IEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             H-HTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             H-hcccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence            2 22       24688999999999999998654

>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=98.62  E-value=6e-07  Score=75.19  Aligned_cols=165  Identities=16%  Similarity=0.108  Sum_probs=95.8

Q ss_pred             CccccchhhHHHHHHHH---hc---------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHH
Q 045709          144 PTVVGLQLTFDRVWRCL---ME---------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L---~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~  211 (337)
                      .+++|.++.+++|.+.+   ..         ...+.+.++|++|+|||++|+.+++..   ..+|   +.++.+.-.+  
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~---~~~~---~~i~~~~l~~--   83 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA---KVPF---FTISGSDFVE--   83 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH---TCCE---EEECSCSSTT--
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHc---CCCE---EEEEhHHhhh--
Confidence            46789988887775543   21         235668899999999999999999887   2222   2222222110  


Q ss_pred             HHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcc------------c----cccccCCCC--CCC
Q 045709          212 KIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELV------------D----LDQVGLPIP--SRT  273 (337)
Q Consensus       212 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~------------~----~~~l~~~l~--~~~  273 (337)
                                     .+...+...+.+.+...-...+++|+|||++...            .    +..+...+.  ...
T Consensus        84 ---------------~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~  148 (256)
T d1lv7a_          84 ---------------MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN  148 (256)
T ss_dssp             ---------------SCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSS
T ss_pred             ---------------cchhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCC
Confidence                           0112223333333333445678999999996421            0    111211111  122


Q ss_pred             CCCcEEEEeeCChhHH-hhc----cCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHH
Q 045709          274 SVSNKVVFTTREFGVC-GQM----EAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAE  332 (337)
Q Consensus       274 ~g~s~IiiTtr~~~v~-~~~----~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~  332 (337)
                      .+ --||-||...... ..+    .-.+.+.+++.+.++-.++|+.+........+.++..+++
T Consensus       149 ~~-v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~  211 (256)
T d1lv7a_         149 EG-IIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIAR  211 (256)
T ss_dssp             SC-EEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHH
T ss_pred             CC-EEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcccCHHHHHH
Confidence            23 3455577764432 222    1346889999999999999998875544344556666655

>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=98.53  E-value=2.1e-07  Score=75.91  Aligned_cols=153  Identities=18%  Similarity=0.194  Sum_probs=88.9

Q ss_pred             ccccchhh--HHHHHHHHhcC--CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHH
Q 045709          145 TVVGLQLT--FDRVWRCLMEE--HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKK  220 (337)
Q Consensus       145 ~~vGr~~~--~~~l~~~L~~~--~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  220 (337)
                      .++|....  ...+.++....  ....+.|+|.+|+|||.|++.+++...   .....+++++.      .++...+...
T Consensus        12 F~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~---~~~~~~~~~~~------~~~~~~~~~~   82 (213)
T d1l8qa2          12 FIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAK---KRGYRVIYSSA------DDFAQAMVEH   82 (213)
T ss_dssp             CCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHH---HTTCCEEEEEH------HHHHHHHHHH
T ss_pred             ccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhc---cCccceEEech------HHHHHHHHHH
Confidence            34565333  23334444332  234478999999999999999999883   33345566543      3444444444


Q ss_pred             hCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCc---cccccc-cCCCCC-CCCCCcEEEEeeCChh--------
Q 045709          221 IGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWEL---VDLDQV-GLPIPS-RTSVSNKVVFTTREFG--------  287 (337)
Q Consensus       221 l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~---~~~~~l-~~~l~~-~~~g~s~IiiTtr~~~--------  287 (337)
                      +...       ...    .+.+.+. .--+|+|||++..   ..|+.. ...+.. ...| ..||+||+...        
T Consensus        83 ~~~~-------~~~----~~~~~~~-~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~-~~iiits~~~p~~l~~~~~  149 (213)
T d1l8qa2          83 LKKG-------TIN----EFRNMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLE-KQIILASDRHPQKLDGVSD  149 (213)
T ss_dssp             HHHT-------CHH----HHHHHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTT-CEEEEEESSCGGGCTTSCH
T ss_pred             HHcc-------chh----hHHHHHh-hccchhhhhhhhhcCchHHHHHHHHHHHHHhhcc-ceEEEecCCcchhccccch
Confidence            3211       111    2222232 3458999999754   234332 111111 1245 79999998633        


Q ss_pred             -HHhhccCCceeecCCCCHHHHHHHHhHhhCCCC
Q 045709          288 -VCGQMEAHRSFKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       288 -v~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                       +.+.+....++.++ ++.++-.+++++++-...
T Consensus       150 dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a~~rg  182 (213)
T d1l8qa2         150 RLVSRFEGGILVEIE-LDNKTRFKIIKEKLKEFN  182 (213)
T ss_dssp             HHHHHHHTSEEEECC-CCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHhhCceEEEEC-CCcHHHHHHHHHHHHHcC
Confidence             34445566788886 588888889988885443

>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=98.48  E-value=1.3e-07  Score=79.20  Aligned_cols=175  Identities=13%  Similarity=0.057  Sum_probs=94.9

Q ss_pred             CccccchhhHHHHHHHHhc-----------------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          144 PTVVGLQLTFDRVWRCLME-----------------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-----------------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      .+++|.+..+++|.++|..                 ...+.+.++|++|+||||+|+.+++..   .  + ..++++.+.
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~---~--~-~~~~~~~~~   87 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL---G--Y-DILEQNASD   87 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT---T--C-EEEEECTTS
T ss_pred             HHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHH---H--h-hhhcccccc
Confidence            4689999999999998853                 134679999999999999999999987   2  2 244565555


Q ss_pred             ccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc-----cccccCCCCCCCCCCcEEEE
Q 045709          207 DLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD-----LDQVGLPIPSRTSVSNKVVF  281 (337)
Q Consensus       207 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-----~~~l~~~l~~~~~g~s~Iii  281 (337)
                      ..+...+. ..................    ........++..++++|+++....     +..+......  .. ..+++
T Consensus        88 ~~~~~~~~-~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~--~~-~~ii~  159 (253)
T d1sxja2          88 VRSKTLLN-AGVKNALDNMSVVGYFKH----NEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TS-TPLIL  159 (253)
T ss_dssp             CCCHHHHH-HTGGGGTTBCCSTTTTTC--------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CS-SCEEE
T ss_pred             chhhHHHH-HHHHHHhhcchhhhhhhh----hhhcccccccceEEEeeeccccccchhhhhHHHhhhhcc--cc-ccccc
Confidence            44433322 222211111100000000    001112235677889999875422     1122111111  11 24444


Q ss_pred             eeCC--hh-HHhhccCCceeecCCCCHHHHHHHHhHhhCCCCCCC-CCChHHHHH
Q 045709          282 TTRE--FG-VCGQMEAHRSFKVECLRYDDAWKLFEQKVGADTLDS-HPDIPELAE  332 (337)
Q Consensus       282 Ttr~--~~-v~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~-~~~l~~i~~  332 (337)
                      |+..  .. +.........+++.+++.++-...+...+....... +..+.+|++
T Consensus       160 i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~~~l~~i~~  214 (253)
T d1sxja2         160 ICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQ  214 (253)
T ss_dssp             EESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHH
T ss_pred             ccccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCCHHHHHHHHH
Confidence            4332  22 222223346899999999999999888663322122 233555544

>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=98.47  E-value=2.2e-06  Score=70.86  Aligned_cols=145  Identities=16%  Similarity=0.131  Sum_probs=82.9

Q ss_pred             CccccchhhHHHHHHHHhc-----CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLME-----EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIA  218 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  218 (337)
                      .+++|.++.++.|..++..     ...+-+.++|++|+||||+|+.+++..   ...|   ..++.+.......+ ..++
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~---~~~~---~~~~~~~~~~~~~~-~~~~   81 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL---QTNI---HVTSGPVLVKQGDM-AAIL   81 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHH---TCCE---EEEETTTCCSHHHH-HHHH
T ss_pred             HHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhcc---CCCc---ccccCcccccHHHH-HHHH
Confidence            4689999999999888753     235668899999999999999999988   3332   22333332222221 1111


Q ss_pred             HHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc---------ccccc-----------CCCCCCCCCCcE
Q 045709          219 KKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD---------LDQVG-----------LPIPSRTSVSNK  278 (337)
Q Consensus       219 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~---------~~~l~-----------~~l~~~~~g~s~  278 (337)
                      ..                        .+++..+++|+++....         .+...           ..+....+. ..
T Consensus        82 ~~------------------------~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~  136 (238)
T d1in4a2          82 TS------------------------LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQP-FT  136 (238)
T ss_dssp             HH------------------------CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CC-CE
T ss_pred             Hh------------------------hccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCC-eE
Confidence            11                        23445666666654310         00000           000011123 45


Q ss_pred             EEEeeCChhH---HhhccCCceeecCCCCHHHHHHHHhHhhCCCC
Q 045709          279 VVFTTREFGV---CGQMEAHRSFKVECLRYDDAWKLFEQKVGADT  320 (337)
Q Consensus       279 IiiTtr~~~v---~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~  320 (337)
                      +|.+|.+...   .........+.+++.+.++...++...+....
T Consensus       137 ~I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~  181 (238)
T d1in4a2         137 LVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMD  181 (238)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT
T ss_pred             EEEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhcc
Confidence            6666655432   11122345678999999999999988775443

>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=98.40  E-value=2.3e-06  Score=71.18  Aligned_cols=46  Identities=22%  Similarity=0.068  Sum_probs=35.3

Q ss_pred             CccccchhhHHHHHHHHh-------c---CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLM-------E---EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~-------~---~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++|..+.++.+...+.       +   .+.+-|.++|++|+|||++|+.+++..
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~   64 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEES   64 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcc
Confidence            347888877776655543       1   134568899999999999999999987

>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=98.39  E-value=2.6e-06  Score=68.98  Aligned_cols=159  Identities=10%  Similarity=0.040  Sum_probs=88.6

Q ss_pred             cchhhHHHHHHHHhcCC-CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCC--
Q 045709          148 GLQLTFDRVWRCLMEEH-AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLF--  224 (337)
Q Consensus       148 Gr~~~~~~l~~~L~~~~-~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~--  224 (337)
                      +.+...+++...+..++ .+.+.++|++|+||||+|+.+++...........    .+....+    ...+.......  
T Consensus         6 w~~~~~~~l~~~~~~~~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~----~~~~~~~----~~~i~~~~~~~~~   77 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHK----SCGHCRG----CQLMQAGTHPDYY   77 (207)
T ss_dssp             GGHHHHHHHHHHHHTTCCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTB----CCSCSHH----HHHHHHTCCTTEE
T ss_pred             ccHHHHHHHHHHHHcCCcCeEEEEECCCCCcHHHHHHHHHHhcccccccccc----cccccch----hhhhhhccccccc
Confidence            34566788888887766 4568999999999999999998876211110000    0000111    11111111100  


Q ss_pred             ----CccccCCCHHHHHHHHHHHh-----cCCcEEEEEecCCCcc--ccccccCCCCCCCCCCcEEEEeeCChh-HHhhc
Q 045709          225 ----NESWKNKSMQEKAQEIFKIL-----SKKKFVLLLDDIWELV--DLDQVGLPIPSRTSVSNKVVFTTREFG-VCGQM  292 (337)
Q Consensus       225 ----~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~--~~~~l~~~l~~~~~g~s~IiiTtr~~~-v~~~~  292 (337)
                          ...-.....+ .++.+.+.+     .+++-++|+||++...  ....++..+..-... +.+|+||.+.. +...+
T Consensus        78 ~~~~~~~~~~i~~~-~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~-~~fIl~t~~~~~ll~tI  155 (207)
T d1a5ta2          78 TLAPEKGKNTLGVD-AVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAE-TWFFLATREPERLLATL  155 (207)
T ss_dssp             EECCCTTCSSBCHH-HHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTT-EEEEEEESCGGGSCHHH
T ss_pred             hhhhhhcccccccc-hhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhccc-ceeeeeecChhhhhhhh
Confidence                0000111222 233344443     2456699999998752  233333333332345 78888887754 43322


Q ss_pred             -cCCceeecCCCCHHHHHHHHhHhh
Q 045709          293 -EAHRSFKVECLRYDDAWKLFEQKV  316 (337)
Q Consensus       293 -~~~~~~~l~~L~~~ea~~Lf~~~~  316 (337)
                       +....+.+.+++.++....+....
T Consensus       156 ~SRc~~i~~~~~~~~~~~~~L~~~~  180 (207)
T d1a5ta2         156 RSRCRLHYLAPPPEQYAVTWLSREV  180 (207)
T ss_dssp             HTTSEEEECCCCCHHHHHHHHHHHC
T ss_pred             cceeEEEecCCCCHHHHHHHHHHcC
Confidence             334688999999999999987654

>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=98.37  E-value=1e-06  Score=74.28  Aligned_cols=166  Identities=14%  Similarity=0.148  Sum_probs=91.5

Q ss_pred             CccccchhhHHHHHHHHh----c---------CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH
Q 045709          144 PTVVGLQLTFDRVWRCLM----E---------EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL  210 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~----~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~  210 (337)
                      .++.|.++.++.|.+.+.    .         ...+-|.++|++|+|||+||+.+++..   ..+|     +.++    .
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~---~~~~-----~~~~----~   74 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC---QANF-----ISIK----G   74 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHT---TCEE-----EEEC----H
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHh---CCcE-----EEEE----H
Confidence            346787776666655442    1         234578899999999999999999987   2332     1121    1


Q ss_pred             HHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCccc----------------cccccCCCCC--C
Q 045709          211 EKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVD----------------LDQVGLPIPS--R  272 (337)
Q Consensus       211 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----------------~~~l~~~l~~--~  272 (337)
                      ..+.       +..    .......+...+...-...+++|+|||++....                ...+...+..  .
T Consensus        75 ~~l~-------~~~----~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  143 (265)
T d1r7ra3          75 PELL-------TMW----FGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST  143 (265)
T ss_dssp             HHHH-------TSC----TTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC----
T ss_pred             HHhh-------hcc----ccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCC
Confidence            1111       000    111122222233333456789999999974311                1122222221  1


Q ss_pred             CCCCcEEEEeeCChhH-Hhhc----cCCceeecCCCCHHHHHHHHhHhhCCCCCCCCCChHHHHHH
Q 045709          273 TSVSNKVVFTTREFGV-CGQM----EAHRSFKVECLRYDDAWKLFEQKVGADTLDSHPDIPELAET  333 (337)
Q Consensus       273 ~~g~s~IiiTtr~~~v-~~~~----~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~l~~i~~~  333 (337)
                      .++ --||.||....- -..+    .....+++++.+.++-.++|+.++.......+-++..+++.
T Consensus       144 ~~~-v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~~~l~~la~~  208 (265)
T d1r7ra3         144 KKN-VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKM  208 (265)
T ss_dssp             --C-CEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC----CCCCHHHHHH
T ss_pred             CCC-EEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCchhhhhHHHHHhc
Confidence            223 355667665442 2222    12467899999999999999887654333344566776654

>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=98.26  E-value=6e-06  Score=68.17  Aligned_cols=46  Identities=26%  Similarity=0.315  Sum_probs=38.6

Q ss_pred             CccccchhhHHHHHHHHhc-----CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLME-----EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~-----~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +++||.++.++.|..++..     ...+-+.++|++|+||||+|+.+++..
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~   59 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL   59 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999998888887753     235677899999999999999999987

>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=97.93  E-value=2.4e-05  Score=62.57  Aligned_cols=132  Identities=9%  Similarity=0.076  Sum_probs=74.2

Q ss_pred             hHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccC-CCCCcEEEEEEecC-ccCHHHHHHHHHHHhCCCCcccc
Q 045709          152 TFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDT-PNHFDFVIWVVVSR-DLQLEKIQESIAKKIGLFNESWK  229 (337)
Q Consensus       152 ~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~  229 (337)
                      .++.+.+++.....+.+.++|.+|+|||++|..+.+..... ..|.+ ..++.... .-.+..+ +++...+....    
T Consensus         2 ~~~~l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~I-R~i~~~~~~~~----   75 (198)
T d2gnoa2           2 QLETLKRIIEKSEGISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDI-RTIKDFLNYSP----   75 (198)
T ss_dssp             HHHHHHHHHHTCSSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHH-HHHHHHHTSCC----
T ss_pred             HHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhccccCCCC-EEEEeCCcCCCCHHHH-HHHHHHHhhCc----
Confidence            35566667777788999999999999999999998866221 22333 34443222 1123332 23444443221    


Q ss_pred             CCCHHHHHHHHHHHhcCCcEEEEEecCCCc--cccccccCCCCCCCCCCcEEEEeeCChh-HHhhcc-CCceeecCCCC
Q 045709          230 NKSMQEKAQEIFKILSKKKFVLLLDDIWEL--VDLDQVGLPIPSRTSVSNKVVFTTREFG-VCGQME-AHRSFKVECLR  304 (337)
Q Consensus       230 ~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~--~~~~~l~~~l~~~~~g~s~IiiTtr~~~-v~~~~~-~~~~~~l~~L~  304 (337)
                                    ..+++=++|+|+++..  .....++..+-.-..+ +.+|++|.+.+ +...+. ....+.+.+.+
T Consensus        76 --------------~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~-t~fiLit~~~~~ll~TI~SRC~~i~~~~p~  139 (198)
T d2gnoa2          76 --------------ELYTRKYVIVHDCERMTQQAANAFLKALEEPPEY-AVIVLNTRRWHYLLPTIKSRVFRVVVNVPK  139 (198)
T ss_dssp             --------------SSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTT-EEEEEEESCGGGSCHHHHTTSEEEECCCCH
T ss_pred             --------------ccCCCEEEEEeCccccchhhhhHHHHHHhCCCCC-ceeeeccCChhhCHHHHhcceEEEeCCCch
Confidence                          0245559999999865  3344443333222234 77777777644 333222 23456676443

>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=97.71  E-value=9.3e-05  Score=61.74  Aligned_cols=87  Identities=16%  Similarity=0.182  Sum_probs=65.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEI  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  240 (337)
                      ..+++-|+|.+|+|||+||..++...++   .-..++|++....++..     +++.++...+.+   ...+.++..+.+
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aqk---~g~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~  127 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQK---AGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  127 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHH---TTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CceEEEEecCCccchHHHHHHHHHHHHh---CCCEEEEEECCccCCHH-----HHHHhCCCchhEEEEcCCCHHHHHHHH
Confidence            5679999999999999999999888732   22458999998888874     677777765432   445677777766


Q ss_pred             HHHhcC-CcEEEEEecCCC
Q 045709          241 FKILSK-KKFVLLLDDIWE  258 (337)
Q Consensus       241 ~~~l~~-k~~LlVlDdv~~  258 (337)
                      ...+.. ..-|+|+|-+-.
T Consensus       128 ~~l~~~~~~~liIiDSi~a  146 (268)
T d1xp8a1         128 ELLVRSGAIDVVVVDSVAA  146 (268)
T ss_dssp             HHHHTTTCCSEEEEECTTT
T ss_pred             HHHHhcCCCcEEEEecccc
Confidence            666654 466999998854

>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=97.69  E-value=0.0001  Score=59.96  Aligned_cols=66  Identities=17%  Similarity=0.212  Sum_probs=40.4

Q ss_pred             CCCHHHHHHH-HHHHhcCCcEEEEEecCCCccc-------cccccCCCCCCCCCCcEEEEeeCChhHHhhccCCceeec
Q 045709          230 NKSMQEKAQE-IFKILSKKKFVLLLDDIWELVD-------LDQVGLPIPSRTSVSNKVVFTTREFGVCGQMEAHRSFKV  300 (337)
Q Consensus       230 ~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~-------~~~l~~~l~~~~~g~s~IiiTtr~~~v~~~~~~~~~~~l  300 (337)
                      ..+..+.++. +.+.|..++-+|++|+.-+..+       |+.+.. +. ...| ..||++|++.+++. + +++++.|
T Consensus       145 ~LSGGqkQRvaIAraL~~~P~lLllDEPTs~LD~~~~~~i~~~l~~-l~-~~~g-~tii~vTHd~~~a~-~-~drv~~m  218 (230)
T d1l2ta_         145 QLSGGQQQRVAIARALANNPPIILADQPTGALDSKTGEKIMQLLKK-LN-EEDG-KTVVVVTHDINVAR-F-GERIIYL  218 (230)
T ss_dssp             GSCHHHHHHHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHH-HH-HTTC-CEEEEECSCHHHHT-T-SSEEEEE
T ss_pred             hCCHHHHHHHHHHhhhhcCCCEEEecCCccccCHHHHHHHHHHHHH-HH-HhhC-CEEEEECCCHHHHH-h-CCEEEEE
Confidence            3455444443 6677888899999999865432       222211 11 1245 78999999988875 3 4455443

>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=97.66  E-value=0.00013  Score=60.71  Aligned_cols=88  Identities=16%  Similarity=0.214  Sum_probs=64.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEI  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  240 (337)
                      ..+++-|+|.+|+||||||..++...+   ..-..++|++....++...     +++++...+..   ...+.++..+.+
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~q---~~g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~  130 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANAQ---AAGGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIA  130 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHHH---HTTCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHH
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHHh---cCCCEEEEEECCccCCHHH-----HHHhCCCHHHeEEecCCCHHHHHHHH
Confidence            578999999999999999998888773   3344689999998887654     56667654432   345667776666


Q ss_pred             HHHhc-CCcEEEEEecCCCc
Q 045709          241 FKILS-KKKFVLLLDDIWEL  259 (337)
Q Consensus       241 ~~~l~-~k~~LlVlDdv~~~  259 (337)
                      ...+. ++.-|||+|.+-..
T Consensus       131 ~~l~~~~~~~liIiDSi~al  150 (269)
T d1mo6a1         131 DMLIRSGALDIVVIDSVAAL  150 (269)
T ss_dssp             HHHHHTTCEEEEEEECSTTC
T ss_pred             HHHHhcCCCCEEEEeccccc
Confidence            65554 45679999998654

>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=97.56  E-value=6.2e-05  Score=61.28  Aligned_cols=127  Identities=17%  Similarity=0.155  Sum_probs=62.4

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhcc-----------C------C-------CCCcE----EEEEEec--------C
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFD-----------T------P-------NHFDF----VIWVVVS--------R  206 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~-----------~------~-------~~f~~----~~wv~~~--------~  206 (337)
                      .+..+++|+|++|+|||||.+.+..-...           .      +       ..+..    .+|-++.        .
T Consensus        24 ~~Gei~~liGpsGsGKSTLl~~i~Gl~~p~sG~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~~tv~eni~~~~~~~~~~  103 (232)
T d2awna2          24 HEGEFVVFVGPSGCGKSTLLRMIAGLETITSGDLFIGEKRMNDTPPAERGVGMVFQSYALYPHLSVAENMSFGLKLAGAK  103 (232)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEESSSCCTTSCGGGTCEEEECSSCCC--------------------
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcCCCCCCCEEEECCEECCCCchhhceeeeeccccccccchhHHHHHHHHHHHcCCC
Confidence            35679999999999999999998653310           0      0       00111    1111110        0


Q ss_pred             ccCHHHHHHHHHHHhCCCCc---cccCCCHHHHHH-HHHHHhcCCcEEEEEecCCCccc-------cccccCCCCCCCCC
Q 045709          207 DLQLEKIQESIAKKIGLFNE---SWKNKSMQEKAQ-EIFKILSKKKFVLLLDDIWELVD-------LDQVGLPIPSRTSV  275 (337)
Q Consensus       207 ~~~~~~~~~~i~~~l~~~~~---~~~~~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~-------~~~l~~~l~~~~~g  275 (337)
                      .....+-..++++.++....   .....+..+.++ .+.+.|-.++-+|++|+.-+..+       |+.+....  ...|
T Consensus       104 ~~~~~~~v~~~l~~~~l~~~~~~~~~~LSGGqkQRvaiAraL~~~P~illlDEPts~LD~~~~~~i~~~l~~l~--~~~g  181 (232)
T d2awna2         104 KEVINQRVNQVAEVLQLAHLLDRKPKALSGGQRQRVAIGRTLVAEPSVFLLDEPLSNLDAALRVQMRIEISRLH--KRLG  181 (232)
T ss_dssp             -CHHHHHHHHHHHHC---------------------CHHHHHHTCCSEEEEESTTTTSCHHHHHHHHHHHHHHH--HHSC
T ss_pred             HHHHHHHHHHHHHhCCChhhhhCChhhCCHHHHHHHHHHHHHhcCCCEEEEcCCCCCCCHHHHHHHHHHHHHHH--HhcC
Confidence            01122334556666554321   112233333333 25667778889999998765433       22222111  1235


Q ss_pred             CcEEEEeeCChhHHhhc
Q 045709          276 SNKVVFTTREFGVCGQM  292 (337)
Q Consensus       276 ~s~IiiTtr~~~v~~~~  292 (337)
                       ..||++|++.+.+..+
T Consensus       182 -~tii~vTHd~~~a~~~  197 (232)
T d2awna2         182 -RTMIYVTHDQVEAMTL  197 (232)
T ss_dssp             -CEEEEEESCHHHHHHH
T ss_pred             -CEEEEEeCCHHHHHHh
Confidence             7899999998776554

>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=97.50  E-value=0.00022  Score=59.30  Aligned_cols=87  Identities=18%  Similarity=0.176  Sum_probs=62.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccc---cCCCHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESW---KNKSMQEKAQEI  240 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~l  240 (337)
                      ..+++-|+|.+|+|||||+.+++...+   ..-..++|++....++..     .++.++...+.+   ...+.++..+.+
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~~q---~~g~~~vyidtE~~~~~~-----~a~~~Gvd~d~v~~~~~~~~E~~~~~i  124 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAAAQ---REGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEIC  124 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHH---cCCCEEEEEccccccCHH-----HHHHhCCCHHHEEEecCCCHHHHHHHH
Confidence            567999999999999999999988883   333468999988887764     356667654332   334566666666


Q ss_pred             HHHhc-CCcEEEEEecCCC
Q 045709          241 FKILS-KKKFVLLLDDIWE  258 (337)
Q Consensus       241 ~~~l~-~k~~LlVlDdv~~  258 (337)
                      ....+ +..-|+|+|.+-.
T Consensus       125 ~~l~~~~~~~liViDSi~a  143 (263)
T d1u94a1         125 DALARSGAVDVIVVDSVAA  143 (263)
T ss_dssp             HHHHHHTCCSEEEEECGGG
T ss_pred             HHHHhcCCCCEEEEECccc
Confidence            55554 4456999998854

>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=97.49  E-value=0.00026  Score=56.63  Aligned_cols=90  Identities=13%  Similarity=0.193  Sum_probs=49.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCH--HHHHHHHHHHhCCCCccc-cCCCHHHHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQL--EKIQESIAKKIGLFNESW-KNKSMQEKAQE  239 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~  239 (337)
                      ..+.+|.++|+.|+||||.+.+++..+ ...+  ..+..++ .+.+..  .+-++...+.++.+.... ...+.......
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~-~~~g--~kV~lit-~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~   82 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQF-EQQG--KSVMLAA-GDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFD   82 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHH-HTTT--CCEEEEC-CCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-HHCC--CcEEEEe-cccccccchhhhhhhhhhcCCcccccccCCCHHHHHHH
Confidence            457899999999999999888888777 3222  2333333 334433  445566667776543211 22333333333


Q ss_pred             HHHHhcCCc-EEEEEecC
Q 045709          240 IFKILSKKK-FVLLLDDI  256 (337)
Q Consensus       240 l~~~l~~k~-~LlVlDdv  256 (337)
                      .....+.+. =++++|=.
T Consensus        83 ~~~~a~~~~~d~ilIDTa  100 (211)
T d2qy9a2          83 AIQAAKARNIDVLIADTA  100 (211)
T ss_dssp             HHHHHHHTTCSEEEECCC
T ss_pred             HHHHHHHcCCCEEEeccC
Confidence            333222222 25666654

>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=97.48  E-value=3.7e-05  Score=59.79  Aligned_cols=38  Identities=13%  Similarity=0.047  Sum_probs=28.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEE
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVV  203 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~  203 (337)
                      +..+|.|+|++|+||||+|+.+...+.  ...++...+..
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~--~~~~~~~~~~~   42 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLN--QQGGRSVSLLL   42 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH--HHCSSCEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHh--hcCCCchhhhh
Confidence            567899999999999999999998873  22444444443

>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=97.45  E-value=0.00011  Score=60.00  Aligned_cols=120  Identities=20%  Similarity=0.260  Sum_probs=69.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEE----------------ecCc------c---------------
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVV----------------VSRD------L---------------  208 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~----------------~~~~------~---------------  208 (337)
                      .+++|+|++|+|||||++.++.-.    ..-...+|++                +.+.      .               
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~----~p~~G~I~~~G~~i~~~~~~~r~ig~v~Q~~~l~~~ltV~enl~~~l~~~~~  100 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV----KPDRGEVRLNGADITPLPPERRGIGFVPQDYALFPHLSVYRNIAYGLRNVER  100 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS----CCSEEEEEETTEECTTSCTTTSCCBCCCSSCCCCTTSCHHHHHHTTCTTSCH
T ss_pred             EEEEEECCCCChHHHHHHHHHcCC----CCCceEEEECCEECCcCCHHHcCceeeccchhhcccchhhHhhhhhhcccCH
Confidence            588899999999999999997754    1222333332                0010      0               


Q ss_pred             -CHHHHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccc-------cccccCCCCCCCCCC
Q 045709          209 -QLEKIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVD-------LDQVGLPIPSRTSVS  276 (337)
Q Consensus       209 -~~~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~-------~~~l~~~l~~~~~g~  276 (337)
                       ...+-..++++.++...   ......+..+.++. +.+.|-.++-+|+||+.-...+       |+.+.. +. ...| 
T Consensus       101 ~~~~~~v~~~l~~~gl~~~~~~~~~~LSGG~kQRvaiAral~~~P~illlDEPts~LD~~~~~~i~~~i~~-l~-~~~g-  177 (240)
T d2onka1         101 VERDRRVREMAEKLGIAHLLDRKPARLSGGERQRVALARALVIQPRLLLLDEPLSAVDLKTKGVLMEELRF-VQ-REFD-  177 (240)
T ss_dssp             HHHHHHHHHHHHTTTCTTTTTCCGGGSCHHHHHHHHHHHHHTTCCSSBEEESTTSSCCHHHHHHHHHHHHH-HH-HHHT-
T ss_pred             HHHHHHHHHHHHhcCcHhhhhCChhhCCHHHHHHHHHHHHHhccCCceEecCccccCCHHHHHHHHHHHHH-HH-HhcC-
Confidence             11233455666665532   11234455544443 6677888999999999765433       222211 11 1125 


Q ss_pred             cEEEEeeCChhHHhhc
Q 045709          277 NKVVFTTREFGVCGQM  292 (337)
Q Consensus       277 s~IiiTtr~~~v~~~~  292 (337)
                      ..||++|++.+.+..+
T Consensus       178 ~tvi~vtHd~~~~~~~  193 (240)
T d2onka1         178 VPILHVTHDLIEAAML  193 (240)
T ss_dssp             CCEEEEESCHHHHHHH
T ss_pred             CeEEEEeCCHHHHHHh
Confidence            6899999987665544

>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=97.43  E-value=0.00038  Score=56.76  Aligned_cols=126  Identities=18%  Similarity=0.187  Sum_probs=70.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCC--------------C----C--CcEEEEEEec----CccC----------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTP--------------N----H--FDFVIWVVVS----RDLQ----------  209 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~--------------~----~--f~~~~wv~~~----~~~~----------  209 (337)
                      +..+++|+|++|+|||||++.++.-.....              .    .  -..+.++.-.    ...+          
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i~gl~~p~sG~I~~~g~~i~~~~~~~~~~~~~r~ig~v~Q~~~L~~~ltV~eni~~~~~  107 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMIAGLEEPSRGQIYIGDKLVADPEKGIFVPPKDRDIAMVFQSYALYPHMTVYDNIAFPLK  107 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEEEETTEEEEEGGGTEECCGGGSSEEEECSCCCCCTTSCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCCCCCCCEEEECCEEecccchhhhcccccccceecccchhhcchhhhhHhhhhhHH
Confidence            567999999999999999999976441000              0    0  0112222111    0011          


Q ss_pred             --------HHHHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccc-------cccccCCCC
Q 045709          210 --------LEKIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVD-------LDQVGLPIP  270 (337)
Q Consensus       210 --------~~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~-------~~~l~~~l~  270 (337)
                              ..+-..++++.++...   ......+..+.++. +.+.|..++-+|++|+--...+       |+.+.. +.
T Consensus       108 ~~~~~~~e~~~~v~~~l~~~~l~~~~~~~p~~LSGGqkQRv~IAraL~~~P~iLllDEPt~~LD~~~~~~i~~~l~~-l~  186 (240)
T d1g2912         108 LRKVPRQEIDQRVREVAELLGLTELLNRKPRELSGGQRQRVALGRAIVRKPQVFLMDEPLSNLDAKLRVRMRAELKK-LQ  186 (240)
T ss_dssp             HTTCCHHHHHHHHHHHHHHHTCGGGTTCCGGGSCHHHHHHHHHHHHHHTCCSEEEEECTTTTSCHHHHHHHHHHHHH-HH
T ss_pred             HcCCCHHHHHHHHHHHHHHcCChhHhcCChhhCCHHHHHHHHHHHHHhcCCCEEEecCCCcccCHHHHHHHHHHHHH-HH
Confidence                    1222344555555432   11234455544443 6678888999999998765433       222211 11


Q ss_pred             CCCCCCcEEEEeeCChhHHhhc
Q 045709          271 SRTSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       271 ~~~~g~s~IiiTtr~~~v~~~~  292 (337)
                       ...| ..||++|++-+.+..+
T Consensus       187 -~~~g-~tvi~vTHd~~~~~~~  206 (240)
T d1g2912         187 -RQLG-VTTIYVTHDQVEAMTM  206 (240)
T ss_dssp             -HHHT-CEEEEEESCHHHHHHH
T ss_pred             -hccC-CEEEEEcCCHHHHHHh
Confidence             1125 7899999998776554

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.42  E-value=3.7e-05  Score=58.76  Aligned_cols=24  Identities=29%  Similarity=0.360  Sum_probs=21.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.|.|+|++|+||||+|+.++..+
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            568888999999999999999887

>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=97.41  E-value=0.00014  Score=59.31  Aligned_cols=127  Identities=17%  Similarity=0.114  Sum_probs=69.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhcc-----------CCC---CCcEEEEEEecC-------------------cc-
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFD-----------TPN---HFDFVIWVVVSR-------------------DL-  208 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~-----------~~~---~f~~~~wv~~~~-------------------~~-  208 (337)
                      .+..+++|+|++|+|||||.+.+..-...           ...   .-..+.++.-..                   .. 
T Consensus        30 ~~Ge~~~liGpsGaGKSTLl~~i~Gl~~p~sG~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~enl~~~~~~~~~~  109 (239)
T d1v43a3          30 KDGEFLVLLGPSGCGKTTTLRMIAGLEEPTEGRIYFGDRDVTYLPPKDRNISMVFQSYAVWPHMTVYENIAFPLKIKKFP  109 (239)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTSCGGGGTEEEEEC------CCCHHHHHHTTCC--CCC
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCCCCCCCEEEEcceecccCCcccceEEEEeechhhcccchHHHHHHHHHHHcCCC
Confidence            35679999999999999999999764410           000   000122221000                   00 


Q ss_pred             --CHHHHHHHHHHHhCCCCc---cccCCCHHHH-HHHHHHHhcCCcEEEEEecCCCccc-------cccccCCCCCCCCC
Q 045709          209 --QLEKIQESIAKKIGLFNE---SWKNKSMQEK-AQEIFKILSKKKFVLLLDDIWELVD-------LDQVGLPIPSRTSV  275 (337)
Q Consensus       209 --~~~~~~~~i~~~l~~~~~---~~~~~~~~~~-~~~l~~~l~~k~~LlVlDdv~~~~~-------~~~l~~~l~~~~~g  275 (337)
                        ...+...++++.++....   .....+..+. .-.|...|..++-+|+||+.-...+       |+.+.. +. ...|
T Consensus       110 ~~~~~~~~~~~l~~~~l~~~~~~~~~~LSGGq~QRvaiAraL~~~P~iLllDEPts~LD~~~~~~i~~ll~~-l~-~~~g  187 (239)
T d1v43a3         110 KDEIDKRVRWAAELLQIEELLNRYPAQLSGGQRQRVAVARAIVVEPDVLLMDEPLSNLDAKLRVAMRAEIKK-LQ-QKLK  187 (239)
T ss_dssp             HHHHHHHHHHHHHHTTCGGGTTSCTTTCCSSCHHHHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHH-HH-HHHT
T ss_pred             HHHHHHHHHHHHHHcCChhhhcCChhhCCHHHHHHHHHHhhhccCCCceeecCCcccCCHHHHHHHHHHHHH-HH-HhcC
Confidence              123334456666655321   1122333222 2346677788899999998765432       222211 11 1125


Q ss_pred             CcEEEEeeCChhHHhhc
Q 045709          276 SNKVVFTTREFGVCGQM  292 (337)
Q Consensus       276 ~s~IiiTtr~~~v~~~~  292 (337)
                       ..||++|++-..+..+
T Consensus       188 -~tii~vTHd~~~a~~~  203 (239)
T d1v43a3         188 -VTTIYVTHDQVEAMTM  203 (239)
T ss_dssp             -CEEEEEESCHHHHHHH
T ss_pred             -CeEEEEeCCHHHHHHh
Confidence             7899999998876554

>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=97.41  E-value=0.00015  Score=59.26  Aligned_cols=126  Identities=18%  Similarity=0.187  Sum_probs=70.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccC-----------CCCC----cEEEEEEecC----ccC--------------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDT-----------PNHF----DFVIWVVVSR----DLQ--------------  209 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-----------~~~f----~~~~wv~~~~----~~~--------------  209 (337)
                      .+..+++|+|++|+|||||.+.+..-....           ....    ..+.|+.-..    ..+              
T Consensus        26 ~~Gei~glvG~nGaGKSTLl~~l~G~~~p~~G~i~i~G~~i~~~~~~~~~~i~~vpq~~~~~~~ltv~e~l~~~~~~~~~  105 (238)
T d1vpla_          26 EEGEIFGLIGPNGAGKTTTLRIISTLIKPSSGIVTVFGKNVVEEPHEVRKLISYLPEEAGAYRNMQGIEYLRFVAGFYAS  105 (238)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEETTTCHHHHHTTEEEECTTCCCCTTSBHHHHHHHHHHHHCC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCCCCCEEEECcEecccChHHHHhhEeEeeeccccCCCccHHHHHHHHHHhcCC
Confidence            356799999999999999999996644100           0000    1123332111    111              


Q ss_pred             ----HHHHHHHHHHHhCCCC---ccccCCCHHHHHH-HHHHHhcCCcEEEEEecCCCccc-------cccccCCCCCCCC
Q 045709          210 ----LEKIQESIAKKIGLFN---ESWKNKSMQEKAQ-EIFKILSKKKFVLLLDDIWELVD-------LDQVGLPIPSRTS  274 (337)
Q Consensus       210 ----~~~~~~~i~~~l~~~~---~~~~~~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~-------~~~l~~~l~~~~~  274 (337)
                          ..+....++..++...   ......+..+.++ .+...|..++-+|+||+.-...+       |+-+.. +.  ..
T Consensus       106 ~~~~~~~~~~~~l~~~~l~~~~~~~~~~lSgG~~qrv~iA~al~~~p~illLDEPt~gLD~~~~~~i~~~i~~-~~--~~  182 (238)
T d1vpla_         106 SSSEIEEMVERATEIAGLGEKIKDRVSTYSKGMVRKLLIARALMVNPRLAILDEPTSGLDVLNAREVRKILKQ-AS--QE  182 (238)
T ss_dssp             CHHHHHHHHHHHHHHHCCGGGGGSBGGGCCHHHHHHHHHHHHHTTCCSEEEEESTTTTCCHHHHHHHHHHHHH-HH--HT
T ss_pred             CHHHHHHHHHHHHHhCCCHHHHhhhhhhCCHHHHHHHHHHHHHhcCCCEEEecCCCCCCCHHHHHHHHHHHHH-HH--hc
Confidence                2223344444444422   1224445554444 36677888899999998765432       222211 21  23


Q ss_pred             CCcEEEEeeCChhHHhhc
Q 045709          275 VSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       275 g~s~IiiTtr~~~v~~~~  292 (337)
                      | ..||+||++-+.+..+
T Consensus       183 g-~tii~~tH~l~~~~~~  199 (238)
T d1vpla_         183 G-LTILVSSHNMLEVEFL  199 (238)
T ss_dssp             T-CEEEEEECCHHHHTTT
T ss_pred             C-CEEEEEeCCHHHHHHh
Confidence            5 7899999997776544

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.41  E-value=3.9e-05  Score=59.96  Aligned_cols=25  Identities=28%  Similarity=0.473  Sum_probs=23.3

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+.|+|.|++|+||||||+.+...+
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999998876

>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=97.39  E-value=4.8e-05  Score=58.58  Aligned_cols=25  Identities=28%  Similarity=0.453  Sum_probs=23.2

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++++|+|.+|+|||||+..+.+.+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l   26 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPAL   26 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4799999999999999999999877

>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=97.37  E-value=0.00037  Score=55.55  Aligned_cols=59  Identities=17%  Similarity=0.254  Sum_probs=40.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC-ccCHHHHHHHHHHHhCCC
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR-DLQLEKIQESIAKKIGLF  224 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~  224 (337)
                      ++.+++.++|+.|+||||.+.+++..+ ... . ..+..+++.. .....+-++...+.++.+
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~-~~~-g-~kV~lit~Dt~R~gA~eQL~~~a~~l~i~   63 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYY-QNL-G-KKVMFCAGDTFRAAGGTQLSEWGKRLSIP   63 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHH-HTT-T-CCEEEECCCCSSTTHHHHHHHHHHHHTCC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-HHC-C-CcEEEEEeccccccchhhHhhcccccCce
Confidence            456899999999999999888888777 322 2 3566776553 234455566666666654

>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=97.34  E-value=6e-05  Score=57.03  Aligned_cols=24  Identities=25%  Similarity=0.282  Sum_probs=21.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++|.|+|++|+||||||+.+....
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            578899999999999999987654

>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=97.32  E-value=6e-05  Score=58.10  Aligned_cols=24  Identities=25%  Similarity=0.418  Sum_probs=22.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++|.|.|++|+||||+|+.+...+
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            679999999999999999998776

>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=97.32  E-value=0.0013  Score=55.01  Aligned_cols=27  Identities=33%  Similarity=0.528  Sum_probs=24.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|++|+|||||++.+..-+
T Consensus        60 ~~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          60 EKGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            367899999999999999999998765

>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=97.31  E-value=7.3e-05  Score=59.21  Aligned_cols=27  Identities=30%  Similarity=0.370  Sum_probs=24.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.+.+|.|+|++|+||||+|+.++..+
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            467899999999999999999999877

>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=97.31  E-value=0.00015  Score=62.02  Aligned_cols=45  Identities=20%  Similarity=0.196  Sum_probs=35.9

Q ss_pred             ccccchhhHHHHHHHHhc--------------CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          145 TVVGLQLTFDRVWRCLME--------------EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~--------------~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|.++.++.+...+..              ...+.+.++|++|+|||.||+.+++..
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~   73 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   73 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhcc
Confidence            478999888888665521              145677899999999999999999887

>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=97.28  E-value=9.2e-05  Score=57.06  Aligned_cols=27  Identities=22%  Similarity=0.487  Sum_probs=24.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++.|.|++|+||||+|+.+...+
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            467899999999999999999998877

>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=97.26  E-value=0.00018  Score=56.59  Aligned_cols=27  Identities=30%  Similarity=0.493  Sum_probs=24.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+.-+|+|.|.+|+||||||+.+....
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~~l   46 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQTL   46 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            456689999999999999999998877

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.25  E-value=7.2e-05  Score=57.69  Aligned_cols=24  Identities=38%  Similarity=0.422  Sum_probs=21.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.|.|.|++|+||||+|+.+...+
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            457799999999999999999877

>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=97.25  E-value=4.8e-05  Score=60.07  Aligned_cols=26  Identities=31%  Similarity=0.450  Sum_probs=23.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+|.++|++|+||||+|+.+...+
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~l   43 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEYL   43 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45789999999999999999998877

>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=97.24  E-value=7.3e-05  Score=58.19  Aligned_cols=25  Identities=40%  Similarity=0.404  Sum_probs=22.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhc
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFF  190 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~  190 (337)
                      +.|.|+|++|+|||||++.++..+.
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~   26 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHH
Confidence            5689999999999999999998873

>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=97.23  E-value=0.00063  Score=55.41  Aligned_cols=128  Identities=18%  Similarity=0.188  Sum_probs=71.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCC-----------------C--CcEEEEEEecC----cc-----------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPN-----------------H--FDFVIWVVVSR----DL-----------  208 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~-----------------~--f~~~~wv~~~~----~~-----------  208 (337)
                      .+..+++|+|++|+|||||++.+..-.....+                 .  -..+-+|.-..    ..           
T Consensus        29 ~~Ge~~~iiG~sGsGKSTll~~i~gl~~p~~G~I~~~g~~i~~~~~~~~~~~rr~ig~vfQ~~~L~p~ltv~eni~~~l~  108 (242)
T d1oxxk2          29 ENGERFGILGPSGAGKTTFMRIIAGLDVPSTGELYFDDRLVASNGKLIVPPEDRKIGMVFQTWALYPNLTAFENIAFPLT  108 (242)
T ss_dssp             CTTCEEEEECSCHHHHHHHHHHHHTSSCCSEEEEEETTEEEEETTEESSCGGGSCEEEEETTSCCCTTSCHHHHHHGGGT
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHHcCcCCCCceEEECCEEeecCchhhcchhhccceEEeccccccccccHHHHhhhhhH
Confidence            35689999999999999999999764310000                 0  00122221110    00           


Q ss_pred             -------CHHHHHHHHHHHhCCCC---ccccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccc------cccccCCCCC
Q 045709          209 -------QLEKIQESIAKKIGLFN---ESWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVD------LDQVGLPIPS  271 (337)
Q Consensus       209 -------~~~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~------~~~l~~~l~~  271 (337)
                             ...+-..++++.++...   ......+..+.++. +.+.|-.++-+|++|+.-...+      ...+...+. 
T Consensus       109 ~~~~~~~~~~~~v~~~l~~~gL~~~~~~~p~~LSGGqkQRvaiARaL~~~P~llllDEPt~~LD~~~~~~i~~~i~~l~-  187 (242)
T d1oxxk2         109 NMKMSKEEIRKRVEEVAKILDIHHVLNHFPRELSGAQQQRVALARALVKDPSLLLLDEPFSNLDARMRDSARALVKEVQ-  187 (242)
T ss_dssp             TSSCCHHHHHHHHHHHHHHTTCGGGTTSCGGGSCHHHHHHHHHHHHHTTCCSEEEEESTTTTSCGGGHHHHHHHHHHHH-
T ss_pred             hhcCCHHHHHHHHHHHHhhcChHhhhhCChhhCCHHHHhHHHHHhHHhhcccceeecCCccCCCHHHHHHHHHHHHHHH-
Confidence                   12233455666666532   11234455554443 6778888999999998755422      111111111 


Q ss_pred             CCCCCcEEEEeeCChhHHhhc
Q 045709          272 RTSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       272 ~~~g~s~IiiTtr~~~v~~~~  292 (337)
                      ...| ..||++|++.+.+..+
T Consensus       188 ~~~g-~tvi~vTHd~~~~~~~  207 (242)
T d1oxxk2         188 SRLG-VTLLVVSHDPADIFAI  207 (242)
T ss_dssp             HHHC-CEEEEEESCHHHHHHH
T ss_pred             hccC-CEEEEEECCHHHHHHh
Confidence            1135 7899999997765444

>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=97.21  E-value=0.0015  Score=52.64  Aligned_cols=123  Identities=19%  Similarity=0.167  Sum_probs=69.8

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEE---e-------------cC------ccCH----------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVV---V-------------SR------DLQL----------  210 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~---~-------------~~------~~~~----------  210 (337)
                      .+..+++|+|++|+|||||.+.+..-..    .-...+++.   +             .+      ..++          
T Consensus        24 ~~Ge~~~liGpsGaGKSTll~~l~Gl~~----p~sG~I~~~G~~i~~~~~~~r~ig~v~Q~~~l~~~~tV~enl~~~~~~   99 (229)
T d3d31a2          24 ESGEYFVILGPTGAGKTLFLELIAGFHV----PDSGRILLDGKDVTDLSPEKHDIAFVYQNYSLFPHMNVKKNLEFGMRM   99 (229)
T ss_dssp             CTTCEEEEECCCTHHHHHHHHHHHTSSC----CSEEEEEETTEECTTSCHHHHTCEEECTTCCCCTTSCHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhcCcC----CCCCEEEEccEeccccchhHhcceeeccccccCccccHHHHHHHHHhh
Confidence            3567999999999999999999976441    111222221   0             00      0111          


Q ss_pred             -----HHHHHHHHHHhCCCC---ccccCCCHHHHHH-HHHHHhcCCcEEEEEecCCCccc-------cccccCCCCCCCC
Q 045709          211 -----EKIQESIAKKIGLFN---ESWKNKSMQEKAQ-EIFKILSKKKFVLLLDDIWELVD-------LDQVGLPIPSRTS  274 (337)
Q Consensus       211 -----~~~~~~i~~~l~~~~---~~~~~~~~~~~~~-~l~~~l~~k~~LlVlDdv~~~~~-------~~~l~~~l~~~~~  274 (337)
                           .+-..++++.++...   ......+..+.++ .+.+.|-.++=+|+||+--+..+       ++.+. .+. ...
T Consensus       100 ~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSGG~~QRvaiAraL~~~P~iLllDEPts~LD~~~~~~i~~~l~-~l~-~~~  177 (229)
T d3d31a2         100 KKIKDPKRVLDTARDLKIEHLLDRNPLTLSGGEQQRVALARALVTNPKILLLDEPLSALDPRTQENAREMLS-VLH-KKN  177 (229)
T ss_dssp             HCCCCHHHHHHHHHHTTCTTTTTSCGGGSCHHHHHHHHHHHHTTSCCSEEEEESSSTTSCHHHHHHHHHHHH-HHH-HHT
T ss_pred             ccccHHHHHHHHHHHhcchhhHhCChhhCCHHHhcchhhhhhhhccCCceeecCCCcCCCHHHHHHHHHHHH-HHH-hcC
Confidence                 222344455555432   1123445544444 36677888999999998765433       22221 111 123


Q ss_pred             CCcEEEEeeCChhHHhhc
Q 045709          275 VSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       275 g~s~IiiTtr~~~v~~~~  292 (337)
                      | ..||++|++...+..+
T Consensus       178 g-~tii~vtHd~~~~~~~  194 (229)
T d3d31a2         178 K-LTVLHITHDQTEARIM  194 (229)
T ss_dssp             T-CEEEEEESCHHHHHHH
T ss_pred             C-cEEEEEcCCHHHHHHh
Confidence            5 7899999988765544

>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=97.21  E-value=0.00024  Score=59.00  Aligned_cols=26  Identities=31%  Similarity=0.263  Sum_probs=23.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++.|.++|++|+||||||+.+++..
T Consensus        31 ~P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          31 SPTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45678999999999999999999987

>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=97.19  E-value=0.00063  Score=54.41  Aligned_cols=59  Identities=17%  Similarity=0.161  Sum_probs=39.0

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc-cCHHHHHHHHHHHhCCC
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD-LQLEKIQESIAKKIGLF  224 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~  224 (337)
                      .++.+|.++|+.|+||||.+.+++..+ ...  -..+..+++... ....+-++..++.++.+
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~-~~~--~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~   68 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMF-VDE--GKSVVLAAADTFRAAAIEQLKIWGERVGAT   68 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHH-HHT--TCCEEEEEECTTCHHHHHHHHHHHHHHTCE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH-HHC--CCceEEEeecccccchhHHHHHHhhhcCcc
Confidence            356799999999999999877777776 222  234666665532 23344566666666653

>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=97.17  E-value=0.0001  Score=56.73  Aligned_cols=22  Identities=27%  Similarity=0.475  Sum_probs=19.9

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.++|++|+||||+++.++..+
T Consensus         4 IvliG~~G~GKSTig~~La~~l   25 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKAL   25 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4566999999999999999988

>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=97.13  E-value=0.00014  Score=56.11  Aligned_cols=27  Identities=22%  Similarity=0.298  Sum_probs=23.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++...|.|.|++|+||||+|+.+...+
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            345679999999999999999998876

>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=97.13  E-value=0.00014  Score=56.21  Aligned_cols=25  Identities=16%  Similarity=0.320  Sum_probs=23.2

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|.|.|++|+||||+|+.+.+.+
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc
Confidence            4789999999999999999999887

>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=97.12  E-value=0.0023  Score=51.95  Aligned_cols=88  Identities=16%  Similarity=0.141  Sum_probs=55.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCC-------------ccccC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFN-------------ESWKN  230 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~-------------~~~~~  230 (337)
                      ...++.|+|.+|+|||+|+.+++.+.   ..+...++|++....  ...+.+. +..++...             .....
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~~---~~~~~~~~~is~e~~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~   98 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVENA---CANKERAILFAYEES--RAQLLRN-AYSWGMDFEEMERQNLLKIVCAYPES   98 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHHH---HTTTCCEEEEESSSC--HHHHHHH-HHTTSCCHHHHHHTTSEEECCCCGGG
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH---HHhccccceeeccCC--HHHHHHH-HHHcCCChHHHhhcCceEEEEeecch
Confidence            67899999999999999999999987   456666788876543  2332222 22222210             00123


Q ss_pred             CCHHHHHHHHHHHhc-CCcEEEEEecCC
Q 045709          231 KSMQEKAQEIFKILS-KKKFVLLLDDIW  257 (337)
Q Consensus       231 ~~~~~~~~~l~~~l~-~k~~LlVlDdv~  257 (337)
                      .........+...+. .+.-++|+|.+.
T Consensus        99 ~~~~~~~~~i~~~i~~~~~~~vviDs~~  126 (242)
T d1tf7a2          99 AGLEDHLQIIKSEINDFKPARIAIDSLS  126 (242)
T ss_dssp             SCHHHHHHHHHHHHHTTCCSEEEEECHH
T ss_pred             hhHHHHHHHHHHHHHhcCCceeeeecch
Confidence            445566666666554 456688899864

>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=97.11  E-value=0.00074  Score=55.15  Aligned_cols=26  Identities=42%  Similarity=0.558  Sum_probs=23.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+++|+|++|+|||||.+.+..-.
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            56799999999999999999996644

>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=97.10  E-value=0.00016  Score=57.30  Aligned_cols=27  Identities=19%  Similarity=0.385  Sum_probs=24.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++.++|.|.|++|+||||+|+.++..+
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            467899999999999999999998877

>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=97.08  E-value=0.00015  Score=56.53  Aligned_cols=24  Identities=29%  Similarity=0.363  Sum_probs=22.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++|+|.|++|+||||+++.+...+
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l   25 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNL   25 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            689999999999999999999887

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.08  E-value=0.00014  Score=56.18  Aligned_cols=26  Identities=31%  Similarity=0.356  Sum_probs=22.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++|.|.|++|+||||+|+.+....
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999997654

>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=97.07  E-value=0.00014  Score=56.58  Aligned_cols=27  Identities=22%  Similarity=0.308  Sum_probs=23.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++..+|.++|++|+||||+|+.+....
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~~   38 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVSA   38 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            457899999999999999999886654

>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=97.07  E-value=0.0003  Score=60.13  Aligned_cols=45  Identities=27%  Similarity=0.329  Sum_probs=36.0

Q ss_pred             ccccchhhHHHHHHHHhc-------C--CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          145 TVVGLQLTFDRVWRCLME-------E--HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~-------~--~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|.++.++.+...+..       +  +..++.++|++|+|||.||+.++...
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             eEeCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHh
Confidence            478999888888776531       1  23478899999999999999998876

>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=97.05  E-value=0.0012  Score=52.45  Aligned_cols=58  Identities=17%  Similarity=0.197  Sum_probs=36.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc-cCHHHHHHHHHHHhCCC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD-LQLEKIQESIAKKIGLF  224 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~  224 (337)
                      +.+++.++|++|+||||.+.+++..+. . .. ..+..+++... ....+-++...+.++.+
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~-~-~g-~kV~lit~Dt~R~gA~eQL~~~a~~l~v~   67 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYK-G-KG-RRPLLVAADTQRPAAREQLRLLGEKVGVP   67 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHH-H-TT-CCEEEEECCSSCHHHHHHHHHHHHHHTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHH-H-CC-CcEEEEecccccchHHHHHHHHHHhcCCc
Confidence            468999999999999998888877772 2 22 33555554322 12334455555555543

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.04  E-value=0.00015  Score=55.70  Aligned_cols=22  Identities=27%  Similarity=0.495  Sum_probs=20.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.|+|++|+||||+++.++..+
T Consensus         3 I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6788999999999999999988

>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=97.02  E-value=0.00017  Score=55.91  Aligned_cols=22  Identities=45%  Similarity=0.668  Sum_probs=20.8

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |+|+|++|+|||||++.+....
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l   24 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCcHHHHHHHHHHhcC
Confidence            7899999999999999999877

>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=97.02  E-value=0.0002  Score=57.13  Aligned_cols=25  Identities=16%  Similarity=0.352  Sum_probs=22.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.+|.++|.+|+||||+|+.++...
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
Confidence            4579999999999999999999876

>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=97.01  E-value=0.00019  Score=55.11  Aligned_cols=24  Identities=25%  Similarity=0.270  Sum_probs=22.7

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++++|+|..|+|||||+..+...+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L   25 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAA   25 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHH
Confidence            689999999999999999999887

>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=96.99  E-value=0.0021  Score=53.27  Aligned_cols=101  Identities=19%  Similarity=0.333  Sum_probs=62.0

Q ss_pred             HHHHHhc-CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc-CHHHHHHHHHHHhCCC--C---c--
Q 045709          156 VWRCLME-EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL-QLEKIQESIAKKIGLF--N---E--  226 (337)
Q Consensus       156 l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~--~---~--  226 (337)
                      .++.+.. .+...++|+|.+|+|||+|+..+.++..  +.+-+.++++-+.... ...++...+.+.--..  .   .  
T Consensus        58 aID~l~pigkGQr~~If~~~g~GKt~l~~~i~~~~~--~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tv  135 (276)
T d2jdid3          58 VVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA--KAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVA  135 (276)
T ss_dssp             HHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHHT--TTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEE
T ss_pred             eeeeeccccCCCEEEeeCCCCCCHHHHHHHHHHHHH--hhCCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceEE
Confidence            3444433 3567799999999999999999988752  3455677888877653 4566677776642111  0   0  


Q ss_pred             ---cccCCCHHHH------HHHHHHHh---cCCcEEEEEecCCC
Q 045709          227 ---SWKNKSMQEK------AQEIFKIL---SKKKFVLLLDDIWE  258 (337)
Q Consensus       227 ---~~~~~~~~~~------~~~l~~~l---~~k~~LlVlDdv~~  258 (337)
                         .....+....      .-.+.+++   +++..|+++||+-.
T Consensus       136 vv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr  179 (276)
T d2jdid3         136 LVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFR  179 (276)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHH
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcchhH
Confidence               0012222221      12344554   37899999999853

>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=96.99  E-value=0.00041  Score=58.03  Aligned_cols=37  Identities=32%  Similarity=0.543  Sum_probs=31.4

Q ss_pred             HHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          153 FDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       153 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+.+.+.....++|.+.|.||+||||++-.+...+
T Consensus         8 ~~~~~~~~~~~~~~iii~sGKGGVGKTT~a~nLA~~l   44 (279)
T d1ihua2           8 LSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRL   44 (279)
T ss_dssp             HHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            5666777777889999999999999999988887766

>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=96.96  E-value=0.0002  Score=55.39  Aligned_cols=24  Identities=21%  Similarity=0.293  Sum_probs=21.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.|.++|++|+||||+|+.++..+
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHh
Confidence            346688999999999999999988

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.92  E-value=0.00026  Score=56.93  Aligned_cols=25  Identities=28%  Similarity=0.472  Sum_probs=23.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|+|.|++|+||||+|+.+.+++
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4799999999999999999999988

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.89  E-value=0.00055  Score=56.43  Aligned_cols=27  Identities=37%  Similarity=0.587  Sum_probs=23.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+...++|+|.+|+|||||++.+..-+
T Consensus        42 ~~Ge~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          42 EKGETVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHhcC
Confidence            467899999999999999999986543

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.87  E-value=0.00032  Score=55.27  Aligned_cols=25  Identities=28%  Similarity=0.373  Sum_probs=22.9

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.+|.|.|++|+||||.|+.+++.+
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999999877

>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=96.87  E-value=0.00087  Score=56.97  Aligned_cols=26  Identities=31%  Similarity=0.547  Sum_probs=22.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...++.++|++|+|||.||+.++...
T Consensus       122 ~~g~~l~~G~pG~GKT~la~ala~~~  147 (321)
T d1w44a_         122 ASGMVIVTGKGNSGKTPLVHALGEAL  147 (321)
T ss_dssp             ESEEEEEECSSSSCHHHHHHHHHHHH
T ss_pred             CCceEEEECCCCccHHHHHHHHHHHh
Confidence            34567779999999999999999987

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.86  E-value=0.00057  Score=54.65  Aligned_cols=30  Identities=23%  Similarity=0.426  Sum_probs=26.2

Q ss_pred             HhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          160 LMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       160 L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +...+..+|-+.|++|+||||||+.+....
T Consensus        19 ~~~~kg~vIwltGlsGsGKTTia~~L~~~l   48 (208)
T d1m7ga_          19 LRNQRGLTIWLTGLSASGKSTLAVELEHQL   48 (208)
T ss_dssp             HHTSSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             HhCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            445678899999999999999999998765

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.83  E-value=0.0028  Score=50.43  Aligned_cols=58  Identities=17%  Similarity=0.118  Sum_probs=32.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc-cCHHHHHHHHHHHhCCC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD-LQLEKIQESIAKKIGLF  224 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~  224 (337)
                      .+.||.++|+.|+||||.+.+++..+ ... . ..+..+++... ....+-++..++.++.+
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~-~~~-g-~kV~lit~Dt~R~ga~eQL~~~a~~l~v~   69 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFY-KKK-G-FKVGLVGADVYRPAALEQLQQLGQQIGVP   69 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHH-HHT-T-CCEEEEECCCSSHHHHHHHHHHHHHHTCC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH-HHC-C-CceEEEEeeccccchhHHHHHhccccCcc
Confidence            57899999999999999877777766 222 2 24666665432 12233444555555543

>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=96.81  E-value=0.00055  Score=53.32  Aligned_cols=24  Identities=33%  Similarity=0.537  Sum_probs=22.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++|.|.|++|+||||+++.+...+
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L   25 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            688999999999999999999888

>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=96.79  E-value=0.004  Score=52.55  Aligned_cols=81  Identities=12%  Similarity=0.025  Sum_probs=45.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKI  243 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~  243 (337)
                      .+-+|+|.|.+|+||||+|+.+...+. ....-..+.-++...-+-....+..  ..+........+.+.+.+.+.+...
T Consensus        79 ~P~iIGIaG~sgSGKSTla~~L~~lL~-~~~~~~~v~~Is~D~F~~~~~~l~~--~~~~~~~g~Pes~D~~~L~~~L~~l  155 (308)
T d1sq5a_          79 IPYIISIAGSVAVGKSTTARVLQALLS-RWPEHRRVELITTDGFLHPNQVLKE--RGLMKKKGFPESYDMHRLVKFVSDL  155 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHHT-TSTTCCCEEEEEGGGGBCCHHHHHH--HTCTTCTTSGGGBCHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCCCcHHHHHHHHHHh-hhcCCCceEEEeeeeeECCchHHHH--hcCCccCCchHhhhHHHHHHHHHHH
Confidence            467999999999999999999988872 1111223444554443322222211  1111111112455666676666666


Q ss_pred             hcCC
Q 045709          244 LSKK  247 (337)
Q Consensus       244 l~~k  247 (337)
                      ..++
T Consensus       156 k~g~  159 (308)
T d1sq5a_         156 KSGV  159 (308)
T ss_dssp             TTTC
T ss_pred             HcCC
Confidence            5543

>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=96.75  E-value=0.00069  Score=56.94  Aligned_cols=42  Identities=24%  Similarity=0.264  Sum_probs=30.1

Q ss_pred             cCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          162 EEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       162 ~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      ++..++|.+.|.||+||||++..++..+.   ..-..+.-++...
T Consensus         5 ~~~p~~i~~sGKGGVGKTTvaa~lA~~lA---~~G~rVLlvD~Dp   46 (296)
T d1ihua1           5 QNIPPYLFFTGKGGVGKTSISCATAIRLA---EQGKRVLLVSTDP   46 (296)
T ss_dssp             SSCCSEEEEECSTTSSHHHHHHHHHHHHH---HTTCCEEEEECCT
T ss_pred             CCCCeEEEEECCCcChHHHHHHHHHHHHH---HCCCCEEEEeCCC
Confidence            45578999999999999999988887773   2222355555543

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=96.74  E-value=0.00048  Score=54.29  Aligned_cols=26  Identities=27%  Similarity=0.387  Sum_probs=23.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.++|.|.|++|+||||+|+.+...+
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            46899999999999999999998876

>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=96.72  E-value=0.00045  Score=54.21  Aligned_cols=25  Identities=24%  Similarity=0.240  Sum_probs=22.2

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..|.|.|++|+||||+|+.+.+.+
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4467899999999999999998877

>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=96.62  E-value=0.00054  Score=53.21  Aligned_cols=22  Identities=32%  Similarity=0.495  Sum_probs=20.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.|.|++|+||||+|+.++..+
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7799999999999999998877

>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=96.62  E-value=0.00066  Score=54.28  Aligned_cols=25  Identities=20%  Similarity=0.355  Sum_probs=22.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +-+|+|.|.+|+||||||+.+...+
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l   26 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLL   26 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998876

>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=96.57  E-value=0.0025  Score=53.04  Aligned_cols=35  Identities=23%  Similarity=0.140  Sum_probs=28.9

Q ss_pred             HHHHHHhc-CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          155 RVWRCLME-EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       155 ~l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++++.+.. .+...++|+|..|+|||+|+..+.+..
T Consensus        32 r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          32 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             HHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             eeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHH
Confidence            45666654 467889999999999999999998876

>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=96.57  E-value=0.0016  Score=55.52  Aligned_cols=46  Identities=22%  Similarity=0.297  Sum_probs=37.4

Q ss_pred             CccccchhhHHHHHHHHhc---------CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLME---------EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~---------~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++|.++.++.+...+..         ....++.++|++|+|||.||+.++...
T Consensus        22 ~~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l   76 (315)
T d1r6bx3          22 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL   76 (315)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc
Confidence            4579999999988776631         134578899999999999999998876

>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=96.54  E-value=0.0013  Score=54.56  Aligned_cols=37  Identities=24%  Similarity=0.406  Sum_probs=28.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEec
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVS  205 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~  205 (337)
                      +.|+|+|-||+||||+|..+...+.  ...+ .+.-+++.
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA--~~G~-rVllID~D   38 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLH--AMGK-TIMVVGCD   38 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH--TTTC-CEEEEEEC
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHH--hCCC-cEEEEecC
Confidence            6789999999999999999998883  2233 35555554

>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=96.53  E-value=0.002  Score=54.97  Aligned_cols=37  Identities=24%  Similarity=0.416  Sum_probs=28.9

Q ss_pred             HHHHHHHHh--cCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          153 FDRVWRCLM--EEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       153 ~~~l~~~L~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...+++.+.  ..+..+|+|.|++|+|||||.-.+...+
T Consensus        37 ~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~   75 (323)
T d2qm8a1          37 VRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLL   75 (323)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHH
Confidence            344444443  2467899999999999999999998766

>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=96.53  E-value=0.00067  Score=52.80  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=21.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|.|++|+||||+|+.++..+
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47799999999999999999887

>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=96.52  E-value=0.00068  Score=52.71  Aligned_cols=23  Identities=30%  Similarity=0.405  Sum_probs=21.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|.|++|+||||+|+.++..+
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47788999999999999999887

>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=96.51  E-value=0.00074  Score=52.87  Aligned_cols=24  Identities=29%  Similarity=0.509  Sum_probs=21.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.|.|+|++|+|||||++.+....
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhC
Confidence            347899999999999999998887

>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=96.50  E-value=0.00087  Score=52.63  Aligned_cols=26  Identities=27%  Similarity=0.418  Sum_probs=22.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +...|.|.|++|+||||+|+.++..+
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHHH
Confidence            34456788999999999999999876

>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=96.48  E-value=0.00075  Score=53.07  Aligned_cols=23  Identities=39%  Similarity=0.508  Sum_probs=20.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|+|++|+|||||++.+....
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            36799999999999999998877

>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=96.45  E-value=0.0006  Score=58.67  Aligned_cols=44  Identities=20%  Similarity=0.259  Sum_probs=33.5

Q ss_pred             CccccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHH
Q 045709          144 PTVVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      ..++|.+..+..|.-.+...+.+-+.|.|.+|+||||||+.+..
T Consensus         7 ~~I~Gq~~~kral~laa~~~~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDPGIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCGGGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             hhccCcHHHHHHHHHHHhccCCCeEEEECCCCccHHHHHHHHHH
Confidence            35799988777665444433345689999999999999999875

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.44  E-value=0.00087  Score=53.82  Aligned_cols=24  Identities=25%  Similarity=0.350  Sum_probs=22.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -+|+|-|++|+||||+|+.+...+
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999999988

>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=96.43  E-value=0.00092  Score=52.04  Aligned_cols=24  Identities=33%  Similarity=0.519  Sum_probs=22.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++|.|+|++|+|||||++.+....
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            688999999999999999998876

>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=96.41  E-value=0.0024  Score=54.55  Aligned_cols=36  Identities=22%  Similarity=0.362  Sum_probs=28.3

Q ss_pred             HHHHHHHh--cCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          154 DRVWRCLM--EEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       154 ~~l~~~L~--~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+++..+.  ..+..+|+|.|.+|+|||||...+...+
T Consensus        41 ~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~   78 (327)
T d2p67a1          41 TQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLL   78 (327)
T ss_dssp             HHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHH
Confidence            34444443  2468899999999999999999998777

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.39  E-value=0.0011  Score=52.58  Aligned_cols=26  Identities=38%  Similarity=0.654  Sum_probs=23.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+++|+|++|+|||||.+.++.-.
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhccc
Confidence            56799999999999999999997754

>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=96.39  E-value=0.0012  Score=51.72  Aligned_cols=24  Identities=33%  Similarity=0.495  Sum_probs=20.5

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++| |+|++|+||||+|+.++..+
T Consensus         4 ~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           4 VRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             cEEE-EECCCCCCHHHHHHHHHHHh
Confidence            3444 78999999999999998876

>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=96.35  E-value=0.0023  Score=55.58  Aligned_cols=46  Identities=20%  Similarity=0.208  Sum_probs=35.9

Q ss_pred             CccccchhhHHHHHHHHh------------------------------cCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLM------------------------------EEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~------------------------------~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+||.++.++.+..++.                              +.....+..+|+.|+|||.||+.++...
T Consensus        17 ~~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          17 NYVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CeecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhc
Confidence            458999998887765542                              1245678899999999999999998765

>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=96.33  E-value=0.0012  Score=51.25  Aligned_cols=25  Identities=20%  Similarity=0.372  Sum_probs=22.3

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+.|.|+|++|+|||||++.+..+.
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhC
Confidence            3678999999999999999998776

>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=96.31  E-value=0.0011  Score=51.52  Aligned_cols=23  Identities=35%  Similarity=0.491  Sum_probs=20.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|.|++|+||||+|+.++..+
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            35578999999999999999887

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.30  E-value=0.0011  Score=51.23  Aligned_cols=23  Identities=26%  Similarity=0.257  Sum_probs=20.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|.|++|+||||+|+.++..+
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999999877

>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=96.24  E-value=0.011  Score=47.93  Aligned_cols=50  Identities=24%  Similarity=0.315  Sum_probs=36.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccC---CCCCcEEEEEEecCccCHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDT---PNHFDFVIWVVVSRDLQLEKI  213 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~~~~~~~~~~~  213 (337)
                      ...++.|+|.+|+|||||+.+++......   .......+|+......+...+
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHH
Confidence            67899999999999999999998766210   123456788887766665443

>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=0.0014  Score=51.37  Aligned_cols=22  Identities=36%  Similarity=0.578  Sum_probs=19.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQI  185 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v  185 (337)
                      .+-+|+|.|..|+||||+|..+
T Consensus         2 ~p~IIgitG~~gSGKstva~~l   23 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALL   23 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHH
Confidence            3568999999999999999987

>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=96.14  E-value=0.0024  Score=53.19  Aligned_cols=26  Identities=23%  Similarity=0.469  Sum_probs=20.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.++|+|.|.+|+||||+++.+.+.+
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~   28 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIF   28 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHH
Confidence            56799999999999999999987766

>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=96.12  E-value=0.0037  Score=49.70  Aligned_cols=25  Identities=20%  Similarity=0.356  Sum_probs=22.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...|+|-|+.|+||||+++.+.+.+
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4678999999999999999999987

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.08  E-value=0.0016  Score=53.00  Aligned_cols=123  Identities=22%  Similarity=0.222  Sum_probs=70.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEE-----------------------EEEEec----C---------
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFV-----------------------IWVVVS----R---------  206 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~-----------------------~wv~~~----~---------  206 (337)
                      .+..+++|+|++|+|||||++.++.-. +   .-...                       .+|.-.    .         
T Consensus        29 ~~Ge~~~iiG~sGsGKSTLl~~i~Gl~-~---p~sG~I~~~g~~i~~~~~~~~~~~rr~ig~VfQ~~~l~~~~tv~eni~  104 (240)
T d3dhwc1          29 PAGQIYGVIGASGAGKSTLIRCVNLLE-R---PTEGSVLVDGQELTTLSESELTKARRQIGMIFQHFNLLSSRTVFGNVA  104 (240)
T ss_dssp             CSSCEEEEEESTTSSHHHHHHHHTTSS-C---CSEEEEEETTEEECTTCHHHHHHHHHHEEECCSSCCCCTTSBHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHcCCc-c---ccCCceEEcCeEeeeCChhhhhhhhccccccccccccCCCccHHHHHH
Confidence            356899999999999999999996533 1   11111                       111100    0         


Q ss_pred             ---------ccCHHHHHHHHHHHhCCCCc---cccCCCHHHHHHH-HHHHhcCCcEEEEEecCCCccc-------ccccc
Q 045709          207 ---------DLQLEKIQESIAKKIGLFNE---SWKNKSMQEKAQE-IFKILSKKKFVLLLDDIWELVD-------LDQVG  266 (337)
Q Consensus       207 ---------~~~~~~~~~~i~~~l~~~~~---~~~~~~~~~~~~~-l~~~l~~k~~LlVlDdv~~~~~-------~~~l~  266 (337)
                               .....+...++++.+++...   .....+..+.++. +...|..++-+|++|+--...+       ++.+.
T Consensus       105 ~~l~~~~~~~~~~~~~v~~~L~~vgL~~~~~~~~~~LSGG~~QRvaiAraL~~~P~lLllDEPt~~LD~~~~~~i~~~l~  184 (240)
T d3dhwc1         105 LPLELDNTPKDEVKRRVTELLSLVGLGDKHDSYPSNLSGGQKQRVAIARALASNPKVLLCDEATSALDPATTRSILELLK  184 (240)
T ss_dssp             HHHHTTTCCTTHHHHHHHHHHHHHSTTTTTSSCBSCCCHHHHHHHHHHHHHHTCCSEEEEESGGGSSCHHHHHHHHHHHH
T ss_pred             HHHHHcCCCHHHHHHHHHHHHHHcCCchhhhCChhhCCHHHHHHHHHhhhhccCCCeEEeccccccCCHHHhhHHHHHHH
Confidence                     00122334555666655321   1234455554443 6677788999999998654322       22221


Q ss_pred             CCCCCCCCCCcEEEEeeCChhHHhhc
Q 045709          267 LPIPSRTSVSNKVVFTTREFGVCGQM  292 (337)
Q Consensus       267 ~~l~~~~~g~s~IiiTtr~~~v~~~~  292 (337)
                      . +. ...| ..||++|++-..+..+
T Consensus       185 ~-l~-~~~g-~tvi~vTHdl~~~~~~  207 (240)
T d3dhwc1         185 D-IN-RRLG-LTILLITHEMDVVKRI  207 (240)
T ss_dssp             H-HH-HHHC-CEEEEEBSCHHHHHHH
T ss_pred             H-HH-hccC-CEEEEEcCCHHHHHHh
Confidence            1 11 1125 7899999998776654

>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=96.07  E-value=0.0026  Score=53.27  Aligned_cols=39  Identities=23%  Similarity=0.317  Sum_probs=28.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCc
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRD  207 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~  207 (337)
                      +.|+|.|-||+||||+|..+...+.   ..-..+.-+++...
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~LA---~~G~rVLlID~DpQ   41 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAALA---EMGKKVMIVGCDPK   41 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH---HTTCCEEEEEECSS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHH---HCCCCEEEEecCCC
Confidence            5788999999999999999888773   22223666666543

>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=96.05  E-value=0.007  Score=48.71  Aligned_cols=47  Identities=13%  Similarity=0.113  Sum_probs=34.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccC---CCCCcEEEEEEecCccCH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDT---PNHFDFVIWVVVSRDLQL  210 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~---~~~f~~~~wv~~~~~~~~  210 (337)
                      ..+++.|+|.+|+|||||+.++.......   ...-...+|++.......
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~   82 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRP   82 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHH
Confidence            67899999999999999999987654211   122346788887666543

>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=96.03  E-value=0.0021  Score=51.10  Aligned_cols=25  Identities=16%  Similarity=0.254  Sum_probs=22.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..++.|+|++|+|||||.+.+....
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhC
Confidence            4688999999999999999998876

>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=96.01  E-value=0.0031  Score=50.99  Aligned_cols=23  Identities=39%  Similarity=0.538  Sum_probs=21.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ||+|.|+.|+|||||...+.+..
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~   24 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYL   24 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHH
Confidence            78999999999999999998766

>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=95.99  E-value=0.0027  Score=52.00  Aligned_cols=27  Identities=26%  Similarity=0.486  Sum_probs=23.6

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+...++|+|++|+|||||++.+..-+
T Consensus        38 ~~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          38 RPGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            467899999999999999999996644

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.95  E-value=0.011  Score=49.04  Aligned_cols=82  Identities=12%  Similarity=0.035  Sum_probs=45.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCC-----CCccccCCCHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGL-----FNESWKNKSMQEKAQE  239 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~-----~~~~~~~~~~~~~~~~  239 (337)
                      +-+|+|.|..|+|||||+..+.............++-++...-+-..+-...+......     ....+.+-+..-+.+.
T Consensus        27 P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~ll~~~  106 (286)
T d1odfa_          27 PLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKLLQEV  106 (286)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHHHHHH
T ss_pred             CEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCCCCHHHHHHHhhhccccccceecCCCcchhHHHHHHH
Confidence            45899999999999999998877652100112245556665543333333444444311     1111245566666666


Q ss_pred             HHHHhcC
Q 045709          240 IFKILSK  246 (337)
Q Consensus       240 l~~~l~~  246 (337)
                      +.....+
T Consensus       107 l~~l~~~  113 (286)
T d1odfa_         107 LNTIFNN  113 (286)
T ss_dssp             HHHHTC-
T ss_pred             HHHHHhh
Confidence            6655543

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=95.92  E-value=0.015  Score=46.82  Aligned_cols=108  Identities=17%  Similarity=0.127  Sum_probs=56.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhcc-CC-----------CCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFD-TP-----------NHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNK  231 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~-~~-----------~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~  231 (337)
                      +.+++.|.|++..||||+.+.+.-...- ..           ..|+ .++..+....++..-                ..
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~VpA~~a~~~~~d-~I~~~~~~~d~~~~~----------------~S  102 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPID-RIFTRVGAADDLASG----------------RS  102 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCC-EEEEEEC--------------------------
T ss_pred             CceEEEEeccCchhhHHHHHHHHHHHHHHHcCCeEecCceecccch-hheeEEccCcccccc----------------hh
Confidence            4578999999999999999997543210 01           1222 233334333222211                11


Q ss_pred             CHHHHHHHHHHHh--cCCcEEEEEecCCCccccc-------cccCCCCCCCCCCcEEEEeeCChhHHh
Q 045709          232 SMQEKAQEIFKIL--SKKKFVLLLDDIWELVDLD-------QVGLPIPSRTSVSNKVVFTTREFGVCG  290 (337)
Q Consensus       232 ~~~~~~~~l~~~l--~~k~~LlVlDdv~~~~~~~-------~l~~~l~~~~~g~s~IiiTtr~~~v~~  290 (337)
                      +...-..++...+  .+++.|+++|++-...+-.       .+...+.. ..+ +.+++||....+..
T Consensus       103 ~F~~E~~~~~~il~~~~~~sLvliDE~~~gT~~~eg~~l~~a~l~~l~~-~~~-~~~i~tTH~~~l~~  168 (234)
T d1wb9a2         103 TFMVEMTETANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLAN-KIK-ALTLFATHYFELTQ  168 (234)
T ss_dssp             -CHHHHHHHHHHHHHCCTTEEEEEESCCCCSSSSHHHHHHHHHHHHHHH-TTC-CEEEEECSCGGGGG
T ss_pred             HHHHHHHHHHHHHHhcccccEEeecccccCCChhhhhHHHHHhhhhhhc-ccc-ceEEEecchHHHhh
Confidence            1222233334433  4578899999997653311       11111211 234 78999999877643

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=95.89  E-value=0.0024  Score=52.03  Aligned_cols=27  Identities=22%  Similarity=0.500  Sum_probs=23.4

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+...++|+|++|+|||||++.+..-+
T Consensus        26 ~~Ge~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          26 QPNSIIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            467899999999999999999996544

>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=95.88  E-value=0.0024  Score=52.41  Aligned_cols=27  Identities=30%  Similarity=0.460  Sum_probs=23.4

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .....++|+|++|+|||||++.+..-+
T Consensus        39 ~~Ge~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          39 PAGKTVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             CTTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhccc
Confidence            456799999999999999999996644

>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=95.87  E-value=0.0077  Score=49.14  Aligned_cols=45  Identities=18%  Similarity=0.101  Sum_probs=35.7

Q ss_pred             ccccchhhHHHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          145 TVVGLQLTFDRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       145 ~~vGr~~~~~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +|||....++++.+.+..  ....-|.|.|..|+|||++|+.+....
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            378888888888887754  233457899999999999999997754

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

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 alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=95.85  E-value=0.012  Score=48.55  Aligned_cols=92  Identities=9%  Similarity=0.129  Sum_probs=51.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc-CHHHHHHHHHHHhCCCCcc----ccCCC------
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL-QLEKIQESIAKKIGLFNES----WKNKS------  232 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~----~~~~~------  232 (337)
                      +..-++|+|.+|+|||+|+.......   ..+...++++-+.... ...++...+...-......    ..+.+      
T Consensus        66 ~GQr~~Ifg~~g~GKt~l~~~~~~~~---~~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~  142 (276)
T d1fx0a3          66 RGQRELIIGDRQTGKTAVATDTILNQ---QGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYL  142 (276)
T ss_dssp             TTCBCBEEESSSSSHHHHHHHHHHTC---CTTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTH
T ss_pred             CCceEeeccCCCCChHHHHHHHHhhh---cccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHH
Confidence            45668899999999999998866554   3445567777766543 2333333333221110000    00111      


Q ss_pred             HHHHHHHHHHHh--cCCcEEEEEecCCC
Q 045709          233 MQEKAQEIFKIL--SKKKFVLLLDDIWE  258 (337)
Q Consensus       233 ~~~~~~~l~~~l--~~k~~LlVlDdv~~  258 (337)
                      .....-.+.+++  +++..||++||+-.
T Consensus       143 a~~~a~tiAEyfrd~G~~Vlll~Dsltr  170 (276)
T d1fx0a3         143 APYTGAALAEYFMYRERHTLIIYDDLSK  170 (276)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHHHcCCceeEEeeccHH
Confidence            112223334444  47899999999753

>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=95.84  E-value=0.0024  Score=52.02  Aligned_cols=26  Identities=31%  Similarity=0.618  Sum_probs=23.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....++|+|.+|+|||||++.+..-+
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            56889999999999999999997654

>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=95.80  E-value=0.0026  Score=52.30  Aligned_cols=27  Identities=30%  Similarity=0.444  Sum_probs=23.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+++|+|++|+|||||++.+..-.
T Consensus        26 ~~GEi~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          26 RAGDVISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHcCc
Confidence            367899999999999999999996543

>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=95.77  E-value=0.0027  Score=47.53  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=19.5

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.|+|.+|+|||||...+..+.
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~~   24 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLGE   24 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6799999999999999987655

>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=95.76  E-value=0.0052  Score=53.15  Aligned_cols=27  Identities=22%  Similarity=0.069  Sum_probs=24.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+.+.++|++|+|||++|..+++..
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHHHc
Confidence            456799999999999999999999988

>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=95.75  E-value=0.0022  Score=50.33  Aligned_cols=26  Identities=31%  Similarity=0.238  Sum_probs=22.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++.+|+|-|..|+||||+++.+.+..
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999997665

>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=95.75  E-value=0.0085  Score=47.38  Aligned_cols=36  Identities=17%  Similarity=0.229  Sum_probs=26.8

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEE
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWV  202 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv  202 (337)
                      .+.|+|-|+.|+||||+++.+.+.+.  ...+..+.+.
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~~L~--~~g~~~~~~~   37 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVETLE--QLGIRDMVFT   37 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHHH--HTTCCCEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH--hCCCCeEEEe
Confidence            46789999999999999999988772  2334444443

>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=95.72  E-value=0.0047  Score=54.98  Aligned_cols=46  Identities=22%  Similarity=0.230  Sum_probs=36.2

Q ss_pred             CccccchhhHHHHHHHHhc--------C------CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          144 PTVVGLQLTFDRVWRCLME--------E------HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       144 ~~~vGr~~~~~~l~~~L~~--------~------~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+||.++.+..+.-.+.+        .      ..+-|.++|++|+|||.||+.++...
T Consensus        14 ~yVvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          14 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CcccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHh
Confidence            4578988888777655532        1      35679999999999999999999876

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.67  E-value=0.02  Score=46.09  Aligned_cols=48  Identities=15%  Similarity=0.075  Sum_probs=36.0

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhcc---CCCCCcEEEEEEecCccCHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFD---TPNHFDFVIWVVVSRDLQLE  211 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~---~~~~f~~~~wv~~~~~~~~~  211 (337)
                      ...++.|+|.+|+|||+||.+++.....   ....+..+.|+.........
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPD   86 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHH
Confidence            6779999999999999999999876522   12345678888877665543

>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=95.62  E-value=0.003  Score=47.69  Aligned_cols=23  Identities=30%  Similarity=0.478  Sum_probs=20.4

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|+|+|.+|+|||||...+.++.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999997765

>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=95.61  E-value=0.0056  Score=46.76  Aligned_cols=35  Identities=34%  Similarity=0.601  Sum_probs=25.7

Q ss_pred             HHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          153 FDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       153 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      +..+..++.+ +..-|.|+|.+|+|||||...+...
T Consensus         4 ~~~~~~~~~~-k~~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           4 FTRIWRLFNH-QEHKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHHTT-SCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHHhCC-CeEEEEEECCCCCCHHHHHHHHhcC
Confidence            3455655543 3455779999999999999988664

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.59  E-value=0.006  Score=48.05  Aligned_cols=26  Identities=19%  Similarity=0.293  Sum_probs=23.6

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...++.|.|.+|+|||+|+.+++...
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            56799999999999999999998766

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=95.56  E-value=0.0031  Score=51.84  Aligned_cols=26  Identities=27%  Similarity=0.456  Sum_probs=23.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +..+++|+|++|+|||||++.+..-.
T Consensus        29 ~Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          29 KGDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHCCC
Confidence            56799999999999999999997654

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {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: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.52  E-value=0.0055  Score=49.12  Aligned_cols=38  Identities=24%  Similarity=0.224  Sum_probs=29.3

Q ss_pred             eEEEEE-ecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          166 GIVGLY-GMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       166 ~vi~I~-G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      ++|+|+ |.||+||||+|..++..+.   ..-..++++....
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la---~~g~~VlliD~D~   40 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALA---QLGHDVTIVDADI   40 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHH---HTTCCEEEEECCC
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHH---hCCCCEEEEeCCC
Confidence            678888 8899999999999988883   2334577887653

>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=95.38  E-value=0.005  Score=48.07  Aligned_cols=25  Identities=28%  Similarity=0.460  Sum_probs=21.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      +.+.|+|+|.+|+|||||...+.+.
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcCC
Confidence            4567999999999999999999753

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=95.36  E-value=0.0034  Score=50.74  Aligned_cols=24  Identities=38%  Similarity=0.612  Sum_probs=22.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      ...+++|+|++|+|||||.+.+..
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            568999999999999999999876

>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=95.32  E-value=0.0069  Score=47.68  Aligned_cols=23  Identities=30%  Similarity=0.743  Sum_probs=21.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|+|-|.-|+||||+++.+.+.+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l   24 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAF   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58899999999999999998877

>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=95.29  E-value=0.006  Score=49.30  Aligned_cols=26  Identities=19%  Similarity=0.344  Sum_probs=23.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +++.|+|=|.-|+||||+++.+...+
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            36789999999999999999999876

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=95.28  E-value=0.049  Score=44.50  Aligned_cols=25  Identities=28%  Similarity=0.448  Sum_probs=21.9

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+..|+|.+|+|||||+..++...
T Consensus        29 g~~~~i~G~~G~GKS~l~l~la~~i   53 (274)
T d1nlfa_          29 GTVGALVSPGGAGKSMLALQLAAQI   53 (274)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            4688899999999999999887765

>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=95.17  E-value=0.0051  Score=47.08  Aligned_cols=22  Identities=36%  Similarity=0.492  Sum_probs=19.3

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.++|.+|+|||+|+..+.++.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDKR   27 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHhcCC
Confidence            6799999999999999987653

>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=95.16  E-value=0.019  Score=45.52  Aligned_cols=26  Identities=19%  Similarity=0.351  Sum_probs=23.8

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +...|+|-|+-|+||||+++.+...+
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHH
Confidence            46789999999999999999999887

>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=95.15  E-value=0.0053  Score=46.44  Aligned_cols=22  Identities=27%  Similarity=0.249  Sum_probs=19.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.++|.+|+|||||+..+.+..
T Consensus         5 v~liG~~~vGKTsLl~~~~~~~   26 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAGR   26 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7799999999999999998753

>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=95.12  E-value=0.0059  Score=46.22  Aligned_cols=22  Identities=23%  Similarity=0.487  Sum_probs=19.1

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.++|.+|+|||||+..+.+..
T Consensus         5 v~liG~~~vGKSsLi~rl~~~~   26 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKGI   26 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999887643

>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=95.12  E-value=0.0055  Score=46.50  Aligned_cols=22  Identities=36%  Similarity=0.449  Sum_probs=19.3

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.|+|.+|+|||+|+..+.++.
T Consensus         7 ivlvG~~~vGKTsli~~~~~~~   28 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEKK   28 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7799999999999999987653

>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=95.08  E-value=0.006  Score=47.97  Aligned_cols=24  Identities=29%  Similarity=0.304  Sum_probs=21.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.|.|+|.+|+|||||...+.+..
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~~   27 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTDS   27 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            578999999999999999998653

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=95.07  E-value=0.033  Score=44.44  Aligned_cols=105  Identities=20%  Similarity=0.227  Sum_probs=57.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhc-cCC-----------CCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCH
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFF-DTP-----------NHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSM  233 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~-~~~-----------~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~  233 (337)
                      +++.|.|++..||||+.+.+.-... ...           ..|+. ++..+....++..                ...+.
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vpA~~~~i~~~d~-I~~~~~~~d~~~~----------------~~StF   98 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIALLAQVGSFVPAEEAHLPLFDG-IYTRIGASDDLAG----------------GKSTF   98 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCSE-EEEECCC----------------------CCSHH
T ss_pred             cEEEEECCCccccchhhhhhHHHHHHHhccceeecCceEEeecce-EEEEECCCccccC----------------CccHH
Confidence            4788999999999999998744321 001           12232 2333332222211                12223


Q ss_pred             HHHHHHHHHHh--cCCcEEEEEecCCCcccc-------ccccCCCCCCCCCCcEEEEeeCChhHHh
Q 045709          234 QEKAQEIFKIL--SKKKFVLLLDDIWELVDL-------DQVGLPIPSRTSVSNKVVFTTREFGVCG  290 (337)
Q Consensus       234 ~~~~~~l~~~l--~~k~~LlVlDdv~~~~~~-------~~l~~~l~~~~~g~s~IiiTtr~~~v~~  290 (337)
                      ..-..++...+  .+++.|+++|++-...+-       ..+...|.  ..+ +.+++||...++..
T Consensus        99 ~~el~~~~~il~~~~~~sLvliDE~~~gT~~~eg~ala~aile~L~--~~~-~~~i~tTH~~eL~~  161 (224)
T d1ewqa2          99 MVEMEEVALILKEATENSLVLLDEVGRGTSSLDGVAIATAVAEALH--ERR-AYTLFATHYFELTA  161 (224)
T ss_dssp             HHHHHHHHHHHHHCCTTEEEEEESTTTTSCHHHHHHHHHHHHHHHH--HHT-CEEEEECCCHHHHT
T ss_pred             HHhHHHHHHHhccCCCCcEEeecccccCcchhhhcchHHHHHHHHh--hcC-cceEEeeechhhhh
Confidence            33344444444  367899999999765331       11111121  135 78999999887754

>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=95.06  E-value=0.0058  Score=48.43  Aligned_cols=19  Identities=42%  Similarity=0.525  Sum_probs=17.8

Q ss_pred             EEEEEecCCCcHHHHHHHH
Q 045709          167 IVGLYGMGGVGKTTLLTQI  185 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v  185 (337)
                      +|+|+|+.|+||||+++.+
T Consensus         5 iIgitG~igSGKStv~~~l   23 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAF   23 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHH
Confidence            8999999999999999876

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=95.05  E-value=0.018  Score=43.22  Aligned_cols=27  Identities=41%  Similarity=0.359  Sum_probs=24.1

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..+|.+.|.=|+||||+++.+++..
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhc
Confidence            345689999999999999999999987

>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=95.03  E-value=0.0037  Score=50.52  Aligned_cols=25  Identities=16%  Similarity=0.236  Sum_probs=22.7

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+.|+|-|+-|+||||+++.+...+
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            5789999999999999999998765

>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=95.00  E-value=0.0064  Score=46.34  Aligned_cols=23  Identities=35%  Similarity=0.551  Sum_probs=20.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.++|.+|+|||||...+.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~~   29 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQGL   29 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999988754

>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=94.99  E-value=0.0065  Score=45.87  Aligned_cols=22  Identities=32%  Similarity=0.407  Sum_probs=19.3

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.++|.+|+|||+|+..+.+..
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~~   24 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYDS   24 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6789999999999999987644

>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=94.96  E-value=0.0064  Score=46.31  Aligned_cols=23  Identities=30%  Similarity=0.433  Sum_probs=19.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|+|+|.+|+|||||...+....
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~   24 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKK   24 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999987543

>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=94.96  E-value=0.006  Score=48.92  Aligned_cols=26  Identities=42%  Similarity=0.466  Sum_probs=22.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.++..|.|+-|+|||||.+.+....
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhcC
Confidence            46899999999999999999998754

>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=94.94  E-value=0.0078  Score=46.00  Aligned_cols=26  Identities=31%  Similarity=0.570  Sum_probs=21.3

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      .+..-|.|+|.+|+|||||...+...
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34566889999999999999988554

>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=94.94  E-value=0.0066  Score=46.07  Aligned_cols=22  Identities=32%  Similarity=0.469  Sum_probs=19.5

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.|+|.+|+|||||...+.++.
T Consensus         7 i~lvG~~~vGKTsli~rl~~~~   28 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVEDS   28 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999987654

>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=94.93  E-value=0.0067  Score=46.17  Aligned_cols=21  Identities=29%  Similarity=0.468  Sum_probs=19.0

Q ss_pred             EEEEecCCCcHHHHHHHHHHh
Q 045709          168 VGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~  188 (337)
                      |.++|.+|+|||||...+.+.
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999988764

>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=94.92  E-value=0.0067  Score=46.01  Aligned_cols=23  Identities=39%  Similarity=0.508  Sum_probs=20.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.++|.+|+|||+|+..+.++.
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~~   27 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999988754

>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=94.92  E-value=0.0066  Score=46.06  Aligned_cols=23  Identities=39%  Similarity=0.433  Sum_probs=19.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.|+|.+|+|||+|+..+....
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~~   27 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCENK   27 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36899999999999999987643

>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=94.92  E-value=0.0064  Score=45.94  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=19.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.|+|.+|+|||||...+.+..
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~~   26 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGED   26 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCC
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            37799999999999999986543

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {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: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.91  E-value=0.013  Score=46.94  Aligned_cols=38  Identities=26%  Similarity=0.315  Sum_probs=28.4

Q ss_pred             CeEEEEE-ecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEec
Q 045709          165 AGIVGLY-GMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVS  205 (337)
Q Consensus       165 ~~vi~I~-G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~  205 (337)
                      .++|+|+ +-||+||||+|..++..+.   ..-..++.++..
T Consensus         2 ~~vIav~~~kGGvGKTtia~nLA~~la---~~g~~VlliD~D   40 (237)
T d1g3qa_           2 GRIISIVSGKGGTGKTTVTANLSVALG---DRGRKVLAVDGD   40 (237)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHHHHHH---HTTCCEEEEECC
T ss_pred             CeEEEEECCCCCCcHHHHHHHHHHHHH---hCCCCEEEEeCC
Confidence            3688899 6799999999999988883   222346666654

>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=94.91  E-value=0.014  Score=51.17  Aligned_cols=101  Identities=19%  Similarity=0.253  Sum_probs=58.3

Q ss_pred             ccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCcc--CHHHHHHHHHHHhCCC
Q 045709          147 VGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDL--QLEKIQESIAKKIGLF  224 (337)
Q Consensus       147 vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~i~~~l~~~  224 (337)
                      .|.....-..+..+.....++|.|.|+.|+||||....+.+...   .....++  ++.++.  .....     .+... 
T Consensus       140 LG~~~~~~~~l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~~~---~~~~~i~--tiEdPiE~~~~~~-----~q~~v-  208 (401)
T d1p9ra_         140 LGMTAHNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQELN---SSERNIL--TVEDPIEFDIDGI-----GQTQV-  208 (401)
T ss_dssp             SCCCHHHHHHHHHHHTSSSEEEEEECSTTSCHHHHHHHHHHHHC---CTTSCEE--EEESSCCSCCSSS-----EEEEC-
T ss_pred             hcccHHHHHHHHHHHhhhhceEEEEcCCCCCccHHHHHHhhhhc---CCCceEE--EeccCcccccCCC-----Ceeee-
Confidence            56555444444555666789999999999999999999888762   2212222  333221  11000     00000 


Q ss_pred             CccccCCCHHHHHHHHHHHhcCCcEEEEEecCCCcccc
Q 045709          225 NESWKNKSMQEKAQEIFKILSKKKFVLLLDDIWELVDL  262 (337)
Q Consensus       225 ~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~  262 (337)
                          ...........++..|+..+=+|++.++.+.+..
T Consensus       209 ----~~~~~~~~~~~l~~~lR~dPDvi~igEiRd~~ta  242 (401)
T d1p9ra_         209 ----NPRVDMTFARGLRAILRQDPDVVMVGEIRDLETA  242 (401)
T ss_dssp             ----BGGGTBCHHHHHHHHGGGCCSEEEESCCCSHHHH
T ss_pred             ----cCCcCCCHHHHHHHHHhhcCCEEEecCcCChHHH
Confidence                1111112455577778888888888888776443

>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=94.90  E-value=0.0062  Score=46.37  Aligned_cols=22  Identities=36%  Similarity=0.735  Sum_probs=19.1

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.++|.+|+|||||...+.++.
T Consensus         5 i~viG~~~vGKTsLi~r~~~~~   26 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKGT   26 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6799999999999999887643

>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=94.90  E-value=0.0069  Score=46.34  Aligned_cols=24  Identities=33%  Similarity=0.639  Sum_probs=21.5

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      ++.|+|+|.+|+|||||...+.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCC
Confidence            467899999999999999999864

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {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: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.89  E-value=0.037  Score=45.72  Aligned_cols=102  Identities=11%  Similarity=0.105  Sum_probs=53.1

Q ss_pred             HHHHhc-CCCeEEEEEecCCCcHHHHHHHHHHhhcc----CC-CCCcEEEEEEecCcc-CHHHHHHHHHHHhCCCCcc--
Q 045709          157 WRCLME-EHAGIVGLYGMGGVGKTTLLTQINNRFFD----TP-NHFDFVIWVVVSRDL-QLEKIQESIAKKIGLFNES--  227 (337)
Q Consensus       157 ~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~~~----~~-~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~--  227 (337)
                      ++.|.. .+...++|+|.+|+|||+|+..+......    .. ..-..++++-+.... ...++...+...-.....-  
T Consensus        59 ID~l~pig~GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tvvv  138 (285)
T d2jdia3          59 VDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVV  138 (285)
T ss_dssp             HHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEE
T ss_pred             EecccCccCCCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhcccccccceEEE
Confidence            344433 35678899999999999999877655311    01 112245666665543 3344444444322111000  


Q ss_pred             --ccCCCHHHH------HHHHHHHh--cCCcEEEEEecCCC
Q 045709          228 --WKNKSMQEK------AQEIFKIL--SKKKFVLLLDDIWE  258 (337)
Q Consensus       228 --~~~~~~~~~------~~~l~~~l--~~k~~LlVlDdv~~  258 (337)
                        ....+....      .-.+.+++  +++..|+++||+-.
T Consensus       139 ~~ts~~~~~~r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr  179 (285)
T d2jdia3         139 SATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSK  179 (285)
T ss_dssp             EECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHH
T ss_pred             EECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcChHH
Confidence              011121111      11122333  58999999999753

>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=94.87  E-value=0.0071  Score=47.76  Aligned_cols=20  Identities=50%  Similarity=0.544  Sum_probs=18.3

Q ss_pred             eEEEEEecCCCcHHHHHHHH
Q 045709          166 GIVGLYGMGGVGKTTLLTQI  185 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v  185 (337)
                      -+|+|+|..|+||||+|+.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999877

>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=94.85  E-value=0.0074  Score=46.12  Aligned_cols=23  Identities=35%  Similarity=0.541  Sum_probs=20.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.|+|.+|+|||+|+..+.+..
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~~~   30 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQSY   30 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            47899999999999999987654

>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=94.85  E-value=0.015  Score=46.65  Aligned_cols=57  Identities=14%  Similarity=0.168  Sum_probs=37.4

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccC-------------CCCCcEEEEEEecCccCHHHHHHHHHHHh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDT-------------PNHFDFVIWVVVSRDLQLEKIQESIAKKI  221 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~-------------~~~f~~~~wv~~~~~~~~~~~~~~i~~~l  221 (337)
                      ...++.|.|.+|+|||+|+..++.+....             ......+.|++........ ....+...+
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~-~~~~~~~~~  102 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPE-RIMQMAEHA  102 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHH-HHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCCcCHH-HHHHHHhhc
Confidence            56899999999999999999998766210             0112356788776554433 333444444

>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=94.84  E-value=0.0073  Score=45.07  Aligned_cols=23  Identities=35%  Similarity=0.475  Sum_probs=20.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.++|.+|+|||||+..+.+..
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~   24 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDR   24 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999987754

>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=94.84  E-value=0.0075  Score=45.67  Aligned_cols=22  Identities=36%  Similarity=0.492  Sum_probs=19.4

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.++|.+|+|||||+..+.+..
T Consensus         5 i~vvG~~~vGKTSli~~l~~~~   26 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVEDK   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999987643

>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=94.83  E-value=0.0072  Score=46.13  Aligned_cols=23  Identities=39%  Similarity=0.475  Sum_probs=19.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.++|.+|+|||||...+.++.
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~~   26 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVNDK   26 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHcCC
Confidence            37899999999999999987643

>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=94.83  E-value=0.0076  Score=45.91  Aligned_cols=23  Identities=35%  Similarity=0.537  Sum_probs=19.9

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.|+|.+|+|||+|...+..+.
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~~   29 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQSY   29 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999887653

>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=94.82  E-value=0.012  Score=46.98  Aligned_cols=41  Identities=17%  Similarity=0.082  Sum_probs=28.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSR  206 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~  206 (337)
                      ...++.|+|.+|+|||+||.+++....  ...-..++|++...
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~~~~~--~~~~~~~~~~s~e~   65 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFLYNGI--IEFDEPGVFVTFEE   65 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH--HHHCCCEEEEESSS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH--HhcCCCcccccccC
Confidence            678999999999999999987654331  12222456665543

>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=94.81  E-value=0.0075  Score=45.90  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=19.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.++|.+|+|||+|+..+.+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36899999999999999988654

>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=94.78  E-value=0.0081  Score=46.08  Aligned_cols=24  Identities=38%  Similarity=0.596  Sum_probs=21.5

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      .+.|+|+|.+|+|||||...+.+.
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999999865

>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=94.77  E-value=0.0078  Score=45.75  Aligned_cols=22  Identities=27%  Similarity=0.649  Sum_probs=19.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.++|.+|+|||+|...+.++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            6799999999999999998754

>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=94.76  E-value=0.022  Score=48.30  Aligned_cols=106  Identities=15%  Similarity=0.039  Sum_probs=58.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhCCCCccccCCCHHHHHHHHHHHhc
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIGLFNESWKNKSMQEKAQEIFKILS  245 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~l~~~l~  245 (337)
                      ..|.|.|..|+||||++..++...   .... .++-+.-.....+..         ................+.++..|+
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i---~~~~-rivtiEd~~El~l~~---------~~~~~~~~~~~~~~~~~ll~~~lR  233 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFI---PKEE-RIISIEDTEEIVFKH---------HKNYTQLFFGGNITSADCLKSCLR  233 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGS---CTTC-CEEEEESSCCCCCSS---------CSSEEEEECBTTBCHHHHHHHHTT
T ss_pred             CCEEEEeeccccchHHHHHHhhhc---cccc-ceeeccchhhhhccc---------ccccceeccccchhHHHHHHHHhc
Confidence            447899999999999999998765   2222 222222111111000         000000011111123455777888


Q ss_pred             CCcEEEEEecCCCccccccccCCCCCCCCCCcEEEEeeCChhH
Q 045709          246 KKKFVLLLDDIWELVDLDQVGLPIPSRTSVSNKVVFTTREFGV  288 (337)
Q Consensus       246 ~k~~LlVlDdv~~~~~~~~l~~~l~~~~~g~s~IiiTtr~~~v  288 (337)
                      ..+=.+|+.++.+.+.+.-+ .....+..|   ++.|.+..+.
T Consensus       234 ~~pd~iivgEiR~~ea~~~l-~a~~tGh~g---~~tT~Ha~s~  272 (323)
T d1g6oa_         234 MRPDRIILGELRSSEAYDFY-NVLCSGHKG---TLTTLHAGSS  272 (323)
T ss_dssp             SCCSEEEESCCCSTHHHHHH-HHHHTTCSC---EEEEECCSSH
T ss_pred             cCCCcccCCccCchhHHHHH-HHHHhcCCc---EEEEECCCCH
Confidence            88889999999988777644 333333333   6666665544

>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=94.72  E-value=0.0084  Score=45.40  Aligned_cols=24  Identities=25%  Similarity=0.365  Sum_probs=20.3

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .-|.|+|.+|+|||||...+.+..
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~~~   28 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVEGQ   28 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCC
Confidence            457899999999999999987643

>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=94.72  E-value=0.0084  Score=45.76  Aligned_cols=21  Identities=33%  Similarity=0.498  Sum_probs=18.9

Q ss_pred             EEEEecCCCcHHHHHHHHHHh
Q 045709          168 VGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~  188 (337)
                      |.++|.+|+|||||+..+...
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988754

>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=94.68  E-value=0.007  Score=46.81  Aligned_cols=22  Identities=36%  Similarity=0.468  Sum_probs=19.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            3779999999999999988754

>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=94.68  E-value=0.0082  Score=45.92  Aligned_cols=23  Identities=39%  Similarity=0.527  Sum_probs=19.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.++|.+|+|||||+..+.+..
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~~   28 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRNE   28 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999987643

>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=94.67  E-value=0.0084  Score=45.56  Aligned_cols=22  Identities=36%  Similarity=0.392  Sum_probs=18.7

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.++|.+|+|||+|+..+.+..
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~~   25 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGVE   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC-
T ss_pred             EEEECCCCcCHHHHHHHHhCCc
Confidence            6799999999999999886643

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.64  E-value=0.0092  Score=46.96  Aligned_cols=24  Identities=25%  Similarity=0.277  Sum_probs=20.9

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.|.|+|.+|+|||||...+....
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~   24 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQ   24 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCC
Confidence            468999999999999999997754

>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=94.62  E-value=0.013  Score=44.54  Aligned_cols=32  Identities=19%  Similarity=0.272  Sum_probs=23.3

Q ss_pred             HHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          158 RCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       158 ~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.+.+.+.--|.++|.+|+|||||...+.+..
T Consensus         5 ~~~~~~k~~kIvlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_           5 SKIFGNKEMRILMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             HHHHTTCCEEEEEEEETTSSHHHHHHHTTCCC
T ss_pred             hhhhCCCeEEEEEECCCCCCHHHHHHHHhcCC
Confidence            33444444457799999999999999986543

>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=94.62  E-value=0.0088  Score=45.32  Aligned_cols=22  Identities=36%  Similarity=0.590  Sum_probs=19.5

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.++|.+|+|||+|+..+....
T Consensus         6 ivvvG~~~vGKTsli~r~~~~~   27 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQGI   27 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            6799999999999999987654

>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=94.61  E-value=0.0092  Score=45.17  Aligned_cols=22  Identities=36%  Similarity=0.596  Sum_probs=19.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.++|.+|+|||||+..+.++.
T Consensus         6 i~viG~~~vGKTsli~~l~~~~   27 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQNH   27 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHhCC
Confidence            7899999999999999987754

>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=94.57  E-value=0.0095  Score=45.61  Aligned_cols=23  Identities=30%  Similarity=0.328  Sum_probs=19.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.|+|.+|+|||+|+..+.+..
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~~   26 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKDQ   26 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            46789999999999999887754

>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=94.55  E-value=0.017  Score=46.02  Aligned_cols=34  Identities=32%  Similarity=0.546  Sum_probs=26.9

Q ss_pred             HHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          153 FDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       153 ~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++.|..+|.   .+...++|.+|+|||||...+..+.
T Consensus        86 ~~~L~~~l~---~kt~~~~G~SGVGKSTLiN~L~~~~  119 (225)
T d1u0la2          86 IEELKEYLK---GKISTMAGLSGVGKSSLLNAINPGL  119 (225)
T ss_dssp             HHHHHHHHS---SSEEEEECSTTSSHHHHHHHHSTTC
T ss_pred             HhhHHHHhc---CCeEEEECCCCCCHHHHHHhhcchh
Confidence            566666663   4678899999999999999986554

>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=94.54  E-value=0.0095  Score=45.24  Aligned_cols=23  Identities=22%  Similarity=0.327  Sum_probs=19.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.++|.+|+|||+|...+.+..
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~~   27 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36789999999999999987654

>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=94.50  E-value=0.0096  Score=45.39  Aligned_cols=23  Identities=39%  Similarity=0.523  Sum_probs=19.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      .--|.++|.+|+|||||...+..
T Consensus        16 ~~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          16 EVRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEEECCCCCCHHHHHHHHhc
Confidence            34588999999999999998854

>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=94.48  E-value=0.0094  Score=45.77  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|+|+|.+|+|||||...+.+..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~   24 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKK   24 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48899999999999999998643

>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=94.47  E-value=0.021  Score=49.19  Aligned_cols=65  Identities=17%  Similarity=0.145  Sum_probs=38.2

Q ss_pred             hhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHH
Q 045709          151 LTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIA  218 (337)
Q Consensus       151 ~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  218 (337)
                      .....+...+   ..++..|.|++|+||||++..+..........-...+.++.........+...+.
T Consensus       152 ~Q~~A~~~al---~~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~~  216 (359)
T d1w36d1         152 WQKVAAAVAL---TRRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESLG  216 (359)
T ss_dssp             HHHHHHHHHH---TBSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHHT
T ss_pred             HHHHHHHHHH---cCCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCcHHHHHHHHHHHH
Confidence            3444455444   2478999999999999988765544322222233456666665544444444433

>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=94.45  E-value=0.01  Score=46.24  Aligned_cols=22  Identities=36%  Similarity=0.548  Sum_probs=19.5

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.|+|.+|+|||||+..+.+..
T Consensus         9 ivvvG~~~vGKTsli~~l~~~~   30 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDDT   30 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHCC
T ss_pred             EEEECCCCcCHHHHHHHHhhCC
Confidence            7799999999999999988654

>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=94.44  E-value=0.01  Score=45.73  Aligned_cols=23  Identities=35%  Similarity=0.394  Sum_probs=20.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.|+|.+|+|||+|...+..+.
T Consensus         7 KivviG~~~vGKTsli~~~~~~~   29 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTNA   29 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999987654

>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=94.37  E-value=0.012  Score=45.43  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=19.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.++|.+|+|||+|...+....
T Consensus         4 KivllG~~~vGKTsl~~r~~~~~   26 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKIIH   26 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhhCC
Confidence            36799999999999999987654

>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=94.35  E-value=0.011  Score=44.87  Aligned_cols=23  Identities=43%  Similarity=0.533  Sum_probs=19.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.|+|.+|+|||+|+..+.+..
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~~   30 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDGA   30 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            37899999999999999887653

>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=94.32  E-value=0.012  Score=45.54  Aligned_cols=22  Identities=41%  Similarity=0.472  Sum_probs=19.5

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.|+|.+|+|||+|...+.++.
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~~   33 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYANDA   33 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHhhCC
Confidence            7899999999999999987654

>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=94.32  E-value=0.012  Score=45.32  Aligned_cols=22  Identities=45%  Similarity=0.603  Sum_probs=19.4

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.++|.+|+|||||+..+.+..
T Consensus         5 v~vvG~~~vGKSSLi~~l~~~~   26 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVNKK   26 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999987643

>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=94.31  E-value=0.012  Score=44.48  Aligned_cols=23  Identities=30%  Similarity=0.333  Sum_probs=19.3

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.++|.+|+|||||...+....
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~~   26 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASGQ   26 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            36789999999999999886644

>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=94.27  E-value=0.014  Score=47.05  Aligned_cols=24  Identities=25%  Similarity=0.308  Sum_probs=21.5

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+|+|.|..|+||||+|+.+.+.+
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            589999999999999999997654

>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=94.19  E-value=0.0083  Score=46.06  Aligned_cols=20  Identities=40%  Similarity=0.712  Sum_probs=18.5

Q ss_pred             EEEEecCCCcHHHHHHHHHH
Q 045709          168 VGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~  187 (337)
                      |+|+|.+|+|||||...+.+
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            89999999999999999864

>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=94.18  E-value=0.013  Score=44.74  Aligned_cols=21  Identities=43%  Similarity=0.676  Sum_probs=18.9

Q ss_pred             EEEEecCCCcHHHHHHHHHHh
Q 045709          168 VGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~  188 (337)
                      |.++|.+|+|||||+..+.+.
T Consensus         9 I~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            789999999999999888764

>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=94.14  E-value=0.012  Score=45.74  Aligned_cols=19  Identities=42%  Similarity=0.639  Sum_probs=17.4

Q ss_pred             EEEEEecCCCcHHHHHHHH
Q 045709          167 IVGLYGMGGVGKTTLLTQI  185 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v  185 (337)
                      -|.++|.+|+|||||+..+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4679999999999999998

>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=94.13  E-value=0.013  Score=44.82  Aligned_cols=22  Identities=32%  Similarity=0.576  Sum_probs=19.4

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.++|.+|+|||||...+.+..
T Consensus        10 i~vvG~~~vGKTsli~~l~~~~   31 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDDT   31 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            7899999999999999887644

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=94.09  E-value=0.013  Score=43.83  Aligned_cols=23  Identities=30%  Similarity=0.395  Sum_probs=19.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|+++|.+|+|||||...+....
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~~   25 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGRE   25 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47799999999999999987543

>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=94.08  E-value=0.014  Score=44.32  Aligned_cols=24  Identities=38%  Similarity=0.392  Sum_probs=20.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .-|.++|.+|+|||||+..+.++.
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~   28 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYDE   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSC
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCC
Confidence            357899999999999999987643

>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=94.08  E-value=0.014  Score=44.81  Aligned_cols=22  Identities=27%  Similarity=0.350  Sum_probs=19.4

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.++|.+|+|||+|+..+.+..
T Consensus         5 ivliG~~~vGKTsli~r~~~~~   26 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKDC   26 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999999887754

>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=94.04  E-value=0.014  Score=44.30  Aligned_cols=23  Identities=35%  Similarity=0.527  Sum_probs=19.7

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.++|.+|+|||+|+..+.++.
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHSS
T ss_pred             EEEEECCCCcCHHHHHHHHHhCC
Confidence            36788999999999999988754

>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=94.02  E-value=0.01  Score=45.77  Aligned_cols=21  Identities=48%  Similarity=0.733  Sum_probs=18.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHH
Q 045709          167 IVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      -|+|+|.+|+|||||...+.+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999998854

>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=93.92  E-value=0.015  Score=44.20  Aligned_cols=22  Identities=41%  Similarity=0.439  Sum_probs=19.1

Q ss_pred             EEEEEecCCCcHHHHHHHHHHh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      -|.++|.+|+|||+|+..+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            4779999999999999988654

>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=93.89  E-value=0.018  Score=44.62  Aligned_cols=23  Identities=30%  Similarity=0.421  Sum_probs=19.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.++|.+|+|||+|...+....
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~~   26 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRIIH   26 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            36799999999999999986654

>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=93.88  E-value=0.016  Score=44.92  Aligned_cols=22  Identities=36%  Similarity=0.428  Sum_probs=19.1

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |.++|.+|+|||+|+..+.+..
T Consensus         6 vvllG~~~vGKTSli~r~~~~~   27 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTNK   27 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCcCHHHHHHHHHhCC
Confidence            6799999999999998887654

>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=93.86  E-value=0.061  Score=44.01  Aligned_cols=40  Identities=18%  Similarity=0.133  Sum_probs=28.3

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEec
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVS  205 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~  205 (337)
                      +..++.|.|.+|+|||+|+..++.+.. ....+ .+++++..
T Consensus        34 ~G~l~vi~G~~G~GKT~~~~~la~~~a-~~~g~-~v~~~s~E   73 (277)
T d1cr2a_          34 GGEVIMVTSGSGMGKSTFVRQQALQWG-TAMGK-KVGLAMLE   73 (277)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHHH-HTSCC-CEEEEESS
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHhhh-hhccc-ceeEeeec
Confidence            457899999999999999999887641 12233 35555543

>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=93.75  E-value=0.0089  Score=45.51  Aligned_cols=21  Identities=38%  Similarity=0.520  Sum_probs=17.2

Q ss_pred             EEEEecCCCcHHHHHHHHHHh
Q 045709          168 VGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~  188 (337)
                      |.++|.+|+|||+|...+.+.
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999887554

>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=93.71  E-value=0.013  Score=44.83  Aligned_cols=25  Identities=24%  Similarity=0.380  Sum_probs=21.2

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHH
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      ++...|+|+|.+++|||||...+..
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            3467899999999999999988744

>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=93.69  E-value=0.018  Score=44.09  Aligned_cols=23  Identities=22%  Similarity=0.369  Sum_probs=20.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|.++|.+|+|||||...+.+..
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~~   29 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTGS   29 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHhCC
Confidence            47899999999999999887754

>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=93.67  E-value=0.013  Score=44.95  Aligned_cols=24  Identities=29%  Similarity=0.465  Sum_probs=19.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHH
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      +.--|.++|.+|+|||||...+..
T Consensus        16 k~~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          16 KELRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhc
Confidence            445677999999999999998754

>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=93.59  E-value=0.026  Score=43.09  Aligned_cols=26  Identities=27%  Similarity=0.171  Sum_probs=21.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...-|.|.|.+|+||||+|..+..+-
T Consensus        13 ~g~gvl~~G~sG~GKStlal~l~~~g   38 (176)
T d1kkma_          13 YGLGVLITGDSGVGKSETALELVQRG   38 (176)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHcC
Confidence            34668899999999999999887643

>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=93.52  E-value=0.019  Score=44.03  Aligned_cols=23  Identities=39%  Similarity=0.489  Sum_probs=20.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      --|+|+|.+|+|||||...+.+.
T Consensus         9 ~kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           9 IKVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
Confidence            35899999999999999988764

>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=93.37  E-value=0.023  Score=45.20  Aligned_cols=24  Identities=29%  Similarity=0.379  Sum_probs=20.2

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .-|.++|.+|+|||||++.+....
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~~   30 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRILH   30 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            457899999999999999986544

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=93.29  E-value=0.029  Score=42.83  Aligned_cols=25  Identities=28%  Similarity=0.312  Sum_probs=20.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      ...-|.|.|.+|+||||||..+..+
T Consensus        14 ~g~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          14 FGVGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHTT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            3456889999999999999988654

>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=93.25  E-value=0.013  Score=44.62  Aligned_cols=21  Identities=38%  Similarity=0.542  Sum_probs=8.3

Q ss_pred             EEEEecCCCcHHHHHHHHHHh
Q 045709          168 VGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~  188 (337)
                      |.++|.+|+|||||+..+..+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            779999999999999877653

>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=93.17  E-value=0.044  Score=44.63  Aligned_cols=39  Identities=23%  Similarity=0.306  Sum_probs=28.3

Q ss_pred             hhHHHHHHHHhcC--CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          151 LTFDRVWRCLMEE--HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       151 ~~~~~l~~~L~~~--~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+.++...+...  ..-.|.|+|.+|+|||||...++.+.
T Consensus        16 ~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~~   56 (257)
T d1h65a_          16 TKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGER   56 (257)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            3444555555443  34578899999999999999998754

>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=93.05  E-value=0.046  Score=42.84  Aligned_cols=25  Identities=20%  Similarity=0.021  Sum_probs=22.1

Q ss_pred             eEEEEEecC-CCcHHHHHHHHHHhhc
Q 045709          166 GIVGLYGMG-GVGKTTLLTQINNRFF  190 (337)
Q Consensus       166 ~vi~I~G~~-GiGKTtLa~~v~~~~~  190 (337)
                      +.+.|.|-| |+||||++..++..+.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa   27 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAK   27 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHH
Confidence            568899998 9999999999988883

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=93.03  E-value=0.038  Score=41.88  Aligned_cols=26  Identities=23%  Similarity=0.175  Sum_probs=21.5

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ...-|.|.|.+|+||||+|..+..+-
T Consensus        14 ~g~gvli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          14 YGVGVLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHcC
Confidence            34668899999999999998877653

>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=92.54  E-value=0.011  Score=44.29  Aligned_cols=22  Identities=36%  Similarity=0.466  Sum_probs=19.8

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |+++|.+|+|||||...+....
T Consensus         3 I~liG~~n~GKSSLin~l~g~~   24 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNED   24 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999997654

>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=92.07  E-value=0.068  Score=41.47  Aligned_cols=38  Identities=11%  Similarity=0.058  Sum_probs=29.8

Q ss_pred             hHHHHHHHHhc-CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          152 TFDRVWRCLME-EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       152 ~~~~l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -+..+..+|.. ++...+.++|+++.|||++|..+.+-.
T Consensus        39 Fl~~l~~~l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          39 FLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            34555566644 467899999999999999999887766

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=91.76  E-value=0.061  Score=42.81  Aligned_cols=25  Identities=40%  Similarity=0.473  Sum_probs=21.5

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .++|+|+|-+++|||||+..+....
T Consensus         5 ~p~IaIiGh~d~GKSTL~~~L~~~~   29 (227)
T d1g7sa4           5 SPIVSVLGHVDHGKTTLLDHIRGSA   29 (227)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCccHHHHHHHHHhhc
Confidence            4679999999999999999886653

>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=91.37  E-value=0.15  Score=42.27  Aligned_cols=54  Identities=17%  Similarity=0.195  Sum_probs=27.7

Q ss_pred             eEEEEEecCCCcHHHHHH-HHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHH
Q 045709          166 GIVGLYGMGGVGKTTLLT-QINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKK  220 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~-~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  220 (337)
                      +.+.|.|.+|+||||.+. .+..-.......-..+++++.++. ....+...+...
T Consensus        25 g~~lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~t~~-aa~~~~~~~~~~   79 (318)
T d1pjra1          25 GPLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTNK-AAREMRERVQSL   79 (318)
T ss_dssp             SCEEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESSHH-HHHHHHHHHHHH
T ss_pred             CCEEEEecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEeccHH-HHHHHHHHHHhh
Confidence            346788999999997553 343332111122244555554432 233344444433

>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=91.14  E-value=1.3  Score=34.97  Aligned_cols=42  Identities=17%  Similarity=0.022  Sum_probs=34.5

Q ss_pred             cchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          148 GLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       148 Gr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ......+++.+.+..+......|+|..|+|||.++.......
T Consensus        59 ~Q~~~~~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~~~  100 (233)
T d2eyqa3          59 DQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLA  100 (233)
T ss_dssp             HHHHHHHHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHHHH
Confidence            345667778888887888899999999999999998877665

>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=90.98  E-value=0.067  Score=43.94  Aligned_cols=26  Identities=23%  Similarity=0.130  Sum_probs=22.2

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.+.|+|+|-+|.|||||+..+....
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~   30 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYT   30 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999886543

>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=90.85  E-value=0.067  Score=40.73  Aligned_cols=21  Identities=33%  Similarity=0.507  Sum_probs=19.2

Q ss_pred             EEEEEecCCCcHHHHHHHHHH
Q 045709          167 IVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      .|+|+|.+++|||||...+..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            589999999999999999874

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=90.47  E-value=0.034  Score=44.38  Aligned_cols=24  Identities=33%  Similarity=0.533  Sum_probs=19.1

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +...++|.+|+|||||...+..+.
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             ceEEEECCCCccHHHHHHhhccHh
Confidence            556789999999999999986544

>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=90.32  E-value=0.12  Score=43.55  Aligned_cols=24  Identities=25%  Similarity=0.212  Sum_probs=21.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -.|.|=|.-|+||||+++.+.+..
T Consensus         7 ~rI~iEG~iGsGKSTl~~~L~~~l   30 (333)
T d1p6xa_           7 VRIYLDGVYGIGKSTTGRVMASAA   30 (333)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHSGG
T ss_pred             EEEEEECCccCCHHHHHHHHHHHh
Confidence            457788999999999999999887

>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=90.26  E-value=0.1  Score=42.65  Aligned_cols=22  Identities=41%  Similarity=0.489  Sum_probs=19.8

Q ss_pred             eEEEEEecCCCcHHHHHHHHHH
Q 045709          166 GIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      +.|+|+|-.|.|||||+..+..
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~   24 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLY   24 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCcHHHHHHHHHH
Confidence            6799999999999999998854

>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=90.07  E-value=0.024  Score=43.75  Aligned_cols=24  Identities=25%  Similarity=0.367  Sum_probs=20.0

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ++..|+|++|+||||+...+.--+
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~~~L   48 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFVTAL   48 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            455689999999999999987654

>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=89.00  E-value=0.14  Score=43.07  Aligned_cols=23  Identities=35%  Similarity=0.440  Sum_probs=20.8

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .|.|=|.-|+||||+++.+.+..
T Consensus         7 rI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           7 RIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEESSSSCTTHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47788999999999999998877

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal 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: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=88.60  E-value=0.12  Score=42.31  Aligned_cols=23  Identities=30%  Similarity=0.525  Sum_probs=20.0

Q ss_pred             EEEEEecCCCcHHHHHHHHHHhh
Q 045709          167 IVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      -|+|+|++.+|||||...+-+..
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~~   26 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKAG   26 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHTC
T ss_pred             eEEEECCCCCCHHHHHHHHHCCC
Confidence            58999999999999999887543

>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=88.57  E-value=0.11  Score=43.08  Aligned_cols=21  Identities=24%  Similarity=0.563  Sum_probs=18.2

Q ss_pred             CeEEEEEecCCCcHHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQI  185 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v  185 (337)
                      .++..|+|.+|+|||++...+
T Consensus        24 ~~lnvlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          24 DRVTAIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             SSEEEEECCTTTCSTHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHH
Confidence            357889999999999998766

>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=88.29  E-value=0.13  Score=42.37  Aligned_cols=18  Identities=33%  Similarity=0.440  Sum_probs=14.3

Q ss_pred             eEEEEEecCCCcHHHHHH
Q 045709          166 GIVGLYGMGGVGKTTLLT  183 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~  183 (337)
                      ..+.|.|.+|+||||.+.
T Consensus        15 ~~~lI~g~aGTGKTt~l~   32 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVIT   32 (306)
T ss_dssp             SEEEECCCTTSCHHHHHH
T ss_pred             CCEEEEeeCCccHHHHHH
Confidence            446788999999997543

>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=87.99  E-value=0.31  Score=39.57  Aligned_cols=36  Identities=17%  Similarity=0.233  Sum_probs=27.4

Q ss_pred             HHHHHHHhc--CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          154 DRVWRCLME--EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       154 ~~l~~~L~~--~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..+..+|..  +....+.++|+|+.|||+++..+.+-.
T Consensus        91 ~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          91 SVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            344455532  456789999999999999999987755

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=87.96  E-value=0.15  Score=42.31  Aligned_cols=23  Identities=35%  Similarity=0.543  Sum_probs=20.6

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNR  188 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~  188 (337)
                      --++|+|.|.+|||||...+.+.
T Consensus        11 ~kiGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          11 LKTGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHCC
Confidence            45999999999999999999865

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=87.94  E-value=0.23  Score=42.98  Aligned_cols=23  Identities=22%  Similarity=0.398  Sum_probs=20.4

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      .--|+|+|.+|+|||||...+..
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            45689999999999999999875

>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=86.22  E-value=0.22  Score=42.98  Aligned_cols=22  Identities=23%  Similarity=0.566  Sum_probs=19.1

Q ss_pred             CeEEEEEecCCCcHHHHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLTQIN  186 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~  186 (337)
                      .++-.|+|.+|+|||++...+.
T Consensus        25 ~~l~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          25 SNFTSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            4577899999999999988874

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {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 PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=86.13  E-value=0.19  Score=41.93  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=18.6

Q ss_pred             EEEEecCCCcHHHHHHHHHHhh
Q 045709          168 VGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       168 i~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      |+|+|.+.+|||||...+-+..
T Consensus         3 v~lvG~pn~GKStlfn~lt~~~   24 (319)
T d1wxqa1           3 IGVVGKPNVGKSTFFSAATLVD   24 (319)
T ss_dssp             EEEEECTTSSHHHHHHHHHC--
T ss_pred             EeEECCCCCCHHHHHHHHHCCC
Confidence            8999999999999999986543

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=86.00  E-value=0.24  Score=38.47  Aligned_cols=21  Identities=38%  Similarity=0.400  Sum_probs=18.6

Q ss_pred             EEEEEecCCCcHHHHHHHHHH
Q 045709          167 IVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       167 vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      -|+|+|-.+.|||||+..+..
T Consensus         5 ni~iiGhvd~GKSTL~~~Ll~   25 (204)
T d2c78a3           5 NVGTIGHVDHGKTTLTAALTY   25 (204)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            489999999999999988854

>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=85.81  E-value=0.15  Score=42.93  Aligned_cols=24  Identities=29%  Similarity=0.101  Sum_probs=19.4

Q ss_pred             eEEEEEecCCCcHHHHHHHHHHhh
Q 045709          166 GIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       166 ~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..|.|=|.-|+||||+++.+.+..
T Consensus         5 lrI~IEG~iGsGKTTl~~~La~~l   28 (329)
T d1e2ka_           5 LRVYIDGPHGMGKTTTTQLLVALG   28 (329)
T ss_dssp             EEEEECSCTTSSHHHHHHHHTC--
T ss_pred             eEEEEECCcCCCHHHHHHHHHHHh
Confidence            357888999999999999997655

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) 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: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.59  E-value=0.26  Score=41.55  Aligned_cols=33  Identities=12%  Similarity=0.136  Sum_probs=25.0

Q ss_pred             HHHHHHhc-CCCeEEEEEecCCCcHHHHHHHHHH
Q 045709          155 RVWRCLME-EHAGIVGLYGMGGVGKTTLLTQINN  187 (337)
Q Consensus       155 ~l~~~L~~-~~~~vi~I~G~~GiGKTtLa~~v~~  187 (337)
                      .+.+++.+ ++.+-|+|+|-.|.|||||+-.+..
T Consensus         6 ~~~~lm~~~~~IRNI~iiGhvd~GKTTL~d~Ll~   39 (341)
T d1n0ua2           6 QMRSLMDKVTNVRNMSVIAHVDHGKSTLTDSLVQ   39 (341)
T ss_dssp             HHHHHHHCGGGEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             HHHHHhcCcccCcEEEEEeCCCCcHHHHHHHHHH
Confidence            34444433 3577899999999999999998864

>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=85.58  E-value=0.79  Score=32.41  Aligned_cols=52  Identities=15%  Similarity=0.123  Sum_probs=31.9

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhhccCCCCCcEEEEEEecCccCHHHHHHHHHHHhC
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRFFDTPNHFDFVIWVVVSRDLQLEKIQESIAKKIG  222 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  222 (337)
                      +.++..|+++.|.|||+++-.++...       ...+.+.+....-.......+...+.
T Consensus         7 ~~~~~ll~apTGsGKT~~~~~~~~~~-------~~~vli~~P~~~l~~q~~~~~~~~~~   58 (136)
T d1a1va1           7 SFQVAHLHAPTGSGKSTKVPAAYAAQ-------GYKVLVLNPSVAATLGFGAYMSKAHG   58 (136)
T ss_dssp             SCEEEEEECCTTSCTTTHHHHHHHTT-------TCCEEEEESCHHHHHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHc-------CCcEEEEcChHHHHHHHHHHHHHHhh
Confidence            46788899999999999887665433       12344555544334444444444443

>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=85.12  E-value=6.2  Score=29.78  Aligned_cols=41  Identities=17%  Similarity=0.055  Sum_probs=26.3

Q ss_pred             cccchhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          146 VVGLQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       146 ~vGr~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +-=|+-..+.+..++ +.+ + ..|+++.|.|||.++..+....
T Consensus        69 ~~Lr~yQ~eav~~~~-~~~-~-~ll~~~tG~GKT~~a~~~~~~~  109 (206)
T d2fz4a1          69 ISLRDYQEKALERWL-VDK-R-GCIVLPTGSGKTHVAMAAINEL  109 (206)
T ss_dssp             CCCCHHHHHHHHHHT-TTS-E-EEEEESSSTTHHHHHHHHHHHS
T ss_pred             CCcCHHHHHHHHHHH-hCC-C-cEEEeCCCCCceehHHhHHHHh
Confidence            334554455554444 332 3 3477899999999988887765

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal 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: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.95  E-value=0.27  Score=40.22  Aligned_cols=27  Identities=19%  Similarity=0.374  Sum_probs=23.7

Q ss_pred             CCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          163 EHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       163 ~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+..||+|+|+-+.|||+|+..++...
T Consensus        30 ~~v~vvsi~G~~~sGKS~llN~l~~~~   56 (277)
T d1f5na2          30 QPMVVVAIVGLYRTGKSYLMNKLAGKK   56 (277)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTCS
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHcCCC
Confidence            457899999999999999999987654

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {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 YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=84.56  E-value=0.25  Score=40.27  Aligned_cols=26  Identities=27%  Similarity=0.395  Sum_probs=22.1

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ..-.++|+|++.+|||||+..+.+..
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~~  136 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKKN  136 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTSC
T ss_pred             CceEEEEEecCccchhhhhhhhhccc
Confidence            34569999999999999999998754

>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=82.74  E-value=3.3  Score=33.10  Aligned_cols=41  Identities=17%  Similarity=0.042  Sum_probs=32.4

Q ss_pred             chhhHHHHHHHHhcCCCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          149 LQLTFDRVWRCLMEEHAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       149 r~~~~~~l~~~L~~~~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      ....+++|.+.+.++....-.+.|.-|+|||-+|.......
T Consensus        88 Q~~ai~ei~~d~~~~~~m~rLL~GdvGSGKT~Va~~a~~~~  128 (264)
T d1gm5a3          88 QKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILDN  128 (264)
T ss_dssp             HHHHHHHHHHHHHSSSCCCCEEECCSSSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccCcceeeeeccccccccHHHHHHHHHH
Confidence            45566777777777777788899999999999887766544

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=81.95  E-value=0.38  Score=39.87  Aligned_cols=19  Identities=42%  Similarity=0.758  Sum_probs=16.4

Q ss_pred             CeEEEEEecCCCcHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLT  183 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~  183 (337)
                      ..+-.+.|.+|.|||||..
T Consensus        14 ~~valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          14 GDVAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             CCEEEEEECTTSCHHHHTC
T ss_pred             CCEEEEEccCCCCcccccc
Confidence            4677899999999999875

>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=81.69  E-value=0.43  Score=41.32  Aligned_cols=25  Identities=24%  Similarity=0.306  Sum_probs=19.6

Q ss_pred             CeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          165 AGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      .+-+.|+|.+|+|||+++..+..+.
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~   74 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTG   74 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHH
Confidence            3457899999999999887665443

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal 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: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.64  E-value=0.5  Score=33.08  Aligned_cols=26  Identities=15%  Similarity=0.041  Sum_probs=22.7

Q ss_pred             CCeEEEEEecCCCcHHHHHHHHHHhh
Q 045709          164 HAGIVGLYGMGGVGKTTLLTQINNRF  189 (337)
Q Consensus       164 ~~~vi~I~G~~GiGKTtLa~~v~~~~  189 (337)
                      +.-.|.+.|..|+||+|||..+...+
T Consensus         5 qgf~i~~tg~~~~gk~~ia~al~~~l   30 (122)
T d1g8fa3           5 QGFSIVLGNSLTVSREQLSIALLSTF   30 (122)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             cceEEEEeCCCCCCHHHHHHHHHHHH
Confidence            44578899999999999999998877

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=81.46  E-value=0.43  Score=39.41  Aligned_cols=19  Identities=42%  Similarity=0.758  Sum_probs=16.2

Q ss_pred             CeEEEEEecCCCcHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLT  183 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~  183 (337)
                      ..+-.+.|.+|.|||||..
T Consensus        14 ~~~alfFGLSGTGKTTLs~   32 (313)
T d2olra1          14 GDVAVFFGLSGTGKTTLST   32 (313)
T ss_dssp             SCEEEEECSTTSSHHHHHC
T ss_pred             CCEEEEEccCCCCccccee
Confidence            4577899999999999874

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=80.05  E-value=0.47  Score=39.34  Aligned_cols=19  Identities=37%  Similarity=0.723  Sum_probs=16.1

Q ss_pred             CeEEEEEecCCCcHHHHHH
Q 045709          165 AGIVGLYGMGGVGKTTLLT  183 (337)
Q Consensus       165 ~~vi~I~G~~GiGKTtLa~  183 (337)
                      ..+-.+.|.+|.|||||..
T Consensus        14 gd~alfFGLSGTGKTTLs~   32 (323)
T d1ii2a1          14 GDVTVFFGLSGTGKTTLSA   32 (323)
T ss_dssp             CCEEEEECCTTSSHHHHHC
T ss_pred             CCEEEEEccCCCCccccee
Confidence            3566799999999999983