Psyllid ID: psy2892

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450--
Protein Sequence
MLVPFNTENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF
Secondary Structure (PSIPRED)
ccccccccccccccccccHHHHHHHHHHHHccccHHHHHHHcccccccccHHHHHHHHHHHHHHHccccccccHHHHHHHccccccccccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHcccccccEEEEEccccccHHHHHHHHHHHHHHHccccEEEEEccccHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHcccccEEcccccccHHHHHHHHHHHHHHHccccEEEEEEccccccccccccHHHHHHHHHHHHHHHHHHHcccEEEEcccccccccccccccccccccccccccccccEEEEEccccccccccccccEEEEEEEccccccccEEEEEEEccccccccc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHccccccHHHHHHHHHHHHHHcHHHHHHHHccccHHHcccHHHHHHHHHHHHHHHccccccHHHHHHHHHccccHHHHcHHHHHHHHHHHccccccHHHHHHHHHccHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHcccccccEEEEEEcccccHHHHHHHHHHHHHHHccccEEEEEccccHHHHHHHHHHHHccccHHHcccccccHcHHHHHHHHHHHHHccccEEcccccccHHHHHHHHHHHHHHcccccEEEEEHHHHHccccccccHHHHHHHHHHHHHHHHHHccccEEEHHHHHccHHcccccccccHHHHHcccHHHcccEEEEEEEcccccccccccccEEEEEEEccccccEEEEEEEEcccEEcccc
Coil and Loop (DISEMBL)
mlvpfntenkkfrvpphsieseQSVLGgllldntawdKIADclnsdyfyryDHRLIFKHIIKLInsshpadviTVFDslsntgnaeeiggLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLhnrgtndndvtgisTGFFELdkitsglqpgdliivagrpsmgktafslnigehiaienklpVAIFSMEMSGIQLAMRMLgsvgkldqhklrtgrlssddwpriNDSIKKINksqlyidetpslNVIELRANSRRLSRQCGKIGVIIIDYLQLMsansrgenratEISEISRNLKGlakeincpiLALSQLNRSLEqrqnkrpimsdlresgaieqdADVILFIYRdevynqnsadkGIAEIIVSKqrngpignirltfsgqytkfnnf
Flexible Loop (DISEMBL)
mlvpfntenkkfrvpphsiesEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLItvtdeissqafisrgkevKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKlhnrgtndndvtgISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSvgkldqhklrtgrlssddwpriNDSIKkinksqlyidetpslnVIELRansrrlsrqcGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPimsdlresgaieQDADVILFIYRDEVYNQNSADKGIAEIIVskqrngpignirltfsgqytkfnnf
Low Complexity Region (SEG)
MLVPFNTENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF
Disordered region (IsUnstruct)
************************VLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRT******DWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMS*****************NLKGLAKEINCPILALS************************IEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQY******
Disordered Region (DISOPRED)
*************VPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFS****************PLLNRVIKRINKL**********TGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYL*****************EISRNLKGLAKEINCPILALSQLNRSLE*RQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF
Disordered Region (DISEMBL)
MLVPFNTENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF
Disordered Region (DISPRO)
****FNTENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNR***********MSD*RESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLVPFNTENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF
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	452	2.2.26 [Sep-21-2011]
Q8FB22	471	Replicative DNA helicase	yes	N/A	0.988	0.949	0.506	1e-133
P0ACB1	471	Replicative DNA helicase	yes	N/A	0.988	0.949	0.502	1e-132
P0ACB0	471	Replicative DNA helicase	N/A	N/A	0.988	0.949	0.502	1e-132
Q8X5V3	471	Replicative DNA helicase	N/A	N/A	0.988	0.949	0.502	1e-132
Q9CNL6	467	Replicative DNA helicase	yes	N/A	0.969	0.937	0.519	1e-132
P0A1Q4	471	Replicative DNA helicase	yes	N/A	0.971	0.932	0.506	1e-129
P0A1Q5	471	Replicative DNA helicase	N/A	N/A	0.971	0.932	0.506	1e-129
P57611	459	Replicative DNA helicase	yes	N/A	0.973	0.958	0.494	1e-128
P45256	468	Replicative DNA helicase	yes	N/A	0.969	0.935	0.498	1e-128
Q8K932	465	Replicative DNA helicase	yes	N/A	0.973	0.946	0.492	1e-127

>sp|Q8FB22|DNAB_ECOL6 Replicative DNA helicase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=dnaB PE=3 SV=2

 Score =  474 bits (1219), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 233/460 (50%), Positives = 333/460 (72%), Gaps = 13/460 (2%)

Query: 4   PFN---TENKK-------FRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDH 53
           PFN   T+N++        +VPPHSIE+EQSVLGGL+LDN  WD +A+ + +D FY   H
Sbjct: 6   PFNKQQTDNRERDPQVAGLKVPPHSIEAEQSVLGGLMLDNERWDDVAERVVADDFYTRPH 65

Query: 54  RLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEI 113
           R IF  + +L  S  P D+IT+ +SL   G  + +GG +YL  L++N PSAANI  YA+I
Sbjct: 66  RHIFTEMARLQESGSPIDLITLAESLERQGQLDSVGGFAYLAELSKNTPSAANISAYADI 125

Query: 114 VRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPL 173
           VR+R ++R++I+V +EI+   F  +G+  + +LD AES++F IAE     ++G + I  +
Sbjct: 126 VRERAVVREMISVANEIAEAGFDPQGRTSEDLLDLAESRVFKIAESRANKDEGPKNIADV 185

Query: 174 LNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLN 233
           L+  + RI +L  +  +   VTG++TG+ +L+K T+GLQP DLIIVA RPSMGKT F++N
Sbjct: 186 LDATVARIEQLFQQPHDG--VTGVNTGYDDLNKKTAGLQPSDLIIVAARPSMGKTTFAMN 243

Query: 234 IGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK- 292
           + E+ A+    PV IFS+EM   Q+ MR L S+ ++DQ K+RTG+L  +DW RI+ ++  
Sbjct: 244 LVENAAMLQDKPVLIFSLEMPSEQIMMRSLASLSRVDQTKIRTGQLDDEDWARISGTMGI 303

Query: 293 KINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISE 352
            + K  +YID++  L   E+R+ +RR++R+ G IG+I+IDYLQLM   +  +NR  EI+E
Sbjct: 304 LLEKRNIYIDDSSGLTPTEVRSRARRIAREHGGIGLIMIDYLQLMRVPALSDNRTLEIAE 363

Query: 353 ISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEV 412
           ISR+LK LAKE+N P++ALSQLNRSLEQR +KRP+ SDLRESG+IEQDAD+I+FIYRDEV
Sbjct: 364 ISRSLKALAKELNVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEV 423

Query: 413 YNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF 452
           Y++NS  KGIAEII+ KQRNGPIG +RLTF+GQ+++F+N+
Sbjct: 424 YHENSDLKGIAEIIIGKQRNGPIGTVRLTFNGQWSRFDNY 463

Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity and contains distinct active sites for ATP binding, DNA binding, and interaction with dnaC protein, primase, and other prepriming proteins.
Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) (taxid: 199310)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: 1EC: 2

>sp|P0ACB1|DNAB_SHIFL Replicative DNA helicase OS=Shigella flexneri GN=dnaB PE=3 SV=1

 Score =  473 bits (1216), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 231/460 (50%), Positives = 330/460 (71%), Gaps = 13/460 (2%)

Query: 4   PFNTENKK----------FRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDH 53
           PFN +  +           +VPPHSIE+EQSVLGGL+LDN  WD +A+ + +D FY   H
Sbjct: 6   PFNKQQAEPRERDPQVAGLKVPPHSIEAEQSVLGGLMLDNERWDDVAERVVADDFYTRPH 65

Query: 54  RLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEI 113
           R IF  + +L  S  P D+IT+ +SL   G  + +GG +YL  L++N PSAANI  YA+I
Sbjct: 66  RHIFTEMARLQESGSPIDLITLAESLERQGQLDSVGGFAYLAELSKNTPSAANISAYADI 125

Query: 114 VRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPL 173
           VR+R ++R++I+V +EI+   F  +G+  + +LD AES++F IAE     ++G + I  +
Sbjct: 126 VRERAVVREMISVANEIAEAGFDPQGRTSEDLLDLAESRVFKIAESRANKDEGPKNIADV 185

Query: 174 LNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLN 233
           L+  + RI +L  +    + VTG++TG+ +L+K T+GLQP DLIIVA RPSMGKT F++N
Sbjct: 186 LDATVARIEQLFQQ--PHDGVTGVNTGYDDLNKKTAGLQPSDLIIVAARPSMGKTTFAMN 243

Query: 234 IGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK- 292
           + E+ A+    PV IFS+EM   Q+ MR L S+ ++DQ K+RTG+L  +DW RI+ ++  
Sbjct: 244 LVENAAMLQDKPVLIFSLEMPSEQIMMRSLASLSRVDQTKIRTGQLDDEDWARISGTMGI 303

Query: 293 KINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISE 352
            + K  +YID++  L   E+R+ +RR++R+ G IG+I+IDYLQLM   +  +NR  EI+E
Sbjct: 304 LLEKRNIYIDDSSGLTPTEVRSRARRIAREHGGIGLIMIDYLQLMRVPALSDNRTLEIAE 363

Query: 353 ISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEV 412
           ISR+LK LAKE+N P++ALSQLNRSLEQR +KRP+ SDLRESG+IEQDAD+I+FIYRDEV
Sbjct: 364 ISRSLKALAKELNVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEV 423

Query: 413 YNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF 452
           Y++NS  KGIAEII+ KQRNGPIG +RLTF+GQ+++F+N+
Sbjct: 424 YHENSDLKGIAEIIIGKQRNGPIGTVRLTFNGQWSRFDNY 463

Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity and contains distinct active sites for ATP binding, DNA binding, and interaction with dnaC protein, primase, and other prepriming proteins.

Shigella flexneri (taxid: 623)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|P0ACB0|DNAB_ECOLI Replicative DNA helicase OS=Escherichia coli (strain K12) GN=dnaB PE=1 SV=1

 Score =  473 bits (1216), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 231/460 (50%), Positives = 330/460 (71%), Gaps = 13/460 (2%)

Query: 4   PFNTENKK----------FRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDH 53
           PFN +  +           +VPPHSIE+EQSVLGGL+LDN  WD +A+ + +D FY   H
Sbjct: 6   PFNKQQAEPRERDPQVAGLKVPPHSIEAEQSVLGGLMLDNERWDDVAERVVADDFYTRPH 65

Query: 54  RLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEI 113
           R IF  + +L  S  P D+IT+ +SL   G  + +GG +YL  L++N PSAANI  YA+I
Sbjct: 66  RHIFTEMARLQESGSPIDLITLAESLERQGQLDSVGGFAYLAELSKNTPSAANISAYADI 125

Query: 114 VRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPL 173
           VR+R ++R++I+V +EI+   F  +G+  + +LD AES++F IAE     ++G + I  +
Sbjct: 126 VRERAVVREMISVANEIAEAGFDPQGRTSEDLLDLAESRVFKIAESRANKDEGPKNIADV 185

Query: 174 LNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLN 233
           L+  + RI +L  +    + VTG++TG+ +L+K T+GLQP DLIIVA RPSMGKT F++N
Sbjct: 186 LDATVARIEQLFQQ--PHDGVTGVNTGYDDLNKKTAGLQPSDLIIVAARPSMGKTTFAMN 243

Query: 234 IGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK- 292
           + E+ A+    PV IFS+EM   Q+ MR L S+ ++DQ K+RTG+L  +DW RI+ ++  
Sbjct: 244 LVENAAMLQDKPVLIFSLEMPSEQIMMRSLASLSRVDQTKIRTGQLDDEDWARISGTMGI 303

Query: 293 KINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISE 352
            + K  +YID++  L   E+R+ +RR++R+ G IG+I+IDYLQLM   +  +NR  EI+E
Sbjct: 304 LLEKRNIYIDDSSGLTPTEVRSRARRIAREHGGIGLIMIDYLQLMRVPALSDNRTLEIAE 363

Query: 353 ISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEV 412
           ISR+LK LAKE+N P++ALSQLNRSLEQR +KRP+ SDLRESG+IEQDAD+I+FIYRDEV
Sbjct: 364 ISRSLKALAKELNVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEV 423

Query: 413 YNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF 452
           Y++NS  KGIAEII+ KQRNGPIG +RLTF+GQ+++F+N+
Sbjct: 424 YHENSDLKGIAEIIIGKQRNGPIGTVRLTFNGQWSRFDNY 463

Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity and contains distinct active sites for ATP binding, DNA binding, and interaction with dnaC protein, primase, and other prepriming proteins.

Escherichia coli (strain K12) (taxid: 83333)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q8X5V3|DNAB_ECO57 Replicative DNA helicase OS=Escherichia coli O157:H7 GN=dnaB PE=3 SV=1

 Score =  473 bits (1216), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 231/460 (50%), Positives = 330/460 (71%), Gaps = 13/460 (2%)

Query: 4   PFNTENKK----------FRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDH 53
           PFN +  +           +VPPHSIE+EQSVLGGL+LDN  WD +A+ + +D FY   H
Sbjct: 6   PFNKQQAEPRERDPQVAGLKVPPHSIEAEQSVLGGLMLDNERWDDVAERVVADDFYTRPH 65

Query: 54  RLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEI 113
           R IF  + +L  S  P D+IT+ +SL   G  + +GG +YL  L++N PSAANI  YA+I
Sbjct: 66  RHIFTEMARLQESGSPIDLITLAESLERQGQLDSVGGFAYLAELSKNTPSAANISSYADI 125

Query: 114 VRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPL 173
           VR+R ++R++I+V +EI+   F  +G+  + +LD AES++F IAE     ++G + I  +
Sbjct: 126 VRERAVVREMISVANEIAEAGFDPQGRTSEDLLDLAESRVFKIAESRANKDEGPKNIADV 185

Query: 174 LNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLN 233
           L+  + RI +L  +    + VTG++TG+ +L+K T+GLQP DLIIVA RPSMGKT F++N
Sbjct: 186 LDATVARIEQLFQQ--PHDGVTGVNTGYDDLNKKTAGLQPSDLIIVAARPSMGKTTFAMN 243

Query: 234 IGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK- 292
           + E+ A+    PV IFS+EM   Q+ MR L S+ ++DQ K+RTG+L  +DW RI+ ++  
Sbjct: 244 LVENAAMLQDKPVLIFSLEMPSEQIMMRSLASLSRVDQTKIRTGQLDDEDWARISGTMGI 303

Query: 293 KINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISE 352
            + K  +YID++  L   E+R+ +RR++R+ G IG+I+IDYLQLM   +  +NR  EI+E
Sbjct: 304 LLEKRNIYIDDSSGLTPTEVRSRARRIAREHGGIGLIMIDYLQLMRVPALSDNRTLEIAE 363

Query: 353 ISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEV 412
           ISR+LK LAKE+N P++ALSQLNRSLEQR +KRP+ SDLRESG+IEQDAD+I+FIYRDEV
Sbjct: 364 ISRSLKALAKELNVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEV 423

Query: 413 YNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF 452
           Y++NS  KGIAEII+ KQRNGPIG +RLTF+GQ+++F+N+
Sbjct: 424 YHENSDLKGIAEIIIGKQRNGPIGTVRLTFNGQWSRFDNY 463

Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity and contains distinct active sites for ATP binding, DNA binding, and interaction with dnaC protein, primase, and other prepriming proteins.

Escherichia coli O157:H7 (taxid: 83334)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q9CNL6|DNAB_PASMU Replicative DNA helicase OS=Pasteurella multocida (strain Pm70) GN=dnaB PE=3 SV=1

 Score =  473 bits (1216), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 229/441 (51%), Positives = 319/441 (72%), Gaps = 3/441 (0%)

Query: 14  VPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVI 73
           VPPHS+E+EQSVLGG+L+    WD I+D L +D FY   HR+IF+ +  L+    P D+I
Sbjct: 18  VPPHSLEAEQSVLGGILIHPAHWDSISDMLIADDFYLAAHRVIFQEMENLLRQGKPIDLI 77

Query: 74  TVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQ 133
            +++ L     +E++GG +YL  L++N PS +NI  YA IVRDR ILR LI+V+++++  
Sbjct: 78  NLYEFLREKNLSEDVGGFAYLAELSKNTPSVSNIVSYAAIVRDRAILRDLISVSNDVAQS 137

Query: 134 AFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDND 193
            + ++G EVK ILDEAE K+F+I+EK    N+G Q I  +L + I RI +L ++    N 
Sbjct: 138 CYTTKGMEVKDILDEAERKVFAISEKRTTSNEGPQNICAILEKTIDRI-ELLSKTEGHNG 196

Query: 194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM 253
           +TG+STGF  LDK T+GLQP DLIIVA RPSMGKT F++N+ E+ A+++  PV +FS+EM
Sbjct: 197 ITGVSTGFDALDKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAALKSDKPVLVFSLEM 256

Query: 254 SGIQLAMRMLGSVGKLDQHKLRTGR-LSSDDWPRINDSIKKI-NKSQLYIDETPSLNVIE 311
              Q+ MR L S+ ++DQ K+RTG+ L   DW +I  ++    NK  LYID++  L   E
Sbjct: 257 PAEQIMMRSLASLSRVDQTKIRTGQGLDQSDWSKIGSTMGLFANKPNLYIDDSSGLTPTE 316

Query: 312 LRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL 371
           LR+ +RR+ R+ G + +I++DYLQLM A    +NR  EI+EISR+LK LAKE+  P++AL
Sbjct: 317 LRSRARRVYRENGGLSLIMVDYLQLMRAPGFADNRTLEIAEISRSLKALAKELEVPVIAL 376

Query: 372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR 431
           SQLNR+LE R +KRP+ SDLRESG+IEQDAD+I+FIYRDEVYN+NS DKG+AEII+ KQR
Sbjct: 377 SQLNRTLENRADKRPVNSDLRESGSIEQDADLIMFIYRDEVYNENSEDKGVAEIIIGKQR 436

Query: 432 NGPIGNIRLTFSGQYTKFNNF 452
           NGPIG +RL F GQ+++F+N 
Sbjct: 437 NGPIGRVRLAFRGQFSRFDNL 457

Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity and contains distinct active sites for ATP binding, DNA binding, and interaction with dnaC protein, primase, and other prepriming proteins.

Pasteurella multocida (strain Pm70) (taxid: 272843)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|P0A1Q4|DNAB_SALTY Replicative DNA helicase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=dnaB PE=3 SV=1

 Score =  461 bits (1185), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 224/442 (50%), Positives = 319/442 (72%), Gaps = 3/442 (0%)

Query: 12  FRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPAD 71
            +VPPHSIE+EQSVLGGL+LDN  WD +A+ + ++ FY   HR IF  + +L  S  P D
Sbjct: 24  IKVPPHSIEAEQSVLGGLMLDNERWDDVAERVVAEDFYTRPHRHIFTEMGRLQESGSPID 83

Query: 72  VITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEIS 131
           +IT+ +SL   G  + +GG +YL  L++N PSAANI  YA+IVR+R ++R +I V  EI+
Sbjct: 84  LITLAESLERQGQLDSVGGFAYLAELSKNTPSAANISAYADIVRERAVVRDMIAVAHEIA 143

Query: 132 SQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTND 191
              +  +G+   ++LD AES++F IAE     ++G + I  +L+  + RI +L  +    
Sbjct: 144 DAGYDPQGRNSDELLDLAESRVFQIAENRANKDEGPKSIDQILDATVARIEQLFQQ--PH 201

Query: 192 NDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM 251
           + VTG+ TG+ +L+K T+GLQ  DLIIVA RPSMGKT F++N+ E+ A+    PV IFS+
Sbjct: 202 DGVTGVDTGYQDLNKKTAGLQRSDLIIVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSL 261

Query: 252 EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK-KINKSQLYIDETPSLNVI 310
           EM G Q+ MRML S+ ++DQ ++RTG+L  +DW RI+ ++   + K  +YID++  L   
Sbjct: 262 EMPGEQIMMRMLASLSRVDQTRIRTGQLDDEDWARISGTMGILLEKRNMYIDDSSGLTPT 321

Query: 311 ELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILA 370
           E+R+ +RR+ R+ G + +I+IDYLQLM   S  +NR  EI+EISR+LK LAKE+  P++A
Sbjct: 322 EVRSRARRIFREHGGLSLIMIDYLQLMRVPSLSDNRTLEIAEISRSLKALAKELQVPVVA 381

Query: 371 LSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQ 430
           LSQLNRSLEQR +KRP+ SDLRESG+IEQDAD+I+FIYRDEVY++NS  KGIAEII+ KQ
Sbjct: 382 LSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEVYHENSDLKGIAEIIIGKQ 441

Query: 431 RNGPIGNIRLTFSGQYTKFNNF 452
           RNGPIG +RLTF+GQ+++F+N+
Sbjct: 442 RNGPIGTVRLTFNGQWSRFDNY 463

Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity and contains distinct active sites for ATP binding, DNA binding, and interaction with dnaC protein, primase, and other prepriming proteins.

Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (taxid: 99287)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|P0A1Q5|DNAB_SALTI Replicative DNA helicase OS=Salmonella typhi GN=dnaB PE=3 SV=1

 Score =  461 bits (1185), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 224/442 (50%), Positives = 319/442 (72%), Gaps = 3/442 (0%)

Query: 12  FRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPAD 71
            +VPPHSIE+EQSVLGGL+LDN  WD +A+ + ++ FY   HR IF  + +L  S  P D
Sbjct: 24  IKVPPHSIEAEQSVLGGLMLDNERWDDVAERVVAEDFYTRPHRHIFTEMGRLQESGSPID 83

Query: 72  VITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEIS 131
           +IT+ +SL   G  + +GG +YL  L++N PSAANI  YA+IVR+R ++R +I V  EI+
Sbjct: 84  LITLAESLERQGQLDSVGGFAYLAELSKNTPSAANISAYADIVRERAVVRDMIAVAHEIA 143

Query: 132 SQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTND 191
              +  +G+   ++LD AES++F IAE     ++G + I  +L+  + RI +L  +    
Sbjct: 144 DAGYDPQGRNSDELLDLAESRVFQIAENRANKDEGPKSIDQILDATVARIEQLFQQ--PH 201

Query: 192 NDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM 251
           + VTG+ TG+ +L+K T+GLQ  DLIIVA RPSMGKT F++N+ E+ A+    PV IFS+
Sbjct: 202 DGVTGVDTGYQDLNKKTAGLQRSDLIIVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSL 261

Query: 252 EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK-KINKSQLYIDETPSLNVI 310
           EM G Q+ MRML S+ ++DQ ++RTG+L  +DW RI+ ++   + K  +YID++  L   
Sbjct: 262 EMPGEQIMMRMLASLSRVDQTRIRTGQLDDEDWARISGTMGILLEKRNMYIDDSSGLTPT 321

Query: 311 ELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILA 370
           E+R+ +RR+ R+ G + +I+IDYLQLM   S  +NR  EI+EISR+LK LAKE+  P++A
Sbjct: 322 EVRSRARRIFREHGGLSLIMIDYLQLMRVPSLSDNRTLEIAEISRSLKALAKELQVPVVA 381

Query: 371 LSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQ 430
           LSQLNRSLEQR +KRP+ SDLRESG+IEQDAD+I+FIYRDEVY++NS  KGIAEII+ KQ
Sbjct: 382 LSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEVYHENSDLKGIAEIIIGKQ 441

Query: 431 RNGPIGNIRLTFSGQYTKFNNF 452
           RNGPIG +RLTF+GQ+++F+N+
Sbjct: 442 RNGPIGTVRLTFNGQWSRFDNY 463

Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity and contains distinct active sites for ATP binding, DNA binding, and interaction with dnaC protein, primase, and other prepriming proteins.

Salmonella typhi (taxid: 90370)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|P57611|DNAB_BUCAI Replicative DNA helicase OS=Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) GN=dnaB PE=3 SV=1

 Score =  460 bits (1183), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 219/443 (49%), Positives = 328/443 (74%), Gaps = 3/443 (0%)

Query: 11  KFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPA 70
           + ++PPHS+E+EQSVLGGL+LDN  WD +++ + +D F+   HRLIF+ + KL++  +P 
Sbjct: 13  RLKIPPHSLEAEQSVLGGLMLDNEQWDSVSEHVVADDFFSKPHRLIFQEMQKLLDLGYPI 72

Query: 71  DVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEI 130
           D+IT+ +SL   G  E +G  SYL  L++N PS ANI  YA+IVR+R I+R++I V ++I
Sbjct: 73  DLITLSESLEQKGKLESVGRFSYLAELSKNTPSTANITAYADIVRERAIVREMILVANKI 132

Query: 131 SSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTN 190
           ++  + ++G++ +++LD AES +F IAEK    + G + ++ +L+  +  I KL    + 
Sbjct: 133 ANAGYDTQGRKSEELLDYAESSVFKIAEKRFKKDSGPKNVEQILDETVASIEKLF--LSP 190

Query: 191 DNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS 250
            + VTGI+TG+ +L+K TSGLQ  +LII+A RPSMGKT F++N+ E+ A+    PV IFS
Sbjct: 191 HDGVTGINTGYQDLNKKTSGLQRSELIIIAARPSMGKTTFAMNLCENAAMLYDKPVLIFS 250

Query: 251 MEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK-KINKSQLYIDETPSLNV 309
           +EM G Q+ MRML S+ +++Q ++RTG+L+++DW RI+ +I   + K  +YID++ +L  
Sbjct: 251 LEMPGEQIMMRMLASLSRVNQARIRTGQLNNEDWARISGTINILLKKKNIYIDDSSALTP 310

Query: 310 IELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPIL 369
            E+R+ +RR+ R+   + +I++DYLQLM   S  ENR  EI+EISR LK LAKE+  P++
Sbjct: 311 SEVRSRARRIYRENNGLTLIMVDYLQLMRVPSLSENRTLEIAEISRTLKALAKELQVPVI 370

Query: 370 ALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSK 429
           ALSQLNRSLEQR +KRP+ SDLRESG++EQDAD+I+FIYRDE+YN+NS  KGIAEII+ K
Sbjct: 371 ALSQLNRSLEQRSDKRPVNSDLRESGSLEQDADLIMFIYRDEIYNENSDLKGIAEIIIGK 430

Query: 430 QRNGPIGNIRLTFSGQYTKFNNF 452
           QRNGPIG +RLTF+G +++F+N+
Sbjct: 431 QRNGPIGTVRLTFNGHWSRFDNY 453

Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity and contains distinct active sites for ATP binding, DNA binding, and interaction with dnaC protein, primase, and other prepriming proteins.

Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) (taxid: 107806)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|P45256|DNAB_HAEIN Replicative DNA helicase OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=dnaB PE=3 SV=2

 Score =  458 bits (1178), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 220/441 (49%), Positives = 326/441 (73%), Gaps = 3/441 (0%)

Query: 14  VPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVI 73
           +PPHS E+EQ+VLGG++L N  WD IA+ + +D FY + HRLIF  +  L+ +  P D+I
Sbjct: 19  IPPHSTEAEQAVLGGIMLSNQHWDGIAERVIADDFYTFQHRLIFTEMEHLMRNQSPIDLI 78

Query: 74  TVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQ 133
           T+  +L + G ++E+GG +YL  L+ N P+A NI  YA+IVR++ ILR+LI+V + I+  
Sbjct: 79  TLDQALRSRGVSDEVGGFAYLAELSNNTPNAINILAYADIVREKAILRELISVGNRIAEN 138

Query: 134 AFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDND 193
           ++  +G+++K ILDEAE ++F+IAEK    ++G Q +  +L   I++I+ L ++  N + 
Sbjct: 139 SYSPKGQDIKLILDEAEREVFAIAEKRTTSSEGPQNVINVLESTIEKIDIL-SKLENHSG 197

Query: 194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM 253
           VTG++TGF +LDK T+GLQP DLIIVA RPSMGKT F++N+ E+ A+ ++ PV +FS+EM
Sbjct: 198 VTGVTTGFTDLDKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMASEKPVLVFSLEM 257

Query: 254 SGIQLAMRMLGSVGKLDQHKLRTGR-LSSDDWPRINDSIKKI-NKSQLYIDETPSLNVIE 311
              Q+ MRM+ S+ ++DQ K+RTG+ L   +W +I   +     K+ L+ID++  L   +
Sbjct: 258 PAEQIMMRMIASLARVDQTKIRTGQNLDEIEWNKIASVVGMFKQKNNLFIDDSSGLTPTD 317

Query: 312 LRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL 371
           +R+ +RR+ R+ G + +I++DYLQLM A +  +NR  EI+EISR+LK LAKE+  P++AL
Sbjct: 318 VRSRARRVYRENGGLSMIMVDYLQLMRAPAFSDNRTLEIAEISRSLKALAKELQVPVVAL 377

Query: 372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR 431
           SQLNR+LEQR +KRP+ SDLRESG+IEQDAD+I+FIYRDEVYN NS DKG+AEII+ KQR
Sbjct: 378 SQLNRTLEQRGDKRPVNSDLRESGSIEQDADLIMFIYRDEVYNDNSEDKGVAEIIIGKQR 437

Query: 432 NGPIGNIRLTFSGQYTKFNNF 452
           NGPIG +RL F+GQ+++F+N 
Sbjct: 438 NGPIGRVRLKFNGQFSRFDNL 458

Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity and contains distinct active sites for ATP binding, DNA binding, and interaction with dnaC protein, primase, and other prepriming proteins.

Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) (taxid: 71421)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

>sp|Q8K932|DNAB_BUCAP Replicative DNA helicase OS=Buchnera aphidicola subsp. Schizaphis graminum (strain Sg) GN=dnaB PE=3 SV=1

 Score =  455 bits (1171), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 218/443 (49%), Positives = 327/443 (73%), Gaps = 3/443 (0%)

Query: 11  KFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPA 70
           + ++PPHS+E+EQSVLGGL+LDN  WD +++ + +D F+   HRLIF+ + +L++  HP 
Sbjct: 19  RLKIPPHSLEAEQSVLGGLMLDNEQWDSVSEHVVADDFFSKPHRLIFQEMQQLLDLGHPI 78

Query: 71  DVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEI 130
           D+IT+ +SL   G  E +G  SYL  L++N PS ANI  YA+I+R+R I+R++I V ++I
Sbjct: 79  DLITLSESLEQKGKLESVGRFSYLAELSKNTPSTANIIAYADIIRERAIVREMILVANKI 138

Query: 131 SSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTN 190
           ++  + ++G++ +++LD AES +F IAEK    + G + I+ +L+  +  I KL     N
Sbjct: 139 ANAGYDTQGRKSEELLDYAESSVFKIAEKRFKKDSGPKNIEQILDETVTSIEKLF-LSPN 197

Query: 191 DNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS 250
           D  VTGI+TG+ +L+K TSGLQP +LII+A RPSMGKT F++N+ E+ A+    PV IFS
Sbjct: 198 DG-VTGINTGYQDLNKKTSGLQPSELIIIAARPSMGKTTFAMNLCENAAMLYDKPVLIFS 256

Query: 251 MEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKI-NKSQLYIDETPSLNV 309
           +EM G Q+ MRML S+ +++Q ++RTG+L+ +DW R++ +I  +  K  +YID++ +L  
Sbjct: 257 LEMPGEQIMMRMLASLSRVNQARIRTGQLNDEDWSRMSGTINVLLKKKNIYIDDSSALTP 316

Query: 310 IELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPIL 369
            E+R+ +RR+ R+   + +I++DYLQLM   S  +NR  EI+EISR LK LAKE+  P++
Sbjct: 317 SEVRSRARRIYRENKGLTLIMVDYLQLMRVPSLSDNRTLEIAEISRTLKALAKELQVPVI 376

Query: 370 ALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSK 429
           ALSQLNRSLEQR +KRP+ SDLRESG++EQDAD+I+FIYRDE+Y++NS  KG+AEII+ K
Sbjct: 377 ALSQLNRSLEQRSDKRPVNSDLRESGSLEQDADLIMFIYRDEIYHENSDFKGVAEIIIGK 436

Query: 430 QRNGPIGNIRLTFSGQYTKFNNF 452
           QRNGPIG I LTF+G +++F+N+
Sbjct: 437 QRNGPIGTICLTFNGHWSRFDNY 459

Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity and contains distinct active sites for ATP binding, DNA binding, and interaction with dnaC protein, primase, and other prepriming proteins.

Buchnera aphidicola subsp. Schizaphis graminum (strain Sg) (taxid: 198804)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 2

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	452
329913485	483	Replicative DNA helicase [Oxalobacterace	0.973	0.910	0.775	0.0
134095343	461	replicative DNA helicase [Herminiimonas	0.973	0.954	0.768	0.0
152979846	461	replicative DNA helicase [Janthinobacter	0.977	0.958	0.760	0.0
340787667	466	replicative DNA helicase [Collimonas fun	0.993	0.963	0.753	0.0
237749075	463	replicative DNA helicase [Oxalobacter fo	0.977	0.954	0.744	0.0
237746921	463	replicative DNA helicase [Oxalobacter fo	0.977	0.954	0.738	0.0
398833248	481	replicative DNA helicase [Herbaspirillum	0.986	0.927	0.739	0.0
409405889	481	replicative DNA helicase [Herbaspirillum	0.973	0.914	0.740	0.0
300311394	478	replicative DNA helicase [Herbaspirillum	0.973	0.920	0.738	0.0
445498524	461	replicative DNA helicase DnaB [Janthinob	0.997	0.978	0.676	0.0

>gi|329913485|ref|ZP_08275954.1| Replicative DNA helicase [Oxalobacteraceae bacterium IMCC9480] gi|327545343|gb|EGF30578.1| Replicative DNA helicase [Oxalobacteraceae bacterium IMCC9480]

 Score =  704 bits (1816), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 342/441 (77%), Positives = 399/441 (90%), Gaps = 1/441 (0%)

Query: 12  FRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPAD 71
            RVPPHSIE+EQSVLGGLLLDN AWD+IAD ++ D FYRYDHRLIF+HI+KLIN S PAD
Sbjct: 34  LRVPPHSIEAEQSVLGGLLLDNAAWDRIADFVHQDDFYRYDHRLIFQHIVKLINGSKPAD 93

Query: 72  VITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEIS 131
           VITVF+SL++TG AEE+GGLSYLN+LAQN PSAANIRRYAEIVRDRG+LRKLITV DEIS
Sbjct: 94  VITVFESLTSTGKAEEVGGLSYLNALAQNTPSAANIRRYAEIVRDRGVLRKLITVADEIS 153

Query: 132 SQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTND 191
            QAF  +GKEVKQ+LDEAESKIF+IAE+     +GFQ+IQPLL +V++RI++L+NR  N 
Sbjct: 154 GQAFNPQGKEVKQMLDEAESKIFAIAEEGSRGAQGFQEIQPLLTQVVERIDELYNR-DNQ 212

Query: 192 NDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM 251
           +D+TG+ TGF +LDK+TSGLQPGDLIIVAGRPSMGKTAFS+NIGE++AI+  LPVA+FSM
Sbjct: 213 SDITGVPTGFADLDKMTSGLQPGDLIIVAGRPSMGKTAFSINIGENVAIDTGLPVAVFSM 272

Query: 252 EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIE 311
           EM G QLAMRMLGSVG+LDQH+LRTG+L+ +DWPR+  +I+K+N +QLYIDETP+LN IE
Sbjct: 273 EMGGTQLAMRMLGSVGRLDQHRLRTGKLADEDWPRLTHAIQKMNDAQLYIDETPALNSIE 332

Query: 312 LRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL 371
           LRA SRRLSRQCGK+G+IIIDYLQLMS NS GENRATEISEISR+LKGLAKE+NCP++AL
Sbjct: 333 LRARSRRLSRQCGKLGLIIIDYLQLMSGNSAGENRATEISEISRSLKGLAKELNCPVIAL 392

Query: 372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR 431
           SQLNRSLEQR NKRP+MSDLRESGAIEQDADVILFIYRDEVYN +S DKG AEII+ KQR
Sbjct: 393 SQLNRSLEQRPNKRPVMSDLRESGAIEQDADVILFIYRDEVYNPDSPDKGTAEIIIGKQR 452

Query: 432 NGPIGNIRLTFSGQYTKFNNF 452
           NGPIG+IRLTF GQYTKF+N+
Sbjct: 453 NGPIGSIRLTFQGQYTKFDNY 473

Source: Oxalobacteraceae bacterium IMCC9480

Species: Oxalobacteraceae bacterium IMCC9480

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|134095343|ref|YP_001100418.1| replicative DNA helicase [Herminiimonas arsenicoxydans] gi|133739246|emb|CAL62295.1| Replicative DNA helicase [Herminiimonas arsenicoxydans]

 Score =  701 bits (1808), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 339/441 (76%), Positives = 400/441 (90%), Gaps = 1/441 (0%)

Query: 12  FRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPAD 71
            RVPPHSIE+EQSVLGGLLLDN AWD+IAD ++ D FYRYDHR+IF+HI++LIN S PAD
Sbjct: 12  LRVPPHSIEAEQSVLGGLLLDNAAWDRIADFVHQDDFYRYDHRIIFQHIVRLINGSRPAD 71

Query: 72  VITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEIS 131
           VITVF++L+N+G AEE+GG+SYLN+LAQN PSAANIRRYAEIVRDRGILRKLITV+DEIS
Sbjct: 72  VITVFEALTNSGKAEEVGGVSYLNALAQNTPSAANIRRYAEIVRDRGILRKLITVSDEIS 131

Query: 132 SQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTND 191
            QAF  +GKEVKQ+LDEAESKIF+IAE+     +GFQ+IQPLL +V++RI++L+NR +  
Sbjct: 132 GQAFNPQGKEVKQMLDEAESKIFAIAEEGSRGAQGFQEIQPLLTQVVERIDELYNRDST- 190

Query: 192 NDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM 251
           +D+TG+ TGF +LD++TSGLQPGDLIIVAGRPSMGKTAFS+NIGE +AIE+ LPVA+FSM
Sbjct: 191 SDITGVPTGFADLDRMTSGLQPGDLIIVAGRPSMGKTAFSINIGETVAIESGLPVAVFSM 250

Query: 252 EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIE 311
           EM G QLAMRMLGSVG+LDQH+LRTG+L+ +DWPR+  +I+K+N +QLYIDETP+LN IE
Sbjct: 251 EMGGTQLAMRMLGSVGRLDQHRLRTGKLADEDWPRLTHAIQKMNDAQLYIDETPALNSIE 310

Query: 312 LRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL 371
           LRA SRRLSRQCGK+G+IIIDYLQLMSANS GENRATEISEISRNLKGLAKE+NCP++AL
Sbjct: 311 LRARSRRLSRQCGKLGLIIIDYLQLMSANSSGENRATEISEISRNLKGLAKELNCPVIAL 370

Query: 372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR 431
           SQLNRSLEQR NKRP+MSDLRESGAIEQDADVILFIYRDEVYN +S DKG AEII+ KQR
Sbjct: 371 SQLNRSLEQRPNKRPVMSDLRESGAIEQDADVILFIYRDEVYNPDSPDKGTAEIIIGKQR 430

Query: 432 NGPIGNIRLTFSGQYTKFNNF 452
           NGPIG++RLTF GQYTKF N+
Sbjct: 431 NGPIGSVRLTFLGQYTKFENY 451

Source: Herminiimonas arsenicoxydans

Species: Herminiimonas arsenicoxydans

Genus: Herminiimonas

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|152979846|ref|YP_001352995.1| replicative DNA helicase [Janthinobacterium sp. Marseille] gi|151279923|gb|ABR88333.1| replicative DNA helicase [Janthinobacterium sp. Marseille]

 Score =  699 bits (1805), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 337/443 (76%), Positives = 400/443 (90%), Gaps = 1/443 (0%)

Query: 10  KKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHP 69
           +  RVPPHSIE+EQSVLGGLLLDN AWD+IAD +N D FYRYDHR+IF+HI+KLIN++ P
Sbjct: 10  ESLRVPPHSIEAEQSVLGGLLLDNAAWDRIADFVNHDDFYRYDHRIIFQHIVKLINNARP 69

Query: 70  ADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDE 129
           ADVITVF++L+N+G AEE+GG++YLN+LAQN PSAANIRRYAEIVRDRG+LRKLITV+DE
Sbjct: 70  ADVITVFEALTNSGKAEEVGGVAYLNALAQNTPSAANIRRYAEIVRDRGVLRKLITVSDE 129

Query: 130 ISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGT 189
           IS  AF  +GKEVKQ+LDEAESKIF+IAE+     +GFQ+IQPLL +V++RI++L+NR +
Sbjct: 130 ISGNAFNPQGKEVKQMLDEAESKIFAIAEEGARGAQGFQEIQPLLTQVVERIDELYNRDS 189

Query: 190 NDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIF 249
             +D+TG+ TGF +LD++TSGLQPGDLIIVAGRPSMGKTAFS+NIGE +AIE+ LPVA+F
Sbjct: 190 T-SDITGVPTGFADLDRMTSGLQPGDLIIVAGRPSMGKTAFSINIGETVAIESGLPVAVF 248

Query: 250 SMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNV 309
           SMEM G QLAMRMLGSVG+LDQH+LRTGRL+ +DWPR+  +I+K+N +QLYIDETP+LN 
Sbjct: 249 SMEMGGAQLAMRMLGSVGRLDQHRLRTGRLADEDWPRLTHAIQKMNDAQLYIDETPALNS 308

Query: 310 IELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPIL 369
           IELRA SRRLSRQCGK+G+IIIDYLQLMSANS GENRATEISEISR+LKGLAKE+NCP++
Sbjct: 309 IELRARSRRLSRQCGKLGLIIIDYLQLMSANSAGENRATEISEISRSLKGLAKELNCPVI 368

Query: 370 ALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSK 429
           ALSQLNRSLEQR NKRP+MSDLRESGAIEQDADVILFIYRDEVYN +S DKG AEII+ K
Sbjct: 369 ALSQLNRSLEQRPNKRPVMSDLRESGAIEQDADVILFIYRDEVYNPDSPDKGTAEIIIGK 428

Query: 430 QRNGPIGNIRLTFSGQYTKFNNF 452
           QRNGPIG +RLTF GQYTKF N+
Sbjct: 429 QRNGPIGAVRLTFLGQYTKFENY 451

Source: Janthinobacterium sp. Marseille

Species: Janthinobacterium sp. Marseille

Genus: Janthinobacterium

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|340787667|ref|YP_004753132.1| replicative DNA helicase [Collimonas fungivorans Ter331] gi|340552934|gb|AEK62309.1| Replicative DNA helicase [Collimonas fungivorans Ter331]

 Score =  699 bits (1803), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 339/450 (75%), Positives = 402/450 (89%), Gaps = 1/450 (0%)

Query: 3   VPFNTENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIK 62
            P + +    RVPPHSIE+EQSVLGGLLLDN AWDKIAD +++D FYRYDHR+IF+H++K
Sbjct: 7   APSDPQLDSLRVPPHSIEAEQSVLGGLLLDNAAWDKIADFVSADDFYRYDHRIIFQHMVK 66

Query: 63  LINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRK 122
           LIN S PADVITVF+SLS TG AEE+GGLSYLN+LAQN PSAANIRRYAEIVRDRG+LRK
Sbjct: 67  LINGSKPADVITVFESLSGTGKAEEVGGLSYLNALAQNTPSAANIRRYAEIVRDRGVLRK 126

Query: 123 LITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRIN 182
           LITV DEIS QAF  +GKEVKQ+LDEAESKIF+IAE+     +GFQ+IQPLL +V++RI+
Sbjct: 127 LITVADEISGQAFSPQGKEVKQMLDEAESKIFAIAEEGARGAQGFQEIQPLLTQVVERID 186

Query: 183 KLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN 242
           +L+NR  N +D+TG+STGF +LDK+TSGLQ GDL+IVAGRPSMGKTAFS+NIGE++AIE+
Sbjct: 187 ELYNR-DNQSDITGVSTGFIDLDKMTSGLQKGDLVIVAGRPSMGKTAFSVNIGENVAIES 245

Query: 243 KLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYID 302
            LPVAIFSMEM G QLAMRMLGSVGKLDQH+LRTGRL+ +DWPR+  +I+K+N +QL+ID
Sbjct: 246 GLPVAIFSMEMGGTQLAMRMLGSVGKLDQHRLRTGRLNDEDWPRLTHAIQKMNDAQLFID 305

Query: 303 ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAK 362
           ETP+L+ IELRA +RRLSRQCG +G+IIIDYLQLMSAN+ GENRATEISEISRNLKGLAK
Sbjct: 306 ETPALSSIELRARARRLSRQCGTLGLIIIDYLQLMSANNAGENRATEISEISRNLKGLAK 365

Query: 363 EINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGI 422
           E+ CP++ALSQLNRSLEQR NKRP+MSDLRESGAIEQDADVILFIYRDEVYN +S +KG 
Sbjct: 366 ELQCPVIALSQLNRSLEQRPNKRPVMSDLRESGAIEQDADVILFIYRDEVYNPDSQEKGT 425

Query: 423 AEIIVSKQRNGPIGNIRLTFSGQYTKFNNF 452
           AEII+ KQRNGPIG++RL+F GQYTKF+N+
Sbjct: 426 AEIIIGKQRNGPIGSVRLSFIGQYTKFDNY 455

Source: Collimonas fungivorans Ter331

Species: Collimonas fungivorans

Genus: Collimonas

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|237749075|ref|ZP_04579555.1| replicative DNA helicase [Oxalobacter formigenes OXCC13] gi|229380437|gb|EEO30528.1| replicative DNA helicase [Oxalobacter formigenes OXCC13]

 Score =  686 bits (1769), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 330/443 (74%), Positives = 397/443 (89%), Gaps = 1/443 (0%)

Query: 10  KKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHP 69
           +  R+PPHSIE+EQSVLGGLLLDN AWD+IAD +N D FYR+DHRLI++HI KLIN+S P
Sbjct: 13  ESLRLPPHSIEAEQSVLGGLLLDNAAWDRIADLVNQDDFYRFDHRLIYQHISKLINASKP 72

Query: 70  ADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDE 129
           ADVITV++SLS  G AEEIGGLSYLN+LAQN PSAANIR YA+IVRDRG+LR+LITV+DE
Sbjct: 73  ADVITVYESLSGIGKAEEIGGLSYLNALAQNTPSAANIRHYAQIVRDRGVLRRLITVSDE 132

Query: 130 ISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGT 189
           IS+ AF S+GKEVKQILDEAE+ IF+IAE+     +GFQ+IQPLL +V++RI++L+NR  
Sbjct: 133 ISASAFQSQGKEVKQILDEAETSIFAIAEEGARGTQGFQEIQPLLTQVVERIDELYNR-D 191

Query: 190 NDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIF 249
           N ND+TG+ TGF +LD++TSGLQPGDLIIVAGRPSMGKTAFS+NIGE++AIE+ LPVAIF
Sbjct: 192 NRNDITGVPTGFMDLDRMTSGLQPGDLIIVAGRPSMGKTAFSVNIGENVAIESGLPVAIF 251

Query: 250 SMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNV 309
           SMEM G QLAMRMLGSVG+LDQH+LRTGRL+ +DWPR+  +I+K+N++QLYIDETP+L+ 
Sbjct: 252 SMEMGGAQLAMRMLGSVGRLDQHRLRTGRLADEDWPRLTYAIQKMNEAQLYIDETPALSC 311

Query: 310 IELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPIL 369
            +LRA +RRL+RQC K+G+IIIDYLQLMS +S GENRATEISEISR LK LAKE+NCP++
Sbjct: 312 TDLRARARRLARQCSKLGLIIIDYLQLMSPSSAGENRATEISEISRGLKALAKELNCPVI 371

Query: 370 ALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSK 429
           ALSQLNRS+EQR NKRP+MSDLRESGAIEQDAD+ILFIYRDEVYN +SADKG AEIIV K
Sbjct: 372 ALSQLNRSVEQRPNKRPVMSDLRESGAIEQDADLILFIYRDEVYNPDSADKGTAEIIVGK 431

Query: 430 QRNGPIGNIRLTFSGQYTKFNNF 452
           QRNGPIGN+RLTF GQ+TKF+N+
Sbjct: 432 QRNGPIGNVRLTFLGQFTKFDNY 454

Source: Oxalobacter formigenes OXCC13

Species: Oxalobacter formigenes

Genus: Oxalobacter

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|237746921|ref|ZP_04577401.1| replicative DNA helicase [Oxalobacter formigenes HOxBLS] gi|229378272|gb|EEO28363.1| replicative DNA helicase [Oxalobacter formigenes HOxBLS]

 Score =  684 bits (1765), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/443 (73%), Positives = 396/443 (89%), Gaps = 1/443 (0%)

Query: 10  KKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHP 69
           +  R+PPHSIE+EQSVLGGLLLDN+AWD+IAD LN D FYR+DHRLIF+HI KLIN S P
Sbjct: 13  ESLRLPPHSIEAEQSVLGGLLLDNSAWDRIADFLNQDDFYRFDHRLIFQHIAKLINLSKP 72

Query: 70  ADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDE 129
           ADVITV++SL   G AEE+GGL YLN+LAQN PSAANIR YA+IVRDRGILR+LITV+DE
Sbjct: 73  ADVITVYESLQTIGKAEEVGGLPYLNALAQNTPSAANIRHYAQIVRDRGILRRLITVSDE 132

Query: 130 ISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGT 189
           ISS AF S+GKEV+QILDEAE+ IF+IAE+     +GFQ+IQPLL +V++RI++L+NR  
Sbjct: 133 ISSSAFQSQGKEVRQILDEAETNIFAIAEEGARGTQGFQEIQPLLTQVVERIDELYNR-D 191

Query: 190 NDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIF 249
           N ND+TG+ TGF +LD++TSGLQPGDL+IVAGRPSMGKTAFS+NIGEH+AIE+ LPVA+F
Sbjct: 192 NQNDITGVPTGFIDLDRMTSGLQPGDLVIVAGRPSMGKTAFSVNIGEHVAIESGLPVAVF 251

Query: 250 SMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNV 309
           SMEMSG QLAMRMLGSVG+LDQH+LRTGRL+ +DWPR+  +I+K+N++QLYIDETP+L+ 
Sbjct: 252 SMEMSGAQLAMRMLGSVGRLDQHRLRTGRLADEDWPRLTFAIQKMNEAQLYIDETPALSC 311

Query: 310 IELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPIL 369
            ELRA +RRL+RQC K+G+II+DYLQLM+ +S GENRATEISEISR LK LAKE+NCP++
Sbjct: 312 TELRARARRLARQCSKLGLIIVDYLQLMAPSSAGENRATEISEISRGLKALAKELNCPVI 371

Query: 370 ALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSK 429
           ALSQLNRS+EQR NKRP+MSDLRESGAIEQDAD+ILFIYRDEVYN +S DKG+AEIIV K
Sbjct: 372 ALSQLNRSVEQRPNKRPVMSDLRESGAIEQDADLILFIYRDEVYNPDSPDKGMAEIIVGK 431

Query: 430 QRNGPIGNIRLTFSGQYTKFNNF 452
           QRNGPIG++RLTF GQ+TKF+N+
Sbjct: 432 QRNGPIGSVRLTFLGQFTKFDNY 454

Source: Oxalobacter formigenes HOxBLS

Species: Oxalobacter formigenes

Genus: Oxalobacter

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|398833248|ref|ZP_10591385.1| replicative DNA helicase [Herbaspirillum sp. YR522] gi|398221908|gb|EJN08303.1| replicative DNA helicase [Herbaspirillum sp. YR522]

 Score =  678 bits (1749), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 332/449 (73%), Positives = 396/449 (88%), Gaps = 3/449 (0%)

Query: 6   NTENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLIN 65
           + E    RVPPHSIESEQSVLGGLLLDN AWD+IAD ++ + FYRYDHR+IF+HI+KLIN
Sbjct: 23  DPEVDSLRVPPHSIESEQSVLGGLLLDNAAWDRIADFVSPEDFYRYDHRIIFEHIVKLIN 82

Query: 66  SSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLIT 125
           ++ PADVITVF++LSN+G AEE+GGL YLN+LAQN PSAANIRRYAEIVRDRGILRKLIT
Sbjct: 83  ATKPADVITVFEALSNSGKAEEVGGLVYLNALAQNTPSAANIRRYAEIVRDRGILRKLIT 142

Query: 126 VTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLH 185
           V DEIS  AF  +GK+VKQ+LDEAESKIF+IAE+     +GF +IQPLL +V++RI++L+
Sbjct: 143 VADEISGNAFNPQGKDVKQMLDEAESKIFAIAEEGSRGTQGFMEIQPLLTQVVERIDELY 202

Query: 186 NRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLP 245
           NR  N +D+TG+ TGF +LDK+TSGLQPGDLIIVAGRPSMGKTAFS+NIGE +AIE+ LP
Sbjct: 203 NR-DNTSDITGVPTGFIDLDKMTSGLQPGDLIIVAGRPSMGKTAFSINIGETVAIESGLP 261

Query: 246 VAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETP 305
           VA+FSMEM G QLAMRMLGSVG+LDQH+LRTGRL  +DWPR+  +I+K+N +Q YIDETP
Sbjct: 262 VAVFSMEMGGTQLAMRMLGSVGRLDQHRLRTGRLLDEDWPRLTHAIQKMNDAQFYIDETP 321

Query: 306 SLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN--SRGENRATEISEISRNLKGLAKE 363
           +L+ IELRA SRRL+RQCGK+G+IIIDYLQLMS N  S  ENRA+EISEISR+LKGLAKE
Sbjct: 322 ALSPIELRARSRRLARQCGKLGLIIIDYLQLMSGNGGSSSENRASEISEISRSLKGLAKE 381

Query: 364 INCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIA 423
           +NCP++ALSQLNR+LEQR NKRP+MSDLRESGAIEQDADVILFIYRDEVYN +S DKG A
Sbjct: 382 LNCPVIALSQLNRALEQRPNKRPVMSDLRESGAIEQDADVILFIYRDEVYNPDSPDKGTA 441

Query: 424 EIIVSKQRNGPIGNIRLTFSGQYTKFNNF 452
           EII+ KQRNGPIG+IRL+F GQYTK++N+
Sbjct: 442 EIIIGKQRNGPIGSIRLSFLGQYTKYDNY 470

Source: Herbaspirillum sp. YR522

Species: Herbaspirillum sp. YR522

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|409405889|ref|ZP_11254351.1| replicative DNA helicase [Herbaspirillum sp. GW103] gi|386434438|gb|EIJ47263.1| replicative DNA helicase [Herbaspirillum sp. GW103]

 Score =  676 bits (1744), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 328/443 (74%), Positives = 395/443 (89%), Gaps = 3/443 (0%)

Query: 12  FRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPAD 71
            RVPPHSIE+EQSVLGGLLLDN AWD+IAD +++D FYRYDHR+IF+HI+KLINS+ PAD
Sbjct: 29  LRVPPHSIEAEQSVLGGLLLDNAAWDRIADFVSADDFYRYDHRIIFEHIVKLINSTKPAD 88

Query: 72  VITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEIS 131
           VITV++++S +G AEE+GGL YLN+LAQN PSAANIRRYAEIVRDRGILRKLITV DEIS
Sbjct: 89  VITVYEAMSTSGKAEEVGGLVYLNALAQNTPSAANIRRYAEIVRDRGILRKLITVADEIS 148

Query: 132 SQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTND 191
             AF  +GK+VK +LDEAESKIF+IAE+    ++GF +IQPLL +V++RI++L+NR ++ 
Sbjct: 149 GNAFNPQGKDVKSMLDEAESKIFAIAEEGSRGSQGFMEIQPLLTQVVERIDELYNRDSS- 207

Query: 192 NDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM 251
           +D+TG+ TGF +LDK+TSGLQPGDLIIVAGRPSMGKTAFS+NIGEH+AIE+ LPVA+FSM
Sbjct: 208 SDITGVPTGFMDLDKMTSGLQPGDLIIVAGRPSMGKTAFSINIGEHVAIESGLPVAVFSM 267

Query: 252 EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIE 311
           EM G QLAMRMLGSVG+LDQH+LRTGRL  +DWPR+  +I+K+N +Q YIDETP+L+ IE
Sbjct: 268 EMGGAQLAMRMLGSVGRLDQHRLRTGRLLDEDWPRLTHAIQKMNDAQFYIDETPALSPIE 327

Query: 312 LRANSRRLSRQCGKIGVIIIDYLQLMSAN--SRGENRATEISEISRNLKGLAKEINCPIL 369
           LRA SRRL+RQCGK+G+IIIDYLQLMS N  S  ENRA+EISEISR+LKGLAKE+NCP++
Sbjct: 328 LRARSRRLARQCGKLGLIIIDYLQLMSGNGGSSSENRASEISEISRSLKGLAKELNCPVI 387

Query: 370 ALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSK 429
           ALSQLNRSLEQR NKRP+MSDLRESGAIEQDADVILFIYRDEVYN +S DKG AEII+ K
Sbjct: 388 ALSQLNRSLEQRPNKRPVMSDLRESGAIEQDADVILFIYRDEVYNPDSPDKGTAEIIIGK 447

Query: 430 QRNGPIGNIRLTFSGQYTKFNNF 452
           QRNGPIG+IRL+F G YTK++N+
Sbjct: 448 QRNGPIGSIRLSFLGMYTKYDNY 470

Source: Herbaspirillum sp. GW103

Species: Herbaspirillum sp. GW103

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|300311394|ref|YP_003775486.1| replicative DNA helicase [Herbaspirillum seropedicae SmR1] gi|300074179|gb|ADJ63578.1| replicative DNA helicase protein [Herbaspirillum seropedicae SmR1]

 Score =  674 bits (1740), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/443 (73%), Positives = 395/443 (89%), Gaps = 3/443 (0%)

Query: 12  FRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPAD 71
            RVPPHSIE+EQSVLGGLLLDN AWD+IAD ++++ FYRYDHR+IF+HI+KLINS+ PAD
Sbjct: 26  LRVPPHSIEAEQSVLGGLLLDNAAWDRIADFVSAEDFYRYDHRIIFEHIVKLINSTKPAD 85

Query: 72  VITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEIS 131
           VITV++++S +G AEE+GGL YLN+LAQN PSAANIRRYAEIVRDRGILRKLITV DEIS
Sbjct: 86  VITVYEAMSTSGKAEEVGGLVYLNALAQNTPSAANIRRYAEIVRDRGILRKLITVADEIS 145

Query: 132 SQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTND 191
             AF  +GK+VK +LDEAESKIF+IAE+    ++GF +IQPLL +V++RI++L+NR ++ 
Sbjct: 146 GNAFNPQGKDVKSMLDEAESKIFAIAEEGSRGSQGFMEIQPLLTQVVERIDELYNRDSS- 204

Query: 192 NDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM 251
           +D+TG+ TGF +LDK+TSGLQPGDLIIVAGRPSMGKTAFS+NIGEH+AIE+ LPVA+FSM
Sbjct: 205 SDITGVPTGFMDLDKMTSGLQPGDLIIVAGRPSMGKTAFSINIGEHVAIESGLPVAVFSM 264

Query: 252 EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIE 311
           EM G QLAMRMLGSVG+LDQH+LRTGRL  +DWPR+  +I+K+N +Q YIDETP+L+ IE
Sbjct: 265 EMGGAQLAMRMLGSVGRLDQHRLRTGRLLDEDWPRLTHAIQKMNDAQFYIDETPALSPIE 324

Query: 312 LRANSRRLSRQCGKIGVIIIDYLQLMSAN--SRGENRATEISEISRNLKGLAKEINCPIL 369
           LRA SRRL+RQCGK+G+IIIDYLQLMS N  S  ENRA+EISEISR+LKGLAKE+NCP++
Sbjct: 325 LRARSRRLARQCGKLGLIIIDYLQLMSGNGGSSSENRASEISEISRSLKGLAKELNCPVI 384

Query: 370 ALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSK 429
           ALSQLNRSLEQR NKRP+MSDLRESGAIEQDADVILFIYRDEVYN +S DKG AEII+ K
Sbjct: 385 ALSQLNRSLEQRPNKRPVMSDLRESGAIEQDADVILFIYRDEVYNPDSPDKGTAEIIIGK 444

Query: 430 QRNGPIGNIRLTFSGQYTKFNNF 452
           QRNGPIG+IRL+F G YTK++N+
Sbjct: 445 QRNGPIGSIRLSFLGMYTKYDNY 467

Source: Herbaspirillum seropedicae SmR1

Species: Herbaspirillum seropedicae

Genus: Herbaspirillum

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|445498524|ref|ZP_21465379.1| replicative DNA helicase DnaB [Janthinobacterium sp. HH01] gi|444788519|gb|ELX10067.1| replicative DNA helicase DnaB [Janthinobacterium sp. HH01]

 Score =  672 bits (1735), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 306/452 (67%), Positives = 394/452 (87%), Gaps = 1/452 (0%)

Query: 1   MLVPFNTENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHI 60
           M  P + +    RVPPHSIE+EQSV+GGLL DN A+D+IAD +N + FYRYDHR+IF+ I
Sbjct: 1   MNAPSDPQVDSLRVPPHSIEAEQSVIGGLLRDNAAFDRIADMMNPEDFYRYDHRIIFEQI 60

Query: 61  IKLINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGIL 120
           +K+IN S PADVITVF++LS  G AE++GGL+YLN++AQN PSAANIRRYAEIVRDR IL
Sbjct: 61  VKMINGSRPADVITVFETLSQLGKAEDVGGLTYLNAMAQNTPSAANIRRYAEIVRDRSIL 120

Query: 121 RKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKR 180
           R+LITV DEIS QAF  +GKEVKQ+LDEAESKIF+IAE+      G+  +QPLL +V++R
Sbjct: 121 RQLITVADEISGQAFSPQGKEVKQMLDEAESKIFAIAEQGARGAAGWIPVQPLLTQVVER 180

Query: 181 INKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAI 240
           I++L++R  + +++TG+ TG+ +LD++TSGLQPGD+++VAGRPSMGKTAFS+NI E++A+
Sbjct: 181 IDELYSR-ESQSEITGVPTGWIDLDRMTSGLQPGDMVVVAGRPSMGKTAFSMNIAENVAV 239

Query: 241 ENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLY 300
           E  LPVA+FSMEM G+QLAMRMLGSVG+LDQH+LRTG+L+ +DWPR+  +I+K+N +Q+Y
Sbjct: 240 EEGLPVAVFSMEMGGVQLAMRMLGSVGQLDQHRLRTGKLNDEDWPRLTHAIQKMNDAQVY 299

Query: 301 IDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGL 360
           IDETP+LN IE+RA +RRLSRQCGK+G+I++DYLQLM+ +++G+NRA+EISEISR+LKGL
Sbjct: 300 IDETPALNPIEMRARARRLSRQCGKLGLIVVDYLQLMTGSTQGDNRASEISEISRSLKGL 359

Query: 361 AKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADK 420
           AKE+ CP++ALSQLNRSLEQR NKRP+MSDLRESGAIEQDADVI+F+YRDEVYN +S DK
Sbjct: 360 AKELQCPVIALSQLNRSLEQRPNKRPVMSDLRESGAIEQDADVIIFLYRDEVYNPDSPDK 419

Query: 421 GIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF 452
           G AEII+ KQRNGPIG++RLT+ GQYTKF N+
Sbjct: 420 GTAEIIIGKQRNGPIGSVRLTWIGQYTKFGNY 451

Source: Janthinobacterium sp. HH01

Species: Janthinobacterium sp. HH01

Genus: Janthinobacterium

Family: Oxalobacteraceae

Order: Burkholderiales

Class: Betaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

---

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	452
TIGR_CMR|CBU_0868	610	CBU_0868 "replicative DNA heli	0.834	0.618	0.535	3.4e-126
TIGR_CMR|SO_3917	468	SO_3917 "replicative DNA helic	0.988	0.955	0.504	5.8e-121
UNIPROTKB|P0ACB0	471	dnaB "DnaB" [Escherichia coli	0.969	0.929	0.519	1.3e-118
UNIPROTKB|Q9KUY7	468	VC_0371 "Replicative DNA helic	0.969	0.935	0.507	1.8e-117
TIGR_CMR|VC_0371	468	VC_0371 "replicative DNA helic	0.969	0.935	0.507	1.8e-117
TIGR_CMR|GSU_0998	456	GSU_0998 "replicative DNA heli	0.953	0.945	0.5	1.4e-110
UNIPROTKB|Q9X4C9	454	dnaB "Replicative helicase" [G	0.955	0.951	0.472	2.7e-107
UNIPROTKB|P37469	454	dnaC "Replicative DNA helicase	0.955	0.951	0.465	2.2e-105
TIGR_CMR|BA_5717	453	BA_5717 "replicative DNA helic	0.955	0.953	0.463	7.5e-105
TIGR_CMR|CHY_0041	443	CHY_0041 "replicative DNA heli	0.957	0.977	0.449	3.4e-100

TIGR_CMR|CBU_0868 CBU_0868 "replicative DNA helicase, intein-containing" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 1029 (367.3 bits), Expect = 3.4e-126, Sum P(2) = 3.4e-126
 Identities = 204/381 (53%), Positives = 278/381 (72%)

Query:    13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
             +VPPHS E+EQSVLG L+LDN AWD+IAD ++   FYR DH+LIF+ + +L++   P DV
Sbjct:    13 KVPPHSQEAEQSVLGALMLDNRAWDRIADRISIQDFYRSDHQLIFETMSRLVDQHKPLDV 72

Query:    73 ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
             +T+ ++L         GG  YL  LA+N PSAANI  YA+IVR+R ILR+LI    +I+ 
Sbjct:    73 LTIAEALKAREQLSAAGGEPYLYELAKNTPSAANIVAYADIVRERAILRQLIEAGTDITH 132

Query:   133 QAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDN 192
               F   G+++K++LD AE ++F IAE  +    G   I PLL +   RI+KL +   +  
Sbjct:   133 DGFNPDGRDIKELLDTAEQRVFHIAESRVR-GSGPIAIGPLLTKATDRIDKLFH---SKQ 188

Query:   193 DVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME 252
              +TG+S+GF +LDK+TSGLQ GDLI+VAGRPSMGKT F++NI E  AI+  +PV +FSME
Sbjct:   189 AITGLSSGFTDLDKLTSGLQDGDLIVVAGRPSMGKTVFAINIAEVAAIKGNIPVLVFSME 248

Query:   253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIEL 312
             M    L MRML S+G +DQHK+RTG+L  DDWPRI  +I+ +++++L+ID+TP+L   E+
Sbjct:   249 MPAESLVMRMLSSLGSIDQHKVRTGQLKDDDWPRITHAIEMLSETKLFIDDTPALTPSEI 308

Query:   313 RANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALS 372
             R+ +RRL+R+ G +G+I+IDYLQLM      ENR+TEISEISR+LK LAKE+N P++ALS
Sbjct:   309 RSRARRLAREHGGLGLIVIDYLQLMHVPGTKENRSTEISEISRSLKALAKELNVPVVALS 368

Query:   373 QLNRSLEQRQNKRPIMSDLRE 393
             QLNRSLE R +KRP+MSDLRE
Sbjct:   369 QLNRSLEARVDKRPVMSDLRE 389

GO:0004003 "ATP-dependent DNA helicase activity" evidence=ISS

GO:0006260 "DNA replication" evidence=ISS

TIGR_CMR|SO_3917 SO_3917 "replicative DNA helicase" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 1190 (424.0 bits), Expect = 5.8e-121, P = 5.8e-121
 Identities = 227/450 (50%), Positives = 324/450 (72%)

Query:     4 PFNTENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKL 63
             P + +    ++PPHSIE+EQSVLGGL+LD  AWDK+A+ +  + FY   HR+IF  + +L
Sbjct:    13 PRDLQVDSLKLPPHSIEAEQSVLGGLMLDADAWDKVAETVVKEDFYSRSHRMIFAAMHRL 72

Query:    64 INSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKL 123
             + +  P D+ITV + L      EE GG +YL  +A+N PSA NI  YAEIVR+R ++R++
Sbjct:    73 VETGQPIDLITVSEQLELENQLEEAGGFAYLGEIAKNTPSAGNIVSYAEIVRERAVVREM 132

Query:   124 ITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINK 183
             I V  EI+   +   G++   +LD AESK+F IAE+    N+G + I+ +L + + +I +
Sbjct:   133 IRVAHEIADAGYNPEGRDSSALLDLAESKVFKIAEQRTNANEGPEGIKTILEKTVDKIEQ 192

Query:   184 LHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK 243
             L+N     N VTG+S+GF +LDK+T+G Q GDLIIVA RPSMGKT F++N+ E  A+   
Sbjct:   193 LYNNP--HNGVTGVSSGFSDLDKMTAGFQSGDLIIVAARPSMGKTTFAMNLCEQAAMNED 250

Query:   244 LPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK-KINKSQLYID 302
              PV IFS+EM   Q+ MRML S+G++DQ K+RTG+L  +DW R++ ++   + + ++YID
Sbjct:   251 KPVLIFSLEMPSEQIMMRMLASLGRVDQTKIRTGQLDDEDWARVSSTMGIMLEQGKMYID 310

Query:   303 ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAK 362
             +   L   E+R+ +RR++R+ G + +I++DYLQLM   +  +NR  EI+EISR+LK LAK
Sbjct:   311 DGSGLTPTEVRSRARRIAREHGGLSMIMVDYLQLMQVPALSDNRTLEIAEISRSLKALAK 370

Query:   363 EINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGI 422
             E+  P++ALSQLNRSLEQR +KRP+ SDLRESG+IEQDAD+I+FIYRDEVYN +S DKG 
Sbjct:   371 ELEIPVIALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEVYNNDSPDKGT 430

Query:   423 AEIIVSKQRNGPIGNIRLTFSGQYTKFNNF 452
             AEII+ KQRNGPIG +RLTF GQ+++F+N+
Sbjct:   431 AEIIIGKQRNGPIGRVRLTFQGQFSRFDNY 460

GO:0004003 "ATP-dependent DNA helicase activity" evidence=ISS

GO:0006260 "DNA replication" evidence=ISS

UNIPROTKB|P0ACB0 dnaB "DnaB" [Escherichia coli K-12 (taxid:83333)]

 Score = 1168 (416.2 bits), Expect = 1.3e-118, P = 1.3e-118
 Identities = 229/441 (51%), Positives = 326/441 (73%)

Query:    13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
             +VPPHSIE+EQSVLGGL+LDN  WD +A+ + +D FY   HR IF  + +L  S  P D+
Sbjct:    25 KVPPHSIEAEQSVLGGLMLDNERWDDVAERVVADDFYTRPHRHIFTEMARLQESGSPIDL 84

Query:    73 ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
             IT+ +SL   G  + +GG +YL  L++N PSAANI  YA+IVR+R ++R++I+V +EI+ 
Sbjct:    85 ITLAESLERQGQLDSVGGFAYLAELSKNTPSAANISAYADIVRERAVVREMISVANEIAE 144

Query:   133 QAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDN 192
               F  +G+  + +LD AES++F IAE     ++G + I  +L+  + RI +L  +  +D 
Sbjct:   145 AGFDPQGRTSEDLLDLAESRVFKIAESRANKDEGPKNIADVLDATVARIEQLFQQ-PHDG 203

Query:   193 DVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME 252
              VTG++TG+ +L+K T+GLQP DLIIVA RPSMGKT F++N+ E+ A+    PV IFS+E
Sbjct:   204 -VTGVNTGYDDLNKKTAGLQPSDLIIVAARPSMGKTTFAMNLVENAAMLQDKPVLIFSLE 262

Query:   253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK-KINKSQLYIDETPSLNVIE 311
             M   Q+ MR L S+ ++DQ K+RTG+L  +DW RI+ ++   + K  +YID++  L   E
Sbjct:   263 MPSEQIMMRSLASLSRVDQTKIRTGQLDDEDWARISGTMGILLEKRNIYIDDSSGLTPTE 322

Query:   312 LRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL 371
             +R+ +RR++R+ G IG+I+IDYLQLM   +  +NR  EI+EISR+LK LAKE+N P++AL
Sbjct:   323 VRSRARRIAREHGGIGLIMIDYLQLMRVPALSDNRTLEIAEISRSLKALAKELNVPVVAL 382

Query:   372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR 431
             SQLNRSLEQR +KRP+ SDLRESG+IEQDAD+I+FIYRDEVY++NS  KGIAEII+ KQR
Sbjct:   383 SQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEVYHENSDLKGIAEIIIGKQR 442

Query:   432 NGPIGNIRLTFSGQYTKFNNF 452
             NGPIG +RLTF+GQ+++F+N+
Sbjct:   443 NGPIGTVRLTFNGQWSRFDNY 463

GO:0005658 "alpha DNA polymerase:primase complex" evidence=IEA

GO:0006268 "DNA unwinding involved in replication" evidence=IDA

GO:0006269 "DNA replication, synthesis of RNA primer" evidence=IEA

GO:0006260 "DNA replication" evidence=IMP

GO:0005524 "ATP binding" evidence=IEA

GO:0004386 "helicase activity" evidence=IDA

GO:0003678 "DNA helicase activity" evidence=IEA;IDA

GO:0003677 "DNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q9KUY7 VC_0371 "Replicative DNA helicase" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 1157 (412.3 bits), Expect = 1.8e-117, P = 1.8e-117
 Identities = 224/441 (50%), Positives = 320/441 (72%)

Query:    13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
             +VPPHS+E+EQSV+GGLLLDN  WD +++ + +  FY   HRLIF  +  ++ +  P D+
Sbjct:    22 KVPPHSLEAEQSVIGGLLLDNERWDTVSEHVMTQDFYSRPHRLIFDGVKSILEAGKPLDL 81

Query:    73 ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
             IT+ + L      E++GG +YL  LA+N PSAANI  YAEIV +R ++R LI V +EI+ 
Sbjct:    82 ITLSEYLEQREQLEDVGGFAYLADLAKNTPSAANINAYAEIVAERALVRNLIGVANEIAD 141

Query:   133 QAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDN 192
               +  +G+  + +LD AESK+F+IAE     N+G + +  +L R ++RI  L+   T  +
Sbjct:   142 AGYDPQGRNAEDLLDLAESKVFAIAEARTSENEGPKNVDSILERTLERIELLYK--TPQD 199

Query:   193 DVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME 252
              VTG++TGF +L+K T+GLQ  DLIIVA RPSMGKT F++N+ E+ A+E   PV IFS+E
Sbjct:   200 GVTGVNTGFTDLNKKTAGLQGSDLIIVAARPSMGKTTFAMNLCENAAMEQDKPVLIFSLE 259

Query:   253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKI-NKSQLYIDETPSLNVIE 311
             M   Q+ MRML S+ ++DQ K+RTG+L  +DW RI+ ++  +  K  +YID++  L   E
Sbjct:   260 MPAEQIMMRMLASLSRVDQTKIRTGQLDDEDWARISSTMGILMEKKNMYIDDSSGLTPTE 319

Query:   312 LRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL 371
             +R+ +RR++R+ G + +I++DYLQLM   +  +NR  EI+EISR+LK LAKE+N P++AL
Sbjct:   320 VRSRARRIAREHGGLSLIMVDYLQLMRVPALTDNRTLEIAEISRSLKALAKELNVPVVAL 379

Query:   372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR 431
             SQLNRSLEQR +KRP+ SDLRESG+IEQDAD+I+FIYRDEVY+ +S  KG AEII+ KQR
Sbjct:   380 SQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEVYHPDSPLKGTAEIIIGKQR 439

Query:   432 NGPIGNIRLTFSGQYTKFNNF 452
             NGPIG++RLTF G Y++F+N+
Sbjct:   440 NGPIGSVRLTFQGHYSRFDNY 460

GO:0003678 "DNA helicase activity" evidence=ISS

GO:0005524 "ATP binding" evidence=ISS

GO:0006270 "DNA replication initiation" evidence=ISS

GO:0006271 "DNA strand elongation involved in DNA replication" evidence=ISS

GO:0008094 "DNA-dependent ATPase activity" evidence=ISS

GO:0032508 "DNA duplex unwinding" evidence=ISS

TIGR_CMR|VC_0371 VC_0371 "replicative DNA helicase" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 1157 (412.3 bits), Expect = 1.8e-117, P = 1.8e-117
 Identities = 224/441 (50%), Positives = 320/441 (72%)

Query:    13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
             +VPPHS+E+EQSV+GGLLLDN  WD +++ + +  FY   HRLIF  +  ++ +  P D+
Sbjct:    22 KVPPHSLEAEQSVIGGLLLDNERWDTVSEHVMTQDFYSRPHRLIFDGVKSILEAGKPLDL 81

Query:    73 ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
             IT+ + L      E++GG +YL  LA+N PSAANI  YAEIV +R ++R LI V +EI+ 
Sbjct:    82 ITLSEYLEQREQLEDVGGFAYLADLAKNTPSAANINAYAEIVAERALVRNLIGVANEIAD 141

Query:   133 QAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDN 192
               +  +G+  + +LD AESK+F+IAE     N+G + +  +L R ++RI  L+   T  +
Sbjct:   142 AGYDPQGRNAEDLLDLAESKVFAIAEARTSENEGPKNVDSILERTLERIELLYK--TPQD 199

Query:   193 DVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME 252
              VTG++TGF +L+K T+GLQ  DLIIVA RPSMGKT F++N+ E+ A+E   PV IFS+E
Sbjct:   200 GVTGVNTGFTDLNKKTAGLQGSDLIIVAARPSMGKTTFAMNLCENAAMEQDKPVLIFSLE 259

Query:   253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKI-NKSQLYIDETPSLNVIE 311
             M   Q+ MRML S+ ++DQ K+RTG+L  +DW RI+ ++  +  K  +YID++  L   E
Sbjct:   260 MPAEQIMMRMLASLSRVDQTKIRTGQLDDEDWARISSTMGILMEKKNMYIDDSSGLTPTE 319

Query:   312 LRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL 371
             +R+ +RR++R+ G + +I++DYLQLM   +  +NR  EI+EISR+LK LAKE+N P++AL
Sbjct:   320 VRSRARRIAREHGGLSLIMVDYLQLMRVPALTDNRTLEIAEISRSLKALAKELNVPVVAL 379

Query:   372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR 431
             SQLNRSLEQR +KRP+ SDLRESG+IEQDAD+I+FIYRDEVY+ +S  KG AEII+ KQR
Sbjct:   380 SQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEVYHPDSPLKGTAEIIIGKQR 439

Query:   432 NGPIGNIRLTFSGQYTKFNNF 452
             NGPIG++RLTF G Y++F+N+
Sbjct:   440 NGPIGSVRLTFQGHYSRFDNY 460

GO:0003678 "DNA helicase activity" evidence=ISS

GO:0005524 "ATP binding" evidence=ISS

GO:0006270 "DNA replication initiation" evidence=ISS

GO:0006271 "DNA strand elongation involved in DNA replication" evidence=ISS

GO:0008094 "DNA-dependent ATPase activity" evidence=ISS

TIGR_CMR|GSU_0998 GSU_0998 "replicative DNA helicase" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 1092 (389.5 bits), Expect = 1.4e-110, P = 1.4e-110
 Identities = 225/450 (50%), Positives = 313/450 (69%)

Query:    13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
             +VPP SIE+E S+LGG+LLDN A ++  + + +D FYR  HR IF+ +I L N S P D+
Sbjct:     8 KVPPQSIEAEMSILGGVLLDNEAINRCLELIEADDFYRESHRKIFRAMIDLSNRSEPCDL 67

Query:    73 ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
             IT+ D L   G  EE+GG +YL +L   +P+AANI  Y  IV+++ + R+LIT   +I +
Sbjct:    68 ITLTDMLKRKGELEEVGGGAYLATLVDYVPTAANIAYYCRIVKEKSVTRRLITAATDIVT 127

Query:   133 QAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDN 192
             + +      V ++LD A+  IF I+E ++     F  +  +L    KRI  L+ +  +  
Sbjct:   128 RGY-DEETTVDELLDGAQKTIFEISENKL--RPAFTPVGTILKDTFKRIETLYEKKEH-- 182

Query:   193 DVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAI--ENKLPVAIFS 250
              VTG+ TGF++LDK+T+G QPGDLII+AGRPSMGKTAFSLNI ++ A   +  LPVA+FS
Sbjct:   183 -VTGVPTGFYDLDKMTAGFQPGDLIIIAGRPSMGKTAFSLNIAQYAAAHADPPLPVAVFS 241

Query:   251 MEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVI 310
             +EMS   L MR+L S  ++D  +LRTG L   DW ++     K++K++LYID+TP++ V+
Sbjct:   242 LEMSKESLVMRLLCSESRVDASRLRTGHLVDTDWHKLTHGADKLSKARLYIDDTPAIPVL 301

Query:   311 ELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILA 370
             E+RA +RRL  + G +G+I++DYLQLM  +S+ E+R  EISEISR+LK LAKE++ P++A
Sbjct:   302 EMRAKARRLKAENG-LGMIVVDYLQLMRGSSQ-ESRQQEISEISRSLKALAKELDVPVVA 359

Query:   371 LSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVY------NQNSADKGI-- 422
             LSQLNRSLE R +KRP+MSDLRESGAIEQDADVI+F+YRD VY         S  KG   
Sbjct:   360 LSQLNRSLESRTDKRPMMSDLRESGAIEQDADVIMFVYRDAVYCDDCKKRDGSCTKGHEK 419

Query:   423 -AEIIVSKQRNGPIGNIRLTFSGQYTKFNN 451
              AEII+ KQRNGPIG++ L F+G++TKF N
Sbjct:   420 DAEIIIGKQRNGPIGSVNLLFNGEFTKFEN 449

GO:0004003 "ATP-dependent DNA helicase activity" evidence=ISS

GO:0006260 "DNA replication" evidence=ISS

UNIPROTKB|Q9X4C9 dnaB "Replicative helicase" [Geobacillus stearothermophilus (taxid:1422)]

 Score = 1061 (378.5 bits), Expect = 2.7e-107, P = 2.7e-107
 Identities = 208/440 (47%), Positives = 311/440 (70%)

Query:    13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
             R+PP SIE+EQ+VLG + LD  A    ++ L  + FYR  H+ IF  ++++ +   P D+
Sbjct:     8 RIPPQSIEAEQAVLGAVFLDPAALVPASEILIPEDFYRAAHQKIFHAMLRVADRGEPVDL 67

Query:    73 ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
             +TV   L+ +   EEIGG+SYL+ LA  +P+AAN+  YA IV ++ +LR+LI     I+ 
Sbjct:    68 VTVTAELAASEQLEEIGGVSYLSELADAVPTAANVEYYARIVEEKSVLRRLIRTATSIAQ 127

Query:   133 QAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDN 192
               + +R  E+  +LDEA+ KI  +++++   +  F+ I+ +L +    I  LHNR   D 
Sbjct:   128 DGY-TREDEIDVLLDEADRKIMEVSQRKH--SGAFKNIKDILVQTYDNIEMLHNR---DG 181

Query:   193 DVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME 252
             ++TGI TGF ELD++TSG Q  DLIIVA RPS+GKTAF+LNI +++A +    VAIFS+E
Sbjct:   182 EITGIPTGFTELDRMTSGFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSLE 241

Query:   253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIEL 312
             MS  QL MRML + G ++   LRTG+L+ +DW ++  ++  ++ + +YID+TPS+ V ++
Sbjct:   242 MSAQQLVMRMLCAEGNINAQNLRTGKLTPEDWGKLTMAMGSLSNAGIYIDDTPSIRVSDI 301

Query:   313 RANSRRLSRQCGKIGVIIIDYLQLMSANSRG-ENRATEISEISRNLKGLAKEINCPILAL 371
             RA  RRL ++ G +G+I+IDYLQL+  + R  ENR  E+SEISR+LK LA+E+  P++AL
Sbjct:   302 RAKCRRLKQESG-LGMIVIDYLQLIQGSGRSKENRQQEVSEISRSLKALARELEVPVIAL 360

Query:   372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR 431
             SQL+RS+EQRQ+KRP+MSD+RESG+IEQDAD++ F+YRD+ YN++S +K I EII++KQR
Sbjct:   361 SQLSRSVEQRQDKRPMMSDIRESGSIEQDADIVAFLYRDDYYNKDSENKNIIEIIIAKQR 420

Query:   432 NGPIGNIRLTFSGQYTKFNN 451
             NGP+G ++L F  +Y KF N
Sbjct:   421 NGPVGTVQLAFIKEYNKFVN 440

GO:0005515 "protein binding" evidence=IPI

GO:0042802 "identical protein binding" evidence=IPI

UNIPROTKB|P37469 dnaC "Replicative DNA helicase" [Bacillus subtilis subsp. subtilis str. 168 (taxid:224308)]

 Score = 1043 (372.2 bits), Expect = 2.2e-105, P = 2.2e-105
 Identities = 205/440 (46%), Positives = 303/440 (68%)

Query:    13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
             R+PP +IE+EQ+VLG + L  +A    ++ L  D FYR  H+ I+  ++ L +   P D+
Sbjct:     8 RLPPQNIEAEQAVLGAIFLQPSALTLASEVLIPDDFYRMSHQKIYNAMLVLGDRGEPVDL 67

Query:    73 ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
             +TV   L+NT   EE+GG+SYL  +A ++P+AANI  YA+IV ++ ILR+LI     I+ 
Sbjct:    68 VTVTSELANTDLLEEVGGISYLTDIANSVPTAANIEYYAKIVEEKSILRRLIRTATTIAQ 127

Query:   133 QAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDN 192
               + +R  EV+ +L EAE  I  +A+++      FQ I+ +L +    I +LHNR     
Sbjct:   128 DGY-TREDEVEDLLSEAEKTIMEVAQRKN--TSAFQNIKDVLVQTYDNIEQLHNR---KG 181

Query:   193 DVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME 252
             D+TGI TGF ELD++T+G Q  DLIIVA RPS+GKTAF+LNI +++A +    VAIFS+E
Sbjct:   182 DITGIPTGFTELDRMTAGFQRNDLIIVAARPSVGKTAFALNIAQNVATKTDESVAIFSLE 241

Query:   253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIEL 312
             M   QL MRML + G ++   LRTG L+ +DW ++  ++  ++ S +YID+TP + V E+
Sbjct:   242 MGAEQLVMRMLCAEGNINAQNLRTGNLTEEDWGKLTMAMGSLSNSGIYIDDTPGIRVSEI 301

Query:   313 RANSRRLSRQCGKIGVIIIDYLQLMSANSRG-ENRATEISEISRNLKGLAKEINCPILAL 371
             RA  RRL ++ G +G+I+IDYLQL+  + R  +NR  E+SEISR LK +A+E+  P++AL
Sbjct:   302 RAKCRRLKQESG-LGMILIDYLQLIQGSGRSKDNRQQEVSEISRELKSIARELQVPVIAL 360

Query:   372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR 431
             SQL+R +EQRQ+KRP+MSD+RESG+IEQDAD++ F+YRD+ Y++ + +K I EII++KQR
Sbjct:   361 SQLSRGVEQRQDKRPMMSDIRESGSIEQDADIVAFLYRDDYYDKETENKNIIEIIIAKQR 420

Query:   432 NGPIGNIRLTFSGQYTKFNN 451
             NGP+G + L F  +Y KF N
Sbjct:   421 NGPVGTVSLAFVKEYNKFVN 440

GO:0005515 "protein binding" evidence=IPI

TIGR_CMR|BA_5717 BA_5717 "replicative DNA helicase" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 1038 (370.5 bits), Expect = 7.5e-105, P = 7.5e-105
 Identities = 204/440 (46%), Positives = 305/440 (69%)

Query:    13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
             R PPH+IE+EQ+VLG +L+D  A    ++ L  D FYR  H+ IF+ ++ L +   P D+
Sbjct:     8 RTPPHNIEAEQAVLGAILIDQDALTSASELLVPDSFYRTKHQKIFEVMLGLSDKGEPIDL 67

Query:    73 ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
             + +  ++++ G  EE+GG+SYL  LA+ +P+AAN+  YA I+ ++ +LR+LI     I S
Sbjct:    68 VMMTSAMADQGLLEEVGGVSYLAELAEVVPTAANVEYYARIIAEKALLRRLIRTATHIVS 127

Query:   133 QAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDN 192
               +  R  +V  +L+EAE KI  ++ +     K FQ I+ +L     +I  LHN+     
Sbjct:   128 DGY-EREDDVDGLLNEAEKKILEVSHQTNA--KAFQNIKDVLVDAYDKIELLHNQ---KG 181

Query:   193 DVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME 252
             +VTGI TGF ELDK+T+G Q  DLIIVA RPS+GKTAFSLNI +++A +    VAIFS+E
Sbjct:   182 EVTGIPTGFTELDKMTAGFQRNDLIIVAARPSVGKTAFSLNIAQNVATKTDENVAIFSLE 241

Query:   253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIEL 312
             M   QL MRML + G +D  +LRTG L+SDDW ++  ++  ++ + +YID+TP + V E+
Sbjct:   242 MGADQLVMRMLCAEGNIDAQRLRTGSLTSDDWAKLTMAMGSLSNAGIYIDDTPGIKVNEI 301

Query:   313 RANSRRLSRQCGKIGVIIIDYLQLMSANSR-GENRATEISEISRNLKGLAKEINCPILAL 371
             RA  RRL ++ G +G+I+IDYLQL+  + + GENR  E+SEISR LKG+A+E+  P++AL
Sbjct:   302 RAKCRRLKQEQG-LGMILIDYLQLIQGSGKSGENRQQEVSEISRTLKGIARELQVPVIAL 360

Query:   372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR 431
             SQL+R +E RQ+KRP+MSD+RESG+IEQDAD++ F+YR++ Y++ + +K   EII++KQR
Sbjct:   361 SQLSRGVESRQDKRPMMSDIRESGSIEQDADIVAFLYREDYYDRETENKNTIEIIIAKQR 420

Query:   432 NGPIGNIRLTFSGQYTKFNN 451
             NGP+G++ L F  ++ KF N
Sbjct:   421 NGPVGSVELAFVKEFNKFVN 440

GO:0004003 "ATP-dependent DNA helicase activity" evidence=ISS

GO:0006260 "DNA replication" evidence=ISS

TIGR_CMR|CHY_0041 CHY_0041 "replicative DNA helicase" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 994 (355.0 bits), Expect = 3.4e-100, P = 3.4e-100
 Identities = 200/445 (44%), Positives = 309/445 (69%)

Query:     9 NKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSH 68
             N+   +PPH+I++EQ+VLG +L +  +  K+ + L  + FYR  H+L+++ +++L     
Sbjct:     2 NELLMLPPHNIDAEQAVLGTILSNGESLYKVIEILKPEDFYRESHKLLYQVMLELNEKGE 61

Query:    69 PADVITVFDSLSNTGNAEEIGGLSYLNSL-AQNIPSAANIRRYAEIVRDRGILRKLITVT 127
             P  ++TV ++L   G+ E  GG+SY+ SL A  +P A  +  +AEI+ ++ +LR LI ++
Sbjct:    62 PITILTVTEALKQKGDLERAGGVSYIASLLAMAVPEAT-LESHAEIIEEKAVLRHLIDLS 120

Query:   128 DEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLH-N 186
             ++I   ++    K+ + IL+EAE  +  +  K     + +  ++ ++   I+RI  L+ N
Sbjct:   121 EKIKRLSYTE--KDAESILEEAERLVLEVGMKRN--QQSYTAVREIVYDAIERIEFLYQN 176

Query:   187 RGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPV 246
             RG    ++TGI T F++LD++ +GLQ  DLIIVA RP+MGKT+F LN+ ++ AI++ +PV
Sbjct:   177 RG----NITGIPTHFYDLDRMLNGLQKSDLIIVAARPAMGKTSFCLNVAQNAAIKSGVPV 232

Query:   247 AIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPS 306
             A+FS+EMS  QL  RML S   +DQH++R G LS +DW R+ +    + K+ +YID+TP 
Sbjct:   233 AVFSLEMSKEQLVTRMLTSEAMVDQHRVRAGELSDEDWLRLTEVAGILAKAPIYIDDTPG 292

Query:   307 LNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINC 366
             L + ELRA +RRL ++   IG+IIIDYLQL++ + R E+R  EISEISR LKGLAKE++ 
Sbjct:   293 LTIRELRARARRLKQE-KNIGLIIIDYLQLLNGSRRAESRQQEISEISRALKGLAKELDL 351

Query:   367 PILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEII 426
             P++ALSQL+R++E RQ+KRPIMSDLRESG++EQDAD+++FIYR+E Y  ++  K IAEII
Sbjct:   352 PVVALSQLSRAVEARQDKRPIMSDLRESGSLEQDADIVMFIYREEYYKPDTEKKSIAEII 411

Query:   427 VSKQRNGPIGNIRLTFSGQYTKFNN 451
             ++KQRNGP G + L F  ++TKF N
Sbjct:   412 IAKQRNGPTGIVELGFLKEFTKFVN 436

GO:0004003 "ATP-dependent DNA helicase activity" evidence=ISS

GO:0006260 "DNA replication" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P45256	DNAB_HAEIN	3, ., 6, ., 4, ., 1, 2	0.4988	0.9690	0.9358	yes	N/A
Q92HG8	DNAB_RICCN	3, ., 6, ., 4, ., 1, 2	0.3710	0.9601	0.8785	yes	N/A
Q8K932	DNAB_BUCAP	3, ., 6, ., 4, ., 1, 2	0.4920	0.9734	0.9462	yes	N/A
O78411	DNAB_GUITH	3, ., 6, ., 4, ., 1, 2	0.3208	0.8429	0.6360	yes	N/A
Q6ABX1	DNAB_LEIXX	3, ., 6, ., 4, ., 1, 2	0.3927	0.9513	0.9409	yes	N/A
P75539	DNAB_MYCPN	3, ., 6, ., 4, ., 1, 2	0.3045	0.7831	0.7484	yes	N/A
P47340	DNAB_MYCGE	3, ., 6, ., 4, ., 1, 2	0.3306	0.7168	0.6923	yes	N/A
Q9CNL6	DNAB_PASMU	3, ., 6, ., 4, ., 1, 2	0.5192	0.9690	0.9379	yes	N/A
O25916	DNAB_HELPY	3, ., 6, ., 4, ., 1, 2	0.3247	0.9292	0.8606	yes	N/A
Q8FB22	DNAB_ECOL6	3, ., 6, ., 4, ., 1, 2	0.5065	0.9889	0.9490	yes	N/A
P57611	DNAB_BUCAI	3, ., 6, ., 4, ., 1, 2	0.4943	0.9734	0.9586	yes	N/A
Q89A52	DNAB_BUCBP	3, ., 6, ., 4, ., 1, 2	0.5091	0.9623	0.9395	yes	N/A
Q1RI04	DNAB_RICBR	3, ., 6, ., 4, ., 1, 2	0.3615	0.9601	0.8714	yes	N/A
Q4UL62	DNAB_RICFE	3, ., 6, ., 4, ., 1, 2	0.3688	0.9601	0.8785	yes	N/A
Q9ZD08	DNAB_RICPR	3, ., 6, ., 4, ., 1, 2	0.3731	0.9601	0.8930	yes	N/A
Q8X5V3	DNAB_ECO57	3, ., 6, ., 4, ., 1, 2	0.5021	0.9889	0.9490	N/A	N/A
Q68WJ2	DNAB_RICTY	3, ., 6, ., 4, ., 1, 2	0.3739	0.9623	0.8752	yes	N/A
P0A1Q5	DNAB_SALTI	3, ., 6, ., 4, ., 1, 2	0.5067	0.9712	0.9320	N/A	N/A
P0A1Q4	DNAB_SALTY	3, ., 6, ., 4, ., 1, 2	0.5067	0.9712	0.9320	yes	N/A
P37469	DNAC_BACSU	3, ., 6, ., 4, ., 1, 2	0.4648	0.9579	0.9537	yes	N/A
Q9ZJM5	DNAB_HELPJ	3, ., 6, ., 4, ., 1, 2	0.3311	0.9292	0.8641	yes	N/A
P0ACB0	DNAB_ECOLI	3, ., 6, ., 4, ., 1, 2	0.5021	0.9889	0.9490	N/A	N/A
P0ACB1	DNAB_SHIFL	3, ., 6, ., 4, ., 1, 2	0.5021	0.9889	0.9490	yes	N/A
O83097	DNAB_TREPA	3, ., 6, ., 4, ., 1, 2	0.3504	0.9491	0.9794	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.6.4.12	0.914
3rd Layer	3.6.4	0.921

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	452
PRK07004	460	PRK07004, PRK07004, replicative DNA helicase; Prov	0.0
TIGR00665	434	TIGR00665, DnaB, replicative DNA helicase	0.0
PRK05748	448	PRK05748, PRK05748, replicative DNA helicase; Prov	0.0
COG0305	435	COG0305, DnaB, Replicative DNA helicase [DNA repli	0.0
PRK08840	464	PRK08840, PRK08840, replicative DNA helicase; Prov	1e-170
PRK08760	476	PRK08760, PRK08760, replicative DNA helicase; Prov	1e-169
PRK06904	472	PRK06904, PRK06904, replicative DNA helicase; Vali	1e-167
PRK08006	471	PRK08006, PRK08006, replicative DNA helicase; Prov	1e-166
PRK05595	444	PRK05595, PRK05595, replicative DNA helicase; Prov	1e-151
PRK09165	497	PRK09165, PRK09165, replicative DNA helicase; Prov	1e-147
TIGR03600	420	TIGR03600, phage_DnaB, phage replicative helicase,	1e-144
PRK07773	886	PRK07773, PRK07773, replicative DNA helicase; Vali	1e-142
pfam03796	260	pfam03796, DnaB_C, DnaB-like helicase C terminal d	1e-135
PRK08506	472	PRK08506, PRK08506, replicative DNA helicase; Prov	1e-125
cd00984	242	cd00984, DnaB_C, DnaB helicase C terminal domain	1e-124
PRK06321	472	PRK06321, PRK06321, replicative DNA helicase; Prov	1e-119
PRK05636	505	PRK05636, PRK05636, replicative DNA helicase; Prov	1e-118
PRK06749	428	PRK06749, PRK06749, replicative DNA helicase; Prov	1e-95
pfam00772	103	pfam00772, DnaB, DnaB-like helicase N terminal dom	2e-38
PRK07773	886	PRK07773, PRK07773, replicative DNA helicase; Vali	8e-19
cd01122	271	cd01122, GP4d_helicase, GP4d_helicase is a homohex	3e-15
PRK05973	237	PRK05973, PRK05973, replicative DNA helicase; Prov	6e-10
cd01120	165	cd01120, RecA-like_NTPases, RecA-like NTPases	5e-09
PHA02542	473	PHA02542, 41, 41 helicase; Provisional	9e-09
pfam13481	154	pfam13481, AAA_25, AAA domain	5e-07
TIGR00416	454	TIGR00416, sms, DNA repair protein RadA	2e-04
cd01121	372	cd01121, Sms, Sms (bacterial radA) DNA repair prot	0.001
COG1066	456	COG1066, Sms, Predicted ATP-dependent serine prote	0.003

>gnl|CDD|235907 PRK07004, PRK07004, replicative DNA helicase; Provisional

 Score =  751 bits (1941), Expect = 0.0
 Identities = 307/452 (67%), Positives = 389/452 (86%), Gaps = 1/452 (0%)

Query: 1   MLVPFNTENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHI 60
           M  P + + +  +VPPHSIE+EQSVLGGLLLDN AWD+IAD L+   FYRYDHR+IF+HI
Sbjct: 1   MNAPADPQLESLKVPPHSIEAEQSVLGGLLLDNAAWDRIADFLSQSDFYRYDHRIIFEHI 60

Query: 61  IKLINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGIL 120
            +LI ++ PADVITV+++L+ +G AEE+GGL+YLN+LAQN PSAANIRRYAEIVRDR +L
Sbjct: 61  GRLIAATRPADVITVYEALTTSGKAEEVGGLAYLNALAQNTPSAANIRRYAEIVRDRAVL 120

Query: 121 RKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKR 180
           R+L++V DEIS+ AF  +GKEV+Q+LDEAESK+FSIAE+     +GF +I PLL +V++R
Sbjct: 121 RRLVSVADEISADAFNPQGKEVRQLLDEAESKVFSIAEEGARGTQGFLEIGPLLTQVVER 180

Query: 181 INKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAI 240
           I+ L++   N +DVTG  TGF +LD++TSG+  G+LIIVAGRPSMGKTAFS+NIGE++A+
Sbjct: 181 IDTLYHT-ANPSDVTGTPTGFVDLDRMTSGMHGGELIIVAGRPSMGKTAFSMNIGEYVAV 239

Query: 241 ENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLY 300
           E  LPVA+FSMEM G QLAMRMLGSVG+LDQH++RTGRL+ +DWP++  +++K++++QL+
Sbjct: 240 EYGLPVAVFSMEMPGTQLAMRMLGSVGRLDQHRMRTGRLTDEDWPKLTHAVQKMSEAQLF 299

Query: 301 IDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGL 360
           IDET  LN +ELR+ +RRL+RQCGK+G+IIIDYLQLMS +S+GENRATEISEISR+LK L
Sbjct: 300 IDETGGLNPMELRSRARRLARQCGKLGLIIIDYLQLMSGSSQGENRATEISEISRSLKSL 359

Query: 361 AKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADK 420
           AKE++ P++ALSQLNR LEQR NKRP+MSDLRESGAIEQDADVILFIYRDEVYN +S DK
Sbjct: 360 AKELDVPVIALSQLNRGLEQRPNKRPVMSDLRESGAIEQDADVILFIYRDEVYNPDSPDK 419

Query: 421 GIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF 452
           G AEII+ KQRNGPIG +RLTF GQYTKF+NF
Sbjct: 420 GTAEIIIGKQRNGPIGPVRLTFLGQYTKFDNF 451

Length = 460

>gnl|CDD|233080 TIGR00665, DnaB, replicative DNA helicase

 Score =  681 bits (1760), Expect = 0.0
 Identities = 241/438 (55%), Positives = 324/438 (73%), Gaps = 7/438 (1%)

Query: 14  VPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVI 73
           VPPH+IE+EQ+VLG +LLDN A D +A+ L  + FYR  H+LIF+ I+ L     P D++
Sbjct: 1   VPPHNIEAEQAVLGAILLDNEAIDDVAEILKPEDFYRPAHQLIFEAILDLYEKGEPIDLV 60

Query: 74  TVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQ 133
           TV + L   G  EE+GGL+YL  LA N+PSAANI  YAEIV+++ ILR+LI    EI   
Sbjct: 61  TVKEELEKDGQLEEVGGLAYLAELADNVPSAANIEYYAEIVKEKAILRRLIQAGTEIVEL 120

Query: 134 AFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDND 193
           A+     +V+++LDEAE KIF IAE     + GF+ I+ +L   ++ I +L+        
Sbjct: 121 AY-DPEGDVEELLDEAEQKIFEIAESRT--SGGFKSIKEVLKETVEEIEELYE---RKGG 174

Query: 194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM 253
           +TG+ TGF +LDK+TSGLQP DLII+A RPSMGKTAF+LNI E+ AI+   PVA FS+EM
Sbjct: 175 ITGVPTGFTDLDKLTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEM 234

Query: 254 SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELR 313
           S  QL MRML S  ++D  KLRTG+LS +DW ++  +  K++++ LYID+TP L + ELR
Sbjct: 235 SAEQLVMRMLSSESRVDSQKLRTGKLSDEDWEKLTSAAGKLSEAPLYIDDTPGLTITELR 294

Query: 314 ANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQ 373
           A +RRL R+ G +G+I+IDYLQLMS + R ENR  E+SEISR+LK LAKE+N P++ALSQ
Sbjct: 295 AKARRLKREHG-LGLIVIDYLQLMSGSGRSENRQQEVSEISRSLKALAKELNVPVIALSQ 353

Query: 374 LNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNG 433
           L+RS+EQR++KRP +SDLRESG+IEQDAD+++F+YRDE YN +S DKGIAEII++KQRNG
Sbjct: 354 LSRSVEQREDKRPQLSDLRESGSIEQDADIVMFLYRDEYYNPDSEDKGIAEIIIAKQRNG 413

Query: 434 PIGNIRLTFSGQYTKFNN 451
           P G ++L F G+YT+F N
Sbjct: 414 PTGTVKLAFQGEYTRFEN 431

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 [DNA metabolism, DNA replication, recombination, and repair]. Length = 434

>gnl|CDD|180232 PRK05748, PRK05748, replicative DNA helicase; Provisional

 Score =  628 bits (1623), Expect = 0.0
 Identities = 225/441 (51%), Positives = 321/441 (72%), Gaps = 9/441 (2%)

Query: 13  RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
           RVPP SIE+EQ+VLG + LD  A   +++ L+ D FYR+ HRLIF+ ++KL +   P DV
Sbjct: 8   RVPPQSIEAEQAVLGAIFLDPDALITVSEYLSPDDFYRHAHRLIFRAMLKLSDRGEPIDV 67

Query: 73  ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
           +TV + L + G+ EE+GGLSYL  LA ++P+AANI  YA+IV ++ +LR+LI    EI++
Sbjct: 68  VTVTEILDDQGDLEEVGGLSYLAELANSVPTAANIEYYAKIVAEKAMLRRLIRTATEIAN 127

Query: 133 QAFISRGKEVKQILDEAESKIFSIAEKEICINK-GFQQIQPLLNRVIKRINKLHNRGTND 191
            A+     +  +ILDEAE KIF ++E+    NK GF+ I+ +L +   RI  LHN+    
Sbjct: 128 DAY-EPEDDADEILDEAEKKIFEVSERR---NKSGFKNIKDVLVKAYDRIEMLHNQ---T 180

Query: 192 NDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM 251
            D+TGI TGF +LDK+TSGLQP DLIIVA RPS+GKTAF+LNI +++A +    VAIFS+
Sbjct: 181 GDITGIPTGFTDLDKMTSGLQPNDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSL 240

Query: 252 EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIE 311
           EM    L MRML + G +D  +LRTG+L+ DDWP++  ++  ++ + +YID+TP + V E
Sbjct: 241 EMGAESLVMRMLCAEGNIDAQRLRTGQLTDDDWPKLTIAMGSLSDAPIYIDDTPGIKVTE 300

Query: 312 LRANSRRLSRQCGKIGVIIIDYLQLMSANSR-GENRATEISEISRNLKGLAKEINCPILA 370
           +RA  RRL+++ G +G+I+IDYLQL+  + R GENR  E+SEISR+LK LAKE+  P++A
Sbjct: 301 IRARCRRLAQEHGGLGLILIDYLQLIQGSGRSGENRQQEVSEISRSLKALAKELKVPVIA 360

Query: 371 LSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQ 430
           LSQL+R +EQRQ+KRP+MSD+RESG+IEQDAD++ F+YRD+ Y++ + +K   EII++KQ
Sbjct: 361 LSQLSRGVEQRQDKRPVMSDIRESGSIEQDADIVAFLYRDDYYDEETENKNTIEIIIAKQ 420

Query: 431 RNGPIGNIRLTFSGQYTKFNN 451
           RNGP+G + L F  +Y KF N
Sbjct: 421 RNGPVGTVELAFQKEYNKFVN 441

Length = 448

>gnl|CDD|223382 COG0305, DnaB, Replicative DNA helicase [DNA replication, recombination, and repair]

 Score =  545 bits (1407), Expect = 0.0
 Identities = 212/439 (48%), Positives = 307/439 (69%), Gaps = 7/439 (1%)

Query: 13  RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
           R+PP  IE+EQ+VLGG+LLD  A +++++ L  + FYR  HRLI++ I+ L     P D+
Sbjct: 1   RLPPQDIEAEQAVLGGILLDPDAIERVSERLRPEDFYRPAHRLIYQAILDLYGQGEPIDL 60

Query: 73  ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
           +TV + LS+ G    IGG +YL +L    PSAANI  YA+IV+++ +LR+LI   +EI +
Sbjct: 61  VTVSEELSDRGLLTRIGGANYLATLIDRTPSAANIDYYAKIVKEKALLRELIEAGNEIVN 120

Query: 133 QAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDN 192
             + S     +++LD AE KIF +AE++   ++ F  I  LL   +  I      G    
Sbjct: 121 LGYESEKDLDEEVLDAAEKKIFDVAERKN--SEDFVHIGDLLKETMDEIEARFENG---- 174

Query: 193 DVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME 252
            + G+ TGF +LD+ITSG +PGDLIIVA RP MGKTA +LNI  + A + + PVAIFS+E
Sbjct: 175 GLIGVPTGFTDLDEITSGFRPGDLIIVAARPGMGKTALALNIALNAAADGRKPVAIFSLE 234

Query: 253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIEL 312
           MS  QL MR+L S   ++  KLRTGRLS D+W R+  +  +++++ ++ID+TP L + E+
Sbjct: 235 MSEEQLVMRLLSSESGIESSKLRTGRLSDDEWERLIKAASELSEAPIFIDDTPGLTITEI 294

Query: 313 RANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALS 372
           R+ +RRL  +   +G+I+IDYLQLM+   + ENR  E+SEISR+LKGLAKE+  P++ALS
Sbjct: 295 RSKARRLKLKHN-LGLIVIDYLQLMTGGKKSENRKQEVSEISRSLKGLAKELGVPVIALS 353

Query: 373 QLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRN 432
           QLNRS+EQR +KRP++SDLRESGA+EQDAD+++F++RDE Y +++ D+G AE+IV+K RN
Sbjct: 354 QLNRSVEQRTDKRPMLSDLRESGALEQDADIVIFLHRDEAYLKDTPDRGEAEVIVAKNRN 413

Query: 433 GPIGNIRLTFSGQYTKFNN 451
           GP G ++L F  Q+TKF N
Sbjct: 414 GPTGTVKLAFDPQFTKFKN 432

Length = 435

>gnl|CDD|181562 PRK08840, PRK08840, replicative DNA helicase; Provisional

 Score =  484 bits (1248), Expect = e-170
 Identities = 226/450 (50%), Positives = 323/450 (71%), Gaps = 3/450 (0%)

Query: 4   PFNTENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKL 63
             + +    +VPPHS+E+EQSV+GGLLLDN  WD +A+ + +  FY   HRLIF+ +  +
Sbjct: 9   IPDAQVDAIKVPPHSLEAEQSVIGGLLLDNERWDTVAEKVVASDFYSRPHRLIFEGVKSI 68

Query: 64  INSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKL 123
           + +  P D+IT+ + L      E++GG +YL  LA+N PSAANI  YA+IV +R ++R L
Sbjct: 69  LEAGKPLDLITLSEHLERREQLEDVGGFAYLADLAKNTPSAANINAYADIVAERALVRNL 128

Query: 124 ITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINK 183
           I V +EI+   +  +G+  + +LD AESK+F+IAE     N+G Q +  +L + ++RI  
Sbjct: 129 IGVANEIADAGYDPQGRTSEDLLDMAESKVFAIAEARTSENEGPQNVDSILEKTLERIEL 188

Query: 184 LHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK 243
           L+   T  + VTG+ TGF +L+K T+GLQ  DLIIVA RPSMGKT F++N+ E+ A++  
Sbjct: 189 LYK--TPQDGVTGVDTGFTDLNKKTAGLQGSDLIIVAARPSMGKTTFAMNLCENAAMDQD 246

Query: 244 LPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKI-NKSQLYID 302
            PV IFS+EM   QL MRML S+ ++DQ K+RTG+L  +DW RI+ ++  +  K  +YID
Sbjct: 247 KPVLIFSLEMPAEQLMMRMLASLSRVDQTKIRTGQLDDEDWARISSTMGILMEKKNMYID 306

Query: 303 ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAK 362
           ++  L   E+R+ +RR++R+ G + +I++DYLQLM   +  +NR  EI+EISR+LK LAK
Sbjct: 307 DSSGLTPTEVRSRARRIAREHGGLSMIMVDYLQLMRVPALSDNRTLEIAEISRSLKALAK 366

Query: 363 EINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGI 422
           E+N P++ALSQLNRSLEQR +KRP+ SDLRESG+IEQDAD+I+FIYRDEVYN +S  KG 
Sbjct: 367 ELNVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEVYNPDSPLKGT 426

Query: 423 AEIIVSKQRNGPIGNIRLTFSGQYTKFNNF 452
           AEII+ KQRNGPIG++RLTF GQY++F+N+
Sbjct: 427 AEIIIGKQRNGPIGSVRLTFQGQYSRFDNY 456

Length = 464

>gnl|CDD|181547 PRK08760, PRK08760, replicative DNA helicase; Provisional

 Score =  483 bits (1245), Expect = e-169
 Identities = 226/443 (51%), Positives = 310/443 (69%), Gaps = 5/443 (1%)

Query: 11  KFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPA 70
           + RVPPHS+E+EQ+VLGGL+L   A D++ D L  + FYR DHRLI++ I +L     P 
Sbjct: 29  QLRVPPHSVEAEQAVLGGLMLAPDALDRVNDQLTENDFYRRDHRLIYRAIRELSEKDRPF 88

Query: 71  DVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEI 130
           D +T+ +   + G  E++G  +YL  LA   PSAANI  YAEIVRD+ +LR+LI V   I
Sbjct: 89  DAVTLGEWFESQGKLEQVGDGAYLIELASTTPSAANIAAYAEIVRDKAVLRQLIEVGTTI 148

Query: 131 SSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTN 190
            +  F   G+E  ++L  AE  +F IAE        F  +   L    +   +L NR  N
Sbjct: 149 VNDGFQPEGRESIELLASAEKAVFKIAEAGARGRTDFVAMPGALKDAFE---ELRNRFEN 205

Query: 191 DNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS 250
             ++TG+ TG+ + D +T+GLQP DLII+A RP+MGKT F+LNI E+ AI++K  VA+FS
Sbjct: 206 GGNITGLPTGYNDFDAMTAGLQPTDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFS 265

Query: 251 MEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVI 310
           MEMS  QLAMR++ S G+++  +LRTG L  +DW R+  +IK + +++++ID+TP ++  
Sbjct: 266 MEMSASQLAMRLISSNGRINAQRLRTGALEDEDWARVTGAIKMLKETKIFIDDTPGVSPE 325

Query: 311 ELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILA 370
            LR+  RRL R+   +G+I+IDYLQLMS     ENRATEISEISR+LKGLAKE+N P++A
Sbjct: 326 VLRSKCRRLKRE-HDLGLIVIDYLQLMSVPGNSENRATEISEISRSLKGLAKELNVPVIA 384

Query: 371 LSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQ-NSADKGIAEIIVSK 429
           LSQLNRSLE R +KRP+M+DLRESGAIEQDAD+I+FIYRD+ YN+ NS DKG+AEII+ K
Sbjct: 385 LSQLNRSLETRTDKRPVMADLRESGAIEQDADMIVFIYRDDYYNKENSPDKGLAEIIIGK 444

Query: 430 QRNGPIGNIRLTFSGQYTKFNNF 452
            R GP G+ +L F G+YT+F+N 
Sbjct: 445 HRGGPTGSCKLKFFGEYTRFDNL 467

Length = 476

>gnl|CDD|136106 PRK06904, PRK06904, replicative DNA helicase; Validated

 Score =  477 bits (1229), Expect = e-167
 Identities = 230/442 (52%), Positives = 323/442 (73%), Gaps = 4/442 (0%)

Query: 14  VPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVI 73
           +PPHSIE+EQ+VLGG++LDN  WD +A+ + +D FY ++HR+IF+ +  L   + P D++
Sbjct: 22  IPPHSIEAEQAVLGGIMLDNRHWDSVAERVIADDFYTFEHRIIFQEMELLFRQNTPIDLL 81

Query: 74  TVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQ 133
           T+  +L   G ++E+GG +YL  L+ N PSAANI  YA+IVR++ ILR+LI+V + I+  
Sbjct: 82  TLDQALKTKGKSDEVGGFAYLAELSNNTPSAANILAYADIVREKAILRELISVGNNIAKN 141

Query: 134 AFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDND 193
           A+  +G+++K ILDEAE  +FSIAEK    N+G Q +  LL   I +I  L    TN N 
Sbjct: 142 AYSPKGQDIKDILDEAERDVFSIAEKRTTANEGPQNVINLLENTIDKIENLAATPTN-NG 200

Query: 194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM 253
           VTG++TGF +LDK T+GLQP DLIIVA RPSMGKT F++N+ E+ A+ ++ PV +FS+EM
Sbjct: 201 VTGVTTGFTDLDKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMASEKPVLVFSLEM 260

Query: 254 SGIQLAMRMLGSVGKLDQHKLRTGR-LSSDDWPRINDSIKKIN-KSQLYIDETPSLNVIE 311
              Q+ MRML S+ ++DQ K+RTG+ L   DW +I+ ++     K  LYID++  L   E
Sbjct: 261 PAEQIMMRMLASLSRVDQTKIRTGQNLDQQDWAKISSTVGMFKQKPNLYIDDSSGLTPTE 320

Query: 312 LRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL 371
           LR+ +RR+ R+ G + +I++DYLQLM A    +NR  EI+EISR+LK LAKE+  P++AL
Sbjct: 321 LRSRARRVYRENGGLSLIMVDYLQLMRAPGFEDNRTLEIAEISRSLKALAKELKVPVVAL 380

Query: 372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSAD-KGIAEIIVSKQ 430
           SQLNR+LE R +KRP+ SDLRESG+IEQDAD+I+FIYRDEVYN+ + D KG+AEII+ KQ
Sbjct: 381 SQLNRTLENRGDKRPVNSDLRESGSIEQDADLIMFIYRDEVYNETTEDNKGVAEIIIGKQ 440

Query: 431 RNGPIGNIRLTFSGQYTKFNNF 452
           RNGPIG +RL F GQY++F+N 
Sbjct: 441 RNGPIGRVRLAFQGQYSRFDNL 462

Length = 472

>gnl|CDD|181193 PRK08006, PRK08006, replicative DNA helicase; Provisional

 Score =  476 bits (1225), Expect = e-166
 Identities = 226/450 (50%), Positives = 326/450 (72%), Gaps = 3/450 (0%)

Query: 4   PFNTENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKL 63
             + +    +VPPHSIE+EQSVLGGL+LDN  WD +A+ + +D FY   HR IF  + +L
Sbjct: 16  ERDPQVAGLKVPPHSIEAEQSVLGGLMLDNERWDDVAERVVADDFYTRPHRHIFTEMARL 75

Query: 64  INSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKL 123
             S  P D+IT+ +SL   G  + +GG +YL  L++N PSAANI  YA+IVR+R ++R++
Sbjct: 76  QESGSPIDLITLAESLERQGQLDSVGGFAYLAELSKNTPSAANISAYADIVRERAVVREM 135

Query: 124 ITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINK 183
           I+V +EI+   +  +G+  + +LD AES++F IAE     ++G + I  +L+  + RI +
Sbjct: 136 ISVANEIADAGYDPQGRTSEDLLDLAESRVFQIAESRANKDEGPKNIADILDATVARIEQ 195

Query: 184 LHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK 243
           L  +    + VTG++TG+ +L+K T+GLQP DLIIVA RPSMGKT F++N+ E+ A+   
Sbjct: 196 LFQQ--PHDGVTGVNTGYDDLNKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMLQD 253

Query: 244 LPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK-KINKSQLYID 302
            PV IFS+EM G Q+ MRML S+ ++DQ ++RTG+L  +DW RI+ ++   + K  +YID
Sbjct: 254 KPVLIFSLEMPGEQIMMRMLASLSRVDQTRIRTGQLDDEDWARISGTMGILLEKRNMYID 313

Query: 303 ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAK 362
           ++  L   E+R+ +RR+ R+ G + +I+IDYLQLM   S  +NR  EI+EISR+LK LAK
Sbjct: 314 DSSGLTPTEVRSRARRIFREHGGLSLIMIDYLQLMRVPSLSDNRTLEIAEISRSLKALAK 373

Query: 363 EINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGI 422
           E+  P++ALSQLNRSLEQR +KRP+ SDLRESG+IEQDAD+I+FIYRDEVY++NS  KGI
Sbjct: 374 ELQVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDEVYHENSDLKGI 433

Query: 423 AEIIVSKQRNGPIGNIRLTFSGQYTKFNNF 452
           AEII+ KQRNGPIG +RLTF+GQ+++F+N+
Sbjct: 434 AEIIIGKQRNGPIGTVRLTFNGQWSRFDNY 463

Length = 471

>gnl|CDD|235525 PRK05595, PRK05595, replicative DNA helicase; Provisional

 Score =  437 bits (1126), Expect = e-151
 Identities = 202/439 (46%), Positives = 299/439 (68%), Gaps = 7/439 (1%)

Query: 13  RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
           R  P SIE+EQSVLG +++D T+  + A+ L S+ FYR  H++IF  II+L       D+
Sbjct: 6   RSLPQSIEAEQSVLGAMIIDKTSIAEAAEVLKSEDFYRDSHKVIFSAIIELYQKDIAVDM 65

Query: 73  ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
           +T+ ++L +T   E  GG++Y+  L+ +I S ANI+ Y +IV+D+  LR+LI  + EI  
Sbjct: 66  LTLTENLKSTDKLEAAGGVTYITELSNSIVSTANIQSYIKIVKDKSTLRRLIKSSTEIIE 125

Query: 133 QAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDN 192
            ++ +   +V++++D AE KIF I+EK       F+ +  +L R  ++I  L N   N  
Sbjct: 126 NSY-NNQDDVEKVIDSAEKKIFDISEKRT--TSDFEPLSNVLERGFEQIENLFN---NKG 179

Query: 193 DVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME 252
           + TG+++GF ELD  TSG Q GD+I++A RPSMGKT F+LNI E+ A+     VAIFS+E
Sbjct: 180 ETTGVASGFRELDAKTSGFQKGDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFSLE 239

Query: 253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIEL 312
           MS  QLA ++L S   +D  +LRTG L   DW  I  +   +  ++++ID+T  ++V+E+
Sbjct: 240 MSKEQLAYKLLCSEANVDMLRLRTGNLEDKDWENIARASGPLAAAKIFIDDTAGVSVMEM 299

Query: 313 RANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALS 372
           R+  RRL  + G I +I+IDYLQLMS     E+R  E+SEISR++K LAKE+ CP++ALS
Sbjct: 300 RSKCRRLKIEHG-IDMILIDYLQLMSGGKGSESRQQEVSEISRSIKALAKEMECPVIALS 358

Query: 373 QLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRN 432
           QL+R+ EQR + RP++SDLRESG+IEQDADV++F+YRDE YN+ + DK +AE I++KQRN
Sbjct: 359 QLSRAPEQRADHRPMLSDLRESGSIEQDADVVMFLYRDEYYNKETEDKNVAECIIAKQRN 418

Query: 433 GPIGNIRLTFSGQYTKFNN 451
           GP G ++L + GQY+KF N
Sbjct: 419 GPTGTVKLAWLGQYSKFGN 437

Length = 444

>gnl|CDD|181676 PRK09165, PRK09165, replicative DNA helicase; Provisional

 Score =  428 bits (1104), Expect = e-147
 Identities = 179/478 (37%), Positives = 284/478 (59%), Gaps = 39/478 (8%)

Query: 8   ENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSS 67
              + R  PH+IE+EQ++LG +L++N A D+++D L  ++F+   H+ I++ I K+I   
Sbjct: 14  AEPEIRELPHNIEAEQALLGAILINNRALDRVSDFLKPEHFFEPLHQRIYEAIAKIIRKG 73

Query: 68  HPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVT 127
             A  +T+   L N     E+GG+ YL  LA    +  N R Y  I+ D  + R+LI + 
Sbjct: 74  KLATPVTLKTFLENDEALGELGGVQYLAKLATEAVTIINARDYGRIIYDLALRRELINIG 133

Query: 128 DEISSQAFISR-GKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHN 186
           +++ + A+ +      ++ +++AE K++ +AE       GFQ     +   +   N    
Sbjct: 134 EDVVNNAYDAPVDVAPQEQIEDAEQKLYELAETGR-YEGGFQSFGTAITEAVDMANAAFK 192

Query: 187 RGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIA------- 239
           R   D  ++GISTG  +LD    GL P DLII+AGRPSMGKTA + NI  + A       
Sbjct: 193 R---DGHLSGISTGLRDLDSKLGGLHPSDLIILAGRPSMGKTALATNIAFNAAKAYRREA 249

Query: 240 -------IENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK 292
                    N   V  FS+EMS  QLA R+L    ++   K+R G++S +D+ ++ D+ +
Sbjct: 250 QPDGSKKAVNGGVVGFFSLEMSAEQLATRILSEQSEISSSKIRRGKISEEDFEKLVDASQ 309

Query: 293 KINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSR--GENRATEI 350
           ++ K  LYID+TP+L++ +LRA +RRL RQ G + ++++DYLQL+  +S+   +NR  EI
Sbjct: 310 ELQKLPLYIDDTPALSISQLRARARRLKRQHG-LDLLVVDYLQLIRGSSKRSSDNRVQEI 368

Query: 351 SEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD 410
           SEI++ LK LAKE+N P++ALSQL+R +EQR +KRP +SDLRESG+IEQDADV++F+YR+
Sbjct: 369 SEITQGLKALAKELNIPVIALSQLSRQVEQRDDKRPQLSDLRESGSIEQDADVVMFVYRE 428

Query: 411 EVYNQNSADK-----------------GIAEIIVSKQRNGPIGNIRLTFSGQYTKFNN 451
           E Y +    +                   AE+I++KQR+GP G ++L F  ++T+F +
Sbjct: 429 EYYLKRKEPREGTPKHEEWQEKMEKVHNKAEVIIAKQRHGPTGTVKLAFESEFTRFGD 486

Length = 497

>gnl|CDD|213836 TIGR03600, phage_DnaB, phage replicative helicase, DnaB family, HK022 subfamily

 Score =  419 bits (1079), Expect = e-144
 Identities = 181/426 (42%), Positives = 282/426 (66%), Gaps = 7/426 (1%)

Query: 18  SIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFD 77
           SIE+EQ+VLGGLLLDN   +++   L  ++FY  DHR+IF+ ++ +  ++ P D +T+ D
Sbjct: 1   SIEAEQAVLGGLLLDNDFIERVMAILKPEHFYSQDHRIIFEAMLDMFAANRPVDPLTLAD 60

Query: 78  SLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFIS 137
            L   G AE++GGL+YL  ++ N PSAANI  YA IVR++   RKLI     I   A   
Sbjct: 61  KLEAEGEAEKVGGLAYLAEISNNTPSAANISSYARIVREKAKERKLIAACQRIIDLACSD 120

Query: 138 RGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINK-LHNRGTNDNDVTG 196
            G+  +Q ++EA++ + ++   +    +GF     +L  VI+ ++K  + +G    ++TG
Sbjct: 121 GGQTAEQKVEEAQAALLALTMSD-GQERGFVTFGEVLEDVIRDLDKRFNPKG----ELTG 175

Query: 197 ISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI 256
           +STG  +LD++T+GL  GDLI++  RPSMGKT  +LNI E++A+    PV  FS+EMS  
Sbjct: 176 LSTGLPKLDRLTNGLVKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEMSAE 235

Query: 257 QLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANS 316
           QL  R+L S   ++   +RTGR +  ++ R+ +++ ++++  LYID+T  L V ++R+ +
Sbjct: 236 QLGERLLASKSGINTGNIRTGRFNDSEFNRLLNAVDRLSEKDLYIDDTGGLTVAQIRSIA 295

Query: 317 RRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNR 376
           RR+ R+ G + +I++DY+QLM A +RG +R  E+  ISR LK LAKE++ P++ L+QLNR
Sbjct: 296 RRIKRKKGGLDLIVVDYIQLM-APARGRDRNEELGGISRGLKALAKELDVPVVLLAQLNR 354

Query: 377 SLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIG 436
             E+R +KRPIMSDLR+SGAIEQDADVI  I+R+  Y+      G+AE+I++K R+GP G
Sbjct: 355 GSEKRTDKRPIMSDLRDSGAIEQDADVIGLIHREGYYDAREPPAGVAELILAKNRHGPTG 414

Query: 437 NIRLTF 442
            + L F
Sbjct: 415 TVELLF 420

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model [Mobile and extrachromosomal element functions, Prophage functions]. Length = 420

>gnl|CDD|236093 PRK07773, PRK07773, replicative DNA helicase; Validated

 Score =  427 bits (1100), Expect = e-142
 Identities = 168/393 (42%), Positives = 256/393 (65%), Gaps = 7/393 (1%)

Query: 13  RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
           R PP  + +EQSVLGG+LL   A  ++ + L    FYR  H+ I+  I+ L     PAD+
Sbjct: 22  RQPPQDLAAEQSVLGGMLLSKEAIARVLERLRPGAFYRPAHQNIYDAILDLYGRGEPADL 81

Query: 73  ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
           +TV   L   G  E IGG  YL++L   +P+AAN   YA IV ++ +LR+LI     I  
Sbjct: 82  VTVAAELDRRGLLERIGGAPYLHTLISTVPTAANADYYARIVAEKALLRRLIEAGTRIVQ 141

Query: 133 QAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDN 192
             + + G +V +++D A+++I+ + ++ +  ++ F  ++ LL      I+ + + G    
Sbjct: 142 YGY-AEGADVAEVVDRAQAEIYDVTDRRL--SEDFVALEDLLQPTFDEIDAIASSGGL-- 196

Query: 193 DVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME 252
              G+ TGF ELD +T+GL PG LIIVA RPSMGKT F L+   + AI ++L VAIFS+E
Sbjct: 197 -ARGVPTGFTELDAMTNGLHPGQLIIVAARPSMGKTTFGLDFARNCAIRHRLAVAIFSLE 255

Query: 253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIEL 312
           MS  QL MR+L +  K+    +R+GR+S DDW R+  ++ +I+++ ++ID+TP+L V+E+
Sbjct: 256 MSKEQLVMRLLSAEAKIKLSDMRSGRMSDDDWTRLARAMGEISEAPIFIDDTPNLTVMEI 315

Query: 313 RANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALS 372
           RA +RRL RQ   +G+I++DYLQLM++  + ENR  E+SEISR+LK LAKE+  P++ALS
Sbjct: 316 RAKARRL-RQEANLGLIVVDYLQLMTSGKKYENRQQEVSEISRHLKLLAKELEVPVVALS 374

Query: 373 QLNRSLEQRQNKRPIMSDLRESGAIEQDADVIL 405
           QL+R +EQR +KRP++SDLRESG +  D  ++ 
Sbjct: 375 QLSRGVEQRTDKRPMLSDLRESGCLTGDTLILR 407

Length = 886

>gnl|CDD|217733 pfam03796, DnaB_C, DnaB-like helicase C terminal domain

 Score =  389 bits (1003), Expect = e-135
 Identities = 142/258 (55%), Positives = 198/258 (76%), Gaps = 3/258 (1%)

Query: 196 GISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG 255
           G+ TGF +LD++T GLQ GDLII+A RPSMGKTAF+LNI  +IA+    PV  FS+EMS 
Sbjct: 1   GLPTGFTDLDQLTGGLQKGDLIIIAARPSMGKTAFALNIARNIALRQGKPVLFFSLEMSA 60

Query: 256 IQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRAN 315
            QLA R+L +   +   KLR+G LS +DW R+ ++  ++++  LYID+TP L++ E+RA 
Sbjct: 61  EQLAERLLSAESGISSTKLRSGNLSDEDWERLAEAAGELSELPLYIDDTPGLSLSEIRAK 120

Query: 316 SRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLN 375
           +RRL R+   +G+I+IDYLQLM  + + ENR  EISEISR+LK LAKE+N P++ALSQL+
Sbjct: 121 ARRLKRE-HNLGLIVIDYLQLMQGSKKSENRQQEISEISRSLKALAKELNIPVIALSQLS 179

Query: 376 RSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYN--QNSADKGIAEIIVSKQRNG 433
           R++EQR +KRP++SDLRESG+IEQDAD+++F+YRDE Y+  +++   G AEII++K RNG
Sbjct: 180 RAVEQRPDKRPMLSDLRESGSIEQDADIVMFLYRDEYYDKEEDNKPYGEAEIIIAKNRNG 239

Query: 434 PIGNIRLTFSGQYTKFNN 451
           P G + LTF+G YT+F N
Sbjct: 240 PTGTVTLTFNGWYTRFVN 257

The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli 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 dimerisation 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. Length = 260

>gnl|CDD|236278 PRK08506, PRK08506, replicative DNA helicase; Provisional

 Score =  370 bits (953), Expect = e-125
 Identities = 174/456 (38%), Positives = 266/456 (58%), Gaps = 35/456 (7%)

Query: 17  HSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVF 76
           + ++ E++VL  +L     +++IA  L    FY   H+ IF+ ++KL N   P D   + 
Sbjct: 5   YDLDIERAVLSSILFSPDKFEEIASVLEPKDFYLPAHQDIFEAMLKLHNEDEPIDEEFIR 64

Query: 77  DSLSNTGN-AEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAF 135
             L       EEI     L  LA N     NI  Y E ++++ I R+L+++ + I  QA 
Sbjct: 65  KKLPKDKKIDEEI----LLEILATN--PIDNIEAYVEEIKEKSIKRELLSLANTIPEQA- 117

Query: 136 ISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDNDVT 195
           +   ++   ILDE E +++SI       ++ F+  + ++   ++ I K    G  + D+ 
Sbjct: 118 VEEDQKSSDILDEVERELYSITNGSN--SEDFKDSKEVIESTMEHIKKQKRLG--NKDII 173

Query: 196 GISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG 255
           G+ TGF EL+K+T G   GDLII+A RPSMGKT   LN+     +     VA FS+EM  
Sbjct: 174 GLDTGFVELNKMTKGFNKGDLIIIAARPSMGKTTLCLNMALKA-LNQDKGVAFFSLEMPA 232

Query: 256 IQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRAN 315
            QL +RML +   +    LRTG L  D+W R++D+  +++K +L++ ++  +N+ ++RA 
Sbjct: 233 EQLMLRMLSAKTSIPLQNLRTGDLDDDEWERLSDACDELSKKKLFVYDSGYVNIHQVRAQ 292

Query: 316 SRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLN 375
            R+L  Q  +IG+ +IDYLQLMS +   ++R  +ISEISR LK LA+E++ PI+ALSQLN
Sbjct: 293 LRKLKSQHPEIGLAVIDYLQLMSGSGNFKDRHLQISEISRGLKLLARELDIPIIALSQLN 352

Query: 376 RSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYN--------QNSADKGI----- 422
           RSLE R +KRP++SDLRESGAIEQDAD+ILF+YRD+VY         + +  +G      
Sbjct: 353 RSLESRADKRPMLSDLRESGAIEQDADIILFVYRDDVYKEREEKEKEKKAKKEGKEERRI 412

Query: 423 ---------AEIIVSKQRNGPIGNIRLTFSGQYTKF 449
                    AEII+ K RNGP G ++L F  ++T+F
Sbjct: 413 HFQNKSIEEAEIIIGKNRNGPTGTVKLRFQKEFTRF 448

Length = 472

>gnl|CDD|238484 cd00984, DnaB_C, DnaB helicase C terminal domain

 Score =  361 bits (930), Expect = e-124
 Identities = 136/242 (56%), Positives = 184/242 (76%), Gaps = 1/242 (0%)

Query: 203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM 262
           +LD +T GLQPGDLII+A RPSMGKTAF+LNI E+IA +   PV  FS+EMS  QL  R+
Sbjct: 2   DLDNLTGGLQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSKEQLLQRL 61

Query: 263 LGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQ 322
           L S   +   KLRTG LS +DW R+ ++I ++ +  +YID++ SL V ++R+ +RRL ++
Sbjct: 62  LASESGISLSKLRTGSLSDEDWERLAEAIGELKELPIYIDDSSSLTVSDIRSRARRLKKE 121

Query: 323 CGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQ 382
              +G+I+IDYLQLMS + +  NR  E++EISR+LK LAKE+N P++ALSQL+R +E R 
Sbjct: 122 -HGLGLIVIDYLQLMSGSKKKGNRQQEVAEISRSLKLLAKELNVPVIALSQLSRGVESRA 180

Query: 383 NKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTF 442
           +KRP++SDLRESG+IEQDADV++F+YRDE YN+ S  KGIAEIIV+K RNGP G + L F
Sbjct: 181 DKRPMLSDLRESGSIEQDADVVMFLYRDEYYNKESESKGIAEIIVAKNRNGPTGTVELRF 240

Query: 443 SG 444
            G
Sbjct: 241 DG 242

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. Length = 242

>gnl|CDD|180528 PRK06321, PRK06321, replicative DNA helicase; Provisional

 Score =  356 bits (915), Expect = e-119
 Identities = 183/462 (39%), Positives = 275/462 (59%), Gaps = 20/462 (4%)

Query: 7   TENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINS 66
            +  +   PP+S ESE  VLG +L      +  A+ L  D FY  +H++IF+ +     S
Sbjct: 8   PQPTQLLSPPNSKESEMIVLGCMLTSVNYLNLAANQLQEDDFYFLEHKIIFRVLQDAFKS 67

Query: 67  SHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITV 126
             P DV    + L        IGG SYL +LA+   ++A I  YAEI+R + ILRK+I  
Sbjct: 68  DKPIDVHLAGEELKRRNQLNVIGGPSYLITLAEFAGTSAYIEEYAEIIRSKSILRKMIQT 127

Query: 127 TDEISSQAFISRGKEVKQILDEAESKIFSIAE----------KEICINKGFQQIQPLLNR 176
             EI  +A +   K+V   LDEA++ +F I++           +        + +P L +
Sbjct: 128 AKEIEKKA-LEEPKDVATALDEAQNLLFKISQTTNLAQYVLVADKLKGLTSSKDKPFLLQ 186

Query: 177 VIKRINKL--HNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNI 234
           + +R        +G +   ++GI T F +LDK+ +G  P +L+I+A RP+MGKTA +LNI
Sbjct: 187 LQERQEAFQQSAQGDSSPMISGIPTHFIDLDKMINGFSPSNLMILAARPAMGKTALALNI 246

Query: 235 GEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKI 294
            E+   +N+LPV IFS+EM+  QL  R++ S  +++  K+  G LS  D+ RI   + ++
Sbjct: 247 AENFCFQNRLPVGIFSLEMTVDQLIHRIICSRSEVESKKISVGDLSGRDFQRIVSVVNEM 306

Query: 295 NKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA---NSRGENRATEIS 351
            +  L ID+ P L + +LRA +RR+ ++   I  +IIDYLQL+S        E+R TEIS
Sbjct: 307 QEHTLLIDDQPGLKITDLRARARRM-KESYDIQFLIIDYLQLLSGSGNLRNSESRQTEIS 365

Query: 352 EISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE 411
           EISR LK LA+E+N PIL LSQL+R +E R N RP+MSDLRESG+IEQD+D+++F+ R E
Sbjct: 366 EISRMLKNLARELNIPILCLSQLSRKVEDRANHRPMMSDLRESGSIEQDSDLVMFLLRRE 425

Query: 412 VYNQNSADK-GIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF 452
            Y+ N  DK G AE+IV+K R+G IG++ L F  ++ +F N+
Sbjct: 426 YYDPN--DKPGTAELIVAKNRHGSIGSVPLVFEKEFARFRNY 465

Length = 472

>gnl|CDD|180177 PRK05636, PRK05636, replicative DNA helicase; Provisional

 Score =  356 bits (914), Expect = e-118
 Identities = 160/446 (35%), Positives = 277/446 (62%), Gaps = 7/446 (1%)

Query: 8   ENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSS 67
           E + FR PP+  E+EQ VLG +LL       I + L  + FYR  H+LIF+ II L + +
Sbjct: 63  EYRDFRQPPYDNEAEQGVLGAMLLSPDTVIDIVEVLTPEDFYRPAHQLIFQAIIDLFSDN 122

Query: 68  HPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVT 127
              D + V   L  T + E +GG  YL++L Q++P+AAN R YAEIV ++ +LR+L+   
Sbjct: 123 KEIDPVIVAGRLDRTNDLERVGGAPYLHTLIQSVPTAANARYYAEIVSEKAVLRRLVDAG 182

Query: 128 DEISSQAFI-SRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHN 186
             +    +    G E+  ++D A+ ++F++++K    ++ +  +  +L+  +  +  L  
Sbjct: 183 TRVVQLGYEGDEGAEIDSVIDRAQQEVFAVSQKNQ--SEDYAVLADILDPTMDELEMLS- 239

Query: 187 RGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPV 246
             +     TGI TGF +LD +T+GL+ G +IIVA RP +GK+  +L+     +I++    
Sbjct: 240 --SQGGIATGIPTGFKDLDDLTNGLRGGQMIIVAARPGVGKSTLALDFMRSASIKHNKAS 297

Query: 247 AIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPS 306
            IFS+EMS  ++ MR+L +  ++    +R G++  D W ++   + KI ++ ++ID++ +
Sbjct: 298 VIFSLEMSKSEIVMRLLSAEAEVRLSDMRGGKMDEDAWEKLVQRLGKIAQAPIFIDDSAN 357

Query: 307 LNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINC 366
           L ++E+R+ +RRL ++   + +I++DYLQLMS+  R E+R  E+SE SR LK LAKE++ 
Sbjct: 358 LTMMEIRSKARRLKQKHD-LKLIVVDYLQLMSSGKRVESRQQEVSEFSRQLKLLAKELDV 416

Query: 367 PILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEII 426
           P++A+SQLNR  E R +KRP ++DLRESG++EQDAD+++ +YR +  +++    G A+II
Sbjct: 417 PLIAISQLNRGPESRTDKRPQLADLRESGSLEQDADMVMLLYRPDSQDKDDERAGEADII 476

Query: 427 VSKQRNGPIGNIRLTFSGQYTKFNNF 452
           ++K R GPI  +++     Y++F + 
Sbjct: 477 LAKHRGGPIDTVQVAHQLHYSRFVDM 502

Length = 505

>gnl|CDD|168658 PRK06749, PRK06749, replicative DNA helicase; Provisional

 Score =  294 bits (753), Expect = 1e-95
 Identities = 161/441 (36%), Positives = 259/441 (58%), Gaps = 26/441 (5%)

Query: 18  SIESEQSVLGGLLLDNTAWDKIADC-LNSDYFYRYDHRLIFKHIIKLINSSHPADVITVF 76
           ++E+E++VLG LLLD    + I +C L   YF    H+ IF+ + K+ +   P D++T F
Sbjct: 5   NVEAEKTVLGSLLLDG---ELIKECRLTEQYFSMPVHKSIFQLMRKMEDEGQPIDLVT-F 60

Query: 77  DSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFI 136
            S  +    + IGG+ Y   L   +P+ +N   Y  +VR    +            QA +
Sbjct: 61  TSRVDPNFLKGIGGMEYFIGLMDGVPTTSNFSYYEGLVRGAWKMY-----------QAGV 109

Query: 137 SRGKEVKQILDEAESKIFSIAEKEICI--NKGFQQIQPLLNRVIKRINKLHNRGTNDNDV 194
              K  ++++ E   KI       +C    K       L + ++    +LH    +  ++
Sbjct: 110 LGHKMGERLIAEKSEKIIGETITALCELEEKDCVCEFDLKDALVDLYEELH---QDAKEI 166

Query: 195 TGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS 254
           TGI TG+  L+K+T GLQ GD +++  RPSMGKTAF+LN+G H A ++   V +FS+EMS
Sbjct: 167 TGIETGYTSLNKMTCGLQEGDFVVLGARPSMGKTAFALNVGLHAA-KSGAAVGLFSLEMS 225

Query: 255 GIQLAMRMLGSVGKLDQHKLRT--GRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIEL 312
             QL  RM   VG++   +L+    R + +DW +++ +  +I +  L I +   + V ++
Sbjct: 226 SKQLLKRMASCVGEVSGGRLKNPKHRFAMEDWEKVSKAFAEIGELPLEIYDNAGVTVQDI 285

Query: 313 RANSRRLSRQCG-KIGVIIIDYLQLMSANSRGE-NRATEISEISRNLKGLAKEINCPILA 370
              +R+L R+ G K  +II+DYLQL++ + + + NR  EISEISR LK LA+E+N  ++A
Sbjct: 286 WMQTRKLKRKHGDKKILIIVDYLQLITGDPKHKGNRFQEISEISRKLKLLARELNVCVVA 345

Query: 371 LSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQ 430
           LSQL+RS+E RQ+KRP++SDLRE+G IEQDADVI+ +YR++ Y++ +  K + EI V+K 
Sbjct: 346 LSQLSRSVESRQDKRPLLSDLRETGQIEQDADVIMLMYREDYYDKETMQKEMTEIHVAKH 405

Query: 431 RNGPIGNIRLTFSGQYTKFNN 451
           RNGP+G+ +L F  ++ +F  
Sbjct: 406 RNGPVGSFKLRFLKEFGRFVE 426

Length = 428

>gnl|CDD|216111 pfam00772, DnaB, DnaB-like helicase N terminal domain

 Score =  134 bits (340), Expect = 2e-38
 Identities = 55/103 (53%), Positives = 71/103 (68%)

Query: 14  VPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVI 73
           VPPHSIE+EQ+VLG LLLD  A D++AD L  + FY   HRLIF+ I++L     P D +
Sbjct: 1   VPPHSIEAEQAVLGALLLDPEAIDEVADILKPEDFYDPAHRLIFEAILELYEKGKPIDPV 60

Query: 74  TVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRD 116
           TV + L   G  EE+GG++YL  LA N+PSAANI  YA IV++
Sbjct: 61  TVAEELERKGKLEEVGGIAYLAELAANVPSAANIEYYARIVKE 103

The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli 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 dimerisation of the N-terminal domain has been observed and may occur during the enzymatic cycle. This N-terminal domain is required both for interaction with other proteins in the primosome and for DnaB helicase activity. Length = 103

>gnl|CDD|236093 PRK07773, PRK07773, replicative DNA helicase; Validated

 Score = 89.0 bits (221), Expect = 8e-19
 Identities = 25/56 (44%), Positives = 37/56 (66%)

Query: 396 AIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNN 451
           +IEQDADV++ +YR + Y+++    G AE IV+K RNGP G + L F    ++F N
Sbjct: 827 SIEQDADVVILLYRPDYYDRDDPRGGEAEFIVAKHRNGPTGTVTLAFQLHLSRFAN 882

Length = 886

>gnl|CDD|238542 cd01122, GP4d_helicase, GP4d_helicase is a homohexameric 5'-3' helicases

 Score = 75.5 bits (186), Expect = 3e-15
 Identities = 53/217 (24%), Positives = 91/217 (41%), Gaps = 9/217 (4%)

Query: 200 GFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLA 259
            F  L+K+T GL+ G+LII+     +GKT F       +  ++ + V   S+E   ++ A
Sbjct: 16  PFPVLNKLTKGLRKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEEPVVRTA 75

Query: 260 MRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYI--DETPSLNVIELRANSR 317
            R+LG       H   T  + + +    + +  +   +      D     ++  +    R
Sbjct: 76  RRLLGQYAGKRLHLPDTVFIYTLE--EFDAAFDEFEGTGRLFMYDSFGEYSMDSVLEKVR 133

Query: 318 RLSRQCGKIGVIIIDYLQ-LMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNR 376
            ++   G I  IIID L  ++S      +    + EI   L+G A E    I  +S L R
Sbjct: 134 YMAVSHG-IQHIIIDNLSIMVSDERASGDERKALDEIMTKLRGFATEHGIHITLVSHLRR 192

Query: 377 S---LEQRQNKRPIMSDLRESGAIEQDADVILFIYRD 410
                   +     +SD R S AI Q AD ++ + R+
Sbjct: 193 PDGDKTHEEGGEVSLSDFRGSAAIGQLADNVIALERN 229

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands. Length = 271

>gnl|CDD|168322 PRK05973, PRK05973, replicative DNA helicase; Provisional

 Score = 59.3 bits (144), Expect = 6e-10
 Identities = 45/187 (24%), Positives = 83/187 (44%), Gaps = 32/187 (17%)

Query: 206 KITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGS 265
           ++ S L+PGDL+++  RP  GKT   L +    A+++      F++E +   +  R+   
Sbjct: 56  ELFSQLKPGDLVLLGARPGHGKTLLGLELAVE-AMKSGRTGVFFTLEYTEQDVRDRL--- 111

Query: 266 VGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGK 325
              L   + +   L   D    +D+I        YI        I   A++ R +     
Sbjct: 112 -RALGADRAQFADLFEFD---TSDAI-----CADYI--------IARLASAPRGT----- 149

Query: 326 IGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKR 385
             +++IDYLQL+       + + ++    R LK  A+E    I+ +SQ++RS +      
Sbjct: 150 --LVVIDYLQLLDQRREKPDLSVQV----RALKSFARERGLIIVFISQIDRSFDPSAKPL 203

Query: 386 PIMSDLR 392
           P + D+R
Sbjct: 204 PDIRDVR 210

Length = 237

>gnl|CDD|238540 cd01120, RecA-like_NTPases, RecA-like NTPases

 Score = 54.8 bits (132), Expect = 5e-09
 Identities = 37/196 (18%), Positives = 68/196 (34%), Gaps = 33/196 (16%)

Query: 216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLR 275
           LI+V G    GKT  +L +  +IA +    V    +E    +L  R++G           
Sbjct: 1   LILVFGPTGSGKTTLALQLALNIATK-GGKVVYVDIEEEIEELTERLIG----------- 48

Query: 276 TGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQ 335
                        +S+K    + + +  T          +     R+ G   +II+D L 
Sbjct: 49  -------------ESLKGALDNLIIVFATADDPAAARLLSKAERLRERGGDDLIILDELT 95

Query: 336 LMSANSR--GENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRE 393
            +    R   E    E+ E  R L   A++    ++   Q+    +            R 
Sbjct: 96  RLVRALREIREGYPGELDEELRELLERARKGGVTVIFTLQVPSGDKGDPR------LTRG 149

Query: 394 SGAIEQDADVILFIYR 409
           +  +E  AD ++ + R
Sbjct: 150 AQNLEDIADTVIVLSR 165

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. Length = 165

>gnl|CDD|222864 PHA02542, 41, 41 helicase; Provisional

 Score = 57.0 bits (138), Expect = 9e-09
 Identities = 55/217 (25%), Positives = 97/217 (44%), Gaps = 16/217 (7%)

Query: 204 LDKITSG-LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM 262
           L+KIT G  +   L ++    ++GK+    ++     ++    V   SMEM+   +A R+
Sbjct: 179 LNKITKGGAERKTLNVLLAGVNVGKSLGLCSLAAD-YLQQGYNVLYISMEMAEEVIAKRI 237

Query: 263 LGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETP--SLNVIELRA--NSRR 318
             ++  +    +    LS  ++    + ++   + +L I + P    +    RA  N  +
Sbjct: 238 DANLLDVSLDDIDD--LSKAEYKAKMEKLRSKTQGKLIIKQYPTGGAHAGHFRALLNELK 295

Query: 319 LSRQCGKIGVIIIDYLQLMSANSR----GENRATEISEISRNLKGLAKEINCPILALSQL 374
           L +   K  VII+DYL +  A+SR     EN  T +  I+  L+GLA E +  +   +Q 
Sbjct: 296 LKKNF-KPDVIIVDYLGIC-ASSRLRVSSENSYTYVKAIAEELRGLAVEHDVVVWTAAQT 353

Query: 375 NRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE 411
            RS     +    MSD  ES  +   AD +L +   E
Sbjct: 354 TRS--GWDSSDVDMSDTAESAGLPATADFMLAVIETE 388

Length = 473

>gnl|CDD|222165 pfam13481, AAA_25, AAA domain

 Score = 48.8 bits (117), Expect = 5e-07
 Identities = 31/192 (16%), Positives = 51/192 (26%), Gaps = 63/192 (32%)

Query: 196 GISTGFFELDKITSG-LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKL---------P 245
            +      L  +  G L  G L ++AG P  GK+  +L++   +A               
Sbjct: 14  DLDAPPPPLRWLVKGLLPRGGLTLLAGAPGTGKSTLALDLAAAVATGRPFLGPFPVEPGR 73

Query: 246 VAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETP 305
           V     E S   L  R                                            
Sbjct: 74  VLYLDGEDSEAGLRRR-------------------------------------------- 89

Query: 306 SLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEIN 365
                 LRA    L  +     +++ID L   S     EN    +  +   L  LA+   
Sbjct: 90  ------LRALGEAL-EEIEGPDLVVIDPLA--SLLGGDENDNAAVGALLAALDRLARRTG 140

Query: 366 CPILALSQLNRS 377
             +L +    ++
Sbjct: 141 AAVLLVHHTGKA 152

This AAA domain is found in a wide variety of presumed DNA repair proteins. Length = 154

>gnl|CDD|232966 TIGR00416, sms, DNA repair protein RadA

 Score = 43.2 bits (102), Expect = 2e-04
 Identities = 35/108 (32%), Positives = 55/108 (50%), Gaps = 10/108 (9%)

Query: 198 STGFFELDKITSG-LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI 256
           S+GF ELD++  G + PG LI++ G P +GK+   L +   +A +N++ V   S E S  
Sbjct: 77  SSGFGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLA-KNQMKVLYVSGEESLQ 135

Query: 257 QLAMRM--LGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYID 302
           Q+ MR   LG         +    LS  +W +I  +I++ N     ID
Sbjct: 136 QIKMRAIRLGLPE--PNLYV----LSETNWEQICANIEEENPQACVID 177

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)) [DNA metabolism, DNA replication, recombination, and repair]. Length = 454

>gnl|CDD|238541 cd01121, Sms, Sms (bacterial radA) DNA repair protein

 Score = 41.1 bits (97), Expect = 0.001
 Identities = 31/110 (28%), Positives = 51/110 (46%), Gaps = 12/110 (10%)

Query: 197 ISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG 255
           I TG  ELD++   GL PG +I++ G P +GK+   L +   +A +    V   S E S 
Sbjct: 64  IPTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLA-KRGGKVLYVSGEESP 122

Query: 256 IQLAMRMLGSVGKLDQHKLRTGRL---SSDDWPRINDSIKKINKSQLYID 302
            Q+ +R        D+  + T  L   +  +   I  SI+++    + ID
Sbjct: 123 EQIKLRA-------DRLGISTENLYLLAETNLEDILASIEELKPDLVIID 165

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. Length = 372

>gnl|CDD|223993 COG1066, Sms, Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

 Score = 39.5 bits (93), Expect = 0.003
 Identities = 24/66 (36%), Positives = 36/66 (54%), Gaps = 3/66 (4%)

Query: 197 ISTGFFELDKITSG-LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG 255
           ISTG  ELD++  G L PG +I++ G P +GK+   L +   +A   +  V   S E S 
Sbjct: 75  ISTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLA--KRGKVLYVSGEESL 132

Query: 256 IQLAMR 261
            Q+ +R
Sbjct: 133 QQIKLR 138

Length = 456

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	452
COG0305	435	DnaB Replicative DNA helicase [DNA replication, re	100.0
PRK08840	464	replicative DNA helicase; Provisional	100.0
PRK08006	471	replicative DNA helicase; Provisional	100.0
PRK07004	460	replicative DNA helicase; Provisional	100.0
PRK08760	476	replicative DNA helicase; Provisional	100.0
PRK05636	505	replicative DNA helicase; Provisional	100.0
PRK06904	472	replicative DNA helicase; Validated	100.0
PRK06321	472	replicative DNA helicase; Provisional	100.0
PRK05595	444	replicative DNA helicase; Provisional	100.0
PRK09165	497	replicative DNA helicase; Provisional	100.0
PRK05748	448	replicative DNA helicase; Provisional	100.0
PRK06749	428	replicative DNA helicase; Provisional	100.0
PRK08506	472	replicative DNA helicase; Provisional	100.0
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	100.0
TIGR00665	434	DnaB replicative DNA helicase. This model describe	100.0
PHA02542	473	41 41 helicase; Provisional	100.0
PRK07773	886	replicative DNA helicase; Validated	100.0
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	100.0
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	100.0
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	100.0
PRK05973	237	replicative DNA helicase; Provisional	99.96
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	99.95
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	99.93
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	99.92
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	99.92
PRK11823	446	DNA repair protein RadA; Provisional	99.92
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	99.91
KOG2373|consensus	514		99.9
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	99.9
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	99.89
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	99.89
PRK04328	249	hypothetical protein; Provisional	99.89
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	99.89
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	99.88
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	99.88
cd01394	218	radB RadB. The archaeal protein radB shares simila	99.88
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	99.87
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	99.87
cd00983	325	recA RecA is a bacterial enzyme which has roles in	99.86
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	99.86
PRK09302	509	circadian clock protein KaiC; Reviewed	99.86
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	99.85
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	99.85
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	99.85
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	99.84
PRK09354	349	recA recombinase A; Provisional	99.84
PF00772	103	DnaB: DnaB-like helicase N terminal domain; InterP	99.83
PRK04301	317	radA DNA repair and recombination protein RadA; Va	99.83
TIGR02236	310	recomb_radA DNA repair and recombination protein R	99.83
TIGR02237	209	recomb_radB DNA repair and recombination protein R	99.82
PTZ00035	337	Rad51 protein; Provisional	99.82
PRK06067	234	flagellar accessory protein FlaH; Validated	99.82
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	99.82
PRK09302	509	circadian clock protein KaiC; Reviewed	99.81
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	99.8
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	99.79
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	99.76
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	99.73
PRK09519	790	recA DNA recombination protein RecA; Reviewed	99.72
PRK08533	230	flagellar accessory protein FlaH; Reviewed	99.71
PF00154	322	RecA: recA bacterial DNA recombination protein; In	99.69
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	99.65
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	99.59
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	99.52
COG3598	402	RepA RecA-family ATPase [DNA replication, recombin	99.46
KOG1434|consensus	335		99.44
KOG1564|consensus	351		99.37
PF07088	484	GvpD: GvpD gas vesicle protein; InterPro: IPR00978	99.07
PRK04296	190	thymidine kinase; Provisional	98.68
PRK07773	886	replicative DNA helicase; Validated	98.66
KOG1433|consensus	326		98.61
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.49
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	98.48
COG4604	252	CeuD ABC-type enterochelin transport system, ATPas	98.47
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	98.42
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	98.41
PF13479	213	AAA_24: AAA domain	98.37
PRK10867	433	signal recognition particle protein; Provisional	98.36
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	98.35
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	98.33
smart00382	148	AAA ATPases associated with a variety of cellular	98.28
TIGR00959	428	ffh signal recognition particle protein. This mode	98.24
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.2
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	98.13
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	98.12
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	98.09
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.08
PRK00771	437	signal recognition particle protein Srp54; Provisi	98.07
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	98.06
cd03115	173	SRP The signal recognition particle (SRP) mediates	98.05
PRK08181	269	transposase; Validated	98.05
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	98.04
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	98.04
PRK10416	318	signal recognition particle-docking protein FtsY;	98.03
KOG2859|consensus	293		98.02
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.0
PRK12377	248	putative replication protein; Provisional	97.99
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	97.96
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.94
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.94
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	97.92
PRK07952	244	DNA replication protein DnaC; Validated	97.91
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	97.9
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	97.9
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	97.89
PRK13634	290	cbiO cobalt transporter ATP-binding subunit; Provi	97.89
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	97.88
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	97.87
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	97.86
PF13173	128	AAA_14: AAA domain	97.86
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.85
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.85
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.85
PRK06921	266	hypothetical protein; Provisional	97.85
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	97.84
PRK14974	336	cell division protein FtsY; Provisional	97.84
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	97.84
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	97.83
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	97.83
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.83
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.81
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	97.8
PRK06526	254	transposase; Provisional	97.8
PRK13537	306	nodulation ABC transporter NodI; Provisional	97.79
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	97.78
PRK11308	327	dppF dipeptide transporter ATP-binding subunit; Pr	97.78
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	97.78
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	97.77
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	97.77
PF00004	132	AAA: ATPase family associated with various cellula	97.77
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	97.76
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	97.76
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	97.76
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.76
PRK08727	233	hypothetical protein; Validated	97.76
COG3638	258	ABC-type phosphate/phosphonate transport system, A	97.75
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	97.75
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	97.75
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	97.75
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	97.75
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	97.75
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	97.74
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	97.74
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	97.74
PRK00411	394	cdc6 cell division control protein 6; Reviewed	97.73
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	97.73
COG1122	235	CbiO ABC-type cobalt transport system, ATPase comp	97.73
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	97.72
PRK13652	277	cbiO cobalt transporter ATP-binding subunit; Provi	97.72
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	97.72
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	97.72
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	97.71
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	97.71
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	97.71
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	97.71
PRK13536	340	nodulation factor exporter subunit NodI; Provision	97.71
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	97.7
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	97.7
PRK08116	268	hypothetical protein; Validated	97.7
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	97.7
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	97.69
PRK13636	283	cbiO cobalt transporter ATP-binding subunit; Provi	97.69
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	97.69
cd03269	210	ABC_putative_ATPase This subfamily is involved in	97.69
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	97.69
COG4107	258	PhnK ABC-type phosphonate transport system, ATPase	97.68
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	97.68
PRK09536	402	btuD corrinoid ABC transporter ATPase; Reviewed	97.68
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	97.68
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	97.68
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	97.67
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	97.66
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	97.66
PRK10419	268	nikE nickel transporter ATP-binding protein NikE;	97.65
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	97.65
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	97.65
PRK06835	329	DNA replication protein DnaC; Validated	97.64
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	97.63
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	97.63
COG4619	223	ABC-type uncharacterized transport system, ATPase	97.63
COG1123	539	ATPase components of various ABC-type transport sy	97.63
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	97.63
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	97.62
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	97.62
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	97.62
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.62
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	97.62
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	97.62
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.61
PRK09473	330	oppD oligopeptide transporter ATP-binding componen	97.61
PRK10908	222	cell division protein FtsE; Provisional	97.61
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	97.61
TIGR02982	220	heterocyst_DevA ABC exporter ATP-binding subunit,	97.61
PRK08939	306	primosomal protein DnaI; Reviewed	97.61
PRK13637	287	cbiO cobalt transporter ATP-binding subunit; Provi	97.6
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	97.6
KOG0061|consensus	613		97.6
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	97.6
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	97.59
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	97.59
PRK10070	400	glycine betaine transporter ATP-binding subunit; P	97.59
COG1435	201	Tdk Thymidine kinase [Nucleotide transport and met	97.59
TIGR03018	207	pepcterm_TyrKin exopolysaccharide/PEPCTERM locus t	97.59
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	97.58
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	97.58
PRK13651	305	cobalt transporter ATP-binding subunit; Provisiona	97.57
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	97.57
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	97.57
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	97.56
PRK08084	235	DNA replication initiation factor; Provisional	97.56
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	97.56
PRK10851	353	sulfate/thiosulfate transporter subunit; Provision	97.55
PRK13641	287	cbiO cobalt transporter ATP-binding subunit; Provi	97.55
PRK09984	262	phosphonate/organophosphate ester transporter subu	97.55
PRK11022	326	dppD dipeptide transporter ATP-binding subunit; Pr	97.55
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	97.55
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.54
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	97.54
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	97.54
PF00270	169	DEAD: DEAD/DEAH box helicase; InterPro: IPR011545	97.54
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	97.54
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.54
PRK13635	279	cbiO cobalt transporter ATP-binding subunit; Provi	97.54
PRK13633	280	cobalt transporter ATP-binding subunit; Provisiona	97.52
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	97.52
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	97.52
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	97.52
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	97.52
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	97.52
PF05729	166	NACHT: NACHT domain	97.52
cd03299	235	ABC_ModC_like Archeal protein closely related to M	97.52
PRK13546	264	teichoic acids export protein ATP-binding subunit;	97.52
PF13245	76	AAA_19: Part of AAA domain	97.52
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	97.52
PRK13768	253	GTPase; Provisional	97.52
COG1127	263	Ttg2A ABC-type transport system involved in resist	97.51
PRK05642	234	DNA replication initiation factor; Validated	97.51
TIGR03873	256	F420-0_ABC_ATP proposed F420-0 ABC transporter, AT	97.5
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	97.5
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	97.5
TIGR02142	354	modC_ABC molybdenum ABC transporter, ATP-binding p	97.5
PRK11607	377	potG putrescine transporter ATP-binding subunit; P	97.5
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	97.49
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	97.49
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	97.49
PRK06893	229	DNA replication initiation factor; Validated	97.48
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	97.48
PRK10938	490	putative molybdenum transport ATP-binding protein	97.48
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	97.48
cd03234	226	ABCG_White The White subfamily represents ABC tran	97.47
COG4559	259	ABC-type hemin transport system, ATPase component	97.47
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	97.47
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	97.47
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.47
COG0410	237	LivF ABC-type branched-chain amino acid transport	97.47
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	97.46
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	97.46
KOG0744|consensus	423		97.44
KOG0780|consensus	483		97.44
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	97.44
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	97.44
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	97.44
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	97.44
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	97.43
PRK11231	255	fecE iron-dicitrate transporter ATP-binding subuni	97.43
PRK13639	275	cbiO cobalt transporter ATP-binding subunit; Provi	97.43
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	97.43
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.42
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	97.42
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.42
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	97.42
PRK11144	352	modC molybdate transporter ATP-binding protein; Pr	97.41
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	97.41
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	97.4
PRK13547	272	hmuV hemin importer ATP-binding subunit; Provision	97.4
COG0411	250	LivG ABC-type branched-chain amino acid transport	97.39
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	97.39
PRK12422	445	chromosomal replication initiation protein; Provis	97.39
PRK15079	331	oligopeptide ABC transporter ATP-binding protein O	97.39
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	97.39
PRK15134	529	microcin C ABC transporter ATP-binding protein Yej	97.38
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	97.38
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	97.38
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	97.37
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	97.37
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.37
COG1110	1187	Reverse gyrase [DNA replication, recombination, an	97.37
COG1123	539	ATPase components of various ABC-type transport sy	97.36
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.36
PRK09376	416	rho transcription termination factor Rho; Provisio	97.36
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	97.36
PRK13640	282	cbiO cobalt transporter ATP-binding subunit; Provi	97.35
PRK10261	623	glutathione transporter ATP-binding protein; Provi	97.34
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	97.33
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.33
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	97.32
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	97.32
PRK13642	277	cbiO cobalt transporter ATP-binding subunit; Provi	97.32
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	97.32
PRK13643	288	cbiO cobalt transporter ATP-binding subunit; Provi	97.31
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.31
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	97.3
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	97.3
COG2884	223	FtsE Predicted ATPase involved in cell division [C	97.3
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.3
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	97.3
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.29
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	97.29
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.29
PRK13545	549	tagH teichoic acids export protein ATP-binding sub	97.29
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.28
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	97.28
PRK14258	261	phosphate ABC transporter ATP-binding protein; Pro	97.27
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	97.27
PRK13631	320	cbiO cobalt transporter ATP-binding subunit; Provi	97.26
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	97.26
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	97.26
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.26
KOG0734|consensus	752		97.26
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.26
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	97.25
TIGR00955	617	3a01204 The Eye Pigment Precursor Transporter (EPP	97.24
PRK15093	330	antimicrobial peptide ABC transporter ATP-binding	97.24
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	97.24
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	97.24
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	97.23
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	97.22
COG0444	316	DppD ABC-type dipeptide/oligopeptide/nickel transp	97.21
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	97.21
PRK06762	166	hypothetical protein; Provisional	97.21
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	97.21
PRK13409	590	putative ATPase RIL; Provisional	97.2
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	97.19
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	97.19
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.18
KOG0733|consensus	802		97.18
PRK03695	248	vitamin B12-transporter ATPase; Provisional	97.18
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	97.18
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.18
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	97.17
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	97.17
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.17
PRK10261	623	glutathione transporter ATP-binding protein; Provi	97.17
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.16
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.16
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	97.15
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	97.14
cd03215	182	ABC_Carb_Monos_II This family represents domain II	97.14
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	97.14
PRK09183	259	transposase/IS protein; Provisional	97.14
TIGR01186	363	proV glycine betaine/L-proline transport ATP bindi	97.13
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	97.12
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	97.12
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	97.12
PF09807	249	DUF2348: Uncharacterized conserved protein (DUF234	97.12
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	97.12
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	97.12
cd01128	249	rho_factor Transcription termination factor rho is	97.12
PRK15134	529	microcin C ABC transporter ATP-binding protein Yej	97.11
cd03246	173	ABCC_Protease_Secretion This family represents the	97.11
PRK13644	274	cbiO cobalt transporter ATP-binding subunit; Provi	97.11
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	97.1
PRK00889	175	adenylylsulfate kinase; Provisional	97.1
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	97.09
CHL00195	489	ycf46 Ycf46; Provisional	97.09
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.08
PRK14268	258	phosphate ABC transporter ATP-binding protein; Pro	97.07
PHA00729	226	NTP-binding motif containing protein	97.07
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	97.07
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	97.07
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.06
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	97.06
TIGR00767	415	rho transcription termination factor Rho. Members	97.05
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	97.05
TIGR03415	382	ABC_choXWV_ATP choline ABC transporter, ATP-bindin	97.04
PRK14235	267	phosphate transporter ATP-binding protein; Provisi	97.04
PRK01172	674	ski2-like helicase; Provisional	97.04
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	97.04
cd03114	148	ArgK-like The function of this protein family is u	97.03
TIGR00347	166	bioD dethiobiotin synthase. Dethiobiotin synthase	97.03
COG1245	591	Predicted ATPase, RNase L inhibitor (RLI) homolog	97.03
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	97.02
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.01
PLN03140	1470	ABC transporter G family member; Provisional	97.01
PRK06851	367	hypothetical protein; Provisional	97.01
COG3845	501	ABC-type uncharacterized transport systems, ATPase	97.0
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	97.0
PF02702	211	KdpD: Osmosensitive K+ channel His kinase sensor d	96.99
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.99
TIGR01007	204	eps_fam capsular exopolysaccharide family. This mo	96.98
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	96.98
PRK10982	491	galactose/methyl galaxtoside transporter ATP-bindi	96.97
PRK11288	501	araG L-arabinose transporter ATP-binding protein;	96.97
PF13614	157	AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ	96.97
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	96.96
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	96.95
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.94
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.93
CHL00131	252	ycf16 sulfate ABC transporter protein; Validated	96.93
PRK14259	269	phosphate ABC transporter ATP-binding protein; Pro	96.93
PTZ00112	1164	origin recognition complex 1 protein; Provisional	96.93
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	96.92
smart00766	125	DnaG_DnaB_bind DNA primase DnaG DnaB-binding. DnaG	96.92
KOG0736|consensus	953		96.92
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	96.92
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	96.89
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	96.89
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	96.88
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	96.87
PRK03846	198	adenylylsulfate kinase; Provisional	96.87
COG1204	766	Superfamily II helicase [General function predicti	96.86
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	96.86
COG4674	249	Uncharacterized ABC-type transport system, ATPase	96.86
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	96.84
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	96.84
TIGR02633	500	xylG D-xylose ABC transporter, ATP-binding protein	96.84
PRK09580	248	sufC cysteine desulfurase ATPase component; Review	96.83
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	96.83
PLN03140	1470	ABC transporter G family member; Provisional	96.83
PRK13409	590	putative ATPase RIL; Provisional	96.83
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	96.83
PF01580	205	FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR00	96.82
COG1111	542	MPH1 ERCC4-like helicases [DNA replication, recomb	96.82
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	96.82
TIGR00956	1394	3a01205 Pleiotropic Drug Resistance (PDR) Family p	96.81
TIGR00956	1394	3a01205 Pleiotropic Drug Resistance (PDR) Family p	96.81
TIGR01526	325	nadR_NMN_Atrans nicotinamide-nucleotide adenylyltr	96.81
COG4586	325	ABC-type uncharacterized transport system, ATPase	96.8
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	96.8
smart00487	201	DEXDc DEAD-like helicases superfamily.	96.77
COG4172	534	ABC-type uncharacterized transport system, duplica	96.77
PLN03211	659	ABC transporter G-25; Provisional	96.75
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	96.75
PRK05541	176	adenylylsulfate kinase; Provisional	96.73
PRK12608	380	transcription termination factor Rho; Provisional	96.73
KOG0739|consensus	439		96.73
PRK13343	502	F0F1 ATP synthase subunit alpha; Provisional	96.72
TIGR03029	274	EpsG chain length determinant protein tyrosine kin	96.72
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.71
COG1135	339	AbcC ABC-type metal ion transport system, ATPase c	96.71
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	96.7
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	96.7
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	96.7
TIGR00954	659	3a01203 Peroxysomal Fatty Acyl CoA Transporter (FA	96.69
COG2894	272	MinD Septum formation inhibitor-activating ATPase	96.69
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	96.69
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	96.68
cd00268	203	DEADc DEAD-box helicases. A diverse family of prot	96.68
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	96.68
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.67
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	96.67
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	96.67
PRK13695	174	putative NTPase; Provisional	96.67
PRK09435	332	membrane ATPase/protein kinase; Provisional	96.67
COG1084	346	Predicted GTPase [General function prediction only	96.66
TIGR01257	2272	rim_protein retinal-specific rim ABC transporter.	96.66
PRK10938	490	putative molybdenum transport ATP-binding protein	96.66
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.66
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.65
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	96.65
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	96.64
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.64
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	96.63
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.63
PRK03992	389	proteasome-activating nucleotidase; Provisional	96.62
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	96.62
PRK07667	193	uridine kinase; Provisional	96.62
COG1129	500	MglA ABC-type sugar transport system, ATPase compo	96.61
PRK10982	491	galactose/methyl galaxtoside transporter ATP-bindi	96.61
cd03112	158	CobW_like The function of this protein family is u	96.61
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	96.6
PTZ00293	211	thymidine kinase; Provisional	96.6
PRK02362	737	ski2-like helicase; Provisional	96.6
PF00265	176	TK: Thymidine kinase; InterPro: IPR001267 Thymidin	96.59
KOG0731|consensus	774		96.58
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	96.57
PRK13886	241	conjugal transfer protein TraL; Provisional	96.56
PRK00254	720	ski2-like helicase; Provisional	96.56
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	96.55
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.54
PRK10263	1355	DNA translocase FtsK; Provisional	96.54
TIGR00962	501	atpA proton translocating ATP synthase, F1 alpha s	96.54
TIGR01194	555	cyc_pep_trnsptr cyclic peptide transporter. This m	96.53
PRK10522	547	multidrug transporter membrane component/ATP-bindi	96.53
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	96.53
PRK06696	223	uridine kinase; Validated	96.51
CHL00176	638	ftsH cell division protein; Validated	96.51
PRK14528	186	adenylate kinase; Provisional	96.51
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	96.51
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.51
PRK15064	530	ABC transporter ATP-binding protein; Provisional	96.51
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	96.5
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	96.5
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	96.49
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	96.49
PRK09694	878	helicase Cas3; Provisional	96.49
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	96.48
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.48
CHL00059	485	atpA ATP synthase CF1 alpha subunit	96.48
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	96.48

>COG0305 DnaB Replicative DNA helicase [DNA replication, recombination, and repair]

Probab=100.00  E-value=4.2e-94  Score=701.96  Aligned_cols=433  Identities=49%  Similarity=0.839  Sum_probs=416.6

Q ss_pred             CCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHH
Q psy2892          13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLS   92 (452)
Q Consensus        13 ~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~   92 (452)
                      +.||||++||++|||+|+.+|+.+..+...|.|+|||.+.||.||++|.+++++++|+|++||..+|++.+.++.+||..
T Consensus         1 ~~~p~~~eAE~~vLG~il~~~~~~~~v~~~l~~~dFy~~~H~~IF~a~~~l~~~~~~id~vtv~~~l~~~~~~~~igg~~   80 (435)
T COG0305           1 RLPPQDIEAEQAVLGGILLDPDAIERVSERLRPEDFYRPAHRLIYQAILDLYGQGEPIDLVTVSEELSDRGLLTRIGGAN   80 (435)
T ss_pred             CCCCCCHHHHHHHhhhhhcCHHHHHHHHHhcChhhcCcHHHHHHHHHHHHHHhcCCCCcHhHHHHHHhhcchHhhcCcHH
Confidence            36899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHHHHHHhhhhhhhhhccCcccHHH
Q psy2892          93 YLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQP  172 (452)
Q Consensus        93 ~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~  172 (452)
                      ||.+|+..+|+.+|+.+|+++|++++++|+|+..+.++.+.+++......+++++++++.+.+++..  ....++.++.+
T Consensus        81 yl~~L~~~~ps~~Ni~~y~~iv~e~s~~R~Li~~~~~i~~~~~~~~~~~~~~~l~~ae~~i~~i~~~--~~~~~~~~~~~  158 (435)
T COG0305          81 YLATLIDRTPSAANIDYYAKIVKEKALLRELIEAGNEIVNLGYESEKDLDEEVLDAAEKKIFDVAER--KNSEDFVHIGD  158 (435)
T ss_pred             HHHHHHhcCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccHHHHHHHHHHHHHHHHHh--hcccchhhHHH
Confidence            9999999999999999999999999999999999999999999876555569999999999999887  56678999999


Q ss_pred             HHHHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         173 LLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       173 ~~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ++.++++.+++.+.+.   + ..|+||||..||.+++||++|+|++++|+||+|||+||+++|.++|...+.+|++||+|
T Consensus       159 ~l~~~~~~i~~~~~~~---~-~~Gi~tgf~~LD~~t~G~~~~dLii~AaRP~mGKTafalnia~n~a~~~~~~v~iFSLE  234 (435)
T COG0305         159 LLKETMDEIEARFENG---G-LIGVPTGFTDLDEITSGFRPGDLIIVAARPGMGKTALALNIALNAAADGRKPVAIFSLE  234 (435)
T ss_pred             HHHHHHHHHHHHhccC---C-CcccccCchhhHHHhcCCccCCEEEEccCCCCChHHHHHHHHHHHHHhcCCCeEEEEcc
Confidence            9999999999998776   4 88999999999999999999999999999999999999999999998888999999999


Q ss_pred             CCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEc
Q psy2892         253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIID  332 (452)
Q Consensus       253 ~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID  332 (452)
                      |+.++++.|+++..++++..+++.|.+++++|+++..++..+.+.++||+|.|++++.+|++.+++++++++ +++|+||
T Consensus       235 M~~eql~~R~Ls~~s~v~~~kirtg~l~~~d~~~l~~a~~~l~~~~i~IdD~~~~si~eir~~aRrlk~~~~-l~~i~iD  313 (435)
T COG0305         235 MSEEQLVMRLLSSESGIESSKLRTGRLSDDEWERLIKAASELSEAPIFIDDTPGLTITEIRSKARRLKLKHN-LGLIVID  313 (435)
T ss_pred             CCHHHHHHHhhccccccchhccccccccHHHHHHHHHHHHHHhhCCeeecCCCcCCHHHHHHHHHHHHHhcC-ccEEEEE
Confidence            999999999999999999999999999999999999999999999999999999999999999999999998 9999999


Q ss_pred             CcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcc
Q psy2892         333 YLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEV  412 (452)
Q Consensus       333 ~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~  412 (452)
                      |||+|.......++.++++++++.||.+|++++||||+++|+||..++|.++||.+||||+||+|||+||.|+|+||+++
T Consensus       314 YLqLm~~~~~~~~r~qevs~iSr~LK~lAkEl~vpvialSQLsR~~E~R~dkrP~lSDLRESGsIEQDAD~VmflyRde~  393 (435)
T COG0305         314 YLQLMTGGKKSENRKQEVSEISRSLKGLAKELGVPVIALSQLNRSVEQRTDKRPMLSDLRESGALEQDADIVIFLHRDEA  393 (435)
T ss_pred             EEEeecccccchhHHHHHHHHHHHHHHHHHhcCCcEEehhhhcccchhccccCCccccCccCCchhhhCCEEEEEechhh
Confidence            99999988766899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccCCCCCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         413 YNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       413 ~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      |+++.+.+|.++++|.|||||++|++.+.|++++++|.++
T Consensus       394 y~~~~~~~g~aeiIi~K~RnGp~GtV~l~f~~~~~~F~~~  433 (435)
T COG0305         394 YLKDTPDRGEAEVIVAKNRNGPTGTVKLAFDPQFTKFKNL  433 (435)
T ss_pred             ccCCCCCCceEEEEEEeccCCCCceEEEEEeccccccccc
Confidence            9988888899999999999999999999999999999874

>PRK08840 replicative DNA helicase; Provisional

Probab=100.00  E-value=1.5e-91  Score=705.96  Aligned_cols=444  Identities=51%  Similarity=0.864  Sum_probs=408.1

Q ss_pred             ccccccCCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcc
Q psy2892           7 TENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAE   86 (452)
Q Consensus         7 ~~~~~~~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~   86 (452)
                      .+.++.+.+|+++++|++|||+||.+|+.+.++...|+|+|||.|.||.||++|.+|+.+|+|||++||.++|++.+.++
T Consensus        12 ~~~~~~~~~p~~~eaEqavLGalL~~~~~~~~v~~~L~~edFy~~~Hq~If~ai~~L~~~g~~iD~vtv~~~L~~~~~l~   91 (464)
T PRK08840         12 AQVDAIKVPPHSLEAEQSVIGGLLLDNERWDTVAEKVVASDFYSRPHRLIFEGVKSILEAGKPLDLITLSEHLERREQLE   91 (464)
T ss_pred             ccchhhcCCCCCHHHHHHHHHHHHcCHHHHHHHHhhCCHHHCCCHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhcCchh
Confidence            45667777899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccCHHHHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHHHHHHhhhhhhhhhccC
Q psy2892          87 EIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKG  166 (452)
Q Consensus        87 ~~gg~~~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~  166 (452)
                      .+||.+||.+|++.+|+++|+.+|+++|++++++|+++..+.++.+.+++....+++++++++++.+..+.........+
T Consensus        92 ~~GG~~YL~~L~~~~~s~~ni~~Ya~iVke~s~~R~li~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~i~~~~~~~~~~  171 (464)
T PRK08840         92 DVGGFAYLADLAKNTPSAANINAYADIVAERALVRNLIGVANEIADAGYDPQGRTSEDLLDMAESKVFAIAEARTSENEG  171 (464)
T ss_pred             hcCCHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhccCcCCCC
Confidence            99999999999999999999999999999999999999999999998876433588999999999999987653211246


Q ss_pred             cccHHHHHHHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcE
Q psy2892         167 FQQIQPLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPV  246 (452)
Q Consensus       167 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~v  246 (452)
                      +.++.+++.++++.+++..+.+.  +...|+||||+.||++++||++|+|++|+|+||+|||+|++++|.++|.++|.+|
T Consensus       172 ~~~~~~~~~~~~~~i~~~~~~~~--~~~~gi~TG~~~LD~~~~G~~~g~LiviaarPg~GKTafalnia~~~a~~~~~~v  249 (464)
T PRK08840        172 PQNVDSILEKTLERIELLYKTPQ--DGVTGVDTGFTDLNKKTAGLQGSDLIIVAARPSMGKTTFAMNLCENAAMDQDKPV  249 (464)
T ss_pred             ceeHHHHHHHHHHHHHHHHhcCC--CCCCCcCCCcHHHHHhhcCCCCCceEEEEeCCCCchHHHHHHHHHHHHHhCCCeE
Confidence            67789999999999988764321  3567999999999999999999999999999999999999999999987678999


Q ss_pred             EEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHH-hCCCeEEEcCCCCCHHHHHHHHHHHHHHcCC
Q psy2892         247 AIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKI-NKSQLYIDETPSLNVIELRANSRRLSRQCGK  325 (452)
Q Consensus       247 l~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l-~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~  325 (452)
                      +|||+||+.+++..|+++..++++..+++.|.+++++|.++..+..++ .+.++||+|.+.+|+.+|++.++++++++++
T Consensus       250 ~~fSlEMs~~ql~~Rlla~~s~v~~~~i~~~~l~~~e~~~~~~a~~~l~~~~~l~I~d~~~~ti~~i~~~~r~~~~~~~~  329 (464)
T PRK08840        250 LIFSLEMPAEQLMMRMLASLSRVDQTKIRTGQLDDEDWARISSTMGILMEKKNMYIDDSSGLTPTEVRSRARRIAREHGG  329 (464)
T ss_pred             EEEeccCCHHHHHHHHHHhhCCCCHHHHhcCCCCHHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCC
Confidence            999999999999999999999999999999999999999999999998 5689999999999999999999999988755


Q ss_pred             ccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeE
Q psy2892         326 IGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVIL  405 (452)
Q Consensus       326 ~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl  405 (452)
                      +++|||||||+|..+....++.++++.+++.||.+|+++|||||+++|+||+.++|.++||.++|||+||+|||+||+|+
T Consensus       330 ~~lvvIDYLql~~~~~~~~~r~~ei~~isr~LK~lAkel~ipVi~LsQLnR~~e~r~~krP~lsDLreSG~IEqdAD~v~  409 (464)
T PRK08840        330 LSMIMVDYLQLMRVPALSDNRTLEIAEISRSLKALAKELNVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIM  409 (464)
T ss_pred             CCEEEEccHHhcCCCCCCCchHHHHHHHHHHHHHHHHHhCCeEEEEEecCccccccCCCCCchHhhhhcccccccCCEEE
Confidence            99999999999975443467888999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEecCcccccCCCCCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         406 FIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       406 ~l~r~~~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      +|||+++|+++++.++.++|+|+|||+|++|++++.|++.+++|.++
T Consensus       410 ~l~R~~~y~~~~~~~~~~elivaKnR~G~~G~v~l~f~~~~~~f~~~  456 (464)
T PRK08840        410 FIYRDEVYNPDSPLKGTAEIIIGKQRNGPIGSVRLTFQGQYSRFDNY  456 (464)
T ss_pred             EEecccccCCCcCCCCceEEEEecccCCCCceEEEEEecCcccccCC
Confidence            99999999876666788999999999999999999999999999874

>PRK08006 replicative DNA helicase; Provisional

Probab=100.00  E-value=2.3e-91  Score=705.90  Aligned_cols=438  Identities=52%  Similarity=0.883  Sum_probs=403.8

Q ss_pred             CCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHH
Q psy2892          13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLS   92 (452)
Q Consensus        13 ~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~   92 (452)
                      +.||+++++|++|||+||.+|+.+.++...|+|+|||.|.||.||++|.+|+.+|+|||++||..+|++.+.++.+||.+
T Consensus        25 ~~~p~~~eaEqavLGalL~~~~~~~~v~~~L~~edFy~~~H~~If~ai~~L~~~g~~iD~vtv~~~L~~~~~l~~vGG~~  104 (471)
T PRK08006         25 KVPPHSIEAEQSVLGGLMLDNERWDDVAERVVADDFYTRPHRHIFTEMARLQESGSPIDLITLAESLERQGQLDSVGGFA  104 (471)
T ss_pred             cCCCCCHHHHHHHHHHHHcCHHHHHHHHhhCCHHHcCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHhcCchhhcCCHH
Confidence            34799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHHHHHHhhhhhhhhhccCcccHHH
Q psy2892          93 YLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQP  172 (452)
Q Consensus        93 ~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~  172 (452)
                      ||.+|+..+++++|+.+|+++|++++.+|+++..+.++.+.+++....++.++++++++.+..+.........++.++.+
T Consensus       105 yL~~L~~~~~s~ani~~Ya~iV~e~~~~R~li~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~  184 (471)
T PRK08006        105 YLAELSKNTPSAANISAYADIVRERAVVREMISVANEIADAGYDPQGRTSEDLLDLAESRVFQIAESRANKDEGPKNIAD  184 (471)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHHHHHhccCCCCCCceeHHH
Confidence            99999999999999999999999999999999999999998886433578999999999999997653211225678899


Q ss_pred             HHHHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         173 LLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       173 ~~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .+.++++.+++..+.+.  +...|+||||+.||++++||+||+|++|+|+||+|||+|++++|.++|.++|.+|+|||+|
T Consensus       185 ~~~~~~~~i~~~~~~~~--~~~~Gi~TG~~~LD~~~~Gl~~G~LiiIaarPgmGKTafalnia~~~a~~~g~~V~~fSlE  262 (471)
T PRK08006        185 ILDATVARIEQLFQQPH--DGVTGVNTGYDDLNKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMLQDKPVLIFSLE  262 (471)
T ss_pred             HHHHHHHHHHHHHhcCC--CCCCcccCCCHHHHHhhcCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCeEEEEecc
Confidence            99999999988654421  3567999999999999999999999999999999999999999999987678999999999


Q ss_pred             CCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHH-hCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEE
Q psy2892         253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKI-NKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIII  331 (452)
Q Consensus       253 ~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l-~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvI  331 (452)
                      |+.+++..|++|..++++..+++.|.+++++|.++..+...+ .+.++||+|.+.+|+.+|++.+++++++++++++|||
T Consensus       263 M~~~ql~~Rlla~~~~v~~~~i~~~~l~~~e~~~~~~a~~~~~~~~~l~I~d~~~~t~~~i~~~~r~~~~~~~~~~lvvI  342 (471)
T PRK08006        263 MPGEQIMMRMLASLSRVDQTRIRTGQLDDEDWARISGTMGILLEKRNMYIDDSSGLTPTEVRSRARRIFREHGGLSLIMI  342 (471)
T ss_pred             CCHHHHHHHHHHHhcCCCHHHhhcCCCCHHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEE
Confidence            999999999999999999999999999999999999999988 7789999999999999999999999888745999999


Q ss_pred             cCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         332 DYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       332 D~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                      ||||+|..+....++.++++++++.||.+|+++|||||+++|+||+.++|.++||.++|||+||+|||+||+|++|||++
T Consensus       343 DYLqli~~~~~~~~r~~ei~~isr~LK~lAkel~ipVi~LsQLnR~~e~r~dkrP~lsDLreSG~IEqdAD~v~~l~R~~  422 (471)
T PRK08006        343 DYLQLMRVPSLSDNRTLEIAEISRSLKALAKELQVPVVALSQLNRSLEQRADKRPVNSDLRESGSIEQDADLIMFIYRDE  422 (471)
T ss_pred             ccHHHccCCCCCCCcHHHHHHHHHHHHHHHHHhCCeEEEEEecCccccccCCCCCchhhhhhcCcccccCCEEEEEeccc
Confidence            99999976543467888999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccCCCCCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         412 VYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       412 ~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      +|+++++.+|.++|+|+|||+|++|++++.|++.+++|.++
T Consensus       423 ~y~~~~~~~g~~elivaKnR~G~~G~v~l~f~~~~~~f~~~  463 (471)
T PRK08006        423 VYHENSDLKGIAEIIIGKQRNGPIGTVRLTFNGQWSRFDNY  463 (471)
T ss_pred             ccccccCCCCceEEEEecccCCCCceEEEEEccCcccccCC
Confidence            99876666788999999999999999999999999999874

>PRK07004 replicative DNA helicase; Provisional

Probab=100.00  E-value=3.5e-91  Score=705.26  Aligned_cols=449  Identities=68%  Similarity=1.099  Sum_probs=410.6

Q ss_pred             cCCCccccccCCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcC
Q psy2892           3 VPFNTENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNT   82 (452)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~   82 (452)
                      .|.-.|.+..+.+|+++++|++|||+||.+|+.+.++...|+|+|||.|.||.||++|.+|+.+|+|+|++||..+|++.
T Consensus         3 ~~~~~~~~~~~~~p~~~eaEqaVLGalL~~~~~~~~v~~~L~~edFy~~~H~~If~ai~~L~~~g~~iD~vtl~~~L~~~   82 (460)
T PRK07004          3 APADPQLESLKVPPHSIEAEQSVLGGLLLDNAAWDRIADFLSQSDFYRYDHRIIFEHIGRLIAATRPADVITVYEALTTS   82 (460)
T ss_pred             CccccccccccCCCCCHHHHHHHHHHHHcCHHHHHHHHhhCCHHHcCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhc
Confidence            34444444345689999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcccccCHHHHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHHHHHHhhhhhhhh
Q psy2892          83 GNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEIC  162 (452)
Q Consensus        83 ~~~~~~gg~~~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~  162 (452)
                      +.++.+||.+||.+|+..+++.+|+.+|+++|++++++|++++.+.++.+.++++...++.++++++++.+..+......
T Consensus        83 ~~l~~igg~~yL~~L~~~~~s~ani~~Ya~iV~e~~~~R~li~~~~~i~~~~~~~~~~~~~~~l~~a~~~l~~i~~~~~~  162 (460)
T PRK07004         83 GKAEEVGGLAYLNALAQNTPSAANIRRYAEIVRDRAVLRRLVSVADEISADAFNPQGKEVRQLLDEAESKVFSIAEEGAR  162 (460)
T ss_pred             CchhhcCcHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCcCCHHHHHHHHHHHHHHHHcccCc
Confidence            99999999999999999999999999999999999999999999999999888754457899999999999998765322


Q ss_pred             hccCcccHHHHHHHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC
Q psy2892         163 INKGFQQIQPLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN  242 (452)
Q Consensus       163 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~  242 (452)
                      ...++.++.+.+.++++.+++...+. +++...|+||||+.||++++||++|++++|+|+||+|||+|++++|.++|.+.
T Consensus       163 ~~~~~~~~~~~~~~~~~~i~~~~~~~-~~~~~~gi~TG~~~LD~~t~G~~~g~liviaarpg~GKT~~al~ia~~~a~~~  241 (460)
T PRK07004        163 GTQGFLEIGPLLTQVVERIDTLYHTA-NPSDVTGTPTGFVDLDRMTSGMHGGELIIVAGRPSMGKTAFSMNIGEYVAVEY  241 (460)
T ss_pred             CcCcchhHHHHHHHHHHHHHHHHhcc-ccCCCCCccCCcHHhcccccCCCCCceEEEEeCCCCCccHHHHHHHHHHHHHc
Confidence            23466788899999999988765542 11356799999999999999999999999999999999999999999998777


Q ss_pred             CCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHH
Q psy2892         243 KLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQ  322 (452)
Q Consensus       243 g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~  322 (452)
                      |.+|+|||+||+.+++..|+++..++++..++++|.+++++|.++..+..++.+.++||++.+.+++.+|++.+++++++
T Consensus       242 ~~~v~~fSlEM~~~ql~~R~la~~~~v~~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~~~~~i~~~~r~l~~~  321 (460)
T PRK07004        242 GLPVAVFSMEMPGTQLAMRMLGSVGRLDQHRMRTGRLTDEDWPKLTHAVQKMSEAQLFIDETGGLNPMELRSRARRLARQ  321 (460)
T ss_pred             CCeEEEEeCCCCHHHHHHHHHHhhcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999888


Q ss_pred             cCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhc
Q psy2892         323 CGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDAD  402 (452)
Q Consensus       323 ~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD  402 (452)
                      ++++++|||||||+|.......++.++++++++.||.||++++||||+++|+||+.++|.++||.++|||+||+|||+||
T Consensus       322 ~~~~~lviIDYLql~~~~~~~~~r~~ei~~Isr~LK~lAkel~ipVi~lsQLnR~~e~r~~krP~lsDLreSg~IeqdAD  401 (460)
T PRK07004        322 CGKLGLIIIDYLQLMSGSSQGENRATEISEISRSLKSLAKELDVPVIALSQLNRGLEQRPNKRPVMSDLRESGAIEQDAD  401 (460)
T ss_pred             CCCCCEEEEChhhhccCCCCCCcHHHHHHHHHHHHHHHHHHhCCeEEEEeccChhhhccCCCCCChHHHhcchhhhhcCC
Confidence            75589999999999985543467889999999999999999999999999999999999999999999999999999999


Q ss_pred             eeEEEecCcccccCCCCCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         403 VILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       403 ~vl~l~r~~~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      +|++|||+++|+++++.+|.++|+|+|||+|++|++++.|++.++||.++
T Consensus       402 ~v~~l~R~~~y~~~~~~~g~~e~ivaKnR~G~~G~v~l~f~~~~~~F~~~  451 (460)
T PRK07004        402 VILFIYRDEVYNPDSPDKGTAEIIIGKQRNGPIGPVRLTFLGQYTKFDNF  451 (460)
T ss_pred             EEEEeccccccCCCcCCCCceEEEEEccCCCCCceEEEEEecCCCcccCC
Confidence            99999999999876666788999999999999999999999999999874

>PRK08760 replicative DNA helicase; Provisional

Probab=100.00  E-value=1.9e-90  Score=701.84  Aligned_cols=436  Identities=51%  Similarity=0.847  Sum_probs=405.1

Q ss_pred             CCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHH
Q psy2892          13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLS   92 (452)
Q Consensus        13 ~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~   92 (452)
                      +.+|+++++|++|||+||.+|+.+.++...|+|+|||.|.||.||++|.+|+.+|+|+|++||.++|.+++.++.+||..
T Consensus        31 ~~~p~~~eaEqaVLGalL~~~~~~~~v~~~L~~edFy~~~H~~If~ai~~L~~~~~~iD~vtv~~~L~~~~~l~~iGG~~  110 (476)
T PRK08760         31 RVPPHSVEAEQAVLGGLMLAPDALDRVNDQLTENDFYRRDHRLIYRAIRELSEKDRPFDAVTLGEWFESQGKLEQVGDGA  110 (476)
T ss_pred             cCCCCCHHHHHHHHHHHHcCHHHHHHHHhhCCHHhCCCHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhcCchhhcCCHH
Confidence            45799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHHHHHHhhhhhhhhhccCcccHHH
Q psy2892          93 YLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQP  172 (452)
Q Consensus        93 ~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~  172 (452)
                      ||.+|+..+|+.+|+.+|+++|++++++|+++..+.++.+.+++....++.++++++++.+..+.........++.++.+
T Consensus       111 YL~~L~~~~~s~~ni~~Ya~iV~e~~~~R~li~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~i~~~~~~~~~~~~~~~~  190 (476)
T PRK08760        111 YLIELASTTPSAANIAAYAEIVRDKAVLRQLIEVGTTIVNDGFQPEGRESIELLASAEKAVFKIAEAGARGRTDFVAMPG  190 (476)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHhccccccCCceeHHH
Confidence            99999999999999999999999999999999999999998876433578999999999999987652222345678899


Q ss_pred             HHHHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         173 LLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       173 ~~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ++.++++.+++++..+   +...|+||||+.||++++||++|+|++|+|+||+|||+|++++|.++|.+.|.+|+|||+|
T Consensus       191 ~~~~~~~~~~~~~~~~---~~~~Gi~TG~~~LD~~t~G~~~G~LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlE  267 (476)
T PRK08760        191 ALKDAFEELRNRFENG---GNITGLPTGYNDFDAMTAGLQPTDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSME  267 (476)
T ss_pred             HHHHHHHHHHHHHhCC---CCCCcccCCcHHHHHHhcCCCCCceEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEecc
Confidence            9999999998877665   4678999999999999999999999999999999999999999999987678999999999


Q ss_pred             CCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEc
Q psy2892         253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIID  332 (452)
Q Consensus       253 ~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID  332 (452)
                      |+.+++..|+++..++++..+++.|.+++++|.++..++.++.+.++||++.+.+++++|++.+++++++++ +++||||
T Consensus       268 Ms~~ql~~Rl~a~~s~i~~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~t~~~I~~~~r~l~~~~~-~~lVvID  346 (476)
T PRK08760        268 MSASQLAMRLISSNGRINAQRLRTGALEDEDWARVTGAIKMLKETKIFIDDTPGVSPEVLRSKCRRLKREHD-LGLIVID  346 (476)
T ss_pred             CCHHHHHHHHHHhhCCCcHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEeCCCCCCHHHHHHHHHHHHHhcC-CCEEEEe
Confidence            999999999999999999999999999999999999999999999999999999999999999999998886 9999999


Q ss_pred             CcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcc
Q psy2892         333 YLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEV  412 (452)
Q Consensus       333 ~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~  412 (452)
                      |||+|..+....++.++++++++.||.+|++++||||+++|+||+.++|.+++|.++|||+||+|||+||+|++|||+++
T Consensus       347 yLql~~~~~~~~~r~~ei~~Isr~LK~lAkel~ipVi~lsQLnR~~e~r~~krP~lsDLreSg~IeqdAD~vl~l~R~~~  426 (476)
T PRK08760        347 YLQLMSVPGNSENRATEISEISRSLKGLAKELNVPVIALSQLNRSLETRTDKRPVMADLRESGAIEQDADMIVFIYRDDY  426 (476)
T ss_pred             cHHhcCCCCCCcccHHHHHHHHHHHHHHHHHhCCEEEEeeccCccccccCCCCCCHHHHhhccchhcCCCEEEEEechhh
Confidence            99999755434678889999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccC-CCCCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         413 YNQN-SADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       413 ~~~~-~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      |+++ .+.++.++|+|+|||+|++|++++.|++.+++|.++
T Consensus       427 y~~~~~~~~~~~eliiaKnR~G~~g~~~l~f~~~~~~f~~~  467 (476)
T PRK08760        427 YNKENSPDKGLAEIIIGKHRGGPTGSCKLKFFGEYTRFDNL  467 (476)
T ss_pred             cccccccCCCceEEEEEccCCCCCceEEEEEecCCCceecc
Confidence            9765 455788999999999999999999999999999874

>PRK05636 replicative DNA helicase; Provisional

Probab=100.00  E-value=3.6e-90  Score=700.81  Aligned_cols=434  Identities=37%  Similarity=0.694  Sum_probs=404.7

Q ss_pred             CCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHH
Q psy2892          13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLS   92 (452)
Q Consensus        13 ~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~   92 (452)
                      +.+|+++++|++|||+||.+|+.+.++...|+|+|||.|.||.||++|.+|+.+|+|||++||..+|++.+.++.+||.+
T Consensus        68 ~~~p~~~eAEqaVLGalL~~p~~i~ev~~~L~~edFy~~~Hq~IF~Ai~~L~~~g~pID~vtV~~~L~~~g~Le~iGG~~  147 (505)
T PRK05636         68 RQPPYDNEAEQGVLGAMLLSPDTVIDIVEVLTPEDFYRPAHQLIFQAIIDLFSDNKEIDPVIVAGRLDRTNDLERVGGAP  147 (505)
T ss_pred             cCCCCCHHHHHHHHHHHHcCHHHHHHHHhhCCHHHcCCHHHHHHHHHHHHHHhCCCCCCHHHHHHHHhhcCchhhcCCHH
Confidence            56899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc-CcchHHHHHHHHHHHHhhhhhhhhhccCcccHH
Q psy2892          93 YLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISR-GKEVKQILDEAESKIFSIAEKEICINKGFQQIQ  171 (452)
Q Consensus        93 ~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~~  171 (452)
                      ||.+|+..+|+++|+.+|+++|++++++|+++..+.++.+.+++.. ..++.++++++++.+..+...  ....++..+.
T Consensus       148 YL~~L~~~~~s~aNi~~Ya~iVke~a~~R~li~~~~~i~~~~~~~~~~~~~~~~i~~a~~~l~~l~~~--~~~~~~~~~~  225 (505)
T PRK05636        148 YLHTLIQSVPTAANARYYAEIVSEKAVLRRLVDAGTRVVQLGYEGDEGAEIDSVIDRAQQEVFAVSQK--NQSEDYAVLA  225 (505)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHHHhhc--cCCCCceeHH
Confidence            9999999999999999999999999999999999999999887642 247899999999999998765  2334667789


Q ss_pred             HHHHHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         172 PLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       172 ~~~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +.+.++++.+++.....   +...|+||||+.||++++||++|+|++|+|+||+|||+|++++|.++|.++|.+|+|||+
T Consensus       226 ~~l~~~~~~i~~~~~~~---~~~~Gi~TG~~~LD~~t~Gl~~G~Liiiaarpg~GKT~~al~~a~~~a~~~g~~v~~fSl  302 (505)
T PRK05636        226 DILDPTMDELEMLSSQG---GIATGIPTGFKDLDDLTNGLRGGQMIIVAARPGVGKSTLALDFMRSASIKHNKASVIFSL  302 (505)
T ss_pred             HHHHHHHHHHHHHHhCC---CCCCceecChHHHhhhcCCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEe
Confidence            99999999998775544   456799999999999999999999999999999999999999999998777899999999


Q ss_pred             CCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEE
Q psy2892         252 EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIII  331 (452)
Q Consensus       252 E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvI  331 (452)
                      ||+.+++..|+++..++++..+++.|.+++++|.++.+++.++.+.++||+|.+.+|+++|++.+++++++++ +++|||
T Consensus       303 EMs~~ql~~R~ls~~s~v~~~~i~~g~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~ti~~I~~~~r~~~~~~~-~~lvvI  381 (505)
T PRK05636        303 EMSKSEIVMRLLSAEAEVRLSDMRGGKMDEDAWEKLVQRLGKIAQAPIFIDDSANLTMMEIRSKARRLKQKHD-LKLIVV  381 (505)
T ss_pred             eCCHHHHHHHHHHHhcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcC-CCEEEE
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999987 999999


Q ss_pred             cCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         332 DYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       332 D~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                      ||||+|.......++.++++++++.||.||+++|||||+++|+||+.++|.++||.++|||+||+|||+||+|++|||++
T Consensus       382 DYLql~~~~~~~~~r~~ei~~isr~LK~lAkel~ipVi~lsQLnR~~e~r~dkrP~lsDLreSG~IEqdAD~vl~l~R~~  461 (505)
T PRK05636        382 DYLQLMSSGKRVESRQQEVSEFSRQLKLLAKELDVPLIAISQLNRGPESRTDKRPQLADLRESGSLEQDADMVMLLYRPD  461 (505)
T ss_pred             cchHhcCCCCCCCcHHHHHHHHHHHHHHHHHHhCCeEEEEeecCccccccCCCCCcHHHHhhcccccccCCEEEEEeccc
Confidence            99999975443467888999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccCCCCCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         412 VYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       412 ~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      +|+++.+.+|.++|+|+|||||++|++.+.|+++++||.|+
T Consensus       462 ~y~~~~~~~g~~elivaK~RnG~~Gtv~l~f~~~~~rF~~~  502 (505)
T PRK05636        462 SQDKDDERAGEADIILAKHRGGPIDTVQVAHQLHYSRFVDM  502 (505)
T ss_pred             ccCCccCCCCceEEEEecCCCCCCceEEEEeecCccccccc
Confidence            99876666789999999999999999999999999999875

>PRK06904 replicative DNA helicase; Validated

Probab=100.00  E-value=7.8e-90  Score=695.81  Aligned_cols=440  Identities=52%  Similarity=0.896  Sum_probs=400.8

Q ss_pred             cCCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCH
Q psy2892          12 FRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGL   91 (452)
Q Consensus        12 ~~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~   91 (452)
                      .+.+|+++|+|++|||+||.+|+.++++...|+|+|||.|.||.||++|.+|+.+|+|+|++||..+|++.+.++.+||.
T Consensus        20 ~~~~p~~~eaE~aVLGalL~~~~~~~~v~~~L~~edFy~~~H~~IF~ai~~L~~~g~~iD~vtl~~~L~~~~~l~~igg~   99 (472)
T PRK06904         20 VLIPPHSIEAEQAVLGGIMLDNRHWDSVAERVIADDFYTFEHRIIFQEMELLFRQNTPIDLLTLDQALKTKGKSDEVGGF   99 (472)
T ss_pred             ccCCCCCHHHHHHHHHHHHcCHHHHHHHHhhCCHHHcCCHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhcCchhhcCcH
Confidence            35689999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHHHHHHhhhhhhhhhccCcccHH
Q psy2892          92 SYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQ  171 (452)
Q Consensus        92 ~~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~~  171 (452)
                      +||.+|++.+|+.+|+.+|+++|++++.+|+++..+.++.+.++++...+++++++++++.+..+.........++.++.
T Consensus       100 ~yL~~L~~~~~s~~ni~~Ya~iVke~~~~R~li~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~i~~~~~~~~~~~~~~~  179 (472)
T PRK06904        100 AYLAELSNNTPSAANILAYADIVREKAILRELISVGNNIAKNAYSPKGQDIKDILDEAERDVFSIAEKRTTANEGPQNVI  179 (472)
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCccCCHHHHHHHHHHHHHHHHhhcccccCCceeHH
Confidence            99999999999999999999999999999999999999999888754357999999999999998765322123567889


Q ss_pred             HHHHHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         172 PLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       172 ~~~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +.+.++++.+++..+...+ +...|+||||+.||++++||+||+|++|+|+||+|||+|++++|.++|...|.+|+|||+
T Consensus       180 ~~~~~~~~~i~~~~~~~~~-~~~~Gi~TG~~~LD~~t~Gl~~G~LiiIaarPg~GKTafalnia~~~a~~~g~~Vl~fSl  258 (472)
T PRK06904        180 NLLENTIDKIENLAATPTN-NGVTGVTTGFTDLDKKTAGLQPSDLIIVAARPSMGKTTFAMNLCENAAMASEKPVLVFSL  258 (472)
T ss_pred             HHHHHHHHHHHHHHhhccC-CCCCCccCChHHHHHHHhccCCCcEEEEEeCCCCChHHHHHHHHHHHHHhcCCeEEEEec
Confidence            9999999988875422101 467799999999999999999999999999999999999999999998767899999999


Q ss_pred             CCCHHHHHHHHHHHhCCCCccccccC-CCCcchHHHHHHHHHHHhC-CCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEE
Q psy2892         252 EMSGIQLAMRMLGSVGKLDQHKLRTG-RLSSDDWPRINDSIKKINK-SQLYIDETPSLNVIELRANSRRLSRQCGKIGVI  329 (452)
Q Consensus       252 E~~~~~i~~R~~a~~~~i~~~~i~~g-~l~~~~~~~~~~a~~~l~~-~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~v  329 (452)
                      ||+.+++..|+++..++++..+++.| .+++++|.++..+...+.+ .++||+|.+++|+++|++.+++++++++++++|
T Consensus       259 EMs~~ql~~Rlla~~s~v~~~~i~~g~~l~~~e~~~~~~a~~~l~~~~~l~I~d~~~~t~~~i~~~~r~~~~~~~~~~lv  338 (472)
T PRK06904        259 EMPAEQIMMRMLASLSRVDQTKIRTGQNLDQQDWAKISSTVGMFKQKPNLYIDDSSGLTPTELRSRARRVYRENGGLSLI  338 (472)
T ss_pred             cCCHHHHHHHHHHhhCCCCHHHhccCCCCCHHHHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHHHhCCCCCEE
Confidence            99999999999999999999999999 8999999999999999964 569999999999999999999998876459999


Q ss_pred             EEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         330 IIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       330 vID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      ||||||+|.......++.++++++++.||.+|+++|||||+++|+||+.++|.++||.++|||+||+|||+||+|++|||
T Consensus       339 vIDYLqli~~~~~~~~r~~ei~~isr~LK~lAkel~ipVi~lsQLnR~~e~r~~krP~lsDLreSG~IEqdAD~v~~l~R  418 (472)
T PRK06904        339 MVDYLQLMRAPGFEDNRTLEIAEISRSLKALAKELKVPVVALSQLNRTLENRGDKRPVNSDLRESGSIEQDADLIMFIYR  418 (472)
T ss_pred             EEecHHhcCCCCCCCcHHHHHHHHHHHHHHHHHHhCCeEEEEEecCchhhccCCCCCchHHHhhcCccccCCcEEEEEec
Confidence            99999999865433678889999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcccccCCC-CCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         410 DEVYNQNSA-DKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       410 ~~~~~~~~~-~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      +++|+.+.. .++.++|+|+|||+|++|++++.|++.++||.++
T Consensus       419 ~~~y~~~~~~~~~~~elivaKnR~G~~G~v~l~f~~~~~~f~~~  462 (472)
T PRK06904        419 DEVYNETTEDNKGVAEIIIGKQRNGPIGRVRLAFQGQYSRFDNL  462 (472)
T ss_pred             cccccCccccCCCceEEEEeccCCCCCceEEEEEccCCCCcccc
Confidence            999875533 3688999999999999999999999999999874

>PRK06321 replicative DNA helicase; Provisional

Probab=100.00  E-value=8.7e-89  Score=686.36  Aligned_cols=436  Identities=41%  Similarity=0.686  Sum_probs=395.2

Q ss_pred             cCCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCH
Q psy2892          12 FRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGL   91 (452)
Q Consensus        12 ~~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~   91 (452)
                      .+.+|+++++|++|||+||.+|+.++++...|+|+|||.|.||.||++|.+|+.+|+|+|++||.++|++.+.++.+||.
T Consensus        13 ~~~~p~~~eaE~avLG~lL~~~~~~~~v~~~L~~e~Fy~~~h~~If~ai~~l~~~~~~iD~vtv~~~L~~~~~l~~igG~   92 (472)
T PRK06321         13 LLSPPNSKESEMIVLGCMLTSVNYLNLAANQLQEDDFYFLEHKIIFRVLQDAFKSDKPIDVHLAGEELKRRNQLNVIGGP   92 (472)
T ss_pred             cCCCCCCHHHHHHHHHHHHcCHhHHHHHHhhCCHHHCCCHHHHHHHHHHHHHHhCCCCCCHHHHHHHHhhcCChhhcCCH
Confidence            36789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHHHHHHhhhhhhhhhccCcccHH
Q psy2892          92 SYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQ  171 (452)
Q Consensus        92 ~~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~~  171 (452)
                      +||.+|+..+++++|+.+|+++|++++++|+++..+.++.+.+++. ..++.++++++++.+.++....  ...++.++.
T Consensus        93 ~yL~~L~~~~~s~~ni~~Ya~iV~e~~~~R~li~~~~~~~~~~~~~-~~~~~~~l~~~~~~l~~i~~~~--~~~~~~~~~  169 (472)
T PRK06321         93 SYLITLAEFAGTSAYIEEYAEIIRSKSILRKMIQTAKEIEKKALEE-PKDVATALDEAQNLLFKISQTT--NLAQYVLVA  169 (472)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC-CCCHHHHHHHHHHHHHHHHhcc--CCCCceEHH
Confidence            9999999999999999999999999999999999999999988774 3689999999999999997662  334566777


Q ss_pred             HHHHHH--------HHHHHHHH----h--CCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         172 PLLNRV--------IKRINKLH----N--RGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       172 ~~~~~~--------~~~i~~~~----~--~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +.+.++        ++.+++..    .  .+.+.+...|+||||..||++++||++|+|++|+|+||+|||+|++++|.+
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Gi~tG~~~LD~~t~Gl~~G~LiiiaarPgmGKTafal~ia~~  249 (472)
T PRK06321        170 DKLKGLTSSKDKPFLLQLQERQEAFQQSAQGDSSPMISGIPTHFIDLDKMINGFSPSNLMILAARPAMGKTALALNIAEN  249 (472)
T ss_pred             HHHhhhhcchhhhHHHHHHHHHHHHhhhhccccCCCCCccccCcHHHHHHhcCCCCCcEEEEEeCCCCChHHHHHHHHHH
Confidence            775542        33333321    1  000113567999999999999999999999999999999999999999999


Q ss_pred             HHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHH
Q psy2892         238 IAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSR  317 (452)
Q Consensus       238 ~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~  317 (452)
                      +|.+.|.+|+|||+||+.+++..|++|..++++..+++.|.+++++|.++..+...+.+.+++|++.+.+++++|++.++
T Consensus       250 ~a~~~g~~v~~fSLEMs~~ql~~Rlla~~s~v~~~~i~~~~l~~~e~~~~~~a~~~l~~~~~~idd~~~~ti~~i~~~~r  329 (472)
T PRK06321        250 FCFQNRLPVGIFSLEMTVDQLIHRIICSRSEVESKKISVGDLSGRDFQRIVSVVNEMQEHTLLIDDQPGLKITDLRARAR  329 (472)
T ss_pred             HHHhcCCeEEEEeccCCHHHHHHHHHHhhcCCCHHHhhcCCCCHHHHHHHHHHHHHHHcCCEEEeCCCCCCHHHHHHHHH
Confidence            98767899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCccEEEEcCcchhccCC---CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhh
Q psy2892         318 RLSRQCGKIGVIIIDYLQLMSANS---RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRES  394 (452)
Q Consensus       318 ~~~~~~~~~~~vvID~l~~i~~~~---~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S  394 (452)
                      +++++++ +++|||||||+|....   ...++.++++++++.||.+|+++|||||+++|+||+.++|.++||.++|||+|
T Consensus       330 ~~~~~~~-~~lvvIDyLql~~~~~~~~~~~~r~~ei~~Isr~LK~lAkel~vpVi~lsQLnR~~e~r~~krP~lsDLReS  408 (472)
T PRK06321        330 RMKESYD-IQFLIIDYLQLLSGSGNLRNSESRQTEISEISRMLKNLARELNIPILCLSQLSRKVEDRANHRPMMSDLRES  408 (472)
T ss_pred             HHHHhcC-CCEEEEcchHHcCCCCccCCcchHHHHHHHHHHHHHHHHHHhCCcEEEEeecChhhhccCCCCCCHHHHhhc
Confidence            9999887 9999999999997532   23577889999999999999999999999999999999999999999999999


Q ss_pred             chhhhhhceeEEEecCcccccCCCCCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         395 GAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       395 ~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      |+|||+||+|++|||+++|++++ .+|.++|+|+|||+|++|++.+.|++++++|.++
T Consensus       409 G~IEqdAD~v~~l~R~~~y~~~~-~~~~~elivaKnR~G~~G~v~l~f~~~~~~f~~~  465 (472)
T PRK06321        409 GSIEQDSDLVMFLLRREYYDPND-KPGTAELIVAKNRHGSIGSVPLVFEKEFARFRNY  465 (472)
T ss_pred             ccccccCCEEEEEechhhcCCcC-CCCceEEEEEecCCCCCceEEEEEecCCCcccCc
Confidence            99999999999999999987543 4578999999999999999999999999999874

>PRK05595 replicative DNA helicase; Provisional

Probab=100.00  E-value=8.4e-88  Score=682.75  Aligned_cols=435  Identities=46%  Similarity=0.791  Sum_probs=404.4

Q ss_pred             ccCCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccC
Q psy2892          11 KFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGG   90 (452)
Q Consensus        11 ~~~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg   90 (452)
                      +.+.+|+++++|++|||+||.+|+.++++.+.|+|+|||.|.||.||++|.+++.+|+|+|+++|..+|++.+.++.+||
T Consensus         4 ~~~~~p~~~eaE~~VLG~lL~~~~~~~~v~~~L~~edFy~~~H~~IF~aI~~L~~~g~~iD~vtl~~~L~~~~~l~~~gg   83 (444)
T PRK05595          4 PIRSLPQSIEAEQSVLGAMIIDKTSIAEAAEVLKSEDFYRDSHKVIFSAIIELYQKDIAVDMLTLTENLKSTDKLEAAGG   83 (444)
T ss_pred             ccCCCCCCHHHHHHHHHHHHcCHhHHHHHHhhCCHHHcCCHHHHHHHHHHHHHHhcCCCCCHHHHHHHHhccCchhhcCc
Confidence            44668999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHHHHHHhhhhhhhhhccCcccH
Q psy2892          91 LSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQI  170 (452)
Q Consensus        91 ~~~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~  170 (452)
                      .+||.+|.+.+++++|+.+|+++|++++++|+++..+.++.+.+++. ..++++++++++..+.++....  ...++.++
T Consensus        84 ~~yL~~L~~~~~s~~ni~~Ya~iVke~~~~R~l~~~~~~~~~~~~~~-~~~~~~~l~~~e~~l~~l~~~~--~~~~~~~~  160 (444)
T PRK05595         84 VTYITELSNSIVSTANIQSYIKIVKDKSTLRRLIKSSTEIIENSYNN-QDDVEKVIDSAEKKIFDISEKR--TTSDFEPL  160 (444)
T ss_pred             HHHHHHHHHcCCCHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-CCCHHHHHHHHHHHHHHHHhcc--CCccceeH
Confidence            99999999999999999999999999999999999999999888763 3578999999999998887652  33456778


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         171 QPLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       171 ~~~~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      .+++.++++.+++.+++.   +...|+||||+.||++++||++|++++|+|+||+|||+|++++|.++|.++|.+|+|||
T Consensus       161 ~~~l~~~~~~~~~~~~~~---~~~~gi~tg~~~ld~~~~G~~~g~liviaarpg~GKT~~al~ia~~~a~~~g~~vl~fS  237 (444)
T PRK05595        161 SNVLERGFEQIENLFNNK---GETTGVASGFRELDAKTSGFQKGDMILIAARPSMGKTTFALNIAEYAALREGKSVAIFS  237 (444)
T ss_pred             HHHHHHHHHHHHHHHhCC---CCCCcccCChHHHHHhcCCCCCCcEEEEEecCCCChHHHHHHHHHHHHHHcCCcEEEEe
Confidence            999999999998876655   45679999999999999999999999999999999999999999998877799999999


Q ss_pred             CCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEE
Q psy2892         251 MEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVII  330 (452)
Q Consensus       251 ~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vv  330 (452)
                      +||+.+++..|+++..++++..++++|.+++++|.++..+...+.+.++||++.+++|+++|++.+++++.++| +++||
T Consensus       238 lEms~~~l~~R~~a~~~~v~~~~~~~~~l~~~e~~~~~~~~~~l~~~~l~i~d~~~~t~~~i~~~~r~~~~~~~-~~~vv  316 (444)
T PRK05595        238 LEMSKEQLAYKLLCSEANVDMLRLRTGNLEDKDWENIARASGPLAAAKIFIDDTAGVSVMEMRSKCRRLKIEHG-IDMIL  316 (444)
T ss_pred             cCCCHHHHHHHHHHHhcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcC-CCEEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999998887 99999


Q ss_pred             EcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         331 IDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       331 ID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      |||||+|.......++.++++++++.||.+|+++|||||+++|+||+.++|.++||.++|||+||+|||+||+|++|||+
T Consensus       317 IDylql~~~~~~~~~r~~~v~~is~~LK~lAke~~i~vi~lsQLnR~~e~r~~~rP~lsdlr~Sg~Ieq~AD~vl~l~r~  396 (444)
T PRK05595        317 IDYLQLMSGGKGSESRQQEVSEISRSIKALAKEMECPVIALSQLSRAPEQRADHRPMLSDLRESGSIEQDADVVMFLYRD  396 (444)
T ss_pred             EeHHHhccCCCCCccHHHHHHHHHHHHHHHHHHhCCeEEEeeccCcchhccCCCCCchhhhhhhcccccCCCEEEEEecc
Confidence            99999997544346788899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccCCCCCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         411 EVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       411 ~~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      ++|+++.+.+|.++++|+|||+|++|++++.|++.+++|.++
T Consensus       397 ~~~~~~~~~~~~~e~iv~K~R~G~~g~~~~~~~~~~~~f~~~  438 (444)
T PRK05595        397 EYYNKETEDKNVAECIIAKQRNGPTGTVKLAWLGQYSKFGNL  438 (444)
T ss_pred             cccccccCCCCceEEEEEccCCCCCceEEEEEecCCCccccc
Confidence            998766666789999999999999999999999999999874

>PRK09165 replicative DNA helicase; Provisional

Probab=100.00  E-value=1.4e-87  Score=685.15  Aligned_cols=444  Identities=41%  Similarity=0.695  Sum_probs=403.5

Q ss_pred             cCCCccccccCCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcC
Q psy2892           3 VPFNTENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNT   82 (452)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~   82 (452)
                      .|..... ..+.+|+++++|++|||+||.+|+.++++...|+|+|||.|.||.||++|.+|+.+|+|+|++||.++|.+.
T Consensus        10 ~~~~~~~-~~~~~p~~~eaEqaVLGalL~~~~~~~~v~~~L~~edFy~~~H~~IF~ai~~L~~~g~piD~vtv~~~L~~~   88 (497)
T PRK09165         10 APDAAEP-EIRELPHNIEAEQALLGAILINNRALDRVSDFLKPEHFFEPLHQRIYEAIAKIIRKGKLATPVTLKTFLEND   88 (497)
T ss_pred             Ccccccc-cccCCCCCHHHHHHHHHHHHcCHHHHHHHHhhCCHHHCCCHHHHHHHHHHHHHHhCCCCcCHHHHHHHHhhc
Confidence            3444433 334689999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcccccCHHHHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc-CcchHHHHHHHHHHHHhhhhhhh
Q psy2892          83 GNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISR-GKEVKQILDEAESKIFSIAEKEI  161 (452)
Q Consensus        83 ~~~~~~gg~~~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~l~~l~~~~~  161 (452)
                      +.++.+||.+||.+|+..+|+++|+.+|+++|++.+.+|+++..+.++.+.+++.. ..++.++++++++.+.++.... 
T Consensus        89 ~~l~~~gG~~YL~~L~~~~~s~~ni~~Ya~iV~e~~~~R~li~~~~~i~~~a~~~~~~~~~~~~i~~~~~~l~~i~~~~-  167 (497)
T PRK09165         89 EALGELGGVQYLAKLATEAVTIINARDYGRIIYDLALRRELINIGEDVVNNAYDAPVDVAPQEQIEDAEQKLYELAETG-  167 (497)
T ss_pred             CchhhcCCHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccCCCHHHHHHHHHHHHHHHHhcc-
Confidence            98999999999999999999999999999999999999999999999999887643 2478899999999999987652 


Q ss_pred             hhccCcccHHHHHHHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh
Q psy2892         162 CINKGFQQIQPLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE  241 (452)
Q Consensus       162 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~  241 (452)
                      ....++.++.+.+.++++.+++..+..   +...|+||||+.||+++|||.||++++|+|+||+|||+|++++|.++|.+
T Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~gi~TG~~~LD~~~gG~~~g~livIaarpg~GKT~~al~ia~~~a~~  244 (497)
T PRK09165        168 RYEGGFQSFGTAITEAVDMANAAFKRD---GHLSGISTGLRDLDSKLGGLHPSDLIILAGRPSMGKTALATNIAFNAAKA  244 (497)
T ss_pred             CCCCCceeHHHHHHHHHHHHHHHHhCC---CCCCcccCChHHHhhhcCCCCCCceEEEEeCCCCChHHHHHHHHHHHHHh
Confidence            122367789999999999988875554   56789999999999999999999999999999999999999999999864


Q ss_pred             --------------CCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCC
Q psy2892         242 --------------NKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSL  307 (452)
Q Consensus       242 --------------~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~  307 (452)
                                    +|.+|+|||+||+.+++..|++|..++++..++++|.+++++|.++.++...+.+.++||++.+.+
T Consensus       245 ~~~~~~~~~~~~~~~g~~vl~fSlEMs~~ql~~R~la~~s~v~~~~i~~~~l~~~e~~~l~~a~~~l~~~~l~I~d~~~~  324 (497)
T PRK09165        245 YRREAQPDGSKKAVNGGVVGFFSLEMSAEQLATRILSEQSEISSSKIRRGKISEEDFEKLVDASQELQKLPLYIDDTPAL  324 (497)
T ss_pred             hcccccccccccccCCCeEEEEeCcCCHHHHHHHHHHHhcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCeEEeCCCCC
Confidence                          368999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC--CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCC
Q psy2892         308 NVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS--RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKR  385 (452)
Q Consensus       308 t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~--~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~  385 (452)
                      ++++|++.+++++++++ +++|||||||+|....  ...++.++++.+++.||.+|+++|||||+++|+||+.++|.++|
T Consensus       325 ti~~i~~~ir~l~~~~~-~~lvvIDyLqli~~~~~~~~~~r~~ev~~is~~LK~lAkel~ipVi~lsQLnR~~e~r~~kr  403 (497)
T PRK09165        325 SISQLRARARRLKRQHG-LDLLVVDYLQLIRGSSKRSSDNRVQEISEITQGLKALAKELNIPVIALSQLSRQVEQRDDKR  403 (497)
T ss_pred             CHHHHHHHHHHHHHhcC-CCEEEEcchHhccCCCCCCCCchHHHHHHHHHHHHHHHHHhCCeEEEeecccchhhccCCCC
Confidence            99999999999998887 9999999999998653  24678889999999999999999999999999999999999999


Q ss_pred             CCchhhhhhchhhhhhceeEEEecCcccccCC-----------------CCCCeEEEEEeeccCCCcceEEEEEEcCccc
Q psy2892         386 PIMSDLRESGAIEQDADVILFIYRDEVYNQNS-----------------ADKGIAEIIVSKQRNGPIGNIRLTFSGQYTK  448 (452)
Q Consensus       386 p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~-----------------~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~  448 (452)
                      |.++|||+||+|||+||+|++|||+++|+.+.                 ..++.++|+|+|||+|++|++.+.|++.++|
T Consensus       404 P~lsDLr~Sg~IEqdAD~v~~l~R~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~e~ivaKnR~G~~g~~~~~f~~~~~~  483 (497)
T PRK09165        404 PQLSDLRESGSIEQDADVVMFVYREEYYLKRKEPREGTPKHEEWQEKMEKVHNKAEVIIAKQRHGPTGTVKLAFESEFTR  483 (497)
T ss_pred             CchhhhhhccchhccCCEEEEEeehhhhccccccccccchhhhhhhhhcccCCceEEEEeccCCCCCeeEEEEEecCCCc
Confidence            99999999999999999999999999886421                 0147899999999999999999999999999


Q ss_pred             eecC
Q psy2892         449 FNNF  452 (452)
Q Consensus       449 f~~~  452 (452)
                      |.++
T Consensus       484 f~~~  487 (497)
T PRK09165        484 FGDL  487 (497)
T ss_pred             ccCc
Confidence            9874

>PRK05748 replicative DNA helicase; Provisional

Probab=100.00  E-value=7.7e-86  Score=670.26  Aligned_cols=436  Identities=51%  Similarity=0.892  Sum_probs=402.8

Q ss_pred             ccCCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccC
Q psy2892          11 KFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGG   90 (452)
Q Consensus        11 ~~~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg   90 (452)
                      ..+.+|+++++|++|||+||.+|+.+.++...|+|+|||+|.||.||++|.+|+.+|+|+|+++|..+|++.+.++.+||
T Consensus         6 ~~~~~p~~~eaE~~VLGalL~~~~~~~~v~~~L~~edF~~~~h~~If~ai~~l~~~g~~iD~~tl~~~L~~~~~l~~~gg   85 (448)
T PRK05748          6 ALRVPPQSIEAEQAVLGAIFLDPDALITVSEYLSPDDFYRHAHRLIFRAMLKLSDRGEPIDVVTVTEILDDQGDLEEVGG   85 (448)
T ss_pred             cccCCCCCHHHHHHHHHHHHcCHHHHHHHHhhCCHHHcCCHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhcCchhhcCc
Confidence            34568999999999999999999999999999999999999999999999999999999999999999999888888999


Q ss_pred             HHHHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHHHHHHhhhhhhhhhccCcccH
Q psy2892          91 LSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQI  170 (452)
Q Consensus        91 ~~~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~  170 (452)
                      .+||.+|+..+|+..|+.+|+++|++.+.+|+++..+.++.+.++++. .+++++++.+++.+.++....  ...++.++
T Consensus        86 ~~yL~~L~~~~~s~~ni~~Ya~iVke~~~~R~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~i~~~~--~~~~~~~i  162 (448)
T PRK05748         86 LSYLAELANSVPTAANIEYYAKIVAEKAMLRRLIRTATEIANDAYEPE-DDADEILDEAEKKIFEVSERR--NKSGFKNI  162 (448)
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCC-CCHHHHHHHHHHHHHHHhhcc--CccCCcCH
Confidence            999999999999999999999999999999999999999998887643 478999999999998887652  23366778


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         171 QPLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       171 ~~~~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      .+.+.++++.+++.....   +...|+||||+.||++++||++|++++|+|+||+|||+|+++++.++|.+.|.+|+|||
T Consensus       163 ~~~~~~~~~~l~~~~~~~---~~~~gi~TG~~~LD~~~~G~~~G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fS  239 (448)
T PRK05748        163 KDVLVKAYDRIEMLHNQT---GDITGIPTGFTDLDKMTSGLQPNDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFS  239 (448)
T ss_pred             HHHHHHHHHHHHHHHhcC---CCCCCccCChHHHHHhcCCCCCCceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEe
Confidence            999999999988776554   45679999999999999999999999999999999999999999999876799999999


Q ss_pred             CCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEE
Q psy2892         251 MEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVII  330 (452)
Q Consensus       251 ~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vv  330 (452)
                      +||+.+++..|+++..++++..+++.|.+++++|.++..+...+.+.++||++.+.+++++|++.+++++++++++++||
T Consensus       240 lEms~~~l~~R~l~~~~~v~~~~i~~~~l~~~e~~~~~~a~~~l~~~~~~i~d~~~~ti~~i~~~~r~~~~~~~~~~~vv  319 (448)
T PRK05748        240 LEMGAESLVMRMLCAEGNIDAQRLRTGQLTDDDWPKLTIAMGSLSDAPIYIDDTPGIKVTEIRARCRRLAQEHGGLGLIL  319 (448)
T ss_pred             CCCCHHHHHHHHHHHhcCCCHHHhhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999998873499999


Q ss_pred             EcCcchhccCC-CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         331 IDYLQLMSANS-RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       331 ID~l~~i~~~~-~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      |||||+|.... ...++.++++.+++.||.+|+++|||||+++|+||+.++|.+++|.++|||+||+|||+||+|++|||
T Consensus       320 IDyL~li~~~~~~~~~r~~~i~~i~~~LK~lAke~~i~vi~lsQlnr~~~~r~~k~p~lsdlr~Sg~Ieq~AD~v~~l~r  399 (448)
T PRK05748        320 IDYLQLIQGSGRSGENRQQEVSEISRSLKALAKELKVPVIALSQLSRGVEQRQDKRPVMSDIRESGSIEQDADIVAFLYR  399 (448)
T ss_pred             EccchhcCCCCCCCcCHHHHHHHHHHHHHHHHHHhCCeEEEecccChhHhhcCCCCCChHHHHhhcchhcCCCEEEEEec
Confidence            99999997543 23678889999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcccccCCCCCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         410 DEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       410 ~~~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      +++|+++.+.++.++|+|+|||+|++|++++.|++.++||.++
T Consensus       400 ~~~~~~~~~~~~~~e~~v~K~R~G~~g~~~~~~~~~~~~f~~~  442 (448)
T PRK05748        400 DDYYDEETENKNTIEIIIAKQRNGPVGTVELAFQKEYNKFVNL  442 (448)
T ss_pred             ccccCccccCCCceEEEEeccCCCCCceEEEEEeCCCCccccc
Confidence            9998766666788999999999999999999999999999874

>PRK06749 replicative DNA helicase; Provisional

Probab=100.00  E-value=3e-85  Score=655.56  Aligned_cols=421  Identities=36%  Similarity=0.627  Sum_probs=382.9

Q ss_pred             CCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHHHH
Q psy2892          15 PPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYL   94 (452)
Q Consensus        15 ~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~~l   94 (452)
                      .|+++++|++|||+||.+|+.++++  .|+|+|||.|.||.||++|.+|+.+|+|+|++||.++|. .+.++.+||.+||
T Consensus         2 ~~~~~eaE~~vLG~lL~~~~~~~~v--~l~~e~F~~~~h~~If~ai~~l~~~~~~iD~~tv~~~l~-~~~l~~~gg~~yl   78 (428)
T PRK06749          2 SIQNVEAEKTVLGSLLLDGELIKEC--RLTEQYFSMPVHKSIFQLMRKMEDEGQPIDLVTFTSRVD-PNFLKGIGGMEYF   78 (428)
T ss_pred             CCCCHHHHHHHHHHHHcChhhhhee--eECHHHCCcHHHHHHHHHHHHHHhCCCCCCHHHHHHHHh-ccchhhcCCHHHH
Confidence            5899999999999999999999887  499999999999999999999999999999999999997 6778899999999


Q ss_pred             HHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHHHHHHhhhhhhhhhccCcccHHHHH
Q psy2892          95 NSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLL  174 (452)
Q Consensus        95 ~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~  174 (452)
                      .+|.+.+++.+|+.+|+++|++++.+|+++..+.++.+.+++   .++.++++++++.+..+....  . .+..++.+.+
T Consensus        79 ~~L~~~~~s~~n~~~ya~~v~~~~~~R~~~~~~~~~~~~~~~---~~~~~~i~~~~~~l~~i~~~~--~-~~~~~~~~~~  152 (428)
T PRK06749         79 IGLMDGVPTTSNFSYYEGLVRGAWKMYQAGVLGHKMGERLIA---EKSEKIIGETITALCELEEKD--C-VCEFDLKDAL  152 (428)
T ss_pred             HHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC---CCHHHHHHHHHHHHHHHHccC--C-CCCccHHHHH
Confidence            999999999999999999999999999999999999987765   267899999999998887652  1 2334778877


Q ss_pred             HHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         175 NRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       175 ~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      .++++.+.   .+.   +...|+||||+.||++++||++|+|++|+|+||+|||+|++++|.++|. +|.+|+|||+||+
T Consensus       153 ~~~~~~~~---~~~---~~~~Gi~TG~~~LD~~t~Gl~~G~LiiIaarPgmGKTafal~ia~~~a~-~g~~v~~fSlEMs  225 (428)
T PRK06749        153 VDLYEELH---QDA---KEITGIETGYTSLNKMTCGLQEGDFVVLGARPSMGKTAFALNVGLHAAK-SGAAVGLFSLEMS  225 (428)
T ss_pred             HHHHHHHH---hcC---CCCCCccCCcHHHHHHhCCCCCCcEEEEEeCCCCCchHHHHHHHHHHHh-cCCCEEEEEeeCC
Confidence            77665542   233   4567999999999999999999999999999999999999999999985 6899999999999


Q ss_pred             HHHHHHHHHHHhCCCCccccccC--CCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcC-CccEEEE
Q psy2892         255 GIQLAMRMLGSVGKLDQHKLRTG--RLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCG-KIGVIII  331 (452)
Q Consensus       255 ~~~i~~R~~a~~~~i~~~~i~~g--~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~-~~~~vvI  331 (452)
                      .+++..|+++..++++..+++++  .+++++|.++.++...+.+.|++|+|.+++|+++|++.+++++++++ .+++|||
T Consensus       226 ~~ql~~R~ls~~~~i~~~~l~~~~~~l~~~e~~~~~~a~~~l~~~~i~i~d~~~~t~~~I~~~~r~~~~~~~~~~~lvvI  305 (428)
T PRK06749        226 SKQLLKRMASCVGEVSGGRLKNPKHRFAMEDWEKVSKAFAEIGELPLEIYDNAGVTVQDIWMQTRKLKRKHGDKKILIIV  305 (428)
T ss_pred             HHHHHHHHHHhccCCCHHHHhcCcccCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCcEEEE
Confidence            99999999999999999999875  58999999999999999999999999999999999999999998876 2459999


Q ss_pred             cCcchhccCC-CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         332 DYLQLMSANS-RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       332 D~l~~i~~~~-~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      ||||+|.... ...++.++++++++.||.+|+++|||||++||+||+.++|.++||.++|||+||+|||+||+|++|||+
T Consensus       306 DyLqli~~~~~~~~~r~~ei~~isr~LK~lAkel~vpVi~lsQLnR~~e~r~~krP~lsDLR~SG~IEqdAD~vl~l~R~  385 (428)
T PRK06749        306 DYLQLITGDPKHKGNRFQEISEISRKLKLLARELNVCVVALSQLSRSVESRQDKRPLLSDLRETGQIEQDADVIMLMYRE  385 (428)
T ss_pred             eChhhcCCCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEEEEecCccccccCCCCCchHhhhhcccccccCCEEEEEeec
Confidence            9999997532 236788899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccCCCCCCeEEEEEeeccCCCcceEEEEEEcCccceec
Q psy2892         411 EVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNN  451 (452)
Q Consensus       411 ~~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~  451 (452)
                      ++|+++.+.++.++|+|+|||+|++|++++.|++.+++|.+
T Consensus       386 ~~y~~~~~~~~~~eliiaKnR~G~~G~v~~~f~~~~~~f~~  426 (428)
T PRK06749        386 DYYDKETMQKEMTEIHVAKHRNGPVGSFKLRFLKEFGRFVE  426 (428)
T ss_pred             ccccccccCCCceEEEEecCCCCCCceEEEEEecCcccccC
Confidence            99976655678899999999999999999999999999986

>PRK08506 replicative DNA helicase; Provisional

Probab=100.00  E-value=9.8e-84  Score=653.75  Aligned_cols=428  Identities=39%  Similarity=0.663  Sum_probs=386.7

Q ss_pred             CCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHHH
Q psy2892          14 VPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSY   93 (452)
Q Consensus        14 ~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~~   93 (452)
                      .+|+++++|++|||+||.+|+.++++...|+|+|||.|.||.||++|.+|+.+|+|+|++||..+|.+.+.++    ..|
T Consensus         2 ~~~~~~eaE~~vLGalL~~~~~~~~v~~~L~~e~Fy~~~h~~If~ai~~l~~~~~~iD~vtv~~~L~~~~~l~----~~y   77 (472)
T PRK08506          2 DELYDLDIERAVLSSILFSPDKFEEIASVLEPKDFYLPAHQDIFEAMLKLHNEDEPIDEEFIRKKLPKDKKID----EEI   77 (472)
T ss_pred             CCCcCHHHHHHHHHHHHcCHHHHHHHHhhCCHHHcCCHHHHHHHHHHHHHHhCCCCCCHHHHHHHHhhcCcch----HHH
Confidence            3689999999999999999999999999999999999999999999999999999999999999998876653    489


Q ss_pred             HHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHHHHHHhhhhhhhhhccCcccHHHH
Q psy2892          94 LNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPL  173 (452)
Q Consensus        94 l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~  173 (452)
                      |.+|+...+ .+|+.+|+++|++++++|+++..+.++.+.+++. ..++.++++++++.+.++...  ....++.++.+.
T Consensus        78 l~~l~~~~~-~~ni~~Ya~iV~e~~~~R~li~~~~~i~~~~~~~-~~~~~~~l~~~~~~l~~i~~~--~~~~~~~~~~~~  153 (472)
T PRK08506         78 LLEILATNP-IDNIEAYVEEIKEKSIKRELLSLANTIPEQAVEE-DQKSSDILDEVERELYSITNG--SNSEDFKDSKEV  153 (472)
T ss_pred             HHHHHhcCc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhhc--ccccCcccHHHH
Confidence            999987665 4999999999999999999999999999987763 368899999999999988765  233467788999


Q ss_pred             HHHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         174 LNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       174 ~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      +.++++.+++....+.  ....|+||||+.||++++||+||+|++|+|+||+|||+|++++|.+++. +|.+|+|||+||
T Consensus       154 ~~~~~~~i~~~~~~~~--~~~~Gi~TG~~~LD~~~~G~~~G~LivIaarpg~GKT~fal~ia~~~~~-~g~~V~~fSlEM  230 (472)
T PRK08506        154 IESTMEHIKKQKRLGN--KDIIGLDTGFVELNKMTKGFNKGDLIIIAARPSMGKTTLCLNMALKALN-QDKGVAFFSLEM  230 (472)
T ss_pred             HHHHHHHHHHHHhcCC--CCCCcccCChHHHHhhcCCCCCCceEEEEcCCCCChHHHHHHHHHHHHh-cCCcEEEEeCcC
Confidence            9999998887643321  3567999999999999999999999999999999999999999999974 789999999999


Q ss_pred             CHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcC
Q psy2892         254 SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDY  333 (452)
Q Consensus       254 ~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~  333 (452)
                      +.+++..|++|..++++..+++.|.+++++|.++..+..++.+.++||++.+.+|+++|++.+++++++++++++|||||
T Consensus       231 s~~ql~~Rlla~~s~v~~~~i~~~~l~~~e~~~~~~a~~~l~~~~l~I~d~~~~ti~~I~~~~r~l~~~~~~~~lvvIDy  310 (472)
T PRK08506        231 PAEQLMLRMLSAKTSIPLQNLRTGDLDDDEWERLSDACDELSKKKLFVYDSGYVNIHQVRAQLRKLKSQHPEIGLAVIDY  310 (472)
T ss_pred             CHHHHHHHHHHHhcCCCHHHHhcCCCCHHHHHHHHHHHHHHHcCCeEEECCCCCCHHHHHHHHHHHHHhCCCCCEEEEcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999988764599999999


Q ss_pred             cchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCccc
Q psy2892         334 LQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVY  413 (452)
Q Consensus       334 l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~  413 (452)
                      ||+|..+....++.++++.+++.||.+|+++|||||+++|+||+.++|.++||.++|||+||+|||+||+|++|||+++|
T Consensus       311 Lql~~~~~~~~~r~~ev~~isr~LK~lAkel~ipVi~lsQLnR~~e~r~~krP~lsDLreSg~IeqdAD~vl~l~R~~~y  390 (472)
T PRK08506        311 LQLMSGSGNFKDRHLQISEISRGLKLLARELDIPIIALSQLNRSLESRADKRPMLSDLRESGAIEQDADIILFVYRDDVY  390 (472)
T ss_pred             hhhccCCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEeecCcchhhccCCCCChHHhhcchhhhhcCCEEEEEeccccc
Confidence            99998654346788999999999999999999999999999999999999999999999999999999999999999988


Q ss_pred             ccCCC--------CC--------------CeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         414 NQNSA--------DK--------------GIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       414 ~~~~~--------~~--------------~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      +.++.        .+              +.++|+|+|||+|++|++.+.|++++++|.++
T Consensus       391 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~eliiaKnR~G~~G~v~l~f~~~~~~f~~~  451 (472)
T PRK08506        391 KEREEKEKEKKAKKEGKEERRIHFQNKSIEEAEIIIGKNRNGPTGTVKLRFQKEFTRFVDK  451 (472)
T ss_pred             ccccccccccccccccccccccccccccccceEEEEecCCCCCCceEEEEEecCCccccCC
Confidence            53210        11              24899999999999999999999999999874

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=100.00  E-value=1.6e-83  Score=649.71  Aligned_cols=419  Identities=43%  Similarity=0.754  Sum_probs=388.2

Q ss_pred             CHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHHHHHHH
Q psy2892          18 SIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSL   97 (452)
Q Consensus        18 ~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~~l~~l   97 (452)
                      ++++|++|||+||.+|+.++++...|+|+|||.|.||.||++|.+|+.+|+|+|++||..+|.+.+.++.+||.+||.+|
T Consensus         1 ~~eaE~avLG~lL~~~~~~~~i~~~L~~edFy~~~h~~If~ai~~L~~~~~~iD~~tv~~~L~~~~~~~~igg~~yL~~L   80 (421)
T TIGR03600         1 SIEAEQAVLGGLLLDNDFIERVMAILKPEHFYSQDHRIIFEAMLDMFAENRPVDPLTLADKLEAEGEAEKVGGLAYLAEI   80 (421)
T ss_pred             ChHHHHHHHHHHHcCHHHHHHHHhhCCHHHCCCHHHHHHHHHHHHHHhcCCCCCHHHHHHHHhhcCchhhcCCHHHHHHH
Confidence            47999999999999999999999999999999999999999999999999999999999999998888999999999999


Q ss_pred             HhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHHHHHHhhh--hhhhhhccCcccHHHHHH
Q psy2892          98 AQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIA--EKEICINKGFQQIQPLLN  175 (452)
Q Consensus        98 ~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~--~~~~~~~~~~~~~~~~~~  175 (452)
                      +..+|+++|+.+|+++|++.+.+|+++..+.++.+.+++....++.++++++++.+.++.  ..  ....++.++.+.+.
T Consensus        81 ~~~~~s~~ni~~Ya~~v~e~~~~R~l~~~~~~i~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~--~~~~~~~~~~~~~~  158 (421)
T TIGR03600        81 SNNTPSAANISSYARIVREKAKERKLIAACQRIIDLACSDGGQTAEQKVEEAQAALLALTGMSD--GQERGFVTFGEVLE  158 (421)
T ss_pred             HHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhhhhhc--cCcCCchhHHHHHH
Confidence            999999999999999999999999999999999998876544489999999999999887  33  23346678899999


Q ss_pred             HHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH
Q psy2892         176 RVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG  255 (452)
Q Consensus       176 ~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~  255 (452)
                      ++++.+++...+.   +...|+||||+.||++++||++|++++|+|+||+|||+|++++|.++|.++|.+|+|||+||+.
T Consensus       159 ~~~~~~~~~~~~~---~~~~gi~tG~~~LD~~~~G~~~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fSlEm~~  235 (421)
T TIGR03600       159 DVVRDLDKRFNPK---GELTGLSTGLPKLDRLTNGLVKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFSLEMSA  235 (421)
T ss_pred             HHHHHHHHHhcCC---CCCcceeCCChhHHHHhcCCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCCCH
Confidence            9999998876554   4577999999999999999999999999999999999999999999987679999999999999


Q ss_pred             HHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcc
Q psy2892         256 IQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQ  335 (452)
Q Consensus       256 ~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~  335 (452)
                      +++..|+++..+|++..+++.|.+++++|.++..+..++.+.+++|++.+.+++++|++.+++++.+++++++|||||||
T Consensus       236 ~~l~~Rl~~~~~~v~~~~~~~~~l~~~~~~~~~~~~~~l~~~~l~i~d~~~~t~~~i~~~~r~~~~~~~~~~lvvIDyLq  315 (421)
T TIGR03600       236 EQLGERLLASKSGINTGNIRTGRFNDSDFNRLLNAVDRLSEKDLYIDDTGGLTVAQIRSIARRIKRKKGGLDLIVVDYIQ  315 (421)
T ss_pred             HHHHHHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcCCCCEEEEeccc
Confidence            99999999999999999999999999999999999999999999999999999999999999998887449999999999


Q ss_pred             hhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCccccc
Q psy2892         336 LMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQ  415 (452)
Q Consensus       336 ~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~  415 (452)
                      +|... ...+++++++.+++.||.+|+++|||||+++|+||+.++|.+++|.++||||||+|+|+||+|++|||+++|+.
T Consensus       316 l~~~~-~~~~~~~~~~~i~~~Lk~lAke~~i~Vi~lsQlnr~~~~r~~krp~lsdlr~Sg~Ieq~AD~v~~l~R~~~~~~  394 (421)
T TIGR03600       316 LMAPT-RGRDRNEELGGISRGLKALAKELDVPVVLLAQLNRGSEKRTDKRPIMSDLRDSGAIEQDADVIGLIHREGYYDA  394 (421)
T ss_pred             ccCCC-CCCCHHHHHHHHHHHHHHHHHHhCCcEEEecccCcchhhcCCCCCChHHHhhcCCccccCcEEEEeccccccCC
Confidence            99864 34678889999999999999999999999999999999999999999999999999999999999999999876


Q ss_pred             CCCCCCeEEEEEeeccCCCcceEEEEE
Q psy2892         416 NSADKGIAEIIVSKQRNGPIGNIRLTF  442 (452)
Q Consensus       416 ~~~~~~~~~l~i~KnR~G~~g~~~l~f  442 (452)
                      +++.++.++|+|+|||+|++|++++.|
T Consensus       395 ~~~~~~~~el~v~K~R~G~~g~~~l~~  421 (421)
T TIGR03600       395 REPPAGVAELILAKNRHGPTGTVELLF  421 (421)
T ss_pred             ccCCCCceEEEEECCCCCCCceEEecC
Confidence            555558899999999999999999876

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.

>TIGR00665 DnaB replicative DNA helicase

Probab=100.00  E-value=5e-83  Score=649.44  Aligned_cols=431  Identities=56%  Similarity=0.940  Sum_probs=400.2

Q ss_pred             CCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHHHH
Q psy2892          15 PPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYL   94 (452)
Q Consensus        15 ~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~~l   94 (452)
                      +|+++++|++|||+||.+|+.++++...|+|+||++|.|+.||++|.+|+.+|.|+|+++|..+|.+.+.++.+||.+||
T Consensus         2 ~p~~~eaE~~vLgalL~~~~~~~~v~~~L~~edF~~~~h~~If~ai~~l~~~g~~iD~~tl~~~l~~~~~~~~~~g~~yL   81 (434)
T TIGR00665         2 PPHNIEAEQAVLGAILLDNEAIDDVAEILKPEDFYRPAHQLIFQAILDLYEKGEPIDLVTVKEELEKDGKLEEVGGLAYL   81 (434)
T ss_pred             CCCCHHHHHHHHHHHHCCHHHHHHHHhhCCHHHCCCHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhcCchhhcCcHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999888888999999


Q ss_pred             HHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHHHHHHhhhhhhhhhccCcccHHHHH
Q psy2892          95 NSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLL  174 (452)
Q Consensus        95 ~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~  174 (452)
                      .+|+..+|++.|+.+|++.|++.+.+|++...+.++.+.++++. .++.++++++++.+.++...  ....++.++.+++
T Consensus        82 ~~l~~~~~~~~n~~~ya~~v~e~~~~R~l~~~~~~~~~~a~~~~-~~~~e~l~~~~~~l~~i~~~--~~~~~~~~~~~~~  158 (434)
T TIGR00665        82 AELADNVPSAANIEYYAEIVKEKAILRRLIEAGTEIVELAYDPE-GDVEELLDEAEQKIFEIAES--RTSGGFKSIKEIL  158 (434)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHhhc--cCCCCcccHHHHH
Confidence            99999999999999999999999999999999999998887643 47899999999999998765  2344677899999


Q ss_pred             HHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         175 NRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       175 ~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      .++++.+++...++   +...|+||||+.||++++||+||++++|+|+||+|||+|+++++.++|.+.|.+|+|||+||+
T Consensus       159 ~~~~~~~~~~~~~~---~~~~gi~tG~~~LD~~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm~  235 (434)
T TIGR00665       159 KDTVEEIEELYERG---GGITGVPTGFTDLDKLTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMS  235 (434)
T ss_pred             HHHHHHHHHHHhCC---CCCCcccCCchhhHhhcCCCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcCC
Confidence            99999998876654   457799999999999999999999999999999999999999999998767899999999999


Q ss_pred             HHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCc
Q psy2892         255 GIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYL  334 (452)
Q Consensus       255 ~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l  334 (452)
                      .+++..|+++..++++..+++.|.+++++|.++..+..++.+.++||++.+.+++++|++.++++++++| +++||||||
T Consensus       236 ~~~i~~R~~~~~~~v~~~~~~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~~~~~~i~~~i~~~~~~~~-~~~vvID~l  314 (434)
T TIGR00665       236 AEQLAMRMLSSESRVDSQKLRTGKLSDEDWEKLTSAAGKLSEAPLYIDDTPGLTITELRAKARRLKREHG-LGLIVIDYL  314 (434)
T ss_pred             HHHHHHHHHHHhcCCCHHHhccCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcC-CCEEEEcch
Confidence            9999999999999999999999999999999999999999999999999999999999999999999987 999999999


Q ss_pred             chhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccc
Q psy2892         335 QLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYN  414 (452)
Q Consensus       335 ~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~  414 (452)
                      ++|.......++..+++.+++.||.+|+++|||||+++|+||+.++|.+++|.++||||||.|+|+||+|++|+|+++|+
T Consensus       315 ~~i~~~~~~~~r~~~i~~i~~~Lk~lA~e~~i~vi~lsqlnr~~~~r~~~~p~lsdlr~Sg~ieq~aD~vi~l~r~~~~~  394 (434)
T TIGR00665       315 QLMSGSGRSENRQQEVSEISRSLKALAKELNVPVIALSQLSRSVEQREDKRPQLSDLRESGSIEQDADIVMFLYRDEYYN  394 (434)
T ss_pred             HhcCCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEEEeccCcchhccCCCCCChHHHhhccchhhcCCEEEEeccccccC
Confidence            99975443457888899999999999999999999999999999889999999999999999999999999999999887


Q ss_pred             cCCCCCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         415 QNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       415 ~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      ++++.++.++|+|+|||+|++|++.+.|++.++||.++
T Consensus       395 ~~~~~~~~~~l~v~KnR~G~~g~~~l~~~~~~~~f~~~  432 (434)
T TIGR00665       395 PDSEDKGIAEIIIAKQRNGPTGTVKLAFQGEYTRFENL  432 (434)
T ss_pred             CCcCCCCceEEEEecCCCCCCCeEEEEEecCCCcccCC
Confidence            65555688999999999999999999999999999874

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.

>PHA02542 41 41 helicase; Provisional

Probab=100.00  E-value=7.7e-76  Score=591.60  Aligned_cols=405  Identities=20%  Similarity=0.241  Sum_probs=353.0

Q ss_pred             HHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCC-CCHHHHHHHHhcCCCccc---ccCHHHHHH
Q psy2892          21 SEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHP-ADVITVFDSLSNTGNAEE---IGGLSYLNS   96 (452)
Q Consensus        21 aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~-id~~tv~~~l~~~~~~~~---~gg~~~l~~   96 (452)
                      +|++|||+||.+|+.++++.+.|+|+|||.|.||.||++|.+|+.+++| +|+.+|..+|++.+ ++.   +||.+||.+
T Consensus         1 ~E~~vLg~ll~~~~~~~~v~~~L~~e~Fy~~~h~~If~ai~~l~~~~~~~~~~~tl~~~L~~~~-l~~~~~~gg~~yl~~   79 (473)
T PHA02542          1 IEETILSNLIFNEDYFRKVWPYLKAEYFESGPEKVIFKLIKKHVNEYNAIPTIEALSIALENRS-LSEVTFDGAKDLLSS   79 (473)
T ss_pred             CHHHHHHHHHcCHHHHHHHHhhcCHHhCCCHHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHhcC-CccccccchHHHHHH
Confidence            4999999999999999999999999999999999999999999999998 78888999999888 665   799999999


Q ss_pred             HHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHH---------HHHHHHHHHHhhhhhhhhhccCc
Q psy2892          97 LAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQ---------ILDEAESKIFSIAEKEICINKGF  167 (452)
Q Consensus        97 l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~---------~l~~~~~~l~~l~~~~~~~~~~~  167 (452)
                      |++.+|   |+.+|+++|++++.+|+++..+.++.+.+++.. .++++         .++++.+.+..+...        
T Consensus        80 L~~~~~---n~~~ya~~v~~~~~~R~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~i~~~~~~~~~~~~~--------  147 (473)
T PHA02542         80 LSDNPE---DLDWLVKETEKWCQDRAMYNALSKAIEIQDNAD-KPLEKRNKKLPDVGAIPDIMQEALAISFD--------  147 (473)
T ss_pred             HHhcCC---CHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC-CChhHhhhhccchhhHHHHHHHHHHHhhh--------
Confidence            998876   999999999999999999999999998877643 23332         344444333322211        


Q ss_pred             ccHHHHHHHHHHHHHHHHhCCCCCCCccccccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcE
Q psy2892         168 QQIQPLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPV  246 (452)
Q Consensus       168 ~~~~~~~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~v  246 (452)
                         .+.+.++++.++++.....  ....|+||||+.||+++ ||+++|++++|+|+||+|||+|++++|.+++ +.|.+|
T Consensus       148 ---~~~~~~~~~~ie~~~~~~~--~~~~gi~TG~~~LD~~t~gGl~~G~LiiIaarPgmGKTtfalniA~~~a-~~g~~V  221 (473)
T PHA02542        148 ---SSVGHDYFEDYEERYDSYQ--SKANKIPFKLEILNKITKGGAERKTLNVLLAGVNVGKSLGLCSLAADYL-QQGYNV  221 (473)
T ss_pred             ---HHHHHHHHHHHHHHHhhcc--CCCCccCCCcHHHHHhccCCCCCCcEEEEEcCCCccHHHHHHHHHHHHH-hcCCcE
Confidence               4456778888888653211  24679999999999998 8999999999999999999999999999998 579999


Q ss_pred             EEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEE--cCCCCCHHHHHHHHHHHHHHcC
Q psy2892         247 AIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYID--ETPSLNVIELRANSRRLSRQCG  324 (452)
Q Consensus       247 l~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~--~~~~~t~~~i~~~i~~~~~~~~  324 (452)
                      +|||+||+.+++..|+++..++++..++.+  +++++|.++..+...+...+++|.  +++.+++.+|++.++++++++|
T Consensus       222 l~fSLEM~~~ql~~Rl~a~~~~i~~~~l~~--l~~~~~~~~~~~~~~~~~~~l~I~~~d~~~lt~~~ir~~~rrlk~~~g  299 (473)
T PHA02542        222 LYISMEMAEEVIAKRIDANLLDVSLDDIDD--LSKAEYKAKMEKLRSKTQGKLIIKQYPTGGAHAGHFRALLNELKLKKN  299 (473)
T ss_pred             EEEeccCCHHHHHHHHHHHHcCCCHHHHhh--cCHHHHHHHHHHHHHHhCCCceeecCCCCCCCHHHHHHHHHHHHHhcC
Confidence            999999999999999999999999998875  889999999988888888888765  5788999999999999987664


Q ss_pred             -CccEEEEcCcchhccCC---CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhh
Q psy2892         325 -KIGVIIIDYLQLMSANS---RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQD  400 (452)
Q Consensus       325 -~~~~vvID~l~~i~~~~---~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~  400 (452)
                       ++++|||||||+|..+.   ...++.++++.+++.||.+|+++|||||+++|+||+.++|.+  |.++|||+||+|||+
T Consensus       300 ~~~dlVvIDYLqL~~~~~~~~~~~nr~~ei~~Isr~LK~lAkel~vpVi~lsQLnR~~e~r~d--P~lsDLreSG~IEqd  377 (473)
T PHA02542        300 FKPDVIIVDYLGICASSRLRVSSENSYTYVKAIAEELRGLAVEHDVVVWTAAQTTRSGWDSSD--VDMSDTAESAGLPAT  377 (473)
T ss_pred             CCCCEEEEechhhccCCcccCCCCChHHHHHHHHHHHHHHHHHhCCeEEEEEeeCccccccCC--CcchhcccccchHhh
Confidence             48999999999997541   246888999999999999999999999999999999988865  999999999999999


Q ss_pred             hceeEEEecCcccccCCCCCCeEEEEEeeccCCCcc---eEEEEEEcCccceecC
Q psy2892         401 ADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIG---NIRLTFSGQYTKFNNF  452 (452)
Q Consensus       401 aD~vl~l~r~~~~~~~~~~~~~~~l~i~KnR~G~~g---~~~l~f~~~~~~f~~~  452 (452)
                      ||+|++|||+++|.    +.+.++|+|+|||+|++|   ++++.|++++++|.++
T Consensus       378 AD~vl~l~r~~~~~----~~~~~eliv~KnR~G~~g~~g~v~l~f~~~~~~F~~~  428 (473)
T PHA02542        378 ADFMLAVIETEELA----QMGQQLVKQLKSRYGDKNKFNKFLMGVDKGNQRWYDV  428 (473)
T ss_pred             cCEEEEEecCcccc----cCCeEEEEEecCCCCCCCCceEEEEEEECCcCccccc
Confidence            99999999998773    347899999999999977   7999999999999874

>PRK07773 replicative DNA helicase; Validated

Probab=100.00  E-value=5.3e-70  Score=591.75  Aligned_cols=386  Identities=43%  Similarity=0.770  Sum_probs=360.0

Q ss_pred             CCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHH
Q psy2892          13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLS   92 (452)
Q Consensus        13 ~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~   92 (452)
                      +.+|+++++|++|||+||.+|+.+.++...|+|+|||.|.||.||++|.+|+.+|+|+|++||..+|++.+.++.+||.+
T Consensus        22 ~~~p~~~eaEqavLG~lL~~~~~i~~v~~~L~~edFy~~~H~~IF~ai~~L~~~g~piD~vtv~~~L~~~~~l~~iGG~~  101 (886)
T PRK07773         22 RQPPQDLAAEQSVLGGMLLSKEAIARVLERLRPGAFYRPAHQNIYDAILDLYGRGEPADLVTVAAELDRRGLLERIGGAP  101 (886)
T ss_pred             cCCCCCHHHHHHHHHHHHcCHHHHHHHHhhCCHHHCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHhcCchhhcCCHH
Confidence            45799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHHHHHHhhhhhhhhhccCcccHHH
Q psy2892          93 YLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQP  172 (452)
Q Consensus        93 ~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~  172 (452)
                      ||.+|+..+|+++|+.+|+++|++.+.+|+++..+.++.+.++++ ..++.++++++++.+.++...  ....++.++.+
T Consensus       102 yL~~L~~~~~s~~ni~~Ya~iV~e~s~~R~li~~~~~i~~~a~~~-~~~~~~~l~~a~~~l~~i~~~--~~~~~~~~~~~  178 (886)
T PRK07773        102 YLHTLISTVPTAANADYYARIVAEKALLRRLIEAGTRIVQYGYAE-GADVAEVVDRAQAEIYDVTDR--RLSEDFVALED  178 (886)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC-CCCHHHHHHHHHHHHHHHhhc--cCcCCceeHHH
Confidence            999999999999999999999999999999999999999988764 368999999999999998776  23446778999


Q ss_pred             HHHHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         173 LLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       173 ~~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .+.++++.+++..+++   +...|+||||+.||++++||++|++++|+|+||+|||+|++++|.++|.+.|.+|+|||+|
T Consensus       179 ~~~~~~~~i~~~~~~~---~~~~Gi~TG~~~LD~l~~Gl~~G~livIagrPg~GKT~fal~ia~~~a~~~~~~V~~fSlE  255 (886)
T PRK07773        179 LLQPTFDEIDAIASSG---GLARGVPTGFTELDAMTNGLHPGQLIIVAARPSMGKTTFGLDFARNCAIRHRLAVAIFSLE  255 (886)
T ss_pred             HHHHHHHHHHHHHhcC---CCCCCccCChhHhccccCCCCCCcEEEEEeCCCCCcHHHHHHHHHHHHHhcCCeEEEEecC
Confidence            9999999998876554   4678999999999999999999999999999999999999999999997778999999999


Q ss_pred             CCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEc
Q psy2892         253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIID  332 (452)
Q Consensus       253 ~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID  332 (452)
                      |+.+++..|+++..++++..++++|.+++++|.++..++..+.+.+++|++.+.+++++|++.+++++++++ +++||||
T Consensus       256 ms~~ql~~R~~s~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~i~i~d~~~~~i~~i~~~~r~~~~~~~-~~lvvID  334 (886)
T PRK07773        256 MSKEQLVMRLLSAEAKIKLSDMRSGRMSDDDWTRLARAMGEISEAPIFIDDTPNLTVMEIRAKARRLRQEAN-LGLIVVD  334 (886)
T ss_pred             CCHHHHHHHHHHHhcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHhcC-CCEEEEc
Confidence            999999999999999999999999999999999999999999999999999999999999999999999886 9999999


Q ss_pred             CcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeE
Q psy2892         333 YLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVIL  405 (452)
Q Consensus       333 ~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl  405 (452)
                      |||+|.......++.++++++++.||.+|+++|||||+++|+||+.++|.++||.++|||+||.|++++-+++
T Consensus       335 yLql~~~~~~~~~r~~ei~~isr~LK~lAkel~vpvi~lsQLnR~~e~r~~krP~lsDlres~~~~~d~~V~~  407 (886)
T PRK07773        335 YLQLMTSGKKYENRQQEVSEISRHLKLLAKELEVPVVALSQLSRGVEQRTDKRPMLSDLRESGCLTGDTLILR  407 (886)
T ss_pred             chhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHCCcEEEecccCcchhccCCCCCCHHHHhhcCcccCcceEEe
Confidence            9999986544568889999999999999999999999999999999999999999999999999998765543

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=100.00  E-value=8.2e-57  Score=426.71  Aligned_cols=257  Identities=49%  Similarity=0.833  Sum_probs=232.4

Q ss_pred             ccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccc
Q psy2892         196 GISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLR  275 (452)
Q Consensus       196 ~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~  275 (452)
                      |+||||+.||+++||+.||+|++|+|+||+|||+|++|+|.+++...|.+|+|||+||+.+++..|++|..++++..+++
T Consensus         1 Gi~TG~~~LD~~lgG~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~~~~l~~R~la~~s~v~~~~i~   80 (259)
T PF03796_consen    1 GIPTGFPALDRLLGGLRPGELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMSEEELAARLLARLSGVPYNKIR   80 (259)
T ss_dssp             SB-SSTHHHHHHHSSB-TT-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS-HHHHHHHHHHHHHTSTHHHHH
T ss_pred             CCCCChHHHHHHhcCCCcCcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCCHHHHHHHHHHHhhcchhhhhh
Confidence            69999999999999999999999999999999999999999999765799999999999999999999999999999999


Q ss_pred             cCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHH
Q psy2892         276 TGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISR  355 (452)
Q Consensus       276 ~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~  355 (452)
                      +|.+++++|+++.++..++.+.++++.+.+..++++|.+.+++++.+..++++|||||||+|.......++++++..+++
T Consensus        81 ~g~l~~~e~~~~~~~~~~l~~~~l~i~~~~~~~~~~i~~~i~~~~~~~~~~~~v~IDyl~ll~~~~~~~~~~~~~~~i~~  160 (259)
T PF03796_consen   81 SGDLSDEEFERLQAAAEKLSDLPLYIEDTPSLTIDDIESKIRRLKREGKKVDVVFIDYLQLLKSEDSSDNRRQEIGEISR  160 (259)
T ss_dssp             CCGCHHHHHHHHHHHHHHHHTSEEEEEESSS-BHHHHHHHHHHHHHHSTTEEEEEEEEGGGSBTSCSSSCCHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHHHHHhhCcEEEECCCCCCHHHHHHHHHHHHhhccCCCEEEechHHHhcCCCCCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999988334999999999999986556778899999999


Q ss_pred             HHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeeccCCCc
Q psy2892         356 NLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPI  435 (452)
Q Consensus       356 ~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~KnR~G~~  435 (452)
                      .||.+|+++|||||+++|+||+.+++.+++|+++|+++|++|||+||+|++|+|++.+.++.+.++.++|+|+|||+|++
T Consensus       161 ~Lk~lA~~~~i~vi~~sQlnr~~~~~~~~~p~l~dl~~sg~Ie~~AD~vl~l~r~~~~~~~~~~~~~~~l~v~KnR~G~~  240 (259)
T PF03796_consen  161 ELKALAKELNIPVIALSQLNREAEDREDKRPSLSDLRESGAIEQDADVVLFLHRDEKYDEDRDDKGEAELIVAKNRNGPT  240 (259)
T ss_dssp             HHHHHHHHHTSEEEEEEEBSGGGGGSSSCS--HHHHCSTSSHHHH-SEEEEEEEHCHCHCCSSCTTEEEEEEEEESSS--
T ss_pred             HHHHHHHHcCCeEEEccccChhhhcccccccchhhhhhhHHHHHHHhhhhhhccchhhccccCCCCeEEEEEEecCCCCC
Confidence            99999999999999999999999888899999999999999999999999999999887666667799999999999999


Q ss_pred             ceEEEEEEcCccceecC
Q psy2892         436 GNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       436 g~~~l~f~~~~~~f~~~  452 (452)
                      |.+.+.|+++++||+|+
T Consensus       241 g~v~~~f~~~~~~f~~~  257 (259)
T PF03796_consen  241 GTVPLRFNPETSRFTDL  257 (259)
T ss_dssp             EEEEEEEETTTTEEEE-
T ss_pred             ceEEEEEECCCCeEeec
Confidence            99999999999999985

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. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=100.00  E-value=4e-45  Score=343.74  Aligned_cols=241  Identities=57%  Similarity=0.941  Sum_probs=221.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcc
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSD  282 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~  282 (452)
                      +||++++|+++|++++|+|+||+|||+|++|++.+++.+.|.+|+|||+||+++++..|+++..++++...+..+.++.+
T Consensus         2 ~LD~~~~Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~   81 (242)
T cd00984           2 DLDNLTGGLQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSKEQLLQRLLASESGISLSKLRTGSLSDE   81 (242)
T ss_pred             chhhhhcCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCHHHHHHHHHHHhcCCCHHHHhcCCCCHH
Confidence            58999889999999999999999999999999999987559999999999999999999999999999999998988888


Q ss_pred             hHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHH
Q psy2892         283 DWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAK  362 (452)
Q Consensus       283 ~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~  362 (452)
                      ++.++.++...+...++++.+.+..++++|.+.++++..+++ +++|||||++.+.......++...+..+++.|+.+|+
T Consensus        82 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~i~~~~~~~~-~~~vvID~l~~l~~~~~~~~~~~~~~~~~~~L~~la~  160 (242)
T cd00984          82 DWERLAEAIGELKELPIYIDDSSSLTVSDIRSRARRLKKEHG-LGLIVIDYLQLMSGSKKKGNRQQEVAEISRSLKLLAK  160 (242)
T ss_pred             HHHHHHHHHHHHhcCCEEEeCCCCCCHHHHHHHHHHHHHhcC-CCEEEEcCchhcCCCCCCCCHHHHHHHHHHHHHHHHH
Confidence            888888888888888999998888999999999999988885 9999999999987654345777889999999999999


Q ss_pred             HhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeeccCCCcceEEEEE
Q psy2892         363 EINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTF  442 (452)
Q Consensus       363 ~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f  442 (452)
                      ++||+||+++|++|....+..++|.++|++||+.|+|.||.||.|+|++.++.++..++..+|++.|||+|++|+++|.|
T Consensus       161 ~~~~~ii~~~q~~r~~~~~~~~~~~~~~~~gS~~i~~~aD~vi~l~~~~~~~~~~~~~~~~~l~v~KnR~G~~g~~~l~~  240 (242)
T cd00984         161 ELNVPVIALSQLSRGVESRADKRPMLSDLRESGSIEQDADVVMFLYRDEYYNKESESKGIAEIIVAKNRNGPTGTVELRF  240 (242)
T ss_pred             HhCCeEEEecccChhhhccCCCCCCHHHHhhhcccccCCCEEEEEecccccccccCCCCceEEEEECCCCCCCeeEEEEe
Confidence            99999999999999877777889999999999999999999999999987655555678899999999999999999999


Q ss_pred             Ec
Q psy2892         443 SG  444 (452)
Q Consensus       443 ~~  444 (452)
                      +|
T Consensus       241 ~~  242 (242)
T cd00984         241 DG  242 (242)
T ss_pred             eC
Confidence            86

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.

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=100.00  E-value=1.9e-39  Score=310.25  Aligned_cols=253  Identities=23%  Similarity=0.309  Sum_probs=208.6

Q ss_pred             ccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccc
Q psy2892         194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHK  273 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~  273 (452)
                      ..++||||+.||+++||+++|++++|+|+||+|||+|+++++.+++.+.|.+|+|||+||+.+++..|+.+..++++...
T Consensus        10 ~~~~~tg~~~Ld~~~gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~~~~~~~~r~~~~~~~~~~~~   89 (271)
T cd01122          10 NEEVWWPFPVLNKLTKGLRKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEEPVVRTARRLLGQYAGKRLHL   89 (271)
T ss_pred             ccCCCCCcceeeeeeEEEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEcccCHHHHHHHHHHHHhCCCccc
Confidence            34899999999999999999999999999999999999999999986558999999999999999999999888887754


Q ss_pred             cccCCCCcchHHHHHHHHHHHhC-CCeEEEcCC-CCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC-CCCCHHHHH
Q psy2892         274 LRTGRLSSDDWPRINDSIKKINK-SQLYIDETP-SLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS-RGENRATEI  350 (452)
Q Consensus       274 i~~g~l~~~~~~~~~~a~~~l~~-~~l~i~~~~-~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~-~~~~~~~~~  350 (452)
                      ...  ....+++.+..+.+.+.+ ..+++.+.. ..+++++.+.++++..+++ +++|||||++.+.... ...++...+
T Consensus        90 ~~~--~~~~~~~~~~~~~~~~~~~~~l~i~d~~~~~~~~~i~~~i~~~~~~~~-~~~vvID~l~~l~~~~~~~~~~~~~~  166 (271)
T cd01122          90 PDT--VFIYTLEEFDAAFDEFEGTGRLFMYDSFGEYSMDSVLEKVRYMAVSHG-IQHIIIDNLSIMVSDERASGDERKAL  166 (271)
T ss_pred             CCc--cccccHHHHHHHHHHhcCCCcEEEEcCCCccCHHHHHHHHHHHHhcCC-ceEEEECCHHHHhccCCCchhHHHHH
Confidence            432  112233455555666654 356666544 4589999999999988886 9999999999997643 234556668


Q ss_pred             HHHHHHHHHHHHHhCCcEEEEecCCcchhhcC---CCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEE
Q psy2892         351 SEISRNLKGLAKEINCPILALSQLNRSLEQRQ---NKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIV  427 (452)
Q Consensus       351 ~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~---~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i  427 (452)
                      ..+++.|+.+|+++||+|++++|++|....++   +++|.++|++||+.|++.||.||+|+|++.++  ...++.+.|.+
T Consensus       167 ~~~~~~L~~la~~~~vtvll~sq~~~~~~~~~~~~~~~~~~~d~~gs~~i~~~aD~vi~l~r~~~~e--~~~~~~~~i~v  244 (271)
T cd01122         167 DEIMTKLRGFATEHGIHITLVSHLRRPDGDKTHEEGGEVSLSDFRGSAAIGQLADNVIALERNQQAE--LDERNTTYLRI  244 (271)
T ss_pred             HHHHHHHHHHHHHhCCEEEEEecccCccCCCccccCCCceEEeccCcHhHhhhccEEEEEEecCccc--cccCCcEEEEE
Confidence            89999999999999999999999999654432   47899999999999999999999999987542  12356789999


Q ss_pred             eeccCC-Ccce-EEEEEEcCccceec
Q psy2892         428 SKQRNG-PIGN-IRLTFSGQYTKFNN  451 (452)
Q Consensus       428 ~KnR~G-~~g~-~~l~f~~~~~~f~~  451 (452)
                      .|||+| .+|. +++.|+++|+||..
T Consensus       245 ~K~R~~~~~g~~~~~~~~~~t~~~~~  270 (271)
T cd01122         245 LKNRFTGGTGVAGPLEYDKETGRLSP  270 (271)
T ss_pred             EeeccCCCccceeeEEEECCCceecC
Confidence            999984 8887 69999999999964

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK05973 replicative DNA helicase; Provisional

Probab=99.96  E-value=1.1e-28  Score=226.44  Aligned_cols=170  Identities=25%  Similarity=0.380  Sum_probs=136.0

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcch
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDD  283 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~  283 (452)
                      .|+++|||++|++++|+|+||+|||+|++|++.+++. +|.+|+|||+||+++++..|+.+.  |++...+.        
T Consensus        54 ~~~l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~-~Ge~vlyfSlEes~~~i~~R~~s~--g~d~~~~~--------  122 (237)
T PRK05973         54 AEELFSQLKPGDLVLLGARPGHGKTLLGLELAVEAMK-SGRTGVFFTLEYTEQDVRDRLRAL--GADRAQFA--------  122 (237)
T ss_pred             HHHhcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHHh-cCCeEEEEEEeCCHHHHHHHHHHc--CCChHHhc--------
Confidence            6788899999999999999999999999999999985 699999999999999999999864  54432211        


Q ss_pred             HHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHH
Q psy2892         284 WPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKE  363 (452)
Q Consensus       284 ~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~  363 (452)
                                   ..+.++....++.+.+.   +++..+++ +++||||||+.+....    +..++..+++.|+.+|++
T Consensus       123 -------------~~~~~d~~d~~~~~~ii---~~l~~~~~-~~lVVIDsLq~l~~~~----~~~el~~~~~~Lk~~Ak~  181 (237)
T PRK05973        123 -------------DLFEFDTSDAICADYII---ARLASAPR-GTLVVIDYLQLLDQRR----EKPDLSVQVRALKSFARE  181 (237)
T ss_pred             -------------cceEeecCCCCCHHHHH---HHHHHhhC-CCEEEEEcHHHHhhcc----cchhHHHHHHHHHHHHHh
Confidence                         02334434445665543   44555565 8999999999997532    122467788999999999


Q ss_pred             hCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         364 INCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       364 ~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      +|+|||+++|++|..+.|.+++|.++|+|.++    .+|..+|.++
T Consensus       182 ~gitvIl~sQl~r~~e~~~~~~P~laDlR~~~----~~d~~~f~~~  223 (237)
T PRK05973        182 RGLIIVFISQIDRSFDPSAKPLPDIRDVRLPN----PLDLSLFDKA  223 (237)
T ss_pred             CCCeEEEEecCccccccCCCCCCChhhcCCCC----hhhHHHhhhh
Confidence            99999999999999999999999999999766    5677776554

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=99.95  E-value=1.1e-26  Score=221.45  Aligned_cols=192  Identities=24%  Similarity=0.375  Sum_probs=160.5

Q ss_pred             CccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCc
Q psy2892         193 DVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQ  271 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~  271 (452)
                      ...+++||+.+||++ .||+-||.+++|+|.||.||||+++|++..+|. ++ +|||+|.|+|..|+..|...  .|++.
T Consensus        71 ~~~Ri~tg~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~-~~-~vLYVsGEES~~QiklRA~R--L~~~~  146 (456)
T COG1066          71 EEPRISTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAK-RG-KVLYVSGEESLQQIKLRADR--LGLPT  146 (456)
T ss_pred             ecccccCChHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHh-cC-cEEEEeCCcCHHHHHHHHHH--hCCCc
Confidence            445899999999998 678999999999999999999999999999985 45 99999999999999988752  22221


Q ss_pred             cccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC--CCCCHHHH
Q psy2892         272 HKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS--RGENRATE  349 (452)
Q Consensus       272 ~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~--~~~~~~~~  349 (452)
                                               .++++..  ..++++|.+.+...     +|+++|||++|.+..+.  ..+....+
T Consensus       147 -------------------------~~l~l~a--Et~~e~I~~~l~~~-----~p~lvVIDSIQT~~s~~~~SapGsVsQ  194 (456)
T COG1066         147 -------------------------NNLYLLA--ETNLEDIIAELEQE-----KPDLVVIDSIQTLYSEEITSAPGSVSQ  194 (456)
T ss_pred             -------------------------cceEEeh--hcCHHHHHHHHHhc-----CCCEEEEeccceeecccccCCCCcHHH
Confidence                                     2456543  45678888776652     69999999999998765  45677889


Q ss_pred             HHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEee
Q psy2892         350 ISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSK  429 (452)
Q Consensus       350 ~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~K  429 (452)
                      +++.+..|.++||+.|++++++.|++|++           .+.|..-+|+..|+|+.+..+..       ..++.|.-.|
T Consensus       195 VRe~t~~L~~~AK~~~i~~fiVGHVTKeG-----------~IAGPrvLEHmVDtVlyFEGd~~-------~~~RiLR~vK  256 (456)
T COG1066         195 VREVAAELMRLAKTKNIAIFIVGHVTKEG-----------AIAGPRVLEHMVDTVLYFEGDRH-------SRYRILRSVK  256 (456)
T ss_pred             HHHHHHHHHHHHHHcCCeEEEEEEEcccc-----------cccCchheeeeeeEEEEEeccCC-------Cceeeeehhc
Confidence            99999999999999999999999999975           36677789999999999977532       3478899999


Q ss_pred             ccCCCcceE
Q psy2892         430 QRNGPIGNI  438 (452)
Q Consensus       430 nR~G~~g~~  438 (452)
                      ||+|+++++
T Consensus       257 NRFG~t~Ei  265 (456)
T COG1066         257 NRFGATNEL  265 (456)
T ss_pred             ccCCcccce
Confidence            999998875

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=99.93  E-value=1.9e-24  Score=212.45  Aligned_cols=192  Identities=24%  Similarity=0.375  Sum_probs=151.0

Q ss_pred             ccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCcc
Q psy2892         194 VTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQH  272 (452)
Q Consensus       194 ~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~  272 (452)
                      ..+++||+++||++ .||+.+|++++|+|+||+|||+|++|++.+.+. .+.+|+||+.|++..++..|...  .|++. 
T Consensus        61 ~~ri~TGi~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~-~g~~VlYvs~EEs~~qi~~Ra~r--lg~~~-  136 (372)
T cd01121          61 EERIPTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAK-RGGKVLYVSGEESPEQIKLRADR--LGIST-  136 (372)
T ss_pred             cCccccCCHHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHh-cCCeEEEEECCcCHHHHHHHHHH--cCCCc-
Confidence            44799999999998 578999999999999999999999999999975 57899999999999998877542  23221 


Q ss_pred             ccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC--CCCCHHHHH
Q psy2892         273 KLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS--RGENRATEI  350 (452)
Q Consensus       273 ~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~--~~~~~~~~~  350 (452)
                                              .++++..  ..++++|.+.++    .+ ++++||||++|.+....  ...+...++
T Consensus       137 ------------------------~~l~l~~--e~~le~I~~~i~----~~-~~~lVVIDSIq~l~~~~~~~~~g~~~qv  185 (372)
T cd01121         137 ------------------------ENLYLLA--ETNLEDILASIE----EL-KPDLVIIDSIQTVYSSELTSAPGSVSQV  185 (372)
T ss_pred             ------------------------ccEEEEc--cCcHHHHHHHHH----hc-CCcEEEEcchHHhhccccccCCCCHHHH
Confidence                                    1334432  235666666553    34 49999999999986432  123455678


Q ss_pred             HHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeec
Q psy2892         351 SEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQ  430 (452)
Q Consensus       351 ~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~Kn  430 (452)
                      ++++..|+++|+++++++++++|++++.           .+.|+..+++.+|.|+.+.++..       ...+.|.+.||
T Consensus       186 r~~~~~L~~lak~~~itvilvghvtk~g-----------~~aG~~~leh~vD~Vi~le~~~~-------~~~R~Lri~Kn  247 (372)
T cd01121         186 RECTAELMRFAKERNIPIFIVGHVTKEG-----------SIAGPKVLEHMVDTVLYFEGDRH-------SEYRILRSVKN  247 (372)
T ss_pred             HHHHHHHHHHHHHcCCeEEEEeeccCCC-----------cccCcccchhhceEEEEEEcCCC-------CcEEEEEEEeC
Confidence            8999999999999999999999998753           24566789999999999876531       24578999999


Q ss_pred             cCCCcceE
Q psy2892         431 RNGPIGNI  438 (452)
Q Consensus       431 R~G~~g~~  438 (452)
                      |+|+++.+
T Consensus       248 R~g~~~ei  255 (372)
T cd01121         248 RFGSTNEL  255 (372)
T ss_pred             CCCCCCCE
Confidence            99988764

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.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=99.92  E-value=4.7e-24  Score=201.40  Aligned_cols=209  Identities=17%  Similarity=0.165  Sum_probs=148.4

Q ss_pred             cccccCcccccccc---------------CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHH
Q psy2892         195 TGISTGFFELDKIT---------------SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLA  259 (452)
Q Consensus       195 ~~i~tg~~~LD~~~---------------gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~  259 (452)
                      -|+|||++.||+++               ||+++|.+++|+|+||+|||+|++|++.+.+. +|.+|+|+|+|++.+.+.
T Consensus         2 ~~~~tGi~glD~~l~~~~~~~~~~~~~~~GGip~gs~~lI~G~pGtGKT~l~~qf~~~~a~-~Ge~vlyis~Ee~~~~~~   80 (259)
T TIGR03878         2 FGVPTGVEGLDELFFKVEIEEGKIVRKPLGGIPAYSVINITGVSDTGKSLMVEQFAVTQAS-RGNPVLFVTVESPANFVY   80 (259)
T ss_pred             CCccCCchhHHHhhccccccccccccccCCCeECCcEEEEEcCCCCCHHHHHHHHHHHHHh-CCCcEEEEEecCCchHHH
Confidence            37899999999985               89999999999999999999999999999885 699999999999988777


Q ss_pred             HHHHHHh--CCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCC-----CCHHHHHHHHHHHHHHcCCccEEEEc
Q psy2892         260 MRMLGSV--GKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPS-----LNVIELRANSRRLSRQCGKIGVIIID  332 (452)
Q Consensus       260 ~R~~a~~--~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~-----~t~~~i~~~i~~~~~~~~~~~~vvID  332 (452)
                      .++....  .|++..             .       +. .++++.+...     .+++++...+....++++ +++||||
T Consensus        81 ~~l~~~a~~~g~d~~-------------~-------~~-~~l~~id~~~~~~~~~~~~~l~~~l~~~i~~~~-~~~vVID  138 (259)
T TIGR03878        81 TSLKERAKAMGVDFD-------------K-------IE-ENIILIDAASSTELRENVPNLLATLAYAIKEYK-VKNTVID  138 (259)
T ss_pred             HHHHHHHHHcCCCHH-------------H-------Hh-CCEEEEECCCchhhhhhHHHHHHHHHHHHHhhC-CCEEEEc
Confidence            7664322  333322             1       11 1455544322     356778888888777776 9999999


Q ss_pred             CcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcc
Q psy2892         333 YLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEV  412 (452)
Q Consensus       333 ~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~  412 (452)
                      +++.+....     ....+++...|..+++++++++++++|.....+.- .     .+..+...+++.||.||.|.....
T Consensus       139 Sls~l~~~~-----~~~~r~~~~~L~~~lk~~~~t~ll~~e~~~~~~~~-~-----~~~~~~~~~~~l~D~vI~L~~~~~  207 (259)
T TIGR03878       139 SITGLYEAK-----EMMAREIVRQLFNFMKKWYQTALFVSQKRSGHEEL-S-----AEAAGGYAVSHIVDGTIVLAKQLI  207 (259)
T ss_pred             CchHhcccc-----hHHHHHHHHHHHHHHHHcCCeEEEEeccccCcccc-c-----ccccCCcceeEeeccEEEEeeeec
Confidence            998764321     13356778889999999999999999976532110 0     022223357899999999985321


Q ss_pred             ccc-------CCCCCCeEEEEEeeccCCCcce
Q psy2892         413 YNQ-------NSADKGIAEIIVSKQRNGPIGN  437 (452)
Q Consensus       413 ~~~-------~~~~~~~~~l~i~KnR~G~~g~  437 (452)
                      ...       +....-.+.+.|.|.|......
T Consensus       208 ~~~~~~~~~~~~~~~~~R~l~I~KmRg~~h~~  239 (259)
T TIGR03878       208 MSRFDASLYKKPIGEIVRLFRIDGCRMCGHDT  239 (259)
T ss_pred             cchhhhhhccccccceEEEEEEEEccCCCCCC
Confidence            100       0012234679999999875443

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>TIGR00416 sms DNA repair protein RadA

Probab=99.92  E-value=9.3e-24  Score=213.36  Aligned_cols=193  Identities=26%  Similarity=0.394  Sum_probs=150.1

Q ss_pred             CccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCc
Q psy2892         193 DVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQ  271 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~  271 (452)
                      ...+++||+++||++ .||+.+|++++|+|+||+|||+|++|++.+++. .|.+|+|+|+|++..++..|...  .|++.
T Consensus        72 ~~~ri~TGi~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~-~g~kvlYvs~EEs~~qi~~ra~r--lg~~~  148 (454)
T TIGR00416        72 EVPRFSSGFGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAK-NQMKVLYVSGEESLQQIKMRAIR--LGLPE  148 (454)
T ss_pred             ccCccccCcHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHh-cCCcEEEEECcCCHHHHHHHHHH--cCCCh
Confidence            345899999999998 579999999999999999999999999999875 57899999999999999887643  23221


Q ss_pred             cccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC--CCCCHHHH
Q psy2892         272 HKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS--RGENRATE  349 (452)
Q Consensus       272 ~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~--~~~~~~~~  349 (452)
                      .                         ++++..  ..++++|.+.+.    +. ++++||||++|.+....  .......+
T Consensus       149 ~-------------------------~l~~~~--e~~~~~I~~~i~----~~-~~~~vVIDSIq~l~~~~~~~~~g~~~q  196 (454)
T TIGR00416       149 P-------------------------NLYVLS--ETNWEQICANIE----EE-NPQACVIDSIQTLYSPDISSAPGSVSQ  196 (454)
T ss_pred             H-------------------------HeEEcC--CCCHHHHHHHHH----hc-CCcEEEEecchhhcccccccCCCCHHH
Confidence            1                         334433  235666666553    34 49999999999987543  12334456


Q ss_pred             HHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEee
Q psy2892         350 ISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSK  429 (452)
Q Consensus       350 ~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~K  429 (452)
                      +++++..|+.+|+++|+++++++|.+++.           .+.|+..+++.+|.|+.|.+..       ....+.+.+.|
T Consensus       197 ~r~~~~~L~~~ak~~giTvllt~hvtkeg-----------~~aG~~~le~lvD~VI~Le~~~-------~~~~R~L~v~K  258 (454)
T TIGR00416       197 VRECTAELMRLAKTRGIAIFIVGHVTKEG-----------SIAGPKVLEHMVDTVLYFEGDR-------DSRFRILRSVK  258 (454)
T ss_pred             HHHHHHHHHHHHHHhCCEEEEEeccccCC-----------ccCCcccEeeeceEEEEEeccC-------CCcEEEEEEec
Confidence            78889999999999999999999998742           2455667899999999997642       12356899999


Q ss_pred             ccCCCcceE
Q psy2892         430 QRNGPIGNI  438 (452)
Q Consensus       430 nR~G~~g~~  438 (452)
                      ||+|+++.+
T Consensus       259 ~R~g~~~e~  267 (454)
T TIGR00416       259 NRFGATNEI  267 (454)
T ss_pred             CCCCCCCcE
Confidence            999988764

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)).

>PRK11823 DNA repair protein RadA; Provisional

Probab=99.92  E-value=1.6e-23  Score=211.64  Aligned_cols=193  Identities=24%  Similarity=0.363  Sum_probs=149.6

Q ss_pred             CccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCc
Q psy2892         193 DVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQ  271 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~  271 (452)
                      ...+++||+++||++ .||+.+|++++|+|+||+|||+|++|++.+.+. +|.+|+|+++|++..++..|...  .|++.
T Consensus        58 ~~~ri~TGi~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~-~g~~vlYvs~Ees~~qi~~ra~r--lg~~~  134 (446)
T PRK11823         58 EEPRISTGIGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAA-AGGKVLYVSGEESASQIKLRAER--LGLPS  134 (446)
T ss_pred             cCCcccCCcHHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHh-cCCeEEEEEccccHHHHHHHHHH--cCCCh
Confidence            345799999999998 579999999999999999999999999999984 68899999999999999888532  33322


Q ss_pred             cccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC--CCCCHHHH
Q psy2892         272 HKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS--RGENRATE  349 (452)
Q Consensus       272 ~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~--~~~~~~~~  349 (452)
                      .                         ++++..  ..+++++.+.++    +. ++++||||+++.+....  ...++..+
T Consensus       135 ~-------------------------~l~~~~--e~~l~~i~~~i~----~~-~~~lVVIDSIq~l~~~~~~~~~g~~~q  182 (446)
T PRK11823        135 D-------------------------NLYLLA--ETNLEAILATIE----EE-KPDLVVIDSIQTMYSPELESAPGSVSQ  182 (446)
T ss_pred             h-------------------------cEEEeC--CCCHHHHHHHHH----hh-CCCEEEEechhhhccccccCCCCCHHH
Confidence            1                         244432  234566665543    34 49999999999887542  12345566


Q ss_pred             HHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEee
Q psy2892         350 ISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSK  429 (452)
Q Consensus       350 ~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~K  429 (452)
                      +++++..|+.+|+++|+++++++|++++.           .+.++..+++.+|.|+.+.++.       ....+.|.+.|
T Consensus       183 vr~~~~~L~~~ak~~~itvilv~hvtk~~-----------~~ag~~~lehlvD~Vi~le~~~-------~~~~R~l~i~K  244 (446)
T PRK11823        183 VRECAAELMRLAKQRGIAVFLVGHVTKEG-----------AIAGPRVLEHMVDTVLYFEGDR-------HSRYRILRAVK  244 (446)
T ss_pred             HHHHHHHHHHHHHHcCCEEEEEeeccCCC-----------CcCCcchhhhhCeEEEEEEcCC-------CCceEEEEEcc
Confidence            88889999999999999999999998753           1345567899999999886421       23457799999


Q ss_pred             ccCCCcceE
Q psy2892         430 QRNGPIGNI  438 (452)
Q Consensus       430 nR~G~~g~~  438 (452)
                      ||+|+++.+
T Consensus       245 ~R~g~~~e~  253 (446)
T PRK11823        245 NRFGATNEI  253 (446)
T ss_pred             CCCCCCCce
Confidence            999998864

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=99.91  E-value=4e-23  Score=193.06  Aligned_cols=214  Identities=20%  Similarity=0.251  Sum_probs=150.3

Q ss_pred             ccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCcccc
Q psy2892         196 GISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKL  274 (452)
Q Consensus       196 ~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i  274 (452)
                      .++||++.||++ .||+++|++++|+|+||+|||+|++|++.+.+ ++|.+|+|||+|++++++.+++.+  .|++...+
T Consensus         2 ri~tGi~~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~-~~ge~~lyvs~ee~~~~i~~~~~~--~g~~~~~~   78 (237)
T TIGR03877         2 RVKTGIPGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGL-QMGEPGIYVALEEHPVQVRRNMAQ--FGWDVRKY   78 (237)
T ss_pred             ccccCcHhHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCCcEEEEEeeCCHHHHHHHHHH--hCCCHHHH
Confidence            489999999996 68999999999999999999999999999987 479999999999999999999764  45555433


Q ss_pred             c-cCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHH
Q psy2892         275 R-TGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEI  353 (452)
Q Consensus       275 ~-~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i  353 (452)
                      . .|.+.--+.  ...........+.++.+. ..+++++...+++...+++ +++||||+|+.+....    . .....+
T Consensus        79 ~~~g~l~~~d~--~~~~~~~~~~~~~~~~~~-~~~~~~~~~~i~~~i~~~~-~~~vVIDSls~l~~~~----~-~~~r~~  149 (237)
T TIGR03877        79 EEEGKFAIVDA--FTGGIGEAAEREKYVVKD-PTDVRELIDVLRQAIRDIN-AKRVVIDSVTTLYITK----P-AMARSI  149 (237)
T ss_pred             hhcCCEEEEec--cccccccccccccccccC-cccHHHHHHHHHHHHHHhC-CCEEEEcChhHhhcCC----h-HHHHHH
Confidence            2 222210000  000000001112233222 2367788888888877775 9999999999875432    1 123366


Q ss_pred             HHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeeccCC
Q psy2892         354 SRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNG  433 (452)
Q Consensus       354 ~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~KnR~G  433 (452)
                      +..|+.+++++|+++++++|.+-...      +    +. ...+++.||.||.|...+..     ....+.+.|.|.|.+
T Consensus       150 l~~l~~~lk~~~~t~llt~~~~~~~~------~----~~-~~~~~~~~D~vI~L~~~~~~-----~~~~R~l~i~K~Rg~  213 (237)
T TIGR03877       150 VMQLKRVLSGLGCTSIFVSQVSVGER------G----FG-GPGVEHAVDGIIRLDLDEID-----GELKRSLIVWKMRGT  213 (237)
T ss_pred             HHHHHHHHHhCCCEEEEEECcccccc------c----cc-ccceEEEEeEEEEEEEEeeC-----CceEEEEEEEECCCC
Confidence            78899999999999999999874210      1    00 12468899999999755321     123467999999988


Q ss_pred             Ccce
Q psy2892         434 PIGN  437 (452)
Q Consensus       434 ~~g~  437 (452)
                      ..+.
T Consensus       214 ~~~~  217 (237)
T TIGR03877       214 KHSM  217 (237)
T ss_pred             CCCC
Confidence            6554

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.

>KOG2373|consensus

Probab=99.90  E-value=2e-23  Score=193.55  Aligned_cols=260  Identities=19%  Similarity=0.228  Sum_probs=200.3

Q ss_pred             cCcccHHHHHHHHHHHHHHHHhCCCCCCCcccccc-CccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC
Q psy2892         165 KGFQQIQPLLNRVIKRINKLHNRGTNDNDVTGIST-GFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK  243 (452)
Q Consensus       165 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~i~t-g~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g  243 (452)
                      +++.++.+.-++++.++.+.       ..+.|+.| .|+.|+++++|.+||+++++.|++|+|||||+...++..+. +|
T Consensus       230 k~i~sf~~mRe~ilseL~N~-------e~v~G~~WkRFpvLNk~LkGhR~GElTvlTGpTGsGKTTFlsEYsLDL~~-QG  301 (514)
T KOG2373|consen  230 KGIRSFTDMREGILSELLNT-------ERVVGFQWKRFPVLNKYLKGHRPGELTVLTGPTGSGKTTFLSEYSLDLFT-QG  301 (514)
T ss_pred             hhhhhHHHHHHHHHHHHhhh-------hhhhceeehhhhHHHHHhccCCCCceEEEecCCCCCceeEehHhhHHHHh-hh
Confidence            45667766666666555432       24557775 79999999999999999999999999999999999999985 79


Q ss_pred             CcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHHHHHHHHH
Q psy2892         244 LPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDE-TPSLNVIELRANSRRLSRQ  322 (452)
Q Consensus       244 ~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~i~~~~~~  322 (452)
                      .++||-|+|++...++.-|+...+|-...         +....+....+.....|+|+.- .+.-.++...+.|.....-
T Consensus       302 VnTLwgSFEi~n~rla~~mL~Qyagyrl~---------drl~~y~HWadrFErlplyfmtfhgqq~~~~vi~~i~ha~yV  372 (514)
T KOG2373|consen  302 VNTLWGSFEIPNKRLAHWMLVQYAGYRLL---------DRLNSYKHWADRFERLPLYFMTFHGQQFMEKVINEIAHAIYV  372 (514)
T ss_pred             hhheeeeeecchHHHHHHHHHHHccCchH---------hhhhhhhHHHHHHhccchHhhhhcccchHHHHHHHHHHHHHH
Confidence            99999999999999999999877765332         2233344455556667887643 2233455566666555555


Q ss_pred             cCCccEEEEcCcchhccCC-CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhh
Q psy2892         323 CGKIGVIIIDYLQLMSANS-RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDA  401 (452)
Q Consensus       323 ~~~~~~vvID~l~~i~~~~-~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~a  401 (452)
                      ++ +.-||||+||.|-... -..++......|+..++++|.++||+|-++.|..|+.   .++...-+.+-||....|.|
T Consensus       373 ~d-i~HViIDNLQFmmg~~~~~~Drf~~QD~iig~fR~fAT~nn~HvTlVvHPRKed---~d~El~t~s~fGsAkatQEA  448 (514)
T KOG2373|consen  373 ED-IQHVIIDNLQFMMGQGMMALDRFHLQDRIIGYFRQFATQNNIHVTLVVHPRKED---GDTELDTQSFFGSAKATQEA  448 (514)
T ss_pred             Hh-hhhhhhhhHHHHhccchhccchhhhHHHHHHHHHHHhhccceeEEEEecccccC---CCceeeehhhcccccccccc
Confidence            65 8999999999887654 2345666678899999999999999999999998863   45667778899999999999


Q ss_pred             ceeEEEecCcccccCCCCCCeEEEEEeeccC-CCcceEEEEEEcCccce
Q psy2892         402 DVILFIYRDEVYNQNSADKGIAEIIVSKQRN-GPIGNIRLTFSGQYTKF  449 (452)
Q Consensus       402 D~vl~l~r~~~~~~~~~~~~~~~l~i~KnR~-G~~g~~~l~f~~~~~~f  449 (452)
                      |.|+.+.+....    ..+|...|.|.|||+ |..|..++.|+.+-..|
T Consensus       449 DNVliiQdkrl~----~~rgkkyLqi~KNRy~Gdvg~~pLEf~kn~lty  493 (514)
T KOG2373|consen  449 DNVLIIQDKRLD----RDRGKKYLQILKNRYYGDVGSDPLEFVKNPLTY  493 (514)
T ss_pred             ccEEEEeecccc----cccchhhhhhhhhcccCcccccceeeccCCccc
Confidence            999999765322    245677899999996 88999888888776555

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=99.90  E-value=3.8e-22  Score=185.89  Aligned_cols=214  Identities=23%  Similarity=0.212  Sum_probs=151.3

Q ss_pred             cccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccc
Q psy2892         197 ISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLR  275 (452)
Q Consensus       197 i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~  275 (452)
                      ++||++.||++ .||+++|++++|.|+||+|||+|+++++.+.+. .|.+|+|+++|++.+++..++.  ..|++..++.
T Consensus         2 i~tGi~~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~-~g~~~~~is~e~~~~~i~~~~~--~~g~~~~~~~   78 (229)
T TIGR03881         2 LSTGVEGLDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAYKGLR-DGDPVIYVTTEESRESIIRQAA--QFGMDFEKAI   78 (229)
T ss_pred             cCCChhhHHHhhcCCCcCCeEEEEECCCCCChHHHHHHHHHHHHh-cCCeEEEEEccCCHHHHHHHHH--HhCCCHHHHh
Confidence            78999999998 589999999999999999999999999998874 6899999999999999988843  4566655432


Q ss_pred             -cCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcC-CccEEEEcCcchhccCCCCCCHHHHHHHH
Q psy2892         276 -TGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCG-KIGVIIIDYLQLMSANSRGENRATEISEI  353 (452)
Q Consensus       276 -~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~-~~~~vvID~l~~i~~~~~~~~~~~~~~~i  353 (452)
                       .+.+.-.+  .+..    -.....   .....+++++...++++.++++ ++++||||+++.+....   .  .....+
T Consensus        79 ~~~~l~i~d--~~~~----~~~~~~---~~~~~~~~~~~~~i~~~~~~~~~~~~~vvIDsl~~l~~~~---~--~~~r~~  144 (229)
T TIGR03881        79 EEGKLVIID--ALMK----EKEDEW---SLRELSIEELLNKVIEAKKYLGYGHARLVIDSMSAFWLDK---P--AMARKY  144 (229)
T ss_pred             hcCCEEEEE--cccc----cccccc---ccccCCHHHHHHHHHHHHHhhccCceEEEecCchhhhccC---h--HHHHHH
Confidence             12221100  0000    000000   0135688999999999887764 47899999999986532   1  123567


Q ss_pred             HHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeeccCC
Q psy2892         354 SRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNG  433 (452)
Q Consensus       354 ~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~KnR~G  433 (452)
                      +..|+.+++++|+++++++|.+.....     +      ....+++.||.|+.|...+..     ....+.+.|.|.|..
T Consensus       145 ~~~l~~~l~~~~~tvil~~~~~~~~~~-----~------~~~~~~~l~D~vI~L~~~~~~-----~~~~R~i~i~K~R~~  208 (229)
T TIGR03881       145 SYYLKRVLNRWNFTILLTSQYAITTSQ-----A------FGFGIEHVADGIIRFRKVVVD-----GELRRYLIVEKMRQT  208 (229)
T ss_pred             HHHHHHHHHhCCCEEEEEecccccCCC-----C------cccceEEEEeEEEEEEEeccC-----CcEEEEEEEEeccCC
Confidence            788999999999999999997642210     1      012478899999999865421     223467999999986


Q ss_pred             Cc--ceEEEEEE
Q psy2892         434 PI--GNIRLTFS  443 (452)
Q Consensus       434 ~~--g~~~l~f~  443 (452)
                      ..  +..+|...
T Consensus       209 ~~~~~~~~~~I~  220 (229)
T TIGR03881       209 NHDKRAWEIDIV  220 (229)
T ss_pred             CCCCceeEEEEc
Confidence            54  33444443

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.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=99.89  E-value=4.1e-22  Score=185.35  Aligned_cols=206  Identities=19%  Similarity=0.233  Sum_probs=148.8

Q ss_pred             cccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC------CcEEEEeCCCC--HHHHHHHHHHHhC
Q psy2892         197 ISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK------LPVAIFSMEMS--GIQLAMRMLGSVG  267 (452)
Q Consensus       197 i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g------~~vl~~s~E~~--~~~i~~R~~a~~~  267 (452)
                      ++||++.||++ .||+++|+++.|+|+||+|||+|+++++.+.+. .+      .+|+||+.|.+  ++.+......  .
T Consensus         1 i~tG~~~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~-~~~~~g~~~~v~yi~~e~~~~~~rl~~~~~~--~   77 (226)
T cd01393           1 ISTGSKALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQL-PGELGGLEGKVVYIDTEGAFRPERLVQLAVR--F   77 (226)
T ss_pred             CCCCcHHHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhc-ccccCCCcceEEEEecCCCCCHHHHHHHHHH--h
Confidence            58999999998 589999999999999999999999999999874 45      89999999986  3323222211  1


Q ss_pred             CCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHH---HcCCccEEEEcCcchhccCC-CC
Q psy2892         268 KLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSR---QCGKIGVIIIDYLQLMSANS-RG  343 (452)
Q Consensus       268 ~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~---~~~~~~~vvID~l~~i~~~~-~~  343 (452)
                      +.+          .   .       .+ ..++++.+.  .+.+++...++.+..   .. ++++||||+|+.+.... ..
T Consensus        78 ~~~----------~---~-------~~-~~~i~~~~~--~~~~~~~~~l~~~~~~~~~~-~~~lvVIDsis~l~~~~~~~  133 (226)
T cd01393          78 GLD----------P---E-------EV-LDNIYVARP--YNGEQQLEIVEELERIMSSG-RVDLVVVDSVAALFRKEFIG  133 (226)
T ss_pred             ccc----------h---h-------hh-hccEEEEeC--CCHHHHHHHHHHHHHHhhcC-CeeEEEEcCcchhhhhhhcC
Confidence            111          0   0       01 124665543  356777777777654   44 49999999999876432 11


Q ss_pred             ----CCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhc--CCCCCCchhhhhhchhhhhhceeEEEecCcccccCC
Q psy2892         344 ----ENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQR--QNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNS  417 (452)
Q Consensus       344 ----~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r--~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~  417 (452)
                          ..+...+..+++.|+.+|++++|+||+++|+++.....  ...+|     .++..+++.+|.++.|.+.+..    
T Consensus       134 ~~~~~~~~~~l~~~~~~L~~~a~~~~~~vi~tnq~~~~~~~~~~~~~~p-----~~G~~~~~~~~~ri~l~~~~~~----  204 (226)
T cd01393         134 RGMLAERARLLSQALRKLLRLADKFNVAVVFTNQVRAKVDVMFGDPETP-----AGGNALAHASTTRLDLRKGRGI----  204 (226)
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHhCcEEEEEEEEeeecccccCCCccc-----cCchhhhCcccEEEEEEecCCc----
Confidence                23445678899999999999999999999998765422  11223     3456899999999999876421    


Q ss_pred             CCCCeEEEEEeeccCCCcceEE
Q psy2892         418 ADKGIAEIIVSKQRNGPIGNIR  439 (452)
Q Consensus       418 ~~~~~~~l~i~KnR~G~~g~~~  439 (452)
                       ....+.+.+.|+++.+.|.+.
T Consensus       205 -~~~~r~~~~~k~~~~~~~~~~  225 (226)
T cd01393         205 -IGERRIAKVVKSPALPEAEAE  225 (226)
T ss_pred             -cCcEEEEEEEeCCCCCCcccc
Confidence             124567999999999988754

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.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=99.89  E-value=1.1e-21  Score=189.71  Aligned_cols=222  Identities=16%  Similarity=0.226  Sum_probs=150.9

Q ss_pred             HHHHHHHHhCCCCCCCccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh--C---CCcEEEEeC
Q psy2892         178 IKRINKLHNRGTNDNDVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE--N---KLPVAIFSM  251 (452)
Q Consensus       178 ~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~--~---g~~vl~~s~  251 (452)
                      +...++.+...   ....+++||++.||.+ .||+++|+++.|+|+||+|||+|+++++.+++..  .   +.+|+||+.
T Consensus        62 ~~t~~~l~~~~---~~~~~~~tg~~~lD~ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdt  138 (316)
T TIGR02239        62 FTTATEFHQRR---QEVIQLTTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDT  138 (316)
T ss_pred             cccHHHHHhcc---cccceeCCCCHHHHHHhcCCCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEEC
Confidence            33444444333   3566899999999996 7899999999999999999999999999876532  2   248999999


Q ss_pred             CC--CHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHH---HHHcCCc
Q psy2892         252 EM--SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRL---SRQCGKI  326 (452)
Q Consensus       252 E~--~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~---~~~~~~~  326 (452)
                      |.  +++++.....  ..+++...+                   +  .++++..  ..+.+++...+..+   .... ++
T Consensus       139 E~~f~~~Rl~~ia~--~~~~~~~~~-------------------l--~~i~~~~--~~~~~~~~~~l~~~~~~~~~~-~~  192 (316)
T TIGR02239       139 EGTFRPERLLAIAE--RYGLNPEDV-------------------L--DNVAYAR--AYNTDHQLQLLQQAAAMMSES-RF  192 (316)
T ss_pred             CCCCCHHHHHHHHH--HcCCChHHh-------------------h--ccEEEEe--cCChHHHHHHHHHHHHhhccC-Cc
Confidence            99  4554444332  223322111                   1  1244332  23455554444443   3333 59


Q ss_pred             cEEEEcCcchhccCC-CC--C--CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhc------CCCCCCchhhhhhc
Q psy2892         327 GVIIIDYLQLMSANS-RG--E--NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQR------QNKRPIMSDLRESG  395 (452)
Q Consensus       327 ~~vvID~l~~i~~~~-~~--~--~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r------~~~~p~l~dl~~S~  395 (452)
                      ++||||+++.+.... .+  .  .+...+.+++..|+.+|+++|++|+++.|+.......      ...+|.     +..
T Consensus       193 ~LvVIDSI~al~r~~~~~~~~~~~rq~~l~~~~~~L~~la~~~~vavv~tNqv~~~~~~~~~~~~g~~~~p~-----gG~  267 (316)
T TIGR02239       193 ALLIVDSATALYRTDFSGRGELSARQMHLARFLRSLQRLADEFGVAVVITNQVVAQVDGAGSMFAGDPKKPI-----GGN  267 (316)
T ss_pred             cEEEEECcHHHhhhhcCCcchHHHHHHHHHHHHHHHHHHHHHhCCEEEEECceEEecCCccccccCCCCcCC-----chH
Confidence            999999999875322 11  1  2234567899999999999999999999998543221      123453     344


Q ss_pred             hhhhhhceeEEEecCcccccCCCCCCeEEEEEeeccCCCcceEEEE
Q psy2892         396 AIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLT  441 (452)
Q Consensus       396 ~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~  441 (452)
                      .+++.+++.+.|.+.+        .+.+.+.+.|+|+++.+.+.|.
T Consensus       268 ~~~h~~~~ri~l~k~~--------~~~R~~~v~ksp~~p~~~~~f~  305 (316)
T TIGR02239       268 IMAHASTTRLSLRKGR--------GEQRICKIYDSPCLPESEAMFA  305 (316)
T ss_pred             HHHhhccEEEEEEecC--------CCeEEEEEEECCCCCCeEEEEE
Confidence            6899999999998752        1357899999999999885544

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).

>PRK04328 hypothetical protein; Provisional

Probab=99.89  E-value=1e-21  Score=184.59  Aligned_cols=214  Identities=21%  Similarity=0.254  Sum_probs=147.3

Q ss_pred             ccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCcccc
Q psy2892         196 GISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKL  274 (452)
Q Consensus       196 ~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i  274 (452)
                      .++||++.||++ .||+++|.+++|.|+||+|||+|++|++.+.+. .|.+|+|||+|++++++.+++-+  .|++....
T Consensus         4 rv~tGi~~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~-~ge~~lyis~ee~~~~i~~~~~~--~g~d~~~~   80 (249)
T PRK04328          4 RVKTGIPGMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQ-MGEPGVYVALEEHPVQVRRNMRQ--FGWDVRKY   80 (249)
T ss_pred             eecCCchhHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHh-cCCcEEEEEeeCCHHHHHHHHHH--cCCCHHHH
Confidence            689999999998 578999999999999999999999999999864 69999999999999998888754  46655433


Q ss_pred             c-cCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHH
Q psy2892         275 R-TGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEI  353 (452)
Q Consensus       275 ~-~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i  353 (452)
                      . .|.+.--+.  ............-++.. ...+++++...++....+++ +++||||+++.+....    . .....+
T Consensus        81 ~~~~~l~iid~--~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~i~~~~-~~~vVIDSlt~l~~~~----~-~~~r~~  151 (249)
T PRK04328         81 EEEGKFAIVDA--FTGGIGSAAKREKYVVK-DPDDVRELIDVLRQAIKDIG-AKRVVIDSVSTLYLTK----P-AMARSI  151 (249)
T ss_pred             hhcCCEEEEec--ccccccccccccccccc-CcccHHHHHHHHHHHHHhhC-CCEEEEeChhHhhcCC----h-HHHHHH
Confidence            2 122110000  00000000001111111 12356677777777777775 9999999999875432    1 123466


Q ss_pred             HHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeeccCC
Q psy2892         354 SRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNG  433 (452)
Q Consensus       354 ~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~KnR~G  433 (452)
                      +..|+.+++++||++++++|.+...  +    +    +. ...+++.||.|+.|...+..     ....+.+.|.|.|..
T Consensus       152 ~~~l~~~lk~~g~t~llt~e~~~~~--~----~----~~-~~~~~~~~D~vI~L~~~~~~-----~~~~R~l~I~K~Rg~  215 (249)
T PRK04328        152 VMQLKRVLSGLGCTAIFVSQVSVGE--R----G----FG-GPGVEHAVDGIIRLDLDEID-----GELKRSLIVWKMRGT  215 (249)
T ss_pred             HHHHHHHHHhCCCEEEEEECccccc--c----c----cC-CCCcEEEEEEEEEEEEEecC-----CcEEEEEEEEEccCC
Confidence            7888888999999999999987421  0    1    11 12467889999999765421     223467999999988


Q ss_pred             Ccce
Q psy2892         434 PIGN  437 (452)
Q Consensus       434 ~~g~  437 (452)
                      ..+.
T Consensus       216 ~~~~  219 (249)
T PRK04328        216 KHSM  219 (249)
T ss_pred             CCCC
Confidence            6554

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=99.89  E-value=4.1e-22  Score=185.24  Aligned_cols=206  Identities=20%  Similarity=0.200  Sum_probs=148.0

Q ss_pred             cccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccc
Q psy2892         197 ISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLR  275 (452)
Q Consensus       197 i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~  275 (452)
                      +|||++.||+++ ||+++|.+++|.|+||+|||+|++|++.+.+.+.|.+|+|||+|.+++++.+++.+  .|++...+ 
T Consensus         1 V~TGI~~LD~~l~GGip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~~~l~~~~~s--~g~d~~~~-   77 (226)
T PF06745_consen    1 VPTGIPGLDELLGGGIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPPEELIENMKS--FGWDLEEY-   77 (226)
T ss_dssp             E--SSTTHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-HHHHHHHHHT--TTS-HHHH-
T ss_pred             CCCCchhHHHhhcCCCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCHHHHHHHHHH--cCCcHHHH-
Confidence            589999999985 89999999999999999999999999999986328999999999999999999874  35444322 


Q ss_pred             cCCCCcchHHHHHHHHHHHhCCCeEEEcCC-------CCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHH
Q psy2892         276 TGRLSSDDWPRINDSIKKINKSQLYIDETP-------SLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRAT  348 (452)
Q Consensus       276 ~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~-------~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~  348 (452)
                                        .....+.+.+..       ..+++++...+.....+.+ +++||||+|+.+ ...   ....
T Consensus        78 ------------------~~~g~l~~~d~~~~~~~~~~~~~~~l~~~i~~~i~~~~-~~~vVIDsls~l-~~~---~~~~  134 (226)
T PF06745_consen   78 ------------------EDSGKLKIIDAFPERIGWSPNDLEELLSKIREAIEELK-PDRVVIDSLSAL-LLY---DDPE  134 (226)
T ss_dssp             ------------------HHTTSEEEEESSGGGST-TSCCHHHHHHHHHHHHHHHT-SSEEEEETHHHH-TTS---SSGG
T ss_pred             ------------------hhcCCEEEEecccccccccccCHHHHHHHHHHHHHhcC-CCEEEEECHHHH-hhc---CCHH
Confidence                              122345554421       3578888888888877775 899999999999 322   1123


Q ss_pred             HHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhh-hhceeEEEecCcccccCCCCCCeEEEEE
Q psy2892         349 EISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQ-DADVILFIYRDEVYNQNSADKGIAEIIV  427 (452)
Q Consensus       349 ~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~-~aD~vl~l~r~~~~~~~~~~~~~~~l~i  427 (452)
                      .+...+..|....++.|+++++++|.......           .....+++ .||.||.|...+..     ..-.+.|.|
T Consensus       135 ~~r~~l~~l~~~l~~~~~t~llt~~~~~~~~~-----------~~~~~i~~~l~D~vI~L~~~~~~-----~~~~R~l~I  198 (226)
T PF06745_consen  135 ELRRFLRALIKFLKSRGVTTLLTSEMPSGSED-----------DGTFGIEHYLADGVIELRYEEEG-----GRIRRRLRI  198 (226)
T ss_dssp             GHHHHHHHHHHHHHHTTEEEEEEEEESSSSSS-----------SSSTSHHHHHSSEEEEEEEEEET-----TEEEEEEEE
T ss_pred             HHHHHHHHHHHHHHHCCCEEEEEEccccCccc-----------ccccchhhhcccEEEEEEEEeeC-----CEEEEEEEE
Confidence            35567888888889999999999986542211           11335666 99999999876432     133568999


Q ss_pred             eeccCCCc--ceEEEEEEc
Q psy2892         428 SKQRNGPI--GNIRLTFSG  444 (452)
Q Consensus       428 ~KnR~G~~--g~~~l~f~~  444 (452)
                      .|.|..+.  +..++...+
T Consensus       199 ~K~Rg~~~~~~~~~f~I~~  217 (226)
T PF06745_consen  199 VKMRGSRHSTGIHPFEITP  217 (226)
T ss_dssp             EEETTS----BEEEEEEET
T ss_pred             EEcCCCCCCCcEEEEEEEC
Confidence            99998764  334555544

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 ....

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=99.88  E-value=2.6e-21  Score=179.70  Aligned_cols=203  Identities=20%  Similarity=0.296  Sum_probs=139.6

Q ss_pred             ccccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-CCHHHHHHHHHHHhCCCCccc
Q psy2892         196 GISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-MSGIQLAMRMLGSVGKLDQHK  273 (452)
Q Consensus       196 ~i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~~~~~i~~R~~a~~~~i~~~~  273 (452)
                      .++||++.||+++ ||+++|.++.|+|+||+|||+|+++++.+.+. .|.+|+||++| .+.+.+.+...    .     
T Consensus         4 ~i~tGi~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~-~~~~v~yi~~e~~~~~r~~~~~~----~-----   73 (225)
T PRK09361          4 RLPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAK-NGKKVIYIDTEGLSPERFKQIAG----E-----   73 (225)
T ss_pred             cccCCcHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHH-CCCeEEEEECCCCCHHHHHHHHh----h-----
Confidence            5899999999985 89999999999999999999999999999975 68999999999 44443322111    0     


Q ss_pred             cccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHH--cCCccEEEEcCcchhccCC-----CCCCH
Q psy2892         274 LRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQ--CGKIGVIIIDYLQLMSANS-----RGENR  346 (452)
Q Consensus       274 i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~--~~~~~~vvID~l~~i~~~~-----~~~~~  346 (452)
                               ++..+      +  .++++.+.  .+.++....++.+...  . ++++||||++..+....     ....+
T Consensus        74 ---------~~~~~------~--~~~~~~~~--~~~~~~~~~i~~~~~~~~~-~~~lvVIDsi~al~~~~~~~~~~~~~~  133 (225)
T PRK09361         74 ---------DFEEL------L--SNIIIFEP--SSFEEQSEAIRKAEKLAKE-NVGLIVLDSATSLYRLELEDEEDNSKL  133 (225)
T ss_pred             ---------ChHhH------h--hCeEEEeC--CCHHHHHHHHHHHHHHHHh-cccEEEEeCcHHHhHHHhcCCccHHHH
Confidence                     11111      1  14555543  3444444333332211  4 59999999998765321     11122


Q ss_pred             HHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEE
Q psy2892         347 ATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEII  426 (452)
Q Consensus       347 ~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~  426 (452)
                      ...+..++..|+.+|+++||+|++++|++...... ..+|     .++..+++.+|.++.|.+.+        .+.+.+.
T Consensus       134 ~~~l~~~l~~L~~~a~~~~v~vi~tnq~~~~~~~~-~~~~-----~gg~~~~~~~d~ii~l~~~~--------~~~r~~~  199 (225)
T PRK09361        134 NRELGRQLTHLLKLARKHDLAVVITNQVYSDIDSD-GLRP-----LGGHTLEHWSKTILRLEKFR--------NGKRRAT  199 (225)
T ss_pred             HHHHHHHHHHHHHHHHHhCCEEEEEccceecCCCC-cccC-----CCcchhhhhccEEEEEEEcc--------CCeEEEE
Confidence            34567777889999999999999999998643211 1112     24557899999999997731        2346778


Q ss_pred             EeeccCCCcce-EEEEE
Q psy2892         427 VSKQRNGPIGN-IRLTF  442 (452)
Q Consensus       427 i~KnR~G~~g~-~~l~f  442 (452)
                      +.|+|..+.|. ..+..
T Consensus       200 i~k~~~~~~~~~~~f~I  216 (225)
T PRK09361        200 LEKHRSRPEGESAEFRI  216 (225)
T ss_pred             EEECCCCCCCCeEEEEE
Confidence            99999877765 34443

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=99.88  E-value=3.3e-21  Score=187.10  Aligned_cols=212  Identities=17%  Similarity=0.215  Sum_probs=146.4

Q ss_pred             CCccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCC--CHHHHHHHHH
Q psy2892         192 NDVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEM--SGIQLAMRML  263 (452)
Q Consensus       192 ~~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~--~~~~i~~R~~  263 (452)
                      ....+++||++.||++ .||+++|+++.|+|+||+|||+|+++++.+++..     .+.+|+||++|.  +++++.+...
T Consensus       100 ~~~~~i~tG~~~LD~lL~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~qia~  179 (342)
T PLN03186        100 QEIIQITTGSRELDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLIQIAE  179 (342)
T ss_pred             cCcceeCCCCHHHHHhhcCCCcCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHHHHHH
Confidence            3566899999999996 7899999999999999999999999999887531     234899999999  4555543322


Q ss_pred             HHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHH---HHHcCCccEEEEcCcchhccC
Q psy2892         264 GSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRL---SRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       264 a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~---~~~~~~~~~vvID~l~~i~~~  340 (452)
                        ..+++...+                   +  .++++..  ..+.+++...+..+   .... ++++||||+++.+...
T Consensus       180 --~~~~~~~~~-------------------l--~~i~~~~--~~~~e~~~~ll~~~~~~~~~~-~~~LIVIDSI~alfr~  233 (342)
T PLN03186        180 --RFGLNGADV-------------------L--ENVAYAR--AYNTDHQSELLLEAASMMAET-RFALMIVDSATALYRT  233 (342)
T ss_pred             --HcCCChhhh-------------------c--cceEEEe--cCCHHHHHHHHHHHHHHhhcc-CCCEEEEeCcHHHHHH
Confidence              123322111                   1  1234332  24555554444333   3344 5999999999987543


Q ss_pred             C---CCC--CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhc----CC-CCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         341 S---RGE--NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQR----QN-KRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       341 ~---~~~--~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r----~~-~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      .   ++.  .+...+.++++.|+.+|+++||+|+++.|+.......    .. .+|.     +...+++.+++.++|.+.
T Consensus       234 ~~~~~g~l~~r~~~L~~~l~~L~~lA~~~~vaVviTNqv~~~~~~~~~~~~~~~~P~-----gG~~~~h~~~tRl~L~k~  308 (342)
T PLN03186        234 EFSGRGELSARQMHLGKFLRSLQRLADEFGVAVVITNQVVAQVDGSAFFAGPQLKPI-----GGNIMAHASTTRLALRKG  308 (342)
T ss_pred             HhcCCccHHHHHHHHHHHHHHHHHHHHHcCCEEEEEcCEEEccCCccccCCCccccc-----hhHHHHhhccEEEEEEec
Confidence            1   111  1234478899999999999999999999995432211    11 1443     344689999999999864


Q ss_pred             cccccCCCCCCeEEEEEeeccCCCcceEEEEE
Q psy2892         411 EVYNQNSADKGIAEIIVSKQRNGPIGNIRLTF  442 (452)
Q Consensus       411 ~~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f  442 (452)
                      .        .+.+.+.+.|+|+++.+...|.-
T Consensus       309 ~--------~~~R~~~v~ksp~~p~~e~~F~I  332 (342)
T PLN03186        309 R--------GENRICKVISSPCLPEAEARFSI  332 (342)
T ss_pred             C--------CCeEEEEEEECCCCCCeEEEEEE
Confidence            2        23578999999999998855443

>cd01394 radB RadB

Probab=99.88  E-value=4.1e-21  Score=177.58  Aligned_cols=204  Identities=19%  Similarity=0.252  Sum_probs=139.3

Q ss_pred             cccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccc
Q psy2892         197 ISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLR  275 (452)
Q Consensus       197 i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~  275 (452)
                      +|||++.||.++ ||+++|.++.|+|+||+|||+|++++|.+.+. .|.+|+||+.|....+-..++...    .     
T Consensus         1 i~TGi~~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~-~g~~v~yi~~e~~~~~~~~~~~~~----~-----   70 (218)
T cd01394           1 LPTGCKGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAG-QGKKVAYIDTEGLSSERFRQIAGD----R-----   70 (218)
T ss_pred             CCcchhHHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHh-cCCeEEEEECCCCCHHHHHHHHhH----C-----
Confidence            589999999985 79999999999999999999999999999974 689999999997655222222110    0     


Q ss_pred             cCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHc-CCccEEEEcCcchhccCC-C----CCCHHHH
Q psy2892         276 TGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQC-GKIGVIIIDYLQLMSANS-R----GENRATE  349 (452)
Q Consensus       276 ~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~-~~~~~vvID~l~~i~~~~-~----~~~~~~~  349 (452)
                              .       +.+ ..++++.+..  +..++...+..+.... .++++||||+++.+.... .    ...+...
T Consensus        71 --------~-------~~~-~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~lvvIDsi~~l~~~~~~~~~~~~~~~~~  132 (218)
T cd01394          71 --------P-------ERA-ASSIIVFEPM--DFNEQGRAIQETETFADEKVDLVVVDSATALYRLELGDDDTTIKNYRE  132 (218)
T ss_pred             --------h-------Hhh-hcCEEEEeCC--CHHHHHHHHHHHHHHHhcCCcEEEEechHHhhhHHhcCccchHHHHHH
Confidence                    0       001 2356665533  3344444333332211 138999999999885321 1    1123446


Q ss_pred             HHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEee
Q psy2892         350 ISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSK  429 (452)
Q Consensus       350 ~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~K  429 (452)
                      +..++..|+.+|+++||+||+++|+++..+ +...+|.     ++..+++.||.++.|.+.+.        +.....+.|
T Consensus       133 l~~~~~~L~~~a~~~~~~vi~t~q~~~~~~-~~~~~p~-----~g~~~~~~~d~~i~l~~~~~--------~~r~~~~~~  198 (218)
T cd01394         133 LAKQLTFLLWLARKHDVAVVITNQVYSDVG-SGSVRPL-----GGHTLEHWSKVILRLEKLRV--------GTRRAVLEK  198 (218)
T ss_pred             HHHHHHHHHHHHHHhCCEEEEecCCEEcCC-CCccccc-----CCcchhcceeEEEEEEEcCC--------CeEEEEEee
Confidence            778888899999999999999999987543 2233442     34568999999999987641        123344778


Q ss_pred             ccCCCcce-EEEEE
Q psy2892         430 QRNGPIGN-IRLTF  442 (452)
Q Consensus       430 nR~G~~g~-~~l~f  442 (452)
                      +|..+.+. ..+..
T Consensus       199 ~~~~~~~~~~~f~I  212 (218)
T cd01394         199 HRFRPEGSSVYFRI  212 (218)
T ss_pred             CCCCCCCceEEEEE
Confidence            88877665 34444

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=99.87  E-value=7.3e-20  Score=176.34  Aligned_cols=211  Identities=15%  Similarity=0.192  Sum_probs=150.3

Q ss_pred             CccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCCC--HHHHHHHHHH
Q psy2892         193 DVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEMS--GIQLAMRMLG  264 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~~--~~~i~~R~~a  264 (452)
                      ....++||++.||++ .||+++|.++.|+|+||+|||+|++|++.+++..     .+.+|+|+++|.+  ++++.++..+
T Consensus        74 ~~~~isTG~~~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~~a~~  153 (313)
T TIGR02238        74 KVLKITTGSQALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAER  153 (313)
T ss_pred             cCceeCCCCHHHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHHHHHH
Confidence            445799999999998 6789999999999999999999999999987542     3568999999995  7777766543


Q ss_pred             HhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHH---HHHcCCccEEEEcCcchhccCC
Q psy2892         265 SVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRL---SRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       265 ~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~---~~~~~~~~~vvID~l~~i~~~~  341 (452)
                        .+++...+                   +  .++++.  ...+.++..+.+..+   ..+. ++++||||+++.+....
T Consensus       154 --~g~d~~~~-------------------l--~~i~~~--~~~~~e~~~~~l~~l~~~i~~~-~~~LvVIDSisal~r~~  207 (313)
T TIGR02238       154 --FGVDPDAV-------------------L--DNILYA--RAYTSEHQMELLDYLAAKFSEE-PFRLLIVDSIMALFRVD  207 (313)
T ss_pred             --cCCChHHh-------------------c--CcEEEe--cCCCHHHHHHHHHHHHHHhhcc-CCCEEEEEcchHhhhhh
Confidence              34432211                   1  124443  234555555444443   2334 49999999999775432


Q ss_pred             ---CC--CCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhh-----cCCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         342 ---RG--ENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQ-----RQNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       342 ---~~--~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~-----r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                         ++  ..+.+.+.+++..|+.+|+++||+|+++.|+......     ....+|.     +...+++.+++.+.|.+.+
T Consensus       208 ~~~~g~~~~r~~~l~~~~~~L~~la~~~~vavvitNqv~~~~~~~~~~~~~~~~p~-----gG~~~~h~~~~Rl~l~k~~  282 (313)
T TIGR02238       208 FSGRGELSERQQKLAQMLSRLNKISEEFNVAVFVTNQVQADPGATMTFIADPKKPI-----GGHVLAHASTTRILLRKGR  282 (313)
T ss_pred             ccCccchHHHHHHHHHHHHHHHHHHHHcCcEEEEECceEecCCcccccCCCCccCc-----chhhhhhheeEEEEEEecC
Confidence               11  1233457889999999999999999999999875432     1123343     2446899999999998742


Q ss_pred             ccccCCCCCCeEEEEEeeccCCCcceEEEEE
Q psy2892         412 VYNQNSADKGIAEIIVSKQRNGPIGNIRLTF  442 (452)
Q Consensus       412 ~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f  442 (452)
                              .+.+.+.+.|+++-+.+.+.|..
T Consensus       283 --------~~~R~~~~~~sp~~p~~~~~f~i  305 (313)
T TIGR02238       283 --------GEERVAKLYDSPDMPEAEASFQI  305 (313)
T ss_pred             --------CCeEEEEEeeCCCCCCeEEEEEE
Confidence                    13478999999998888766553

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.

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=99.87  E-value=1.8e-20  Score=174.00  Aligned_cols=198  Identities=21%  Similarity=0.238  Sum_probs=135.5

Q ss_pred             Cccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCC
Q psy2892         200 GFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGR  278 (452)
Q Consensus       200 g~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~  278 (452)
                      |++.||++ .||+++|++++|+|+||+|||+|+++++.+.+. +|.+|+||++|++++++.+++.+.  |++....    
T Consensus         1 Gi~~LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~~~~-~g~~~~y~s~e~~~~~l~~~~~~~--~~~~~~~----   73 (224)
T TIGR03880         1 GIPGLDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQGLK-NGEKAMYISLEEREERILGYAKSK--GWDLEDY----   73 (224)
T ss_pred             CchhhHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHh-CCCeEEEEECCCCHHHHHHHHHHc--CCChHHH----
Confidence            68899997 589999999999999999999999999999875 699999999999999999998652  3332111    


Q ss_pred             CCcchHHHHHHHHHHHhCCCeEEEcCCC----CCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHH
Q psy2892         279 LSSDDWPRINDSIKKINKSQLYIDETPS----LNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEIS  354 (452)
Q Consensus       279 l~~~~~~~~~~a~~~l~~~~l~i~~~~~----~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~  354 (452)
                                     +.+ ++++.+...    ..++++...++.+..+++ +++||||+++.+....  .+.......+.
T Consensus        74 ---------------~~~-~l~~~~~~~~~~~~~~~~l~~~~~~~i~~~~-~~~vVIDsls~l~~~~--~~~~~~r~~l~  134 (224)
T TIGR03880        74 ---------------IDK-SLYIVRLDPSDFKTSLNRIKNELPILIKELG-ASRVVIDPISLLETLF--DDDAERRTELF  134 (224)
T ss_pred             ---------------HhC-CeEEEecCHHHHHhhHHHHHHHHHHHHHHhC-CCEEEEcChHHHhhhc--CCHHHHHHHHH
Confidence                           112 455544221    235677777777777776 9999999999885422  11111112223


Q ss_pred             HHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeeccCCC
Q psy2892         355 RNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGP  434 (452)
Q Consensus       355 ~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~KnR~G~  434 (452)
                      .-++. .++.|+++++++|.+...       |..+.   .+.+++.||.|+.|...+..+   .......|.|.|+|.+.
T Consensus       135 ~l~~~-lk~~~~tvll~s~~~~~~-------~~~~~---~~~~~~l~D~vI~L~~~~~~~---~~~~~r~l~v~K~Rg~~  200 (224)
T TIGR03880       135 RFYSS-LRETGVTTILTSEADKTN-------VFASK---YGLIEYLADGVIILKYVRNSD---LRDVRLAVEVVKMRRSK  200 (224)
T ss_pred             HHHHH-HHhCCCEEEEEEcccCCC-------CCccC---CCceEEEEeEEEEEeeeeccc---CcceEEEEEEEEccCCC
Confidence            23333 357899999999987521       11111   345799999999995432110   01123468899999875


Q ss_pred             cce
Q psy2892         435 IGN  437 (452)
Q Consensus       435 ~g~  437 (452)
                      ...
T Consensus       201 ~~~  203 (224)
T TIGR03880       201 HSR  203 (224)
T ss_pred             CCC
Confidence            433

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=99.86  E-value=3.8e-20  Score=177.29  Aligned_cols=219  Identities=21%  Similarity=0.236  Sum_probs=154.5

Q ss_pred             CccccccCccccccc-c-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCC
Q psy2892         193 DVTGISTGFFELDKI-T-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLD  270 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~  270 (452)
                      ....+|||++.||.+ . ||+++|.++.|+|+||+|||+||++++.+++. .|.+|+||++|.+...-  +  +...|++
T Consensus        32 ~~~~isTGi~~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~-~g~~~vyId~E~~~~~~--~--a~~lGvd  106 (325)
T cd00983          32 DVEVIPTGSLSLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQK-LGGTVAFIDAEHALDPV--Y--AKKLGVD  106 (325)
T ss_pred             CCceecCCCHHHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHH-cCCCEEEECccccHHHH--H--HHHcCCC
Confidence            456899999999998 4 69999999999999999999999999999875 68999999999987752  2  2223444


Q ss_pred             ccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC--CC---CC
Q psy2892         271 QHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS--RG---EN  345 (452)
Q Consensus       271 ~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~--~~---~~  345 (452)
                      .++                         +++..  ..+.++....+..+.+... +++||||++..+.+..  .+   +.
T Consensus       107 ~~~-------------------------l~v~~--p~~~eq~l~i~~~li~s~~-~~lIVIDSvaal~~~~E~~~~~~~~  158 (325)
T cd00983         107 LDN-------------------------LLISQ--PDTGEQALEIADSLVRSGA-VDLIVVDSVAALVPKAEIEGEMGDS  158 (325)
T ss_pred             HHH-------------------------heecC--CCCHHHHHHHHHHHHhccC-CCEEEEcchHhhccccccccccccc
Confidence            321                         23332  2356778888887777664 9999999999887521  11   11


Q ss_pred             ----HHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCC-C
Q psy2892         346 ----RATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSAD-K  420 (452)
Q Consensus       346 ----~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~-~  420 (452)
                          ....+...++.|..+++++||++|++.|+.-......+ .|  .---|...+++.+.+.+.+.+.+......+. -
T Consensus       159 ~~~~qaR~l~~~Lr~L~~~~~k~~~~vI~tNQvr~~ig~~~g-~~--e~~~GG~~L~~~ss~rl~lrk~~~~k~~~~~~G  235 (325)
T cd00983         159 HVGLQARLMSQALRKLTGSINKSNTTVIFINQLREKIGVMFG-NP--ETTTGGNALKFYSSVRLDIRRIETIKDGDEVIG  235 (325)
T ss_pred             chHHHHHHHHHHHHHHHHHHHhCCCEEEEEEccccccccccC-CC--ccCCCchHHhhhcceEEEEEeecccccCCcccc
Confidence                12235677888889999999999999998764432111 11  1123455689999999999876533221111 2


Q ss_pred             CeEEEEEeeccCCCcce---EEEEEEcCcc
Q psy2892         421 GIAEIIVSKQRNGPIGN---IRLTFSGQYT  447 (452)
Q Consensus       421 ~~~~l~i~KnR~G~~g~---~~l~f~~~~~  447 (452)
                      +.+.+.+.|||.-+++.   +.+.|...-.
T Consensus       236 ~~~~~~v~Knk~~~p~~~~~~~i~~~~Gi~  265 (325)
T cd00983         236 NRTKVKVVKNKVAPPFKTAEFDILFGEGIS  265 (325)
T ss_pred             cEEEEEEEecccCCCCCceEEEEEcCcccc
Confidence            34799999999987664   4555654433

RecA couples ATP hydrolysis to DNA strand exchange.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=99.86  E-value=7.9e-20  Score=177.16  Aligned_cols=210  Identities=15%  Similarity=0.163  Sum_probs=150.1

Q ss_pred             ccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCC--CHHHHHHHHHHH
Q psy2892         194 VTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEM--SGIQLAMRMLGS  265 (452)
Q Consensus       194 ~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~--~~~~i~~R~~a~  265 (452)
                      ...++||++.||++ .||+++|.++.|+|+||+|||+|++|++.+.+..     .+.+|+|+++|.  +++++.++..+ 
T Consensus       105 ~~~isTG~~~LD~lLgGGi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~ia~~-  183 (344)
T PLN03187        105 VVRITTGSQALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPIAER-  183 (344)
T ss_pred             CceecCCcHhHHhhcCCCCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHHHHHH-
Confidence            45799999999998 6799999999999999999999999999988641     136899999999  58877776543 


Q ss_pred             hCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHH---HHHHcCCccEEEEcCcchhccCC-
Q psy2892         266 VGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRR---LSRQCGKIGVIIIDYLQLMSANS-  341 (452)
Q Consensus       266 ~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~---~~~~~~~~~~vvID~l~~i~~~~-  341 (452)
                       .|++...+                   +  .++++..  ..+++++...+..   ...+++ +++||||+++.+.... 
T Consensus       184 -~g~d~~~~-------------------l--~~I~~~~--~~~~e~~~~~l~~l~~~i~~~~-~~LvVIDSital~r~~~  238 (344)
T PLN03187        184 -FGMDADAV-------------------L--DNIIYAR--AYTYEHQYNLLLGLAAKMAEEP-FRLLIVDSVIALFRVDF  238 (344)
T ss_pred             -cCCChhhh-------------------c--CeEEEec--CCCHHHHHHHHHHHHHHHHhcC-CCEEEEeCcHHhhhccc
Confidence             34432211                   1  1344432  3466665544443   334454 9999999999765432 


Q ss_pred             --CC--CCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhc----CCCCCCchhhhhhchhhhhhceeEEEecCccc
Q psy2892         342 --RG--ENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQR----QNKRPIMSDLRESGAIEQDADVILFIYRDEVY  413 (452)
Q Consensus       342 --~~--~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r----~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~  413 (452)
                        ++  ..+.+.+.++++.|+.+|+++||+|++++|+.......    ...+|.     +...+++.+++.++|.+..  
T Consensus       239 ~~rg~l~~rq~~L~~~~~~L~~lA~~~~vavvvTNqv~~~~~~~~~~~~~~~pa-----gG~~~~h~~~~Rl~l~k~~--  311 (344)
T PLN03187        239 TGRGELAERQQKLAQMLSRLTKIAEEFNVAVYMTNQVIADPGGGMFISDPKKPA-----GGHVLAHAATIRLMLRKGK--  311 (344)
T ss_pred             cCccchHHHHHHHHHHHHHHHHHHHHcCCEEEEEecEEEcCCcccccCCCCCCC-----CchhhheeeeEEEEEEcCC--
Confidence              11  13444578899999999999999999999997643211    112332     3446888899999997642  


Q ss_pred             ccCCCCCCeEEEEEeeccCCCcceEEEEE
Q psy2892         414 NQNSADKGIAEIIVSKQRNGPIGNIRLTF  442 (452)
Q Consensus       414 ~~~~~~~~~~~l~i~KnR~G~~g~~~l~f  442 (452)
                            ...+.+.+.|+|+.+.+...|..
T Consensus       312 ------~~~R~~~v~ksp~lp~~~~~f~I  334 (344)
T PLN03187        312 ------GEQRVCKVFDAPNLPEAEAEFQI  334 (344)
T ss_pred             ------CCeEEEEEEECCCCCCceEEEEE
Confidence                  12478999999999988876543

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=99.86  E-value=2.6e-20  Score=193.16  Aligned_cols=202  Identities=18%  Similarity=0.204  Sum_probs=148.1

Q ss_pred             CccccccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCc
Q psy2892         193 DVTGISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQ  271 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~  271 (452)
                      ...++|||++.||+++ ||+++|++++|+|+||+|||+|++|++.+.+.+.|.+|+|||+|++++++.+++.+  .|++.
T Consensus         9 ~~~ri~TGI~~LD~~l~GG~p~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~ge~~lyis~ee~~~~i~~~~~~--~g~d~   86 (509)
T PRK09302          9 GIEKLPTGIEGFDDITHGGLPKGRPTLVSGTAGTGKTLFALQFLVNGIKRFDEPGVFVTFEESPEDIIRNVAS--FGWDL   86 (509)
T ss_pred             CCccccCCchhHHHhhcCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCEEEEEccCCHHHHHHHHHH--cCCCH
Confidence            5568999999999995 79999999999999999999999999999886448999999999999999999986  46665


Q ss_pred             cccccCCCCcchHHHHHHHHHHHhCCCeEEEc----------CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         272 HKLRTGRLSSDDWPRINDSIKKINKSQLYIDE----------TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       272 ~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~----------~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                      ..+..                   +..+++.+          .....++.+...+.....+++ ++.||||+++.+....
T Consensus        87 ~~~~~-------------------~g~l~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~-~~~vVIDSls~l~~~~  146 (509)
T PRK09302         87 QKLID-------------------EGKLFILDASPDPSEQEEAGEYDLEALFIRIEYAIDKIG-AKRVVLDSIEALFSGF  146 (509)
T ss_pred             HHHhh-------------------CCeEEEEecCcccccccccccccHHHHHHHHHHHHHhhC-CCEEEECCHHHHHhhc
Confidence            54321                   11222211          223456777888888877775 9999999999865432


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCC
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKG  421 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~  421 (452)
                         +....+...+..|...+++.++++++++|.....          .++...+..++.||.|+.|......     ...
T Consensus       147 ---d~~~~~r~~l~~L~~~Lk~~g~TvLlt~~~~~~~----------~~~~~~~~~~~laDgVI~L~~~~~~-----~~~  208 (509)
T PRK09302        147 ---SNEAVVRRELRRLFAWLKQKGVTAVITGERGDEY----------GPLTRYGVEEFVSDCVIILRNRLEG-----EKR  208 (509)
T ss_pred             ---cCHHHHHHHHHHHHHHHHhCCCEEEEEECCccCc----------CCccccCceEEEeeEEEEEeEEccC-----CeE
Confidence               1222344556667777788999999999875421          1122233457799999999754321     223


Q ss_pred             eEEEEEeeccCCC
Q psy2892         422 IAEIIVSKQRNGP  434 (452)
Q Consensus       422 ~~~l~i~KnR~G~  434 (452)
                      .+.|.|.|.|...
T Consensus       209 ~R~l~I~K~Rg~~  221 (509)
T PRK09302        209 TRTLRILKYRGTT  221 (509)
T ss_pred             EEEEEEEECCCCC
Confidence            5789999999654

>TIGR02012 tigrfam_recA protein RecA

Probab=99.85  E-value=3.9e-20  Score=177.19  Aligned_cols=217  Identities=21%  Similarity=0.226  Sum_probs=152.8

Q ss_pred             CccccccCcccccccc--CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCC
Q psy2892         193 DVTGISTGFFELDKIT--SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLD  270 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~~--gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~  270 (452)
                      ....+|||++.||.++  |||++|.++.|+|+||+|||+||++++.+++. .|.+|+||++|.+.....    +...|++
T Consensus        32 ~~~~i~TGi~~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~-~g~~v~yId~E~~~~~~~----a~~lGvd  106 (321)
T TIGR02012        32 DVETISTGSLSLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQK-AGGTAAFIDAEHALDPVY----ARKLGVD  106 (321)
T ss_pred             cCceecCCCHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHH-cCCcEEEEcccchhHHHH----HHHcCCC
Confidence            4568999999999984  79999999999999999999999999999975 689999999999887642    2334554


Q ss_pred             ccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC--C---CCC
Q psy2892         271 QHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS--R---GEN  345 (452)
Q Consensus       271 ~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~--~---~~~  345 (452)
                      ..                         ++++.+.  .+.++....+..+.+..+ +++||||+++.+.+..  .   +++
T Consensus       107 ~~-------------------------~l~v~~p--~~~eq~l~~~~~li~~~~-~~lIVIDSv~al~~~~E~e~~~g~~  158 (321)
T TIGR02012       107 ID-------------------------NLLVSQP--DTGEQALEIAETLVRSGA-VDIIVVDSVAALVPKAEIEGEMGDS  158 (321)
T ss_pred             HH-------------------------HeEEecC--CCHHHHHHHHHHHhhccC-CcEEEEcchhhhccchhhccccccc
Confidence            32                         2333322  356777777777776664 9999999999887531  1   111


Q ss_pred             ----HHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccC-CCCC
Q psy2892         346 ----RATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQN-SADK  420 (452)
Q Consensus       346 ----~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~-~~~~  420 (452)
                          ....+...++.|..+++++||++|++.|+.-...... ..|  ..--|...+.+.+...+.+.|-...... +..-
T Consensus       159 ~~~~~aR~m~~~lr~L~~~l~~~~~tvi~tNQvr~~~g~~~-~~~--e~~~GG~aL~~~ss~r~~lrr~~~iK~~~~~~g  235 (321)
T TIGR02012       159 HVGLQARLMSQALRKLTGALSKSNTTAIFINQIREKIGVMF-GNP--ETTTGGRALKFYASVRLDIRRIGQVKQGEEVVG  235 (321)
T ss_pred             chhHHHHHHHHHHHHHHHHHHhCCCEEEEEecceeccCccc-CCC--ccCcCccHHHHHHhHhHhhhhhhccccCCceec
Confidence                1223457788899999999999999999875432111 111  1122344578899998888775432211 1122


Q ss_pred             CeEEEEEeeccCCCcce---EEEEEEcC
Q psy2892         421 GIAEIIVSKQRNGPIGN---IRLTFSGQ  445 (452)
Q Consensus       421 ~~~~l~i~KnR~G~~g~---~~l~f~~~  445 (452)
                      +.+.+.+.|||..+++.   +.+.|...
T Consensus       236 ~~~~~~v~Knk~~~p~~~~~~~i~~~~G  263 (321)
T TIGR02012       236 NRTKVKVVKNKVAPPFKEAEFDILYGEG  263 (321)
T ss_pred             cEEEEEEEECCCCCCCCceEEEEEcCCc
Confidence            45899999999987664   45556543

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.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=99.85  E-value=4.6e-20  Score=189.30  Aligned_cols=203  Identities=19%  Similarity=0.176  Sum_probs=151.6

Q ss_pred             ccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCcc
Q psy2892         194 VTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQH  272 (452)
Q Consensus       194 ~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~  272 (452)
                      ...++||+++||++ .||+++|.+++|.|+||+|||+|++|++.+.|. +|.+|+|||+|++++++..|+.+  .|++..
T Consensus       242 ~~~~~tGi~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~-~ge~~~y~s~eEs~~~i~~~~~~--lg~~~~  318 (484)
T TIGR02655       242 NVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACA-NKERAILFAYEESRAQLLRNAYS--WGIDFE  318 (484)
T ss_pred             ccccCCChHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHH-CCCeEEEEEeeCCHHHHHHHHHH--cCCChH
Confidence            44799999999998 688999999999999999999999999999985 79999999999999999999864  455543


Q ss_pred             ccccCCCCcchHHHHHHHHHHHhCCCeEEEc--CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHH
Q psy2892         273 KLRTGRLSSDDWPRINDSIKKINKSQLYIDE--TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEI  350 (452)
Q Consensus       273 ~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~--~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~  350 (452)
                      .+.                   ....+.+.+  ....++++....+.....+++ +++||||+++.+....   .. .++
T Consensus       319 ~~~-------------------~~g~l~~~~~~p~~~~~~~~~~~i~~~i~~~~-~~~vvIDsi~~~~~~~---~~-~~~  374 (484)
T TIGR02655       319 EME-------------------QQGLLKIICAYPESAGLEDHLQIIKSEIADFK-PARIAIDSLSALARGV---SN-NAF  374 (484)
T ss_pred             HHh-------------------hCCcEEEEEcccccCChHHHHHHHHHHHHHcC-CCEEEEcCHHHHHHhc---CH-HHH
Confidence            221                   122344443  334567788888877777775 9999999999886532   11 334


Q ss_pred             HHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeec
Q psy2892         351 SEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQ  430 (452)
Q Consensus       351 ~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~Kn  430 (452)
                      ..++..|..++|+.|++++++.+...-....  ..+       ...+++.||.|++|...+..     ..-...+.|.|.
T Consensus       375 r~~~~~l~~~lk~~~it~~~t~~~~~~~~~~--~~~-------~~~~s~l~D~ii~l~~~e~~-----g~~~r~i~V~K~  440 (484)
T TIGR02655       375 RQFVIGVTGYAKQEEITGFFTNTSDQFMGSH--SIT-------DSHISTITDTILMLQYVEIR-----GEMSRAINVFKM  440 (484)
T ss_pred             HHHHHHHHHHHhhCCCeEEEeecccccccCC--ccC-------CCCeeEeeeEEEEEEEEecC-----CEEEEEEEEEEc
Confidence            6677788899999999999998765422100  001       23578899999999765432     112356889999


Q ss_pred             cCCCcce
Q psy2892         431 RNGPIGN  437 (452)
Q Consensus       431 R~G~~g~  437 (452)
                      |.+....
T Consensus       441 R~~~~~~  447 (484)
T TIGR02655       441 RGSWHDK  447 (484)
T ss_pred             cCCCCCC
Confidence            9886443

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.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=99.85  E-value=6.1e-21  Score=172.99  Aligned_cols=171  Identities=25%  Similarity=0.333  Sum_probs=99.8

Q ss_pred             ccccccCccccccccCC-CCCCcEEEEEeCCCCChhHHHHHHHHHHHHh---------CCCcEEEEeCCCCHHHHHHHHH
Q psy2892         194 VTGISTGFFELDKITSG-LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE---------NKLPVAIFSMEMSGIQLAMRML  263 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG-~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~---------~g~~vl~~s~E~~~~~i~~R~~  263 (452)
                      ..+++++++.+|.+++| +.+|++++|+|+||+|||+|+++++.+++.+         .+.+|+|+++|++..++..|+.
T Consensus        11 ~~~~~~~~~~~~~li~g~~~~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~~~~~rl~   90 (193)
T PF13481_consen   11 FEDLDTGFPPLDWLIDGLLPRGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSESQIARRLR   90 (193)
T ss_dssp             --HHHS------EEETTEE-TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HHHHHHHHH
T ss_pred             hhhccCCCCCcceeECCcccCCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHHHHHHHHH
Confidence            34688999999999655 5689999999999999999999999999852         4679999999999999999998


Q ss_pred             HHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHH-cCCccEEEEcCcchhccCCC
Q psy2892         264 GSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQ-CGKIGVIIIDYLQLMSANSR  342 (452)
Q Consensus       264 a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~-~~~~~~vvID~l~~i~~~~~  342 (452)
                      +...+.          ...+...+....+ ....+++..+......+.....+.+...+ ++ +++||||+++.+.... 
T Consensus        91 ~~~~~~----------~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~lvviD~l~~~~~~~-  157 (193)
T PF13481_consen   91 ALLQDY----------DDDANLFFVDLSN-WGCIRLFEPDSGGPLLDEDLEELEAALKELYG-PDLVVIDPLQSLHDGD-  157 (193)
T ss_dssp             HHHTTS-----------HHHHHHHHHH---E-EE---TTS---TTSHHHHHHHHHHHTT-----SEEEEE-GGGG--S--
T ss_pred             HHhccc----------CCccceEEeeccc-cccceeeecccccccchHHHHHHHHHHhhcCC-CcEEEEcCHHHHhcCC-
Confidence            754322          1111111111111 11112222222222234445555555555 55 9999999999998763 


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcch
Q psy2892         343 GENRATEISEISRNLKGLAKEINCPILALSQLNRSL  378 (452)
Q Consensus       343 ~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~  378 (452)
                       .+....+..+++.|+.+|+++|++|++++|.+|+.
T Consensus       158 -~~~~~~~~~~~~~l~~la~~~~~~vi~v~H~~K~~  192 (193)
T PF13481_consen  158 -ENSNSAVAQLMQELKRLAKEYGVAVILVHHTNKSG  192 (193)
T ss_dssp             -TT-HHHHHHHHHHHHHHHHHH--EEEEEEEE----
T ss_pred             -CCCHHHHHHHHHHHHHHHHHcCCEEEEEECCCCCC
Confidence             55555668999999999999999999999999853

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=99.84  E-value=6.2e-20  Score=171.69  Aligned_cols=207  Identities=16%  Similarity=0.251  Sum_probs=140.2

Q ss_pred             cccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC-----CCcEEEEeCCCC--HHHHHHHHHHHhCC
Q psy2892         197 ISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN-----KLPVAIFSMEMS--GIQLAMRMLGSVGK  268 (452)
Q Consensus       197 i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~-----g~~vl~~s~E~~--~~~i~~R~~a~~~~  268 (452)
                      +|||++.||++ .||+++|+++.|.|+||+|||+|+++++.+.+...     +.+|+||++|.+  .+.+.+.+.+  .+
T Consensus         1 ~~tG~~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~~~~~--~~   78 (235)
T cd01123           1 LTTGSKALDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQIAER--FG   78 (235)
T ss_pred             CCCCchhhHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHHHHHH--hc
Confidence            58999999998 57999999999999999999999999998865432     478999999985  3333222211  11


Q ss_pred             CCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHH---HHHHHHHHHcCCccEEEEcCcchhccC---CC
Q psy2892         269 LDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELR---ANSRRLSRQCGKIGVIIIDYLQLMSAN---SR  342 (452)
Q Consensus       269 i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~---~~i~~~~~~~~~~~~vvID~l~~i~~~---~~  342 (452)
                      .+          .+   .       + ..++++...  .+.+++.   ..+.....+++++++||||+++.+...   ..
T Consensus        79 ~~----------~~---~-------~-~~~i~~~~~--~~~~~l~~~l~~l~~~l~~~~~~~liVIDSis~~~~~~~~~~  135 (235)
T cd01123          79 LD----------PE---E-------V-LDNIYVARA--YNSDHQLQLLEELEAILIESSRIKLVIVDSVTALFRAEFDGR  135 (235)
T ss_pred             cC----------hH---h-------H-hcCEEEEec--CCHHHHHHHHHHHHHHHhhcCCeeEEEEeCcHHHHHHHhcCC
Confidence            11          00   0       1 024555432  2334433   444444455524999999999976432   11


Q ss_pred             --CCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhc-----CCCCCCchhhhhhchhhhhhceeEEEecCccccc
Q psy2892         343 --GENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQR-----QNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQ  415 (452)
Q Consensus       343 --~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r-----~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~  415 (452)
                        ..++.+.+..+++.|+.+|++++|+|++++|+.......     ....|.     +...+.+.++..+++.+..    
T Consensus       136 ~~~~~r~~~l~~~~~~L~~la~~~~~avl~tn~~~~~~~~~~~~~~~~~~p~-----lG~~w~~~v~~Rl~l~~~~----  206 (235)
T cd01123         136 GELAERQQHLAKLLRTLKRLADEFNVAVVITNQVTARPDGAAMFGGDPKKPA-----GGNIWAHASTTRLYLRKGR----  206 (235)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHhCCEEEEeccEeecCCcccccCCCCeecc-----CccHhhCCceEEEEEEECC----
Confidence              124556788999999999999999999999998644321     111232     2346778888889998753    


Q ss_pred             CCCCCCeEEEEEeeccCCCcceEEEE
Q psy2892         416 NSADKGIAEIIVSKQRNGPIGNIRLT  441 (452)
Q Consensus       416 ~~~~~~~~~l~i~KnR~G~~g~~~l~  441 (452)
                          ...+.+.+.|++..+.+...|.
T Consensus       207 ----~~~r~~~i~k~~~~~~~~~~f~  228 (235)
T cd01123         207 ----GEERIAKIVDSPHLPEGEAVFA  228 (235)
T ss_pred             ----CCceEEEEeeCCCCCCceEEEE
Confidence                1346899999998885555443

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 .

>PRK09354 recA recombinase A; Provisional

Probab=99.84  E-value=3.8e-19  Score=171.58  Aligned_cols=219  Identities=20%  Similarity=0.236  Sum_probs=153.9

Q ss_pred             CccccccCccccccc-c-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCC
Q psy2892         193 DVTGISTGFFELDKI-T-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLD  270 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~  270 (452)
                      ....+|||++.||.+ . |||++|.++.|+|+||+|||+||++++.+++. .|.+|+||++|.+...-   . +...|++
T Consensus        37 ~~~~isTGi~~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~-~G~~~~yId~E~s~~~~---~-a~~lGvd  111 (349)
T PRK09354         37 DVEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQK-AGGTAAFIDAEHALDPV---Y-AKKLGVD  111 (349)
T ss_pred             CCceecCCcHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHH-cCCcEEEECCccchHHH---H-HHHcCCC
Confidence            355899999999998 4 69999999999999999999999999999974 68999999999988852   2 2234555


Q ss_pred             ccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC----C-CCC
Q psy2892         271 QHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS----R-GEN  345 (452)
Q Consensus       271 ~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~----~-~~~  345 (452)
                      .++                         +++.. + .+.++....+..+.+..+ +++||||++..+.+..    . ++.
T Consensus       112 ld~-------------------------lli~q-p-~~~Eq~l~i~~~li~s~~-~~lIVIDSvaaL~~~~E~eg~~gd~  163 (349)
T PRK09354        112 IDN-------------------------LLVSQ-P-DTGEQALEIADTLVRSGA-VDLIVVDSVAALVPKAEIEGEMGDS  163 (349)
T ss_pred             HHH-------------------------eEEec-C-CCHHHHHHHHHHHhhcCC-CCEEEEeChhhhcchhhhcCCcccc
Confidence            332                         23332 2 357777788887777764 9999999999887521    0 111


Q ss_pred             ----HHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCccccc-CCCCC
Q psy2892         346 ----RATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQ-NSADK  420 (452)
Q Consensus       346 ----~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~-~~~~~  420 (452)
                          ....+...++.|..+++++||++|++.|+.-....- ...|.  .--|..++.+.+.+.+.+.|...... ++..-
T Consensus       164 ~~~~qar~ms~~Lr~L~~~l~k~~itvI~tNQvr~~ig~~-~g~pe--~~~GG~aL~~~ss~rl~lrr~~~iK~~~~~~G  240 (349)
T PRK09354        164 HVGLQARLMSQALRKLTGNISKSNTTVIFINQIREKIGVM-FGNPE--TTTGGNALKFYASVRLDIRRIGTIKDGDEVIG  240 (349)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHcCcEEEEEEeeeeccccc-cCCCC--cCCCchhhHhhheeeeEEecccccccCCceec
Confidence                122345667888899999999999999987643211 01121  11234568899999999988653221 11112


Q ss_pred             CeEEEEEeeccCCCcce---EEEEEEcCcc
Q psy2892         421 GIAEIIVSKQRNGPIGN---IRLTFSGQYT  447 (452)
Q Consensus       421 ~~~~l~i~KnR~G~~g~---~~l~f~~~~~  447 (452)
                      +.+.+.+.|||..+++.   +.+.|..--.
T Consensus       241 ~~~r~~vvKnk~~~p~~~a~~~i~~~~Gi~  270 (349)
T PRK09354        241 NRTKVKVVKNKVAPPFKQAEFDIMYGEGIS  270 (349)
T ss_pred             ceEEEEEEecccCCCCCceEEEEEcCCccc
Confidence            45799999999887654   4555654433

>PF00772 DnaB: DnaB-like helicase N terminal domain; InterPro: IPR007693 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=99.83  E-value=1.1e-20  Score=153.19  Aligned_cols=102  Identities=43%  Similarity=0.713  Sum_probs=95.1

Q ss_pred             CCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHHHH
Q psy2892          15 PPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYL   94 (452)
Q Consensus        15 ~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~~l   94 (452)
                      +|+++++|++|||++|.+|+.+.++...|+|+||++|.||.||++|.+++++|.++|+.+|..++++.+....+||.+||
T Consensus         2 ~p~~~~aE~~lL~~lL~~~~~~~~i~~~L~~e~F~~~~h~~If~~i~~l~~~~~~id~~~v~~~l~~~~~~~~~~~~~~l   81 (103)
T PF00772_consen    2 LPYDIEAEKALLGALLNDPEAIDEIIDKLSPEDFYDPAHRRIFEAILELYREGEPIDPITVAEELSDEGKLKDIGGIEYL   81 (103)
T ss_dssp             SSHHHHHHHHHHHHHHHSCCHHHHHHTT-SGGGSSSHHHHHHHHHHHHHHHTTS--SHHHHHHHHHHTTTCCHHTHHHHH
T ss_pred             CCCcHHHHHHHHHHHHcChHHHHHHhccCCHHHhCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHCCCccccCHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999998888888999999


Q ss_pred             HHHHhcCCChHhHHHHHHHHHH
Q psy2892          95 NSLAQNIPSAANIRRYAEIVRD  116 (452)
Q Consensus        95 ~~l~~~~~~~~n~~~y~~~l~~  116 (452)
                      .++...+++..|+++|++.|++
T Consensus        82 ~~l~~~~~~~~~~~~y~~~i~e  103 (103)
T PF00772_consen   82 MELINNAPSIANLEDYAKIIKE  103 (103)
T ss_dssp             HHHHHHSSSSSTHHHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHhhC
Confidence            9999999998999999999986

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 N-terminal domain is required both for interaction with other proteins in the primosome and for DnaB helicase activity. This domain has a multi-helical structure that forms an orthogonal bundle [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1B79_D 1JWE_A 3GXV_C 3BGW_C 2R6D_B 2R6C_D 2R6E_B 2R6A_A 2VYE_A 2VYF_B ....

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=99.83  E-value=5.3e-19  Score=172.30  Aligned_cols=212  Identities=16%  Similarity=0.215  Sum_probs=145.3

Q ss_pred             CccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCC--CHHHHHHHHHH
Q psy2892         193 DVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEM--SGIQLAMRMLG  264 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~--~~~~i~~R~~a  264 (452)
                      ....++||.+.||++ .||+++|.++.|+|+||+|||+|++|++.+++..     .+.+|+||++|.  +++++.+.+.+
T Consensus        80 s~~~~~Tg~~~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~~~  159 (317)
T PRK04301         80 NVGKITTGSKELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEA  159 (317)
T ss_pred             cCCccCCCCHHHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHHHH
Confidence            345689999999998 5789999999999999999999999999988642     135899999999  46666665532


Q ss_pred             HhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCC-CHHHHHHHHHHHHHH-cCCccEEEEcCcchhccCC-
Q psy2892         265 SVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSL-NVIELRANSRRLSRQ-CGKIGVIIIDYLQLMSANS-  341 (452)
Q Consensus       265 ~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~-t~~~i~~~i~~~~~~-~~~~~~vvID~l~~i~~~~-  341 (452)
                        .|++.+.             +      +.  ++++...... ....+...+..+..+ . ++++||||+++.+.... 
T Consensus       160 --~g~~~~~-------------~------l~--~i~~~~~~~~~~~~~~~~~l~~~i~~~~-~~~lvVIDSisa~~~~~~  215 (317)
T PRK04301        160 --LGLDPDE-------------V------LD--NIHVARAYNSDHQMLLAEKAEELIKEGE-NIKLVIVDSLTAHFRAEY  215 (317)
T ss_pred             --cCCChHh-------------h------hc--cEEEEeCCCHHHHHHHHHHHHHHHhccC-ceeEEEEECchHHhhhhc
Confidence              2322211             0      11  3444432211 112334444455444 4 49999999999875431 


Q ss_pred             CCC----CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhc--CCCCCCchhhhhhchhhhhhceeEEEecCccccc
Q psy2892         342 RGE----NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQR--QNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQ  415 (452)
Q Consensus       342 ~~~----~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r--~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~  415 (452)
                      ...    .+.+.+..++..|+.+|+++||+||++.|+.......  ....|..     .-.+.+.+++.+.|.+..    
T Consensus       216 ~~~~~~~~r~~~l~~~~~~L~~la~~~~vavl~tnqv~~~~~~~~~~~~~~~~-----G~~~~~~~~~rl~l~k~~----  286 (317)
T PRK04301        216 VGRGNLAERQQKLNKHLHDLLRLADLYNAAVVVTNQVMARPDAFFGDPTQPIG-----GHILGHTATFRIYLRKSK----  286 (317)
T ss_pred             cCCccHHHHHHHHHHHHHHHHHHHHHhCCEEEEeceEEeccccccCccccCCc-----chHhHhheeEEEEEEecC----
Confidence            111    1234467888999999999999999999987643211  1123332     335788999999998642    


Q ss_pred             CCCCCCeEEEEEeeccCCCcceEEEE
Q psy2892         416 NSADKGIAEIIVSKQRNGPIGNIRLT  441 (452)
Q Consensus       416 ~~~~~~~~~l~i~KnR~G~~g~~~l~  441 (452)
                          .+.+.+.+.|+++++.|.+.|.
T Consensus       287 ----~~~R~~~v~k~~~~~~~~~~f~  308 (317)
T PRK04301        287 ----GNKRIARLVDSPHLPEGEAVFR  308 (317)
T ss_pred             ----CCceEEEEEeCCCCCCceEEEE
Confidence                1357899999999999887544

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=99.83  E-value=7.6e-19  Score=170.99  Aligned_cols=210  Identities=16%  Similarity=0.228  Sum_probs=143.9

Q ss_pred             CccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCC--CHHHHHHHHHH
Q psy2892         193 DVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEM--SGIQLAMRMLG  264 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~--~~~~i~~R~~a  264 (452)
                      ....++||.+.||.+ .||+++|.++.|+|+||+|||+|++|++.+++..     .+.+|+|+++|.  +++++.+.+.+
T Consensus        73 s~~~~~Tg~~~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~~~~  152 (310)
T TIGR02236        73 TIGKITTGSKELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMAEA  152 (310)
T ss_pred             cCCeecCCCHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHHHHH
Confidence            344688999999998 6799999999999999999999999999998631     134899999999  56655544332


Q ss_pred             HhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHH---HHHHHHHHHHHcC-CccEEEEcCcchhccC
Q psy2892         265 SVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIE---LRANSRRLSRQCG-KIGVIIIDYLQLMSAN  340 (452)
Q Consensus       265 ~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~---i~~~i~~~~~~~~-~~~~vvID~l~~i~~~  340 (452)
                        .|++..          ++         +  .++++...  .+.+.   +...+..+..+++ ++++||||+++.+...
T Consensus       153 --~gl~~~----------~~---------~--~~i~i~~~--~~~~~~~~lld~l~~~i~~~~~~~~lVVIDSisa~~r~  207 (310)
T TIGR02236       153 --RGLDPD----------EV---------L--KNIYVARA--YNSNHQMLLVEKAEDLIKELNNPVKLLIVDSLTSHFRA  207 (310)
T ss_pred             --cCCCHH----------HH---------h--hceEEEec--CCHHHHHHHHHHHHHHHHhcCCCceEEEEecchHhhhH
Confidence              232211          10         1  13555432  12111   2233334444442 3889999999987543


Q ss_pred             C-CCC----CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhh--cCCCCCCchhhhhhchhhhhhceeEEEecCccc
Q psy2892         341 S-RGE----NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQ--RQNKRPIMSDLRESGAIEQDADVILFIYRDEVY  413 (452)
Q Consensus       341 ~-~~~----~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~--r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~  413 (452)
                      . .+.    .+.+.+..++..|+.+|+++||+|+++.|+......  .....|     .+...+++.+++.+.|.+..  
T Consensus       208 e~~~~~~~~~r~~~l~~~~~~L~~~a~~~~~~v~~tnqv~~~~~~~~~~~~~~-----~~G~~~~h~~~~rl~l~~~~--  280 (310)
T TIGR02236       208 EYVGRGALAERQQKLNKHLHDLLRLADLYNAAVVVTNQVMARPDAFFGDPTRP-----IGGHILGHAATFRVYLRKGK--  280 (310)
T ss_pred             hhcCchhHHHHHHHHHHHHHHHHHHHHHhCcEEEEeceeeecCccccCccccC-----CcchhhhhheeEEEEEEecC--
Confidence            2 111    123446788889999999999999999999865321  111233     33457899999999998742  


Q ss_pred             ccCCCCCCeEEEEEeeccCCCcceEEE
Q psy2892         414 NQNSADKGIAEIIVSKQRNGPIGNIRL  440 (452)
Q Consensus       414 ~~~~~~~~~~~l~i~KnR~G~~g~~~l  440 (452)
                            .+.+.+.+.|||+++.|...|
T Consensus       281 ------~~~R~~~~~k~~~~~~~~~~f  301 (310)
T TIGR02236       281 ------GDKRIARLVDSPHLPEGEAVF  301 (310)
T ss_pred             ------CCeEEEEEEECCCCCCeeEEE
Confidence                  135789999999999998743

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.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=99.82  E-value=1.3e-18  Score=159.84  Aligned_cols=189  Identities=19%  Similarity=0.244  Sum_probs=130.2

Q ss_pred             cccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHHHHhCCCCccccccCCCCc
Q psy2892         204 LDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM-SGIQLAMRMLGSVGKLDQHKLRTGRLSS  281 (452)
Q Consensus       204 LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~-~~~~i~~R~~a~~~~i~~~~i~~g~l~~  281 (452)
                      ||++ .||+++|.++.|+|+||+|||+|+++++.+.+. .|.+|+||++|. ++..+.+...+.                
T Consensus         1 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~-~g~~v~yi~~e~~~~~rl~~~~~~~----------------   63 (209)
T TIGR02237         1 IDELLGGGVERGTITQIYGPPGSGKTNICMILAVNAAR-QGKKVVYIDTEGLSPERFKQIAEDR----------------   63 (209)
T ss_pred             ChhhhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHh-CCCeEEEEECCCCCHHHHHHHHHhC----------------
Confidence            6776 689999999999999999999999999999975 689999999995 766665543311                


Q ss_pred             chHHHHHHHHHHHhCCCeEEEcCCCCCHHHH---HHHHHHHHHHcCCccEEEEcCcchhccCC-CCC--CHHHHHHHHHH
Q psy2892         282 DDWPRINDSIKKINKSQLYIDETPSLNVIEL---RANSRRLSRQCGKIGVIIIDYLQLMSANS-RGE--NRATEISEISR  355 (452)
Q Consensus       282 ~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i---~~~i~~~~~~~~~~~~vvID~l~~i~~~~-~~~--~~~~~~~~i~~  355 (452)
                        ++.       + ..++++.+.  .+..++   ...+..+..++ ++++||||+++.+.... ...  .+...+...+.
T Consensus        64 --~~~-------~-~~~i~~~~~--~~~~~~~~~~~~l~~~~~~~-~~~lvVIDSis~l~~~~~~~~~~~~~~~l~~~~~  130 (209)
T TIGR02237        64 --PER-------A-LSNFIVFEV--FDFDEQGVAIQKTSKFIDRD-SASLVVVDSFTALYRLELSDDRISRNRELARQLT  130 (209)
T ss_pred             --hHH-------H-hcCEEEEEC--CCHHHHHHHHHHHHHHHhhc-CccEEEEeCcHHHhHHHhCCccHHHHHHHHHHHH
Confidence              001       1 124555433  333343   34444444444 49999999999875321 111  13445677788


Q ss_pred             HHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeeccCCCc
Q psy2892         356 NLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPI  435 (452)
Q Consensus       356 ~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~KnR~G~~  435 (452)
                      .|+.+|+++|+++++++|++..... ...+|     .++..+++.+|.++.|.+.+         +...+.+.|+|..+.
T Consensus       131 ~L~~~~~~~~v~vl~t~~~~~~~~~-~~~~~-----~gg~~~~~~~d~vi~l~~~~---------~~r~~~i~k~~~~~~  195 (209)
T TIGR02237       131 LLLSLARKKNLAVVITNQVYTDVNN-GTLRP-----LGGHLLEHWSKVILRLEKFR---------GRRLATLEKHRSRPE  195 (209)
T ss_pred             HHHHHHHHcCCEEEEEcccEEecCC-CCCcC-----CCcchhheeeeEEEEEEecC---------CEEEEEEEECCCCCC
Confidence            8999999999999999998754321 11123     23446799999999997641         235667888888776


Q ss_pred             ce
Q psy2892         436 GN  437 (452)
Q Consensus       436 g~  437 (452)
                      |.
T Consensus       196 ~~  197 (209)
T TIGR02237       196 GE  197 (209)
T ss_pred             CC
Confidence            54

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PTZ00035 Rad51 protein; Provisional

Probab=99.82  E-value=2.1e-18  Score=168.08  Aligned_cols=210  Identities=17%  Similarity=0.219  Sum_probs=144.6

Q ss_pred             CccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCCC--HHHHHHHHHH
Q psy2892         193 DVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEMS--GIQLAMRMLG  264 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~~--~~~i~~R~~a  264 (452)
                      ....++||++.||++ .||+++|+++.|.|+||+|||+|+++++.....-     .+.+|+||+.|.+  ++++..... 
T Consensus        96 ~~~~isTG~~~LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri~~ia~-  174 (337)
T PTZ00035         96 NIIRITTGSTQLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERIVQIAE-  174 (337)
T ss_pred             cCccccCCcHHHHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHHHHHHH-
Confidence            345799999999998 6899999999999999999999999999876421     3568999999985  555443322 


Q ss_pred             HhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHH---HHcCCccEEEEcCcchhccCC
Q psy2892         265 SVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLS---RQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       265 ~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~---~~~~~~~~vvID~l~~i~~~~  341 (452)
                       ..+++...             +      +  .++++..  ..+.+++...+..+.   .+. ++++||||+++.+....
T Consensus       175 -~~g~~~~~-------------~------l--~nI~~~~--~~~~e~~~~~l~~~~~~l~~~-~~~lvVIDSital~r~~  229 (337)
T PTZ00035        175 -RFGLDPED-------------V------L--DNIAYAR--AYNHEHQMQLLSQAAAKMAEE-RFALLIVDSATALFRVD  229 (337)
T ss_pred             -HhCCChHh-------------H------h--hceEEEc--cCCHHHHHHHHHHHHHHhhcc-CccEEEEECcHHhhhhh
Confidence             12222110             0      1  1344432  345555555443332   334 59999999999865432


Q ss_pred             -CC----CCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhc-----CCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         342 -RG----ENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQR-----QNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       342 -~~----~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r-----~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                       .+    ..+.+.+.+++..|+.+|+++||+|+++.|+.......     ....|.     +...+.+.+++.+.|.+..
T Consensus       230 ~~~~~~~~~r~~~l~~~~~~L~~la~~~~vavvvtNqv~~~~~~~~~~~~~~~~p~-----gG~~~~h~~~~Rl~l~k~~  304 (337)
T PTZ00035        230 YSGRGELAERQQHLGKFLRALQKLADEFNVAVVITNQVMADVDGASMFVADPKKPI-----GGHIIAHASTTRLSLRKGR  304 (337)
T ss_pred             ccCcccHHHHHHHHHHHHHHHHHHHHHcCcEEEEecceEEecCCccccCCCCccCC-----chHHHHhheeEEEEEEecC
Confidence             11    12344578899999999999999999999998754211     112332     3445788899999998652


Q ss_pred             ccccCCCCCCeEEEEEeeccCCCcceEEEE
Q psy2892         412 VYNQNSADKGIAEIIVSKQRNGPIGNIRLT  441 (452)
Q Consensus       412 ~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~  441 (452)
                              .+.+.+.+.|+++.+.+...|.
T Consensus       305 --------~~~R~~~i~ksp~~p~~~~~f~  326 (337)
T PTZ00035        305 --------GEQRICKIYDSPNLPESEAVFA  326 (337)
T ss_pred             --------CCeeEEEEEECCCCCCeeEEEE
Confidence                    1346788999999999886544

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=99.82  E-value=1.8e-18  Score=161.60  Aligned_cols=203  Identities=22%  Similarity=0.173  Sum_probs=141.2

Q ss_pred             CccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCc
Q psy2892         193 DVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQ  271 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~  271 (452)
                      ....++||++.||++ .||+++|.+++|.|+||+|||+|+.+++...+. +|.+|+|+++|.+++++..++.+  .|++.
T Consensus         3 ~~~~~~tGi~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~-~g~~~~y~~~e~~~~~~~~~~~~--~g~~~   79 (234)
T PRK06067          3 KKEIISTGNEELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGALK-QGKKVYVITTENTSKSYLKQMES--VKIDI   79 (234)
T ss_pred             CceEEecCCHHHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHHh-CCCEEEEEEcCCCHHHHHHHHHH--CCCCh
Confidence            455799999999998 589999999999999999999999999998875 79999999999999999999865  45554


Q ss_pred             cccc-cCCCCcchHHHHHHHHHHHhCCCeEEE--cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHH
Q psy2892         272 HKLR-TGRLSSDDWPRINDSIKKINKSQLYID--ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRAT  348 (452)
Q Consensus       272 ~~i~-~g~l~~~~~~~~~~a~~~l~~~~l~i~--~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~  348 (452)
                      .... .|.+.-.               ++...  .......+++...+.....+++ +++||||++..+....   + ..
T Consensus        80 ~~~~~~g~l~i~---------------~~~~~~~~~~~~~~~~ll~~l~~~i~~~~-~~~iviDs~t~~~~~~---~-~~  139 (234)
T PRK06067         80 SDFFLWGYLRIF---------------PLNTEGFEWNSTLANKLLELIIEFIKSKR-EDVIIIDSLTIFATYA---E-ED  139 (234)
T ss_pred             hHHHhCCCceEE---------------eccccccccCcchHHHHHHHHHHHHHhcC-CCEEEEecHHHHHhcC---C-HH
Confidence            4321 1111000               00000  0112345677777777776665 9999999999764321   2 23


Q ss_pred             HHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEe
Q psy2892         349 EISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVS  428 (452)
Q Consensus       349 ~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~  428 (452)
                      .+..+.+.|+.+++ .++++++++|......          .  ....+++.+|.++.|...+.     .....+.|.|.
T Consensus       140 ~~~~~l~~l~~l~~-~g~tvllt~~~~~~~~----------~--~~~~~~~l~DgvI~L~~~~~-----~~~~~r~l~i~  201 (234)
T PRK06067        140 DILNFLTEAKNLVD-LGKTILITLHPYAFSE----------E--LLSRIRSICDVYLKLRAEQI-----GGRYVKVLEVV  201 (234)
T ss_pred             HHHHHHHHHHHHHh-CCCEEEEEecCCcCCH----------H--HHHHHHhheEEEEEEEeecc-----CCEEeEEEEEE
Confidence            35666667776665 5888888887543211          0  12346888999999975432     12334679999


Q ss_pred             eccCCCcc
Q psy2892         429 KQRNGPIG  436 (452)
Q Consensus       429 KnR~G~~g  436 (452)
                      |.|.++..
T Consensus       202 K~Rg~~~~  209 (234)
T PRK06067        202 KLRGARKT  209 (234)
T ss_pred             hhcCCCCC
Confidence            99987543

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=99.82  E-value=9.3e-19  Score=164.60  Aligned_cols=210  Identities=20%  Similarity=0.328  Sum_probs=143.4

Q ss_pred             cccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCCCHHHHHHHHHHHhCC
Q psy2892         195 TGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEMSGIQLAMRMLGSVGK  268 (452)
Q Consensus       195 ~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~~~~~i~~R~~a~~~~  268 (452)
                      ..|+||.+.||.+ .||+++|.++-|+|+||+|||.||+|++.++...     .+.+|+||+.|.+-.  ..|+....- 
T Consensus        18 ~~i~Tg~~~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~--~~Rl~~i~~-   94 (256)
T PF08423_consen   18 SRISTGCKSLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFS--PERLQQIAE-   94 (256)
T ss_dssp             -EE--SSHHHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS---HHHHHHHHH-
T ss_pred             CeeCCCCHHHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCC--HHHHHHHhh-
Confidence            4799999999998 5789999999999999999999999999987642     256899999998532  123322110 


Q ss_pred             CCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHH---HHcCCccEEEEcCcchhccCC---C
Q psy2892         269 LDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLS---RQCGKIGVIIIDYLQLMSANS---R  342 (452)
Q Consensus       269 i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~---~~~~~~~~vvID~l~~i~~~~---~  342 (452)
                          +   -.++.+   .   .   +.  ++++..  ..+.+++.+.+..+.   .+. ++++||||++..+....   .
T Consensus        95 ----~---~~~~~~---~---~---l~--~I~v~~--~~~~~~l~~~L~~l~~~l~~~-~ikLIVIDSIaalfr~e~~~~  153 (256)
T PF08423_consen   95 ----R---FGLDPE---E---I---LD--NIFVIR--VFDLEELLELLEQLPKLLSES-KIKLIVIDSIAALFRSEFSGR  153 (256)
T ss_dssp             ----H---TTS-HH---H---H---HH--TEEEEE---SSHHHHHHHHHHHHHHHHHS-CEEEEEEETSSHHHHHHSGST
T ss_pred             ----c---cccccc---h---h---hh--ceeeee--cCCHHHHHHHHHHHHhhcccc-ceEEEEecchHHHHHHHHccc
Confidence                0   012111   1   1   21  455543  345666666665543   344 59999999999865321   1


Q ss_pred             C--CCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhc-----CCCCCCchhhhhhchhhhhhceeEEEecCccccc
Q psy2892         343 G--ENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQR-----QNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQ  415 (452)
Q Consensus       343 ~--~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r-----~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~  415 (452)
                      .  ..+...+..+++.|+.+|++++++|+++.|+.......     ...+|.+     +..+.+.+++.++|.+.+    
T Consensus       154 ~~~~~R~~~L~~~~~~L~~lA~~~~iaVvvTNqv~~~~~~~~~~~~~~~~Pal-----G~~w~h~~~~Rl~l~k~~----  224 (256)
T PF08423_consen  154 GDLAERQRMLARLARILKRLARKYNIAVVVTNQVTTKIDSNSLFDGDRLKPAL-----GHSWSHAVTTRLFLSKGR----  224 (256)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHHTT-EEEEEEEECSSTT----SSTTSEEETT-----HHHHHHHSSEEEEEEECS----
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHhCCceEEeeceeeecCCcccccccccceecC-----cchhhhhccEEEEEEeCC----
Confidence            1  23567789999999999999999999999998654331     1234543     345889999999998742    


Q ss_pred             CCCCCCeEEEEEeeccCCCcceEEEE
Q psy2892         416 NSADKGIAEIIVSKQRNGPIGNIRLT  441 (452)
Q Consensus       416 ~~~~~~~~~l~i~KnR~G~~g~~~l~  441 (452)
                          ...+.+.+.|+++-+.+.+.|.
T Consensus       225 ----~~~R~~~i~ksp~~p~~~~~f~  246 (256)
T PF08423_consen  225 ----GSERVATIVKSPSLPEGSASFQ  246 (256)
T ss_dssp             ----TTEEEEEEEECSSSSSEEEEEE
T ss_pred             ----CCeEEEEEeECCCCCCceEEEE
Confidence                1368899999999887766543

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 ....

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=99.81  E-value=1.1e-18  Score=181.10  Aligned_cols=201  Identities=19%  Similarity=0.177  Sum_probs=148.1

Q ss_pred             ccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCcc
Q psy2892         194 VTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQH  272 (452)
Q Consensus       194 ~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~  272 (452)
                      ...++||++.||++ .||+++|++++|.|+||+|||+|+++++.+.+. .|.+|+|||+|++++++..++.+  .|++..
T Consensus       252 ~~~~~tGi~~lD~~l~GG~~~g~~~li~G~~G~GKT~l~~~~~~~~~~-~g~~~~yis~e~~~~~i~~~~~~--~g~~~~  328 (509)
T PRK09302        252 NERISSGVPDLDEMLGGGFFRGSIILVSGATGTGKTLLASKFAEAACR-RGERCLLFAFEESRAQLIRNARS--WGIDLE  328 (509)
T ss_pred             cccccCCcHHHHHhhcCCCCCCcEEEEEcCCCCCHHHHHHHHHHHHHh-CCCcEEEEEecCCHHHHHHHHHH--cCCChH
Confidence            45799999999998 579999999999999999999999999999874 79999999999999999988753  466554


Q ss_pred             ccccCCCCcchHHHHHHHHHHHhCCCeEEE--cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHH
Q psy2892         273 KLRTGRLSSDDWPRINDSIKKINKSQLYID--ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEI  350 (452)
Q Consensus       273 ~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~--~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~  350 (452)
                      .+..                   ...+.+.  .....+++++...+.....+++ +++||||+|+.+....   . ...+
T Consensus       329 ~~~~-------------------~g~l~i~~~~~~~~~~~~~~~~i~~~i~~~~-~~~vVIDslt~l~~~~---~-~~~~  384 (509)
T PRK09302        329 KMEE-------------------KGLLKIICARPESYGLEDHLIIIKREIEEFK-PSRVAIDPLSALARGG---S-LNEF  384 (509)
T ss_pred             HHhh-------------------cCCceeecCCcccCCHHHHHHHHHHHHHHcC-CCEEEEcCHHHHHHhC---C-HHHH
Confidence            3211                   1122222  2234566777777777777775 9999999999886532   1 2345


Q ss_pred             HHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeec
Q psy2892         351 SEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQ  430 (452)
Q Consensus       351 ~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~Kn  430 (452)
                      .+.+..|..+++++|++++++.|........   ..     . ...+++.||.||.|...+..     ..-.+.+.|.|.
T Consensus       385 ~~~l~~l~~~~k~~~~t~l~t~~~~~~~g~~---~~-----~-~~~~~~l~D~vI~L~~~~~~-----~~~~R~l~I~K~  450 (509)
T PRK09302        385 RQFVIRLTDYLKSEEITGLFTNLTPDFMGSH---SI-----T-ESHISSLTDTWILLQYVEIN-----GEMNRALYVLKM  450 (509)
T ss_pred             HHHHHHHHHHHHhCCCeEEEEeccccccCCC---CC-----C-cCceEEeeeEEEEEEEeecC-----CeeEEEEEEEEc
Confidence            6778889999999999999999876422100   00     0 12467899999999875432     122467999999


Q ss_pred             cCCCc
Q psy2892         431 RNGPI  435 (452)
Q Consensus       431 R~G~~  435 (452)
                      |....
T Consensus       451 Rg~~~  455 (509)
T PRK09302        451 RGSWH  455 (509)
T ss_pred             CCCCC
Confidence            97653

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=99.80  E-value=2.8e-18  Score=176.14  Aligned_cols=199  Identities=19%  Similarity=0.173  Sum_probs=136.1

Q ss_pred             ccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCcccc
Q psy2892         196 GISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKL  274 (452)
Q Consensus       196 ~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i  274 (452)
                      .++||++.||++ .||+++|.+++|.|+||+|||+|++|++.+.+.+.|.+|+|||+|++++++..++.+  .|++...+
T Consensus         2 r~~TGI~gLD~il~GGlp~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~eE~~~~l~~~~~~--~G~~~~~~   79 (484)
T TIGR02655         2 KIRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTFEESPQDIIKNARS--FGWDLQKL   79 (484)
T ss_pred             cCCCCchhHHHhcCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEecCHHHHHHHHHH--cCCCHHHH
Confidence            489999999998 579999999999999999999999999999876458999999999999999999865  46665543


Q ss_pred             ccCCCCcchHHHHHHHHHHHhCCCeEEEcC----------CCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCC
Q psy2892         275 RTGRLSSDDWPRINDSIKKINKSQLYIDET----------PSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGE  344 (452)
Q Consensus       275 ~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~----------~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~  344 (452)
                      ..                   +..+++.+.          ..+.++.+...+.......+ ++.|+||++..+....  +
T Consensus        80 ~~-------------------~g~l~~~~~~~~~~~~~~~~~~~l~~~l~~i~~~ls~g~-~qRVvIDSl~aL~~~~--~  137 (484)
T TIGR02655        80 VD-------------------EGKLFILDASPDPEGQDVVGGFDLSALIERINYAIRKYK-AKRVSIDSVTAVFQQY--D  137 (484)
T ss_pred             hh-------------------cCceEEEecCchhccccccccCCHHHHHHHHHHHHHHhC-CcEEEEeehhHhhhhc--C
Confidence            21                   112222211          13456666666666656554 9999999998765432  1


Q ss_pred             CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEE
Q psy2892         345 NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAE  424 (452)
Q Consensus       345 ~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~  424 (452)
                      ........+.+-+ ...++.++++++++|......          +....+..+..||.|+.|.....     .....+.
T Consensus       138 ~~~~~r~~l~~Li-~~L~~~g~TvLLtsh~~~~~~----------~~~~~~~~e~laDgVI~L~~~~~-----~~~~~R~  201 (484)
T TIGR02655       138 AVSVVRREIFRLV-ARLKQIGVTTVMTTERIEEYG----------PIARYGVEEFVSDNVVILRNVLE-----GERRRRT  201 (484)
T ss_pred             chHHHHHHHHHHH-HHHHHCCCEEEEEecCccccc----------ccccCCceeEeeeeEEEEEEEec-----CCEEEEE
Confidence            1111112233333 333567999999998654221          11112234789999999975432     1122467


Q ss_pred             EEEeeccCCC
Q psy2892         425 IIVSKQRNGP  434 (452)
Q Consensus       425 l~i~KnR~G~  434 (452)
                      |.|.|.|...
T Consensus       202 l~I~K~Rgs~  211 (484)
T TIGR02655       202 LEILKLRGTS  211 (484)
T ss_pred             EEEEECCCCC
Confidence            9999999654

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.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=99.79  E-value=4.7e-18  Score=159.21  Aligned_cols=206  Identities=16%  Similarity=0.152  Sum_probs=142.2

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHh-----------CCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcc
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIE-----------NKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSD  282 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----------~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~  282 (452)
                      |.+.+|+|+||+|||+|++++|+++|..           .+.+|+|+++|++..++.+|+.+...++....+....+.. 
T Consensus         1 g~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~~~i~~Rl~~i~~~~~~~~~~~rl~~~-   79 (239)
T cd01125           1 GYVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPREEIHRRLEAILQHLEPDDAGDRLFID-   79 (239)
T ss_pred             CceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCHHHHHHHHHHHHhhcCCcCcccceEEe-
Confidence            6899999999999999999999998742           3568999999999999999998876554322111100000 


Q ss_pred             hHHHHHHHHHHHhCCCeEEEcCC-CCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHH
Q psy2892         283 DWPRINDSIKKINKSQLYIDETP-SLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLA  361 (452)
Q Consensus       283 ~~~~~~~a~~~l~~~~l~i~~~~-~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA  361 (452)
                                .....++.+.... ......+...++.+. ..+ +++||||++..+...  ..+....+..++..|+.++
T Consensus        80 ----------~g~~~~l~~~~~~~~~~~~~~~~l~~~~~-~~~-~~lvviDpl~~~~~~--~~~d~~~~~~~~~~L~~~a  145 (239)
T cd01125          80 ----------SGRIQPISIAREGRIIVVPEFERIIEQLL-IRR-IDLVVIDPLVSFHGV--SENDNGAMDAVIKALRRIA  145 (239)
T ss_pred             ----------ccCCCceecccCCcccccHHHHHHHHHHH-hcC-CCEEEECChHHhCCC--CcCCHHHHHHHHHHHHHHH
Confidence                      0001233333211 223345555444443 344 999999999887332  2445566778899999999


Q ss_pred             HHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccC------CCCCCeEEEEEeeccCC-C
Q psy2892         362 KEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQN------SADKGIAEIIVSKQRNG-P  434 (452)
Q Consensus       362 ~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~------~~~~~~~~l~i~KnR~G-~  434 (452)
                      +++|++|++++|.+|.....   .....+.|||.++...++.++.+.+......+      +.....+++.+.|+-+| +
T Consensus       146 ~~~g~avl~v~H~~K~~~~~---~~~~~~~rGssal~~~~r~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~k~n~~~~  222 (239)
T cd01125         146 AQTGAAILLVHHVRKGSAKD---GDTQEAARGASALVDGARWVRALTRMTSEEAEKMGVGKAQPGLFFRFGVSKKNNAAA  222 (239)
T ss_pred             HHhCCEEEEEeccCcccccC---cccccccCcHHHHhcccceEEEEeeCCHHHHHhcCCChhhcceEEEecccccccCCC
Confidence            99999999999999865321   14667899999999999999999986532211      11233567788888887 5


Q ss_pred             cce
Q psy2892         435 IGN  437 (452)
Q Consensus       435 ~g~  437 (452)
                      .+.
T Consensus       223 ~~~  225 (239)
T cd01125         223 TEA  225 (239)
T ss_pred             CCC
Confidence            554

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.

>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=99.76  E-value=2.5e-17  Score=148.36  Aligned_cols=177  Identities=21%  Similarity=0.176  Sum_probs=120.0

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHh
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKIN  295 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~  295 (452)
                      .++|.|+||+|||+|+++++...+. .|.+|+|+|+|++.+++..++.+.  |++...+..                   
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~~-~g~~v~~~s~e~~~~~~~~~~~~~--g~~~~~l~~-------------------   58 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGLA-RGEPGLYVTLEESPEELIENAESL--GWDLERLED-------------------   58 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHH-CCCcEEEEECCCCHHHHHHHHHHc--CCChHHHHh-------------------
Confidence            3789999999999999999999984 789999999999999999998754  666543321                   


Q ss_pred             CCCeEEEcCC--CCCH------HHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCc
Q psy2892         296 KSQLYIDETP--SLNV------IELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCP  367 (452)
Q Consensus       296 ~~~l~i~~~~--~~t~------~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~  367 (452)
                      ...+.+.+..  .++.      .++...+.+.....+ ++++|||+++.+...    +.......+.+.++.+. +.|++
T Consensus        59 ~g~l~~~d~~~~~~s~~~~~~~~~~~~~i~~~~~~~~-~~~lviD~~~~~~~~----~~~~~~~~i~~l~~~l~-~~g~t  132 (187)
T cd01124          59 EGLLAIVDADPDEIGPAESSLRLELIQRLKDAIEEFK-AKRVVIDSVSGLLLM----EQSTARLEIRRLLFALK-RFGVT  132 (187)
T ss_pred             cCCeEEEecCccccchhhhhhhHHHHHHHHHHHHHhC-CCEEEEeCcHHHhhc----ChHHHHHHHHHHHHHHH-HCCCE
Confidence            0112222211  1111      144566666656665 999999999987653    12222233444444444 45999


Q ss_pred             EEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeeccCCCc
Q psy2892         368 ILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPI  435 (452)
Q Consensus       368 vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~KnR~G~~  435 (452)
                      +++++|.....+          ...+++.+++.||.++.|.+....     ......+.|.|+|.++.
T Consensus       133 vi~v~~~~~~~~----------~~~~~~~~~~~aD~ii~l~~~~~~-----~~~~r~l~i~K~R~~~~  185 (187)
T cd01124         133 TLLTSEQSGLEG----------TGFGGGDVEYLVDGVIRLRLDEEG-----GRLRRSLSVVKMRGGPH  185 (187)
T ss_pred             EEEEeccccCCC----------cccCcCceeEeeeEEEEEEEEccC-----CEEEEEEEEEEccCCCC
Confidence            999999876431          123466789999999999876421     12246799999997654

A related protein is found in archaea.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=99.73  E-value=1.3e-16  Score=151.31  Aligned_cols=209  Identities=24%  Similarity=0.228  Sum_probs=147.2

Q ss_pred             cccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccc
Q psy2892         195 TGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHK  273 (452)
Q Consensus       195 ~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~  273 (452)
                      ..+|||++.||++ .||+++|.+++|.|+||+|||+|++|++.+.+. .|.+|+|+|+|.+++++.+.+.+  .|++...
T Consensus         3 ~~~~TGI~glD~~l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~-~ge~vlyvs~~e~~~~l~~~~~~--~g~d~~~   79 (260)
T COG0467           3 ERIPTGIPGLDEILGGGLPRGSVVLITGPPGTGKTIFALQFLYEGAR-EGEPVLYVSTEESPEELLENARS--FGWDLEV   79 (260)
T ss_pred             ccccCCCcchHHHhcCCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHh-cCCcEEEEEecCCHHHHHHHHHH--cCCCHHH
Confidence            4689999999998 678999999999999999999999999999985 69999999999999999988875  6777653


Q ss_pred             cc-cCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHH
Q psy2892         274 LR-TGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISE  352 (452)
Q Consensus       274 i~-~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~  352 (452)
                      +. .|.+.-.+...      ........+. ........+...++......+ ...+|||++..+....   +.......
T Consensus        80 ~~~~g~l~i~d~~~------~~~~~~~~~~-~~~~~~~~l~~~I~~~~~~~~-~~~~ViDsi~~~~~~~---~~~~~~r~  148 (260)
T COG0467          80 YIEKGKLAILDAFL------SEKGLVSIVV-GDPLDLEELLDRIREIVEKEG-ADRVVIDSITELTLYL---NDPALVRR  148 (260)
T ss_pred             HhhcCCEEEEEccc------cccccccccc-cCCccHHHHHHHHHHHHHHhC-CCEEEEeCCchHhhhc---CchHHHHH
Confidence            32 23221111000      0000000011 113567788888888888886 9999999999665432   22222367


Q ss_pred             HHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeE-EEEEeecc
Q psy2892         353 ISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIA-EIIVSKQR  431 (452)
Q Consensus       353 i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~-~l~i~KnR  431 (452)
                      +...++.+.++++++.+++++..-..  +.   +       ++-.+..+|.++.|......     ..... .+.+.|-|
T Consensus       149 ~~~~l~~~~~~~~~t~~~~~~~~~~~--~~---~-------~~~~~~~vdgvI~l~~~~~~-----~~~~r~~~~i~k~r  211 (260)
T COG0467         149 ILLLLKRFLKKLGVTSLLTTEAPVEE--RG---E-------SGVEEYIVDGVIRLDLKEIE-----GGGDRRYLRILKMR  211 (260)
T ss_pred             HHHHHHHHHHhCCCEEEEEecccccC--CC---c-------cceEEEEEEEEEEEeeeccc-----CceEEEEEEEEecc
Confidence            88899999999999999998864321  10   1       13445589999999764321     12334 78888988


Q ss_pred             CCC
Q psy2892         432 NGP  434 (452)
Q Consensus       432 ~G~  434 (452)
                      .-.
T Consensus       212 ~~~  214 (260)
T COG0467         212 GTP  214 (260)
T ss_pred             ccc
Confidence            633

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=99.72  E-value=8e-16  Score=161.86  Aligned_cols=211  Identities=19%  Similarity=0.186  Sum_probs=146.7

Q ss_pred             CccccccCcccccccc--CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCC
Q psy2892         193 DVTGISTGFFELDKIT--SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLD  270 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~~--gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~  270 (452)
                      ....++||++.||.++  |||++|.++.|+|+||+|||+|+++++.+++ ..|.+|+||+.|.+...-  +  +...|++
T Consensus        37 ~v~~isTGi~~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~a~-~~G~~v~yId~E~t~~~~--~--A~~lGvD  111 (790)
T PRK09519         37 PISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ-AAGGVAAFIDAEHALDPD--Y--AKKLGVD  111 (790)
T ss_pred             CCceecCCcHHHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEECCccchhHH--H--HHHcCCC
Confidence            4568999999999984  6999999999999999999999999999886 478999999999987732  2  2224555


Q ss_pred             ccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC----C-CCC
Q psy2892         271 QHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS----R-GEN  345 (452)
Q Consensus       271 ~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~----~-~~~  345 (452)
                      .++                         +.+..  ..+.+++...+..+.++.+ +++||||+++.+.+..    . ...
T Consensus       112 l~~-------------------------llv~~--~~~~E~~l~~i~~lv~~~~-~~LVVIDSI~aL~~r~E~~g~~g~~  163 (790)
T PRK09519        112 TDS-------------------------LLVSQ--PDTGEQALEIADMLIRSGA-LDIVVIDSVAALVPRAELEGEMGDS  163 (790)
T ss_pred             hhH-------------------------eEEec--CCCHHHHHHHHHHHhhcCC-CeEEEEcchhhhcchhhccCCCCcc
Confidence            432                         22222  2345667777777766654 9999999999887511    1 111


Q ss_pred             ---H-HHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCC-CCC
Q psy2892         346 ---R-ATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNS-ADK  420 (452)
Q Consensus       346 ---~-~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~-~~~  420 (452)
                         . ...+...++.|..+++++||++|++.|+.-....- ...|  ..--|...+.+.|.+-|.|.+.+...+.. ..-
T Consensus       164 ~~~~q~rl~~q~L~~L~~~l~~~nvtvi~TNQv~~~~g~~-fg~p--~~~~GG~~l~h~ss~Ri~lrk~~~ik~~~~~~G  240 (790)
T PRK09519        164 HVGLQARLMSQALRKMTGALNNSGTTAIFINQLRDKIGVM-FGSP--ETTTGGKALKFYASVRMDVRRVETLKDGTNAVG  240 (790)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHhCCCEEEEEecceecCCCc-CCCC--CcCCCCcccceeccEEEEeeeccccccCccccc
Confidence               1 22235677889999999999999999997644210 0111  11234567889999999998754322211 122


Q ss_pred             CeEEEEEeeccCCCcceEE
Q psy2892         421 GIAEIIVSKQRNGPIGNIR  439 (452)
Q Consensus       421 ~~~~l~i~KnR~G~~g~~~  439 (452)
                      +.+.+.+.||+.=+.++..
T Consensus       241 ~~~~~kv~ks~cLpe~e~v  259 (790)
T PRK09519        241 NRTRVKVVKNKCLAEGTRI  259 (790)
T ss_pred             eEEEEEEEECCCCCCceEE
Confidence            3578999999875555544

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=99.71  E-value=9.9e-16  Score=142.08  Aligned_cols=209  Identities=18%  Similarity=0.176  Sum_probs=136.4

Q ss_pred             cccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccc
Q psy2892         195 TGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHK  273 (452)
Q Consensus       195 ~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~  273 (452)
                      ..+.++++.||+. .||+++|++++|.|+||+|||+|+++++...+. +|.+++|+++|.++.++...+.+  .|++...
T Consensus         4 ~~~~~~~~~ld~~l~ggi~~g~~~~i~G~~G~GKTtl~~~~~~~~~~-~g~~~~yi~~e~~~~~~~~~~~~--~g~~~~~   80 (230)
T PRK08533          4 AKIELSRDELHKRLGGGIPAGSLILIEGDESTGKSILSQRLAYGFLQ-NGYSVSYVSTQLTTTEFIKQMMS--LGYDINK   80 (230)
T ss_pred             EEEEEEEeeeehhhCCCCCCCcEEEEECCCCCCHHHHHHHHHHHHHh-CCCcEEEEeCCCCHHHHHHHHHH--hCCchHH
Confidence            3578899999998 578999999999999999999999999999864 78999999999999999888743  3443332


Q ss_pred             cccCCCCcchHHHHHHHHHHHhCCCeEEEc-CCCC-CH---HHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHH
Q psy2892         274 LRTGRLSSDDWPRINDSIKKINKSQLYIDE-TPSL-NV---IELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRAT  348 (452)
Q Consensus       274 i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~-~~~~-t~---~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~  348 (452)
                      ..                   ....+.+.+ .+.. ..   +.....+....... +++++|||++..+....   ....
T Consensus        81 ~~-------------------~~~~l~~~~~~~~~~~~~~~~~~l~~il~~~~~~-~~~~lVIDe~t~~l~~~---~d~~  137 (230)
T PRK08533         81 KL-------------------ISGKLLYIPVYPLLSGNSEKRKFLKKLMNTRRFY-EKDVIIIDSLSSLISND---ASEV  137 (230)
T ss_pred             Hh-------------------hcCcEEEEEecccccChHHHHHHHHHHHHHHHhc-CCCEEEEECccHHhcCC---cchH
Confidence            11                   011222211 1111 11   22222222222334 48999999999765321   1112


Q ss_pred             HHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEe
Q psy2892         349 EISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVS  428 (452)
Q Consensus       349 ~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~  428 (452)
                      ....+.+.|+.++++ |++++++++......            .....+++.||.|+.|...+..     ..-.+.+.|.
T Consensus       138 ~~~~l~~~l~~l~~~-g~tvi~t~~~~~~~~------------~~~~~~~~~~DgvI~L~~~~~~-----~~~~R~i~V~  199 (230)
T PRK08533        138 AVNDLMAFFKRISSL-NKVIILTANPKELDE------------SVLTILRTAATMLIRLEVKVFG-----GDLKNSAKIV  199 (230)
T ss_pred             HHHHHHHHHHHHHhC-CCEEEEEeccccccc------------ccceeEEEeeeEEEEEEEeecC-----CEEEEEEEEE
Confidence            335566777777654 778888776542110            0123578999999999865432     1123679999


Q ss_pred             eccC--CCcc-eEEEEEEcCcc
Q psy2892         429 KQRN--GPIG-NIRLTFSGQYT  447 (452)
Q Consensus       429 KnR~--G~~g-~~~l~f~~~~~  447 (452)
                      |.|.  +.++ .++|.+.+..+
T Consensus       200 KmR~~~~~~~~~~~f~i~~~~g  221 (230)
T PRK08533        200 KYNMAKGSFQKSIPFRVEPKIG  221 (230)
T ss_pred             EecCCccccCCEEEEEEcCCcc
Confidence            9997  2334 57888876654

>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=99.69  E-value=3.2e-15  Score=142.88  Aligned_cols=215  Identities=19%  Similarity=0.191  Sum_probs=142.6

Q ss_pred             CccccccCccccccc-c-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCC
Q psy2892         193 DVTGISTGFFELDKI-T-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLD  270 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~  270 (452)
                      ....+|||++.||.. . |||++|.++.|+|++++|||+|+++++.++. +.|..|+||..|.+...   .+++ ..|++
T Consensus        30 ~~~~i~TG~~~LD~aLg~GG~p~G~ivEi~G~~ssGKttLaL~~ia~~q-~~g~~~a~ID~e~~ld~---~~a~-~lGvd  104 (322)
T PF00154_consen   30 NIEVISTGSPALDYALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQ-KQGGICAFIDAEHALDP---EYAE-SLGVD  104 (322)
T ss_dssp             SS-EE--S-HHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHH-HTT-EEEEEESSS---H---HHHH-HTT--
T ss_pred             ccceEecCCcccchhhccCccccCceEEEeCCCCCchhhhHHHHHHhhh-cccceeEEecCcccchh---hHHH-hcCcc
Confidence            456899999999997 3 7999999999999999999999999998875 46899999999987543   2222 24777


Q ss_pred             ccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC--------C
Q psy2892         271 QHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS--------R  342 (452)
Q Consensus       271 ~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~--------~  342 (452)
                      .++                         +++.. | -+.++..+.++.+.+.. .+++||||++..+.+..        .
T Consensus       105 l~r-------------------------llv~~-P-~~~E~al~~~e~lirsg-~~~lVVvDSv~al~p~~E~e~~~~~~  156 (322)
T PF00154_consen  105 LDR-------------------------LLVVQ-P-DTGEQALWIAEQLIRSG-AVDLVVVDSVAALVPKAELEGEIGDQ  156 (322)
T ss_dssp             GGG-------------------------EEEEE---SSHHHHHHHHHHHHHTT-SESEEEEE-CTT-B-HHHHTTSTSST
T ss_pred             ccc-------------------------eEEec-C-CcHHHHHHHHHHHhhcc-cccEEEEecCcccCCHHHHhhccccc
Confidence            653                         33332 2 24566677777777654 49999999999876531        0


Q ss_pred             C-CCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCC-
Q psy2892         343 G-ENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADK-  420 (452)
Q Consensus       343 ~-~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~-  420 (452)
                      . ......+...++.|..+..+.||++|++.|+....... ...|.  -..|..++.+.|++.+.+.+-+...+..+.- 
T Consensus       157 ~~g~~Ar~ms~~lr~lt~~l~~~~~~~i~INQ~R~~ig~~-~g~~~--~t~GG~alkfyas~rl~i~k~~~ik~~~~~iG  233 (322)
T PF00154_consen  157 QVGLQARLMSQALRKLTPLLSKSNTTLIFINQVRDKIGVM-FGNPE--TTPGGRALKFYASVRLEIRKKEQIKEGDEVIG  233 (322)
T ss_dssp             SSSHHHHHHHHHHHHHHHHHHTTT-EEEEEEEESSSSSSS-SSSSS--CCTSHHHHHHHCSEEEEEEEEEEEEETTCECE
T ss_pred             cCcchHHHHHHHHHHHHHHHHhhceEEEEeehHHHHHhhc-cCCCc--CCCCCchhhhhhhhHHhhhcccccccCCcccc
Confidence            1 12345678888888888999999999999998654321 11232  2347778999999999998764332222112 


Q ss_pred             CeEEEEEeeccCCCcce---EEEEEE
Q psy2892         421 GIAEIIVSKQRNGPIGN---IRLTFS  443 (452)
Q Consensus       421 ~~~~l~i~KnR~G~~g~---~~l~f~  443 (452)
                      ..+.+.+.|||..++-.   +.+.|+
T Consensus       234 ~~~~vkv~KnKva~P~k~a~~~i~y~  259 (322)
T PF00154_consen  234 NKIKVKVVKNKVAPPFKKAEFDIYYG  259 (322)
T ss_dssp             EEEEEEEEEESSS-TTEEEEEEEETT
T ss_pred             cEEEEEEEEcccCCCcceeEEEEecC
Confidence            24789999999986543   345543

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 ....

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=99.65  E-value=1.4e-14  Score=135.86  Aligned_cols=216  Identities=22%  Similarity=0.239  Sum_probs=149.4

Q ss_pred             CccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCc
Q psy2892         193 DVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQ  271 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~  271 (452)
                      ....++||...||.+ .||+++|.++-|+|++|+|||++|+|++.++.. .|..|+|++.|.+-+.-..+-++...    
T Consensus        38 ~~~~i~TGs~~LD~~LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~aq~-~g~~a~fIDtE~~l~p~r~~~l~~~~----  112 (279)
T COG0468          38 DIEAISTGSLALDEALGGGLPRGRITEIYGPESSGKTTLALQLVANAQK-PGGKAAFIDTEHALDPERAKQLGVDL----  112 (279)
T ss_pred             ccccccccchhHHHHhcCCcccceEEEEecCCCcchhhHHHHHHHHhhc-CCCeEEEEeCCCCCCHHHHHHHHHhh----
Confidence            355799999999998 689999999999999999999999999999964 67899999999754433333222100    


Q ss_pred             cccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcC-CccEEEEcCcchhccCCC-----CCC
Q psy2892         272 HKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCG-KIGVIIIDYLQLMSANSR-----GEN  345 (452)
Q Consensus       272 ~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~-~~~~vvID~l~~i~~~~~-----~~~  345 (452)
                                              ..++++..  ..+.++-...+..+..... ++++||||++..+.....     ...
T Consensus       113 ------------------------~d~l~v~~--~~~~e~q~~i~~~~~~~~~~~i~LvVVDSvaa~~r~~~~~d~~~~~  166 (279)
T COG0468         113 ------------------------LDNLLVSQ--PDTGEQQLEIAEKLARSGAEKIDLLVVDSVAALVRAEEIEDGHLGL  166 (279)
T ss_pred             ------------------------hcceeEec--CCCHHHHHHHHHHHHHhccCCCCEEEEecCcccchhhhcCcchHHH
Confidence                                    12455543  3445555555555544321 399999999998776431     122


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEE
Q psy2892         346 RATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEI  425 (452)
Q Consensus       346 ~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l  425 (452)
                      +.+.+...++.|..+|+++|++|+++.|+.-....-.+ .|  ..--|...+.+.|.+.+.+.+...-. +. ..+.+.+
T Consensus       167 ~~r~ls~~l~~L~~~a~~~~~~vi~~NQv~~k~~~~f~-~~--~~~~GG~~L~~~as~rl~l~k~~~~~-~~-~g~~r~~  241 (279)
T COG0468         167 RARLLSKALRKLTRLANKYNTAVIFTNQVRAKIGVMFG-DP--ETTTGGNALKFYASVRLDLRRIESLK-ED-VGNKRRV  241 (279)
T ss_pred             HHHHHHHHHHHHHHHHHHcCcEEEEECceeeecCcccC-Cc--ccCCCchHHHhhhheEEEEeeccccc-cc-cCCeEEE
Confidence            45567888899999999999999999999754322110 11  12234557788899999887763211 11 2346889


Q ss_pred             EEeeccCCCcc-eE--EEEEEc
Q psy2892         426 IVSKQRNGPIG-NI--RLTFSG  444 (452)
Q Consensus       426 ~i~KnR~G~~g-~~--~l~f~~  444 (452)
                      .+.|||+-|.+ .+  .+.|.+
T Consensus       242 ~vvk~~~~p~~~~a~f~I~~~~  263 (279)
T COG0468         242 KVVKNKVAPPFKEAEFDITYGG  263 (279)
T ss_pred             EEEeCCCCCCCceeEEEeecCc
Confidence            99999998877 44  445543

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=99.59  E-value=1.4e-14  Score=126.97  Aligned_cols=163  Identities=22%  Similarity=0.250  Sum_probs=112.6

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHh
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKIN  295 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~  295 (452)
                      +++|.|+||+|||+|+.+++..++. .+.+|+|++.|.+...+..++......                       ....
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~-~~~~v~~~~~e~~~~~~~~~~~~~~~~-----------------------~~~~   56 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIAT-KGGKVVYVDIEEEIEELTERLIGESLK-----------------------GALD   56 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHh-cCCEEEEEECCcchHHHHHHHhhhhhc-----------------------cccc
Confidence            4789999999999999999999875 689999999999988877665211000                       0011


Q ss_pred             CCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCC--CCCHHHHHHHHHHHHHHHHHHhCCcEEEEec
Q psy2892         296 KSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSR--GENRATEISEISRNLKGLAKEINCPILALSQ  373 (452)
Q Consensus       296 ~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~--~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~q  373 (452)
                      ...++...............+....... +++++|||+++.+.....  .......+...+..|...+++.++++|+++|
T Consensus        57 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~lviDe~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~vv~~~~  135 (165)
T cd01120          57 NLIIVFATADDPAAARLLSKAERLRERG-GDDLIILDELTRLVRALREIREGYPGELDEELRELLERARKGGVTVIFTLQ  135 (165)
T ss_pred             cEEEEEcCCCCCcHHHHHHHHHHHHhCC-CCEEEEEEcHHHHHHHHHHHHhcCChHHHHHHHHHHHHHhcCCceEEEEEe
Confidence            1122222333334444444455555555 499999999998764321  0112234567788889899999999999999


Q ss_pred             CCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         374 LNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       374 l~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      .++..+...+      +.+++..+++.||.++.|.|
T Consensus       136 ~~~~~~~~~~------~~~~~~~~~~~~d~~~~l~~  165 (165)
T cd01120         136 VPSGDKGDPR------LTRGAQNLEDIADTVIVLSR  165 (165)
T ss_pred             cCCccccCcc------cccCccceeeecceEEEEeC
Confidence            9886543322      16778899999999999864

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.

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.52  E-value=5.6e-13  Score=117.43  Aligned_cols=207  Identities=23%  Similarity=0.268  Sum_probs=138.8

Q ss_pred             cccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccc
Q psy2892         197 ISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLR  275 (452)
Q Consensus       197 i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~  275 (452)
                      +++|-++||+- .||++-|++++|-|..|+|||.|++++++.++ .+|++|.|+|.|++..+....|.+.-.++... +.
T Consensus        10 i~~gndelDkrLGGGiP~GsL~lIEGd~~tGKSvLsqr~~YG~L-~~g~~v~yvsTe~T~refi~qm~sl~ydv~~~-~l   87 (235)
T COG2874          10 IKSGNDELDKRLGGGIPVGSLILIEGDNGTGKSVLSQRFAYGFL-MNGYRVTYVSTELTVREFIKQMESLSYDVSDF-LL   87 (235)
T ss_pred             ccCCcHHHHhhccCCCccCeEEEEECCCCccHHHHHHHHHHHHH-hCCceEEEEEechhHHHHHHHHHhcCCCchHH-Hh
Confidence            78999999986 67899999999999999999999999999996 58999999999999999999998743332211 11


Q ss_pred             cCCCCcchHHHHHHHHHHHhCCCeEEE-c--CCCCC---HHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHH
Q psy2892         276 TGRLSSDDWPRINDSIKKINKSQLYID-E--TPSLN---VIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATE  349 (452)
Q Consensus       276 ~g~l~~~~~~~~~~a~~~l~~~~l~i~-~--~~~~t---~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~  349 (452)
                      .|.+                   .++. +  .-..+   -..+...+....+.. +-++||||+|..+...    +...+
T Consensus        88 ~G~l-------------------~~~~~~~~~~~~~~~~~~~~L~~l~~~~k~~-~~dViIIDSls~~~~~----~~~~~  143 (235)
T COG2874          88 SGRL-------------------LFFPVNLEPVNWGRRSARKLLDLLLEFIKRW-EKDVIIIDSLSAFATY----DSEDA  143 (235)
T ss_pred             ccee-------------------EEEEecccccccChHHHHHHHHHHHhhHHhh-cCCEEEEecccHHhhc----ccHHH
Confidence            1211                   1111 0  11111   122333332333333 4899999999987753    24457


Q ss_pred             HHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEee
Q psy2892         350 ISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSK  429 (452)
Q Consensus       350 ~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~K  429 (452)
                      +-+++..+|.++.+-.+.++.++|-.=. +          |.  -.-|.+.||+.+.|+-.+.-+     +-.-.+.+.|
T Consensus       144 vl~fm~~~r~l~d~gKvIilTvhp~~l~-e----------~~--~~rirs~~d~~l~L~~~~~Gg-----~~~~~~~i~K  205 (235)
T COG2874         144 VLNFMTFLRKLSDLGKVIILTVHPSALD-E----------DV--LTRIRSACDVYLRLRLEELGG-----DLIKVLEIVK  205 (235)
T ss_pred             HHHHHHHHHHHHhCCCEEEEEeChhhcC-H----------HH--HHHHHHhhheeEEEEhhhhCC-----eeeEEEEEee
Confidence            8899999999997555555554432211 0          11  234788999999998765422     2234677889


Q ss_pred             ccCCC--cce-EEEEEEcCcc
Q psy2892         430 QRNGP--IGN-IRLTFSGQYT  447 (452)
Q Consensus       430 nR~G~--~g~-~~l~f~~~~~  447 (452)
                      -|...  .|. +.+.-+|.++
T Consensus       206 ~~ga~~s~~~~I~F~V~P~~G  226 (235)
T COG2874         206 YRGARKSFQNIISFRVEPGFG  226 (235)
T ss_pred             ecCchhhcCCceeEEecCCCc
Confidence            88754  343 6777777654

>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]

Probab=99.46  E-value=1.8e-12  Score=120.34  Aligned_cols=150  Identities=19%  Similarity=0.280  Sum_probs=104.2

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHh---------CCCcEEEEeCCCCHHHHHHHHHHHhC--CCCccccccCCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE---------NKLPVAIFSMEMSGIQLAMRMLGSVG--KLDQHKLRTGRL  279 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~---------~g~~vl~~s~E~~~~~i~~R~~a~~~--~i~~~~i~~g~l  279 (452)
                      |+.|-.++|+|++|+|||+++++++.+++.+         ...+|+|+|+|..++.+++|+-....  |++...+++-.+
T Consensus        86 fr~g~~~~~~gdsg~GKttllL~l~IalaaG~~lfG~~v~epGkvlyvslEl~re~~L~Rl~~v~a~mgLsPadvrn~dl  165 (402)
T COG3598          86 FRKGYVSILYGDSGVGKTTLLLYLCIALAAGKNLFGNKVKEPGKVLYVSLELYREDILERLEPVRARMGLSPADVRNMDL  165 (402)
T ss_pred             hhcCeeEEEecCCcccHhHHHHHHHHHHHhhHHHhcccccCCCeEEEEEeccChHHHHHHHHHHHHHcCCChHhhhheec
Confidence            6778788999999999999999999998753         24579999999999999999865332  333333222111


Q ss_pred             CcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHH
Q psy2892         280 SSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKG  359 (452)
Q Consensus       280 ~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~  359 (452)
                      ++            +++.   -.....+.+ .+.........+. ++++||||++-.+..+.  ++.+.++..+++.+++
T Consensus       166 td------------~~Ga---a~~~d~l~p-kl~rRfek~~~Q~-rp~~vViDp~v~f~~G~--s~s~vqv~~fi~~~rk  226 (402)
T COG3598         166 TD------------VSGA---ADESDVLSP-KLYRRFEKILEQK-RPDFVVIDPFVAFYEGK--SISDVQVKEFIKKTRK  226 (402)
T ss_pred             cc------------cccC---CCccccccH-HHHHHHHHHHHHh-CCCeEEEcchhhhcCCc--cchhHHHHHHHHHHHH
Confidence            00            0000   000112333 2222222222333 59999999998887765  4555788999999999


Q ss_pred             HHHHhCCcEEEEecCCcchh
Q psy2892         360 LAKEINCPILALSQLNRSLE  379 (452)
Q Consensus       360 lA~~~~i~vi~l~ql~r~~~  379 (452)
                      +|..++|+||.+||.+++..
T Consensus       227 la~~l~caIiy~hHtskss~  246 (402)
T COG3598         227 LARNLECAIIYIHHTSKSSG  246 (402)
T ss_pred             HHHhcCCeEEEEeccccccC
Confidence            99999999999999998764

>KOG1434|consensus

Probab=99.44  E-value=5.3e-13  Score=119.73  Aligned_cols=190  Identities=19%  Similarity=0.231  Sum_probs=129.3

Q ss_pred             CccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHH-----hCCCcEEEEeCCCCHHHHHHHHHHHh
Q psy2892         193 DVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAI-----ENKLPVAIFSMEMSGIQLAMRMLGSV  266 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~-----~~g~~vl~~s~E~~~~~i~~R~~a~~  266 (452)
                      .+..|.||...||.+ +||++--+++-|+|.||+|||.+..+++..+-.     .-+.++.|+..|.+-.-=..+-+|-.
T Consensus        93 ~v~~ItTgs~~lD~ILGGGI~~m~iTEifGefr~GKTQlshtLcVt~QlPr~~Gg~~Gk~ifIDTEgtFrpdRi~~IAe~  172 (335)
T KOG1434|consen   93 TVGSITTGSSALDDILGGGIPSMSITEIFGEFRCGKTQLSHTLCVTVQLPREMGGVGGKAIFIDTEGTFRPDRIKDIAER  172 (335)
T ss_pred             ccceeecchHHHhhhhcCCccchhhHHHcCCCCcCccceeeEEEEEeecchhhCCCCceEEEEecCCccchHHHHHHHHH
Confidence            456899999999998 678999999999999999999999999987643     12568999999987543222223322


Q ss_pred             CCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHH---HHHHHHHcCCccEEEEcCcchhccCC--
Q psy2892         267 GKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRAN---SRRLSRQCGKIGVIIIDYLQLMSANS--  341 (452)
Q Consensus       267 ~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~---i~~~~~~~~~~~~vvID~l~~i~~~~--  341 (452)
                      .+++.+...         +       .    -+|+   ...+-++..+.   +.....++|+..+||||++......+  
T Consensus       173 ~~~d~d~~L---------d-------N----I~y~---Ra~~se~qmelv~~L~~~~se~g~~rlvIVDsIma~FRvDy~  229 (335)
T KOG1434|consen  173 FKVDPDFTL---------D-------N----ILYF---RAYNSEEQMELVYLLGDFLSEHGKYRLVIVDSIMALFRVDYD  229 (335)
T ss_pred             hCCCHHHHH---------H-------H----HHHH---HHcChHHHHHHHHHHHHHHhhcCcEEEEEEeceehheeeccc
Confidence            222221110         0       0    1121   12233343333   44445666789999999998765432  


Q ss_pred             -CC--CCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhh-----cCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         342 -RG--ENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQ-----RQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       342 -~~--~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~-----r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                       ++  ..|.+.+...+..|-.+|+++|++|+++.|+......     ..+..|...+     .+.+.+.+-+.|++.
T Consensus       230 grgeLseRqqkLn~ml~kl~~laeefnvAVfltNQvttdpga~~~f~s~~~kp~gGh-----~~aHAsttRlilrkg  301 (335)
T KOG1434|consen  230 GRGELSERQQKLNQMLQKLNKLAEEFNVAVFLTNQVTTDPGAGMTFASQDLKPAGGH-----SWAHASTTRLILRKG  301 (335)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHHhccEEEEEecceecCCcccccccccccCccccc-----hhhhhhheeEEEEcC
Confidence             22  2456678899999999999999999999999875533     3345665444     466667777777765

>KOG1564|consensus

Probab=99.37  E-value=2e-11  Score=111.37  Aligned_cols=167  Identities=17%  Similarity=0.240  Sum_probs=111.2

Q ss_pred             cccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHH-----hCCCcEEEEeCCCCHHHHHHHHHHHhCC
Q psy2892         195 TGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAI-----ENKLPVAIFSMEMSGIQLAMRMLGSVGK  268 (452)
Q Consensus       195 ~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~-----~~g~~vl~~s~E~~~~~i~~R~~a~~~~  268 (452)
                      ..+.||-..||+. .||+..+.++.|+|.+|+|||.|++|+++.+-.     +-|..++|++.|.+-..  .|+.....-
T Consensus        82 ~~lttgc~~LD~~L~GGi~~~giTEi~GeSg~GKtQL~lQL~L~VQLp~~~GGL~~~~vYI~TE~~fP~--rRL~qL~~~  159 (351)
T KOG1564|consen   82 SKLTTGCVALDECLRGGIPTDGITEICGESGCGKTQLLLQLSLCVQLPRSHGGLGGGAVYICTESPFPT--RRLHQLSHT  159 (351)
T ss_pred             hhcccccHHHHHHhcCCcccccHHHHhhccCCcHHHHHHHHHHHhhCchhhCCCCCceEEEEcCCCCcH--HHHHHHHHh
Confidence            4699999999998 689999999999999999999999999987743     13678999999987542  332221111


Q ss_pred             CCccccccCCCCcchHHHHHHHHHHHh--CCCeEEEcCCCCCHHHHHHHHHH----HHHHcCCccEEEEcCcchhccCC-
Q psy2892         269 LDQHKLRTGRLSSDDWPRINDSIKKIN--KSQLYIDETPSLNVIELRANSRR----LSRQCGKIGVIIIDYLQLMSANS-  341 (452)
Q Consensus       269 i~~~~i~~g~l~~~~~~~~~~a~~~l~--~~~l~i~~~~~~t~~~i~~~i~~----~~~~~~~~~~vvID~l~~i~~~~-  341 (452)
                      .+..       +.-+.+.+     ...  +..+|+....+  ++.+...+.+    +-.++ ++++||||++....... 
T Consensus       160 ~~~r-------p~~~~~~~-----~~~Npgd~IFv~~~~d--~d~l~~iv~~qlPiL~~r~-~i~LVIiDSVAa~fR~E~  224 (351)
T KOG1564|consen  160 LPQR-------PNPEKELN-----YNDNPGDHIFVENVHD--VDHLLHIVNRQLPILLNRK-KIKLVIIDSVAALFRSEF  224 (351)
T ss_pred             cccC-------CCcchhhh-----hccCCCceEEEEeccc--hhhHHHHHhhhccceeccC-cceEEEEehhhHHHHHHh
Confidence            1111       00111100     011  23477765432  3333333322    22333 59999999998765321 


Q ss_pred             C-----CCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcch
Q psy2892         342 R-----GENRATEISEISRNLKGLAKEINCPILALSQLNRSL  378 (452)
Q Consensus       342 ~-----~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~  378 (452)
                      .     ...+...+..++..|+.+|.+++++|+++.|+....
T Consensus       225 d~~~Sdl~~r~~~l~rla~~Lr~LA~~~~~aVV~~NQVtd~~  266 (351)
T KOG1564|consen  225 DYNPSDLKKRARHLFRLAGKLRQLASKFDLAVVCANQVTDRV  266 (351)
T ss_pred             ccChhhhhhHHHHHHHHHHHHHHHHHhcCccEEEeecccccc
Confidence            1     123456688999999999999999999999998653

>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins

Probab=99.07  E-value=2.5e-09  Score=102.49  Aligned_cols=203  Identities=15%  Similarity=0.224  Sum_probs=136.0

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDS  290 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a  290 (452)
                      -..|...+|-|.||+|||+|++.++..+.  ...+|+|+|.-.+...+.+........++...+.+  .+.+.+      
T Consensus         7 ~~~G~TLLIKG~PGTGKTtfaLelL~~l~--~~~~v~YISTRVd~d~vy~~y~~~~~~i~~~~vlD--atQd~~------   76 (484)
T PF07088_consen    7 QEPGQTLLIKGEPGTGKTTFALELLNSLK--DHGNVMYISTRVDQDTVYEMYPWIEESIDPTNVLD--ATQDPF------   76 (484)
T ss_pred             CCCCcEEEEecCCCCCceeeehhhHHHHh--ccCCeEEEEeccCHHHHHHhhhhhccccChhhhhh--hccchh------
Confidence            56799999999999999999999998874  35789999999988888877754444444322221  111100      


Q ss_pred             HHHHhCCCeEE-EcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC-CCCCHHHHHHHHHHHHHHHHHHhCCcE
Q psy2892         291 IKKINKSQLYI-DETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS-RGENRATEISEISRNLKGLAKEINCPI  368 (452)
Q Consensus       291 ~~~l~~~~l~i-~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~-~~~~~~~~~~~i~~~Lk~lA~~~~i~v  368 (452)
                           ..+... .......++.+...+.++.. .++..+|++|++..+-..- ...+..+.+..+...|-.+|++.++.+
T Consensus        77 -----~~~~~~~vp~~~l~~ds~~~f~~~i~~-~~k~~iI~~DSWdaiieyla~~~~~~ed~e~l~~dLv~lard~g~~L  150 (484)
T PF07088_consen   77 -----ELPLDKDVPFERLDIDSFRDFVDKINE-AGKKPIIAFDSWDAIIEYLAEEHDEPEDIETLTNDLVELARDMGINL  150 (484)
T ss_pred             -----hccccccCcccccCHHHHHHHHHHhhh-cccCcEEEEecHHHHHHHhhhhhcCcHHHHHHHHHHHHHHhhcCceE
Confidence                 011111 11123557788888876643 3457899999966554311 012223346677888889999999999


Q ss_pred             EEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeeccCCCcceEEEEEEcCccc
Q psy2892         369 LALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTK  448 (452)
Q Consensus       369 i~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~  448 (452)
                      |+++...+                 ...+++.+|-|+.|+-..+    +..+-.+.|.+.|-|--+.+.-.+.|..+.+|
T Consensus       151 IlVsEsa~-----------------~~~LdYivDGVVTL~v~~d----erGR~~R~L~LeKLRGV~I~q~~Y~fTL~nGr  209 (484)
T PF07088_consen  151 ILVSESAE-----------------NEPLDYIVDGVVTLQVKND----ERGRTRRYLRLEKLRGVRIKQRLYPFTLANGR  209 (484)
T ss_pred             EEEEecCC-----------------CCcchheeeeEEEEEeccc----cCCceEEEEEehhhcCcccCCccceEEeeCCE
Confidence            99986554                 2358999999999943221    12244678999999977777655557777777


Q ss_pred             ee
Q psy2892         449 FN  450 (452)
Q Consensus       449 f~  450 (452)
                      |.
T Consensus       210 F~  211 (484)
T PF07088_consen  210 FR  211 (484)
T ss_pred             EE
Confidence            74

GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding

>PRK04296 thymidine kinase; Provisional

Probab=98.68  E-value=2.5e-07  Score=83.42  Aligned_cols=141  Identities=14%  Similarity=0.148  Sum_probs=83.9

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKK  293 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~  293 (452)
                      |.++++.|+||+|||+++++++.+++. .|.+|+++........-..++ +...|++...                    
T Consensus         2 g~i~litG~~GsGKTT~~l~~~~~~~~-~g~~v~i~k~~~d~~~~~~~i-~~~lg~~~~~--------------------   59 (190)
T PRK04296          2 AKLEFIYGAMNSGKSTELLQRAYNYEE-RGMKVLVFKPAIDDRYGEGKV-VSRIGLSREA--------------------   59 (190)
T ss_pred             cEEEEEECCCCCHHHHHHHHHHHHHHH-cCCeEEEEeccccccccCCcE-ecCCCCcccc--------------------
Confidence            779999999999999999999999864 689999994321111111111 1111221110                    


Q ss_pred             HhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEec
Q psy2892         294 INKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQ  373 (452)
Q Consensus       294 l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~q  373 (452)
                           +.+     ....++...++.  .. +++++||||.+|.+..        .++    ..|-..++..+++|+++..
T Consensus        60 -----~~~-----~~~~~~~~~~~~--~~-~~~dvviIDEaq~l~~--------~~v----~~l~~~l~~~g~~vi~tgl  114 (190)
T PRK04296         60 -----IPV-----SSDTDIFELIEE--EG-EKIDCVLIDEAQFLDK--------EQV----VQLAEVLDDLGIPVICYGL  114 (190)
T ss_pred             -----eEe-----CChHHHHHHHHh--hC-CCCCEEEEEccccCCH--------HHH----HHHHHHHHHcCCeEEEEec
Confidence                 111     223455554444  22 3589999999987632        112    2344555678999999864


Q ss_pred             CCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         374 LNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       374 l~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      ... ...    .|    +..+..+...||.|..|..-
T Consensus       115 ~~~-~~~----~~----f~~~~~L~~~aD~V~~l~~v  142 (190)
T PRK04296        115 DTD-FRG----EP----FEGSPYLLALADKVTELKAI  142 (190)
T ss_pred             Ccc-ccc----Cc----CchHHHHHHhcCeEEEeeEE
Confidence            432 111    11    22345677789999988543

>PRK07773 replicative DNA helicase; Validated

Probab=98.66  E-value=2e-08  Score=110.62  Aligned_cols=63  Identities=40%  Similarity=0.761  Sum_probs=56.1

Q ss_pred             hhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         390 DLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       390 dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      ++--.+.|||+||+|++|||+++|+.+.+.+|.++|+|+|||+|++|++.+.|++++++|.++
T Consensus       821 g~~~hn~i~~dAD~v~~l~r~~~y~~~~~~~g~~e~ii~K~R~g~~g~~~~~~~~~~~~f~~~  883 (886)
T PRK07773        821 GIIVHNSIEQDADVVILLYRPDYYDRDDPRGGEAEFIVAKHRNGPTGTVTLAFQLHLSRFANL  883 (886)
T ss_pred             ceEecCceeccCCEEEEEechhhcCCCCCCCCceEEEEeccCCCCCceEEEEEecCcceeecc
Confidence            344467899999999999999999866666789999999999999999999999999999874

>KOG1433|consensus

Probab=98.61  E-value=3.5e-07  Score=87.64  Aligned_cols=163  Identities=18%  Similarity=0.263  Sum_probs=99.5

Q ss_pred             CccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHH--hCCC
Q psy2892         193 DVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGS--VGKL  269 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~--~~~i  269 (452)
                      ...-++||...||++ .||+.-|.++.|.|+||+|||.|++.++... ......|+|+..|-. .+ .+|....  ..+.
T Consensus        89 ~~~~l~Tg~~~lD~lL~gGi~~g~~TEi~G~p~~GKtQlc~~~~v~~-~gge~~~l~IDs~s~-~~-~~~~~~ia~~~~~  165 (326)
T KOG1433|consen   89 ELGFLSTGSKALDKLLGGGIETGSLTELVGPPGSGKTQLCHTLAVTC-GGGEGKVLYIDTEST-FR-LERLTEIAGRSGL  165 (326)
T ss_pred             cceeeccchhhhhHhhccCcccCceeEEecCCCccHHHHHHHHHHhc-cCCcceEEEEecchh-cc-cchhhhhhhhhhh
Confidence            445799999999998 6899999999999999999999998887764 223568999999864 11 1222111  0111


Q ss_pred             CccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC-C----CC
Q psy2892         270 DQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS-R----GE  344 (452)
Q Consensus       270 ~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~-~----~~  344 (452)
                      ...+         -..++.-+..       +-.+   -+...+ ..+..+..+. +..++++|+........ .    ..
T Consensus       166 ~~~~---------~~~~l~~~~~-------~~~~---~~l~~~-~~a~~~~~~~-~~~l~~vds~ta~~~~~~~g~~~~~  224 (326)
T KOG1433|consen  166 RGRD---------TLSNLMLARA-------YNLD---HQLQLI-QEAEIMINQS-RVKLLIVDSATALYRTTFKGRGELS  224 (326)
T ss_pred             hhHH---------HHHHHHHHHH-------HhhH---HHHHHH-HHHHHHhhcc-ceeEEEecccccccccccccccchH
Confidence            1110         0001111100       0000   001111 1122222333 47899999988765432 1    11


Q ss_pred             CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchh
Q psy2892         345 NRATEISEISRNLKGLAKEINCPILALSQLNRSLE  379 (452)
Q Consensus       345 ~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~  379 (452)
                      .+..-.....+.|+.++++++++||+.+|+.+...
T Consensus       225 a~~~~~~~~~~~l~~la~~~g~~vvitn~v~~~~d  259 (326)
T KOG1433|consen  225 ARQMLLAKFLRSLKKLADEFGVAVVITNQVTAQVD  259 (326)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCceEEEecccccccc
Confidence            22233567788999999999999999999987653

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

Probab=98.49  E-value=5.6e-07  Score=75.69  Aligned_cols=118  Identities=19%  Similarity=0.247  Sum_probs=78.3

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHh----CCCcEEEEeCCC--CHHHHHHHHHHHhCCCCccccccCCCCcchHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIE----NKLPVAIFSMEM--SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWP  285 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~----~g~~vl~~s~E~--~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~  285 (452)
                      +.+.+++|.|+||+|||+++.+++......    ...+++|+++..  +...+...+.... +.+.              
T Consensus         2 ~~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l-~~~~--------------   66 (131)
T PF13401_consen    2 QSQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEAL-GLPL--------------   66 (131)
T ss_dssp             -----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHH-T-SS--------------
T ss_pred             CCCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHh-Cccc--------------
Confidence            346789999999999999999999987532    146788775542  3344544444321 1111              


Q ss_pred             HHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhC
Q psy2892         286 RINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEIN  365 (452)
Q Consensus       286 ~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~  365 (452)
                                        ....+..++.+.+.+....++ ..+||||.++.+. .          ...+..|+.++.+.+
T Consensus        67 ------------------~~~~~~~~l~~~~~~~l~~~~-~~~lviDe~~~l~-~----------~~~l~~l~~l~~~~~  116 (131)
T PF13401_consen   67 ------------------KSRQTSDELRSLLIDALDRRR-VVLLVIDEADHLF-S----------DEFLEFLRSLLNESN  116 (131)
T ss_dssp             ------------------SSTS-HHHHHHHHHHHHHHCT-EEEEEEETTHHHH-T----------HHHHHHHHHHTCSCB
T ss_pred             ------------------cccCCHHHHHHHHHHHHHhcC-CeEEEEeChHhcC-C----------HHHHHHHHHHHhCCC
Confidence                              013456777777777777765 6799999999975 1          356778888888999


Q ss_pred             CcEEEEecC
Q psy2892         366 CPILALSQL  374 (452)
Q Consensus       366 i~vi~l~ql  374 (452)
                      +++|++.+.
T Consensus       117 ~~vvl~G~~  125 (131)
T PF13401_consen  117 IKVVLVGTP  125 (131)
T ss_dssp             EEEEEEESS
T ss_pred             CeEEEEECh
Confidence            999999875

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=98.48  E-value=2.4e-06  Score=79.03  Aligned_cols=180  Identities=16%  Similarity=0.193  Sum_probs=106.8

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC---------------CCcEEEEeC----CCCHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN---------------KLPVAIFSM----EMSGIQLAMRM  262 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~---------------g~~vl~~s~----E~~~~~i~~R~  262 (452)
                      +.|+.+.-.+.+|+++.|.||.|+|||||..-++--.--..               +.++.|+.-    +-+-.--+.++
T Consensus        18 ~vl~~i~l~v~~G~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~   97 (254)
T COG1121          18 PVLEDISLSVEKGEITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDV   97 (254)
T ss_pred             eeeeccEEEEcCCcEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHH
Confidence            46777766799999999999999999999987765221001               135666522    11111122233


Q ss_pred             HHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHH-HHHHHHcCCccEEEEcCcchhccCC
Q psy2892         263 LGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANS-RRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       263 ~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i-~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                      +.. .......+ -+.++..+++++.++.+.+.-..+.-..-..+|=.+....+ .+....  +++++++|--..     
T Consensus        98 V~~-g~~~~~g~-~~~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lARAL~~--~p~lllLDEP~~-----  168 (254)
T COG1121          98 VLL-GRYGKKGW-FRRLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLARALAQ--NPDLLLLDEPFT-----  168 (254)
T ss_pred             HHc-cCcccccc-cccccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHHHhcc--CCCEEEecCCcc-----
Confidence            321 11111111 12356677888888887764222222223345555554432 222222  599999998421     


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcc
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEV  412 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~  412 (452)
                       +-+. .....+++-|+.+.++ |++|++++|=                   -+...+.+|.|+.|.|.-.
T Consensus       169 -gvD~-~~~~~i~~lL~~l~~e-g~tIl~vtHD-------------------L~~v~~~~D~vi~Ln~~~~  217 (254)
T COG1121         169 -GVDV-AGQKEIYDLLKELRQE-GKTVLMVTHD-------------------LGLVMAYFDRVICLNRHLI  217 (254)
T ss_pred             -cCCH-HHHHHHHHHHHHHHHC-CCEEEEEeCC-------------------cHHhHhhCCEEEEEcCeeE
Confidence             1121 2235788889999999 9999999982                   1346778999999988643

>COG4604 CeuD ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.47  E-value=2.6e-06  Score=74.76  Aligned_cols=157  Identities=21%  Similarity=0.314  Sum_probs=92.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC---CHHHHHHHHHHHhC-------CCCcc
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM---SGIQLAMRMLGSVG-------KLDQH  272 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~---~~~~i~~R~~a~~~-------~i~~~  272 (452)
                      -||.+.--+++|.++-+.||.|+||||++.-++.-... ....|.+=..|+   +..+++.+ ++.+-       .+..+
T Consensus        16 vl~~isl~i~~g~iTs~IGPNGAGKSTLLS~~sRL~~~-d~G~i~i~g~~~~~~~s~~LAk~-lSILkQ~N~i~~rlTV~   93 (252)
T COG4604          16 VLDDVSLDIPKGGITSIIGPNGAGKSTLLSMMSRLLKK-DSGEITIDGLELTSTPSKELAKK-LSILKQENHINSRLTVR   93 (252)
T ss_pred             eeccceeeecCCceeEEECCCCccHHHHHHHHHHhccc-cCceEEEeeeecccCChHHHHHH-HHHHHhhchhhheeEHH
Confidence            35555456899999999999999999987755554432 223354444443   23344444 33321       11111


Q ss_pred             c--------cccCCCCcchHHHHHHHHHHHhCCCe---EEEcCCCCCHHHH-HHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         273 K--------LRTGRLSSDDWPRINDSIKKINKSQL---YIDETPSLNVIEL-RANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       273 ~--------i~~g~l~~~~~~~~~~a~~~l~~~~l---~i~~~~~~t~~~i-~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                      .        .-.|.++.++|..+.+|++.+.-.++   |++.   +|-.+- ++.+ .+.-.. ..+.|++|.      +
T Consensus        94 dLv~FGRfPYSqGRlt~eD~~~I~~aieyl~L~~l~dryLd~---LSGGQrQRAfI-AMVlaQ-dTdyvlLDE------P  162 (252)
T COG4604          94 DLVGFGRFPYSQGRLTKEDRRIINEAIEYLHLEDLSDRYLDE---LSGGQRQRAFI-AMVLAQ-DTDYVLLDE------P  162 (252)
T ss_pred             HHhhcCCCcccCCCCchHHHHHHHHHHHHhcccchHHHhHHh---cccchhhhhhh-heeeec-cCcEEEecC------c
Confidence            1        12478999999999999988753322   2222   121222 2222 222223 378888886      2


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEec
Q psy2892         341 SRGENRATEISEISRNLKGLAKEINCPILALSQ  373 (452)
Q Consensus       341 ~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~q  373 (452)
                      -.+-+-.. -.++++.|+++|.|+|-+|+++-|
T Consensus       163 LNNLDmkH-sv~iMk~Lrrla~el~KtiviVlH  194 (252)
T COG4604         163 LNNLDMKH-SVQIMKILRRLADELGKTIVVVLH  194 (252)
T ss_pred             ccccchHH-HHHHHHHHHHHHHHhCCeEEEEEe
Confidence            21222222 347899999999999988777654

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=98.42  E-value=1.7e-06  Score=76.20  Aligned_cols=44  Identities=23%  Similarity=0.326  Sum_probs=34.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH-HHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG-IQLAMRML  263 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~-~~i~~R~~  263 (452)
                      +++|.|+||+|||+||.+++..    .+.+++|++.+.+. .++..|+.
T Consensus         1 ~~li~G~~~sGKS~~a~~~~~~----~~~~~~y~at~~~~d~em~~rI~   45 (169)
T cd00544           1 IILVTGGARSGKSRFAERLAAE----LGGPVTYIATAEAFDDEMAERIA   45 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHHHh----cCCCeEEEEccCcCCHHHHHHHH
Confidence            4789999999999999999864    46799999887664 33455543

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=98.41  E-value=6.7e-06  Score=76.54  Aligned_cols=181  Identities=16%  Similarity=0.171  Sum_probs=104.4

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC----CCCHHHHHHHHHHHhC-------CCC
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM----EMSGIQLAMRMLGSVG-------KLD  270 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~----E~~~~~i~~R~~a~~~-------~i~  270 (452)
                      +-|+.+.-.+++|+++.|.||.|+||||++..++.-..-.  ...+++..    +++..+++.++ +...       ++.
T Consensus        16 ~il~~ls~~i~~G~i~~iiGpNG~GKSTLLk~l~g~l~p~--~G~V~l~g~~i~~~~~kelAk~i-a~vpQ~~~~~~~~t   92 (258)
T COG1120          16 PILDDLSFSIPKGEITGILGPNGSGKSTLLKCLAGLLKPK--SGEVLLDGKDIASLSPKELAKKL-AYVPQSPSAPFGLT   92 (258)
T ss_pred             eEEecceEEecCCcEEEEECCCCCCHHHHHHHHhccCCCC--CCEEEECCCchhhcCHHHHhhhE-EEeccCCCCCCCcE
Confidence            3456664568999999999999999999999888755322  22344433    34445555443 2111       111


Q ss_pred             cccc-cc---------CCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHH-HHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         271 QHKL-RT---------GRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELR-ANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       271 ~~~i-~~---------g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~-~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      ...+ .-         +..+++|.+.+.++.+.+.-..+.-..-..+|=.+-. ..+.+...+  +++++++|.-+..  
T Consensus        93 V~d~V~~GR~p~~~~~~~~~~~D~~~v~~aL~~~~~~~la~r~~~~LSGGerQrv~iArALaQ--~~~iLLLDEPTs~--  168 (258)
T COG1120          93 VYELVLLGRYPHLGLFGRPSKEDEEIVEEALELLGLEHLADRPVDELSGGERQRVLIARALAQ--ETPILLLDEPTSH--  168 (258)
T ss_pred             EeehHhhcCCcccccccCCCHhHHHHHHHHHHHhCcHHHhcCcccccChhHHHHHHHHHHHhc--CCCEEEeCCCccc--
Confidence            1110 00         1346667777777766653222111111223333322 223233333  4999999985432  


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCccc
Q psy2892         340 NSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVY  413 (452)
Q Consensus       340 ~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~  413 (452)
                          -+-..+ -++++-+++++++.|.+||++.|--                   ..-...||.+++|...+.+
T Consensus       169 ----LDi~~Q-~evl~ll~~l~~~~~~tvv~vlHDl-------------------N~A~ryad~~i~lk~G~i~  218 (258)
T COG1120         169 ----LDIAHQ-IEVLELLRDLNREKGLTVVMVLHDL-------------------NLAARYADHLILLKDGKIV  218 (258)
T ss_pred             ----cCHHHH-HHHHHHHHHHHHhcCCEEEEEecCH-------------------HHHHHhCCEEEEEECCeEE
Confidence                222223 4789999999999999888776621                   1234578999999865543

>PF13479 AAA_24: AAA domain

Probab=98.37  E-value=5.3e-06  Score=76.22  Aligned_cols=148  Identities=14%  Similarity=0.165  Sum_probs=87.2

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKI  294 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l  294 (452)
                      --++|.|+||+|||+|+..+         .+++|+++|-....+....     +.+                        
T Consensus         4 ~~~lIyG~~G~GKTt~a~~~---------~k~l~id~E~g~~~~~~~~-----~~~------------------------   45 (213)
T PF13479_consen    4 IKILIYGPPGSGKTTLAASL---------PKPLFIDTENGSDSLKFLD-----DGD------------------------   45 (213)
T ss_pred             eEEEEECCCCCCHHHHHHhC---------CCeEEEEeCCCccchhhhc-----CCC------------------------
Confidence            35899999999999999876         5799999998743221110     000                        


Q ss_pred             hCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc------C-------CC--C---CCHHHHHHH-HHH
Q psy2892         295 NKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA------N-------SR--G---ENRATEISE-ISR  355 (452)
Q Consensus       295 ~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~------~-------~~--~---~~~~~~~~~-i~~  355 (452)
                         .+.|     .+++++.+.+..+.......+.||||+++.+..      .       .+  .   ...+..+.. +.+
T Consensus        46 ---~i~i-----~s~~~~~~~~~~l~~~~~~y~tiVIDsis~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yg~~~~~~~~  117 (213)
T PF13479_consen   46 ---VIPI-----TSWEDFLEALDELEEDEADYDTIVIDSISWLEDMCLEYICRQNKKKIKRSGDPDYGKGYGELQQEFMR  117 (213)
T ss_pred             ---eeCc-----CCHHHHHHHHHHHHhccCCCCEEEEECHHHHHHHHHHHHhhhhcccccccCCCcccchHHHHHHHHHH
Confidence               0111     156666666655433322488888888876421      0       00  1   123444433 333


Q ss_pred             HHHHHHHHhCCcEEEEecCCcchh-hc---CCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         356 NLKGLAKEINCPILALSQLNRSLE-QR---QNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       356 ~Lk~lA~~~~i~vi~l~ql~r~~~-~r---~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      .++.+....++.||+++|...... ..   .--+|.+.. +-...+...+|+|..+..
T Consensus       118 ~i~~l~~~~~~~VI~tah~~~~~~~~~~~~~~~~~~l~~-k~~~~l~~~~D~V~~l~~  174 (213)
T PF13479_consen  118 FIDKLLNALGKNVIFTAHAKEEEDEDGGKYTRYKPKLGK-KVRNELPGWFDVVGRLRV  174 (213)
T ss_pred             HHHHHHHHCCCcEEEEEEEEEEEcCCCCceeEEeeccCh-hHHhhhhecccEEEEEEE
Confidence            344455568999999999865433 11   112344433 345678899999977764

>PRK10867 signal recognition particle protein; Provisional

Probab=98.36  E-value=5.5e-05  Score=76.26  Aligned_cols=58  Identities=16%  Similarity=0.193  Sum_probs=43.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH--HHHhCCCCc
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM--LGSVGKLDQ  271 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~--~a~~~~i~~  271 (452)
                      ..+++++|+||+||||++..+|..++.+.|.+|++++++.-......++  ++...|++.
T Consensus       100 p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v  159 (433)
T PRK10867        100 PTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPV  159 (433)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCCeE
Confidence            4699999999999999999999998753389999999996544433333  344455554

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.35  E-value=0.0002  Score=70.19  Aligned_cols=42  Identities=19%  Similarity=0.370  Sum_probs=37.0

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      +.+|.++++.|++|+||||++..+|..+. .+|.+|.+++.+-
T Consensus       203 ~~~~~ii~lvGptGvGKTTt~akLA~~l~-~~g~~V~lItaDt  244 (407)
T PRK12726        203 LSNHRIISLIGQTGVGKTTTLVKLGWQLL-KQNRTVGFITTDT  244 (407)
T ss_pred             ecCCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEeCCc
Confidence            45788999999999999999999998875 4789999999873

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=98.33  E-value=5.4e-06  Score=75.82  Aligned_cols=149  Identities=21%  Similarity=0.157  Sum_probs=82.4

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKI  294 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l  294 (452)
                      .+++|+|+||+|||++|.+++        .++++++.+.+...+..     ...++.                       
T Consensus        13 ~~~liyG~~G~GKtt~a~~~~--------~~~~~~~~d~~~~~l~g-----~~~~~v-----------------------   56 (220)
T TIGR01618        13 NMYLIYGKPGTGKTSTIKYLP--------GKTLVLSFDMSSKVLIG-----DENVDI-----------------------   56 (220)
T ss_pred             cEEEEECCCCCCHHHHHHhcC--------CCCEEEeccccchhccC-----CCCCce-----------------------
Confidence            479999999999999998762        35788888886443210     001111                       


Q ss_pred             hCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc------CC---C---CCCHHHHH-HHHHHHHHHHH
Q psy2892         295 NKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA------NS---R---GENRATEI-SEISRNLKGLA  361 (452)
Q Consensus       295 ~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~------~~---~---~~~~~~~~-~~i~~~Lk~lA  361 (452)
                            +.-.+..+++.+...+..+...-.+++.||||+++.+..      ..   .   ....+..+ ..+.+.|+.| 
T Consensus        57 ------~~~d~~~~~~~~~d~l~~~~~~~~~ydtVVIDsI~~l~~~~~~~~~r~~k~~~~~~~~yg~~~~~fl~~l~~L-  129 (220)
T TIGR01618        57 ------ADHDDMPPIQAMVEFYVMQNIQAVKYDNIVIDNISALQNLWLENIGRAAKNGQPELQHYQKLDLWFLDLLTVL-  129 (220)
T ss_pred             ------eecCCCCCHHHHHHHHHHHHhccccCCEEEEecHHHHHHHHHHHHhhhcCCCCcccccHHHHHHHHHHHHHHH-
Confidence                  000122334455554443332212488999999887654      11   1   11122222 2344555555 


Q ss_pred             HHhCCcEEEEecCCcchhhcC------CCCCCchhhhh--hchhhhhhceeEEEec
Q psy2892         362 KEINCPILALSQLNRSLEQRQ------NKRPIMSDLRE--SGAIEQDADVILFIYR  409 (452)
Q Consensus       362 ~~~~i~vi~l~ql~r~~~~r~------~~~p~l~dl~~--S~~ie~~aD~vl~l~r  409 (452)
                      ++++..||+++|..-.....+      .-.|   ++++  ...+...+|+|..+.-
T Consensus       130 ~~~g~nII~tAhe~~~~~~de~G~~~~r~~P---~i~~K~~n~l~G~~DvV~rl~i  182 (220)
T TIGR01618       130 KESNKNIYATAWELTNQSSGESGQIYNRYQP---DIREKVLNAFLGLTDVVGRIVL  182 (220)
T ss_pred             HhCCCcEEEEEeeccccccCCCCCCcceech---hhhhhHHHhhcccccEEEEEEE
Confidence            349999999999843211111      1123   3332  2346678999998764

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=98.28  E-value=4.8e-06  Score=70.08  Aligned_cols=125  Identities=20%  Similarity=0.198  Sum_probs=71.5

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK  292 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~  292 (452)
                      ++..++|.|+||+|||+++..++..... .+..++|++.+.............                           
T Consensus         1 ~~~~~~l~G~~G~GKTtl~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~---------------------------   52 (148)
T smart00382        1 PGEVILIVGPPGSGKTTLARALARELGP-PGGGVIYIDGEDILEEVLDQLLLI---------------------------   52 (148)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhccCC-CCCCEEEECCEEccccCHHHHHhh---------------------------
Confidence            3568999999999999999999988753 334799999997765444332200                           


Q ss_pred             HHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEe
Q psy2892         293 KINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALS  372 (452)
Q Consensus       293 ~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~  372 (452)
                           ..............+. .+....... ++++|+||.+..+....  .............+.......++.+|+++
T Consensus        53 -----~~~~~~~~~~~~~~~~-~~~~~~~~~-~~~viiiDei~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~~~  123 (148)
T smart00382       53 -----IVGGKKASGSGELRLR-LALALARKL-KPDVLILDEITSLLDAE--QEALLLLLEELRLLLLLKSEKNLTVILTT  123 (148)
T ss_pred             -----hhhccCCCCCHHHHHH-HHHHHHHhc-CCCEEEEECCcccCCHH--HHHHHHhhhhhHHHHHHHhcCCCEEEEEe
Confidence                 0000001111222333 222333333 37999999998776532  00000000002234555566788888888


Q ss_pred             cC
Q psy2892         373 QL  374 (452)
Q Consensus       373 ql  374 (452)
                      +.
T Consensus       124 ~~  125 (148)
T smart00382      124 ND  125 (148)
T ss_pred             CC
Confidence            75

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.

>TIGR00959 ffh signal recognition particle protein

Probab=98.24  E-value=0.00013  Score=73.66  Aligned_cols=145  Identities=14%  Similarity=0.165  Sum_probs=77.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH--HHHhCCCCccccccCCCCcchHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM--LGSVGKLDQHKLRTGRLSSDDWPRINDSI  291 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~--~a~~~~i~~~~i~~g~l~~~~~~~~~~a~  291 (452)
                      ..+++++|+||+||||++.++|..+..+.|.+|++++++.-.......+  ++...+++......+ -++.+.  ..++.
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~~~-~~P~~i--~~~al  175 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKG-QSPVEI--ARRAL  175 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCCceEecCCC-CCHHHH--HHHHH
Confidence            3599999999999999999999997544689999999996543332222  234456654332211 112121  22334


Q ss_pred             HHH--hCCCeEEEcCCCCC-H-HHHHHHHHHHHHHcC-CccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCC
Q psy2892         292 KKI--NKSQLYIDETPSLN-V-IELRANSRRLSRQCG-KIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINC  366 (452)
Q Consensus       292 ~~l--~~~~l~i~~~~~~t-~-~~i~~~i~~~~~~~~-~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i  366 (452)
                      +..  .+..+.|.|+++.. . +.+...+.++..... .--++|+|...         .  +   ...+..+.+....++
T Consensus       176 ~~~~~~~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~t---------g--q---~~~~~a~~f~~~v~i  241 (428)
T TIGR00959       176 EYAKENGFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMT---------G--Q---DAVNTAKTFNERLGL  241 (428)
T ss_pred             HHHHhcCCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccc---------h--H---HHHHHHHHHHhhCCC
Confidence            333  22345555555422 1 234444444433222 12366677520         0  1   112223444445577


Q ss_pred             cEEEEecCC
Q psy2892         367 PILALSQLN  375 (452)
Q Consensus       367 ~vi~l~ql~  375 (452)
                      .-+++.-+.
T Consensus       242 ~giIlTKlD  250 (428)
T TIGR00959       242 TGVVLTKLD  250 (428)
T ss_pred             CEEEEeCcc
Confidence            777776554

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.

>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=98.20  E-value=4e-05  Score=69.22  Aligned_cols=38  Identities=21%  Similarity=0.361  Sum_probs=32.9

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      ++++.|++|+||||.+..+|.+...+ +.+|.++|++--
T Consensus         3 vi~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~D~~   40 (196)
T PF00448_consen    3 VIALVGPTGVGKTTTIAKLAARLKLK-GKKVALISADTY   40 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEESTS
T ss_pred             EEEEECCCCCchHhHHHHHHHHHhhc-cccceeecCCCC
Confidence            78999999999999999999999765 999999999854

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 ....

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=98.13  E-value=4.1e-05  Score=73.78  Aligned_cols=178  Identities=18%  Similarity=0.195  Sum_probs=98.9

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH--HHHHHHHHHHhCCCCccccccCC
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG--IQLAMRMLGSVGKLDQHKLRTGR  278 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~--~~i~~R~~a~~~~i~~~~i~~g~  278 (452)
                      ...|+.+..-+++|+++.+.|++|+||||+..-++--..- ....|.+.......  .++..++ +..   +.....-..
T Consensus        18 ~~~l~~vs~~i~~Gei~gllG~NGAGKTTllk~l~gl~~p-~~G~i~i~G~~~~~~~~~~~~~i-gy~---~~~~~~~~~   92 (293)
T COG1131          18 KTALDGVSFEVEPGEIFGLLGPNGAGKTTLLKILAGLLKP-TSGEILVLGYDVVKEPAKVRRRI-GYV---PQEPSLYPE   92 (293)
T ss_pred             CEEEeceeEEEcCCeEEEEECCCCCCHHHHHHHHhCCcCC-CceEEEEcCEeCccCHHHHHhhe-EEE---ccCCCCCcc
Confidence            4577777667999999999999999999998877765422 23344444333322  2233332 111   110000011


Q ss_pred             CCc----------------chHHHHHHHHHHHhCCCeEEE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         279 LSS----------------DDWPRINDSIKKINKSQLYID-ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       279 l~~----------------~~~~~~~~a~~~l~~~~l~i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                      ++-                ...+++.+.++.+.-.. .-. ....+|...-+...-...--+ +|+++|+|--..     
T Consensus        93 lT~~e~l~~~~~l~~~~~~~~~~~~~~~l~~~~L~~-~~~~~~~~lS~G~kqrl~ia~aL~~-~P~lliLDEPt~-----  165 (293)
T COG1131          93 LTVRENLEFFARLYGLSKEEAEERIEELLELFGLED-KANKKVRTLSGGMKQRLSIALALLH-DPELLILDEPTS-----  165 (293)
T ss_pred             ccHHHHHHHHHHHhCCChhHHHHHHHHHHHHcCCch-hhCcchhhcCHHHHHHHHHHHHHhc-CCCEEEECCCCc-----
Confidence            111                11223333333332111 001 022345443333222222233 599999998431     


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                       +-+. .....+.+.|+.++++.+.+|++.+|.-.                   .+++.||.|+++++-.
T Consensus       166 -GLDp-~~~~~~~~~l~~l~~~g~~tvlissH~l~-------------------e~~~~~d~v~il~~G~  214 (293)
T COG1131         166 -GLDP-ESRREIWELLRELAKEGGVTILLSTHILE-------------------EAEELCDRVIILNDGK  214 (293)
T ss_pred             -CCCH-HHHHHHHHHHHHHHhCCCcEEEEeCCcHH-------------------HHHHhCCEEEEEeCCE
Confidence             2222 23457888999999998899999999754                   3677799999987654

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.12  E-value=5.8e-05  Score=75.07  Aligned_cols=43  Identities=12%  Similarity=0.231  Sum_probs=37.4

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      ..++.++++.|++|+||||++.++|.......|.+|++++++-
T Consensus       220 ~~~~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt  262 (432)
T PRK12724        220 KNQRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDN  262 (432)
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccc
Confidence            4467799999999999999999999877556789999999885

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

Probab=98.09  E-value=0.0001  Score=69.89  Aligned_cols=117  Identities=23%  Similarity=0.312  Sum_probs=76.6

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCC--CHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEM--SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~--~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      .+|.|++|.|||+++..++..--..     ...||+++..=-  +...+...++.. .|++.                  
T Consensus        64 lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~-lgaP~------------------  124 (302)
T PF05621_consen   64 LLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEA-LGAPY------------------  124 (302)
T ss_pred             eEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHH-hCccc------------------
Confidence            7899999999999988877533211     123666654311  112222222211 11111                  


Q ss_pred             HHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEE
Q psy2892         290 SIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPIL  369 (452)
Q Consensus       290 a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi  369 (452)
                                    .+.-+...+...+..+.+..| ++++|||-++.+-.+.     ..+..+++..||.|+.++++|+|
T Consensus       125 --------------~~~~~~~~~~~~~~~llr~~~-vrmLIIDE~H~lLaGs-----~~~qr~~Ln~LK~L~NeL~ipiV  184 (302)
T PF05621_consen  125 --------------RPRDRVAKLEQQVLRLLRRLG-VRMLIIDEFHNLLAGS-----YRKQREFLNALKFLGNELQIPIV  184 (302)
T ss_pred             --------------CCCCCHHHHHHHHHHHHHHcC-CcEEEeechHHHhccc-----HHHHHHHHHHHHHHhhccCCCeE
Confidence                          223355677777777777776 9999999999876542     22356889999999999999999


Q ss_pred             EEe
Q psy2892         370 ALS  372 (452)
Q Consensus       370 ~l~  372 (452)
                      ++.
T Consensus       185 ~vG  187 (302)
T PF05621_consen  185 GVG  187 (302)
T ss_pred             Eec
Confidence            885

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

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.08  E-value=0.00038  Score=69.87  Aligned_cols=57  Identities=9%  Similarity=0.082  Sum_probs=41.4

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHH--HHHHHhCCCCcc
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAM--RMLGSVGKLDQH  272 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~--R~~a~~~~i~~~  272 (452)
                      .++.++|++|+||||++..+|..+. +.|.+|+.++++--..--..  |.++...+++..
T Consensus       101 ~vi~lvG~~GvGKTTtaaKLA~~l~-~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~  159 (429)
T TIGR01425       101 NVIMFVGLQGSGKTTTCTKLAYYYQ-RKGFKPCLVCADTFRAGAFDQLKQNATKARIPFY  159 (429)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH-HCCCCEEEEcCcccchhHHHHHHHHhhccCCeEE
Confidence            5899999999999999999999875 57899999999853322222  223444555543

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.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=98.07  E-value=0.00068  Score=68.61  Aligned_cols=146  Identities=12%  Similarity=0.148  Sum_probs=82.5

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHH--HHHHHhCCCCccccccCCCCcchHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAM--RMLGSVGKLDQHKLRTGRLSSDDWPRINDS  290 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~--R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a  290 (452)
                      +..+++++|+||+||||++..+|..+. +.|++|++++++--......  +.++...+++......   ..+-...+.++
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~-~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~---~~d~~~i~~~a  169 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFK-KKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPD---NKDAVEIAKEG  169 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCC---ccCHHHHHHHH
Confidence            345899999999999999999998876 47899999999864332222  2234445665431110   11112334556


Q ss_pred             HHHHhCCCeEEEcCCCCC--HHHHHHHHHHHHHHcC-CccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCc
Q psy2892         291 IKKINKSQLYIDETPSLN--VIELRANSRRLSRQCG-KIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCP  367 (452)
Q Consensus       291 ~~~l~~~~l~i~~~~~~t--~~~i~~~i~~~~~~~~-~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~  367 (452)
                      .+.+....+.|.|+++..  -+.+.+.++.+..... ..-++|+|.-.         .  +   ......+.+.+..++.
T Consensus       170 l~~~~~~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~---------g--q---~av~~a~~F~~~l~i~  235 (437)
T PRK00771        170 LEKFKKADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATI---------G--Q---QAKNQAKAFHEAVGIG  235 (437)
T ss_pred             HHHhhcCCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccc---------c--H---HHHHHHHHHHhcCCCC
Confidence            666655577776665322  2344444444433221 24577777622         1  1   1122334444456666


Q ss_pred             EEEEecCCc
Q psy2892         368 ILALSQLNR  376 (452)
Q Consensus       368 vi~l~ql~r  376 (452)
                      .++++.+..
T Consensus       236 gvIlTKlD~  244 (437)
T PRK00771        236 GIIITKLDG  244 (437)
T ss_pred             EEEEecccC
Confidence            677766643

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=98.06  E-value=4.9e-05  Score=69.36  Aligned_cols=177  Identities=15%  Similarity=0.151  Sum_probs=91.4

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC---CCCHHHHHHHHHHHhCCCCccc--cc
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM---EMSGIQLAMRMLGSVGKLDQHK--LR  275 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~---E~~~~~i~~R~~a~~~~i~~~~--i~  275 (452)
                      ...|+.+.--+.+|+++.|.||+|+|||||+.-++.-. .-.+..|.+...   .++..+.. .+-....|+=+..  +.
T Consensus        18 ~~~L~~v~l~i~~Ge~vaI~GpSGSGKSTLLniig~ld-~pt~G~v~i~g~d~~~l~~~~~~-~~R~~~iGfvFQ~~nLl   95 (226)
T COG1136          18 VEALKDVNLEIEAGEFVAIVGPSGSGKSTLLNLLGGLD-KPTSGEVLINGKDLTKLSEKELA-KLRRKKIGFVFQNFNLL   95 (226)
T ss_pred             eEecccceEEEcCCCEEEEECCCCCCHHHHHHHHhccc-CCCCceEEECCEEcCcCCHHHHH-HHHHHhEEEECccCCCC
Confidence            55677765569999999999999999999876555432 222333444321   23332221 1111112211110  00


Q ss_pred             ---------------cCCCCcchHHHHHHHHHHHhCCCeEEEc-CCCCCHHHH--HHHHHHHHHHcCCccEEEEcCcchh
Q psy2892         276 ---------------TGRLSSDDWPRINDSIKKINKSQLYIDE-TPSLNVIEL--RANSRRLSRQCGKIGVIIIDYLQLM  337 (452)
Q Consensus       276 ---------------~g~l~~~~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i--~~~i~~~~~~~~~~~~vvID~l~~i  337 (452)
                                     .+........+.....+.+.-....... ...+|-.+=  .+.+|.+.  + +|++|+-|--+- 
T Consensus        96 ~~ltv~ENv~lpl~~~~~~~~~~~~~~~~l~~~lgl~~~~~~~~p~eLSGGqqQRVAIARAL~--~-~P~iilADEPTg-  171 (226)
T COG1136          96 PDLTVLENVELPLLIAGKSAGRRKRAAEELLEVLGLEDRLLKKKPSELSGGQQQRVAIARALI--N-NPKIILADEPTG-  171 (226)
T ss_pred             CCCCHHHHHHhHHHHcCCChhHHHHHHHHHHHhcCChhhhccCCchhcCHHHHHHHHHHHHHh--c-CCCeEEeeCccc-
Confidence                           0111001111111212221111111111 224453332  23344443  2 499999998431 


Q ss_pred             ccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         338 SANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       338 ~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                           +- ....-..++.-|+.++++.|.+||++.|=.                    .+...||.++.+..
T Consensus       172 -----nL-D~~t~~~V~~ll~~~~~~~g~tii~VTHd~--------------------~lA~~~dr~i~l~d  217 (226)
T COG1136         172 -----NL-DSKTAKEVLELLRELNKERGKTIIMVTHDP--------------------ELAKYADRVIELKD  217 (226)
T ss_pred             -----cC-ChHHHHHHHHHHHHHHHhcCCEEEEEcCCH--------------------HHHHhCCEEEEEeC
Confidence                 11 112235788899999999999999999843                    25667899888853

>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=98.05  E-value=0.00017  Score=63.93  Aligned_cols=46  Identities=13%  Similarity=0.190  Sum_probs=37.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM  262 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~  262 (452)
                      ++++.|+||+|||+++.+++..++. .|.+|++++++.-......++
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~-~g~~v~~i~~D~~~~~~~~~l   47 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKK-KGKKVLLVAADTYRPAAIEQL   47 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH-CCCcEEEEEcCCCChHHHHHH
Confidence            6789999999999999999998874 688999999986543333333

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.

>PRK08181 transposase; Validated

Probab=98.05  E-value=6.4e-05  Score=71.20  Aligned_cols=46  Identities=24%  Similarity=0.383  Sum_probs=37.3

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM  262 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~  262 (452)
                      .++.-++|.|+||+|||.|+..++..++ +.|.+|+|++.    .++...+
T Consensus       104 ~~~~nlll~Gp~GtGKTHLa~Aia~~a~-~~g~~v~f~~~----~~L~~~l  149 (269)
T PRK08181        104 AKGANLLLFGPPGGGKSHLAAAIGLALI-ENGWRVLFTRT----TDLVQKL  149 (269)
T ss_pred             hcCceEEEEecCCCcHHHHHHHHHHHHH-HcCCceeeeeH----HHHHHHH
Confidence            3556799999999999999999999886 47999999975    3455554

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=98.04  E-value=8.2e-05  Score=67.78  Aligned_cols=178  Identities=16%  Similarity=0.168  Sum_probs=100.9

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC-CCCHHH---HHHHHHHHhCCCCcccc---
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM-EMSGIQ---LAMRMLGSVGKLDQHKL---  274 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~-E~~~~~---i~~R~~a~~~~i~~~~i---  274 (452)
                      +.|+.+---+.+|+...|.|++|+||||++.-++--..  ....-++|.. +..+..   ...|.+.....-+...+   
T Consensus        21 ~~l~~VS~~i~~Ge~lgivGeSGsGKSTL~r~l~Gl~~--p~~G~I~~~G~~~~~~~~~~~~~~~VQmVFQDp~~SLnP~   98 (252)
T COG1124          21 HALNNVSLEIERGETLGIVGESGSGKSTLARLLAGLEK--PSSGSILLDGKPLAPKKRAKAFYRPVQMVFQDPYSSLNPR   98 (252)
T ss_pred             hhhcceeEEecCCCEEEEEcCCCCCHHHHHHHHhcccC--CCCceEEECCcccCccccchhhccceeEEecCCccccCcc
Confidence            45666644589999999999999999999998776432  2233444444 322211   11121111111111110   


Q ss_pred             -----------ccCCCCcchHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         275 -----------RTGRLSSDDWPRINDSIKKINKSQLYIDE-TPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       275 -----------~~g~l~~~~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                                 ..+.+++.+ .++.++.+.+.=.+-|... ...+|=.+...  .+|.+..   +|+++|.|-....-. 
T Consensus        99 ~tv~~~l~Epl~~~~~~~~~-~~i~~~L~~VgL~~~~l~R~P~eLSGGQ~QRiaIARAL~~---~PklLIlDEptSaLD-  173 (252)
T COG1124          99 RTVGRILSEPLRPHGLSKSQ-QRIAELLDQVGLPPSFLDRRPHELSGGQRQRIAIARALIP---EPKLLILDEPTSALD-  173 (252)
T ss_pred             hhHHHHHhhhhccCCccHHH-HHHHHHHHHcCCCHHHHhcCchhcChhHHHHHHHHHHhcc---CCCEEEecCchhhhc-
Confidence                       111222222 2234443333212222222 22345445443  3333322   599999998654332 


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         341 SRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       341 ~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                            ..-.+++.+-|..+.+++|.+.++++|=                   .+.+++.||.++.+++..
T Consensus       174 ------~siQa~IlnlL~~l~~~~~lt~l~IsHd-------------------l~~v~~~cdRi~Vm~~G~  219 (252)
T COG1124         174 ------VSVQAQILNLLLELKKERGLTYLFISHD-------------------LALVEHMCDRIAVMDNGQ  219 (252)
T ss_pred             ------HHHHHHHHHHHHHHHHhcCceEEEEeCc-------------------HHHHHHHhhheeeeeCCe
Confidence                  1234688899999999999999999982                   236899999999997754

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=98.04  E-value=6.1e-05  Score=66.41  Aligned_cols=152  Identities=18%  Similarity=0.216  Sum_probs=80.3

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM-SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKK  293 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~-~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~  293 (452)
                      ..++|.|+||+|||+||.+++...    +.+++|++... ..+++..|+......       .    +            
T Consensus         2 ~~ili~G~~~sGKS~~a~~l~~~~----~~~~~~iat~~~~~~e~~~ri~~h~~~-------R----~------------   54 (170)
T PRK05800          2 MLILVTGGARSGKSRFAERLAAQS----GLQVLYIATAQPFDDEMAARIAHHRQR-------R----P------------   54 (170)
T ss_pred             CEEEEECCCCccHHHHHHHHHHHc----CCCcEeCcCCCCChHHHHHHHHHHHhc-------C----C------------
Confidence            468999999999999999997643    45788887654 345566665432110       0    0            


Q ss_pred             HhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEec
Q psy2892         294 INKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQ  373 (452)
Q Consensus       294 l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~q  373 (452)
                         ..+..... ...+.++   +...  .. +.++|+||.++.+.......+....+...+..|...-++.++++|+++.
T Consensus        55 ---~~w~t~E~-~~~l~~~---i~~~--~~-~~~~VlID~Lt~~~~n~l~~~~~~~~~~~l~~li~~L~~~~~tvVlVs~  124 (170)
T PRK05800         55 ---AHWQTVEE-PLDLAEL---LRAD--AA-PGRCVLVDCLTTWVTNLLFEEGEEAIAAEIDALLAALQQLPAKIILVTN  124 (170)
T ss_pred             ---CCCeEecc-cccHHHH---HHhh--cC-CCCEEEehhHHHHHHHHhcccchHHHHHHHHHHHHHHHcCCCCEEEEEc
Confidence               11111111 1223332   2221  12 3679999999988653211110011223333344443457888888875


Q ss_pred             CCcchhhcCCCCC---Cchhhhh-----hchhhhhhceeEEEe
Q psy2892         374 LNRSLEQRQNKRP---IMSDLRE-----SGAIEQDADVILFIY  408 (452)
Q Consensus       374 l~r~~~~r~~~~p---~l~dl~~-----S~~ie~~aD~vl~l~  408 (452)
                      -...     +-.|   .-..+++     -..+...||.|.++.
T Consensus       125 Evg~-----g~vp~~~~~r~~~d~lG~lnq~la~~ad~V~~v~  162 (170)
T PRK05800        125 EVGM-----GIVPEYRLGRHFRDIAGRLNQQLAAAADEVYLVV  162 (170)
T ss_pred             CCcc-----cccCCCHHHHHHHHHHHHHHHHHHHHCCEEEEEe
Confidence            3321     1112   1111222     224567888887764

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.03  E-value=0.00078  Score=65.55  Aligned_cols=41  Identities=17%  Similarity=0.168  Sum_probs=36.6

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      .+|.++.+.|+||+||||++..+|..+. ..|.+|++++.+.
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~~kLA~~l~-~~g~~V~Li~~D~  152 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTIGKLAHKYK-AQGKKVLLAAGDT  152 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHH-hcCCeEEEEecCc
Confidence            5678999999999999999999999886 4688999998875

>KOG2859|consensus

Probab=98.02  E-value=0.00015  Score=64.55  Aligned_cols=152  Identities=14%  Similarity=0.115  Sum_probs=88.9

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHH-----hCCCcEEEEeCCCCHHH------HHHHHHHHhCCCCccccccCCC-C
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAI-----ENKLPVAIFSMEMSGIQ------LAMRMLGSVGKLDQHKLRTGRL-S  280 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~-----~~g~~vl~~s~E~~~~~------i~~R~~a~~~~i~~~~i~~g~l-~  280 (452)
                      .|+++.|.||.|+|||.++.|++.+-..     +.++.|+|+.++---+.      +..|+.+..    ..+...... +
T Consensus        37 aG~~vEi~Gp~~sgKt~vL~ql~a~CilPk~~GGl~~~VLfidld~~fd~lrL~~~l~hrL~q~~----~~e~~~~~c~t  112 (293)
T KOG2859|consen   37 AGTLVEISGPGNSGKTLVLQQLVAHCILPKKFGGLQWSVLFIDLDHKFDRLRLAKSLRHRLKQYS----VGEVIAAKCPT  112 (293)
T ss_pred             cCcEEEEeCCCCccHHHHHHHHHHHeecccccCCceeEEEEEeccccccHHHHHHHHHHHHHHhh----hhhhhhhcCCc
Confidence            6899999999999999999999988653     12578999988754332      223333322    222111222 2


Q ss_pred             cchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHH---HHHHcCCccEEEEcCcchhccCCC------CCCHHHHHH
Q psy2892         281 SDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRR---LSRQCGKIGVIIIDYLQLMSANSR------GENRATEIS  351 (452)
Q Consensus       281 ~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~---~~~~~~~~~~vvID~l~~i~~~~~------~~~~~~~~~  351 (452)
                      ++..+.+.   ...-..-+++.....   +++...+..   ....+..+-++++|+|..+.--++      .......++
T Consensus       113 e~~~eEi~---~~Cm~Rf~~v~C~~s---~~ll~sL~~l~y~i~~~p~~cll~~DslsaFyW~Dr~~~le~~n~~~~~lr  186 (293)
T KOG2859|consen  113 EEQLEEIA---GECMSRFRFVNCFAS---DDLLTSLIDLRYAIINDPGICLLAMDSLSAFYWLDRPKILEKRNSMYRHLR  186 (293)
T ss_pred             HhHHHHHH---HHHHhhEEEEEeecc---HHHHHHHHHHHHHHhcCCceeEEeecchhhheeecccchHhhhhhHHHHHH
Confidence            22223222   222222334433222   233333222   223332478999999998764331      112334567


Q ss_pred             HHHHHHHHHHHHhCCcEEEEecC
Q psy2892         352 EISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       352 ~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                      .+.+.|+++.+.+-+.++++.|.
T Consensus       187 ~~~q~LeKL~~d~~lv~~aT~~t  209 (293)
T KOG2859|consen  187 LLQQRLEKLCKDAILVGMATVET  209 (293)
T ss_pred             HHHHHHHHHHhhheeeeeeehhH
Confidence            88899999999988888877664

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.00  E-value=0.00011  Score=72.41  Aligned_cols=90  Identities=14%  Similarity=0.349  Sum_probs=61.6

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC-CcEEEEeCCCCH---HHHHHHHHHHhCCCCccccccCCCCcchHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK-LPVAIFSMEMSG---IQLAMRMLGSVGKLDQHKLRTGRLSSDDWPR  286 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g-~~vl~~s~E~~~---~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~  286 (452)
                      +.+|.++++.|+||+||||++..++...+...| .+|.+++.+.-.   .+. -+.++...|++...+..+    .+   
T Consensus       134 ~~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~Eq-L~~~a~~~gv~~~~~~~~----~~---  205 (374)
T PRK14722        134 MERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQ-LRIFGKILGVPVHAVKDG----GD---  205 (374)
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHH-HHHHHHHcCCceEecCCc----cc---
Confidence            677899999999999999999999998765555 689999987642   122 233445567776544332    22   


Q ss_pred             HHHHHHHHhCCCeEEEcCCCCC
Q psy2892         287 INDSIKKINKSQLYIDETPSLN  308 (452)
Q Consensus       287 ~~~a~~~l~~~~l~i~~~~~~t  308 (452)
                      +..+...+.+..+.+.|+++.+
T Consensus       206 l~~~l~~l~~~DlVLIDTaG~~  227 (374)
T PRK14722        206 LQLALAELRNKHMVLIDTIGMS  227 (374)
T ss_pred             HHHHHHHhcCCCEEEEcCCCCC
Confidence            2334555666677666766655

>PRK12377 putative replication protein; Provisional

Probab=97.99  E-value=6.8e-05  Score=70.14  Aligned_cols=37  Identities=19%  Similarity=0.452  Sum_probs=32.6

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ..++|.|+||+|||.++..++..+. +.|.+|+|++..
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l~-~~g~~v~~i~~~  138 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRLL-AKGRSVIVVTVP  138 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH-HcCCCeEEEEHH
Confidence            3589999999999999999999986 478999999874

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=97.96  E-value=0.00065  Score=67.04  Aligned_cols=146  Identities=12%  Similarity=0.177  Sum_probs=94.0

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHH--HHHHHhCCCCccccccCCCCcchHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAM--RMLGSVGKLDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~--R~~a~~~~i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      .+-.+++++|--|+||||.+.-+|..+.. .|++|+.++++--..--.+  +.++...+++..... ..-++.+  -..+
T Consensus        98 ~~P~vImmvGLQGsGKTTt~~KLA~~lkk-~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~-~~~~Pv~--Iak~  173 (451)
T COG0541          98 KPPTVILMVGLQGSGKTTTAGKLAKYLKK-KGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSG-TEKDPVE--IAKA  173 (451)
T ss_pred             CCCeEEEEEeccCCChHhHHHHHHHHHHH-cCCceEEEecccCChHHHHHHHHHHHHcCCceecCC-CCCCHHH--HHHH
Confidence            35568999999999999999999999965 8999999999975544443  345555677665331 1222322  2345


Q ss_pred             HHHHHhC--CCeEEEcCC-CCCH-HHHHHHHHHHHHHcCCcc--EEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHH
Q psy2892         290 SIKKINK--SQLYIDETP-SLNV-IELRANSRRLSRQCGKIG--VIIIDYLQLMSANSRGENRATEISEISRNLKGLAKE  363 (452)
Q Consensus       290 a~~~l~~--~~l~i~~~~-~~t~-~~i~~~i~~~~~~~~~~~--~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~  363 (452)
                      ++++...  ..+.|.|+. ...+ +++...++.++..-. |+  +.|||...   .        |..   ...-+.|-..
T Consensus       174 al~~ak~~~~DvvIvDTAGRl~ide~Lm~El~~Ik~~~~-P~E~llVvDam~---G--------QdA---~~~A~aF~e~  238 (451)
T COG0541         174 ALEKAKEEGYDVVIVDTAGRLHIDEELMDELKEIKEVIN-PDETLLVVDAMI---G--------QDA---VNTAKAFNEA  238 (451)
T ss_pred             HHHHHHHcCCCEEEEeCCCcccccHHHHHHHHHHHhhcC-CCeEEEEEeccc---c--------hHH---HHHHHHHhhh
Confidence            5555543  366666653 4443 456677777766553 54  88888852   1        122   2333455567


Q ss_pred             hCCcEEEEecCCc
Q psy2892         364 INCPILALSQLNR  376 (452)
Q Consensus       364 ~~i~vi~l~ql~r  376 (452)
                      .+++-|+++-+..
T Consensus       239 l~itGvIlTKlDG  251 (451)
T COG0541         239 LGITGVILTKLDG  251 (451)
T ss_pred             cCCceEEEEcccC
Confidence            8999999887654

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.94  E-value=0.00023  Score=70.08  Aligned_cols=40  Identities=20%  Similarity=0.237  Sum_probs=34.9

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      +..+.|.|++|+||||++..+|..+. .+|.+|++++.+--
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~L~-~~GkkVglI~aDt~  280 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQFH-GKKKTVGFITTDHS  280 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHH-HcCCcEEEEecCCc
Confidence            35899999999999999999999886 57899999998743

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.94  E-value=0.00012  Score=74.00  Aligned_cols=43  Identities=21%  Similarity=0.394  Sum_probs=37.0

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHH-HhCCCcEEEEeCCCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIA-IENKLPVAIFSMEMS  254 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a-~~~g~~vl~~s~E~~  254 (452)
                      .+|.++++.|++|+||||++..+|..++ ...|.+|++++++.-
T Consensus       219 ~~~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~  262 (424)
T PRK05703        219 KQGGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTY  262 (424)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCcc
Confidence            3467999999999999999999999887 456789999998753

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=97.92  E-value=0.00034  Score=64.53  Aligned_cols=167  Identities=10%  Similarity=0.071  Sum_probs=87.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC-------------CcEEEEeCC------CCHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK-------------LPVAIFSME------MSGIQLAMRML  263 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g-------------~~vl~~s~E------~~~~~i~~R~~  263 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..-...|             ..+.|+.-+      ++..+...-. 
T Consensus        19 il~~vs~~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G~i~~~g~~~~~~~~~i~~v~q~~~~~~~~tv~e~l~~~-   97 (220)
T cd03293          19 ALEDISLSVEEGEFVALVGPSGCGKSTLLRIIAGLERPTSGEVLVDGEPVTGPGPDRGYVFQQDALLPWLTVLDNVALG-   97 (220)
T ss_pred             EEeceeEEEeCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCEECccccCcEEEEecccccccCCCHHHHHHHH-
Confidence            45655445899999999999999999999877754311122             123333211      1111111000 


Q ss_pred             HHhCCCCccccccCCCCc-chHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         264 GSVGKLDQHKLRTGRLSS-DDWPRINDSIKKINKSQLYIDE-TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       264 a~~~~i~~~~i~~g~l~~-~~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                      ....+          +.. ....++.+.++.+. ..-+... ...+|-.+.+...-...-.. +++++++|.-..     
T Consensus        98 ~~~~~----------~~~~~~~~~~~~~l~~~~-l~~~~~~~~~~LSgG~~qrl~la~al~~-~p~lllLDEPt~-----  160 (220)
T cd03293          98 LELQG----------VPKAEARERAEELLELVG-LSGFENAYPHQLSGGMRQRVALARALAV-DPDVLLLDEPFS-----  160 (220)
T ss_pred             HHHcC----------CCHHHHHHHHHHHHHHcC-ChhhhhCCcccCCHHHHHHHHHHHHHHc-CCCEEEECCCCC-----
Confidence            00000          111 11122333333321 1001111 23456555443322222223 499999998532     


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEe
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIY  408 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~  408 (452)
                       +-+. .....+.+.|+.+.++.+.+||+++|--.                   .+...||.++.|.
T Consensus       161 -~LD~-~~~~~~~~~l~~~~~~~~~tiii~sH~~~-------------------~~~~~~d~i~~l~  206 (220)
T cd03293         161 -ALDA-LTREQLQEELLDIWRETGKTVLLVTHDID-------------------EAVFLADRVVVLS  206 (220)
T ss_pred             -CCCH-HHHHHHHHHHHHHHHHcCCEEEEEecCHH-------------------HHHHhCCEEEEEE
Confidence             1222 23356777788887778889999988432                   2556789999886

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.

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.91  E-value=0.00012  Score=68.43  Aligned_cols=107  Identities=17%  Similarity=0.271  Sum_probs=66.9

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHh
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKIN  295 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~  295 (452)
                      .+++.|+||+|||.++..++..+.. .|.+|+|++.    .++..++.....                            
T Consensus       101 ~~~l~G~~GtGKThLa~aia~~l~~-~g~~v~~it~----~~l~~~l~~~~~----------------------------  147 (244)
T PRK07952        101 SFIFSGKPGTGKNHLAAAICNELLL-RGKSVLIITV----ADIMSAMKDTFS----------------------------  147 (244)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHh-cCCeEEEEEH----HHHHHHHHHHHh----------------------------
Confidence            5899999999999999999999864 6899999964    455555432110                            


Q ss_pred             CCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCC
Q psy2892         296 KSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLN  375 (452)
Q Consensus       296 ~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~  375 (452)
                              ....+.+++..   .+   . +++++|||.++....     ..+..  .++..+-.---+.+.|+|+++.++
T Consensus       148 --------~~~~~~~~~l~---~l---~-~~dlLvIDDig~~~~-----s~~~~--~~l~~Ii~~Ry~~~~~tiitSNl~  205 (244)
T PRK07952        148 --------NSETSEEQLLN---DL---S-NVDLLVIDEIGVQTE-----SRYEK--VIINQIVDRRSSSKRPTGMLTNSN  205 (244)
T ss_pred             --------hccccHHHHHH---Hh---c-cCCEEEEeCCCCCCC-----CHHHH--HHHHHHHHHHHhCCCCEEEeCCCC
Confidence                    00112223322   22   1 499999999977542     22221  222233222223469999999988


Q ss_pred             cc
Q psy2892         376 RS  377 (452)
Q Consensus       376 r~  377 (452)
                      -.
T Consensus       206 ~~  207 (244)
T PRK07952        206 ME  207 (244)
T ss_pred             HH
Confidence            54

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=97.90  E-value=0.00039  Score=63.74  Aligned_cols=59  Identities=15%  Similarity=0.166  Sum_probs=41.6

Q ss_pred             CccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhcee
Q psy2892         325 KIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVI  404 (452)
Q Consensus       325 ~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~v  404 (452)
                      +++++++|.-..      +-+. .....+.+.|+.++++.+.+||+++|-..                   .+...||.+
T Consensus       148 ~p~~lllDEPt~------~LD~-~~~~~l~~~l~~~~~~~~~tii~~sH~~~-------------------~~~~~~d~v  201 (213)
T cd03259         148 EPSLLLLDEPLS------ALDA-KLREELREELKELQRELGITTIYVTHDQE-------------------EALALADRI  201 (213)
T ss_pred             CCCEEEEcCCcc------cCCH-HHHHHHHHHHHHHHHHcCCEEEEEecCHH-------------------HHHHhcCEE
Confidence            499999998532      1222 23457778888888777999999988432                   256678999


Q ss_pred             EEEec
Q psy2892         405 LFIYR  409 (452)
Q Consensus       405 l~l~r  409 (452)
                      +.|.+
T Consensus       202 ~~l~~  206 (213)
T cd03259         202 AVMNE  206 (213)
T ss_pred             EEEEC
Confidence            98864

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. 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.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=97.90  E-value=0.00033  Score=64.22  Aligned_cols=166  Identities=15%  Similarity=0.142  Sum_probs=86.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCC----------------cEEEEeCC------CCHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKL----------------PVAIFSME------MSGIQLAM  260 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~----------------~vl~~s~E------~~~~~i~~  260 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-...-..|.                .+.|+.-+      .+..+...
T Consensus        15 ~l~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G~v~~~g~~~~~~~~~~~~i~~~~q~~~~~~~~tv~~~l~   94 (213)
T cd03301          15 ALDDLNLDIADGEFVVLLGPSGCGKTTTLRMIAGLEEPTSGRIYIGGRDVTDLPPKDRDIAMVFQNYALYPHMTVYDNIA   94 (213)
T ss_pred             eeeceEEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCEECCcCCcccceEEEEecChhhccCCCHHHHHH
Confidence            455554458999999999999999999998777543211221                12332211      11111100


Q ss_pred             HHHHHhCCCCccccccCCCCcch-HHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHH--HHHHHHHcCCccEEEEcCcch
Q psy2892         261 RMLGSVGKLDQHKLRTGRLSSDD-WPRINDSIKKINKSQLYIDE-TPSLNVIELRAN--SRRLSRQCGKIGVIIIDYLQL  336 (452)
Q Consensus       261 R~~a~~~~i~~~~i~~g~l~~~~-~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~--i~~~~~~~~~~~~vvID~l~~  336 (452)
                      .. ..        . .+ ....+ ..++.++.+.+. ..-+... ...+|-.+-+..  ++.+.  . +++++++|.-..
T Consensus        95 ~~-~~--------~-~~-~~~~~~~~~~~~~l~~~~-l~~~~~~~~~~LS~G~~qr~~laral~--~-~p~llllDEPt~  159 (213)
T cd03301          95 FG-LK--------L-RK-VPKDEIDERVREVAELLQ-IEHLLDRKPKQLSGGQRQRVALGRAIV--R-EPKVFLMDEPLS  159 (213)
T ss_pred             HH-HH--------h-cC-CCHHHHHHHHHHHHHHcC-CHHHHhCChhhCCHHHHHHHHHHHHHh--c-CCCEEEEcCCcc
Confidence            00 00        0 01 11111 112222222221 1101111 234555554432  33332  3 499999998532


Q ss_pred             hccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         337 MSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       337 i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                            +-+ ......+.+.|+.++++.+.+||+++|-..                   .+.+.+|.++.+.+
T Consensus       160 ------~LD-~~~~~~l~~~l~~~~~~~~~tvi~~sH~~~-------------------~~~~~~d~i~~l~~  206 (213)
T cd03301         160 ------NLD-AKLRVQMRAELKRLQQRLGTTTIYVTHDQV-------------------EAMTMADRIAVMND  206 (213)
T ss_pred             ------cCC-HHHHHHHHHHHHHHHHHcCCEEEEEeCCHH-------------------HHHHhcCeEEEEEC
Confidence                  122 223457778888888888999999988422                   25566888888854

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=97.89  E-value=0.00044  Score=63.48  Aligned_cols=172  Identities=13%  Similarity=0.171  Sum_probs=84.4

Q ss_pred             CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHHHHhCC-------CCcc-ccccC--
Q psy2892         209 SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM-SGIQLAMRMLGSVGK-------LDQH-KLRTG--  277 (452)
Q Consensus       209 gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~-~~~~i~~R~~a~~~~-------i~~~-~i~~g--  277 (452)
                      --+.+|+.+.|.|++|+|||||+.-++-..-...| .|. +.... .......+.++....       .+.. .+.-+  
T Consensus        19 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G-~i~-~~g~~~~~~~~~~~~i~~v~q~~~~~~~~t~~en~~~~~~   96 (213)
T TIGR01277        19 LNVADGEIVAIMGPSGAGKSTLLNLIAGFIEPASG-SIK-VNDQSHTGLAPYQRPVSMLFQENNLFAHLTVRQNIGLGLH   96 (213)
T ss_pred             EEEeCCcEEEEECCCCCCHHHHHHHHhcCCCCCCc-EEE-ECCEEcccCChhccceEEEeccCccCCCCcHHHHHHhHhh
Confidence            35889999999999999999999988765422122 232 21110 000000011100000       0000 00000  


Q ss_pred             ---CCCcchHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHH
Q psy2892         278 ---RLSSDDWPRINDSIKKINKSQLYIDE-TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEI  353 (452)
Q Consensus       278 ---~l~~~~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i  353 (452)
                         ........++.++.+.+.-.. +... ...+|..+.+...-...--. +++++++|....-      .+ ......+
T Consensus        97 ~~~~~~~~~~~~~~~~l~~~~l~~-~~~~~~~~LS~G~~qrl~laral~~-~p~llllDEPt~~------LD-~~~~~~~  167 (213)
T TIGR01277        97 PGLKLNAEQQEKVVDAAQQVGIAD-YLDRLPEQLSGGQRQRVALARCLVR-PNPILLLDEPFSA------LD-PLLREEM  167 (213)
T ss_pred             ccCCccHHHHHHHHHHHHHcCcHH-HhhCCcccCCHHHHHHHHHHHHHhc-CCCEEEEcCCCcc------CC-HHHHHHH
Confidence               000111122333333221001 1111 22456555443322211123 4999999985421      12 2234567


Q ss_pred             HHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         354 SRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       354 ~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      .+.|+.+.++.+.+||+++|-..                   .+...+|.++.+.+.
T Consensus       168 ~~~l~~~~~~~~~tii~vsh~~~-------------------~~~~~~d~v~~l~~g  205 (213)
T TIGR01277       168 LALVKQLCSERQRTLLMVTHHLS-------------------DARAIASQIAVVSQG  205 (213)
T ss_pred             HHHHHHHHHhcCCEEEEEeCCHH-------------------HHHhhcCeEEEEECC
Confidence            77888888777899999987432                   245678999988653

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>PRK13634 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.89  E-value=7.9e-05  Score=71.86  Aligned_cols=176  Identities=15%  Similarity=0.159  Sum_probs=91.8

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-C-------CHHHHHHHHHHHhCCCCccc
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-M-------SGIQLAMRMLGSVGKLDQHK  273 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~-------~~~~i~~R~~a~~~~i~~~~  273 (452)
                      +.|+.+.--+.+|+++.|.|++|+|||||+.-++-..--..| .|. +..+ .       ...... +.++....-+...
T Consensus        21 ~~L~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G-~i~-~~g~~i~~~~~~~~~~~~~-~~ig~v~q~~~~~   97 (290)
T PRK13634         21 RALYDVNVSIPSGSYVAIIGHTGSGKSTLLQHLNGLLQPTSG-TVT-IGERVITAGKKNKKLKPLR-KKVGIVFQFPEHQ   97 (290)
T ss_pred             cceeeEEEEEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCCc-EEE-ECCEECccccccchHHHHH-hhEEEEeeCchhh
Confidence            467777556999999999999999999999888754321112 222 2221 0       001111 1111000000000


Q ss_pred             cc-------------cCCCCcchH-HHHHHHHHHHhCCCeEEEc--CCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcc
Q psy2892         274 LR-------------TGRLSSDDW-PRINDSIKKINKSQLYIDE--TPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQ  335 (452)
Q Consensus       274 i~-------------~g~l~~~~~-~~~~~a~~~l~~~~l~i~~--~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~  335 (452)
                      +.             ...++..+. .++.++++.+. ..-.+.+  ...+|-.+-+.  .++.+.  . +|+++++|...
T Consensus        98 l~~~tv~eni~~~~~~~~~~~~~~~~~~~~~l~~~g-L~~~~~~~~~~~LSgGq~qrv~lAraL~--~-~P~llllDEPt  173 (290)
T PRK13634         98 LFEETVEKDICFGPMNFGVSEEDAKQKAREMIELVG-LPEELLARSPFELSGGQMRRVAIAGVLA--M-EPEVLVLDEPT  173 (290)
T ss_pred             hhhhhHHHHHHHHHHHcCCCHHHHHHHHHHHHHHCC-CChhhhhCCcccCCHHHHHHHHHHHHHH--c-CCCEEEEECCc
Confidence            00             001222222 23333333331 1101112  23456554433  233332  2 59999999964


Q ss_pred             hhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         336 LMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       336 ~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      .-      -+. .....+.+.|+.++++.|.+||+++|--.                   .+...||.|+.++.-
T Consensus       174 ~~------LD~-~~~~~l~~~L~~l~~~~g~tviiitHd~~-------------------~~~~~~drv~~l~~G  222 (290)
T PRK13634        174 AG------LDP-KGRKEMMEMFYKLHKEKGLTTVLVTHSME-------------------DAARYADQIVVMHKG  222 (290)
T ss_pred             cc------CCH-HHHHHHHHHHHHHHHhcCCEEEEEeCCHH-------------------HHHHhCCEEEEEECC
Confidence            21      222 23457778888888888999999988432                   245668888888653

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=97.88  E-value=0.00035  Score=63.97  Aligned_cols=59  Identities=14%  Similarity=0.143  Sum_probs=41.2

Q ss_pred             CccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhcee
Q psy2892         325 KIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVI  404 (452)
Q Consensus       325 ~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~v  404 (452)
                      +++++++|.-..-      -+. .....+.+.|+.++++.+.+||+++|-..                   .+.+.||.+
T Consensus       146 ~p~llllDEP~~~------LD~-~~~~~l~~~l~~~~~~~~~tii~~sH~~~-------------------~~~~~~d~i  199 (211)
T cd03298         146 DKPVLLLDEPFAA------LDP-ALRAEMLDLVLDLHAETKMTVLMVTHQPE-------------------DAKRLAQRV  199 (211)
T ss_pred             CCCEEEEcCCccc------CCH-HHHHHHHHHHHHHHHhcCCEEEEEecCHH-------------------HHHhhhCEE
Confidence            4999999985321      121 22346777888888888999999988432                   355678999


Q ss_pred             EEEec
Q psy2892         405 LFIYR  409 (452)
Q Consensus       405 l~l~r  409 (452)
                      +.+.+
T Consensus       200 ~~l~~  204 (211)
T cd03298         200 VFLDN  204 (211)
T ss_pred             EEEEC
Confidence            98864

Probably responsible for the translocation of thiamine across the membrane. 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.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=97.87  E-value=0.00042  Score=64.82  Aligned_cols=36  Identities=17%  Similarity=0.471  Sum_probs=29.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        16 ~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256          16 ALKDVSLSINPGEFVALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             EEecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            455554458999999999999999999998887543

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. 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.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; 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=97.86  E-value=0.00048  Score=64.25  Aligned_cols=176  Identities=16%  Similarity=0.170  Sum_probs=88.8

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHH--HHHHHHHhCCC-------
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQL--AMRMLGSVGKL-------  269 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i--~~R~~a~~~~i-------  269 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..--..| .|.| ...    .+..+.  ..+.++....-       
T Consensus        15 ~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~G-~i~~-~g~~~~~~~~~~~~~~~~~i~~v~q~~~~~~~~   92 (235)
T cd03261          15 VLKGVDLDVRRGEILAIIGPSGSGKSTLLRLIVGLLRPDSG-EVLI-DGEDISGLSEAELYRLRRRMGMLFQSGALFDSL   92 (235)
T ss_pred             EEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCce-EEEE-CCEEccccChhhHHHHhcceEEEccCcccCCCC
Confidence            45665445899999999999999999999888754321122 2333 221    111111  11111111100       


Q ss_pred             Cccc-cc-----cCCCCcch-HHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHH--HHHHHHHcCCccEEEEcCcchhcc
Q psy2892         270 DQHK-LR-----TGRLSSDD-WPRINDSIKKINKSQLYIDE-TPSLNVIELRAN--SRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       270 ~~~~-i~-----~g~l~~~~-~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~--i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      +... +.     ....+..+ ..++.++.+.+. ..-+... ...+|-.+-+..  ++.+.  . +++++++|.-..-  
T Consensus        93 tv~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~-l~~~~~~~~~~LSgG~~qrv~ia~al~--~-~p~llllDEPt~~--  166 (235)
T cd03261          93 TVFENVAFPLREHTRLSEEEIREIVLEKLEAVG-LRGAEDLYPAELSGGMKKRVALARALA--L-DPELLLYDEPTAG--  166 (235)
T ss_pred             cHHHHHHHHHhhccCCCHHHHHHHHHHHHHHcC-CchhhcCChhhCCHHHHHHHHHHHHHh--c-CCCEEEecCCccc--
Confidence            0000 00     00111111 122233333321 1111121 234565544332  33332  3 4999999985321  


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         340 NSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       340 ~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                          -+. .....+.+.|+.++++.+.+||+++|--.                   .+...||.++.|...
T Consensus       167 ----LD~-~~~~~l~~~l~~~~~~~~~tvi~vsH~~~-------------------~~~~~~d~v~~l~~G  213 (235)
T cd03261         167 ----LDP-IASGVIDDLIRSLKKELGLTSIMVTHDLD-------------------TAFAIADRIAVLYDG  213 (235)
T ss_pred             ----CCH-HHHHHHHHHHHHHHHhcCcEEEEEecCHH-------------------HHHHhcCEEEEEECC
Confidence                222 23456777888888777899999988321                   245678999988643

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.

>PF13173 AAA_14: AAA domain

Probab=97.86  E-value=0.00013  Score=61.11  Aligned_cols=41  Identities=15%  Similarity=0.263  Sum_probs=35.3

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      +.+++|.|+.|+|||+++.+++....  .+.+++|++++....
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~--~~~~~~yi~~~~~~~   42 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL--PPENILYINFDDPRD   42 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc--ccccceeeccCCHHH
Confidence            46899999999999999999998874  457899999997644

>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=97.85  E-value=0.00018  Score=60.85  Aligned_cols=40  Identities=20%  Similarity=0.368  Sum_probs=33.3

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      .+..++|.|+||+|||+++..++..+. ..+.++.|++...
T Consensus        18 ~~~~v~i~G~~G~GKT~l~~~i~~~~~-~~~~~v~~~~~~~   57 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLARAIANELF-RPGAPFLYLNASD   57 (151)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhh-cCCCCeEEEehhh
Confidence            355899999999999999999998885 4578899887653

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.

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=97.85  E-value=0.00016  Score=64.29  Aligned_cols=45  Identities=22%  Similarity=0.372  Sum_probs=34.3

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM  262 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~  262 (452)
                      .|.-.++.|+||+|||.+|..++..++. .|.+|+|++.    .+++.++
T Consensus        46 ~~~~l~l~G~~G~GKThLa~ai~~~~~~-~g~~v~f~~~----~~L~~~l   90 (178)
T PF01695_consen   46 NGENLILYGPPGTGKTHLAVAIANEAIR-KGYSVLFITA----SDLLDEL   90 (178)
T ss_dssp             C--EEEEEESTTSSHHHHHHHHHHHHHH-TT--EEEEEH----HHHHHHH
T ss_pred             cCeEEEEEhhHhHHHHHHHHHHHHHhcc-CCcceeEeec----Cceeccc
Confidence            4556899999999999999999999875 8999999975    4566665

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.85  E-value=0.00027  Score=67.27  Aligned_cols=40  Identities=15%  Similarity=0.266  Sum_probs=35.3

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      ++.++++.|+||+||||.+.++|..++ +.|++|+.++++.
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~-~~g~~V~li~~D~  110 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLK-KQGKSVLLAAGDT  110 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHH-hcCCEEEEEeCCC
Confidence            456888889999999999999999886 5789999999885

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.

>PRK06921 hypothetical protein; Provisional

Probab=97.85  E-value=0.00026  Score=67.20  Aligned_cols=38  Identities=24%  Similarity=0.429  Sum_probs=32.3

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +..+++.|+||+|||.|+..++..+..+.|..|+|++.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~  154 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPF  154 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEH
Confidence            34689999999999999999999886433899999986

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=97.84  E-value=0.00051  Score=63.85  Aligned_cols=60  Identities=13%  Similarity=0.110  Sum_probs=41.5

Q ss_pred             CccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhcee
Q psy2892         325 KIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVI  404 (452)
Q Consensus       325 ~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~v  404 (452)
                      +++++++|.-..      +-+. .....+.+.|+.++++.+.+||+++|--.                   .+...+|.+
T Consensus       143 ~p~vllLDEPt~------~LD~-~~~~~l~~~l~~~~~~~~~tiii~sH~~~-------------------~~~~~~d~i  196 (230)
T TIGR02770       143 EPPFLIADEPTT------DLDV-VNQARVLKLLRELRQLFGTGILLITHDLG-------------------VVARIADEV  196 (230)
T ss_pred             CCCEEEEcCCcc------ccCH-HHHHHHHHHHHHHHHhcCCEEEEEeCCHH-------------------HHHHhCCEE
Confidence            489999998532      1222 23346777888888777899999988422                   255678999


Q ss_pred             EEEecC
Q psy2892         405 LFIYRD  410 (452)
Q Consensus       405 l~l~r~  410 (452)
                      +.|.+.
T Consensus       197 ~~l~~G  202 (230)
T TIGR02770       197 AVMDDG  202 (230)
T ss_pred             EEEECC
Confidence            988654

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>PRK14974 cell division protein FtsY; Provisional

Probab=97.84  E-value=0.00041  Score=67.79  Aligned_cols=41  Identities=20%  Similarity=0.207  Sum_probs=35.0

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      ++.++++.|+||+||||.+..+|..+. ..|.+|++++.+.-
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~-~~g~~V~li~~Dt~  179 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLK-KNGFSVVIAAGDTF  179 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCCeEEEecCCcC
Confidence            356999999999999999999998774 57889999988753

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=97.84  E-value=0.00047  Score=63.36  Aligned_cols=35  Identities=23%  Similarity=0.425  Sum_probs=29.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--
T Consensus        18 il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   52 (216)
T TIGR00960        18 ALDNLNFHITKGEMVFLVGHSGAGKSTFLKLILGI   52 (216)
T ss_pred             EEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            46666456899999999999999999999887754

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=97.83  E-value=0.00057  Score=63.60  Aligned_cols=173  Identities=16%  Similarity=0.207  Sum_probs=88.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC---CHHHH--HHHHHHHhCCCCcccccc-
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM---SGIQL--AMRMLGSVGKLDQHKLRT-  276 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~---~~~~i--~~R~~a~~~~i~~~~i~~-  276 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-...- ....|.|-.-+.   +....  ..+.++....-+  .+.. 
T Consensus        20 il~~~s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~-~~G~i~~~g~~~~~~~~~~~~~~~~~i~~~~q~~--~~~~~   96 (233)
T cd03258          20 ALKDVSLSVPKGEIFGIIGRSGAGKSTLIRCINGLERP-TSGSVLVDGTDLTLLSGKELRKARRRIGMIFQHF--NLLSS   96 (233)
T ss_pred             eeecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCC-CCceEEECCEEcccCCHHHHHHHHhheEEEccCc--ccCCC
Confidence            45555445899999999999999999999877755422 222343321111   11111  111111111000  0000 


Q ss_pred             C-------------CCCcch-HHHHHHHHHHHhCCCeE--EE-cCCCCCHHHHHHH--HHHHHHHcCCccEEEEcCcchh
Q psy2892         277 G-------------RLSSDD-WPRINDSIKKINKSQLY--ID-ETPSLNVIELRAN--SRRLSRQCGKIGVIIIDYLQLM  337 (452)
Q Consensus       277 g-------------~l~~~~-~~~~~~a~~~l~~~~l~--i~-~~~~~t~~~i~~~--i~~~~~~~~~~~~vvID~l~~i  337 (452)
                      .             .....+ ..++.++.+.+   .+.  .. ....+|-.+.+..  ++.+.  . +++++++|.... 
T Consensus        97 ~t~~e~l~~~~~~~~~~~~~~~~~~~~~l~~~---~l~~~~~~~~~~LS~G~~qrv~la~al~--~-~p~lllLDEP~~-  169 (233)
T cd03258          97 RTVFENVALPLEIAGVPKAEIEERVLELLELV---GLEDKADAYPAQLSGGQKQRVGIARALA--N-NPKVLLCDEATS-  169 (233)
T ss_pred             CcHHHHHHHHHHHcCCCHHHHHHHHHHHHHHC---CChhhhhcChhhCCHHHHHHHHHHHHHh--c-CCCEEEecCCCC-
Confidence            0             011111 11122222222   221  11 1234555554332  33332  3 499999998532 


Q ss_pred             ccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         338 SANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       338 ~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                           +-+. .....+.+.|+.++++.+.+||+++|-..                   .+...||.++.+.+.
T Consensus       170 -----~LD~-~~~~~l~~~l~~~~~~~~~tvii~sH~~~-------------------~~~~~~d~i~~l~~G  217 (233)
T cd03258         170 -----ALDP-ETTQSILALLRDINRELGLTIVLITHEME-------------------VVKRICDRVAVMEKG  217 (233)
T ss_pred             -----cCCH-HHHHHHHHHHHHHHHHcCCEEEEEeCCHH-------------------HHHHhCCEEEEEECC
Confidence                 1222 23346777888888877899999988321                   356678999988643

Other members of this system include the MetP permease and the MetQ substrate binding protein. 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.

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=97.83  E-value=0.00051  Score=63.38  Aligned_cols=175  Identities=14%  Similarity=0.106  Sum_probs=88.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-C--CHHHHHHHHHHHhCCCCcccccc---
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-M--SGIQLAMRMLGSVGKLDQHKLRT---  276 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~--~~~~i~~R~~a~~~~i~~~~i~~---  276 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..--..| .|. +..+ .  ....+. +.++....-+  .+..   
T Consensus        15 il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G-~i~-~~g~~~~~~~~~~~-~~i~~~~q~~--~~~~~~t   89 (220)
T cd03265          15 AVRGVSFRVRRGEIFGLLGPNGAGKTTTIKMLTTLLKPTSG-RAT-VAGHDVVREPREVR-RRIGIVFQDL--SVDDELT   89 (220)
T ss_pred             eeeceeEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCce-EEE-ECCEecCcChHHHh-hcEEEecCCc--cccccCc
Confidence            45555456889999999999999999999877753311122 233 2221 1  111111 1111100000  0000   


Q ss_pred             -----------CCCCcc-hHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCC
Q psy2892         277 -----------GRLSSD-DWPRINDSIKKINKSQLYIDE-TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRG  343 (452)
Q Consensus       277 -----------g~l~~~-~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~  343 (452)
                                 ...... ...++.+..+.+. ..-+... ...+|-.+-+...-...--. +++++++|....      +
T Consensus        90 v~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~-l~~~~~~~~~~LS~G~~qr~~la~al~~-~p~llllDEPt~------~  161 (220)
T cd03265          90 GWENLYIHARLYGVPGAERRERIDELLDFVG-LLEAADRLVKTYSGGMRRRLEIARSLVH-RPEVLFLDEPTI------G  161 (220)
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHHcC-CHHHhhCChhhCCHHHHHHHHHHHHHhc-CCCEEEEcCCcc------C
Confidence                       001111 1122333333321 1111111 23455555443222222223 499999998532      1


Q ss_pred             CCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         344 ENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       344 ~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      -+. .....+.+.|+.++++++.+||+++|--.                   .+.+.+|.++.+...
T Consensus       162 LD~-~~~~~l~~~l~~~~~~~~~tvi~~tH~~~-------------------~~~~~~d~i~~l~~G  208 (220)
T cd03265         162 LDP-QTRAHVWEYIEKLKEEFGMTILLTTHYME-------------------EAEQLCDRVAIIDHG  208 (220)
T ss_pred             CCH-HHHHHHHHHHHHHHHhcCCEEEEEeCCHH-------------------HHHHhCCEEEEEeCC
Confidence            222 23456777888888888899999987321                   356678999888643

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. 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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.83  E-value=0.0011  Score=67.90  Aligned_cols=91  Identities=16%  Similarity=0.261  Sum_probs=55.3

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC-CCcEEEEeCCCCHHHHHH--HHHHHhCCCCccccccCCCCcchHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN-KLPVAIFSMEMSGIQLAM--RMLGSVGKLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~-g~~vl~~s~E~~~~~i~~--R~~a~~~~i~~~~i~~g~l~~~~~~~~  287 (452)
                      +.+|.++.|.|++|+||||++..++..++.+. +.+|.+++.+...---..  +..+...+++.....       +...+
T Consensus       347 l~~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~-------d~~~L  419 (559)
T PRK12727        347 LERGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEAD-------SAESL  419 (559)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecC-------cHHHH
Confidence            56789999999999999999999999886543 578999988642210111  111223344332111       11234


Q ss_pred             HHHHHHHhCCCeEEEcCCCCC
Q psy2892         288 NDSIKKINKSQLYIDETPSLN  308 (452)
Q Consensus       288 ~~a~~~l~~~~l~i~~~~~~t  308 (452)
                      ...++.+.+..+.+.|+++..
T Consensus       420 ~~aL~~l~~~DLVLIDTaG~s  440 (559)
T PRK12727        420 LDLLERLRDYKLVLIDTAGMG  440 (559)
T ss_pred             HHHHHHhccCCEEEecCCCcc
Confidence            445555555566666665544

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.81  E-value=0.00031  Score=62.95  Aligned_cols=176  Identities=17%  Similarity=0.191  Sum_probs=94.5

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCcccc------
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKL------  274 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i------  274 (452)
                      +.-|+.+.--+.+|++++|.||+|+|||||+..+-.--  .-...-++|..+......-.+.+....|+-...+      
T Consensus        15 ~~VLkgi~l~v~~Gevv~iiGpSGSGKSTlLRclN~LE--~~~~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFPHl   92 (240)
T COG1126          15 KEVLKGISLSVEKGEVVVIIGPSGSGKSTLLRCLNGLE--EPDSGSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFPHL   92 (240)
T ss_pred             eEEecCcceeEcCCCEEEEECCCCCCHHHHHHHHHCCc--CCCCceEEECCEeccchhhHHHHHHhcCeecccccccccc
Confidence            44555554568999999999999999999988654422  2223456666542211111111112233222111      


Q ss_pred             -----------ccCCCCcchHHHHHHHHHHHhCCCeE--EEc-CCCCCHH--HHHHHHHHHHHHcCCccEEEEcCcchhc
Q psy2892         275 -----------RTGRLSSDDWPRINDSIKKINKSQLY--IDE-TPSLNVI--ELRANSRRLSRQCGKIGVIIIDYLQLMS  338 (452)
Q Consensus       275 -----------~~g~l~~~~~~~~~~a~~~l~~~~l~--i~~-~~~~t~~--~i~~~i~~~~~~~~~~~~vvID~l~~i~  338 (452)
                                 .-..++.++  .-..|.+.|..-.+.  .+. ...+|=.  +=.+.+|.+..   +|+++..|-.+.--
T Consensus        93 TvleNv~lap~~v~~~~k~e--A~~~A~~lL~~VGL~~ka~~yP~qLSGGQqQRVAIARALaM---~P~vmLFDEPTSAL  167 (240)
T COG1126          93 TVLENVTLAPVKVKKLSKAE--AREKALELLEKVGLADKADAYPAQLSGGQQQRVAIARALAM---DPKVMLFDEPTSAL  167 (240)
T ss_pred             hHHHHHHhhhHHHcCCCHHH--HHHHHHHHHHHcCchhhhhhCccccCcHHHHHHHHHHHHcC---CCCEEeecCCcccC
Confidence                       001233332  223344444322211  111 2233322  22334444432   49999999865322


Q ss_pred             cCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         339 ANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       339 ~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      .       -+-++++..-++.+|++ |.+.+++.|==                   +-....||.|+|+..-
T Consensus       168 D-------PElv~EVL~vm~~LA~e-GmTMivVTHEM-------------------~FAr~VadrviFmd~G  212 (240)
T COG1126         168 D-------PELVGEVLDVMKDLAEE-GMTMIIVTHEM-------------------GFAREVADRVIFMDQG  212 (240)
T ss_pred             C-------HHHHHHHHHHHHHHHHc-CCeEEEEechh-------------------HHHHHhhheEEEeeCC
Confidence            2       23567888889999975 67777776621                   1245679999999764

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=97.80  E-value=0.00083  Score=62.64  Aligned_cols=35  Identities=26%  Similarity=0.409  Sum_probs=28.8

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        15 ~l~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   49 (236)
T cd03219          15 ALDDVSFSVRPGEIHGLIGPNGAGKTTLFNLISGF   49 (236)
T ss_pred             EecCceEEecCCcEEEEECCCCCCHHHHHHHHcCC
Confidence            45555445899999999999999999999877754

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>PRK06526 transposase; Provisional

Probab=97.80  E-value=0.00023  Score=66.94  Aligned_cols=46  Identities=20%  Similarity=0.344  Sum_probs=36.5

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM  262 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~  262 (452)
                      ..+.-++|.|+||+|||.++..++..++ ..|.+|+|++.    .++..++
T Consensus        96 ~~~~nlll~Gp~GtGKThLa~al~~~a~-~~g~~v~f~t~----~~l~~~l  141 (254)
T PRK06526         96 TGKENVVFLGPPGTGKTHLAIGLGIRAC-QAGHRVLFATA----AQWVARL  141 (254)
T ss_pred             hcCceEEEEeCCCCchHHHHHHHHHHHH-HCCCchhhhhH----HHHHHHH
Confidence            3456789999999999999999999887 47899998644    3455554

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=97.79  E-value=0.00052  Score=66.69  Aligned_cols=37  Identities=19%  Similarity=0.163  Sum_probs=30.7

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ..|+.+.--+.+|+++.|.|+.|+||||++.-++--.
T Consensus        21 ~~l~~vsl~i~~Gei~gllGpNGaGKSTLl~~l~Gl~   57 (306)
T PRK13537         21 LVVDGLSFHVQRGECFGLLGPNGAGKTTTLRMLLGLT   57 (306)
T ss_pred             EEEecceEEEeCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            4667765568999999999999999999998887543

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=97.78  E-value=0.00073  Score=63.86  Aligned_cols=168  Identities=13%  Similarity=0.052  Sum_probs=86.6

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCC-------------cEEEEeCC------CCHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKL-------------PVAIFSME------MSGIQLAMRML  263 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~-------------~vl~~s~E------~~~~~i~~R~~  263 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..--..|.             .+.|+.-+      .+..+..... 
T Consensus        16 il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~~~~~~~~~~~v~q~~~~~~~~tv~e~l~~~-   94 (255)
T PRK11248         16 ALEDINLTLESGELLVVLGPSGCGKTTLLNLIAGFVPYQHGSITLDGKPVEGPGAERGVVFQNEGLLPWRNVQDNVAFG-   94 (255)
T ss_pred             eEeeeeEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCEECCCCCCcEEEEeCCCccCCCCcHHHHHHhH-
Confidence            455554458999999999999999999998877543111221             12222211      1111111000 


Q ss_pred             HHhCCCCccccccCCCCcc-hHHHHHHHHHHHhCCCeEEE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         264 GSVGKLDQHKLRTGRLSSD-DWPRINDSIKKINKSQLYID-ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       264 a~~~~i~~~~i~~g~l~~~-~~~~~~~a~~~l~~~~l~i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                      ....         + +... ...++.+..+.+. ..-+.. ....+|-.+-+...-...--. +++++++|.-..     
T Consensus        95 ~~~~---------~-~~~~~~~~~~~~~l~~~g-l~~~~~~~~~~LSgGq~qrl~laral~~-~p~lllLDEPt~-----  157 (255)
T PRK11248         95 LQLA---------G-VEKMQRLEIAHQMLKKVG-LEGAEKRYIWQLSGGQRQRVGIARALAA-NPQLLLLDEPFG-----  157 (255)
T ss_pred             HHHc---------C-CCHHHHHHHHHHHHHHcC-ChhHhhCChhhCCHHHHHHHHHHHHHhc-CCCEEEEeCCCc-----
Confidence            0000         1 1111 1122333333321 110111 123456555433322222223 499999998432     


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                       +-+. .....+.+.|+.++++.+.+||+++|--.                   .+...||.++.|..
T Consensus       158 -~LD~-~~~~~l~~~L~~~~~~~g~tviivsH~~~-------------------~~~~~~d~i~~l~~  204 (255)
T PRK11248        158 -ALDA-FTREQMQTLLLKLWQETGKQVLLITHDIE-------------------EAVFMATELVLLSP  204 (255)
T ss_pred             -cCCH-HHHHHHHHHHHHHHHhcCCEEEEEeCCHH-------------------HHHHhCCEEEEEeC
Confidence             1222 23456677788877767899999988432                   35667899999863

>PRK11308 dppF dipeptide transporter ATP-binding subunit; Provisional

Probab=97.78  E-value=0.0006  Score=66.82  Aligned_cols=181  Identities=13%  Similarity=0.080  Sum_probs=93.0

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC---CCHHHHHH--HHHHHhCCCCcc----
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME---MSGIQLAM--RMLGSVGKLDQH----  272 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E---~~~~~i~~--R~~a~~~~i~~~----  272 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++--... ....|.|-.-+   ++..++..  +-++....-+..    
T Consensus        29 ~~l~~vsl~i~~Ge~~~IvG~sGsGKSTLl~~l~gl~~p-~~G~i~~~g~~l~~~~~~~~~~~r~~i~~v~Q~~~~~l~p  107 (327)
T PRK11308         29 KALDGVSFTLERGKTLAVVGESGCGKSTLARLLTMIETP-TGGELYYQGQDLLKADPEAQKLLRQKIQIVFQNPYGSLNP  107 (327)
T ss_pred             eEEeeeEEEECCCCEEEEECCCCCcHHHHHHHHHcCCCC-CCcEEEECCEEcCcCCHHHHHHHhCCEEEEEcCchhhcCC
Confidence            456766445899999999999999999999887764321 22234442212   22222211  111111110000    


Q ss_pred             --cc----c-----cCCCCcch-HHHHHHHHHHHhCCCeEEE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         273 --KL----R-----TGRLSSDD-WPRINDSIKKINKSQLYID-ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       273 --~i----~-----~g~l~~~~-~~~~~~a~~~l~~~~l~i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                        .+    .     ...+...+ ..++.++++.+.-.+-... ....+|-.+....+-...-.. +++++|.|.-...- 
T Consensus       108 ~~~v~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~gL~~~~~~~~p~~LSgGq~QRv~iArAL~~-~P~lLilDEPts~L-  185 (327)
T PRK11308        108 RKKVGQILEEPLLINTSLSAAERREKALAMMAKVGLRPEHYDRYPHMFSGGQRQRIAIARALML-DPDVVVADEPVSAL-  185 (327)
T ss_pred             ccCHHHHHHHHHHHccCCCHHHHHHHHHHHHHHCCCChHHhcCCCccCCHHHHHHHHHHHHHHc-CCCEEEEECCCccC-
Confidence              00    0     01122211 1233333333211111111 123556555443322222223 49999999964322 


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         340 NSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       340 ~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                           + ......+.+.|+.+.++.+.+||+++|--.                   .+.+.||.|+.|+..
T Consensus       186 -----D-~~~~~~i~~lL~~l~~~~g~til~iTHdl~-------------------~~~~~adrv~vm~~G  231 (327)
T PRK11308        186 -----D-VSVQAQVLNLMMDLQQELGLSYVFISHDLS-------------------VVEHIADEVMVMYLG  231 (327)
T ss_pred             -----C-HHHHHHHHHHHHHHHHHcCCEEEEEeCCHH-------------------HHHHhCCEEEEEECC
Confidence                 1 223457788888888889999999988432                   234457777777653

>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=0.00025  Score=63.30  Aligned_cols=153  Identities=15%  Similarity=0.204  Sum_probs=83.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHHHHHHHhCCCCccccccCC
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAMRMLGSVGKLDQHKLRTGR  278 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~R~~a~~~~i~~~~i~~g~  278 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..-...| .| ++..+    .+...+..+ ++....          
T Consensus        14 ~l~~~~~~i~~G~~~~l~G~nGsGKStLl~~i~G~~~~~~G-~v-~~~g~~~~~~~~~~~~~~-i~~~~q----------   80 (180)
T cd03214          14 VLDDLSLSIEAGEIVGILGPNGAGKSTLLKTLAGLLKPSSG-EI-LLDGKDLASLSPKELARK-IAYVPQ----------   80 (180)
T ss_pred             eEeeeEEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc-EE-EECCEECCcCCHHHHHHH-HhHHHH----------
Confidence            45555445899999999999999999998877654321222 34 34322    122222221 111000          


Q ss_pred             CCcchHHHHHHHHHHHhCCCeEEE-cCCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHH
Q psy2892         279 LSSDDWPRINDSIKKINKSQLYID-ETPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISR  355 (452)
Q Consensus       279 l~~~~~~~~~~a~~~l~~~~l~i~-~~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~  355 (452)
                                 +.+.+. ..-++. ....+|-.+.+.  .++.+.  . +++++++|.-..      +-+. .....+.+
T Consensus        81 -----------~l~~~g-l~~~~~~~~~~LS~G~~qrl~laral~--~-~p~llllDEP~~------~LD~-~~~~~~~~  138 (180)
T cd03214          81 -----------ALELLG-LAHLADRPFNELSGGERQRVLLARALA--Q-EPPILLLDEPTS------HLDI-AHQIELLE  138 (180)
T ss_pred             -----------HHHHcC-CHhHhcCCcccCCHHHHHHHHHHHHHh--c-CCCEEEEeCCcc------CCCH-HHHHHHHH
Confidence                       111110 000000 112345444333  233332  2 499999998532      1121 23456777


Q ss_pred             HHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         356 NLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       356 ~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      .|+.++++.+.++|+++|-..                   .+...||.++.+..
T Consensus       139 ~l~~~~~~~~~tiii~sh~~~-------------------~~~~~~d~~~~l~~  173 (180)
T cd03214         139 LLRRLARERGKTVVMVLHDLN-------------------LAARYADRVILLKD  173 (180)
T ss_pred             HHHHHHHhcCCEEEEEeCCHH-------------------HHHHhCCEEEEEEC
Confidence            788887776889999887432                   24567898888864

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.

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=97.77  E-value=0.00049  Score=66.77  Aligned_cols=35  Identities=17%  Similarity=0.222  Sum_probs=29.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--
T Consensus         8 ~l~~vs~~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl   42 (302)
T TIGR01188         8 AVDGVNFKVREGEVFGFLGPNGAGKTTTIRMLTTL   42 (302)
T ss_pred             EEeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            46666456899999999999999999999877653

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.

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=97.77  E-value=0.00066  Score=67.08  Aligned_cols=164  Identities=13%  Similarity=0.129  Sum_probs=80.6

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC---CCHHHHH--HHHHHHhCCCC---c-c
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME---MSGIQLA--MRMLGSVGKLD---Q-H  272 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E---~~~~~i~--~R~~a~~~~i~---~-~  272 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++-...-.. ..|.|-..+   ++..++.  .+.++....-.   . .
T Consensus        19 ~il~~vsl~i~~Gei~~iiG~nGsGKSTLlk~L~Gl~~p~~-G~I~~~g~~i~~~~~~~~~~~~~~ig~v~q~~~l~~~~   97 (343)
T PRK11153         19 HALNNVSLHIPAGEIFGVIGASGAGKSTLIRCINLLERPTS-GRVLVDGQDLTALSEKELRKARRQIGMIFQHFNLLSSR   97 (343)
T ss_pred             EEEEeeEEEEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCc-eEEEECCEECCcCCHHHHHHHhcCEEEEeCCCccCCCC
Confidence            35666644689999999999999999999987765432112 234332111   2222221  11111110000   0 0


Q ss_pred             cccc--------CCCCcch-HHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCC
Q psy2892         273 KLRT--------GRLSSDD-WPRINDSIKKINKSQLYIDE-TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSR  342 (452)
Q Consensus       273 ~i~~--------g~l~~~~-~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~  342 (452)
                      .+.+        ..++..+ ..++.+.++.+. ..-+... ...+|-.+-+...-...-.. +|+++++|.-..      
T Consensus        98 tv~eni~~~~~~~~~~~~~~~~~~~~~l~~~g-L~~~~~~~~~~LSgGq~qRv~lAraL~~-~p~iLlLDEPts------  169 (343)
T PRK11153         98 TVFDNVALPLELAGTPKAEIKARVTELLELVG-LSDKADRYPAQLSGGQKQRVAIARALAS-NPKVLLCDEATS------  169 (343)
T ss_pred             cHHHHHHHHHHHcCCCHHHHHHHHHHHHHHcC-CchhhhCChhhCCHHHHHHHHHHHHHHc-CCCEEEEeCCcc------
Confidence            0000        0111111 122233333221 1111111 23466555443322222223 499999998532      


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCC
Q psy2892         343 GENRATEISEISRNLKGLAKEINCPILALSQLN  375 (452)
Q Consensus       343 ~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~  375 (452)
                      +-+. .....+.+.|+.++++.+.+||+++|--
T Consensus       170 ~LD~-~~~~~l~~~L~~l~~~~g~tiilvtH~~  201 (343)
T PRK11153        170 ALDP-ATTRSILELLKDINRELGLTIVLITHEM  201 (343)
T ss_pred             cCCH-HHHHHHHHHHHHHHHhcCCEEEEEeCCH
Confidence            1222 2345777888888888899999998843

>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=97.77  E-value=5.3e-05  Score=63.45  Aligned_cols=32  Identities=22%  Similarity=0.452  Sum_probs=26.3

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ++|.|+||+|||+++..+|...    +.+++.+++.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l----~~~~~~i~~~   32 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL----GFPFIEIDGS   32 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT----TSEEEEEETT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc----cccccccccc
Confidence            5799999999999999998865    5677777664

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 ....

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=97.76  E-value=0.00025  Score=63.95  Aligned_cols=132  Identities=21%  Similarity=0.218  Sum_probs=81.1

Q ss_pred             CCCCcE-EEEEeCCCCChhHHHHHHHHHHHHh----CCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHH
Q psy2892         211 LQPGDL-IIVAGRPSMGKTAFSLNIGEHIAIE----NKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWP  285 (452)
Q Consensus       211 ~~~G~l-~~i~g~pg~GKT~~~l~ia~~~a~~----~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~  285 (452)
                      +..|.+ ++|.|||++||||++..+|...+..    .+.+|..+.--   .++..    +.-|++...+           
T Consensus       133 y~~g~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDer---sEIag----~~~gvpq~~~-----------  194 (308)
T COG3854         133 YQNGWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDER---SEIAG----CLNGVPQHGR-----------  194 (308)
T ss_pred             HhcCceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEecc---chhhc----cccCCchhhh-----------
Confidence            456777 8999999999999999999998764    46778877531   23332    3344443211           


Q ss_pred             HHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhC
Q psy2892         286 RINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEIN  365 (452)
Q Consensus       286 ~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~  365 (452)
                                ...+-+.|. ....+-+...++    .+ .|+++|||.+.....          .-.+    . -|-+.|
T Consensus       195 ----------g~R~dVld~-cpk~~gmmmaIr----sm-~PEViIvDEIGt~~d----------~~A~----~-ta~~~G  243 (308)
T COG3854         195 ----------GRRMDVLDP-CPKAEGMMMAIR----SM-SPEVIIVDEIGTEED----------ALAI----L-TALHAG  243 (308)
T ss_pred             ----------hhhhhhccc-chHHHHHHHHHH----hc-CCcEEEEeccccHHH----------HHHH----H-HHHhcC
Confidence                      012222221 122233444343    34 499999999854321          1111    1 234689


Q ss_pred             CcEEEEecCCcchhhcCCCCCCchhhhh
Q psy2892         366 CPILALSQLNRSLEQRQNKRPIMSDLRE  393 (452)
Q Consensus       366 i~vi~l~ql~r~~~~r~~~~p~l~dl~~  393 (452)
                      +-++.++|=+.-.  .-.|+|+++|+-+
T Consensus       244 Vkli~TaHG~~ie--dl~krp~lkdlv~  269 (308)
T COG3854         244 VKLITTAHGNGIE--DLIKRPTLKDLVE  269 (308)
T ss_pred             cEEEEeeccccHH--HhhcChhHHHHHh
Confidence            9999999987643  2357899999864

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=97.76  E-value=0.00058  Score=62.87  Aligned_cols=36  Identities=17%  Similarity=0.381  Sum_probs=29.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        19 il~~~s~~i~~G~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          19 ALKGVSLSIEKGEFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             EEeeeEEEEcCCCEEEEEcCCCCCHHHHHHHHhCCc
Confidence            456654468999999999999999999998887543

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=97.76  E-value=0.00089  Score=62.90  Aligned_cols=164  Identities=13%  Similarity=0.086  Sum_probs=86.8

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC------CCcEEEEeCC------CCHHHHHHHHHHHhCCCCc
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN------KLPVAIFSME------MSGIQLAMRMLGSVGKLDQ  271 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~------g~~vl~~s~E------~~~~~i~~R~~a~~~~i~~  271 (452)
                      |+-..+-+.+|+++.|.|++|+|||||+.-++-..--..      |.++.|+.-+      ++..+.......   .   
T Consensus        15 l~~~~~~i~~Ge~~~i~G~NGsGKSTLlk~L~G~~~p~~G~i~~~g~~i~~~~q~~~~~~~~tv~e~l~~~~~---~---   88 (246)
T cd03237          15 LEVEGGSISESEVIGILGPNGIGKTTFIKMLAGVLKPDEGDIEIELDTVSYKPQYIKADYEGTVRDLLSSITK---D---   88 (246)
T ss_pred             EEEecCCcCCCCEEEEECCCCCCHHHHHHHHhCCCcCCCCeEEECCceEEEecccccCCCCCCHHHHHHHHhh---h---
Confidence            333345688999999999999999999987765432112      2345554322      222222211100   0   


Q ss_pred             cccccCCCCcchHHHHHHHHHHHhCCCeEEE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHH
Q psy2892         272 HKLRTGRLSSDDWPRINDSIKKINKSQLYID-ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEI  350 (452)
Q Consensus       272 ~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~  350 (452)
                            ......  ...+..+.+. ..-... ....+|-.+.+...-...-.. +++++++|.-..-      -+. ...
T Consensus        89 ------~~~~~~--~~~~~l~~l~-l~~~~~~~~~~LSgGe~qrv~iaraL~~-~p~llllDEPt~~------LD~-~~~  151 (246)
T cd03237          89 ------FYTHPY--FKTEIAKPLQ-IEQILDREVPELSGGELQRVAIAACLSK-DADIYLLDEPSAY------LDV-EQR  151 (246)
T ss_pred             ------ccccHH--HHHHHHHHcC-CHHHhhCChhhCCHHHHHHHHHHHHHhc-CCCEEEEeCCccc------CCH-HHH
Confidence                  000000  1112222221 110111 123455554433322211222 4999999985321      222 234


Q ss_pred             HHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         351 SEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       351 ~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      ..+.+.|+.++++.+.+||+++|--.                   .+.+.||.++.+..
T Consensus       152 ~~l~~~l~~~~~~~~~tiiivsHd~~-------------------~~~~~~d~i~~l~~  191 (246)
T cd03237         152 LMASKVIRRFAENNEKTAFVVEHDII-------------------MIDYLADRLIVFEG  191 (246)
T ss_pred             HHHHHHHHHHHHhcCCEEEEEeCCHH-------------------HHHHhCCEEEEEcC
Confidence            56778888888888999999988432                   24567888888854

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.

>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=97.76  E-value=0.0005  Score=63.37  Aligned_cols=104  Identities=16%  Similarity=0.223  Sum_probs=63.7

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHh-CCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIE-NKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKI  294 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~-~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l  294 (452)
                      .+.|.|++|+|||.|+..++..+... .+.+|+|++.+    +....+.....        .                  
T Consensus        36 ~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~----~f~~~~~~~~~--------~------------------   85 (219)
T PF00308_consen   36 PLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLSAE----EFIREFADALR--------D------------------   85 (219)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEEHH----HHHHHHHHHHH--------T------------------
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHHhccccccceeecHH----HHHHHHHHHHH--------c------------------
Confidence            47899999999999999998887543 46889999876    34444432110        0                  


Q ss_pred             hCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         295 NKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       295 ~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                                  -.+++++..       +...++++||.++.+...    ..++  ..+..-+ +-..+.|.++|+++..
T Consensus        86 ------------~~~~~~~~~-------~~~~DlL~iDDi~~l~~~----~~~q--~~lf~l~-n~~~~~~k~li~ts~~  139 (219)
T PF00308_consen   86 ------------GEIEEFKDR-------LRSADLLIIDDIQFLAGK----QRTQ--EELFHLF-NRLIESGKQLILTSDR  139 (219)
T ss_dssp             ------------TSHHHHHHH-------HCTSSEEEEETGGGGTTH----HHHH--HHHHHHH-HHHHHTTSEEEEEESS
T ss_pred             ------------ccchhhhhh-------hhcCCEEEEecchhhcCc----hHHH--HHHHHHH-HHHHhhCCeEEEEeCC
Confidence                        112233322       225999999999988642    1221  2333333 3334678899998865


Q ss_pred             C
Q psy2892         375 N  375 (452)
Q Consensus       375 ~  375 (452)
                      .
T Consensus       140 ~  140 (219)
T PF00308_consen  140 P  140 (219)
T ss_dssp             -
T ss_pred             C
Confidence            4

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.

>PRK08727 hypothetical protein; Validated

Probab=97.76  E-value=0.00028  Score=65.69  Aligned_cols=36  Identities=19%  Similarity=0.341  Sum_probs=31.7

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      ..++|.|+||+|||.++..++..+. +.|.+|.|++.
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~~~-~~~~~~~y~~~   77 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAAAE-QAGRSSAYLPL   77 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEEeH
Confidence            4599999999999999999988875 57899999985

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.75  E-value=0.00038  Score=63.16  Aligned_cols=166  Identities=14%  Similarity=0.222  Sum_probs=93.9

Q ss_pred             ccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC----CHHHHHHHHHHHhC----
Q psy2892         196 GISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM----SGIQLAMRMLGSVG----  267 (452)
Q Consensus       196 ~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~----~~~~i~~R~~a~~~----  267 (452)
                      .+|.|-..|+.+.--+++|+++.|.|++|+|||||+..+..-.  .....-+++..+.    ...++ .++.....    
T Consensus        12 ~yp~~~~aL~~Vnl~I~~GE~VaiIG~SGaGKSTLLR~lngl~--d~t~G~i~~~g~~i~~~~~k~l-r~~r~~iGmIfQ   88 (258)
T COG3638          12 TYPGGHQALKDVNLEINQGEMVAIIGPSGAGKSTLLRSLNGLV--DPTSGEILFNGVQITKLKGKEL-RKLRRDIGMIFQ   88 (258)
T ss_pred             ecCCCceeeeeEeEEeCCCcEEEEECCCCCcHHHHHHHHhccc--CCCcceEEecccchhccchHHH-HHHHHhceeEec
Confidence            3556777888886679999999999999999999999887732  2222244444432    21211 12211110    


Q ss_pred             CCCc-------cccc-------------cCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHH--HHHHHHHHHHHcCC
Q psy2892         268 KLDQ-------HKLR-------------TGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIE--LRANSRRLSRQCGK  325 (452)
Q Consensus       268 ~i~~-------~~i~-------------~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~--i~~~i~~~~~~~~~  325 (452)
                      +.++       ..+.             =|-++.++..+..++.+++.=..........+|-.+  =.+.+|.+. +  +
T Consensus        89 ~~nLv~r~sv~~NVl~grl~~~s~~~slfglfsk~dk~~Al~aLervgi~~~A~qra~~LSGGQQQRVaIARaL~-Q--~  165 (258)
T COG3638          89 QFNLVPRLSVLENVLLGRLGYTSTWRSLFGLFSKEDKAQALDALERVGILDKAYQRASTLSGGQQQRVAIARALV-Q--Q  165 (258)
T ss_pred             cCCcccccHHHHHHHhhhcccchHHHHHhCCCCHHHHHHHHHHHHHcCcHHHHHHHhccCCcchhHHHHHHHHHh-c--C
Confidence            0000       0000             134567776666666665532222222223344322  223444443 3  4


Q ss_pred             ccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         326 IGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       326 ~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                      +++|.=|.-..--      +. ..-..++..|+.++++.|++||+.-|.
T Consensus       166 pkiILADEPvasL------Dp-~~a~~Vm~~l~~in~~~g~Tvi~nLH~  207 (258)
T COG3638         166 PKIILADEPVASL------DP-ESAKKVMDILKDINQEDGITVIVNLHQ  207 (258)
T ss_pred             CCEEecCCccccc------Ch-hhHHHHHHHHHHHHHHcCCEEEEEech
Confidence            8999988742211      11 123578999999999999998886653

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=97.75  E-value=0.0005  Score=64.00  Aligned_cols=172  Identities=10%  Similarity=0.100  Sum_probs=84.2

Q ss_pred             CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHHHHhC-------CCCcc-ccc----
Q psy2892         209 SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM-SGIQLAMRMLGSVG-------KLDQH-KLR----  275 (452)
Q Consensus       209 gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~-~~~~i~~R~~a~~~-------~i~~~-~i~----  275 (452)
                      --+.+|+++.|.|++|+|||||+.-++-..-...| .|. +..+. .......+.++...       +.+.. .+.    
T Consensus        20 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G-~i~-~~g~~~~~~~~~~~~i~~~~q~~~~~~~~tv~e~l~~~~~   97 (232)
T PRK10771         20 LTVERGERVAILGPSGAGKSTLLNLIAGFLTPASG-SLT-LNGQDHTTTPPSRRPVSMLFQENNLFSHLTVAQNIGLGLN   97 (232)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc-eEE-ECCeecCcCChhhccEEEEecccccccCCcHHHHHhcccc
Confidence            35889999999999999999999877654321122 222 22210 00000001000000       00000 000    


Q ss_pred             cC-CCCcchHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHH
Q psy2892         276 TG-RLSSDDWPRINDSIKKINKSQLYIDE-TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEI  353 (452)
Q Consensus       276 ~g-~l~~~~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i  353 (452)
                      .+ ........++.++.+.+.-.. ++.. ...+|-.+.+...-...-.. +++++++|.-..      +-+. .....+
T Consensus        98 ~~~~~~~~~~~~~~~~l~~~~l~~-~~~~~~~~LS~G~~qrv~laral~~-~p~lllLDEP~~------gLD~-~~~~~~  168 (232)
T PRK10771         98 PGLKLNAAQREKLHAIARQMGIED-LLARLPGQLSGGQRQRVALARCLVR-EQPILLLDEPFS------ALDP-ALRQEM  168 (232)
T ss_pred             cccCCCHHHHHHHHHHHHHcCcHH-HHhCCcccCCHHHHHHHHHHHHHhc-CCCEEEEeCCcc------cCCH-HHHHHH
Confidence            00 011112223333333321101 1111 22456555443322211223 499999998532      1222 233467


Q ss_pred             HHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         354 SRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       354 ~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      .+.|+.++++.+.+||+++|-..                   .+.+.+|.++.+...
T Consensus       169 ~~~l~~~~~~~~~tiii~sH~~~-------------------~~~~~~d~i~~l~~g  206 (232)
T PRK10771        169 LTLVSQVCQERQLTLLMVSHSLE-------------------DAARIAPRSLVVADG  206 (232)
T ss_pred             HHHHHHHHHhcCCEEEEEECCHH-------------------HHHHhCCEEEEEECC
Confidence            77888888877889999887432                   255678888888653

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=97.75  E-value=0.00062  Score=63.13  Aligned_cols=36  Identities=17%  Similarity=0.219  Sum_probs=29.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        25 ~l~~~s~~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl~   60 (228)
T PRK10584         25 ILTGVELVVKRGETIALIGESGSGKSTLLAILAGLD   60 (228)
T ss_pred             EEeccEEEEcCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            455554458899999999999999999998887643

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=97.75  E-value=0.00023  Score=68.20  Aligned_cols=42  Identities=21%  Similarity=0.433  Sum_probs=36.6

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhC-CCcEEEEeCCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN-KLPVAIFSMEM  253 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~-g~~vl~~s~E~  253 (452)
                      .+|.+++|+|++|+||||++..+|..++.+. +.+|.+++++.
T Consensus       192 ~~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~  234 (282)
T TIGR03499       192 EQGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDT  234 (282)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCc
Confidence            4577999999999999999999999987643 48999999885

>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=97.75  E-value=0.0013  Score=61.17  Aligned_cols=176  Identities=14%  Similarity=0.119  Sum_probs=86.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH-HHHHHHHHHhCCCCccccccC-C--
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI-QLAMRMLGSVGKLDQHKLRTG-R--  278 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~-~i~~R~~a~~~~i~~~~i~~g-~--  278 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..-...| .|. +..+.-.. ....+.++.... +.. +..+ .  
T Consensus        15 il~~i~~~i~~Ge~~~i~G~nGsGKSTLl~~l~g~~~~~~G-~i~-~~g~~~~~~~~~~~~i~~~~q-~~~-~~~~~t~~   90 (232)
T cd03300          15 ALDGVSLDIKEGEFFTLLGPSGCGKTTLLRLIAGFETPTSG-EIL-LDGKDITNLPPHKRPVNTVFQ-NYA-LFPHLTVF   90 (232)
T ss_pred             eeccceEEECCCCEEEEECCCCCCHHHHHHHHhcCCCCCce-EEE-ECCEEcCcCChhhcceEEEec-ccc-cCCCCcHH
Confidence            34444335889999999999999999999888765422222 233 32210000 000111110000 000 0000 0  


Q ss_pred             -----------CCcc-hHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCC
Q psy2892         279 -----------LSSD-DWPRINDSIKKINKSQLYIDE-TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGEN  345 (452)
Q Consensus       279 -----------l~~~-~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~  345 (452)
                                 .... ...++..+.+.+. ..-+... ...+|..+.+...-...-.. +++++++|.-..      +.+
T Consensus        91 ~nl~~~~~~~~~~~~~~~~~~~~~l~~~~-l~~~~~~~~~~lS~G~~qrl~laral~~-~p~llllDEP~~------gLD  162 (232)
T cd03300          91 ENIAFGLRLKKLPKAEIKERVAEALDLVQ-LEGYANRKPSQLSGGQQQRVAIARALVN-EPKVLLLDEPLG------ALD  162 (232)
T ss_pred             HHHHHHHHhcCCCHHHHHHHHHHHHHHcC-CchhhcCChhhCCHHHHHHHHHHHHHhc-CCCEEEEcCCcc------cCC
Confidence                       0111 0112222222211 1111111 13456555544322222222 599999998532      122


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         346 RATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       346 ~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      . .....+.+.|+.++++.+.+||+++|-..                   .+...+|.++.+...
T Consensus       163 ~-~~~~~l~~~l~~~~~~~~~tiii~sh~~~-------------------~~~~~~d~i~~l~~G  207 (232)
T cd03300         163 L-KLRKDMQLELKRLQKELGITFVFVTHDQE-------------------EALTMSDRIAVMNKG  207 (232)
T ss_pred             H-HHHHHHHHHHHHHHHHcCCEEEEEeCCHH-------------------HHHHhcCEEEEEECC
Confidence            2 23346777788887777999999987432                   245678988888653

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.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=97.75  E-value=0.00063  Score=62.01  Aligned_cols=35  Identities=26%  Similarity=0.467  Sum_probs=28.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        15 ~l~~v~~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (205)
T cd03226          15 ILDDLSLDLYAGEIIALTGKNGAGKTTLAKILAGL   49 (205)
T ss_pred             eeeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            45555445899999999999999999999877754

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=97.74  E-value=0.00072  Score=63.11  Aligned_cols=35  Identities=20%  Similarity=0.265  Sum_probs=28.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-.
T Consensus        36 il~~vs~~i~~Ge~~~i~G~NGsGKSTLl~~i~Gl   70 (236)
T cd03267          36 ALKGISFTIEKGEIVGFIGPNGAGKTTTLKILSGL   70 (236)
T ss_pred             eeeceeEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            35555445889999999999999999999888754

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, 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 the single ATP-binding protein and the single intergral membrane protein.

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=97.74  E-value=0.00043  Score=65.84  Aligned_cols=35  Identities=20%  Similarity=0.359  Sum_probs=29.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        26 il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   60 (265)
T PRK10575         26 LLHPLSLTFPAGKVTGLIGHNGSGKSTLLKMLGRH   60 (265)
T ss_pred             EEeeeeeEEcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            45665456899999999999999999999877754

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=97.74  E-value=0.0011  Score=60.77  Aligned_cols=36  Identities=19%  Similarity=0.321  Sum_probs=29.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..
T Consensus        15 ~l~~~s~~i~~G~~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03262          15 VLKGIDLTVKKGEVVVIIGPSGSGKSTLLRCINLLE   50 (213)
T ss_pred             eecCceEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455554458899999999999999999998887543

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=97.73  E-value=0.0005  Score=69.32  Aligned_cols=92  Identities=12%  Similarity=0.152  Sum_probs=57.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhC-CCcEEEEeCCC--CHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIEN-KLPVAIFSMEM--SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK  292 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~-g~~vl~~s~E~--~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~  292 (452)
                      .++|.|+||+|||+++..++.++.... +..++|+++-.  +...+..+++....+.+.                     
T Consensus        57 ~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~---------------------  115 (394)
T PRK00411         57 NVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQLFGHPP---------------------  115 (394)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHHhcCCCC---------------------
Confidence            468999999999999999998875322 46788887642  334455555443322110                     


Q ss_pred             HHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhc
Q psy2892         293 KINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMS  338 (452)
Q Consensus       293 ~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~  338 (452)
                                .....+..++...+.......++.-+||||.++.+.
T Consensus       116 ----------~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~  151 (394)
T PRK00411        116 ----------PSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLF  151 (394)
T ss_pred             ----------CCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhh
Confidence                      012234455555554444433446789999999886

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=97.73  E-value=0.00066  Score=62.27  Aligned_cols=35  Identities=20%  Similarity=0.425  Sum_probs=29.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        14 ~l~~isl~i~~Ge~~~l~G~nGsGKSTLl~~l~G~   48 (213)
T cd03235          14 VLEDVSFEVKPGEFLAIVGPNGAGKSTLLKAILGL   48 (213)
T ss_pred             eeecceeEEcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            45655446899999999999999999999877654

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.

>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.73  E-value=0.00015  Score=67.18  Aligned_cols=180  Identities=13%  Similarity=0.108  Sum_probs=96.7

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC-----CHHHHHHHHHHHhCCCCcccc-
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM-----SGIQLAMRMLGSVGKLDQHKL-  274 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~-----~~~~i~~R~~a~~~~i~~~~i-  274 (452)
                      -+.|+.+.-.+.+|+.++|.|++|+||||++..++--.- .....| ++....     +..++..+. .....-+-..+ 
T Consensus        17 ~~~l~~v~~~i~~Ge~~~i~G~nGsGKSTL~~~l~GLl~-p~~G~v-~~~g~~~~~~~~~~~~~~~v-G~VfQnpd~q~~   93 (235)
T COG1122          17 KAALKDVSLEIEKGERVLLIGPNGSGKSTLLKLLNGLLK-PTSGEV-LVDGLDTSSEKSLLELRQKV-GLVFQNPDDQLF   93 (235)
T ss_pred             ceeeeeeEEEECCCCEEEEECCCCCCHHHHHHHHcCcCc-CCCCEE-EECCeeccchhhHHHhhcce-EEEEECcccccc
Confidence            355666656799999999999999999999988775442 222234 443322     222222221 10000010001 


Q ss_pred             ------------ccCCCCcch-HHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         275 ------------RTGRLSSDD-WPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       275 ------------~~g~l~~~~-~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                                  .+-.++.++ ..++.++...+.-..+.-.....+|-.+-+..+-.-.-.. +|+++|+|--+..-.  
T Consensus        94 ~~tV~~evafg~~n~g~~~~e~~~rv~~~l~~vgl~~~~~r~p~~LSGGqkqRvaIA~vLa~-~P~iliLDEPta~LD--  170 (235)
T COG1122          94 GPTVEDEVAFGLENLGLPREEIEERVAEALELVGLEELLDRPPFNLSGGQKQRVAIAGVLAM-GPEILLLDEPTAGLD--  170 (235)
T ss_pred             cCcHHHHHhhchhhcCCCHHHHHHHHHHHHHHcCchhhccCCccccCCcceeeHHhhHHHHc-CCCEEEEcCCCCCCC--
Confidence                        111233333 3345555544432222111111223222222111111123 499999998654332  


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                           ......+++.++++.++.+.+||+++|--.                   .+...||.++.+...
T Consensus       171 -----~~~~~~l~~~l~~L~~~~~~tii~~tHd~~-------------------~~~~~ad~v~vl~~G  215 (235)
T COG1122         171 -----PKGRRELLELLKKLKEEGGKTIIIVTHDLE-------------------LVLEYADRVVVLDDG  215 (235)
T ss_pred             -----HHHHHHHHHHHHHHHhcCCCeEEEEeCcHH-------------------HHHhhCCEEEEEECC
Confidence                 233467888999999998999999887321                   356678999998654

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=97.72  E-value=0.0011  Score=63.25  Aligned_cols=176  Identities=13%  Similarity=0.151  Sum_probs=87.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHH---HHHHHHhCC-------
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLA---MRMLGSVGK-------  268 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~---~R~~a~~~~-------  268 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-...-..| .| ++..+    .+...+.   .+.++....       
T Consensus        39 il~~is~~i~~Ge~~~l~G~nGsGKSTLl~~L~Gl~~p~~G-~i-~i~g~~~~~~~~~~~~~~~~~~i~~v~q~~~~~~~  116 (269)
T cd03294          39 GVNDVSLDVREGEIFVIMGLSGSGKSTLLRCINRLIEPTSG-KV-LIDGQDIAAMSRKELRELRRKKISMVFQSFALLPH  116 (269)
T ss_pred             EeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCe-EE-EECCEEccccChhhhhhhhcCcEEEEecCcccCCC
Confidence            35555446899999999999999999999877654321122 23 33222    1111111   000100000       


Q ss_pred             CCccc-cc----cCCCCcc-hHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHH--HHHHHHHcCCccEEEEcCcchhcc
Q psy2892         269 LDQHK-LR----TGRLSSD-DWPRINDSIKKINKSQLYIDE-TPSLNVIELRAN--SRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       269 i~~~~-i~----~g~l~~~-~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~--i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      .+... +.    ...+... ..+++.+.++.+. ..-+... ...+|-.+-+..  ++.+.  . +++++++|.-..   
T Consensus       117 ~tv~e~l~~~~~~~~~~~~~~~~~~~~~l~~~~-l~~~~~~~~~~LS~Gq~qrv~lAral~--~-~p~illLDEPt~---  189 (269)
T cd03294         117 RTVLENVAFGLEVQGVPRAEREERAAEALELVG-LEGWEHKYPDELSGGMQQRVGLARALA--V-DPDILLMDEAFS---  189 (269)
T ss_pred             CcHHHHHHHHHHhcCCCHHHHHHHHHHHHHHcC-CHhHhhCCcccCCHHHHHHHHHHHHHh--c-CCCEEEEcCCCc---
Confidence            00000 00    0001111 1122223332221 1101111 234665554433  33332  3 499999998432   


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         340 NSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       340 ~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                         +-+. .....+.+.|+.++++.+.+||+++|--.                   .+...||.++.+...
T Consensus       190 ---~LD~-~~~~~l~~~l~~~~~~~g~tiii~tH~~~-------------------~~~~~~d~v~~l~~G  237 (269)
T cd03294         190 ---ALDP-LIRREMQDELLRLQAELQKTIVFITHDLD-------------------EALRLGDRIAIMKDG  237 (269)
T ss_pred             ---cCCH-HHHHHHHHHHHHHHHhcCCEEEEEeCCHH-------------------HHHHhcCEEEEEECC
Confidence               1222 23456777788888777899999988321                   255678999888653

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. 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.

>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.72  E-value=0.00077  Score=64.56  Aligned_cols=177  Identities=14%  Similarity=0.094  Sum_probs=88.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-C---CHHHHHHHHHHHhCCCCcccccc--
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-M---SGIQLAMRMLGSVGKLDQHKLRT--  276 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~---~~~~i~~R~~a~~~~i~~~~i~~--  276 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..--..| .|. +..+ .   +...+..+ ++....-+...+..  
T Consensus        19 ~l~~vsl~i~~Ge~~~i~G~NGsGKSTLl~~l~Gl~~p~~G-~i~-~~g~~~~~~~~~~~~~~-i~~v~q~~~~~~~~~t   95 (277)
T PRK13652         19 ALNNINFIAPRNSRIAVIGPNGAGKSTLFRHFNGILKPTSG-SVL-IRGEPITKENIREVRKF-VGLVFQNPDDQIFSPT   95 (277)
T ss_pred             eeeEeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCce-EEE-ECCEECCcCCHHHHHhh-eEEEecCccccccccc
Confidence            46666456899999999999999999999888754321122 232 2221 1   11222111 11111100000000  


Q ss_pred             -----------CCCCcchH-HHHHHHHHHHhCCCeEEE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCC
Q psy2892         277 -----------GRLSSDDW-PRINDSIKKINKSQLYID-ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRG  343 (452)
Q Consensus       277 -----------g~l~~~~~-~~~~~a~~~l~~~~l~i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~  343 (452)
                                 ..++.++. .++.++.+.+. ..-+.. ....+|-.+-+...-...--. +++++++|.-..-      
T Consensus        96 v~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~-l~~~~~~~~~~LS~Gq~qrl~laraL~~-~p~llilDEPt~g------  167 (277)
T PRK13652         96 VEQDIAFGPINLGLDEETVAHRVSSALHMLG-LEELRDRVPHHLSGGEKKRVAIAGVIAM-EPQVLVLDEPTAG------  167 (277)
T ss_pred             HHHHHHhHHHHcCCCHHHHHHHHHHHHHHCC-ChhHhcCCcccCCHHHHHHHHHHHHHHc-CCCEEEEeCCccc------
Confidence                       01122111 12222222221 110111 123455555443322222223 4999999985321      


Q ss_pred             CCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         344 ENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       344 ~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      .+. .....+.+.|+.++++.+.+||+++|--.                   .+...||.++.+++.
T Consensus       168 LD~-~~~~~l~~~l~~l~~~~g~tvli~tH~~~-------------------~~~~~~drv~~l~~G  214 (277)
T PRK13652        168 LDP-QGVKELIDFLNDLPETYGMTVIFSTHQLD-------------------LVPEMADYIYVMDKG  214 (277)
T ss_pred             CCH-HHHHHHHHHHHHHHHhcCCEEEEEecCHH-------------------HHHHhCCEEEEEECC
Confidence            121 23346777788888877899999987432                   244567887777654

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=97.72  E-value=0.00043  Score=64.76  Aligned_cols=36  Identities=25%  Similarity=0.398  Sum_probs=29.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        17 il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (239)
T cd03296          17 ALDDVSLDIPSGELVALLGPSGSGKTTLLRLIAGLE   52 (239)
T ss_pred             eeeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455554468999999999999999999998887643

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). 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.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=97.72  E-value=0.00095  Score=62.54  Aligned_cols=35  Identities=23%  Similarity=0.492  Sum_probs=28.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        17 il~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   51 (243)
T TIGR02315        17 ALKNINLNINPGEFVAIIGPSGAGKSTLLRCINRL   51 (243)
T ss_pred             eeecceEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            45555445899999999999999999998877643

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=97.71  E-value=0.0011  Score=63.07  Aligned_cols=181  Identities=12%  Similarity=0.084  Sum_probs=89.7

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC--HHHHHHHHHHHhCCCCc--------
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS--GIQLAMRMLGSVGKLDQ--------  271 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~--~~~i~~R~~a~~~~i~~--------  271 (452)
                      +.|+.+.--+.+|+++.|.|++|+|||||+.-++-...-..| .|.|..-+.+  ......+.++....-+.        
T Consensus        27 ~~l~~vsl~i~~Ge~~~i~G~NGsGKSTLl~~l~Gl~~p~~G-~i~~~g~~~~~~~~~~~~~~i~~v~q~~~~~~~~~~t  105 (267)
T PRK15112         27 EAVKPLSFTLREGQTLAIIGENGSGKSTLAKMLAGMIEPTSG-ELLIDDHPLHFGDYSYRSQRIRMIFQDPSTSLNPRQR  105 (267)
T ss_pred             ceeeeeeEEecCCCEEEEEcCCCCCHHHHHHHHhCCCCCCCC-EEEECCEECCCCchhhHhccEEEEecCchhhcCcchh
Confidence            356666556899999999999999999998887754421122 2333211111  01111111110000000        


Q ss_pred             -c-cc----c-cCCCCcch-HHHHHHHHHHHhCCCeEEE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCC
Q psy2892         272 -H-KL----R-TGRLSSDD-WPRINDSIKKINKSQLYID-ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSR  342 (452)
Q Consensus       272 -~-~i----~-~g~l~~~~-~~~~~~a~~~l~~~~l~i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~  342 (452)
                       . .+    . ...+...+ .+++.++++.+.-.+-... ....+|-.+.+...-...-.. +++++++|.-..      
T Consensus       106 v~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~~LS~G~~qrv~laral~~-~p~lllLDEPt~------  178 (267)
T PRK15112        106 ISQILDFPLRLNTDLEPEQREKQIIETLRQVGLLPDHASYYPHMLAPGQKQRLGLARALIL-RPKVIIADEALA------  178 (267)
T ss_pred             HHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCChHHHhcCchhcCHHHHHHHHHHHHHHh-CCCEEEEcCCcc------
Confidence             0 00    0 00111111 1223333333211011111 123456555443322222223 499999998532      


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         343 GENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       343 ~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      +-+. .....+.+.|+.++++.+.+||+++|--.                   .+...||.++.|...
T Consensus       179 ~LD~-~~~~~l~~~l~~~~~~~g~tviivsH~~~-------------------~~~~~~d~i~~l~~G  226 (267)
T PRK15112        179 SLDM-SMRSQLINLMLELQEKQGISYIYVTQHLG-------------------MMKHISDQVLVMHQG  226 (267)
T ss_pred             cCCH-HHHHHHHHHHHHHHHHcCcEEEEEeCCHH-------------------HHHHhcCEEEEEECC
Confidence            1222 23456777888888888999999887421                   245568888888643

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=97.71  E-value=0.0011  Score=61.59  Aligned_cols=60  Identities=10%  Similarity=0.087  Sum_probs=42.3

Q ss_pred             CccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhcee
Q psy2892         325 KIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVI  404 (452)
Q Consensus       325 ~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~v  404 (452)
                      +++++++|.-..      +-+. .....+.+.|+.++++.+.+||+++|--.                   .+.+.||.+
T Consensus       132 ~p~lllLDEPt~------gLD~-~~~~~l~~~l~~~~~~~~~tii~~sH~~~-------------------~~~~~~d~v  185 (230)
T TIGR01184       132 RPKVLLLDEPFG------ALDA-LTRGNLQEELMQIWEEHRVTVLMVTHDVD-------------------EALLLSDRV  185 (230)
T ss_pred             CCCEEEEcCCCc------CCCH-HHHHHHHHHHHHHHHhcCCEEEEEeCCHH-------------------HHHHhcCEE
Confidence            499999998532      1122 23457778888888888999999988321                   356778999


Q ss_pred             EEEecC
Q psy2892         405 LFIYRD  410 (452)
Q Consensus       405 l~l~r~  410 (452)
                      +.+.+.
T Consensus       186 ~~l~~G  191 (230)
T TIGR01184       186 VMLTNG  191 (230)
T ss_pred             EEEeCC
Confidence            998654

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.71  E-value=0.0002  Score=68.91  Aligned_cols=37  Identities=16%  Similarity=0.402  Sum_probs=31.5

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +.|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        21 ~~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~L~Gl~   57 (286)
T PRK13646         21 QAIHDVNTEFEQGKYYAIVGQTGSGKSTLIQNINALL   57 (286)
T ss_pred             CceeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4677775568999999999999999999999887654

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=97.71  E-value=0.00065  Score=62.88  Aligned_cols=36  Identities=19%  Similarity=0.285  Sum_probs=29.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..
T Consensus        37 il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   72 (224)
T cd03220          37 ALKDVSFEVPRGERIGLIGRNGAGKSTLLRLLAGIY   72 (224)
T ss_pred             EEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455554458999999999999999999998887643

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.

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=97.71  E-value=0.00089  Score=65.96  Aligned_cols=37  Identities=14%  Similarity=0.155  Sum_probs=30.4

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ..|+.+.--+.+|+++.|.|++|+||||++.-++-..
T Consensus        55 ~~l~~is~~i~~Gei~gLlGpNGaGKSTLl~~L~Gl~   91 (340)
T PRK13536         55 AVVNGLSFTVASGECFGLLGPNGAGKSTIARMILGMT   91 (340)
T ss_pred             EEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            3566664458999999999999999999998887643

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.70  E-value=0.001  Score=63.06  Aligned_cols=41  Identities=20%  Similarity=0.227  Sum_probs=36.4

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      +|+.+.+.|++|+|||+++..++..+. ..+.+|.+++.+-.
T Consensus        74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~-~~~~~v~~i~~D~~  114 (270)
T PRK06731         74 EVQTIALIGPTGVGKTTTLAKMAWQFH-GKKKTVGFITTDHS  114 (270)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEEecCCC
Confidence            789999999999999999999998875 46789999998854

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=97.70  E-value=0.0011  Score=62.08  Aligned_cols=176  Identities=14%  Similarity=0.175  Sum_probs=88.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHHHHHHHhCCC-------Cc
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAMRMLGSVGKL-------DQ  271 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~R~~a~~~~i-------~~  271 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..-...| .|. +..+    .+...+. +.++....-       +.
T Consensus        16 ~l~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G-~i~-~~g~~~~~~~~~~~~-~~i~~~~q~~~~~~~~tv   92 (242)
T cd03295          16 AVNNLNLEIAKGEFLVLIGPSGSGKTTTMKMINRLIEPTSG-EIF-IDGEDIREQDPVELR-RKIGYVIQQIGLFPHMTV   92 (242)
T ss_pred             EeeeeEEEECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc-eEE-ECCeEcCcCChHHhh-cceEEEccCccccCCCcH
Confidence            45555446899999999999999999999877754321122 233 3222    1122221 111111100       00


Q ss_pred             c-ccccC----CCC-cchHHHHHHHHHHHhCCC-eEEEc-CCCCCHHHHHHH--HHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         272 H-KLRTG----RLS-SDDWPRINDSIKKINKSQ-LYIDE-TPSLNVIELRAN--SRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       272 ~-~i~~g----~l~-~~~~~~~~~a~~~l~~~~-l~i~~-~~~~t~~~i~~~--i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                      . .+..+    ... .+...++.+..+.+.-.+ -+... ...+|-.+-+..  ++.+.  . +++++++|.-..     
T Consensus        93 ~e~l~~~~~~~~~~~~~~~~~~~~~l~~l~l~~~~~~~~~~~~LS~G~~qrv~laral~--~-~p~llllDEPt~-----  164 (242)
T cd03295          93 EENIALVPKLLKWPKEKIRERADELLALVGLDPAEFADRYPHELSGGQQQRVGVARALA--A-DPPLLLMDEPFG-----  164 (242)
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHHcCCCcHHHHhcChhhCCHHHHHHHHHHHHHh--c-CCCEEEecCCcc-----
Confidence            0 00000    011 111122233333321111 01111 234555544332  33332  3 499999998532     


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                       +-+. .....+.+.|+.++++.+.+||+++|--.                   .+...||.++.|.+.
T Consensus       165 -~LD~-~~~~~l~~~L~~~~~~~g~tvii~sH~~~-------------------~~~~~~d~i~~l~~G  212 (242)
T cd03295         165 -ALDP-ITRDQLQEEFKRLQQELGKTIVFVTHDID-------------------EAFRLADRIAIMKNG  212 (242)
T ss_pred             -cCCH-HHHHHHHHHHHHHHHHcCCEEEEEecCHH-------------------HHHHhCCEEEEEECC
Confidence             1222 23456777888888777889999887322                   245678988888653

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. 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.

>PRK08116 hypothetical protein; Validated

Probab=97.70  E-value=0.00079  Score=64.01  Aligned_cols=35  Identities=20%  Similarity=0.329  Sum_probs=31.0

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      -++|.|+||+|||.|+..++..+.. +|.+|+|++.
T Consensus       116 gl~l~G~~GtGKThLa~aia~~l~~-~~~~v~~~~~  150 (268)
T PRK08116        116 GLLLWGSVGTGKTYLAACIANELIE-KGVPVIFVNF  150 (268)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHH-cCCeEEEEEH
Confidence            4889999999999999999999864 5899999974

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=97.70  E-value=0.0006  Score=64.26  Aligned_cols=151  Identities=17%  Similarity=0.209  Sum_probs=78.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC-------CcEEEEeCCCCHHH----HHHHHHHHhCCCCc
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK-------LPVAIFSMEMSGIQ----LAMRMLGSVGKLDQ  271 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g-------~~vl~~s~E~~~~~----i~~R~~a~~~~i~~  271 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-......|       ..+.|+.-+.....    .....+.    .  
T Consensus        19 vl~~vs~~i~~Ge~~~I~G~NGsGKSTLl~~i~Gl~~p~~G~i~~~~~~~i~~v~q~~~~~~~l~~~~~~~~~----~--   92 (251)
T PRK09544         19 VLSDVSLELKPGKILTLLGPNGAGKSTLVRVVLGLVAPDEGVIKRNGKLRIGYVPQKLYLDTTLPLTVNRFLR----L--   92 (251)
T ss_pred             EEEeEEEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCccCEEEeccccccccccChhHHHHHh----c--
Confidence            45555445899999999999999999999877754321122       23555543311100    0111110    0  


Q ss_pred             cccccCCCCcchHHHHHHHHHHHhCCCeEEE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHH
Q psy2892         272 HKLRTGRLSSDDWPRINDSIKKINKSQLYID-ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEI  350 (452)
Q Consensus       272 ~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~  350 (452)
                         . .....   .++..+.+.+.-.. +++ ....+|-.+.+...-...-.. +++++++|.-..-      -+. ...
T Consensus        93 ---~-~~~~~---~~~~~~l~~~gl~~-~~~~~~~~LSgGq~qrv~laral~~-~p~lllLDEPt~~------LD~-~~~  156 (251)
T PRK09544         93 ---R-PGTKK---EDILPALKRVQAGH-LIDAPMQKLSGGETQRVLLARALLN-RPQLLVLDEPTQG------VDV-NGQ  156 (251)
T ss_pred             ---c-ccccH---HHHHHHHHHcCChH-HHhCChhhCCHHHHHHHHHHHHHhc-CCCEEEEeCCCcC------CCH-HHH
Confidence               0 01111   22333333321101 111 123455555443322222223 4999999985321      222 233


Q ss_pred             HHHHHHHHHHHHHhCCcEEEEecCC
Q psy2892         351 SEISRNLKGLAKEINCPILALSQLN  375 (452)
Q Consensus       351 ~~i~~~Lk~lA~~~~i~vi~l~ql~  375 (452)
                      ..+.+.|+.++++.+.+||+++|--
T Consensus       157 ~~l~~~L~~~~~~~g~tiiivsH~~  181 (251)
T PRK09544        157 VALYDLIDQLRRELDCAVLMVSHDL  181 (251)
T ss_pred             HHHHHHHHHHHHhcCCEEEEEecCH
Confidence            4677788888887799999998854

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=97.69  E-value=0.0015  Score=62.09  Aligned_cols=177  Identities=15%  Similarity=0.136  Sum_probs=89.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHH--HHHHHHHhCCCCcccccc
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQL--AMRMLGSVGKLDQHKLRT  276 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i--~~R~~a~~~~i~~~~i~~  276 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..-- ....|. +..+    .+..+.  ..+.++....-+...+..
T Consensus        26 il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p-~~G~i~-~~g~~i~~~~~~~~~~~~~~i~~v~q~~~~~~~~  103 (265)
T TIGR02769        26 VLTNVSLSIEEGETVGLLGRSGCGKSTLARLLLGLEKP-AQGTVS-FRGQDLYQLDRKQRRAFRRDVQLVFQDSPSAVNP  103 (265)
T ss_pred             EeeCceeEEcCCCEEEEECCCCCCHHHHHHHHhCCCCC-CCcEEE-ECCEEccccCHHHHHHHhhceEEEecChhhhcCC
Confidence            46666445899999999999999999999877654321 122233 3222    112211  111111111100000000


Q ss_pred             ---------------CCCCc-chHHHHHHHHHHHhCCCeEEE-cCCCCCHHHHHHH--HHHHHHHcCCccEEEEcCcchh
Q psy2892         277 ---------------GRLSS-DDWPRINDSIKKINKSQLYID-ETPSLNVIELRAN--SRRLSRQCGKIGVIIIDYLQLM  337 (452)
Q Consensus       277 ---------------g~l~~-~~~~~~~~a~~~l~~~~l~i~-~~~~~t~~~i~~~--i~~~~~~~~~~~~vvID~l~~i  337 (452)
                                     ..+.. ....++.++++.+.-...... ....+|-.+.+..  ++.+.  . +++++++|.-.. 
T Consensus       104 ~~tv~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~gl~~~~~~~~~~~LSgGe~qrv~laral~--~-~p~illLDEPt~-  179 (265)
T TIGR02769       104 RMTVRQIIGEPLRHLTSLDESEQKARIAELLDMVGLRSEDADKLPRQLSGGQLQRINIARALA--V-KPKLIVLDEAVS-  179 (265)
T ss_pred             CCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHcCCChhhhhCChhhCCHHHHHHHHHHHHHh--c-CCCEEEEeCCcc-
Confidence                           01111 112233333333311011111 1234555444332  33332  3 499999998532 


Q ss_pred             ccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         338 SANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       338 ~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                           +-+. .....+.+.|+.++++.+.+||+++|--.                   .+...||.++.|.+.
T Consensus       180 -----~LD~-~~~~~l~~~l~~~~~~~g~tiiivsH~~~-------------------~~~~~~d~i~~l~~G  227 (265)
T TIGR02769       180 -----NLDM-VLQAVILELLRKLQQAFGTAYLFITHDLR-------------------LVQSFCQRVAVMDKG  227 (265)
T ss_pred             -----cCCH-HHHHHHHHHHHHHHHhcCcEEEEEeCCHH-------------------HHHHHhcEEEEEeCC
Confidence                 1222 22346778888888877899999988422                   245678999888654

This family represents the NikE subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase.

>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.69  E-value=0.00044  Score=66.46  Aligned_cols=178  Identities=16%  Similarity=0.200  Sum_probs=90.0

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC------HHHHHHHHHHHhCCCCccccc
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS------GIQLAMRMLGSVGKLDQHKLR  275 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~------~~~i~~R~~a~~~~i~~~~i~  275 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++-..-...| .|. +..+..      ..++. +.++....-+...+.
T Consensus        20 ~~l~~vs~~i~~Ge~~~i~G~nGaGKSTLl~~i~Gl~~p~~G-~i~-i~g~~~~~~~~~~~~~~-~~ig~v~q~~~~~~~   96 (283)
T PRK13636         20 HALKGININIKKGEVTAILGGNGAGKSTLFQNLNGILKPSSG-RIL-FDGKPIDYSRKGLMKLR-ESVGMVFQDPDNQLF   96 (283)
T ss_pred             eeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCcc-EEE-ECCEECCCCcchHHHHH-hhEEEEecCcchhhc
Confidence            356666445899999999999999999999887764321122 232 222210      11111 111110000000000


Q ss_pred             c-------------CCCCcch-HHHHHHHHHHHhCCCeEEE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         276 T-------------GRLSSDD-WPRINDSIKKINKSQLYID-ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       276 ~-------------g~l~~~~-~~~~~~a~~~l~~~~l~i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                      .             ..++..+ ..++..+.+.+.=.. +.. ....+|-.+.+...-...-.. +|+++++|....-   
T Consensus        97 ~~tv~e~l~~~~~~~~~~~~~~~~~~~~~l~~~gL~~-~~~~~~~~LS~G~~qrl~laraL~~-~p~lLilDEPt~g---  171 (283)
T PRK13636         97 SASVYQDVSFGAVNLKLPEDEVRKRVDNALKRTGIEH-LKDKPTHCLSFGQKKRVAIAGVLVM-EPKVLVLDEPTAG---  171 (283)
T ss_pred             cccHHHHHHhHHHHcCCCHHHHHHHHHHHHHHCCChh-hhhCCcccCCHHHHHHHHHHHHHHc-CCCEEEEeCCccC---
Confidence            0             0112222 233333333331111 111 123456555443322222223 4999999985421   


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         341 SRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       341 ~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                         -+ ......+...|+.++++.+.+|++++|--.                   .+.+.||.++.+...
T Consensus       172 ---LD-~~~~~~l~~~l~~l~~~~g~tillvsH~~~-------------------~~~~~~dri~~l~~G  218 (283)
T PRK13636        172 ---LD-PMGVSEIMKLLVEMQKELGLTIIIATHDID-------------------IVPLYCDNVFVMKEG  218 (283)
T ss_pred             ---CC-HHHHHHHHHHHHHHHHhCCCEEEEEecCHH-------------------HHHHhCCEEEEEECC
Confidence               22 223456777888888888999999987432                   244567888877644

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=97.69  E-value=0.00094  Score=61.23  Aligned_cols=36  Identities=22%  Similarity=0.397  Sum_probs=29.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..
T Consensus        16 ~l~~~sl~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          16 ALDGINISISAGEFVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             eeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            455554458999999999999999999998887643

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=97.69  E-value=0.00095  Score=61.04  Aligned_cols=35  Identities=26%  Similarity=0.287  Sum_probs=28.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        15 ~l~~v~~~i~~G~~~~i~G~nGsGKSTLl~~l~G~   49 (210)
T cd03269          15 ALDDISFSVEKGEIFGLLGPNGAGKTTTIRMILGI   49 (210)
T ss_pred             EEeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            45555445899999999999999999999888754

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. 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.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=97.69  E-value=0.0012  Score=62.55  Aligned_cols=174  Identities=13%  Similarity=0.082  Sum_probs=86.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCC----CccccccC-
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKL----DQHKLRTG-  277 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i----~~~~i~~g-  277 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-...-..| .|. +..+ +...+. +.++....-    +...+.+. 
T Consensus        27 il~~isl~i~~Ge~~~I~G~NGsGKSTLlk~l~Gl~~p~~G-~i~-~~g~-~~~~~~-~~i~~v~q~~~l~~~~tv~enl  102 (257)
T PRK11247         27 VLNQLDLHIPAGQFVAVVGRSGCGKSTLLRLLAGLETPSAG-ELL-AGTA-PLAEAR-EDTRLMFQDARLLPWKKVIDNV  102 (257)
T ss_pred             eeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCe-EEE-ECCE-EHHHhh-CceEEEecCccCCCCCcHHHHH
Confidence            45555445889999999999999999999877754321122 232 2221 111111 101100000    00000000 


Q ss_pred             --CCCcchHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHH
Q psy2892         278 --RLSSDDWPRINDSIKKINKSQLYIDE-TPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISE  352 (452)
Q Consensus       278 --~l~~~~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~  352 (452)
                        .+......++.++++.+. ..-+... ...+|-.+-+.  .++.+.  . +++++++|--..      +-+. .....
T Consensus       103 ~~~~~~~~~~~~~~~l~~~g-l~~~~~~~~~~LSgGqkqrl~laraL~--~-~p~lllLDEPt~------~LD~-~~~~~  171 (257)
T PRK11247        103 GLGLKGQWRDAALQALAAVG-LADRANEWPAALSGGQKQRVALARALI--H-RPGLLLLDEPLG------ALDA-LTRIE  171 (257)
T ss_pred             HhcccchHHHHHHHHHHHcC-ChhHhcCChhhCCHHHHHHHHHHHHHh--c-CCCEEEEeCCCC------CCCH-HHHHH
Confidence              000000112222222221 1101111 22455444332  333332  2 499999998532      1222 23456


Q ss_pred             HHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         353 ISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       353 i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      +.+.|+.++++.+.+||+++|--.                   .+...||.++.+...
T Consensus       172 l~~~L~~~~~~~~~tviivsHd~~-------------------~~~~~~d~i~~l~~G  210 (257)
T PRK11247        172 MQDLIESLWQQHGFTVLLVTHDVS-------------------EAVAMADRVLLIEEG  210 (257)
T ss_pred             HHHHHHHHHHHcCCEEEEEeCCHH-------------------HHHHhCCEEEEEECC
Confidence            777888888888999999988432                   245567888777643

>COG4107 PhnK ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.68  E-value=0.0015  Score=56.42  Aligned_cols=153  Identities=16%  Similarity=0.252  Sum_probs=90.3

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHH-------HHHHHHhCCCCccccccC-----
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLA-------MRMLGSVGKLDQHKLRTG-----  277 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~-------~R~~a~~~~i~~~~i~~g-----  277 (452)
                      -+.||++.-|.|.+|+||||++..+..+.+-.. ..|.|-.-...+.++.       .|++....|+-..+-++|     
T Consensus        28 ~l~PGeVLgiVGESGSGKtTLL~~is~rl~p~~-G~v~Y~~r~~~~~dl~~msEaeRR~L~RTeWG~VhQnP~DGLRm~V  106 (258)
T COG4107          28 DLYPGEVLGIVGESGSGKTTLLKCISGRLTPDA-GTVTYRMRDGQPRDLYTMSEAERRRLLRTEWGFVHQNPRDGLRMQV  106 (258)
T ss_pred             eecCCcEEEEEecCCCcHHhHHHHHhcccCCCC-CeEEEEcCCCCchhHhhhchHHHHHHhhhccceeecCccccceeee
Confidence            589999999999999999999999988886543 4577766443333322       233333333322221111     


Q ss_pred             ----CCCc-------chHHHHH-HHHHHHhCC---CeEEEcCCC-CC--HHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         278 ----RLSS-------DDWPRIN-DSIKKINKS---QLYIDETPS-LN--VIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       278 ----~l~~-------~~~~~~~-~a~~~l~~~---~l~i~~~~~-~t--~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                          ++.+       ..+..+. .|.+|+.+-   .-.|+|.|. ++  +.+-...++.+..   .|.+||.|.-+    
T Consensus       107 SAG~NiGERlma~G~RHYG~iR~~a~~WL~~VEI~~~RiDD~PrtFSGGMqQRLQiARnLVt---~PrLvfMDEPT----  179 (258)
T COG4107         107 SAGGNIGERLMAIGARHYGNIRAEAQDWLEEVEIDLDRIDDLPRTFSGGMQQRLQIARNLVT---RPRLVFMDEPT----  179 (258)
T ss_pred             ccCCccchhHHhhhhhhhhhHHHHHHHHHHhcccCcccccCcccccchHHHHHHHHHHHhcc---CCceEEecCCC----
Confidence                2211       1233333 445666543   345666542 33  2333333444432   48999999742    


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEec
Q psy2892         340 NSRGENRATEISEISRNLKGLAKEINCPILALSQ  373 (452)
Q Consensus       340 ~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~q  373 (452)
                       +  .-...-.+.+..-|+.+..+++++++++.|
T Consensus       180 -G--GLDVSVQARLLDllrgLv~~l~la~viVTH  210 (258)
T COG4107         180 -G--GLDVSVQARLLDLLRGLVRELGLAVVIVTH  210 (258)
T ss_pred             -C--CcchhhHHHHHHHHHHHHHhcCceEEEEec
Confidence             1  122233457788899999999999998877

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=97.68  E-value=0.0011  Score=61.83  Aligned_cols=35  Identities=17%  Similarity=0.413  Sum_probs=29.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--
T Consensus        24 il~~isl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   58 (233)
T PRK11629         24 VLHNVSFSIGEGEMMAIVGSSGSGKSTLLHLLGGL   58 (233)
T ss_pred             eEEeeEEEEcCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            46665445899999999999999999999888754

>PRK09536 btuD corrinoid ABC transporter ATPase; Reviewed

Probab=97.68  E-value=0.00056  Score=68.74  Aligned_cols=162  Identities=17%  Similarity=0.147  Sum_probs=81.3

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC---CCCHHHHHHHHHHHhCC---C----Cc
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM---EMSGIQLAMRMLGSVGK---L----DQ  271 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~---E~~~~~i~~R~~a~~~~---i----~~  271 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++-..--..| .|.+...   .++..++..++ +....   .    +.
T Consensus        17 ~vL~~vs~~i~~Geiv~liGpNGaGKSTLLk~LaGll~p~sG-~I~l~G~~i~~~~~~~~~~~i-g~v~q~~~l~~~~tv   94 (402)
T PRK09536         17 TVLDGVDLSVREGSLVGLVGPNGAGKTTLLRAINGTLTPTAG-TVLVAGDDVEALSARAASRRV-ASVPQDTSLSFEFDV   94 (402)
T ss_pred             EEEEeeEEEECCCCEEEEECCCCchHHHHHHHHhcCCCCCCc-EEEECCEEcCcCCHHHHhcce-EEEccCCCCCCCCCH
Confidence            345666446899999999999999999999888754321122 2333221   12333332221 11100   0    00


Q ss_pred             cc-cccC------C---CCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         272 HK-LRTG------R---LSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       272 ~~-i~~g------~---l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                      .. +.-+      .   +...+.+++.++.+.+.-..+.-.....+|-.+-+...-...-.+ +++++++|.-..     
T Consensus        95 ~e~v~~~~~~~~~~~~~~~~~~~~~v~~~le~vgl~~~~~~~~~~LSgGerQRv~IArAL~~-~P~iLLLDEPts-----  168 (402)
T PRK09536         95 RQVVEMGRTPHRSRFDTWTETDRAAVERAMERTGVAQFADRPVTSLSGGERQRVLLARALAQ-ATPVLLLDEPTA-----  168 (402)
T ss_pred             HHHHHhccchhcccccCCCHHHHHHHHHHHHHcCCchhhcCChhhCCHHHHHHHHHHHHHHc-CCCEEEEECCcc-----
Confidence            00 0000      1   122334445555544321111111123566555443322222223 499999998532     


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                       +-+.. ...++.+.|+.+++ .+.+||+++|-
T Consensus       169 -gLD~~-~~~~l~~lL~~l~~-~g~TIIivsHd  198 (402)
T PRK09536        169 -SLDIN-HQVRTLELVRRLVD-DGKTAVAAIHD  198 (402)
T ss_pred             -cCCHH-HHHHHHHHHHHHHh-cCCEEEEEECC
Confidence             12222 23366777788875 58888888874

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=97.68  E-value=0.00089  Score=62.47  Aligned_cols=36  Identities=19%  Similarity=0.418  Sum_probs=29.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        16 ~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (236)
T TIGR03864        16 ALDDVSFTVRPGEFVALLGPNGAGKSTLFSLLTRLY   51 (236)
T ss_pred             EEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            455554458999999999999999999998887543

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.

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.68  E-value=0.00075  Score=65.04  Aligned_cols=36  Identities=17%  Similarity=0.232  Sum_probs=29.8

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--.
T Consensus        26 il~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   61 (289)
T PRK13645         26 ALNNTSLTFKKNKVTCVIGTTGSGKSTMIQLTNGLI   61 (289)
T ss_pred             eeeeeEEEEeCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            456654568999999999999999999998887543

>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=97.67  E-value=0.0011  Score=61.10  Aligned_cols=36  Identities=19%  Similarity=0.332  Sum_probs=29.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++--.
T Consensus        20 il~~~sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (218)
T cd03266          20 AVDGVSFTVKPGEVTGLLGPNGAGKTTTLRMLAGLL   55 (218)
T ss_pred             eecceEEEEcCCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            455554458999999999999999999998777543

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.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=97.66  E-value=0.001  Score=61.34  Aligned_cols=36  Identities=17%  Similarity=0.361  Sum_probs=29.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        20 ~l~~isl~i~~G~~~~i~G~nGsGKSTLl~~i~G~~   55 (221)
T TIGR02211        20 VLKGVSLSIGKGEIVAIVGSSGSGKSTLLHLLGGLD   55 (221)
T ss_pred             eEeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            456664568999999999999999999998887643

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=97.66  E-value=0.0011  Score=65.66  Aligned_cols=159  Identities=11%  Similarity=0.149  Sum_probs=80.3

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHHHHHHHhCC-------CC
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAMRMLGSVGK-------LD  270 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~R~~a~~~~-------i~  270 (452)
                      ..|+.+.--+.+|+++.|.|++|+||||++.-++--..-..|  -+++..+    .++.   .|-++....       .+
T Consensus        18 ~~l~~vsl~i~~Ge~~~llG~sGsGKSTLLr~iaGl~~p~~G--~I~~~g~~i~~~~~~---~r~ig~v~Q~~~lfp~~t   92 (356)
T PRK11650         18 QVIKGIDLDVADGEFIVLVGPSGCGKSTLLRMVAGLERITSG--EIWIGGRVVNELEPA---DRDIAMVFQNYALYPHMS   92 (356)
T ss_pred             EEEeeeeEEEcCCCEEEEECCCCCcHHHHHHHHHCCCCCCce--EEEECCEECCCCCHH---HCCEEEEeCCccccCCCC
Confidence            456666446899999999999999999999888764321112  2222221    1111   111110000       00


Q ss_pred             cc-cc----ccCCCCcchH-HHHHHHHHHHhCCCeEEEc-CCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         271 QH-KL----RTGRLSSDDW-PRINDSIKKINKSQLYIDE-TPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       271 ~~-~i----~~g~l~~~~~-~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                      .. .+    +...++..+. .++.++.+.+.=.. +... ...+|-.+-..  .++.+.  . +|+++++|.-..     
T Consensus        93 v~eNi~~~~~~~~~~~~~~~~~~~~~l~~~gL~~-~~~~~~~~LSgGq~QRvalARAL~--~-~P~llLLDEP~s-----  163 (356)
T PRK11650         93 VRENMAYGLKIRGMPKAEIEERVAEAARILELEP-LLDRKPRELSGGQRQRVAMGRAIV--R-EPAVFLFDEPLS-----  163 (356)
T ss_pred             HHHHHHhHHhhcCCCHHHHHHHHHHHHHHcCChh-HhhCChhhCCHHHHHHHHHHHHHh--c-CCCEEEEeCCcc-----
Confidence            00 00    0011222221 23333333321111 1111 23455554433  333333  2 599999998431     


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCc
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNR  376 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r  376 (452)
                       +-+. .....+...|+.+.++.++++|+++|-..
T Consensus       164 -~LD~-~~r~~l~~~l~~l~~~~g~tii~vTHd~~  196 (356)
T PRK11650        164 -NLDA-KLRVQMRLEIQRLHRRLKTTSLYVTHDQV  196 (356)
T ss_pred             -cCCH-HHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence             1122 22346677888888889999999998543

>PRK10419 nikE nickel transporter ATP-binding protein NikE; Provisional

Probab=97.65  E-value=0.002  Score=61.44  Aligned_cols=35  Identities=20%  Similarity=0.407  Sum_probs=28.8

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-.
T Consensus        27 il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   61 (268)
T PRK10419         27 VLNNVSLSLKSGETVALLGRSGCGKSTLARLLVGL   61 (268)
T ss_pred             eEeceeEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            45555446899999999999999999999877654

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=97.65  E-value=0.0007  Score=61.94  Aligned_cols=36  Identities=19%  Similarity=0.457  Sum_probs=29.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        16 il~~vs~~i~~G~~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          16 ALDDISLTIKKGEFVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             eecceEEEEcCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            455554458899999999999999999998777543

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=97.65  E-value=0.0015  Score=59.95  Aligned_cols=35  Identities=17%  Similarity=0.362  Sum_probs=28.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        17 il~~is~~i~~G~~~~l~G~nGsGKSTLl~~i~Gl   51 (214)
T TIGR02673        17 ALHDVSLHIRKGEFLFLTGPSGAGKTTLLKLLYGA   51 (214)
T ss_pred             eecceeEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            45555446899999999999999999999876653

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.64  E-value=0.00053  Score=66.96  Aligned_cols=37  Identities=19%  Similarity=0.267  Sum_probs=32.5

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .-+++.|+||+|||.|+..+|..+. ..|..|+|++..
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~-~~g~~V~y~t~~  220 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELL-DRGKSVIYRTAD  220 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHH-HCCCeEEEEEHH
Confidence            5689999999999999999999886 578999999863

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=97.63  E-value=0.0015  Score=64.56  Aligned_cols=159  Identities=13%  Similarity=0.138  Sum_probs=79.9

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHHHHHHHhC-------CCC
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAMRMLGSVG-------KLD  270 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~R~~a~~~-------~i~  270 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++--.-...|  -+++..+    .+..   .|-++...       +.+
T Consensus        20 ~~l~~isl~i~~Ge~~~llGpsGsGKSTLLr~IaGl~~p~~G--~I~~~g~~i~~~~~~---~r~ig~vfQ~~~lfp~~t   94 (351)
T PRK11432         20 TVIDNLNLTIKQGTMVTLLGPSGCGKTTVLRLVAGLEKPTEG--QIFIDGEDVTHRSIQ---QRDICMVFQSYALFPHMS   94 (351)
T ss_pred             EEEeeeEEEEcCCCEEEEECCCCCcHHHHHHHHHCCCCCCce--EEEECCEECCCCCHH---HCCEEEEeCCcccCCCCC
Confidence            346666446899999999999999999999877753321122  1222211    1111   11111000       000


Q ss_pred             cc-cc----ccCCCCcch-HHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         271 QH-KL----RTGRLSSDD-WPRINDSIKKINKSQLYIDE-TPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       271 ~~-~i----~~g~l~~~~-~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                      .. .+    .....+..+ .+++.++.+.+.-..+ .+. ...+|-.+-..  .++.+..   +|+++++|.-..     
T Consensus        95 v~eNi~~~l~~~~~~~~~~~~~v~~~l~~~gl~~~-~~r~~~~LSgGq~QRVaLARaL~~---~P~lLLLDEP~s-----  165 (351)
T PRK11432         95 LGENVGYGLKMLGVPKEERKQRVKEALELVDLAGF-EDRYVDQISGGQQQRVALARALIL---KPKVLLFDEPLS-----  165 (351)
T ss_pred             HHHHHHHHHhHcCCCHHHHHHHHHHHHHHcCCchh-hcCChhhCCHHHHHHHHHHHHHHc---CCCEEEEcCCcc-----
Confidence            00 00    000122222 2233333333321111 111 23455544433  3333432   499999998421     


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCc
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNR  376 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r  376 (452)
                       +-+. .....+...|+.+.++.++++|+++|--.
T Consensus       166 -~LD~-~~r~~l~~~l~~l~~~~g~tii~vTHd~~  198 (351)
T PRK11432        166 -NLDA-NLRRSMREKIRELQQQFNITSLYVTHDQS  198 (351)
T ss_pred             -cCCH-HHHHHHHHHHHHHHHhcCCEEEEEcCCHH
Confidence             1122 22346677888888889999999988543

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=97.63  E-value=0.0018  Score=60.17  Aligned_cols=35  Identities=17%  Similarity=0.254  Sum_probs=28.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        15 ~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   49 (232)
T cd03218          15 VVNGVSLSVKQGEIVGLLGPNGAGKTTTFYMIVGL   49 (232)
T ss_pred             eeccceeEecCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            45555445889999999999999999999888754

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.63  E-value=0.0016  Score=56.04  Aligned_cols=162  Identities=15%  Similarity=0.133  Sum_probs=92.3

Q ss_pred             ccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC----CHHHHHHHHHHHh-----CC
Q psy2892         198 STGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM----SGIQLAMRMLGSV-----GK  268 (452)
Q Consensus       198 ~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~----~~~~i~~R~~a~~-----~~  268 (452)
                      .++-+-||.+.-.+.+|+...|.||+|+|||+|..++|.-..-  .-.++||-.|.    +++....+.--+.     .|
T Consensus        13 a~~a~il~~isl~v~~Ge~iaitGPSG~GKStllk~va~Lisp--~~G~l~f~Ge~vs~~~pea~Rq~VsY~~Q~paLfg   90 (223)
T COG4619          13 AGDAKILNNISLSVRAGEFIAITGPSGCGKSTLLKIVASLISP--TSGTLLFEGEDVSTLKPEAYRQQVSYCAQTPALFG   90 (223)
T ss_pred             cCCCeeecceeeeecCCceEEEeCCCCccHHHHHHHHHhccCC--CCceEEEcCccccccChHHHHHHHHHHHcCccccc
Confidence            3556677887557999999999999999999999999987653  34477777663    4455555542111     11


Q ss_pred             CCc-------cccccCCCCcchHHHHHHHHHHHhCCCeEEEcCC--CCC--HHHHHHHHHHHHHHcCCccEEEEcCcchh
Q psy2892         269 LDQ-------HKLRTGRLSSDDWPRINDSIKKINKSQLYIDETP--SLN--VIELRANSRRLSRQCGKIGVIIIDYLQLM  337 (452)
Q Consensus       269 i~~-------~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~--~~t--~~~i~~~i~~~~~~~~~~~~vvID~l~~i  337 (452)
                      -..       ..+++...   +..+..+..... ..+-++.+.+  ++|  -.+..+.++.+  +++ |+++.+|.++.-
T Consensus        91 ~tVeDNlifP~~~r~rr~---dr~aa~~llar~-~l~~~~L~k~it~lSGGE~QriAliR~L--q~~-P~ILLLDE~TsA  163 (223)
T COG4619          91 DTVEDNLIFPWQIRNRRP---DRAAALDLLARF-ALPDSILTKNITELSGGEKQRIALIRNL--QFM-PKILLLDEITSA  163 (223)
T ss_pred             cchhhccccchHHhccCC---ChHHHHHHHHHc-CCchhhhcchhhhccchHHHHHHHHHHh--hcC-CceEEecCchhh
Confidence            110       01111111   112222222222 1233333222  222  23455666655  465 999999998754


Q ss_pred             ccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCC
Q psy2892         338 SANSRGENRATEISEISRNLKGLAKEINCPILALSQLN  375 (452)
Q Consensus       338 ~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~  375 (452)
                      ...    +....+   -..+..+.++.+++|+-+.|-.
T Consensus       164 LD~----~nkr~i---e~mi~~~v~~q~vAv~WiTHd~  194 (223)
T COG4619         164 LDE----SNKRNI---EEMIHRYVREQNVAVLWITHDK  194 (223)
T ss_pred             cCh----hhHHHH---HHHHHHHhhhhceEEEEEecCh
Confidence            432    222223   3345556668899999888854

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=97.63  E-value=0.0022  Score=65.66  Aligned_cols=181  Identities=15%  Similarity=0.188  Sum_probs=100.0

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh---CCCcEEEEeCC---CCHHHH---HHHHHHHhCCCCcc
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE---NKLPVAIFSME---MSGIQL---AMRMLGSVGKLDQH  272 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~---~g~~vl~~s~E---~~~~~i---~~R~~a~~~~i~~~  272 (452)
                      ..++.+.--+.+|+.+.|.|.+|+|||++++.+.--.-..   .+..|+|--.|   .+..+.   .-+-++.+..-+..
T Consensus        23 ~~v~~vsf~v~~GE~lgIvGESGsGKSt~a~~i~gll~~~~~~~~G~I~~~g~dl~~l~~~~~r~~rg~~Ia~i~Q~p~~  102 (539)
T COG1123          23 PAVRDVSFEVEPGEILGIVGESGSGKSTLALALMGLLPEGGRITSGEVILDGRDLLGLSEREMRKLRGKRIAMIFQDPMT  102 (539)
T ss_pred             eeeecceEEecCCcEEEEEcCCCCCHHHHHHHHhccCCCCCcccceEEEECCcchhcCCHHHHHHhccccEEEEecCchh
Confidence            4566664458999999999999999999999887644211   12345544322   222222   11111111111110


Q ss_pred             cc---------------ccCCCCcchHHHHHHHHHHHhCC----CeEEE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEc
Q psy2892         273 KL---------------RTGRLSSDDWPRINDSIKKINKS----QLYID-ETPSLNVIELRANSRRLSRQCGKIGVIIID  332 (452)
Q Consensus       273 ~i---------------~~g~l~~~~~~~~~~a~~~l~~~----~l~i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID  332 (452)
                      .+               ..+..+.++  ....+.+.+..-    +.... ....+|=.+-...+-.+.-.. +|+++|.|
T Consensus       103 slnP~~tIg~Qi~E~~~~h~~~~~~e--a~~~a~elL~~Vgl~~~~~~~~yPheLSGG~rQRv~iAmALa~-~P~LLIaD  179 (539)
T COG1123         103 SLNPVMTIGDQIREALRLHGKGSRAE--ARKRAVELLEQVGLPDPERRDRYPHQLSGGMRQRVMIAMALAL-KPKLLIAD  179 (539)
T ss_pred             hcCchhhHHHHHHHHHHHhccccHHH--HHHHHHHHHHHcCCCChhhhccCCcccCchHHHHHHHHHHHhC-CCCEEEEC
Confidence            00               001111111  122223333221    11221 123444344433333333334 59999999


Q ss_pred             CcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         333 YLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       333 ~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                      --+...       ......++..-||.+.+++|+++|+++|--                   +-+++.||.|+.+|+-+
T Consensus       180 EPTTaL-------Dvt~q~qIL~llk~l~~e~g~a~l~ITHDl-------------------~Vva~~aDrv~Vm~~G~  232 (539)
T COG1123         180 EPTTAL-------DVTTQAQILDLLKDLQRELGMAVLFITHDL-------------------GVVAELADRVVVMYKGE  232 (539)
T ss_pred             CCcccc-------CHHHHHHHHHHHHHHHHHcCcEEEEEcCCH-------------------HHHHHhcCeEEEEECCE
Confidence            865332       223346889999999999999999999832                   45889999999999754

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=97.63  E-value=0.0014  Score=58.99  Aligned_cols=34  Identities=26%  Similarity=0.428  Sum_probs=28.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-
T Consensus        22 ~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G   55 (192)
T cd03232          22 LLNNISGYVKPGTLTALMGESGAGKTTLLDVLAG   55 (192)
T ss_pred             eEEccEEEEeCCcEEEEECCCCCCHHHHHHHHhC
Confidence            4555544589999999999999999999988874

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.

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=97.62  E-value=0.0019  Score=59.80  Aligned_cols=36  Identities=19%  Similarity=0.389  Sum_probs=29.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        20 ~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   55 (228)
T cd03257          20 ALDDVSFSIKKGETLGLVGESGSGKSTLARAILGLL   55 (228)
T ss_pred             eecCceeEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455554468999999999999999999998877543

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>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=97.62  E-value=0.00045  Score=65.55  Aligned_cols=101  Identities=22%  Similarity=0.283  Sum_probs=55.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCc-chHHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSS-DDWPRINDSIKKI  294 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~-~~~~~~~~a~~~l  294 (452)
                      |++|+|.||+|||+++.++...+. ..+..|.+++.+.    +.  +       +..     .+.+ ..+..+       
T Consensus         3 Liil~G~P~SGKTt~a~~L~~~~~-~~~~~v~~i~~~~----~~--~-------~~~-----~y~~~~~Ek~~-------   56 (270)
T PF08433_consen    3 LIILCGLPCSGKTTRAKELKKYLE-EKGKEVVIISDDS----LG--I-------DRN-----DYADSKKEKEA-------   56 (270)
T ss_dssp             EEEEE--TTSSHHHHHHHHHHHHH-HTT--EEEE-THH----HH----------TTS-----SS--GGGHHHH-------
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHH-hcCCEEEEEcccc----cc--c-------chh-----hhhchhhhHHH-------
Confidence            799999999999999999999886 4678999998432    11  1       100     0111 111111       


Q ss_pred             hCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEe
Q psy2892         295 NKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALS  372 (452)
Q Consensus       295 ~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~  372 (452)
                                    -..+++.+.+...   +-.+||+|....+.+             +=.+|..+||+++++..+++
T Consensus        57 --------------R~~l~s~v~r~ls---~~~iVI~Dd~nYiKg-------------~RYelyclAr~~~~~~c~i~  104 (270)
T PF08433_consen   57 --------------RGSLKSAVERALS---KDTIVILDDNNYIKG-------------MRYELYCLARAYGTTFCVIY  104 (270)
T ss_dssp             --------------HHHHHHHHHHHHT---T-SEEEE-S---SHH-------------HHHHHHHHHHHTT-EEEEEE
T ss_pred             --------------HHHHHHHHHHhhc---cCeEEEEeCCchHHH-------------HHHHHHHHHHHcCCCEEEEE
Confidence                          1234454444433   248999999876654             12367788999998876654

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.62  E-value=0.0017  Score=60.81  Aligned_cols=176  Identities=16%  Similarity=0.189  Sum_probs=87.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC---CHHHHHHHHHHHhCCC------Cc-c
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM---SGIQLAMRMLGSVGKL------DQ-H  272 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~---~~~~i~~R~~a~~~~i------~~-~  272 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..--..| .|.+-..+.   +...+. +.++....-      +. +
T Consensus        18 ~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G-~i~~~g~~i~~~~~~~~~-~~i~~~~q~~~~~~~tv~e   95 (241)
T PRK14250         18 ILKDISVKFEGGAIYTIVGPSGAGKSTLIKLINRLIDPTEG-SILIDGVDIKTIDVIDLR-RKIGMVFQQPHLFEGTVKD   95 (241)
T ss_pred             eeeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc-EEEECCEEhhhcChHHhh-hcEEEEecCchhchhhHHH
Confidence            34554345889999999999999999999877754311122 233321111   111111 111100000      00 0


Q ss_pred             ccccC-CCCcchHHHHHHHHHHHhCCCeE--E-E-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHH
Q psy2892         273 KLRTG-RLSSDDWPRINDSIKKINKSQLY--I-D-ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRA  347 (452)
Q Consensus       273 ~i~~g-~l~~~~~~~~~~a~~~l~~~~l~--i-~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~  347 (452)
                      .+.-+ ........++.+..+.+   .+.  . . ....+|-.+-+...-...--. +++++++|....      +-+. 
T Consensus        96 ~l~~~~~~~~~~~~~~~~~l~~~---~l~~~~~~~~~~~LS~G~~qrl~la~al~~-~p~llllDEPt~------~LD~-  164 (241)
T PRK14250         96 NIEYGPMLKGEKNVDVEYYLSIV---GLNKEYATRDVKNLSGGEAQRVSIARTLAN-NPEVLLLDEPTS------ALDP-  164 (241)
T ss_pred             HHhcchhhcCcHHHHHHHHHHHc---CCCHHHhhCCcccCCHHHHHHHHHHHHHhc-CCCEEEEeCCcc------cCCH-
Confidence            00000 00001111222222222   221  1 1 123466555443322222223 499999998532      1222 


Q ss_pred             HHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         348 TEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       348 ~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      .....+.+.|+.++++.+.+||+++|-..                   .+...||.++.+.+.
T Consensus       165 ~~~~~l~~~l~~~~~~~g~tii~~sH~~~-------------------~~~~~~d~i~~l~~G  208 (241)
T PRK14250        165 TSTEIIEELIVKLKNKMNLTVIWITHNME-------------------QAKRIGDYTAFLNKG  208 (241)
T ss_pred             HHHHHHHHHHHHHHHhCCCEEEEEeccHH-------------------HHHHhCCEEEEEeCC
Confidence            23456777888888777899999988432                   245678999888653

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.62  E-value=0.0016  Score=64.17  Aligned_cols=42  Identities=21%  Similarity=0.362  Sum_probs=36.5

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHH-HhCCCcEEEEeCCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIA-IENKLPVAIFSMEM  253 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a-~~~g~~vl~~s~E~  253 (452)
                      .+|.++.+.||+|+||||-+.-+|+..+ .....+|.++|++-
T Consensus       201 ~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDt  243 (407)
T COG1419         201 EQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDT  243 (407)
T ss_pred             ccCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEecc
Confidence            4477999999999999999999999997 44568999999974

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=97.62  E-value=0.002  Score=61.43  Aligned_cols=36  Identities=28%  Similarity=0.467  Sum_probs=29.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        22 il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   57 (269)
T PRK11831         22 IFDNISLTVPRGKITAIMGPSGIGKTTLLRLIGGQI   57 (269)
T ss_pred             EEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455554458999999999999999999998777543

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=97.62  E-value=0.0014  Score=61.83  Aligned_cols=36  Identities=17%  Similarity=0.229  Sum_probs=29.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..
T Consensus        15 ~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (252)
T TIGR03005        15 VLDGLNFSVAAGEKVALIGPSGSGKSTILRILMTLE   50 (252)
T ss_pred             EEeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455554458999999999999999999998877543

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.61  E-value=0.00098  Score=66.40  Aligned_cols=88  Identities=14%  Similarity=0.273  Sum_probs=54.1

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHh---CCCcEEEEeCCCCH--HHHHHHHHHHhCCCCccccccCCCCcchHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIE---NKLPVAIFSMEMSG--IQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRIN  288 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~---~g~~vl~~s~E~~~--~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~  288 (452)
                      +.++++.|++|+||||.+..+|..+...   .|.+|++++.+--.  .....+.++...|++.....       ....+.
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~-------~~~~l~  246 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIE-------SFKDLK  246 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeC-------cHHHHH
Confidence            4589999999999999999999887642   47899999998522  11223334444555543211       122344


Q ss_pred             HHHHHHhCCCeEEEcCCCCC
Q psy2892         289 DSIKKINKSQLYIDETPSLN  308 (452)
Q Consensus       289 ~a~~~l~~~~l~i~~~~~~t  308 (452)
                      .++..+.+..+.+.|+++.+
T Consensus       247 ~~L~~~~~~DlVLIDTaGr~  266 (388)
T PRK12723        247 EEITQSKDFDLVLVDTIGKS  266 (388)
T ss_pred             HHHHHhCCCCEEEEcCCCCC
Confidence            44444555555555554443

>PRK09473 oppD oligopeptide transporter ATP-binding component; Provisional

Probab=97.61  E-value=0.0021  Score=63.10  Aligned_cols=181  Identities=13%  Similarity=0.155  Sum_probs=92.3

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh--CCCcEEEEeCC----CCHHHHHH-H--HHHHhCCCC--
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE--NKLPVAIFSME----MSGIQLAM-R--MLGSVGKLD--  270 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~--~g~~vl~~s~E----~~~~~i~~-R--~~a~~~~i~--  270 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++--..-.  ....|.| ..+    ++..++.. |  .++....-+  
T Consensus        30 ~~l~~vsl~i~~Ge~~~ivG~sGsGKSTL~~~l~Gl~~p~~~~sG~I~~-~G~~i~~~~~~~~~~~r~~~i~~v~Q~~~~  108 (330)
T PRK09473         30 TAVNDLNFSLRAGETLGIVGESGSGKSQTAFALMGLLAANGRIGGSATF-NGREILNLPEKELNKLRAEQISMIFQDPMT  108 (330)
T ss_pred             EEEeeeEEEEcCCCEEEEECCCCchHHHHHHHHHcCCCCCCCCCeEEEE-CCEECCcCCHHHHHHHhcCCEEEEEcCchh
Confidence            4566664568999999999999999999998887543211  0223433 322    23333321 1  111111000  


Q ss_pred             -------ccc-c-----ccCCCCcch-HHHHHHHHHHHhCCC-e-EEE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcC
Q psy2892         271 -------QHK-L-----RTGRLSSDD-WPRINDSIKKINKSQ-L-YID-ETPSLNVIELRANSRRLSRQCGKIGVIIIDY  333 (452)
Q Consensus       271 -------~~~-i-----~~g~l~~~~-~~~~~~a~~~l~~~~-l-~i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~  333 (452)
                             ... +     ..+..+..+ ..++.+..+.+.-.+ . ++. ....+|-.+.....-...--. +++++|.|.
T Consensus       109 ~l~p~~~v~~~i~~~~~~~~~~~~~~~~~~~~~~L~~vgL~~~~~~~~~~p~~LSgG~~QRv~IArAL~~-~P~llilDE  187 (330)
T PRK09473        109 SLNPYMRVGEQLMEVLMLHKGMSKAEAFEESVRMLDAVKMPEARKRMKMYPHEFSGGMRQRVMIAMALLC-RPKLLIADE  187 (330)
T ss_pred             hcCCCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHcCCCChHHHhcCCcccCCHHHHHHHHHHHHHHc-CCCEEEEeC
Confidence                   000 0     001112111 122223333221111 0 111 123456555443322222223 499999998


Q ss_pred             cchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         334 LQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       334 l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      -..-      -+ ......+...|+.+.++++.++|+++|--.                   .+.+.||.++.|+.-
T Consensus       188 Pts~------LD-~~~~~~i~~lL~~l~~~~g~til~iTHdl~-------------------~~~~~~Dri~vm~~G  238 (330)
T PRK09473        188 PTTA------LD-VTVQAQIMTLLNELKREFNTAIIMITHDLG-------------------VVAGICDKVLVMYAG  238 (330)
T ss_pred             CCcc------CC-HHHHHHHHHHHHHHHHHcCCEEEEEECCHH-------------------HHHHhCCEEEEEECC
Confidence            5322      12 223457788888888888999999987322                   244567777777653

>PRK10908 cell division protein FtsE; Provisional

Probab=97.61  E-value=0.0016  Score=60.04  Aligned_cols=36  Identities=22%  Similarity=0.391  Sum_probs=29.6

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        17 ~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (222)
T PRK10908         17 ALQGVTFHMRPGEMAFLTGHSGAGKSTLLKLICGIE   52 (222)
T ss_pred             EEeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            456654458999999999999999999998887543

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=97.61  E-value=0.0022  Score=60.39  Aligned_cols=35  Identities=26%  Similarity=0.408  Sum_probs=28.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        18 ~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   52 (250)
T PRK11264         18 VLHGIDLEVKPGEVVAIIGPSGSGKTTLLRCINLL   52 (250)
T ss_pred             eeccceEEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            45555446899999999999999999999877754

>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family

Probab=97.61  E-value=0.0015  Score=60.33  Aligned_cols=35  Identities=31%  Similarity=0.514  Sum_probs=29.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-.
T Consensus        20 il~~vs~~i~~G~~~~I~G~nGsGKStLl~~l~G~   54 (220)
T TIGR02982        20 VLFDINLEINPGEIVILTGPSGSGKTTLLTLIGGL   54 (220)
T ss_pred             EEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            45555445899999999999999999999888753

Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The DevBCA proteins are thought export of either heterocyst-specific glycolipids or an enzyme essential for formation of the laminated layer found in heterocysts.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.61  E-value=0.00079  Score=65.17  Aligned_cols=42  Identities=12%  Similarity=0.264  Sum_probs=34.9

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM  262 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~  262 (452)
                      -.+|.|+||+|||.++..++..++ +.|.+|.|++..    +++.++
T Consensus       158 gl~L~G~~G~GKThLa~Aia~~l~-~~g~~v~~~~~~----~l~~~l  199 (306)
T PRK08939        158 GLYLYGDFGVGKSYLLAAIANELA-KKGVSSTLLHFP----EFIREL  199 (306)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHH-HcCCCEEEEEHH----HHHHHH
Confidence            488999999999999999999997 579999999763    444444

>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.60  E-value=0.00087  Score=64.54  Aligned_cols=176  Identities=18%  Similarity=0.218  Sum_probs=89.4

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-CC-----HHHHHHHHHHHhCCCCccccc
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-MS-----GIQLAMRMLGSVGKLDQHKLR  275 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~~-----~~~i~~R~~a~~~~i~~~~i~  275 (452)
                      +.|+.+.--+.+|+++.|.|++|+|||||+.-++--.--..|  -+++..+ .+     ...+. +.++....-+...+.
T Consensus        21 ~~l~~vs~~i~~Ge~~~i~G~nGaGKSTLl~~l~Gl~~p~~G--~i~~~g~~~~~~~~~~~~~~-~~ig~v~q~~~~~~~   97 (287)
T PRK13637         21 KALDNVNIEIEDGEFVGLIGHTGSGKSTLIQHLNGLLKPTSG--KIIIDGVDITDKKVKLSDIR-KKVGLVFQYPEYQLF   97 (287)
T ss_pred             ceeeeeEEEEcCCCEEEEECCCCCcHHHHHHHHhcCCCCCcc--EEEECCEECCCcCccHHHHh-hceEEEecCchhccc
Confidence            356666556899999999999999999999888754321122  2222221 11     01111 111100000000000


Q ss_pred             c-------------CCCCcchH-HHHHHHHHHHhCCC--eEEEc-CCCCCHHHHHHH--HHHHHHHcCCccEEEEcCcch
Q psy2892         276 T-------------GRLSSDDW-PRINDSIKKINKSQ--LYIDE-TPSLNVIELRAN--SRRLSRQCGKIGVIIIDYLQL  336 (452)
Q Consensus       276 ~-------------g~l~~~~~-~~~~~a~~~l~~~~--l~i~~-~~~~t~~~i~~~--i~~~~~~~~~~~~vvID~l~~  336 (452)
                      .             ..++..++ +++.++.+.+. ..  -+.+. ...+|-.+.+..  ++.+.  . +|+++++|.-..
T Consensus        98 ~~tv~e~l~~~~~~~~~~~~~~~~~~~~~l~~~g-L~~~~~~~~~~~~LSgGq~qrv~iAraL~--~-~P~llllDEPt~  173 (287)
T PRK13637         98 EETIEKDIAFGPINLGLSEEEIENRVKRAMNIVG-LDYEDYKDKSPFELSGGQKRRVAIAGVVA--M-EPKILILDEPTA  173 (287)
T ss_pred             cccHHHHHHhHHHHCCCCHHHHHHHHHHHHHHcC-CCchhhccCCcccCCHHHHHHHHHHHHHH--c-CCCEEEEECCcc
Confidence            0             01222222 22333333321 11  01111 234565554432  33332  2 499999999543


Q ss_pred             hccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         337 MSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       337 i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      -      -+. .....+...|+.++++.+.+||+++|--.                   .+...||.|+.+...
T Consensus       174 g------LD~-~~~~~l~~~l~~l~~~~g~tvi~vtHd~~-------------------~~~~~~drv~~l~~G  221 (287)
T PRK13637        174 G------LDP-KGRDEILNKIKELHKEYNMTIILVSHSME-------------------DVAKLADRIIVMNKG  221 (287)
T ss_pred             C------CCH-HHHHHHHHHHHHHHHhcCCEEEEEeCCHH-------------------HHHHhCCEEEEEECC
Confidence            2      122 23456777788888888999999987432                   234567888777643

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=97.60  E-value=0.0016  Score=60.14  Aligned_cols=28  Identities=29%  Similarity=0.323  Sum_probs=24.9

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +.+|+++.|.|++|+|||||+.-++-..
T Consensus         3 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   30 (223)
T TIGR03771         3 ADKGELLGLLGPNGAGKTTLLRAILGLI   30 (223)
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            6799999999999999999998887643

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.

>KOG0061|consensus

Probab=97.60  E-value=0.00038  Score=73.85  Aligned_cols=160  Identities=16%  Similarity=0.207  Sum_probs=88.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-CCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccC----
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-NKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTG----  277 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g----  277 (452)
                      -|+.+.|-.+||+++.|.|++|+||||++--+|.....+ .-...+.+..+....+...++.+.   +..+...-+    
T Consensus        45 iL~~vsg~~~~Gel~AimG~SGsGKtTLL~~Lagr~~~~~~~~G~ilvNG~~~~~~~~~~~s~y---V~QdD~l~~~LTV  121 (613)
T KOG0061|consen   45 ILKGVSGTAKPGELLAIMGPSGSGKTTLLNALAGRLNGGLKLSGEILLNGRPRDSRSFRKISGY---VQQDDVLLPTLTV  121 (613)
T ss_pred             eeeCcEEEEecCeEEEEECCCCCCHHHHHHHHhccccCCCcceEEEEECCccCchhhhhheeEE---EcccccccccccH
Confidence            455666778999999999999999999999998877531 112244455544444444444322   222111111    


Q ss_pred             --------------CCCcch-HHHHHHHHHHHhCC---CeEEE--cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchh
Q psy2892         278 --------------RLSSDD-WPRINDSIKKINKS---QLYID--ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLM  337 (452)
Q Consensus       278 --------------~l~~~~-~~~~~~a~~~l~~~---~l~i~--~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i  337 (452)
                                    .++.++ .+++.+.+..+.-.   +-.|-  ...+++-.+-+...-...--+ +|.++++|.-+  
T Consensus       122 ~EtL~f~A~lrlp~~~~~~~k~~~V~~vi~~LgL~~~~~t~ig~~~~rgiSGGErkRvsia~Ell~-~P~iLflDEPT--  198 (613)
T KOG0061|consen  122 RETLRFSALLRLPSSLSKEEKRERVEEVISELGLEKCADTLIGNPGIRGLSGGERKRVSIALELLT-DPSILFLDEPT--  198 (613)
T ss_pred             HHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHcCChhhccceecCCCCCccccchhhHHHHHHHHHc-CCCEEEecCCC--
Confidence                          122222 23444444444211   11111  112455455544333333334 49999999843  


Q ss_pred             ccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEE-ecC
Q psy2892         338 SANSRGENRATEISEISRNLKGLAKEINCPILAL-SQL  374 (452)
Q Consensus       338 ~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l-~ql  374 (452)
                          .+-+... .-.+++.||++|++ |.+||++ ||.
T Consensus       199 ----SGLDS~s-A~~vv~~Lk~lA~~-grtVi~tIHQP  230 (613)
T KOG0061|consen  199 ----SGLDSFS-ALQVVQLLKRLARS-GRTVICTIHQP  230 (613)
T ss_pred             ----CCcchhh-HHHHHHHHHHHHhC-CCEEEEEEeCC
Confidence                2233333 34788999999999 7776655 454

>PRK11000 maltose/maltodextrin transporter ATP-binding protein; Provisional

Probab=97.60  E-value=0.0016  Score=64.97  Aligned_cols=35  Identities=17%  Similarity=0.332  Sum_probs=29.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--
T Consensus        18 vl~~vsl~i~~Ge~~~l~G~nGsGKSTLL~~iaGl   52 (369)
T PRK11000         18 ISKDINLDIHEGEFVVFVGPSGCGKSTLLRMIAGL   52 (369)
T ss_pred             EEeeeEEEEcCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            45665445889999999999999999999877754

>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein

Probab=97.59  E-value=0.0014  Score=64.60  Aligned_cols=160  Identities=15%  Similarity=0.159  Sum_probs=81.4

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHH--HHHHHHhCC---CC-c
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLA--MRMLGSVGK---LD-Q  271 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~--~R~~a~~~~---i~-~  271 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++.-..- ....|. +..+    .+..++.  .|-++....   .- .
T Consensus        19 ~~L~~vsl~i~~Gei~gIiG~sGaGKSTLlr~I~gl~~p-~~G~I~-i~G~~i~~~~~~~l~~~r~~Ig~v~Q~~~l~~~   96 (343)
T TIGR02314        19 QALNNVSLHVPAGQIYGVIGASGAGKSTLIRCVNLLERP-TSGSVI-VDGQDLTTLSNSELTKARRQIGMIFQHFNLLSS   96 (343)
T ss_pred             EEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCC-CceEEE-ECCEECCcCCHHHHHHHhcCEEEEECCcccccc
Confidence            456776556899999999999999999999888764321 112233 3322    2222221  111111000   00 0


Q ss_pred             ccccc--------CCCCcc-hHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         272 HKLRT--------GRLSSD-DWPRINDSIKKINKSQLYIDE-TPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       272 ~~i~~--------g~l~~~-~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      ..+.+        ...+.. ..+++.+..+.+.-.. +.+. ...+|-.+-+.  .++.+.  . +|++++.|.-..-  
T Consensus        97 ~tv~eni~~~~~~~~~~~~~~~~~v~e~l~~vgL~~-~~~~~~~~LSgGqkQRV~IARAL~--~-~P~iLLlDEPts~--  170 (343)
T TIGR02314        97 RTVFGNVALPLELDNTPKDEIKRKVTELLALVGLGD-KHDSYPSNLSGGQKQRVAIARALA--S-NPKVLLCDEATSA--  170 (343)
T ss_pred             CcHHHHHHHHHHHcCCCHHHHHHHHHHHHHHcCCch-hhhCChhhCCHHHHHHHHHHHHHH--h-CCCEEEEeCCccc--
Confidence            00000        011111 1223333333321111 1111 23455555433  233333  2 4999999985421  


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         340 NSRGENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       340 ~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                          -+. .....+.+.|+.+.++.+++||+++|-
T Consensus       171 ----LD~-~t~~~i~~lL~~l~~~~g~tiiliTH~  200 (343)
T TIGR02314       171 ----LDP-ATTQSILELLKEINRRLGLTILLITHE  200 (343)
T ss_pred             ----CCH-HHHHHHHHHHHHHHHhcCCEEEEEeCC
Confidence                121 223477788889988899999999883

Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.

>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional

Probab=97.59  E-value=0.00076  Score=64.14  Aligned_cols=36  Identities=14%  Similarity=0.319  Sum_probs=29.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        22 ~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   57 (265)
T PRK10253         22 VAENLTVEIPDGHFTAIIGPNGCGKSTLLRTLSRLM   57 (265)
T ss_pred             EeeecceEECCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            455554458899999999999999999998776543

>PRK10070 glycine betaine transporter ATP-binding subunit; Provisional

Probab=97.59  E-value=0.0021  Score=64.61  Aligned_cols=160  Identities=13%  Similarity=0.172  Sum_probs=79.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHH---HHHHHhC---CCCc-
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAM---RMLGSVG---KLDQ-  271 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~---R~~a~~~---~i~~-  271 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--.--..| .| ++..+    ++..++..   +-++...   ++-. 
T Consensus        43 ~L~~isl~i~~Gei~~LvG~NGsGKSTLLr~I~Gl~~p~sG-~I-~i~G~~i~~~~~~~l~~~~~~~igyv~Q~~~l~~~  120 (400)
T PRK10070         43 GVKDASLAIEEGEIFVIMGLSGSGKSTMVRLLNRLIEPTRG-QV-LIDGVDIAKISDAELREVRRKKIAMVFQSFALMPH  120 (400)
T ss_pred             EEEeEEEEEcCCCEEEEECCCCchHHHHHHHHHcCCCCCCC-EE-EECCEECCcCCHHHHHHHHhCCEEEEECCCcCCCC
Confidence            35555445899999999999999999999877754321122 23 33322    23332211   1111100   0000 


Q ss_pred             ccccc--------CCCCcc-hHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         272 HKLRT--------GRLSSD-DWPRINDSIKKINKSQLYIDE-TPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       272 ~~i~~--------g~l~~~-~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      ..+.+        ..++.. ..+++.++++.+. ..-+... ...+|-.+-+.  .++.+.  . +++++++|.-..   
T Consensus       121 ~Tv~enl~~~~~~~~~~~~~~~~~~~e~L~~~g-L~~~~~~~~~~LSgGq~QRv~LArAL~--~-~P~iLLLDEPts---  193 (400)
T PRK10070        121 MTVLDNTAFGMELAGINAEERREKALDALRQVG-LENYAHSYPDELSGGMRQRVGLARALA--I-NPDILLMDEAFS---  193 (400)
T ss_pred             CCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHcC-CChhhhcCcccCCHHHHHHHHHHHHHh--c-CCCEEEEECCCc---
Confidence            00000        001111 1123333333321 1111221 23456554433  233332  3 499999998532   


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCC
Q psy2892         340 NSRGENRATEISEISRNLKGLAKEINCPILALSQLN  375 (452)
Q Consensus       340 ~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~  375 (452)
                         +-+. .....+.+.|+.+.++.+.+||+++|--
T Consensus       194 ---~LD~-~~r~~l~~~L~~l~~~~g~TIIivTHd~  225 (400)
T PRK10070        194 ---ALDP-LIRTEMQDELVKLQAKHQRTIVFISHDL  225 (400)
T ss_pred             ---cCCH-HHHHHHHHHHHHHHHHCCCeEEEEECCH
Confidence               1222 2335677778888888899999988853

>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]

Probab=97.59  E-value=0.00029  Score=62.12  Aligned_cols=140  Identities=18%  Similarity=0.195  Sum_probs=90.4

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSI  291 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~  291 (452)
                      ..|.|.+++|+-++|||+-+++-+.+.. ..|.+|+.|....+.+--...+.+ ..|.+..                   
T Consensus         2 ~~g~l~~i~gpM~SGKT~eLl~r~~~~~-~~g~~v~vfkp~iD~R~~~~~V~S-r~G~~~~-------------------   60 (201)
T COG1435           2 KMGWLEFIYGPMFSGKTEELLRRARRYK-EAGMKVLVFKPAIDTRYGVGKVSS-RIGLSSE-------------------   60 (201)
T ss_pred             ceEEEEEEEccCcCcchHHHHHHHHHHH-HcCCeEEEEecccccccccceeee-ccCCccc-------------------
Confidence            4578999999999999999999999986 479999999887653321111111 1121111                   


Q ss_pred             HHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEE
Q psy2892         292 KKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL  371 (452)
Q Consensus       292 ~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l  371 (452)
                             -....    +-.++...+....... ..++|+||-.|.+..            ++...|..+|.++|+|||+-
T Consensus        61 -------A~~i~----~~~~i~~~i~~~~~~~-~~~~v~IDEaQF~~~------------~~v~~l~~lad~lgi~Vi~~  116 (201)
T COG1435          61 -------AVVIP----SDTDIFDEIAALHEKP-PVDCVLIDEAQFFDE------------ELVYVLNELADRLGIPVICY  116 (201)
T ss_pred             -------ceecC----ChHHHHHHHHhcccCC-CcCEEEEehhHhCCH------------HHHHHHHHHHhhcCCEEEEe
Confidence                   11111    2346666665553332 278999999987753            45778999999999999986


Q ss_pred             ecCCcchhhcCCCCCCchhhhhhchhhhhhceeE
Q psy2892         372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVIL  405 (452)
Q Consensus       372 ~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl  405 (452)
                      . |..+..+    .|    +.+|..+-..||.|.
T Consensus       117 G-L~~DFrg----ep----Fe~s~~Lla~ADkv~  141 (201)
T COG1435         117 G-LDTDFRG----EP----FEGSKYLLAIADKVT  141 (201)
T ss_pred             c-ccccccc----CC----CccHHHHHHHHHHHH
Confidence            4 4443321    12    344555666666653

>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase

Probab=97.59  E-value=0.00046  Score=63.04  Aligned_cols=109  Identities=21%  Similarity=0.254  Sum_probs=63.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccc-cccCCC-Ccc-hHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHK-LRTGRL-SSD-DWPRINDSIK  292 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~-i~~g~l-~~~-~~~~~~~a~~  292 (452)
                      +.+.++.+|+|||+++.++|..++...|++|+.+.++.....+...     .+++... +.+ .+ .+. ++.   +++.
T Consensus        38 i~v~s~kgG~GkSt~a~nLA~~la~~~g~~VLlvD~D~~~~~~~~~-----~~~~~~~~l~~-~l~~~~~~l~---~~i~  108 (207)
T TIGR03018        38 IMVTSSLPGEGKSFTAINLAISLAQEYDKTVLLIDADLRRPSLHRT-----LGLEAEPGLSD-CLLDPVLDLA---DVLV  108 (207)
T ss_pred             EEEECCCCCCCHHHHHHHHHHHHHHhcCCeEEEEECCCCChhhhhe-----eCCCCCCCHHH-HHcCCCCCHH---HHhc
Confidence            5555578999999999999999886468999999999865433222     2222110 100 00 011 222   2222


Q ss_pred             HHhCCCeEEEcCCC--------CCHHHHHHHHHHHHHHcCCccEEEEcCc
Q psy2892         293 KINKSQLYIDETPS--------LNVIELRANSRRLSRQCGKIGVIIIDYL  334 (452)
Q Consensus       293 ~l~~~~l~i~~~~~--------~t~~~i~~~i~~~~~~~~~~~~vvID~l  334 (452)
                      ......+++...+.        .+...+...+..++.+++ .|+||||.-
T Consensus       109 ~~~~~~l~vl~~g~~~~~~~~~~~~~~l~~~l~~l~~~y~-~D~IiiD~p  157 (207)
T TIGR03018       109 PTNIGRLSLLPAGRRHPNPTELLASQRMRSLLHELARRYP-DRIIIIDTP  157 (207)
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHhCcHHHHHHHHHHHhhCC-CCEEEEECC
Confidence            22223577654221        122345566666666664 599999984

Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=97.58  E-value=0.0021  Score=60.89  Aligned_cols=36  Identities=22%  Similarity=0.516  Sum_probs=29.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        17 il~~is~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   52 (258)
T PRK13548         17 LLDDVSLTLRPGEVVAILGPNGAGKSTLLRALSGEL   52 (258)
T ss_pred             eeeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455554458899999999999999999998777643

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=97.58  E-value=0.00058  Score=64.49  Aligned_cols=35  Identities=17%  Similarity=0.200  Sum_probs=28.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        18 il~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   52 (254)
T PRK10418         18 LVHGVSLTLQRGRVLALVGGSGSGKSLTCAAALGI   52 (254)
T ss_pred             eecceEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34444345899999999999999999998877654

>PRK13651 cobalt transporter ATP-binding subunit; Provisional

Probab=97.57  E-value=0.00081  Score=65.27  Aligned_cols=37  Identities=24%  Similarity=0.513  Sum_probs=30.7

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +.|+.+.--+.+|+++.|.|++|+|||||+.-++--.
T Consensus        21 ~~l~~vsl~i~~Ge~v~iiG~nGsGKSTLl~~L~Gl~   57 (305)
T PRK13651         21 KALDNVSVEINQGEFIAIIGQTGSGKTTFIEHLNALL   57 (305)
T ss_pred             cceeeeEEEEeCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4566665568999999999999999999998877643

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=97.57  E-value=0.00084  Score=60.38  Aligned_cols=35  Identities=17%  Similarity=0.364  Sum_probs=28.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus         7 il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~i~G~   41 (190)
T TIGR01166         7 VLKGLNFAAERGEVLALLGANGAGKSTLLLHLNGL   41 (190)
T ss_pred             eecceeEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            35555446899999999999999999999866643

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=97.57  E-value=0.0017  Score=60.58  Aligned_cols=178  Identities=14%  Similarity=0.142  Sum_probs=87.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH-HHHHHHHHHHh-------CCCCccc-
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG-IQLAMRMLGSV-------GKLDQHK-  273 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~-~~i~~R~~a~~-------~~i~~~~-  273 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-......| .|. +..+... .....+.++..       .+.+... 
T Consensus        15 il~~is~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G-~i~-i~g~~~~~~~~~~~~i~~~~q~~~~~~~~t~~en   92 (237)
T TIGR00968        15 ALDDVNLEVPTGSLVALLGPSGSGKSTLLRIIAGLEQPDSG-RIR-LNGQDATRVHARDRKIGFVFQHYALFKHLTVRDN   92 (237)
T ss_pred             eeeeEEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCce-EEE-ECCEEcCcCChhhcCEEEEecChhhccCCcHHHH
Confidence            34444335899999999999999999999888754322222 222 2111000 00001111000       0000000 


Q ss_pred             ccc----CCCCc-chHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHH
Q psy2892         274 LRT----GRLSS-DDWPRINDSIKKINKSQLYIDE-TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRA  347 (452)
Q Consensus       274 i~~----g~l~~-~~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~  347 (452)
                      +..    ...+. ...+.+.++++.+. ..-+... ...+|..+.+...-...-.. +++++++|....      +.+ .
T Consensus        93 l~~~~~~~~~~~~~~~~~~~~~l~~~~-l~~~~~~~~~~lS~G~~qrl~laral~~-~p~llllDEP~~------~LD-~  163 (237)
T TIGR00968        93 IAFGLEIRKHPKAKIKARVEELLELVQ-LEGLGDRYPNQLSGGQRQRVALARALAV-EPQVLLLDEPFG------ALD-A  163 (237)
T ss_pred             HHhHHHhcCCCHHHHHHHHHHHHHHcC-CHhHhhCChhhCCHHHHHHHHHHHHHhc-CCCEEEEcCCcc------cCC-H
Confidence            000    00111 11122333333321 1111111 23566655544322222222 499999998532      122 2


Q ss_pred             HHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         348 TEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       348 ~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      .....+.+.|+.++++.+.+||+++|-..                   .+...||.++.+...
T Consensus       164 ~~~~~~~~~l~~~~~~~~~tvli~sH~~~-------------------~~~~~~d~i~~l~~g  207 (237)
T TIGR00968       164 KVRKELRSWLRKLHDEVHVTTVFVTHDQE-------------------EAMEVADRIVVMSNG  207 (237)
T ss_pred             HHHHHHHHHHHHHHHhcCCEEEEEeCCHH-------------------HHHhhcCEEEEEECC
Confidence            23456777888887777899999988332                   245568888888643

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=97.56  E-value=0.00076  Score=63.70  Aligned_cols=35  Identities=11%  Similarity=0.247  Sum_probs=29.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        20 ~l~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (255)
T PRK11300         20 AVNNVNLEVREQEIVSLIGPNGAGKTTVFNCLTGF   54 (255)
T ss_pred             EEEeeeeEEcCCeEEEEECCCCCCHHHHHHHHhCC
Confidence            45555445889999999999999999999877754

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.56  E-value=0.00069  Score=63.20  Aligned_cols=37  Identities=11%  Similarity=0.212  Sum_probs=32.3

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ...+|.|+||+|||+++..++..+. ..|.+|.|++++
T Consensus        46 ~~l~l~Gp~G~GKThLl~a~~~~~~-~~~~~v~y~~~~   82 (235)
T PRK08084         46 GYIYLWSREGAGRSHLLHAACAELS-QRGRAVGYVPLD   82 (235)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH-hCCCeEEEEEHH
Confidence            3689999999999999999988876 468999999885

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=97.56  E-value=0.0029  Score=59.83  Aligned_cols=36  Identities=25%  Similarity=0.325  Sum_probs=29.8

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        20 ~l~~is~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   55 (257)
T PRK10619         20 VLKGVSLQANAGDVISIIGSSGSGKSTFLRCINFLE   55 (257)
T ss_pred             EEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            456654468999999999999999999998777653

>PRK10851 sulfate/thiosulfate transporter subunit; Provisional

Probab=97.55  E-value=0.00098  Score=66.03  Aligned_cols=37  Identities=22%  Similarity=0.307  Sum_probs=30.2

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++--.
T Consensus        16 ~~l~~isl~i~~Ge~~~llGpsGsGKSTLLr~IaGl~   52 (353)
T PRK10851         16 QVLNDISLDIPSGQMVALLGPSGSGKTTLLRIIAGLE   52 (353)
T ss_pred             EEEEEeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3466664458999999999999999999998887643

>PRK13641 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.55  E-value=0.00049  Score=66.24  Aligned_cols=36  Identities=22%  Similarity=0.406  Sum_probs=30.2

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        21 ~~l~~vsl~i~~Ge~~~iiG~NGaGKSTLl~~l~Gl   56 (287)
T PRK13641         21 KGLDNISFELEEGSFVALVGHTGSGKSTLMQHFNAL   56 (287)
T ss_pred             cceeeeEEEEeCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            356766556899999999999999999999888754

>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional

Probab=97.55  E-value=0.0023  Score=60.72  Aligned_cols=36  Identities=17%  Similarity=0.406  Sum_probs=29.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        19 il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   54 (262)
T PRK09984         19 ALHAVDLNIHHGEMVALLGPSGSGKSTLLRHLSGLI   54 (262)
T ss_pred             EEecceEEEcCCcEEEEECCCCCCHHHHHHHHhccC
Confidence            455554458899999999999999999999877543

>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional

Probab=97.55  E-value=0.0029  Score=61.98  Aligned_cols=181  Identities=15%  Similarity=0.146  Sum_probs=92.8

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh---CCCcEEEEeC---CCCHHHHHHH---HHHHhCC----
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE---NKLPVAIFSM---EMSGIQLAMR---MLGSVGK----  268 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~---~g~~vl~~s~---E~~~~~i~~R---~~a~~~~----  268 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++--....   ....|.|-.-   +++..+....   .++....    
T Consensus        21 ~~l~~vsl~i~~Ge~~~lvG~sGsGKSTL~~~l~Gll~~~~~~~~G~i~~~G~~i~~~~~~~~~~~r~~~i~~v~Q~~~~  100 (326)
T PRK11022         21 RAVDRISYSVKQGEVVGIVGESGSGKSVSSLAIMGLIDYPGRVMAEKLEFNGQDLQRISEKERRNLVGAEVAMIFQDPMT  100 (326)
T ss_pred             EEEeeeEEEECCCCEEEEECCCCChHHHHHHHHHcCCCCCCCCcceEEEECCEECCcCCHHHHHHHhCCCEEEEecCchh
Confidence            4677775569999999999999999999998887643100   1223444221   2333333221   1111111    


Q ss_pred             -CCcc-cc----c-----cCCCCc-chHHHHHHHHHHHhCCC-e-EEE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcC
Q psy2892         269 -LDQH-KL----R-----TGRLSS-DDWPRINDSIKKINKSQ-L-YID-ETPSLNVIELRANSRRLSRQCGKIGVIIIDY  333 (452)
Q Consensus       269 -i~~~-~i----~-----~g~l~~-~~~~~~~~a~~~l~~~~-l-~i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~  333 (452)
                       ++.. .+    .     ...... +..+++.++.+.+.=.. . +.. ....+|-.+....+-...-.. +++++|.|.
T Consensus       101 ~l~p~~~v~~~i~~~l~~~~~~~~~~~~~~~~~~L~~~gL~~~~~~l~~~p~~LSgGq~QRv~iArAL~~-~P~llilDE  179 (326)
T PRK11022        101 SLNPCYTVGFQIMEAIKVHQGGNKKTRRQRAIDLLNQVGIPDPASRLDVYPHQLSGGMSQRVMIAMAIAC-RPKLLIADE  179 (326)
T ss_pred             hcCCcCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHCCCCChHHHHhCCchhCCHHHHHHHHHHHHHHh-CCCEEEEeC
Confidence             0000 00    0     000111 11223333333321100 0 111 123456555443322222223 499999999


Q ss_pred             cchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         334 LQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       334 l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      -..--      +. .....+.+.|+.+.++.+.++|+++|--.                   .+.+.||.|+.|+.
T Consensus       180 Pts~L------D~-~~~~~il~lL~~l~~~~g~til~iTHdl~-------------------~~~~~adri~vm~~  229 (326)
T PRK11022        180 PTTAL------DV-TIQAQIIELLLELQQKENMALVLITHDLA-------------------LVAEAAHKIIVMYA  229 (326)
T ss_pred             CCCCC------CH-HHHHHHHHHHHHHHHhcCCEEEEEeCCHH-------------------HHHHhCCEEEEEEC
Confidence            54322      22 23357788888898889999999987432                   23456777777764

>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein

Probab=97.55  E-value=0.0021  Score=63.60  Aligned_cols=159  Identities=13%  Similarity=0.169  Sum_probs=80.1

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHHHHHHHhCC-------CC
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAMRMLGSVGK-------LD  270 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~R~~a~~~~-------i~  270 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++-...-..| .|. +..+    .++.   .|-++....       .+
T Consensus        18 ~~l~~vs~~i~~Ge~~~l~GpsGsGKSTLLr~iaGl~~p~~G-~I~-i~g~~~~~~~~~---~r~ig~v~Q~~~lfp~~t   92 (353)
T TIGR03265        18 TALKDISLSVKKGEFVCLLGPSGCGKTTLLRIIAGLERQTAG-TIY-QGGRDITRLPPQ---KRDYGIVFQSYALFPNLT   92 (353)
T ss_pred             EEEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHHCCCCCCce-EEE-ECCEECCCCCHH---HCCEEEEeCCcccCCCCc
Confidence            346665445889999999999999999999888764321112 222 2211    1111   111110000       00


Q ss_pred             cc-cc----ccCCCCcch-HHHHHHHHHHHhCCCeEEEc-CCCCCHHHHH--HHHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         271 QH-KL----RTGRLSSDD-WPRINDSIKKINKSQLYIDE-TPSLNVIELR--ANSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       271 ~~-~i----~~g~l~~~~-~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~--~~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                      .. .+    ....++..+ ..++.+..+.+.=.+ +.+. ...+|-.+-.  +.++.+..   +|+++++|.-..     
T Consensus        93 v~eNi~~~~~~~~~~~~~~~~~~~~~l~~l~L~~-~~~~~~~~LSgGq~QRvaLARaL~~---~P~llLLDEP~s-----  163 (353)
T TIGR03265        93 VADNIAYGLKNRGMGRAEVAERVAELLDLVGLPG-SERKYPGQLSGGQQQRVALARALAT---SPGLLLLDEPLS-----  163 (353)
T ss_pred             HHHHHHHHHHhcCCCHHHHHHHHHHHHHHcCCCc-hhhCChhhCCHHHHHHHHHHHHHhc---CCCEEEEcCCcc-----
Confidence            00 00    001122222 123333333332111 1121 2245544433  33444432   499999998421     


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCc
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNR  376 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r  376 (452)
                       +-+. .....+...|+++.++.++++|+++|--.
T Consensus       164 -~LD~-~~r~~l~~~L~~l~~~~~~tvi~vTHd~~  196 (353)
T TIGR03265       164 -ALDA-RVREHLRTEIRQLQRRLGVTTIMVTHDQE  196 (353)
T ss_pred             -cCCH-HHHHHHHHHHHHHHHhcCCEEEEEcCCHH
Confidence             1121 22346777888888899999999988544

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.

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.54  E-value=0.00048  Score=71.85  Aligned_cols=38  Identities=24%  Similarity=0.219  Sum_probs=32.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHh-CCCcEEEEeCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIE-NKLPVAIFSMEM  253 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~-~g~~vl~~s~E~  253 (452)
                      .++|.|++|+|||.|+..++..+... .|.+|+|++++.
T Consensus       316 pL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaee  354 (617)
T PRK14086        316 PLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEE  354 (617)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHH
Confidence            47999999999999999999887532 478999998764

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=97.54  E-value=0.0026  Score=58.38  Aligned_cols=59  Identities=19%  Similarity=0.216  Sum_probs=41.5

Q ss_pred             CccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhcee
Q psy2892         325 KIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVI  404 (452)
Q Consensus       325 ~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~v  404 (452)
                      +++++++|.-..      +-+. .....+.+.|+.++++.+.+||+++|-..                   .+++.+|.+
T Consensus       149 ~p~llllDEPt~------~LD~-~~~~~l~~~l~~~~~~~~~tiii~sH~~~-------------------~~~~~~d~i  202 (214)
T cd03297         149 QPELLLLDEPFS------ALDR-ALRLQLLPELKQIKKNLNIPVIFVTHDLS-------------------EAEYLADRI  202 (214)
T ss_pred             CCCEEEEcCCcc------cCCH-HHHHHHHHHHHHHHHHcCcEEEEEecCHH-------------------HHHHhcCEE
Confidence            499999998432      1222 23457778888888877899999887432                   356678999


Q ss_pred             EEEec
Q psy2892         405 LFIYR  409 (452)
Q Consensus       405 l~l~r  409 (452)
                      +.+.+
T Consensus       203 ~~l~~  207 (214)
T cd03297         203 VVMED  207 (214)
T ss_pred             EEEEC
Confidence            98864

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.

>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt

Probab=97.54  E-value=0.00053  Score=61.07  Aligned_cols=61  Identities=20%  Similarity=0.269  Sum_probs=46.9

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRL  279 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l  279 (452)
                      +++|+|..|+|||||..+++. . ...|.++.++-.|+....+=.+++.. .|++...+.+|.+
T Consensus         2 v~ii~GfLGsGKTTli~~ll~-~-~~~~~~~~vI~ne~g~~~iD~~~l~~-~~~~v~~l~~gci   62 (178)
T PF02492_consen    2 VIIITGFLGSGKTTLINHLLK-R-NRQGERVAVIVNEFGEVNIDAELLQE-DGVPVVELNNGCI   62 (178)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH-H-HTTTS-EEEEECSTTSTHHHHHHHHT-TT-EEEEECTTTE
T ss_pred             EEEEEcCCCCCHHHHHHHHHH-H-hcCCceeEEEEccccccccchhhhcc-cceEEEEecCCCc
Confidence            689999999999999999997 2 35789999999999977776666653 4666666766653

Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.

>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases

Probab=97.54  E-value=0.0015  Score=57.23  Aligned_cols=143  Identities=18%  Similarity=0.162  Sum_probs=79.4

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhC-CCcEEEEeCCC-CHHHHHHHHHHHhCC--CCccccccCCCCcchHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIEN-KLPVAIFSMEM-SGIQLAMRMLGSVGK--LDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~-g~~vl~~s~E~-~~~~i~~R~~a~~~~--i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      |.-++|.|++|+|||..+.-.+.+...+. ...++|+.-.. -..+...++......  +....+ .|..+...     .
T Consensus        14 ~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~~-~~~~~~~~-----~   87 (169)
T PF00270_consen   14 GKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSNTNVRVVLL-HGGQSISE-----D   87 (169)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEEE-STTSCHHH-----H
T ss_pred             CCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeecccccccccccccccccccccccccc-cccccccc-----c
Confidence            45688999999999999888777765433 13777776543 344555555444333  222222 23333210     1


Q ss_pred             HHHHHh-CCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcE
Q psy2892         290 SIKKIN-KSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPI  368 (452)
Q Consensus       290 a~~~l~-~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~v  368 (452)
                      ...++. +..+.+.     |++.+...+.......-++++||||.++.+...    .....+..+.+.++..   .++++
T Consensus        88 ~~~~~~~~~~ilv~-----T~~~l~~~~~~~~~~~~~~~~iViDE~h~l~~~----~~~~~~~~i~~~~~~~---~~~~~  155 (169)
T PF00270_consen   88 QREVLSNQADILVT-----TPEQLLDLISNGKINISRLSLIVIDEAHHLSDE----TFRAMLKSILRRLKRF---KNIQI  155 (169)
T ss_dssp             HHHHHHTTSSEEEE-----EHHHHHHHHHTTSSTGTTESEEEEETHHHHHHT----THHHHHHHHHHHSHTT---TTSEE
T ss_pred             cccccccccccccc-----CcchhhccccccccccccceeeccCcccccccc----cHHHHHHHHHHHhcCC---CCCcE
Confidence            112233 3466664     455666555431111114899999999998863    2333344444443322   26888


Q ss_pred             EEEecC
Q psy2892         369 LALSQL  374 (452)
Q Consensus       369 i~l~ql  374 (452)
                      ++++-.
T Consensus       156 i~~SAT  161 (169)
T PF00270_consen  156 ILLSAT  161 (169)
T ss_dssp             EEEESS
T ss_pred             EEEeeC
Confidence            887743

Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=97.54  E-value=0.0026  Score=59.53  Aligned_cols=36  Identities=19%  Similarity=0.396  Sum_probs=29.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        16 il~~~s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   51 (240)
T PRK09493         16 VLHNIDLNIDQGEVVVIIGPSGSGKSTLLRCINKLE   51 (240)
T ss_pred             EeeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            455554458999999999999999999998777643

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.54  E-value=0.0039  Score=66.84  Aligned_cols=117  Identities=12%  Similarity=0.232  Sum_probs=72.8

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC-CcEEEEeCCCCHHHHH--HHHHHHhCCCCccccccCCCCcchHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK-LPVAIFSMEMSGIQLA--MRMLGSVGKLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g-~~vl~~s~E~~~~~i~--~R~~a~~~~i~~~~i~~g~l~~~~~~~~  287 (452)
                      +.+|.++.+.|++|+||||.+..++.......| .+|.+++.+-..--..  -+..+...|++.....    ++   ..+
T Consensus       182 ~~~g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~----~~---~~l  254 (767)
T PRK14723        182 LAQGGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVK----DA---ADL  254 (767)
T ss_pred             cCCCeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccC----CH---HHH
Confidence            456889999999999999999999988755555 5899999885431112  2334455666654322    22   235


Q ss_pred             HHHHHHHhCCCeEEEcCCCCCH--HHHHHHHHHHHHHcC-CccEEEEcCc
Q psy2892         288 NDSIKKINKSQLYIDETPSLNV--IELRANSRRLSRQCG-KIGVIIIDYL  334 (452)
Q Consensus       288 ~~a~~~l~~~~l~i~~~~~~t~--~~i~~~i~~~~~~~~-~~~~vvID~l  334 (452)
                      .++++.+.+..+.+.|+++.+.  ..+...+..+..... .-.++|+|..
T Consensus       255 ~~al~~~~~~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt  304 (767)
T PRK14723        255 RFALAALGDKHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAA  304 (767)
T ss_pred             HHHHHHhcCCCEEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCC
Confidence            6677777777777777766442  234444444432221 1246666653

>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.54  E-value=0.0006  Score=65.38  Aligned_cols=159  Identities=12%  Similarity=0.210  Sum_probs=79.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC---CCHHHHHHHHHHHhCCC--------Cc
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME---MSGIQLAMRMLGSVGKL--------DQ  271 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E---~~~~~i~~R~~a~~~~i--------~~  271 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..-- ....|.|-.-+   .+..++. +.++....-        +.
T Consensus        22 ~l~~vsl~i~~Ge~~~i~G~nGaGKSTLl~~i~G~~~p-~~G~i~~~g~~i~~~~~~~~~-~~i~~~~q~~~~~~~~~tv   99 (279)
T PRK13635         22 ALKDVSFSVYEGEWVAIVGHNGSGKSTLAKLLNGLLLP-EAGTITVGGMVLSEETVWDVR-RQVGMVFQNPDNQFVGATV   99 (279)
T ss_pred             ceeeeEEEEcCCCEEEEECCCCCcHHHHHHHHhcCCCC-CCcEEEECCEECCcCcHHHHh-hheEEEEeCHHHhcccccH
Confidence            56666456899999999999999999999877654321 22234332211   1222221 111111000        00


Q ss_pred             c-ccccC----CCCcch-HHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhccCCC
Q psy2892         272 H-KLRTG----RLSSDD-WPRINDSIKKINKSQLYIDE-TPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSANSR  342 (452)
Q Consensus       272 ~-~i~~g----~l~~~~-~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~~~~  342 (452)
                      . .+.-+    .++..+ ..++..+...+. ..-++.. ...+|-.+.+.  .++.+.  . +|+++++|....      
T Consensus       100 ~enl~~~~~~~~~~~~~~~~~~~~~l~~~g-L~~~~~~~~~~LS~G~~qrv~laral~--~-~p~lllLDEPt~------  169 (279)
T PRK13635        100 QDDVAFGLENIGVPREEMVERVDQALRQVG-MEDFLNREPHRLSGGQKQRVAIAGVLA--L-QPDIIILDEATS------  169 (279)
T ss_pred             HHHHhhhHhhCCCCHHHHHHHHHHHHHHcC-ChhhhhCCcccCCHHHHHHHHHHHHHH--c-CCCEEEEeCCcc------
Confidence            0 00000    112211 122333332221 1111111 23455544433  233332  2 499999999532      


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         343 GENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       343 ~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                      +-+. .....+.+.|+.++++.+++||+++|-
T Consensus       170 gLD~-~~~~~l~~~l~~l~~~~~~tilivsH~  200 (279)
T PRK13635        170 MLDP-RGRREVLETVRQLKEQKGITVLSITHD  200 (279)
T ss_pred             cCCH-HHHHHHHHHHHHHHHcCCCEEEEEecC
Confidence            1222 234577778888888889999999874

>PRK13633 cobalt transporter ATP-binding subunit; Provisional

Probab=97.52  E-value=0.00072  Score=64.88  Aligned_cols=161  Identities=16%  Similarity=0.207  Sum_probs=79.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC-----HHHHHHHHHHHhCCCC-------
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS-----GIQLAMRMLGSVGKLD-------  270 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~-----~~~i~~R~~a~~~~i~-------  270 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..-...| .| ++..+.-     ..++ .+.++....-+       
T Consensus        25 vl~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G-~i-~i~g~~i~~~~~~~~~-~~~i~~v~q~~~~~~~~~  101 (280)
T PRK13633         25 ALDDVNLEVKKGEFLVILGRNGSGKSTIAKHMNALLIPSEG-KV-YVDGLDTSDEENLWDI-RNKAGMVFQNPDNQIVAT  101 (280)
T ss_pred             eeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc-eE-EECCEeccccccHHHH-hhheEEEecChhhhhccc
Confidence            56666556899999999999999999999887754321122 23 3322211     0111 11111110000       


Q ss_pred             -cc-ccccC----CCCcchH-HHHHHHHHHHhCCCeEEE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCC
Q psy2892         271 -QH-KLRTG----RLSSDDW-PRINDSIKKINKSQLYID-ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSR  342 (452)
Q Consensus       271 -~~-~i~~g----~l~~~~~-~~~~~a~~~l~~~~l~i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~  342 (452)
                       .. .+.-+    .++..++ .++..+++.+. ..-+.. ....+|-.+.+...-...--. +|+++++|.-..-     
T Consensus       102 ~v~~~l~~~~~~~~~~~~~~~~~~~~~l~~~g-L~~~~~~~~~~LS~G~~qrv~laral~~-~p~llllDEPt~g-----  174 (280)
T PRK13633        102 IVEEDVAFGPENLGIPPEEIRERVDESLKKVG-MYEYRRHAPHLLSGGQKQRVAIAGILAM-RPECIIFDEPTAM-----  174 (280)
T ss_pred             cHHHHHHhhHhhcCCCHHHHHHHHHHHHHHCC-CHhHhhCCcccCCHHHHHHHHHHHHHHc-CCCEEEEeCCccc-----
Confidence             00 00000    1122221 22333333321 111111 123566555443322222223 4999999985321     


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCC
Q psy2892         343 GENRATEISEISRNLKGLAKEINCPILALSQLN  375 (452)
Q Consensus       343 ~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~  375 (452)
                       -+ ......+...|+.++++.+.+||+++|--
T Consensus       175 -LD-~~~~~~l~~~l~~l~~~~g~tillvtH~~  205 (280)
T PRK13633        175 -LD-PSGRREVVNTIKELNKKYGITIILITHYM  205 (280)
T ss_pred             -CC-HHHHHHHHHHHHHHHHhcCCEEEEEecCh
Confidence             12 22334677788888887899999998743

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=97.52  E-value=0.0024  Score=57.69  Aligned_cols=160  Identities=14%  Similarity=0.136  Sum_probs=81.8

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH--HHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCC
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI--AIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLS  280 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~--a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~  280 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..  ....| .|.| ..+........+.+    ++-...  ...+.
T Consensus        24 ~l~~~~~~i~~Ge~~~l~G~nGsGKStLl~~i~Gl~~~~~~~G-~i~~-~g~~~~~~~~~~~i----~~~~q~--~~~~~   95 (194)
T cd03213          24 LLKNVSGKAKPGELTAIMGPSGAGKSTLLNALAGRRTGLGVSG-EVLI-NGRPLDKRSFRKII----GYVPQD--DILHP   95 (194)
T ss_pred             ceecceEEEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCCce-EEEE-CCEeCchHhhhheE----EEccCc--ccCCC
Confidence            455554458999999999999999999998887643  22223 3443 33321111111111    111110  01111


Q ss_pred             cchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHH
Q psy2892         281 SDDWPRINDSIKKINKSQLYIDETPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLK  358 (452)
Q Consensus       281 ~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk  358 (452)
                      ...   +.+.+....  .+.     .+|-.+.+.  .++.+.  . +++++++|.-..      +-+. .....+.+.|+
T Consensus        96 ~~t---~~~~i~~~~--~~~-----~LS~G~~qrv~laral~--~-~p~illlDEP~~------~LD~-~~~~~l~~~l~  155 (194)
T cd03213          96 TLT---VRETLMFAA--KLR-----GLSGGERKRVSIALELV--S-NPSLLFLDEPTS------GLDS-SSALQVMSLLR  155 (194)
T ss_pred             CCc---HHHHHHHHH--Hhc-----cCCHHHHHHHHHHHHHH--c-CCCEEEEeCCCc------CCCH-HHHHHHHHHHH
Confidence            101   111111000  011     455555433  233332  3 499999998532      1222 22345666677


Q ss_pred             HHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         359 GLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       359 ~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      .+.++ +.+||+++|--.                  ..+.+.+|.++.+..
T Consensus       156 ~~~~~-~~tiii~sh~~~------------------~~~~~~~d~v~~l~~  187 (194)
T cd03213         156 RLADT-GRTIICSIHQPS------------------SEIFELFDKLLLLSQ  187 (194)
T ss_pred             HHHhC-CCEEEEEecCch------------------HHHHHhcCEEEEEeC
Confidence            76554 888888887432                  124567899988854

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.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=97.52  E-value=0.0011  Score=60.28  Aligned_cols=36  Identities=22%  Similarity=0.342  Sum_probs=29.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..
T Consensus        13 ~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        13 ILDDLNLTIEKGKMYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             EEeceEEEEeCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            455554458899999999999999999998877543

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=97.52  E-value=0.0022  Score=62.26  Aligned_cols=36  Identities=14%  Similarity=0.224  Sum_probs=29.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        19 ~l~~vsl~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~   54 (303)
T TIGR01288        19 VVNDLSFTIARGECFGLLGPNGAGKSTIARMLLGMI   54 (303)
T ss_pred             EEcceeEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            456654458999999999999999999998877543

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=97.52  E-value=0.0022  Score=59.20  Aligned_cols=35  Identities=14%  Similarity=0.174  Sum_probs=28.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        15 ~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   49 (223)
T TIGR03740        15 AVNNISLTVPKNSVYGLLGPNGAGKSTLLKMITGI   49 (223)
T ss_pred             EEeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            34444335889999999999999999999877754

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=97.52  E-value=0.0018  Score=61.29  Aligned_cols=36  Identities=19%  Similarity=0.416  Sum_probs=29.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        21 il~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   56 (258)
T PRK11701         21 GCRDVSFDLYPGEVLGIVGESGSGKTTLLNALSARL   56 (258)
T ss_pred             eeeeeeEEEeCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            355554458999999999999999999998877644

>PF05729 NACHT: NACHT domain

Probab=97.52  E-value=0.00056  Score=59.55  Aligned_cols=26  Identities=23%  Similarity=0.556  Sum_probs=23.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHh
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIE  241 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~  241 (452)
                      +++|.|.||+|||+++..++...+..
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~~   27 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAEE   27 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhc
Confidence            68999999999999999999998754

>cd03299 ABC_ModC_like Archeal protein closely related to ModC

Probab=97.52  E-value=0.0027  Score=59.21  Aligned_cols=34  Identities=21%  Similarity=0.435  Sum_probs=28.0

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      |+.+.--+.+|+.+.|.|++|+|||||+.-++-.
T Consensus        15 l~~is~~i~~Ge~~~i~G~nG~GKStLl~~l~G~   48 (235)
T cd03299          15 LKNVSLEVERGDYFVILGPTGSGKSVLLETIAGF   48 (235)
T ss_pred             eeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            5555345889999999999999999999877654

ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. 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.

>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional

Probab=97.52  E-value=0.0015  Score=62.04  Aligned_cols=38  Identities=37%  Similarity=0.541  Sum_probs=30.7

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+.|+.+.--+.+|+.+.|.|++|+|||||+.-++--.
T Consensus        37 ~~il~~is~~i~~Ge~~~liG~NGsGKSTLlk~L~Gl~   74 (264)
T PRK13546         37 FFALDDISLKAYEGDVIGLVGINGSGKSTLSNIIGGSL   74 (264)
T ss_pred             eEEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            34566654458999999999999999999998887644

>PF13245 AAA_19: Part of AAA domain

Probab=97.52  E-value=0.00018  Score=54.22  Aligned_cols=42  Identities=19%  Similarity=0.194  Sum_probs=33.6

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHh---CCCcEEEEeCCCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIE---NKLPVAIFSMEMS  254 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~---~g~~vl~~s~E~~  254 (452)
                      .+.+.+|.|+||+|||+.+.+.+......   .+.+|++++.-..
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~   53 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRA   53 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHH
Confidence            35688999999999999999999888631   1678999977643

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.52  E-value=0.00073  Score=64.60  Aligned_cols=35  Identities=17%  Similarity=0.325  Sum_probs=29.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        20 ~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (274)
T PRK13647         20 ALKGLSLSIPEGSKTALLGPNGAGKSTLLLHLNGI   54 (274)
T ss_pred             eeeeEEEEEcCCCEEEEECCCCCcHHHHHHHHhcC
Confidence            56666456899999999999999999999888754

>PRK13768 GTPase; Provisional

Probab=97.52  E-value=0.0016  Score=61.50  Aligned_cols=39  Identities=18%  Similarity=0.354  Sum_probs=34.4

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG  255 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~  255 (452)
                      +++++|++|+||||++.+++..++. .|.+|+++.++-..
T Consensus         4 ~i~v~G~~G~GKTt~~~~~~~~l~~-~g~~v~~i~~D~~~   42 (253)
T PRK13768          4 IVFFLGTAGSGKTTLTKALSDWLEE-QGYDVAIVNLDPAV   42 (253)
T ss_pred             EEEEECCCCccHHHHHHHHHHHHHh-cCCceEEEECCCcc
Confidence            6889999999999999999999874 78999999887543

>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=97.51  E-value=0.0015  Score=59.55  Aligned_cols=176  Identities=14%  Similarity=0.135  Sum_probs=91.9

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC---CCHHH---HHHHHH------HHhCCCCc
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME---MSGIQ---LAMRML------GSVGKLDQ  271 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E---~~~~~---i~~R~~------a~~~~i~~  271 (452)
                      ||.+.--+++|+++.|.|++|+|||+++..++--..-.. ..|.++--+   ++.++   +..|+-      |..+.++.
T Consensus        24 ld~v~l~V~~Gei~~iiGgSGsGKStlLr~I~Gll~P~~-GeI~i~G~~i~~ls~~~~~~ir~r~GvlFQ~gALFssltV  102 (263)
T COG1127          24 LDGVDLDVPRGEILAILGGSGSGKSTLLRLILGLLRPDK-GEILIDGEDIPQLSEEELYEIRKRMGVLFQQGALFSSLTV  102 (263)
T ss_pred             ecCceeeecCCcEEEEECCCCcCHHHHHHHHhccCCCCC-CeEEEcCcchhccCHHHHHHHHhheeEEeeccccccccch
Confidence            455544689999999999999999999999887664323 335554332   23322   222220      01111111


Q ss_pred             ------cccccCCCCcchHHHHHHHHHHHh--CCCeE-EEc-CCCCCH--HHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         272 ------HKLRTGRLSSDDWPRINDSIKKIN--KSQLY-IDE-TPSLNV--IELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       272 ------~~i~~g~l~~~~~~~~~~a~~~l~--~~~l~-i~~-~~~~t~--~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                            .-.....+++...+.+.  ..++.  +.+=. .+- ...+|=  ..=.+.+|.+ . . +|++++.|--..   
T Consensus       103 ~eNVafplre~~~lp~~~i~~lv--~~KL~~VGL~~~~~~~~PsELSGGM~KRvaLARAi-a-l-dPell~~DEPts---  174 (263)
T COG1127         103 FENVAFPLREHTKLPESLIRELV--LMKLELVGLRGAAADLYPSELSGGMRKRVALARAI-A-L-DPELLFLDEPTS---  174 (263)
T ss_pred             hHhhheehHhhccCCHHHHHHHH--HHHHHhcCCChhhhhhCchhhcchHHHHHHHHHHH-h-c-CCCEEEecCCCC---
Confidence                  11122445655554432  22332  11111 111 112221  1111222222 2 2 499999998432   


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         340 NSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       340 ~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                         +.+.- ..+.+..-++.+-+.+++++++++|=--                   .+...||.+++|+.-.
T Consensus       175 ---GLDPI-~a~~~~~LI~~L~~~lg~T~i~VTHDl~-------------------s~~~i~Drv~~L~~gk  223 (263)
T COG1127         175 ---GLDPI-SAGVIDELIRELNDALGLTVIMVTHDLD-------------------SLLTIADRVAVLADGK  223 (263)
T ss_pred             ---CCCcc-hHHHHHHHHHHHHHhhCCEEEEEECChH-------------------HHHhhhceEEEEeCCE
Confidence               11111 2345555566666789999999987321                   3456789999997643

>PRK05642 DNA replication initiation factor; Validated

Probab=97.51  E-value=0.00099  Score=62.09  Aligned_cols=37  Identities=14%  Similarity=0.281  Sum_probs=31.1

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ..++|.|++|+|||.|+..++..+. +.|.+|+|++.+
T Consensus        46 ~~l~l~G~~G~GKTHLl~a~~~~~~-~~~~~v~y~~~~   82 (234)
T PRK05642         46 SLIYLWGKDGVGRSHLLQAACLRFE-QRGEPAVYLPLA   82 (234)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH-hCCCcEEEeeHH
Confidence            3578999999999999888877765 468999999875

>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein

Probab=97.50  E-value=0.0011  Score=62.65  Aligned_cols=36  Identities=19%  Similarity=0.292  Sum_probs=29.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..
T Consensus        16 il~~is~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   51 (256)
T TIGR03873        16 IVDGVDVTAPPGSLTGLLGPNGSGKSTLLRLLAGAL   51 (256)
T ss_pred             EEeeeeEEEcCCcEEEEECCCCCCHHHHHHHHcCCC
Confidence            455554458899999999999999999999887643

This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=97.50  E-value=0.0027  Score=63.02  Aligned_cols=35  Identities=26%  Similarity=0.505  Sum_probs=29.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--
T Consensus        20 ~l~~vsl~i~~Ge~~~llGpsGsGKSTLLr~iaGl   54 (362)
T TIGR03258        20 VLDDLSLEIEAGELLALIGKSGCGKTTLLRAIAGF   54 (362)
T ss_pred             EEeeeEEEECCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            46666445899999999999999999999888754

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.

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=97.50  E-value=0.0019  Score=62.66  Aligned_cols=35  Identities=23%  Similarity=0.251  Sum_probs=29.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--
T Consensus        17 ~l~~is~~i~~Gei~~l~G~NGaGKTTLl~~l~Gl   51 (301)
T TIGR03522        17 ALDEVSFEAQKGRIVGFLGPNGAGKSTTMKIITGY   51 (301)
T ss_pred             EEEEeEEEEeCCeEEEEECCCCCCHHHHHHHHhCC
Confidence            56666446899999999999999999999877654

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.

>TIGR02142 modC_ABC molybdenum ABC transporter, ATP-binding protein

Probab=97.50  E-value=0.0031  Score=62.56  Aligned_cols=28  Identities=25%  Similarity=0.261  Sum_probs=24.9

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      -+.+|+++.|.|++|+|||||+.-++-.
T Consensus        19 ~i~~Gei~~l~G~nGsGKSTLl~~iaGl   46 (354)
T TIGR02142        19 TLPGQGVTAIFGRSGSGKTTLIRLIAGL   46 (354)
T ss_pred             EECCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999999877654

This model represents the ATP-binding cassette (ABC) protein of the three subunit molybdate ABC transporter. The three proteins of this complex are homologous to proteins of the sulfate ABC transporter. Molybdenum may be used in nitrogenases of nitrogen-fixing bacteria and in molybdopterin cofactors. In some cases, molybdate may be transported by a sulfate transporter rather than by a specific molybdate transporter.

>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional

Probab=97.50  E-value=0.0026  Score=63.49  Aligned_cols=36  Identities=14%  Similarity=0.348  Sum_probs=29.2

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++--
T Consensus        33 ~~l~~vsl~i~~Ge~~~llGpsGsGKSTLLr~IaGl   68 (377)
T PRK11607         33 HAVDDVSLTIYKGEIFALLGASGCGKSTLLRMLAGF   68 (377)
T ss_pred             EEEeeeEEEEcCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            345655445889999999999999999999877753

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=97.49  E-value=0.0036  Score=61.21  Aligned_cols=39  Identities=21%  Similarity=0.416  Sum_probs=33.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      ++++.|.||+||||++..++..+....|.+|.+++.+.-
T Consensus         1 ~~~l~Gl~GaGKST~~~~l~~~l~~~~g~~v~~~~~Dd~   39 (340)
T TIGR03575         1 LCVLCGLPAAGKSTLARSLSATLRRERGWAVAVITYDDI   39 (340)
T ss_pred             CeEEECCCCCCHHHHHHHHHHHHHhccCCeEEEEccccc
Confidence            478999999999999999998886457899999988763

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.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=97.49  E-value=0.0053  Score=56.82  Aligned_cols=36  Identities=17%  Similarity=0.310  Sum_probs=29.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        15 ~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          15 ALKDISLDIPKGEITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             eeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            456654458899999999999999999998877654

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=97.49  E-value=0.003  Score=58.26  Aligned_cols=35  Identities=23%  Similarity=0.309  Sum_probs=28.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.-.+.+|+++.|.|++|+|||||+.-++-.
T Consensus        15 ~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (222)
T cd03224          15 ILFGVSLTVPEGEIVALLGRNGAGKTTLLKTIMGL   49 (222)
T ss_pred             EeeeeeEEEcCCeEEEEECCCCCCHHHHHHHHhCC
Confidence            45665446899999999999999999999866543

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). 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.

>PRK06893 DNA replication initiation factor; Validated

Probab=97.48  E-value=0.0011  Score=61.55  Aligned_cols=36  Identities=17%  Similarity=0.308  Sum_probs=32.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ..+|.|+||+|||.++..++..++. ++.+|.|++.+
T Consensus        41 ~l~l~G~~G~GKThL~~ai~~~~~~-~~~~~~y~~~~   76 (229)
T PRK06893         41 FFYIWGGKSSGKSHLLKAVSNHYLL-NQRTAIYIPLS   76 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHH-cCCCeEEeeHH
Confidence            6899999999999999999998864 68899999874

>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=97.48  E-value=0.0012  Score=58.78  Aligned_cols=155  Identities=13%  Similarity=0.181  Sum_probs=80.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH----HHHHHHHHHHhCCCCccccccCC
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG----IQLAMRMLGSVGKLDQHKLRTGR  278 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~----~~i~~R~~a~~~~i~~~~i~~g~  278 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-......| .|.+-.-+.+.    .....+.++.   +. ..  ...
T Consensus        15 ~l~~i~~~i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G-~i~~~g~~~~~~~~~~~~~~~~i~~---~~-q~--~~~   87 (178)
T cd03229          15 VLNDVSLNIEAGEIVALLGPSGSGKSTLLRCIAGLEEPDSG-SILIDGEDLTDLEDELPPLRRRIGM---VF-QD--FAL   87 (178)
T ss_pred             EEeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCce-EEEECCEEccccchhHHHHhhcEEE---Ee-cC--Ccc
Confidence            35555445889999999999999999999887754321122 34432211111    1111111110   00 00  000


Q ss_pred             CCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHH--HHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHH
Q psy2892         279 LSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRAN--SRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRN  356 (452)
Q Consensus       279 l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~--i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~  356 (452)
                      +.....   .   +     .+...    +|-.+.+..  ++.+.  . +++++++|.-..      +-+. .....+.+.
T Consensus        88 ~~~~t~---~---~-----~l~~~----lS~G~~qr~~la~al~--~-~p~llilDEP~~------~LD~-~~~~~l~~~  142 (178)
T cd03229          88 FPHLTV---L---E-----NIALG----LSGGQQQRVALARALA--M-DPDVLLLDEPTS------ALDP-ITRREVRAL  142 (178)
T ss_pred             CCCCCH---H---H-----heeec----CCHHHHHHHHHHHHHH--C-CCCEEEEeCCcc------cCCH-HHHHHHHHH
Confidence            000000   0   0     01110    444443332  33332  2 499999998532      1222 233467777


Q ss_pred             HHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEe
Q psy2892         357 LKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIY  408 (452)
Q Consensus       357 Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~  408 (452)
                      |+.++++.+.++|+++|-..                   .++..+|.++.+.
T Consensus       143 l~~~~~~~~~tiii~sH~~~-------------------~~~~~~d~i~~l~  175 (178)
T cd03229         143 LKSLQAQLGITVVLVTHDLD-------------------EAARLADRVVVLR  175 (178)
T ss_pred             HHHHHHhcCCEEEEEeCCHH-------------------HHHHhcCEEEEEe
Confidence            88888777889999988432                   2455678888874

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.

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=97.48  E-value=0.0017  Score=67.58  Aligned_cols=158  Identities=15%  Similarity=0.138  Sum_probs=78.8

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHHHHHHHhCCCCcc------
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAMRMLGSVGKLDQH------  272 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~R~~a~~~~i~~~------  272 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-...-..| .|. +..+    .+..... +.++....-+..      
T Consensus        18 il~~vsl~i~~Ge~~~liG~nGsGKSTLl~~l~G~~~p~~G-~i~-~~~~~~~~~~~~~~~-~~i~~~~q~~~~~~~~~~   94 (490)
T PRK10938         18 TLQLPSLTLNAGDSWAFVGANGSGKSALARALAGELPLLSG-ERQ-SQFSHITRLSFEQLQ-KLVSDEWQRNNTDMLSPG   94 (490)
T ss_pred             ecccceEEEcCCCEEEEECCCCCCHHHHHHHHhccCCCCCc-eEE-ECCcccccCCHHHHH-HHhceeccCcchhhcccc
Confidence            46666445899999999999999999999877764322223 343 3222    1222221 212211110000      


Q ss_pred             ------ccccC-CCCcchHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhccCCC
Q psy2892         273 ------KLRTG-RLSSDDWPRINDSIKKINKSQLYIDE-TPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSANSR  342 (452)
Q Consensus       273 ------~i~~g-~l~~~~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~~~~  342 (452)
                            .+... ....+..+++.++.+.+.-.. ..+. ...+|-.+-..  .++.+.  . +++++++|--..      
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~-~~~~~~~~LSgG~~qrv~la~al~--~-~p~lllLDEPt~------  164 (490)
T PRK10938         95 EDDTGRTTAEIIQDEVKDPARCEQLAQQFGITA-LLDRRFKYLSTGETRKTLLCQALM--S-EPDLLILDEPFD------  164 (490)
T ss_pred             hhhccccHHHhcccchhHHHHHHHHHHHcCCHh-hhhCCcccCCHHHHHHHHHHHHHH--c-CCCEEEEcCCcc------
Confidence                  00000 000112233334433331111 1111 23455444433  333332  3 499999998532      


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCC
Q psy2892         343 GENRATEISEISRNLKGLAKEINCPILALSQLN  375 (452)
Q Consensus       343 ~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~  375 (452)
                      +-+ ......+.+.|+.++++ +.+||+++|--
T Consensus       165 ~LD-~~~~~~l~~~l~~~~~~-g~tvii~tH~~  195 (490)
T PRK10938        165 GLD-VASRQQLAELLASLHQS-GITLVLVLNRF  195 (490)
T ss_pred             cCC-HHHHHHHHHHHHHHHhc-CCeEEEEeCCH
Confidence            112 23345677778887765 88888888753

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=97.48  E-value=0.0026  Score=59.51  Aligned_cols=36  Identities=14%  Similarity=0.268  Sum_probs=29.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        18 ~l~~~sl~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   53 (241)
T PRK10895         18 VVEDVSLTVNSGEIVGLLGPNGAGKTTTFYMVVGIV   53 (241)
T ss_pred             EEeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            455554458999999999999999999998887654

>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors

Probab=97.47  E-value=0.0063  Score=56.30  Aligned_cols=36  Identities=19%  Similarity=0.404  Sum_probs=29.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..
T Consensus        22 ~l~~vsl~i~~Ge~~~l~G~nGsGKSTLlk~l~G~~   57 (226)
T cd03234          22 ILNDVSLHVESGQVMAILGSSGSGKTTLLDAISGRV   57 (226)
T ss_pred             cccCceEEEcCCeEEEEECCCCCCHHHHHHHHhCcc
Confidence            455554458999999999999999999998777554

The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in

>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.47  E-value=0.005  Score=55.15  Aligned_cols=185  Identities=18%  Similarity=0.180  Sum_probs=98.2

Q ss_pred             cCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC---CCCHHHHHHHHHHH--hCC--CCc
Q psy2892         199 TGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM---EMSGIQLAMRMLGS--VGK--LDQ  271 (452)
Q Consensus       199 tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~---E~~~~~i~~R~~a~--~~~--i~~  271 (452)
                      .|=.-||.+---+++|++..|.||.|+|||||+..+.-...- .+..|.|+..   +.++.++..+..-.  .+.  +++
T Consensus        12 ~Gr~ll~~vsl~~~pGev~ailGPNGAGKSTlLk~LsGel~p-~~G~v~~~g~~l~~~~~~~lA~~raVlpQ~s~laFpF   90 (259)
T COG4559          12 AGRRLLDGVSLDLRPGEVLAILGPNGAGKSTLLKALSGELSP-DSGEVTLNGVPLNSWPPEELARHRAVLPQNSSLAFPF   90 (259)
T ss_pred             ecceeccCcceeccCCcEEEEECCCCccHHHHHHHhhCccCC-CCCeEeeCCcChhhCCHHHHHHHhhhcccCcccccce
Confidence            344556666445899999999999999999999999888753 3446777643   34555555443211  011  111


Q ss_pred             --ccc------c--cCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCH-HHHHH-HHHHHHHHcC---CccEEEEcCcch
Q psy2892         272 --HKL------R--TGRLSSDDWPRINDSIKKINKSQLYIDETPSLNV-IELRA-NSRRLSRQCG---KIGVIIIDYLQL  336 (452)
Q Consensus       272 --~~i------~--~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~-~~i~~-~i~~~~~~~~---~~~~vvID~l~~  336 (452)
                        ..+      .  .|.-+.++-+-...+.....-..+-=.+...+|= ++-+- ..|-+..-.+   ...+.++|.-+.
T Consensus        91 tv~eVV~mGr~p~~~g~~~~e~~~i~~~ala~~d~~~la~R~y~~LSGGEqQRVqlARvLaQl~~~v~~~r~L~LDEPts  170 (259)
T COG4559          91 TVQEVVQMGRIPHRSGREPEEDERIAAQALAATDLSGLAGRDYRTLSGGEQQRVQLARVLAQLWPPVPSGRWLFLDEPTS  170 (259)
T ss_pred             EHHHHHHhcccccccCCCchhhHHHHHHHHHHcChhhhhccchhhcCchHHHHHHHHHHHHHccCCCCCCceEEecCCcc
Confidence              111      1  1222223322222333222111111111111221 22222 2233333332   235889987432


Q ss_pred             hccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         337 MSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       337 i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                            ..+-.. ...+++..++||++-+-.+.++|-+|-                    -.++||.+++|++-.
T Consensus       171 ------aLDi~H-Q~~tl~laR~la~~g~~V~~VLHDLNL--------------------AA~YaDrivll~~Gr  218 (259)
T COG4559         171 ------ALDIAH-QHHTLRLARQLAREGGAVLAVLHDLNL--------------------AAQYADRIVLLHQGR  218 (259)
T ss_pred             ------ccchHH-HHHHHHHHHHHHhcCCcEEEEEccchH--------------------HHHhhheeeeeeCCe
Confidence                  122222 236788999999987655666666663                    356899999998754

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=97.47  E-value=0.0024  Score=58.30  Aligned_cols=37  Identities=27%  Similarity=0.222  Sum_probs=29.8

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +.|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        14 ~~l~~~~~~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~   50 (208)
T cd03268          14 RVLDDISLHVKKGEIYGFLGPNGAGKTTTMKIILGLI   50 (208)
T ss_pred             EeEeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            3455554458899999999999999999998887543

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.47  E-value=0.0004  Score=66.59  Aligned_cols=158  Identities=14%  Similarity=0.255  Sum_probs=81.6

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHHHHHHHhCCCCc-----cc
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAMRMLGSVGKLDQ-----HK  273 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~R~~a~~~~i~~-----~~  273 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--.--..| .| ++..+    .+..++. +.++....-+.     ..
T Consensus        22 ~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G-~i-~~~g~~i~~~~~~~~~-~~i~~v~q~~~~~~~~~t   98 (279)
T PRK13650         22 TLNDVSFHVKQGEWLSIIGHNGSGKSTTVRLIDGLLEAESG-QI-IIDGDLLTEENVWDIR-HKIGMVFQNPDNQFVGAT   98 (279)
T ss_pred             eeeeeEEEEeCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc-EE-EECCEECCcCcHHHHH-hhceEEEcChHHhccccc
Confidence            56776556899999999999999999999977754321122 23 33222    1222222 11111111000     00


Q ss_pred             ----cccC----CCCcchH-HHHHHHHHHHhCCCeEEEc-CCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         274 ----LRTG----RLSSDDW-PRINDSIKKINKSQLYIDE-TPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       274 ----i~~g----~l~~~~~-~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                          +.-+    .++..+. .++.++.+.+. ..-+... ...+|-.+.+.  .++.+.  . +++++++|.-..-    
T Consensus        99 v~eni~~~~~~~~~~~~~~~~~~~~~l~~~g-L~~~~~~~~~~LSgGq~qrv~lAral~--~-~p~lLlLDEPt~~----  170 (279)
T PRK13650         99 VEDDVAFGLENKGIPHEEMKERVNEALELVG-MQDFKEREPARLSGGQKQRVAIAGAVA--M-RPKIIILDEATSM----  170 (279)
T ss_pred             HHHHHHhhHHhCCCCHHHHHHHHHHHHHHCC-CHhHhhCCcccCCHHHHHHHHHHHHHH--c-CCCEEEEECCccc----
Confidence                0000    1222221 22333333321 1101111 23556555433  233332  2 4999999995431    


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                        -+. .....+.+.|+.++++.|.+||+++|-
T Consensus       171 --LD~-~~~~~l~~~l~~l~~~~g~tilivtH~  200 (279)
T PRK13650        171 --LDP-EGRLELIKTIKGIRDDYQMTVISITHD  200 (279)
T ss_pred             --CCH-HHHHHHHHHHHHHHHhcCCEEEEEecC
Confidence              222 234577888888988889999999874

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=97.47  E-value=0.0023  Score=60.37  Aligned_cols=65  Identities=17%  Similarity=0.115  Sum_probs=51.0

Q ss_pred             cccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHH
Q psy2892         195 TGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAM  260 (452)
Q Consensus       195 ~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~  260 (452)
                      ..+.||+..+|-+. .+-+|+=..|.|++|+|||+++.+++.++..+....++|....+..+++.+
T Consensus        51 e~L~TGIr~ID~l~-pig~GQr~~If~~~G~GKTtLa~~i~~~i~~~~~~~~V~~~iGer~~Ev~e  115 (274)
T cd01133          51 EILETGIKVIDLLA-PYAKGGKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVGERTREGND  115 (274)
T ss_pred             cccccCceeeeccC-CcccCCEEEEecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCcHHHHH
Confidence            46899999999864 588999999999999999999999999987543344666655555555443

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.

>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=97.47  E-value=0.00039  Score=62.94  Aligned_cols=154  Identities=18%  Similarity=0.221  Sum_probs=83.0

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCC---------
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLS---------  280 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~---------  280 (452)
                      -+.+|+++.+.|+.|+||||++..++-..-. ....|.|---+.+...-..|.-.-++-++..+-.-..++         
T Consensus        25 ~v~~Geiv~llG~NGaGKTTlLkti~Gl~~~-~~G~I~~~G~dit~~p~~~r~r~Gi~~VPegR~iF~~LTVeENL~~g~  103 (237)
T COG0410          25 EVERGEIVALLGRNGAGKTTLLKTIMGLVRP-RSGRIIFDGEDITGLPPHERARLGIAYVPEGRRIFPRLTVEENLLLGA  103 (237)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCC-CCeeEEECCeecCCCCHHHHHhCCeEeCcccccchhhCcHHHHHhhhh
Confidence            4789999999999999999999988865522 223344433332222222332222222222110000111         


Q ss_pred             ---------cchHHHHHHHHHHHhCCCeEEEcCCCCC--HHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHH
Q psy2892         281 ---------SDDWPRINDSIKKINKSQLYIDETPSLN--VIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATE  349 (452)
Q Consensus       281 ---------~~~~~~~~~a~~~l~~~~l~i~~~~~~t--~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~  349 (452)
                               ..+.+.+.+.+-.|++..-  .....+|  -.+..+..+.+..   +|++.++|--+.=-.       -.-
T Consensus       104 ~~~~~~~~~~~~~e~v~~lFP~Lker~~--~~aG~LSGGEQQMLAiaRALm~---~PklLLLDEPs~GLa-------P~i  171 (237)
T COG0410         104 YARRDKEAQERDLEEVYELFPRLKERRN--QRAGTLSGGEQQMLAIARALMS---RPKLLLLDEPSEGLA-------PKI  171 (237)
T ss_pred             hcccccccccccHHHHHHHChhHHHHhc--CcccCCChHHHHHHHHHHHHhc---CCCEEEecCCccCcC-------HHH
Confidence                     0012222222222221100  0012233  2456666666654   599999998543111       134


Q ss_pred             HHHHHHHHHHHHHHhCCcEEEEecCCc
Q psy2892         350 ISEISRNLKGLAKEINCPILALSQLNR  376 (452)
Q Consensus       350 ~~~i~~~Lk~lA~~~~i~vi~l~ql~r  376 (452)
                      +.++.+.++.+.++.+++|+++-|--+
T Consensus       172 v~~I~~~i~~l~~~~g~tIlLVEQn~~  198 (237)
T COG0410         172 VEEIFEAIKELRKEGGMTILLVEQNAR  198 (237)
T ss_pred             HHHHHHHHHHHHHcCCcEEEEEeccHH
Confidence            678889999999998999999987543

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=97.46  E-value=0.0014  Score=54.74  Aligned_cols=39  Identities=15%  Similarity=0.034  Sum_probs=30.6

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHh-CCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIE-NKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~-~g~~vl~~s~E~~  254 (452)
                      -++|.|+||+|||..+...+...... .+.++++++.-..
T Consensus         2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~   41 (144)
T cd00046           2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRE   41 (144)
T ss_pred             CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHH
Confidence            37899999999999999999988643 3467888865443

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=97.46  E-value=0.0013  Score=65.36  Aligned_cols=135  Identities=17%  Similarity=0.238  Sum_probs=76.4

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHH--HHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHI--AIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK  292 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~--a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~  292 (452)
                      .+++|.|.||+|||.+|++++..+  . ..+..++|++.--+........++...   ..     .............+.
T Consensus         2 ~v~~I~G~aGTGKTvla~~l~~~l~~~-~~~~~~~~l~~n~~l~~~l~~~l~~~~---~~-----~~~~~~~~~~~~~i~   72 (352)
T PF09848_consen    2 QVILITGGAGTGKTVLALNLAKELQNS-EEGKKVLYLCGNHPLRNKLREQLAKKY---NP-----KLKKSDFRKPTSFIN   72 (352)
T ss_pred             eEEEEEecCCcCHHHHHHHHHHHhhcc-ccCCceEEEEecchHHHHHHHHHhhhc---cc-----chhhhhhhhhHHHHh
Confidence            489999999999999999999998  4 357889998887777665555554322   00     000111112222222


Q ss_pred             HHh-------CCCeEEEcCC-CCCHH-------HHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHH
Q psy2892         293 KIN-------KSQLYIDETP-SLNVI-------ELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNL  357 (452)
Q Consensus       293 ~l~-------~~~l~i~~~~-~~t~~-------~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~L  357 (452)
                      .+.       ...+.|.|+. .+.-.       .-...+..+.... ++-++++|.-|.+.+...  ...       ..+
T Consensus        73 ~~~~~~~~~~~~DviivDEAqrl~~~~~~~~~~~~~~~L~~i~~~~-kv~v~f~D~~Q~i~~~e~--~~~-------~~l  142 (352)
T PF09848_consen   73 NYSESDKEKNKYDVIIVDEAQRLRTKGDQYNNFSEPNQLDEIIKRA-KVVVFFYDENQSIRPSEI--GTL-------ENL  142 (352)
T ss_pred             hcccccccCCcCCEEEEehhHhhhhccccccccccHHHHHHHHhcC-CEEEEEEccccEeecccC--CCH-------HHH
Confidence            222       2345554432 22110       0112333343333 488889999999987541  111       126


Q ss_pred             HHHHHHhCCcE
Q psy2892         358 KGLAKEINCPI  368 (452)
Q Consensus       358 k~lA~~~~i~v  368 (452)
                      +.++.+.++.+
T Consensus       143 ~~~~~~~~~~~  153 (352)
T PF09848_consen  143 EEIAENLGIEV  153 (352)
T ss_pred             HHHHHhcCCcc
Confidence            66666766664

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>KOG0744|consensus

Probab=97.44  E-value=0.00053  Score=64.83  Aligned_cols=124  Identities=22%  Similarity=0.323  Sum_probs=77.3

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEE-EeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAI-FSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKK  293 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~-~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~  293 (452)
                      .++++.||||.|||++|..+|-+...+...+=.| .-.|.+...+..++.+          .+|                
T Consensus       178 RliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinshsLFSKWFs----------ESg----------------  231 (423)
T KOG0744|consen  178 RLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSHSLFSKWFS----------ESG----------------  231 (423)
T ss_pred             eEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehhHHHHHHHh----------hhh----------------
Confidence            4899999999999999999998886542111000 1245555555555543          112                


Q ss_pred             HhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC-----CC--CCHHHHHHHHHHHHHHHHHHhCC
Q psy2892         294 INKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS-----RG--ENRATEISEISRNLKGLAKEINC  366 (452)
Q Consensus       294 l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~-----~~--~~~~~~~~~i~~~Lk~lA~~~~i  366 (452)
                                   -.+..+...|..+....|..-+|.||..-.+....     +.  .+.-..+..+..+|.++-+..|+
T Consensus       232 -------------KlV~kmF~kI~ELv~d~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~~~Nv  298 (423)
T KOG0744|consen  232 -------------KLVAKMFQKIQELVEDRGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKRYPNV  298 (423)
T ss_pred             -------------hHHHHHHHHHHHHHhCCCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhccCCCE
Confidence                         12344555555665555556778888877655321     11  22233456777888888888899


Q ss_pred             cEEEEecCCcc
Q psy2892         367 PILALSQLNRS  377 (452)
Q Consensus       367 ~vi~l~ql~r~  377 (452)
                      -+++++-+...
T Consensus       299 liL~TSNl~~s  309 (423)
T KOG0744|consen  299 LILATSNLTDS  309 (423)
T ss_pred             EEEeccchHHH
Confidence            99888876543

>KOG0780|consensus

Probab=97.44  E-value=0.032  Score=54.36  Aligned_cols=43  Identities=16%  Similarity=0.187  Sum_probs=37.6

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      +..+-.++++.|-.|+||||.|..+|.+.- ++|++|+.++.+-
T Consensus        97 ~K~kpsVimfVGLqG~GKTTtc~KlA~y~k-kkG~K~~LvcaDT  139 (483)
T KOG0780|consen   97 KKGKPSVIMFVGLQGSGKTTTCTKLAYYYK-KKGYKVALVCADT  139 (483)
T ss_pred             ccCCCcEEEEEeccCCCcceeHHHHHHHHH-hcCCceeEEeecc
Confidence            455667999999999999999999999984 6899999998874

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=97.44  E-value=0.0015  Score=60.63  Aligned_cols=36  Identities=22%  Similarity=0.346  Sum_probs=29.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..
T Consensus        15 ~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (230)
T TIGR03410        15 ILRGVSLEVPKGEVTCVLGRNGVGKTTLLKTLMGLL   50 (230)
T ss_pred             EecceeeEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            466664568999999999999999999998777543

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.

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=97.44  E-value=0.0005  Score=67.15  Aligned_cols=143  Identities=20%  Similarity=0.332  Sum_probs=81.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCC--------cEE--------EEeC----CCCHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKL--------PVA--------IFSM----EMSGIQLAMRM  262 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~--------~vl--------~~s~----E~~~~~i~~R~  262 (452)
                      .|+.+.--++||+++.|.|.+|+|||++..-++-.+- ..+.        .|-        .+..    +.....+.+.+
T Consensus       398 vlr~vNL~ikpGdvvaVvGqSGaGKttllRmi~G~~~-~~~ee~y~p~sg~v~vp~nt~~a~iPge~Ep~f~~~tilehl  476 (593)
T COG2401         398 VLRNLNLEIKPGDVVAVVGQSGAGKTTLLRMILGAQK-GRGEEKYRPDSGKVEVPKNTVSALIPGEYEPEFGEVTILEHL  476 (593)
T ss_pred             eeeceeeEecCCCeEEEEecCCCCcchHHHHHHHHhh-cccccccCCCCCceeccccchhhccCcccccccCchhHHHHH
Confidence            4455544589999999999999999999988776653 2222        010        0111    11111122222


Q ss_pred             HHHhCCCCccccccCCCCcchHHHHHHHHHHHhC-----CCeEEEcCCCCCHHH-HHHHHHHHHHHcCCccEEEEcCcch
Q psy2892         263 LGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINK-----SQLYIDETPSLNVIE-LRANSRRLSRQCGKIGVIIIDYLQL  336 (452)
Q Consensus       263 ~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~-----~~l~i~~~~~~t~~~-i~~~i~~~~~~~~~~~~vvID~l~~  336 (452)
                      .+..          |+        +..|.+-|+.     .-+|-.....++.++ -+..+.++.++  ++.+.++|-+..
T Consensus       477 ~s~t----------GD--------~~~AveILnraGlsDAvlyRr~f~ELStGQKeR~KLAkllae--rpn~~~iDEF~A  536 (593)
T COG2401         477 RSKT----------GD--------LNAAVEILNRAGLSDAVLYRRKFSELSTGQKERAKLAKLLAE--RPNVLLIDEFAA  536 (593)
T ss_pred             hhcc----------Cc--------hhHHHHHHHhhccchhhhhhccHhhcCcchHHHHHHHHHHhc--CCCcEEhhhhhh
Confidence            1110          11        1122222321     123333333444333 34455555554  589999999866


Q ss_pred             hccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEec
Q psy2892         337 MSANSRGENRATEISEISRNLKGLAKEINCPILALSQ  373 (452)
Q Consensus       337 i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~q  373 (452)
                      ....      - ....+++.+..+|++.++|++++.|
T Consensus       537 hLD~------~-TA~rVArkiselaRe~giTlivvTh  566 (593)
T COG2401         537 HLDE------L-TAVRVARKISELAREAGITLIVVTH  566 (593)
T ss_pred             hcCH------H-HHHHHHHHHHHHHHHhCCeEEEEec
Confidence            5432      1 2347889999999999999999876

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.44  E-value=0.0012  Score=63.02  Aligned_cols=36  Identities=14%  Similarity=0.217  Sum_probs=29.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        24 ~l~~isl~i~~Ge~~~I~G~nGsGKSTLl~~i~Gl~   59 (269)
T PRK13648         24 TLKDVSFNIPKGQWTSIVGHNGSGKSTIAKLMIGIE   59 (269)
T ss_pred             ceeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            455554458999999999999999999998777543

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=97.44  E-value=0.0039  Score=57.66  Aligned_cols=173  Identities=14%  Similarity=0.193  Sum_probs=87.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHHHHHHHhCCCCc---cccc
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAMRMLGSVGKLDQ---HKLR  275 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~R~~a~~~~i~~---~~i~  275 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..-...| .|. +..+    .+.... .+.++....-+.   ..+.
T Consensus        22 il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G-~i~-~~g~~~~~~~~~~~-~~~i~~~~q~~~l~~~tv~   98 (225)
T PRK10247         22 ILNNISFSLRAGEFKLITGPSGCGKSTLLKIVASLISPTSG-TLL-FEGEDISTLKPEIY-RQQVSYCAQTPTLFGDTVY   98 (225)
T ss_pred             eeeccEEEEcCCCEEEEECCCCCCHHHHHHHHhcccCCCCC-eEE-ECCEEcCcCCHHHH-HhccEEEecccccccccHH
Confidence            45555445899999999999999999999877654311122 233 2221    122221 111111111000   0000


Q ss_pred             c----C-CC--CcchHHHHHHHHHHHhCCCeE---EE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCC
Q psy2892         276 T----G-RL--SSDDWPRINDSIKKINKSQLY---ID-ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGE  344 (452)
Q Consensus       276 ~----g-~l--~~~~~~~~~~a~~~l~~~~l~---i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~  344 (452)
                      +    + .+  ...+..++.+..+.+   .+.   .. ....+|-.+.+...-...--. +++++++|.-..      +-
T Consensus        99 enl~~~~~~~~~~~~~~~~~~~l~~~---~l~~~~~~~~~~~LS~G~~qrv~laral~~-~p~llllDEPt~------~L  168 (225)
T PRK10247         99 DNLIFPWQIRNQQPDPAIFLDDLERF---ALPDTILTKNIAELSGGEKQRISLIRNLQF-MPKVLLLDEITS------AL  168 (225)
T ss_pred             HHHHhHHhhcCCChHHHHHHHHHHHc---CCChHHhcCCcccCCHHHHHHHHHHHHHhc-CCCEEEEeCCcc------cC
Confidence            0    0 00  001111222333322   221   11 123455555443322222223 499999998532      12


Q ss_pred             CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         345 NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       345 ~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      +. .....+.+.|+.++++.+.+||+++|-..                   .++ .||.++.+.+
T Consensus       169 D~-~~~~~l~~~l~~~~~~~~~tvii~sh~~~-------------------~~~-~~d~i~~l~~  212 (225)
T PRK10247        169 DE-SNKHNVNEIIHRYVREQNIAVLWVTHDKD-------------------EIN-HADKVITLQP  212 (225)
T ss_pred             CH-HHHHHHHHHHHHHHHhcCCEEEEEECChH-------------------HHH-hCCEEEEEec
Confidence            22 23456777888888888999999987432                   233 4899999854

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=97.43  E-value=0.0029  Score=59.65  Aligned_cols=36  Identities=17%  Similarity=0.374  Sum_probs=29.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        18 ~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   53 (253)
T TIGR02323        18 GCRDVSFDLYPGEVLGIVGESGSGKSTLLGCLAGRL   53 (253)
T ss_pred             EeecceEEEeCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            355554458999999999999999999998777654

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional

Probab=97.43  E-value=0.0019  Score=61.07  Aligned_cols=35  Identities=17%  Similarity=0.308  Sum_probs=28.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        17 il~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   51 (255)
T PRK11231         17 ILNDLSLSLPTGKITALIGPNGCGKSTLLKCFARL   51 (255)
T ss_pred             EEeeeeeEEcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            34554345889999999999999999999888754

>PRK13639 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.43  E-value=0.0012  Score=63.09  Aligned_cols=35  Identities=20%  Similarity=0.364  Sum_probs=29.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        17 ~l~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl   51 (275)
T PRK13639         17 ALKGINFKAEKGEMVALLGPNGAGKSTLFLHFNGI   51 (275)
T ss_pred             eeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            46666556899999999999999999999877653

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=97.43  E-value=0.0035  Score=57.75  Aligned_cols=36  Identities=17%  Similarity=0.304  Sum_probs=29.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--.
T Consensus        17 il~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          17 AVDDLSLNVYKGEIFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             eecceEEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            455554458999999999999999999988777543

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.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.42  E-value=0.00093  Score=57.05  Aligned_cols=141  Identities=24%  Similarity=0.354  Sum_probs=73.6

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhCCCcEE-EEeCCCCHHHHHHHHHHHhCCCCccccccCC---CCcchHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIENKLPVA-IFSMEMSGIQLAMRMLGSVGKLDQHKLRTGR---LSSDDWPRINDSIK  292 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl-~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~---l~~~~~~~~~~a~~  292 (452)
                      +.|+|+||+||||+++.++-.+. +.|.+|. |++-|....  -.     ..|...-.+.+|.   |......+      
T Consensus         8 i~ITG~PGvGKtTl~~ki~e~L~-~~g~kvgGf~t~EVR~g--Gk-----R~GF~Ivdl~tg~~~~la~~~~~~------   73 (179)
T COG1618           8 IFITGRPGVGKTTLVLKIAEKLR-EKGYKVGGFITPEVREG--GK-----RIGFKIVDLATGEEGILARVGFSR------   73 (179)
T ss_pred             EEEeCCCCccHHHHHHHHHHHHH-hcCceeeeEEeeeeecC--Ce-----EeeeEEEEccCCceEEEEEcCCCC------
Confidence            68999999999999999998875 4677765 566665422  11     1333333333331   11111000      


Q ss_pred             HHhCCCeEEEcCCCCCHHHHHHH-HHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEE
Q psy2892         293 KINKSQLYIDETPSLNVIELRAN-SRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL  371 (452)
Q Consensus       293 ~l~~~~l~i~~~~~~t~~~i~~~-i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l  371 (452)
                       .+=..+.+      +++.+... +..+.+.....|+||||-+..|....         ..+.+.+.... +.+-|+|++
T Consensus        74 -~rvGkY~V------~v~~le~i~~~al~rA~~~aDvIIIDEIGpMElks---------~~f~~~ve~vl-~~~kpliat  136 (179)
T COG1618          74 -PRVGKYGV------NVEGLEEIAIPALRRALEEADVIIIDEIGPMELKS---------KKFREAVEEVL-KSGKPLIAT  136 (179)
T ss_pred             -cccceEEe------eHHHHHHHhHHHHHHHhhcCCEEEEecccchhhcc---------HHHHHHHHHHh-cCCCcEEEE
Confidence             00011222      23333321 22233222236999999999887643         12233333333 356778877


Q ss_pred             ecCCcchhhcCCCCCCchhhhhhc
Q psy2892         372 SQLNRSLEQRQNKRPIMSDLRESG  395 (452)
Q Consensus       372 ~ql~r~~~~r~~~~p~l~dl~~S~  395 (452)
                      -|-+-       ..|.+..++.-+
T Consensus       137 lHrrs-------r~P~v~~ik~~~  153 (179)
T COG1618         137 LHRRS-------RHPLVQRIKKLG  153 (179)
T ss_pred             Eeccc-------CChHHHHhhhcC
Confidence            77431       236566655433

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=97.42  E-value=0.0032  Score=62.78  Aligned_cols=159  Identities=13%  Similarity=0.234  Sum_probs=79.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHHHHHHHhC-------CCCc
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAMRMLGSVG-------KLDQ  271 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~R~~a~~~-------~i~~  271 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--.--..| .| ++..+    .++.   .|-++...       +.+.
T Consensus        29 ~l~~vsl~i~~Ge~~~LlGpsGsGKSTLLr~IaGl~~p~~G-~I-~~~g~~i~~~~~~---~r~ig~vfQ~~~lfp~ltv  103 (375)
T PRK09452         29 VISNLDLTINNGEFLTLLGPSGCGKTTVLRLIAGFETPDSG-RI-MLDGQDITHVPAE---NRHVNTVFQSYALFPHMTV  103 (375)
T ss_pred             EEeeeEEEEeCCCEEEEECCCCCcHHHHHHHHhCCCCCCce-EE-EECCEECCCCCHH---HCCEEEEecCcccCCCCCH
Confidence            45655445899999999999999999999877753321112 12 22221    1111   11111000       0000


Q ss_pred             c-cc----ccCCCCcchH-HHHHHHHHHHhCCCeEEEc-CCCCCHHHHH--HHHHHHHHHcCCccEEEEcCcchhccCCC
Q psy2892         272 H-KL----RTGRLSSDDW-PRINDSIKKINKSQLYIDE-TPSLNVIELR--ANSRRLSRQCGKIGVIIIDYLQLMSANSR  342 (452)
Q Consensus       272 ~-~i----~~g~l~~~~~-~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~--~~i~~~~~~~~~~~~vvID~l~~i~~~~~  342 (452)
                      . .+    .....+..++ +++.+..+.+.-.. +.+. ...+|-.+-+  +.++.+..   +|+++++|.-..      
T Consensus       104 ~eNi~~~l~~~~~~~~~~~~~~~~~l~~~~l~~-~~~~~p~~LSgGq~QRVaLARaL~~---~P~llLLDEP~s------  173 (375)
T PRK09452        104 FENVAFGLRMQKTPAAEITPRVMEALRMVQLEE-FAQRKPHQLSGGQQQRVAIARAVVN---KPKVLLLDESLS------  173 (375)
T ss_pred             HHHHHHHHhhcCCCHHHHHHHHHHHHHHcCCch-hhhCChhhCCHHHHHHHHHHHHHhc---CCCEEEEeCCCC------
Confidence            0 00    0001222222 23333333221111 1111 1234544433  33333432   499999998421      


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcc
Q psy2892         343 GENRATEISEISRNLKGLAKEINCPILALSQLNRS  377 (452)
Q Consensus       343 ~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~  377 (452)
                      +-+. ..-..+...|+.+.++.++++|+++|-..+
T Consensus       174 ~LD~-~~r~~l~~~L~~l~~~~g~tiI~vTHd~~e  207 (375)
T PRK09452        174 ALDY-KLRKQMQNELKALQRKLGITFVFVTHDQEE  207 (375)
T ss_pred             cCCH-HHHHHHHHHHHHHHHhcCCEEEEEeCCHHH
Confidence            1222 223467788889999999999999985443

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.42  E-value=0.0013  Score=66.58  Aligned_cols=38  Identities=29%  Similarity=0.385  Sum_probs=31.2

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhC-CCcEEEEeCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIEN-KLPVAIFSME  252 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~-g~~vl~~s~E  252 (452)
                      ...+|.|+||+|||.|+..++..+.... +.+|+|++.+
T Consensus       137 n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~  175 (405)
T TIGR00362       137 NPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSE  175 (405)
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHH
Confidence            4678999999999999998888875422 6789999765

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).

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.42  E-value=0.0035  Score=59.76  Aligned_cols=35  Identities=14%  Similarity=0.228  Sum_probs=28.8

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        16 il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (271)
T PRK13638         16 VLKGLNLDFSLSPVTGLVGANGCGKSTLFMNLSGL   50 (271)
T ss_pred             cccceEEEEcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            45555445899999999999999999999877654

>PRK11144 modC molybdate transporter ATP-binding protein; Provisional

Probab=97.41  E-value=0.0018  Score=64.18  Aligned_cols=28  Identities=25%  Similarity=0.331  Sum_probs=24.9

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      -+.+|+++.|.|++|+|||||+.-++-.
T Consensus        20 ~i~~Ge~~~l~G~nGsGKSTLl~~iaGl   47 (352)
T PRK11144         20 TLPAQGITAIFGRSGAGKTSLINAISGL   47 (352)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999999877754

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=97.41  E-value=0.002  Score=60.33  Aligned_cols=36  Identities=25%  Similarity=0.418  Sum_probs=29.8

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        17 ~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   52 (242)
T TIGR03411        17 ALNDLSLYVDPGELRVIIGPNGAGKTTMMDVITGKT   52 (242)
T ss_pred             EeeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            466654468999999999999999999998887643

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.

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=97.40  E-value=0.0025  Score=57.72  Aligned_cols=36  Identities=19%  Similarity=0.354  Sum_probs=29.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..
T Consensus        15 ~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (198)
T TIGR01189        15 LFEGLSFTLNAGEALQVTGPNGIGKTTLLRILAGLL   50 (198)
T ss_pred             EEeeeeEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            456554458999999999999999999998776643

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional

Probab=97.40  E-value=0.0023  Score=61.02  Aligned_cols=36  Identities=19%  Similarity=0.439  Sum_probs=29.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        16 il~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~laG~~   51 (272)
T PRK13547         16 ILRDLSLRIEPGRVTALLGRNGAGKSTLLKALAGDL   51 (272)
T ss_pred             EEecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455554458999999999999999999998776543

>COG0411 LivG ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=97.39  E-value=0.00074  Score=61.69  Aligned_cols=182  Identities=15%  Similarity=0.181  Sum_probs=108.1

Q ss_pred             cCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHHHHHHHhCCCCc---
Q psy2892         199 TGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAMRMLGSVGKLDQ---  271 (452)
Q Consensus       199 tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~R~~a~~~~i~~---  271 (452)
                      -|+..+|.+.--+.+|+++.|.||.|+|||||..-+.-..  +.....++|..+    +++.++..+=+++...+..   
T Consensus        15 GGl~Al~~Vsl~v~~Gei~~LIGPNGAGKTTlfNlitG~~--~P~~G~v~~~G~~it~l~p~~iar~Gi~RTFQ~~rlF~   92 (250)
T COG0411          15 GGLTAVNDVSLEVRPGEIVGLIGPNGAGKTTLFNLITGFY--KPSSGTVIFRGRDITGLPPHRIARLGIARTFQITRLFP   92 (250)
T ss_pred             CCEEEEeceeEEEcCCeEEEEECCCCCCceeeeeeecccc--cCCCceEEECCcccCCCCHHHHHhccceeecccccccC
Confidence            3677788886679999999999999999999865444333  122334555555    6677766655544333220   


Q ss_pred             -----cccccC---------C-----CCcchHHHHHHHHHHHhCCCeE---EEcCCCCCHH--HHHHHHHHHHHHcCCcc
Q psy2892         272 -----HKLRTG---------R-----LSSDDWPRINDSIKKINKSQLY---IDETPSLNVI--ELRANSRRLSRQCGKIG  327 (452)
Q Consensus       272 -----~~i~~g---------~-----l~~~~~~~~~~a~~~l~~~~l~---i~~~~~~t~~--~i~~~i~~~~~~~~~~~  327 (452)
                           +.+.-+         .     ...++-+....|..+|....+.   -.....++-.  ...+..+.+..   +|+
T Consensus        93 ~lTVlENv~va~~~~~~~~~~l~~~~~~~~e~~~~e~A~~~Le~vgL~~~a~~~A~~LsyG~qR~LEIArALa~---~P~  169 (250)
T COG0411          93 GLTVLENVAVGAHARLGLSGLLGRPRARKEEREARERARELLEFVGLGELADRPAGNLSYGQQRRLEIARALAT---QPK  169 (250)
T ss_pred             CCcHHHHHHHHhhhhhhhhhhhccccchhhHHHHHHHHHHHHHHcCCchhhcchhhcCChhHhHHHHHHHHHhc---CCC
Confidence                 000000         0     0112233344455555432222   1112344443  34445555543   499


Q ss_pred             EEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEE
Q psy2892         328 VIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFI  407 (452)
Q Consensus       328 ~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l  407 (452)
                      ++++|--      ..+.|. .+..++...++.+.++.+++|+++-|-=+                   -+.+.||.|+.|
T Consensus       170 lLLLDEP------aAGln~-~e~~~l~~~i~~i~~~~g~tillIEHdM~-------------------~Vm~l~dri~Vl  223 (250)
T COG0411         170 LLLLDEP------AAGLNP-EETEELAELIRELRDRGGVTILLIEHDMK-------------------LVMGLADRIVVL  223 (250)
T ss_pred             EEEecCc------cCCCCH-HHHHHHHHHHHHHHhcCCcEEEEEEeccH-------------------HHhhhccEEEec
Confidence            9999983      223343 34567888888888889999999977321                   356789999998


Q ss_pred             ecCc
Q psy2892         408 YRDE  411 (452)
Q Consensus       408 ~r~~  411 (452)
                      ..-+
T Consensus       224 ~~G~  227 (250)
T COG0411         224 NYGE  227 (250)
T ss_pred             cCCc
Confidence            7654

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.39  E-value=0.016  Score=59.41  Aligned_cols=92  Identities=15%  Similarity=0.322  Sum_probs=56.3

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC-CcEEEEeCCCCHHHHH--HHHHHHhCCCCccccccCCCCcchHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK-LPVAIFSMEMSGIQLA--MRMLGSVGKLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g-~~vl~~s~E~~~~~i~--~R~~a~~~~i~~~~i~~g~l~~~~~~~~  287 (452)
                      +.+|.++.+.|++|+||||.+..+|.....+.| .+|.+++.+-..--..  -+.++...|++......+    .+   +
T Consensus       253 ~~~g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~~~~~~----~D---l  325 (484)
T PRK06995        253 LDRGGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHAVKDA----AD---L  325 (484)
T ss_pred             ccCCcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCeeccCCc----hh---H
Confidence            346789999999999999999999998865555 4899998875311111  234455566655432221    11   1


Q ss_pred             HHHHHHHhCCCeEEEcCCCCCH
Q psy2892         288 NDSIKKINKSQLYIDETPSLNV  309 (452)
Q Consensus       288 ~~a~~~l~~~~l~i~~~~~~t~  309 (452)
                      ......+.+....+.|+.+.+.
T Consensus       326 ~~aL~~L~d~d~VLIDTaGr~~  347 (484)
T PRK06995        326 RLALSELRNKHIVLIDTIGMSQ  347 (484)
T ss_pred             HHHHHhccCCCeEEeCCCCcCh
Confidence            2233345555555556655443

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.39  E-value=0.0011  Score=67.72  Aligned_cols=36  Identities=17%  Similarity=0.076  Sum_probs=31.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      -.+|.|+||+|||.|+..++..+.. .|.+|+|++.+
T Consensus       143 pl~L~G~~G~GKTHLl~Ai~~~l~~-~~~~v~yi~~~  178 (445)
T PRK12422        143 PIYLFGPEGSGKTHLMQAAVHALRE-SGGKILYVRSE  178 (445)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHH-cCCCEEEeeHH
Confidence            4789999999999999999988854 68999999865

>PRK15079 oligopeptide ABC transporter ATP-binding protein OppF; Provisional

Probab=97.39  E-value=0.0027  Score=62.31  Aligned_cols=164  Identities=15%  Similarity=0.134  Sum_probs=82.6

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHH--HHHHHhCC-----C
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAM--RMLGSVGK-----L  269 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~--R~~a~~~~-----i  269 (452)
                      ...|+.+.--+.+|+++.|.|++|+|||||+.-++--..- ....|.| ..+    ++..++..  +-++....     +
T Consensus        34 ~~~l~~vsl~i~~Ge~~~lvG~sGsGKSTLlk~i~Gl~~p-~~G~I~~-~G~~i~~~~~~~~~~~r~~i~~v~Q~~~~~l  111 (331)
T PRK15079         34 LKAVDGVTLRLYEGETLGVVGESGCGKSTFARAIIGLVKA-TDGEVAW-LGKDLLGMKDDEWRAVRSDIQMIFQDPLASL  111 (331)
T ss_pred             eEEEeeEEEEEcCCCEEEEECCCCCCHHHHHHHHHCCCCC-CCcEEEE-CCEECCcCCHHHHHHHhCceEEEecCchhhc
Confidence            3456666445899999999999999999999988754322 2233443 222    22222211  11111111     0


Q ss_pred             C-cccccc----------CCCCcchH-HHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcch
Q psy2892         270 D-QHKLRT----------GRLSSDDW-PRINDSIKKINKSQLYIDE-TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQL  336 (452)
Q Consensus       270 ~-~~~i~~----------g~l~~~~~-~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~  336 (452)
                      . ...+.+          +.++.++. +++.+..+.+.-.+-+... ...+|-.+.+...-...-.. +++++|.|.-..
T Consensus       112 ~p~~tv~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~vgl~~~~~~~~p~~LSgG~~QRv~iArAL~~-~P~llilDEPts  190 (331)
T PRK15079        112 NPRMTIGEIIAEPLRTYHPKLSRQEVKDRVKAMMLKVGLLPNLINRYPHEFSGGQCQRIGIARALIL-EPKLIICDEPVS  190 (331)
T ss_pred             CCCCCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCChHHhcCCcccCCHHHHHHHHHHHHHhc-CCCEEEEeCCCc
Confidence            0 000000          01222221 1222223222111111121 23456555443322222223 499999998543


Q ss_pred             hccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         337 MSANSRGENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       337 i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                      -      -+. .....+.+.|+.+.++.+.++|+++|-
T Consensus       191 ~------LD~-~~~~~i~~lL~~l~~~~~~til~iTHd  221 (331)
T PRK15079        191 A------LDV-SIQAQVVNLLQQLQREMGLSLIFIAHD  221 (331)
T ss_pred             c------CCH-HHHHHHHHHHHHHHHHcCCEEEEEeCC
Confidence            2      122 223477788888888889999999874

>TIGR00750 lao LAO/AO transport system ATPase

Probab=97.39  E-value=0.00087  Score=64.93  Aligned_cols=44  Identities=20%  Similarity=0.337  Sum_probs=38.2

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      -..++.++.|.|+||+|||||+..++.... ..|.+|.+++++.+
T Consensus        30 ~~~~~~~i~i~G~~G~GKttl~~~l~~~~~-~~~~~v~~i~~D~~   73 (300)
T TIGR00750        30 YTGNAHRVGITGTPGAGKSTLLEALGMELR-RRGLKVAVIAVDPS   73 (300)
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEecCCC
Confidence            345688999999999999999999999876 46899999998864

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>PRK15134 microcin C ABC transporter ATP-binding protein YejF; Provisional

Probab=97.38  E-value=0.0044  Score=65.08  Aligned_cols=37  Identities=16%  Similarity=0.372  Sum_probs=30.7

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        23 ~~l~~isl~i~~Ge~~~iiG~nGsGKSTLl~~i~G~~   59 (529)
T PRK15134         23 TVVNDVSLQIEAGETLALVGESGSGKSVTALSILRLL   59 (529)
T ss_pred             eeeeceEEEEeCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4566665568999999999999999999998877544

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.38  E-value=0.005  Score=59.03  Aligned_cols=35  Identities=14%  Similarity=0.220  Sum_probs=29.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        22 ~l~~is~~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl   56 (280)
T PRK13649         22 ALFDVNLTIEDGSYTAFIGHTGSGKSTIMQLLNGL   56 (280)
T ss_pred             eeeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            46666456899999999999999999999877754

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.38  E-value=0.0028  Score=60.44  Aligned_cols=35  Identities=17%  Similarity=0.357  Sum_probs=29.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        24 il~~isl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   58 (271)
T PRK13632         24 ALKNVSFEINEGEYVAILGHNGSGKSTISKILTGL   58 (271)
T ss_pred             ceeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            46666556899999999999999999999877654

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.37  E-value=0.0036  Score=56.77  Aligned_cols=36  Identities=28%  Similarity=0.364  Sum_probs=29.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..
T Consensus        16 il~~~s~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   51 (200)
T PRK13540         16 LLQQISFHLPAGGLLHLKGSNGAGKTTLLKLIAGLL   51 (200)
T ss_pred             EEeeeeEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            455554458899999999999999999998776543

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=97.37  E-value=0.00046  Score=67.35  Aligned_cols=165  Identities=15%  Similarity=0.246  Sum_probs=84.9

Q ss_pred             CccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhC-------CCCcc
Q psy2892         200 GFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVG-------KLDQH  272 (452)
Q Consensus       200 g~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~-------~i~~~  272 (452)
                      ++..+|.+.--+++|+++.+-||+||||||++.-||--..-. +..+.+-.-..+.-....|-+....       +++..
T Consensus        17 ~~~av~~isl~i~~Gef~~lLGPSGcGKTTlLR~IAGfe~p~-~G~I~l~G~~i~~lpp~kR~ig~VFQ~YALFPHltV~   95 (352)
T COG3842          17 DFTAVDDISLDIKKGEFVTLLGPSGCGKTTLLRMIAGFEQPS-SGEILLDGEDITDVPPEKRPIGMVFQSYALFPHMTVE   95 (352)
T ss_pred             CeeEEecceeeecCCcEEEEECCCCCCHHHHHHHHhCCCCCC-CceEEECCEECCCCChhhcccceeecCcccCCCCcHH
Confidence            467788876679999999999999999999999888644221 2223322111111111122221110       01100


Q ss_pred             c-----cc-cCCCCcchH-HHHHHHHHHHhCCCeEEEcCCCCCHHH--HHHHHHHHHHHcCCccEEEEcCcchhccCCCC
Q psy2892         273 K-----LR-TGRLSSDDW-PRINDSIKKINKSQLYIDETPSLNVIE--LRANSRRLSRQCGKIGVIIIDYLQLMSANSRG  343 (452)
Q Consensus       273 ~-----i~-~g~l~~~~~-~~~~~a~~~l~~~~l~i~~~~~~t~~~--i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~  343 (452)
                      .     ++ .+...+++. +++.++.+.+.-..+--.....+|=.+  =.+.+|.++.   +|+++..|--      -  
T Consensus        96 ~NVafGLk~~~~~~~~~i~~rv~e~L~lV~L~~~~~R~p~qLSGGQqQRVALARAL~~---~P~vLLLDEP------l--  164 (352)
T COG3842          96 ENVAFGLKVRKKLKKAEIKARVEEALELVGLEGFADRKPHQLSGGQQQRVALARALVP---EPKVLLLDEP------L--  164 (352)
T ss_pred             HHhhhhhhhcCCCCHHHHHHHHHHHHHHcCchhhhhhChhhhChHHHHHHHHHHHhhc---CcchhhhcCc------c--
Confidence            0     00 122333322 345555443321111111111233222  2233444432   4899988862      1  


Q ss_pred             CCHHHHH-HHHHHHHHHHHHHhCCcEEEEecCCc
Q psy2892         344 ENRATEI-SEISRNLKGLAKEINCPILALSQLNR  376 (452)
Q Consensus       344 ~~~~~~~-~~i~~~Lk~lA~~~~i~vi~l~ql~r  376 (452)
                      .+-+..+ .++-..||.+.++.|++.|.+.|=-.
T Consensus       165 SaLD~kLR~~mr~Elk~lq~~~giT~i~VTHDqe  198 (352)
T COG3842         165 SALDAKLREQMRKELKELQRELGITFVYVTHDQE  198 (352)
T ss_pred             cchhHHHHHHHHHHHHHHHHhcCCeEEEEECCHH
Confidence            1122222 35567899999999999999998433

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.37  E-value=0.0019  Score=66.10  Aligned_cols=38  Identities=24%  Similarity=0.249  Sum_probs=30.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHH-hCCCcEEEEeCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAI-ENKLPVAIFSMEM  253 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~-~~g~~vl~~s~E~  253 (452)
                      -.+|.|++|+|||.|+..++..+.. ..+.+|+|++.|.
T Consensus       143 pl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~  181 (450)
T PRK14087        143 PLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDE  181 (450)
T ss_pred             ceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHH
Confidence            4789999999999999888776543 3478999998863

>COG1110 Reverse gyrase [DNA replication, recombination, and repair]

Probab=97.37  E-value=0.00084  Score=72.20  Aligned_cols=123  Identities=18%  Similarity=0.169  Sum_probs=79.8

Q ss_pred             cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEE-eCCCCHHHHHHHHHHHhCCCC---ccccccCCCCcch
Q psy2892         208 TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIF-SMEMSGIQLAMRMLGSVGKLD---QHKLRTGRLSSDD  283 (452)
Q Consensus       208 ~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~-s~E~~~~~i~~R~~a~~~~i~---~~~i~~g~l~~~~  283 (452)
                      ...+.+|+-..|.||||+|||||.+-+++-.|. .|.+|+|+ .+..-..|...|+....-...   ..-..++.++..+
T Consensus        91 akR~~rg~SFaiiAPTGvGKTTfg~~~sl~~a~-kgkr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~yh~~l~~~e  169 (1187)
T COG1110          91 AKRLVRGKSFAIIAPTGVGKTTFGLLMSLYLAK-KGKRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVVYHSALPTKE  169 (1187)
T ss_pred             HHHHHcCCceEEEcCCCCchhHHHHHHHHHHHh-cCCeEEEEecCHHHHHHHHHHHHHHHhhcCCcceeeeeccccchHH
Confidence            456888999999999999999999999999986 57888875 566666788888866542222   1111345666554


Q ss_pred             HHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         284 WPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       284 ~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      -+   ++.+++.+..+.|.=+   |..=+....+.+.. + ++|+||||....+--
T Consensus       170 ke---e~le~i~~gdfdIlit---Ts~FL~k~~e~L~~-~-kFdfifVDDVDA~Lk  217 (1187)
T COG1110         170 KE---EALERIESGDFDILIT---TSQFLSKRFEELSK-L-KFDFIFVDDVDAILK  217 (1187)
T ss_pred             HH---HHHHHHhcCCccEEEE---eHHHHHhhHHHhcc-c-CCCEEEEccHHHHHh
Confidence            33   4556676544443211   11223333444433 3 599999999987553

>COG1123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]

Probab=97.36  E-value=0.0028  Score=64.92  Aligned_cols=182  Identities=16%  Similarity=0.228  Sum_probs=99.6

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC--CCHHHHHH--HHHHHhC-----CCCc
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME--MSGIQLAM--RMLGSVG-----KLDQ  271 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E--~~~~~i~~--R~~a~~~-----~i~~  271 (452)
                      +..+|.+.--+++|+.+-|.|.+|+||||++.-++--.- -.+..+.|.--+  ++..+...  |-+....     .++.
T Consensus       304 ~~Av~~VSf~l~~GE~lglVGeSGsGKSTlar~i~gL~~-P~~G~i~~~g~~~~~~~~~~~~~r~~~QmvFQdp~~SLnP  382 (539)
T COG1123         304 VKAVDDVSFDLREGETLGLVGESGSGKSTLARILAGLLP-PSSGSIIFDGQDLDLTGGELRRLRRRIQMVFQDPYSSLNP  382 (539)
T ss_pred             eeeeeeeeeEecCCCEEEEECCCCCCHHHHHHHHhCCCC-CCCceEEEeCcccccccchhhhhhhheEEEEeCcccccCc
Confidence            456677644689999999999999999999998776442 234445554422  23221111  1111111     1111


Q ss_pred             cc-cc---------cCCCCcchHH-HHHHHHHHHhCCCeEEE-cCCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchh
Q psy2892         272 HK-LR---------TGRLSSDDWP-RINDSIKKINKSQLYID-ETPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLM  337 (452)
Q Consensus       272 ~~-i~---------~g~l~~~~~~-~~~~a~~~l~~~~l~i~-~~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i  337 (452)
                      +. +.         .+.....++. ++.+..+...-.+-+.. ....+|=.+-..  .++.+.  . +|+++|.|--...
T Consensus       383 r~tV~~~i~epL~~~~~~~~~~~~~rv~~ll~~VgL~~~~l~ryP~elSGGQrQRvaIARALa--~-~P~lli~DEp~Sa  459 (539)
T COG1123         383 RMTVGDILAEPLRIHGGGSGAERRARVAELLELVGLPPEFLDRYPHELSGGQRQRVAIARALA--L-EPKLLILDEPVSA  459 (539)
T ss_pred             cccHHHHHHhHHhhhcccchHHHHHHHHHHHHHcCCCHHHHhcCchhcCcchhHHHHHHHHHh--c-CCCEEEecCCccc
Confidence            10 00         0111111221 23333332221111111 122344333322  233332  2 4999999985432


Q ss_pred             ccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcc
Q psy2892         338 SANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEV  412 (452)
Q Consensus       338 ~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~  412 (452)
                      -       +..-...+++-|+.+-+++|++.++++|=                +   ..+++.||.|..+++-+.
T Consensus       460 L-------Dvsvqa~VlnLl~~lq~e~g~t~lfISHD----------------l---~vV~~i~drv~vm~~G~i  508 (539)
T COG1123         460 L-------DVSVQAQVLNLLKDLQEELGLTYLFISHD----------------L---AVVRYIADRVAVMYDGRI  508 (539)
T ss_pred             c-------CHHHHHHHHHHHHHHHHHhCCEEEEEeCC----------------H---HHHHhhCceEEEEECCeE
Confidence            2       22234688999999999999999999982                2   257889999999987643

>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=97.36  E-value=0.0014  Score=58.20  Aligned_cols=29  Identities=21%  Similarity=0.336  Sum_probs=25.3

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      -+.+|+++.|.|++|+|||||+.-++-..
T Consensus        21 ~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          21 VVKEGEVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             EECCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            57899999999999999999998766543

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.36  E-value=0.0023  Score=63.08  Aligned_cols=44  Identities=23%  Similarity=0.277  Sum_probs=38.1

Q ss_pred             cccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh
Q psy2892         197 ISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE  241 (452)
Q Consensus       197 i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~  241 (452)
                      .+++...+|-+. .+-+|+=.+|.|+||+|||+++.+++.+...+
T Consensus       153 ~~~~~rvID~l~-PIGkGQR~lIvgppGvGKTTLaK~Ian~I~~n  196 (416)
T PRK09376        153 EDLSTRIIDLIA-PIGKGQRGLIVAPPKAGKTVLLQNIANSITTN  196 (416)
T ss_pred             cccceeeeeeec-ccccCceEEEeCCCCCChhHHHHHHHHHHHhh
Confidence            678888888763 57889999999999999999999999888753

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=97.36  E-value=0.0023  Score=58.22  Aligned_cols=36  Identities=22%  Similarity=0.542  Sum_probs=29.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--.
T Consensus        22 il~~~s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   57 (202)
T cd03233          22 ILKDFSGVVKPGEMVLVLGRPGSGCSTLLKALANRT   57 (202)
T ss_pred             eeeeEEEEECCCcEEEEECCCCCCHHHHHHHhcccC
Confidence            455554458999999999999999999998877654

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.

>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.35  E-value=0.0011  Score=63.61  Aligned_cols=161  Identities=14%  Similarity=0.151  Sum_probs=79.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC--CcEEEEeCCC----CHHHHHHHHHHHhCCC-------
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK--LPVAIFSMEM----SGIQLAMRMLGSVGKL-------  269 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g--~~vl~~s~E~----~~~~i~~R~~a~~~~i-------  269 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-......|  ..| ++..+.    +..... +.++....-       
T Consensus        22 ~l~~v~l~i~~Ge~~~I~G~nGaGKSTLl~~l~G~~~p~~g~~G~i-~i~g~~~~~~~~~~~~-~~ig~v~q~~~~~~~~   99 (282)
T PRK13640         22 ALNDISFSIPRGSWTALIGHNGSGKSTISKLINGLLLPDDNPNSKI-TVDGITLTAKTVWDIR-EKVGIVFQNPDNQFVG   99 (282)
T ss_pred             ceeeEEEEEcCCCEEEEECCCCCcHHHHHHHHhcccCCCCCCCcEE-EECCEECCcCCHHHHH-hheEEEEECHHHhhcc
Confidence            46666456899999999999999999999988765421121  223 333221    111111 111110000       


Q ss_pred             -Ccc-ccc----cCCCCcchH-HHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         270 -DQH-KLR----TGRLSSDDW-PRINDSIKKINKSQLYIDE-TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       270 -~~~-~i~----~g~l~~~~~-~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                       +.. .+.    ...++.+++ +++.++++.+.-.+ +... ...+|-.+.+...-...--. +|+++++|.-..     
T Consensus       100 ~tv~enl~~~~~~~~~~~~~~~~~~~~~l~~~~L~~-~~~~~~~~LS~G~~qrv~laral~~-~P~llllDEPt~-----  172 (282)
T PRK13640        100 ATVGDDVAFGLENRAVPRPEMIKIVRDVLADVGMLD-YIDSEPANLSGGQKQRVAIAGILAV-EPKIIILDESTS-----  172 (282)
T ss_pred             CCHHHHHHhhHHhCCCCHHHHHHHHHHHHHHCCChh-HhcCCcccCCHHHHHHHHHHHHHHc-CCCEEEEECCcc-----
Confidence             000 000    001222222 12333333321111 1111 23455555443322211223 499999998532     


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                       +-+. .....+...|+.++++.+.+||+++|-
T Consensus       173 -gLD~-~~~~~l~~~l~~l~~~~g~tvli~tH~  203 (282)
T PRK13640        173 -MLDP-AGKEQILKLIRKLKKKNNLTVISITHD  203 (282)
T ss_pred             -cCCH-HHHHHHHHHHHHHHHhcCCEEEEEecC
Confidence             1222 234567788888888789999998874

>PRK10261 glutathione transporter ATP-binding protein; Provisional

Probab=97.34  E-value=0.0043  Score=66.43  Aligned_cols=37  Identities=19%  Similarity=0.379  Sum_probs=31.4

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +.|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        30 ~~l~~is~~v~~Ge~~~lvG~nGsGKSTLl~~l~Gll   66 (623)
T PRK10261         30 AAVRNLSFSLQRGETLAIVGESGSGKSVTALALMRLL   66 (623)
T ss_pred             eEEEeeEEEECCCCEEEEECCCCChHHHHHHHHHcCC
Confidence            4677775568999999999999999999999888654

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=97.33  E-value=0.0044  Score=58.51  Aligned_cols=35  Identities=14%  Similarity=0.309  Sum_probs=28.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+. -+.+|+++.|.|++|+|||||+.-++--.
T Consensus        16 ~l~~i~-~i~~Ge~~~IvG~nGsGKSTLlk~l~Gl~   50 (255)
T cd03236          16 KLHRLP-VPREGQVLGLVGPNGIGKSTALKILAGKL   50 (255)
T ss_pred             hhhcCC-CCCCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            455554 28899999999999999999997777654

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.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.33  E-value=0.0015  Score=59.25  Aligned_cols=39  Identities=21%  Similarity=0.213  Sum_probs=29.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      +++|+|++|+||||++..++.....  ....-+++.|.+.+
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~~--~~~~~i~t~e~~~E   41 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYINK--NKTHHILTIEDPIE   41 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhh--cCCcEEEEEcCCcc
Confidence            8999999999999999888777642  22334556777653

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.

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=97.32  E-value=0.0022  Score=63.88  Aligned_cols=51  Identities=12%  Similarity=0.230  Sum_probs=36.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhC-C----CcEEEEeCCC--CHHHHHHHHHHHh
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIEN-K----LPVAIFSMEM--SGIQLAMRMLGSV  266 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~-g----~~vl~~s~E~--~~~~i~~R~~a~~  266 (452)
                      .++|.|+||+|||+++..++.++.... +    .+++|+++..  +...+..++...+
T Consensus        42 ~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l   99 (365)
T TIGR02928        42 NVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVELANQL   99 (365)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHHHHHHH
Confidence            589999999999999998888764221 1    4678887643  4456777766544

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.

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=97.32  E-value=0.0016  Score=60.83  Aligned_cols=35  Identities=17%  Similarity=0.379  Sum_probs=29.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--
T Consensus        20 ~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   54 (237)
T PRK11614         20 ALHEVSLHINQGEIVTLIGANGAGKTTLLGTLCGD   54 (237)
T ss_pred             eeeeeEEEEcCCcEEEEECCCCCCHHHHHHHHcCC
Confidence            45665456899999999999999999999877654

>PRK13642 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.32  E-value=0.0012  Score=63.29  Aligned_cols=36  Identities=17%  Similarity=0.350  Sum_probs=30.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        22 ~l~~v~l~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~   57 (277)
T PRK13642         22 QLNGVSFSITKGEWVSIIGQNGSGKSTTARLIDGLF   57 (277)
T ss_pred             eeeeeEEEEcCCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            566664468999999999999999999999777544

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=97.32  E-value=0.0016  Score=59.08  Aligned_cols=28  Identities=25%  Similarity=0.500  Sum_probs=24.9

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +..|++++|.|++|+|||||+..++...
T Consensus        22 l~~g~~~~ltGpNg~GKSTllr~i~~~~   49 (199)
T cd03283          22 MEKKNGILITGSNMSGKSTFLRTIGVNV   49 (199)
T ss_pred             EcCCcEEEEECCCCCChHHHHHHHHHHH
Confidence            4567999999999999999999998765

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

>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.31  E-value=0.0012  Score=63.56  Aligned_cols=36  Identities=17%  Similarity=0.293  Sum_probs=30.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        21 ~l~~vsl~i~~Ge~v~i~G~nGsGKSTLl~~l~Gl~   56 (288)
T PRK13643         21 ALFDIDLEVKKGSYTALIGHTGSGKSTLLQHLNGLL   56 (288)
T ss_pred             ceeeeEEEEcCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            566665568999999999999999999998887543

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.31  E-value=0.00064  Score=59.60  Aligned_cols=36  Identities=17%  Similarity=0.324  Sum_probs=29.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..
T Consensus        15 vl~~i~~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          15 ALDGVSLSVRRGEVHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             EEeeeEEEEeCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455554458999999999999999999998776543

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.

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=97.30  E-value=0.0033  Score=54.97  Aligned_cols=31  Identities=26%  Similarity=0.376  Sum_probs=25.8

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHh
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE  241 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~  241 (452)
                      +..+.+++|.|+.|+|||+++..+++.....
T Consensus        18 ~~~~~~~~i~G~NgsGKS~~l~~i~~~~~~~   48 (162)
T cd03227          18 FGEGSLTIITGPNGSGKSTILDAIGLALGGA   48 (162)
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            3445799999999999999999988877653

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.

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=97.30  E-value=0.0027  Score=66.16  Aligned_cols=37  Identities=16%  Similarity=0.265  Sum_probs=29.8

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        18 ~~l~~is~~i~~Ge~~~l~G~NGsGKSTLl~~l~G~~   54 (501)
T PRK10762         18 KALSGAALNVYPGRVMALVGENGAGKSTMMKVLTGIY   54 (501)
T ss_pred             EEeeeeeEEEcCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            3466664458999999999999999999998777543

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=97.30  E-value=0.0041  Score=54.75  Aligned_cols=163  Identities=12%  Similarity=0.121  Sum_probs=90.0

Q ss_pred             ccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH-----HHHHHHHHHhCCCC
Q psy2892         196 GISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI-----QLAMRMLGSVGKLD  270 (452)
Q Consensus       196 ~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~-----~i~~R~~a~~~~i~  270 (452)
                      .++.|-+.|+.+.--+++|+++.+.|++|+|||||+.-+....-- ....+.+...+.+.-     -...|-    .|+-
T Consensus        10 ~Y~~g~~aL~~vs~~i~~Gef~fl~GpSGAGKSTllkLi~~~e~p-t~G~i~~~~~dl~~l~~~~iP~LRR~----IGvV   84 (223)
T COG2884          10 AYPGGREALRDVSFHIPKGEFVFLTGPSGAGKSTLLKLIYGEERP-TRGKILVNGHDLSRLKGREIPFLRRQ----IGVV   84 (223)
T ss_pred             hcCCCchhhhCceEeecCceEEEEECCCCCCHHHHHHHHHhhhcC-CCceEEECCeecccccccccchhhhe----eeeE
Confidence            356676689998667999999999999999999998877665422 223455554443321     122222    2221


Q ss_pred             cccc-----------------ccCCCCcchH-HHHHHHHHHHhCC-CeEEEcCCCCCH-HHHHHHHHHHHHHcCCccEEE
Q psy2892         271 QHKL-----------------RTGRLSSDDW-PRINDSIKKINKS-QLYIDETPSLNV-IELRANSRRLSRQCGKIGVII  330 (452)
Q Consensus       271 ~~~i-----------------~~g~l~~~~~-~~~~~a~~~l~~~-~l~i~~~~~~t~-~~i~~~i~~~~~~~~~~~~vv  330 (452)
                      +...                 ..| .++.++ +++.++.++..-. +.... .+.+|- ++-+-.|.+..- + +|.+++
T Consensus        85 FQD~rLL~~~tvyeNVA~pL~v~G-~~~~~i~~rV~~~L~~VgL~~k~~~l-P~~LSGGEQQRvaIARAiV-~-~P~vLl  160 (223)
T COG2884          85 FQDFRLLPDRTVYENVALPLRVIG-KPPREIRRRVSEVLDLVGLKHKARAL-PSQLSGGEQQRVAIARAIV-N-QPAVLL  160 (223)
T ss_pred             eeeccccccchHhhhhhhhhhccC-CCHHHHHHHHHHHHHHhccchhhhcC-ccccCchHHHHHHHHHHHc-c-CCCeEe
Confidence            1111                 012 233333 3566666654211 11111 122332 333333333322 2 589999


Q ss_pred             EcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCC
Q psy2892         331 IDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLN  375 (452)
Q Consensus       331 ID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~  375 (452)
                      -|.-+-    .-.+.-..++-.+...+-.+    |.+|++.+|-.
T Consensus       161 ADEPTG----NLDp~~s~~im~lfeeinr~----GtTVl~ATHd~  197 (223)
T COG2884         161 ADEPTG----NLDPDLSWEIMRLFEEINRL----GTTVLMATHDL  197 (223)
T ss_pred             ecCCCC----CCChHHHHHHHHHHHHHhhc----CcEEEEEeccH
Confidence            987431    11123344566888888887    77888888743

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.30  E-value=0.0021  Score=65.98  Aligned_cols=38  Identities=26%  Similarity=0.359  Sum_probs=31.8

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhC-CCcEEEEeCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIEN-KLPVAIFSME  252 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~-g~~vl~~s~E  252 (452)
                      .-++|.|+||+|||.++..++..+.... +.+|+|++.+
T Consensus       149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~  187 (450)
T PRK00149        149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSE  187 (450)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHH
Confidence            4589999999999999999998886432 6789999876

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=97.30  E-value=0.0017  Score=67.75  Aligned_cols=35  Identities=23%  Similarity=0.281  Sum_probs=29.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        26 il~~vsl~i~~Ge~~~liG~NGsGKSTLl~~l~Gl   60 (510)
T PRK15439         26 VLKGIDFTLHAGEVHALLGGNGAGKSTLMKIIAGI   60 (510)
T ss_pred             eeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            45666446899999999999999999999877654

>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=97.29  E-value=0.0018  Score=55.43  Aligned_cols=36  Identities=31%  Similarity=0.462  Sum_probs=28.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..
T Consensus        15 ~l~~~~~~~~~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          15 LLKDISLTINPGDRIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             EEEeeEEEECCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            455554458999999999999999999998776543

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.

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=97.29  E-value=0.008  Score=63.01  Aligned_cols=36  Identities=19%  Similarity=0.330  Sum_probs=30.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        15 ~l~~is~~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~   50 (520)
T TIGR03269        15 VLKNISFTIEEGEVLGILGRSGAGKSVLMHVLRGMD   50 (520)
T ss_pred             eeeceeEEEcCCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            456654468999999999999999999999888753

The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.

>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=97.29  E-value=0.0061  Score=54.06  Aligned_cols=32  Identities=19%  Similarity=0.325  Sum_probs=26.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNI  234 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~i  234 (452)
                      .|+.+.--+++|+++.|.|++|+|||||+.-+
T Consensus        10 ~l~~isl~i~~G~~~~l~G~nG~GKSTLl~~i   41 (176)
T cd03238          10 NLQNLDVSIPLNVLVVVTGVSGSGKSTLVNEG   41 (176)
T ss_pred             eecceEEEEcCCCEEEEECCCCCCHHHHHHHH
Confidence            35555445899999999999999999999755

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.

>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional

Probab=97.29  E-value=0.0033  Score=64.65  Aligned_cols=36  Identities=22%  Similarity=0.341  Sum_probs=29.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.-.+.+|+++.|.|++|+|||||+.-++-..
T Consensus        39 IL~nVSfsI~~GEivgIiGpNGSGKSTLLkiLaGLl   74 (549)
T PRK13545         39 ALNNISFEVPEGEIVGIIGLNGSGKSTLSNLIAGVT   74 (549)
T ss_pred             EEeeeEEEEeCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            466665568999999999999999999998877543

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.28  E-value=0.0029  Score=56.30  Aligned_cols=33  Identities=30%  Similarity=0.546  Sum_probs=27.4

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEE
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIF  249 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~  249 (452)
                      |++++|+||+|||+|+.+++..+- +.++.|...
T Consensus         3 LiIlTGyPgsGKTtfakeLak~L~-~~i~~vi~l   35 (261)
T COG4088           3 LIILTGYPGSGKTTFAKELAKELR-QEIWRVIHL   35 (261)
T ss_pred             eEEEecCCCCCchHHHHHHHHHHH-Hhhhhcccc
Confidence            789999999999999999998875 456666543

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=97.28  E-value=0.0099  Score=55.81  Aligned_cols=35  Identities=14%  Similarity=0.296  Sum_probs=28.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--
T Consensus        16 ~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   50 (247)
T TIGR00972        16 ALKNINLDIPKNQVTALIGPSGCGKSTLLRSLNRM   50 (247)
T ss_pred             eecceeEEECCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            35555445899999999999999999999877654

This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.

>PRK14258 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.27  E-value=0.014  Score=55.27  Aligned_cols=36  Identities=14%  Similarity=0.259  Sum_probs=29.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--.
T Consensus        22 il~~is~~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~   57 (261)
T PRK14258         22 ILEGVSMEIYQSKVTAIIGPSGCGKSTFLKCLNRMN   57 (261)
T ss_pred             EeeceEEEEcCCcEEEEECCCCCCHHHHHHHHhccc
Confidence            355554458999999999999999999998887654

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=97.27  E-value=0.0059  Score=57.12  Aligned_cols=36  Identities=19%  Similarity=0.248  Sum_probs=29.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..
T Consensus        17 il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (242)
T PRK11124         17 ALFDITLDCPQGETLVLLGPSGAGKSSLLRVLNLLE   52 (242)
T ss_pred             eEeeeeeEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455554458899999999999999999998877543

>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.26  E-value=0.0021  Score=62.89  Aligned_cols=37  Identities=16%  Similarity=0.369  Sum_probs=30.8

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +.|+.+.--+.+|+++.|.|++|+|||||+.-++--.
T Consensus        40 ~~L~~vsl~i~~Ge~~~I~G~nGsGKSTLl~~L~Gl~   76 (320)
T PRK13631         40 VALNNISYTFEKNKIYFIIGNSGSGKSTLVTHFNGLI   76 (320)
T ss_pred             cceeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3567765568999999999999999999998877543

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.26  E-value=0.003  Score=58.87  Aligned_cols=130  Identities=18%  Similarity=0.210  Sum_probs=78.0

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHHHHHHHh--CCCCcccc
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAMRMLGSV--GKLDQHKL  274 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~R~~a~~--~~i~~~~i  274 (452)
                      ...+|.+.-.+.+|+...|.|.+|+||||++.-++.-.- -... -++|...    ++..+..+|+...+  .|.+...+
T Consensus        26 v~avd~Vsf~i~~ge~~glVGESG~GKSTlgr~i~~L~~-pt~G-~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~  103 (268)
T COG4608          26 VKAVDGVSFSIKEGETLGLVGESGCGKSTLGRLILGLEE-PTSG-EILFEGKDITKLSKEERRERVLELLEKVGLPEEFL  103 (268)
T ss_pred             eEEecceeEEEcCCCEEEEEecCCCCHHHHHHHHHcCcC-CCCc-eEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHh
Confidence            467787755689999999999999999999987765431 1222 3444432    22333333332222  33443322


Q ss_pred             c--cCCCCcchHHHHHHHHHHHhCCCeEEEcCCC--CCH---HHHHHHHHHHHHHcCCccEEEEcC
Q psy2892         275 R--TGRLSSDDWPRINDSIKKINKSQLYIDETPS--LNV---IELRANSRRLSRQCGKIGVIIIDY  333 (452)
Q Consensus       275 ~--~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~--~t~---~~i~~~i~~~~~~~~~~~~vvID~  333 (452)
                      .  ...++-.+.+|+.-|..-.-+..+.+.|.+.  +.+   .+|.+.+..+..+.+ ...+||=+
T Consensus       104 ~ryPhelSGGQrQRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~~~~-lt~lFIsH  168 (268)
T COG4608         104 YRYPHELSGGQRQRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQEELG-LTYLFISH  168 (268)
T ss_pred             hcCCcccCchhhhhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHHHhC-CeEEEEEE
Confidence            2  1346666777776655544455667766542  222   567777777777776 77766644

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=97.26  E-value=0.003  Score=61.39  Aligned_cols=128  Identities=16%  Similarity=0.308  Sum_probs=73.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC----------------CcEEE------------------
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK----------------LPVAI------------------  248 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g----------------~~vl~------------------  248 (452)
                      .|+.+.--+..|++++|.||+|+||||++.-||--.....|                ..+.+                  
T Consensus        18 ~l~~i~l~i~~Gef~vllGPSGcGKSTlLr~IAGLe~~~~G~I~i~g~~vt~l~P~~R~iamVFQ~yALyPhmtV~~Nia   97 (338)
T COG3839          18 VLKDVNLDIEDGEFVVLLGPSGCGKSTLLRMIAGLEEPTSGEILIDGRDVTDLPPEKRGIAMVFQNYALYPHMTVYENIA   97 (338)
T ss_pred             eeecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCEECCCCChhHCCEEEEeCCccccCCCcHHHHhh
Confidence            45555445899999999999999999999988742211000                11111                  


Q ss_pred             EeCCC---CHHHHHHHHHHHhCCCCccccc---cCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCH-----HHHHHHHH
Q psy2892         249 FSMEM---SGIQLAMRMLGSVGKLDQHKLR---TGRLSSDDWPRINDSIKKINKSQLYIDETPSLNV-----IELRANSR  317 (452)
Q Consensus       249 ~s~E~---~~~~i~~R~~a~~~~i~~~~i~---~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~-----~~i~~~i~  317 (452)
                      |.+.+   +..++..|.....--+.+..+.   ...+|-.+.+|+.-+..-+++..+++.|.|-.++     .+++..++
T Consensus        98 f~Lk~~~~~k~ei~~rV~eva~~L~l~~lL~r~P~~LSGGQrQRVAlaRAlVr~P~v~L~DEPlSnLDa~lR~~mr~ei~  177 (338)
T COG3839          98 FGLKLRGVPKAEIDKRVKEVAKLLGLEHLLNRKPLQLSGGQRQRVALARALVRKPKVFLLDEPLSNLDAKLRVLMRSEIK  177 (338)
T ss_pred             hhhhhCCCchHHHHHHHHHHHHHcCChhHHhcCcccCChhhHHHHHHHHHHhcCCCEEEecCchhHhhHHHHHHHHHHHH
Confidence            12222   2334444432221112222222   2356767777776666666777788888764444     34566666


Q ss_pred             HHHHHcCCccEEEE
Q psy2892         318 RLSRQCGKIGVIII  331 (452)
Q Consensus       318 ~~~~~~~~~~~vvI  331 (452)
                      ++.++.+ ..+|.|
T Consensus       178 ~lh~~l~-~T~IYV  190 (338)
T COG3839         178 KLHERLG-TTTIYV  190 (338)
T ss_pred             HHHHhcC-CcEEEE
Confidence            7766665 665555

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.26  E-value=0.0059  Score=56.23  Aligned_cols=172  Identities=15%  Similarity=0.132  Sum_probs=87.4

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC-------------CcEEEEeCCC---CHHHHHHHHHH
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK-------------LPVAIFSMEM---SGIQLAMRMLG  264 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g-------------~~vl~~s~E~---~~~~i~~R~~a  264 (452)
                      ...|+.+.--+.+|+++.|.|++|+||||++.=+|--..-..|             ..+.|+--+.   +...+.+... 
T Consensus        16 ~~vl~~i~L~v~~GEfvsilGpSGcGKSTLLriiAGL~~p~~G~V~~~g~~v~~p~~~~~~vFQ~~~LlPW~Tv~~NV~-   94 (248)
T COG1116          16 VEVLEDINLSVEKGEFVAILGPSGCGKSTLLRLIAGLEKPTSGEVLLDGRPVTGPGPDIGYVFQEDALLPWLTVLDNVA-   94 (248)
T ss_pred             eEEeccceeEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCcccCCCCCCEEEEeccCcccchhhHHhhhe-
Confidence            5566666556899999999999999999998766642211111             1222322221   2222222211 


Q ss_pred             HhCCCCccccccCCCCcc-hHHHHHHHHHHHhCCCeEEEcCCCCC--HHHHHHHHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         265 SVGKLDQHKLRTGRLSSD-DWPRINDSIKKINKSQLYIDETPSLN--VIELRANSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       265 ~~~~i~~~~i~~g~l~~~-~~~~~~~a~~~l~~~~l~i~~~~~~t--~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                        .++...    | .+.. ..++..+..+...-..+.=.....+|  ..+=.+.++.+..   +|+++..|--      -
T Consensus        95 --l~l~~~----~-~~~~e~~~~a~~~L~~VgL~~~~~~~P~qLSGGMrQRVaiARAL~~---~P~lLLlDEP------F  158 (248)
T COG1116          95 --LGLELR----G-KSKAEARERAKELLELVGLAGFEDKYPHQLSGGMRQRVAIARALAT---RPKLLLLDEP------F  158 (248)
T ss_pred             --ehhhcc----c-cchHhHHHHHHHHHHHcCCcchhhcCccccChHHHHHHHHHHHHhc---CCCEEEEcCC------c
Confidence              122111    1 2222 22233333333211111111112233  2233344444432   4999999962      1


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                       +.-+..--..+-..|.++.++.+.+|+++.|-=.++                   -..||.|+.|..
T Consensus       159 -gALDalTR~~lq~~l~~lw~~~~~TvllVTHdi~EA-------------------v~LsdRivvl~~  206 (248)
T COG1116         159 -GALDALTREELQDELLRLWEETRKTVLLVTHDVDEA-------------------VYLADRVVVLSN  206 (248)
T ss_pred             -chhhHHHHHHHHHHHHHHHHhhCCEEEEEeCCHHHH-------------------HhhhCEEEEecC
Confidence             011112223555678889999999999999843322                   346888888753

>KOG0734|consensus

Probab=97.26  E-value=0.0022  Score=64.52  Aligned_cols=30  Identities=23%  Similarity=0.548  Sum_probs=24.8

Q ss_pred             cccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         206 KITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       206 ~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++|.+++|  +++.||||.|||.+|..+|-.
T Consensus       331 rLGGKLPKG--VLLvGPPGTGKTlLARAvAGE  360 (752)
T KOG0734|consen  331 RLGGKLPKG--VLLVGPPGTGKTLLARAVAGE  360 (752)
T ss_pred             hccCcCCCc--eEEeCCCCCchhHHHHHhhcc
Confidence            346779999  899999999999998877653

>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=97.26  E-value=0.0039  Score=52.98  Aligned_cols=22  Identities=32%  Similarity=0.681  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCChhHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      |++++|+||+|||||+.+++..
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~   22 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKR   22 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999988754

...

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.25  E-value=0.0062  Score=55.86  Aligned_cols=36  Identities=17%  Similarity=0.326  Sum_probs=29.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.-.+.+|+.+.|.|++|+|||||+.-++-..
T Consensus        26 il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   61 (214)
T PRK13543         26 VFGPLDFHVDAGEALLVQGDNGAGKTTLLRVLAGLL   61 (214)
T ss_pred             eeecceEEECCCCEEEEEcCCCCCHHHHHHHHhCCC
Confidence            345554458999999999999999999998887643

>TIGR00955 3a01204 The Eye Pigment Precursor Transporter (EPP) Family protein

Probab=97.24  E-value=0.0031  Score=67.43  Aligned_cols=37  Identities=24%  Similarity=0.406  Sum_probs=31.6

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .-|+.+.+-+++|+++.|.|++|+|||||+.-++-..
T Consensus        39 ~iL~~vs~~i~~Ge~~aI~G~sGsGKSTLL~~L~g~~   75 (617)
T TIGR00955        39 HLLKNVSGVAKPGELLAVMGSSGAGKTTLMNALAFRS   75 (617)
T ss_pred             ccccCCEEEEeCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            3577777779999999999999999999998887643

>PRK15093 antimicrobial peptide ABC transporter ATP-binding protein; Provisional

Probab=97.24  E-value=0.0048  Score=60.62  Aligned_cols=36  Identities=19%  Similarity=0.316  Sum_probs=30.0

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++--
T Consensus        21 ~~l~~vsl~i~~Ge~~~ivG~sGsGKSTLl~~i~Gl   56 (330)
T PRK15093         21 KAVDRVSMTLTEGEIRGLVGESGSGKSLIAKAICGV   56 (330)
T ss_pred             EEEeeeEEEECCCCEEEEECCCCCCHHHHHHHHHcc
Confidence            356666446899999999999999999999887754

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=97.24  E-value=0.002  Score=63.68  Aligned_cols=43  Identities=23%  Similarity=0.264  Sum_probs=31.3

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      .++.+++|+|++|+||||++..++.....  ....-+++.|.+.+
T Consensus       120 ~~~g~ili~G~tGSGKTT~l~al~~~i~~--~~~~~i~tiEdp~E  162 (343)
T TIGR01420       120 RPRGLILVTGPTGSGKSTTLASMIDYINK--NAAGHIITIEDPIE  162 (343)
T ss_pred             hcCcEEEEECCCCCCHHHHHHHHHHhhCc--CCCCEEEEEcCChh
Confidence            46779999999999999999888766532  22233456777755

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.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.24  E-value=0.0024  Score=58.30  Aligned_cols=35  Identities=20%  Similarity=0.313  Sum_probs=28.8

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        17 ~l~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   51 (207)
T PRK13539         17 LFSGLSFTLAAGEALVLTGPNGSGKTTLLRLIAGL   51 (207)
T ss_pred             EEeceEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            45665445889999999999999999998877654

>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=97.23  E-value=0.0034  Score=55.51  Aligned_cols=36  Identities=25%  Similarity=0.319  Sum_probs=29.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        15 ~l~~~~~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          15 ALDDISLTVEKGEIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             eeeeeEEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            355554458999999999999999999998776643

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.

>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=97.22  E-value=0.0044  Score=54.44  Aligned_cols=36  Identities=19%  Similarity=0.436  Sum_probs=29.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        16 ~l~~i~l~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (166)
T cd03223          16 LLKDLSFEIKPGDRLLITGPSGTGKSSLFRALAGLW   51 (166)
T ss_pred             eeecCeEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            455554458999999999999999999998877654

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

>COG0444 DppD ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=97.21  E-value=0.0028  Score=60.48  Aligned_cols=184  Identities=15%  Similarity=0.150  Sum_probs=97.7

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHH----hCCCcEEEEeC---CCCHHHHH---HHHHHHhCCCC
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAI----ENKLPVAIFSM---EMSGIQLA---MRMLGSVGKLD  270 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~----~~g~~vl~~s~---E~~~~~i~---~R~~a~~~~i~  270 (452)
                      +..+|.+.-.+.+|+...|.|.+|+|||+++..++.-.-.    ..+..+.|-.-   .++.+++.   -+-++....-+
T Consensus        18 v~av~~vs~~i~~GE~lgiVGESGsGKS~~~~aim~llp~~~~~i~~G~i~f~g~~l~~l~~~~~~~iRG~~I~mIfQ~p   97 (316)
T COG0444          18 VKAVDGVSFELKKGEILGIVGESGSGKSVLAKAIMGLLPKPNARIVGGEILFDGKDLLSLSEKELRKIRGKEIAMIFQDP   97 (316)
T ss_pred             EEEEeceeEEEcCCcEEEEEcCCCCCHHHHHHHHHhccCCCCCeEeeeEEEECCcccccCCHHHHHhhcCceEEEEEcCc
Confidence            4567777556899999999999999999999988874421    01223443222   34444211   11111111111


Q ss_pred             ccc------c--------c-cCCC-Cc-chHHHHHHHHHHHhCC-C--eEEEcCCCCCHHHHHHHHHHHHHHcCCccEEE
Q psy2892         271 QHK------L--------R-TGRL-SS-DDWPRINDSIKKINKS-Q--LYIDETPSLNVIELRANSRRLSRQCGKIGVII  330 (452)
Q Consensus       271 ~~~------i--------~-~g~l-~~-~~~~~~~~a~~~l~~~-~--l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vv  330 (452)
                      ...      +        + .+.. +. +..++..+..+.+.=. +  ..-.....+|=......+-.+.-.. +|+++|
T Consensus        98 ~~sLnPv~~Ig~Qi~E~l~~h~~~~~~~ea~~~a~~~L~~Vgi~~~~~~~~~YPhelSGGMrQRV~IAmala~-~P~LlI  176 (316)
T COG0444          98 MTSLNPVMTIGDQIAEVLRLHGKGLSKKEAKERAIELLELVGIPDPERRLKSYPHELSGGMRQRVMIAMALAL-NPKLLI  176 (316)
T ss_pred             hhhcCChhhHHHHHHHHHHHhhcchhhHHHHHHHHHHHHHcCCCCHHHHHhhCCcccCCcHHHHHHHHHHHhC-CCCEEE
Confidence            000      0        0 0011 01 1112222222222100 0  1111112333222333333333334 499999


Q ss_pred             EcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         331 IDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       331 ID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      -|--+.       .-+.....++++-|+.+.+++|.++|+++|                |+   +-+.+.||.|..+|--
T Consensus       177 ADEPTT-------ALDvt~QaqIl~Ll~~l~~e~~~aiilITH----------------Dl---~vva~~aDri~VMYaG  230 (316)
T COG0444         177 ADEPTT-------ALDVTVQAQILDLLKELQREKGTALILITH----------------DL---GVVAEIADRVAVMYAG  230 (316)
T ss_pred             eCCCcc-------hhhHHHHHHHHHHHHHHHHhcCCEEEEEeC----------------CH---HHHHHhcceEEEEECc
Confidence            998542       122233468899999999999999999997                22   3577889999999865


Q ss_pred             c
Q psy2892         411 E  411 (452)
Q Consensus       411 ~  411 (452)
                      +
T Consensus       231 ~  231 (316)
T COG0444         231 R  231 (316)
T ss_pred             E
Confidence            4

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.21  E-value=0.0068  Score=54.42  Aligned_cols=158  Identities=16%  Similarity=0.189  Sum_probs=81.2

Q ss_pred             CccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC----CcEEEE-----eCCCCHHHHHHHHHHHhCCCC
Q psy2892         200 GFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK----LPVAIF-----SMEMSGIQLAMRMLGSVGKLD  270 (452)
Q Consensus       200 g~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g----~~vl~~-----s~E~~~~~i~~R~~a~~~~i~  270 (452)
                      ....|..+...++++.++.+.||+|+|||||+..+=.-.-.-.+    ..|+|.     +...+..++..|. .+...-+
T Consensus        19 ~~~aL~~i~l~i~~~~VTAlIGPSGcGKST~LR~lNRmndl~~~~r~~G~v~~~g~ni~~~~~d~~~lRr~v-GMVFQkP   97 (253)
T COG1117          19 DKHALKDINLDIPKNKVTALIGPSGCGKSTLLRCLNRMNDLIPGARVEGEVLLDGKNIYDPKVDVVELRRRV-GMVFQKP   97 (253)
T ss_pred             chhhhccCceeccCCceEEEECCCCcCHHHHHHHHHhhcccCcCceEEEEEEECCeeccCCCCCHHHHHHHh-eeeccCC
Confidence            34556666667999999999999999999998765443221111    234443     3445566666654 1221111


Q ss_pred             c---cccc---------cCCCCcchHHH-HHHHHHHHhCCCeE------EEcC-CCCCHHHHHH--HHHHHHHHcCCccE
Q psy2892         271 Q---HKLR---------TGRLSSDDWPR-INDSIKKINKSQLY------IDET-PSLNVIELRA--NSRRLSRQCGKIGV  328 (452)
Q Consensus       271 ~---~~i~---------~g~l~~~~~~~-~~~a~~~l~~~~l~------i~~~-~~~t~~~i~~--~i~~~~~~~~~~~~  328 (452)
                      .   ..|.         .|..+ .+++. +..+   |+...+|      +.++ .++|=.+-..  .+|.+.  . +|++
T Consensus        98 nPFp~SIydNVayG~r~~g~~~-~~ldeiVe~s---Lk~AaLWdEVKDrL~~sa~~LSGGQQQRLcIARalA--v-~PeV  170 (253)
T COG1117          98 NPFPMSIYDNVAYGLRLHGIKD-KELDEIVESS---LKKAALWDEVKDRLHKSALGLSGGQQQRLCIARALA--V-KPEV  170 (253)
T ss_pred             CCCCchHHHHHHHhHHhhccch-HHHHHHHHHH---HHHhHhHHHhHHHhhCCccCCChhHHHHHHHHHHHh--c-CCcE
Confidence            0   0111         12222 22221 1222   1111222      1111 1334333322  222222  2 5999


Q ss_pred             EEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         329 IIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       329 vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                      +..|--..--.+    -....+.+++..||     .+.+||++.|-
T Consensus       171 lLmDEPtSALDP----IsT~kIEeLi~eLk-----~~yTIviVTHn  207 (253)
T COG1117         171 LLMDEPTSALDP----ISTLKIEELITELK-----KKYTIVIVTHN  207 (253)
T ss_pred             EEecCcccccCc----hhHHHHHHHHHHHH-----hccEEEEEeCC
Confidence            999986543332    24456778888887     46677777763

>PRK06762 hypothetical protein; Provisional

Probab=97.21  E-value=0.006  Score=53.42  Aligned_cols=33  Identities=27%  Similarity=0.417  Sum_probs=27.0

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      .+++|+|.||+||||++..++...    +..+.+++.
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l----~~~~~~i~~   35 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERL----GRGTLLVSQ   35 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh----CCCeEEecH
Confidence            489999999999999999998765    335777753

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.21  E-value=0.0041  Score=56.60  Aligned_cols=35  Identities=20%  Similarity=0.335  Sum_probs=28.8

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        16 ~l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~   50 (204)
T PRK13538         16 LFSGLSFTLNAGELVQIEGPNGAGKTSLLRILAGL   50 (204)
T ss_pred             EEecceEEECCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            45555446899999999999999999999877654

>PRK13409 putative ATPase RIL; Provisional

Probab=97.20  E-value=0.0051  Score=65.17  Aligned_cols=164  Identities=15%  Similarity=0.163  Sum_probs=86.5

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC-----CcEEEEeCC------CCHHHHHHHHHHHhCCCCcc
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK-----LPVAIFSME------MSGIQLAMRMLGSVGKLDQH  272 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g-----~~vl~~s~E------~~~~~i~~R~~a~~~~i~~~  272 (452)
                      |+.+..-+.+|+++.|.|++|+|||||+.-++-..--..|     .++.|+.-+      ++..+......   .     
T Consensus       355 l~~~s~~i~~Geiv~l~G~NGsGKSTLlk~L~Gl~~p~~G~I~~~~~i~y~~Q~~~~~~~~tv~e~l~~~~---~-----  426 (590)
T PRK13409        355 LEVEGGEIYEGEVIGIVGPNGIGKTTFAKLLAGVLKPDEGEVDPELKISYKPQYIKPDYDGTVEDLLRSIT---D-----  426 (590)
T ss_pred             EEecceEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEEeeeEEEecccccCCCCCcHHHHHHHHh---h-----
Confidence            4433345789999999999999999999888754321122     123333222      22222211100   0     


Q ss_pred             ccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHH
Q psy2892         273 KLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISE  352 (452)
Q Consensus       273 ~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~  352 (452)
                           ..... + ...++++.+.-..+.-.....+|-.+.....-...-.. +++++++|--..      +-+ ......
T Consensus       427 -----~~~~~-~-~~~~~L~~l~l~~~~~~~~~~LSGGe~QRvaiAraL~~-~p~llLLDEPt~------~LD-~~~~~~  491 (590)
T PRK13409        427 -----DLGSS-Y-YKSEIIKPLQLERLLDKNVKDLSGGELQRVAIAACLSR-DADLYLLDEPSA------HLD-VEQRLA  491 (590)
T ss_pred             -----hcChH-H-HHHHHHHHCCCHHHHhCCcccCCHHHHHHHHHHHHHhc-CCCEEEEeCCcc------CCC-HHHHHH
Confidence                 00001 1 11222222210011001123456555544322222223 499999998532      122 223457


Q ss_pred             HHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         353 ISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       353 i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      +.+.|+.++++.+.+||+++|--.                   .+.+.||.++.+..
T Consensus       492 l~~~l~~l~~~~g~tviivsHD~~-------------------~~~~~aDrvivl~~  529 (590)
T PRK13409        492 VAKAIRRIAEEREATALVVDHDIY-------------------MIDYISDRLMVFEG  529 (590)
T ss_pred             HHHHHHHHHHhCCCEEEEEeCCHH-------------------HHHHhCCEEEEEcC
Confidence            788899999888999999988321                   24556788877754

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=97.19  E-value=0.0065  Score=55.98  Aligned_cols=61  Identities=16%  Similarity=0.296  Sum_probs=40.5

Q ss_pred             CccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHHHH
Q psy2892         200 GFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAMRM  262 (452)
Q Consensus       200 g~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~R~  262 (452)
                      +...+|++.--+.+|+++++.|++|+||||.+.-|-. +. +....-++|..|    ++..++..++
T Consensus        13 ~~~av~~v~l~I~~gef~vliGpSGsGKTTtLkMINr-Li-ept~G~I~i~g~~i~~~d~~~LRr~I   77 (309)
T COG1125          13 NKKAVDDVNLTIEEGEFLVLIGPSGSGKTTTLKMINR-LI-EPTSGEILIDGEDISDLDPVELRRKI   77 (309)
T ss_pred             CceeeeeeeEEecCCeEEEEECCCCCcHHHHHHHHhc-cc-CCCCceEEECCeecccCCHHHHHHhh
Confidence            5567788766799999999999999999998764433 32 232334455444    3445555554

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=97.19  E-value=0.0021  Score=58.36  Aligned_cols=35  Identities=20%  Similarity=0.353  Sum_probs=28.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-.
T Consensus        15 ~l~~is~~i~~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          15 ILKGVNLTIKKGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             eeeccceEECCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            45555445899999999999999999999887764

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.

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.18  E-value=0.0064  Score=52.70  Aligned_cols=143  Identities=15%  Similarity=0.187  Sum_probs=80.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEE---EeC--CCCHHHHHHHHHHHhCCCCccccccCC-CCcchHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAI---FSM--EMSGIQLAMRMLGSVGKLDQHKLRTGR-LSSDDWPRIND  289 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~---~s~--E~~~~~i~~R~~a~~~~i~~~~i~~g~-l~~~~~~~~~~  289 (452)
                      ++.|...+|.|||+.|+.++..++ .+|.+|+|   +..  +........++    .++.......+. +..++...-.+
T Consensus         4 ~i~vy~g~G~Gkt~~a~g~~~ra~-~~g~~v~~vQFlKg~~~~gE~~~l~~l----~~v~~~~~g~~~~~~~~~~~~~~~   78 (159)
T cd00561           4 LIQVYTGNGKGKTTAALGLALRAL-GHGYRVGVVQFLKGGWKYGELKALERL----PNIEIHRMGRGFFWTTENDEEDIA   78 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEEEeCCCCccCHHHHHHhC----CCcEEEECCCCCccCCCChHHHHH
Confidence            778888889999999999999998 57999999   444  34444444443    344443332221 11111100000


Q ss_pred             HHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEE
Q psy2892         290 SIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPIL  369 (452)
Q Consensus       290 a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi  369 (452)
                      +                  ..+..+.+++.... +.+|+||+|-+.....-+  .-.   ...+...|+.  +--++.||
T Consensus        79 ~------------------a~~~~~~a~~~~~~-~~~dLlVLDEi~~a~~~g--li~---~~~v~~ll~~--rp~~~evI  132 (159)
T cd00561          79 A------------------AAEGWAFAKEAIAS-GEYDLVILDEINYALGYG--LLD---VEEVVDLLKA--KPEDLELV  132 (159)
T ss_pred             H------------------HHHHHHHHHHHHhc-CCCCEEEEechHhHhhCC--CCC---HHHHHHHHHc--CCCCCEEE
Confidence            0                  11222333344443 359999999998764332  111   2344455553  34467888


Q ss_pred             EEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEE
Q psy2892         370 ALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFI  407 (452)
Q Consensus       370 ~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l  407 (452)
                      ++..-.                  +..+-..||.|--+
T Consensus       133 lTGr~~------------------p~~l~e~AD~VTEm  152 (159)
T cd00561         133 LTGRNA------------------PKELIEAADLVTEM  152 (159)
T ss_pred             EECCCC------------------CHHHHHhCceeeec
Confidence            875321                  23566778887655

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.

>KOG0733|consensus

Probab=97.18  E-value=0.0013  Score=67.15  Aligned_cols=116  Identities=16%  Similarity=0.344  Sum_probs=67.5

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      |+.|-.=+++-||||+|||.||..+|.++    |.|  |++.-  ..++    +   +|++..                 
T Consensus       219 Gv~PprGvLlHGPPGCGKT~lA~AiAgel----~vP--f~~is--Apei----v---SGvSGE-----------------  266 (802)
T KOG0733|consen  219 GVRPPRGVLLHGPPGCGKTSLANAIAGEL----GVP--FLSIS--APEI----V---SGVSGE-----------------  266 (802)
T ss_pred             CCCCCCceeeeCCCCccHHHHHHHHhhhc----CCc--eEeec--chhh----h---cccCcc-----------------
Confidence            67666669999999999999998888654    333  33332  2222    2   222211                 


Q ss_pred             HHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCC---HHHHHHHHHHHHHHHHH--Hh
Q psy2892         290 SIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGEN---RATEISEISRNLKGLAK--EI  364 (452)
Q Consensus       290 a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~---~~~~~~~i~~~Lk~lA~--~~  364 (452)
                                        +-..|++..+..+. + -|.+||||.|..+.+......   ++..+.+++..+..+..  ..
T Consensus       267 ------------------SEkkiRelF~~A~~-~-aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~  326 (802)
T KOG0733|consen  267 ------------------SEKKIRELFDQAKS-N-APCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTK  326 (802)
T ss_pred             ------------------cHHHHHHHHHHHhc-c-CCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccC
Confidence                              11223333323222 2 489999999999987642111   12223444444444433  24


Q ss_pred             CCcEEEEecCCcc
Q psy2892         365 NCPILALSQLNRS  377 (452)
Q Consensus       365 ~i~vi~l~ql~r~  377 (452)
                      |-+|+++.-.||-
T Consensus       327 g~~VlVIgATnRP  339 (802)
T KOG0733|consen  327 GDPVLVIGATNRP  339 (802)
T ss_pred             CCCeEEEecCCCC
Confidence            7899999988874

>PRK03695 vitamin B12-transporter ATPase; Provisional

Probab=97.18  E-value=0.0054  Score=57.66  Aligned_cols=35  Identities=14%  Similarity=0.405  Sum_probs=28.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--
T Consensus        11 ~l~~vsl~i~~Gei~~l~G~nGsGKSTLl~~l~Gl   45 (248)
T PRK03695         11 RLGPLSAEVRAGEILHLVGPNGAGKSTLLARMAGL   45 (248)
T ss_pred             eecceEEEEcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            35555445899999999999999999999877653

>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

Probab=97.18  E-value=0.0012  Score=58.28  Aligned_cols=39  Identities=18%  Similarity=0.451  Sum_probs=34.7

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG  255 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~  255 (452)
                      +.+..+-+|+|||+++.++|..++. .|++|+.+.++...
T Consensus         2 i~v~s~kgG~GKTt~a~~LA~~la~-~g~~vllvD~D~q~   40 (169)
T cd02037           2 IAVMSGKGGVGKSTVAVNLALALAK-LGYKVGLLDADIYG   40 (169)
T ss_pred             EEEecCCCcCChhHHHHHHHHHHHH-cCCcEEEEeCCCCC
Confidence            5678899999999999999999985 79999999998654

Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.18  E-value=0.0032  Score=64.26  Aligned_cols=37  Identities=24%  Similarity=0.371  Sum_probs=30.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHh-CCCcEEEEeCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIE-NKLPVAIFSME  252 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~-~g~~vl~~s~E  252 (452)
                      -.+|.|+||+|||.|+..++..+... .+.+|+|++.+
T Consensus       132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~  169 (440)
T PRK14088        132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSE  169 (440)
T ss_pred             eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHH
Confidence            48999999999999999999887543 25689999875

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=97.17  E-value=0.0071  Score=54.89  Aligned_cols=36  Identities=19%  Similarity=0.247  Sum_probs=28.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..
T Consensus        15 ~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (201)
T cd03231          15 LFSGLSFTLAAGEALQVTGPNGSGKTTLLRILAGLS   50 (201)
T ss_pred             eeccceEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            355554458899999999999999999987666543

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.

>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=97.17  E-value=0.0024  Score=55.49  Aligned_cols=36  Identities=22%  Similarity=0.470  Sum_probs=28.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||+|+.-++...
T Consensus        14 ~l~~~~~~i~~g~~~~i~G~nGsGKStll~~l~g~~   49 (157)
T cd00267          14 ALDNVSLTLKAGEIVALVGPNGSGKSTLLRAIAGLL   49 (157)
T ss_pred             eEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            344443358999999999999999999998876543

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.

>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=97.17  E-value=0.0016  Score=60.24  Aligned_cols=35  Identities=14%  Similarity=0.240  Sum_probs=27.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      -++|.|++|+|||+|++.+..+..  ...+.+|+..+
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~~--~~f~~I~l~t~   49 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYLR--HKFDHIFLITP   49 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhc--ccCCEEEEEec
Confidence            478999999999999999998864  34556665544

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

>PRK10261 glutathione transporter ATP-binding protein; Provisional

Probab=97.17  E-value=0.0096  Score=63.78  Aligned_cols=180  Identities=14%  Similarity=0.092  Sum_probs=89.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC---CCHHHHHH--HHHHHhCCCCcccccc-
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME---MSGIQLAM--RMLGSVGKLDQHKLRT-  276 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E---~~~~~i~~--R~~a~~~~i~~~~i~~-  276 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--.- -....|.|..-+   ++..+...  +-++....-+...+.. 
T Consensus       339 ~l~~vs~~i~~Ge~~~lvG~nGsGKSTLlk~i~Gl~~-p~~G~I~~~g~~i~~~~~~~~~~~~~~i~~v~Q~~~~~l~~~  417 (623)
T PRK10261        339 AVEKVSFDLWPGETLSLVGESGSGKSTTGRALLRLVE-SQGGEIIFNGQRIDTLSPGKLQALRRDIQFIFQDPYASLDPR  417 (623)
T ss_pred             EEeeeEeEEcCCCEEEEECCCCCCHHHHHHHHHcCCC-CCCcEEEECCEECCcCCHHHHHHhcCCeEEEecCchhhcCCC
Confidence            4666644688999999999999999999987774331 112234332211   12221111  1111111100000000 


Q ss_pred             --------------CCCCc-chHHHHHHHHHHHhCCCeEEE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         277 --------------GRLSS-DDWPRINDSIKKINKSQLYID-ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       277 --------------g~l~~-~~~~~~~~a~~~l~~~~l~i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                                    +.... +...++.+..+.+.-.+-+.. ....+|-.+-...+-...-.. +++++|+|.-..-   
T Consensus       418 ~tv~~~l~~~~~~~~~~~~~~~~~~~~~~L~~~gL~~~~~~~~~~~LSgGqrQRv~iAraL~~-~p~llllDEPts~---  493 (623)
T PRK10261        418 QTVGDSIMEPLRVHGLLPGKAAAARVAWLLERVGLLPEHAWRYPHEFSGGQRQRICIARALAL-NPKVIIADEAVSA---  493 (623)
T ss_pred             CCHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHcCCCHHHhhCCcccCCHHHHHHHHHHHHHhc-CCCEEEEeCCccc---
Confidence                          10111 111222233332211000111 123556554443322222223 4999999985421   


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         341 SRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       341 ~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                         -+ ......+.+.|+.++++++.+||+++|--.                   .+.+.||.|++|+..
T Consensus       494 ---LD-~~~~~~i~~ll~~l~~~~g~tvi~isHdl~-------------------~v~~~~dri~vl~~G  540 (623)
T PRK10261        494 ---LD-VSIRGQIINLLLDLQRDFGIAYLFISHDMA-------------------VVERISHRVAVMYLG  540 (623)
T ss_pred             ---CC-HHHHHHHHHHHHHHHHhcCCEEEEEeCCHH-------------------HHHHhCCEEEEEECC
Confidence               12 223457778888888888999999998422                   245567777777543

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

Probab=97.16  E-value=0.0026  Score=56.53  Aligned_cols=41  Identities=17%  Similarity=0.232  Sum_probs=27.2

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      .+..++|.|++|+|||+++..++..+....+. ++++.+...
T Consensus        23 ~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~-~~~~~~~~~   63 (185)
T PF13191_consen   23 SPRNLLLTGESGSGKTSLLRALLDRLAERGGY-VISINCDDS   63 (185)
T ss_dssp             ----EEE-B-TTSSHHHHHHHHHHHHHHHT---EEEEEEETT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHhcCCE-EEEEEEecc
Confidence            44689999999999999999999988765334 666666555

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

Probab=97.16  E-value=0.0032  Score=63.23  Aligned_cols=29  Identities=28%  Similarity=0.597  Sum_probs=24.5

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      |+.++.-+++.|+||+|||+++..+|...
T Consensus       175 Gl~~pkgvLL~GppGTGKT~LAkalA~~l  203 (398)
T PTZ00454        175 GIDPPRGVLLYGPPGTGKTMLAKAVAHHT  203 (398)
T ss_pred             CCCCCceEEEECCCCCCHHHHHHHHHHhc
Confidence            57777779999999999999998887653

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=97.15  E-value=0.008  Score=55.90  Aligned_cols=36  Identities=19%  Similarity=0.325  Sum_probs=29.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--.
T Consensus        17 ~l~~i~~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (234)
T cd03251          17 VLRDISLDIPAGETVALVGPSGSGKSTLVNLIPRFY   52 (234)
T ss_pred             ceeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            455554458999999999999999999998776554

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.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=97.14  E-value=0.0085  Score=54.75  Aligned_cols=34  Identities=26%  Similarity=0.381  Sum_probs=27.6

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+| ++.|.|++|+|||||+.-++--
T Consensus        15 ~l~~vs~~i~~g-~~~i~G~nGsGKSTLl~~l~Gl   48 (211)
T cd03264          15 ALDGVSLTLGPG-MYGLLGPNGAGKTTLMRILATL   48 (211)
T ss_pred             EEcceeEEEcCC-cEEEECCCCCCHHHHHHHHhCC
Confidence            455554457889 9999999999999999887754

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.

>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=0.0034  Score=56.02  Aligned_cols=36  Identities=14%  Similarity=0.249  Sum_probs=29.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++-..
T Consensus        15 ~l~~vs~~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (182)
T cd03215          15 AVRDVSFEVRAGEIVGIAGLVGNGQTELAEALFGLR   50 (182)
T ss_pred             eecceEEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            566664568999999999999999999998777654

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.

>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=97.14  E-value=0.00048  Score=63.57  Aligned_cols=141  Identities=18%  Similarity=0.216  Sum_probs=68.3

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC-CCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM-EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSI  291 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~-E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~  291 (452)
                      ++..++|.|+.|+|||+++..++... .+.+..++|+.. +.........++.      ..         .....+.++.
T Consensus        19 ~~~~~~l~G~rg~GKTsLl~~~~~~~-~~~~~~~~y~~~~~~~~~~~~~~~~~------~~---------~~~~~l~~~~   82 (234)
T PF01637_consen   19 PSQHILLYGPRGSGKTSLLKEFINEL-KEKGYKVVYIDFLEESNESSLRSFIE------ET---------SLADELSEAL   82 (234)
T ss_dssp             -SSEEEEEESTTSSHHHHHHHHHHHC-T--EECCCHHCCTTBSHHHHHHHHHH------HH---------HHHCHCHHHH
T ss_pred             cCcEEEEEcCCcCCHHHHHHHHHHHh-hhcCCcEEEEecccchhhhHHHHHHH------HH---------HHHHHHHHHH
Confidence            35689999999999999998888766 334556777654 4444444444321      00         0000111111


Q ss_pred             H-HHhCCCe-EEE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcE
Q psy2892         292 K-KINKSQL-YID-ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPI  368 (452)
Q Consensus       292 ~-~l~~~~l-~i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~v  368 (452)
                      . .+....+ .+. +........+...++.+..... .-+||||.++.+....  ......+..+...+..++...++.+
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~-~~iiviDe~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~~~  159 (234)
T PF01637_consen   83 GISIPSITLEKISKDLSEDSFSALERLLEKLKKKGK-KVIIVIDEFQYLAIAS--EEDKDFLKSLRSLLDSLLSQQNVSI  159 (234)
T ss_dssp             HHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHC-CEEEEEETGGGGGBCT--TTTHHHHHHHHHHHHH----TTEEE
T ss_pred             hhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCC-cEEEEEecHHHHhhcc--cchHHHHHHHHHHHhhccccCCceE
Confidence            1 1111111 111 1111223345555555554433 4899999999998211  1223334455555555555666666


Q ss_pred             EEEe
Q psy2892         369 LALS  372 (452)
Q Consensus       369 i~l~  372 (452)
                      |++.
T Consensus       160 v~~~  163 (234)
T PF01637_consen  160 VITG  163 (234)
T ss_dssp             EEEE
T ss_pred             EEEC
Confidence            6554

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

>PRK09183 transposase/IS protein; Provisional

Probab=97.14  E-value=0.00069  Score=64.09  Aligned_cols=40  Identities=18%  Similarity=0.390  Sum_probs=35.1

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +.+|+.++|.|+||+|||+++..++..+. ..|.+|+|++.
T Consensus        99 i~~~~~v~l~Gp~GtGKThLa~al~~~a~-~~G~~v~~~~~  138 (259)
T PRK09183         99 IERNENIVLLGPSGVGKTHLAIALGYEAV-RAGIKVRFTTA  138 (259)
T ss_pred             hhcCCeEEEEeCCCCCHHHHHHHHHHHHH-HcCCeEEEEeH
Confidence            57789999999999999999999987765 47899999974

>TIGR01186 proV glycine betaine/L-proline transport ATP binding subunit

Probab=97.13  E-value=0.0086  Score=59.44  Aligned_cols=161  Identities=13%  Similarity=0.137  Sum_probs=80.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHH---HHHHHHhC---CCCc-
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLA---MRMLGSVG---KLDQ-  271 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~---~R~~a~~~---~i~~-  271 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--.-- ....| ++..+    ++..++.   .|.++...   ++-. 
T Consensus         8 ~l~~vs~~i~~Gei~~l~G~sGsGKSTLLr~L~Gl~~p-~~G~I-~i~G~~i~~~~~~~~~~~rr~~i~~v~Q~~~l~~~   85 (363)
T TIGR01186         8 GVNDADLAIAKGEIFVIMGLSGSGKSTTVRMLNRLIEP-TAGQI-FIDGENIMKQSPVELREVRRKKIGMVFQQFALFPH   85 (363)
T ss_pred             eEEeeEEEEcCCCEEEEECCCCChHHHHHHHHhCCCCC-CceEE-EECCEECCcCCHHHHHHHHhCcEEEEECCCcCCCC
Confidence            45666446899999999999999999999877765421 12223 33222    2333221   11111100   0000 


Q ss_pred             ccccc--------CCCCcch-HHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         272 HKLRT--------GRLSSDD-WPRINDSIKKINKSQLYIDE-TPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       272 ~~i~~--------g~l~~~~-~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      ..+.+        ...+.++ .+++.++++.+. ..-+... ...+|-.+-..  .++.+.  . +++++++|.-..-  
T Consensus        86 ~TV~eNi~~~~~~~~~~~~~~~~~~~~~l~~vg-L~~~~~~~p~~LSGGq~QRV~lARAL~--~-~p~iLLlDEP~sa--  159 (363)
T TIGR01186        86 MTILQNTSLGPELLGWPEQERKEKALELLKLVG-LEEYEHRYPDELSGGMQQRVGLARALA--A-EPDILLMDEAFSA--  159 (363)
T ss_pred             CCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcC-CchhhhCChhhCCHHHHHHHHHHHHHh--c-CCCEEEEeCCccc--
Confidence            00000        0111111 122333333221 1112222 22455444333  333343  2 4999999985321  


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCc
Q psy2892         340 NSRGENRATEISEISRNLKGLAKEINCPILALSQLNR  376 (452)
Q Consensus       340 ~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r  376 (452)
                          -+. .....+.+.|+.+.++.+.+||+++|--.
T Consensus       160 ----LD~-~~r~~l~~~l~~l~~~~~~Tii~vTHd~~  191 (363)
T TIGR01186       160 ----LDP-LIRDSMQDELKKLQATLQKTIVFITHDLD  191 (363)
T ss_pred             ----CCH-HHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence                121 22346677778887788999998887544

This model describes the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. 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. Functionally, this transport system is involved in osmoregulation. Under conditions of stress, the organism recruits these transport system to accumulate glycine betaine and other solutes which offer osmo-protection. It has been demonstrated that glycine betaine uptake is accompanied by symport with sodium ions. The locus has been named variously as proU or opuA. A gene library from L.lact

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=97.12  E-value=0.019  Score=54.33  Aligned_cols=36  Identities=14%  Similarity=0.245  Sum_probs=29.8

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        28 il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   63 (260)
T PRK10744         28 ALKNINLDIAKNQVTAFIGPSGCGKSTLLRTFNRMY   63 (260)
T ss_pred             EeeceeEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            456654468999999999999999999999887543

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=97.12  E-value=0.0086  Score=54.44  Aligned_cols=36  Identities=19%  Similarity=0.371  Sum_probs=29.6

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        20 il~~~s~~i~~G~~~~i~G~nG~GKSTLl~~i~G~~   55 (204)
T cd03250          20 TLKDINLEVPKGELVAIVGPVGSGKSSLLSALLGEL   55 (204)
T ss_pred             eeeeeeEEECCCCEEEEECCCCCCHHHHHHHHhCcC
Confidence            455554468999999999999999999998877644

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.

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=97.12  E-value=0.0036  Score=65.41  Aligned_cols=36  Identities=17%  Similarity=0.320  Sum_probs=29.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        20 il~~vs~~i~~Ge~~~liG~nGsGKSTLl~~i~Gl~   55 (510)
T PRK09700         20 ALKSVNLTVYPGEIHALLGENGAGKSTLMKVLSGIH   55 (510)
T ss_pred             EeeeeeEEEcCCcEEEEECCCCCCHHHHHHHHcCCc
Confidence            456664568999999999999999999998776543

>PF09807 DUF2348: Uncharacterized conserved protein (DUF2348); InterPro: IPR018627 Members of this family of putative uncharacterised proteins have no known function

Probab=97.12  E-value=0.0072  Score=56.68  Aligned_cols=185  Identities=14%  Similarity=0.173  Sum_probs=114.8

Q ss_pred             CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccc-cCCCCcchHHHH
Q psy2892         209 SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLR-TGRLSSDDWPRI  287 (452)
Q Consensus       209 gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~-~g~l~~~~~~~~  287 (452)
                      +..++|.+++|... ++.=|.+..++..... +.|.+|+|+++..+..-.. + .+...|++..... +|.+.--|.  +
T Consensus        14 ~~~~~g~~ili~d~-~~dgsFLlh~~L~~~L-k~~~~V~fv~~~q~~~HY~-~-v~~KLG~NL~~~~~~gql~fiD~--l   87 (249)
T PF09807_consen   14 DSVPPGKLILIEDC-ETDGSFLLHHFLSQYL-KAGCKVCFVAFSQSFSHYN-N-VAQKLGVNLSAAKEKGQLVFIDG--L   87 (249)
T ss_pred             CCCCCCeEEEEEcC-CCCchhHHHHHHHHHh-cCCCcEEEEEccCCHHHHH-H-HHHhhEecchHhccCCcEEEeeh--h
Confidence            45779999999999 8877777777777665 5889999999999865432 2 2233577776543 344432221  1


Q ss_pred             HHHHHHHhC-----C--Ce-EEEcCCCCCHHHHHHHHHHHHHHc--CCccEEEEcCcchhccCCCCCCHHHHHHHHHHHH
Q psy2892         288 NDSIKKINK-----S--QL-YIDETPSLNVIELRANSRRLSRQC--GKIGVIIIDYLQLMSANSRGENRATEISEISRNL  357 (452)
Q Consensus       288 ~~a~~~l~~-----~--~l-~i~~~~~~t~~~i~~~i~~~~~~~--~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~L  357 (452)
                      ......+.+     .  ++ ++.....-.+..+.+.|+......  ++..+||||.+..+...+  -.. .++-.+++.+
T Consensus        88 ~~~~~~l~~~~~~~~~~~~~~l~~~~~~~L~~L~~~I~~~l~~~~~~~~~~liIDdls~Ll~lG--~s~-~~vldF~~yc  164 (249)
T PF09807_consen   88 KSSLDLLFDEDSSDEPNPLKFLREDNASSLRSLYEFIQEALSPADSNGSVVLIIDDLSVLLSLG--VSS-NDVLDFIHYC  164 (249)
T ss_pred             hhhhhhhhccccccCCccccccccCCcchHHHHHHHHHHHHhhccCCCCeEEEEeCHHHHHHcC--CCH-HHHHHHHHHH
Confidence            111112111     1  12 222222234667766666655442  247899999999988743  222 3466788999


Q ss_pred             H-HHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         358 K-GLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       358 k-~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      + .++.+.++.++++.|..-....   ..+  ..+  ...+.+.||.++.+..
T Consensus       165 ra~l~~~~~~~lVvl~h~d~~~~~---e~~--~~l--~~~L~h~a~l~i~v~~  210 (249)
T PF09807_consen  165 RATLCSESNGSLVVLVHCDIDDED---EEN--DLL--LNSLAHMADLVITVEP  210 (249)
T ss_pred             HHHhccccCCCEEEEEecCCCCcc---chH--HHH--HHHHHHHhcEEEEecC
Confidence            8 5888888888888887643211   111  012  4578999999998854

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=97.12  E-value=0.0021  Score=61.39  Aligned_cols=35  Identities=14%  Similarity=0.202  Sum_probs=28.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        22 il~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   56 (272)
T PRK15056         22 ALRDASFTVPGGSIAALVGVNGSGKSTLFKALMGF   56 (272)
T ss_pred             EEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            45655445889999999999999999999877654

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=97.12  E-value=0.01  Score=54.78  Aligned_cols=36  Identities=14%  Similarity=0.337  Sum_probs=29.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        23 il~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   58 (224)
T TIGR02324        23 VLKNVSLTVNAGECVALSGPSGAGKSTLLKSLYANY   58 (224)
T ss_pred             EEecceEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455554458899999999999999999998776543

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

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

Probab=97.12  E-value=0.0036  Score=58.70  Aligned_cols=59  Identities=15%  Similarity=0.242  Sum_probs=40.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC-CCc-EEEEeCC--CCHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN-KLP-VAIFSME--MSGIQLAMRM  262 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~-g~~-vl~~s~E--~~~~~i~~R~  262 (452)
                      .+|-++ .+.+|+-++|.|++|+|||+++..++.+...+. +.. +++++.|  .+..++...+
T Consensus         6 ~id~~~-~i~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~er~~ev~el~~~I   68 (249)
T cd01128           6 VVDLFA-PIGKGQRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDERPEEVTDMQRSV   68 (249)
T ss_pred             heeeec-ccCCCCEEEEECCCCCCHHHHHHHHHhccccccCCeEEEEEEccCCCccHHHHHHHh
Confidence            345442 578999999999999999999988887764321 123 3344666  4555555554

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.

>PRK15134 microcin C ABC transporter ATP-binding protein YejF; Provisional

Probab=97.11  E-value=0.012  Score=61.70  Aligned_cols=175  Identities=15%  Similarity=0.127  Sum_probs=90.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHH--HHHHHHhCCCC------
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLA--MRMLGSVGKLD------  270 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~--~R~~a~~~~i~------  270 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--. ...| .|. +..+    .+..+..  .+.++....-+      
T Consensus       301 il~~isl~i~~Ge~~~i~G~nGsGKSTLlk~l~Gl~-~~~G-~i~-~~g~~i~~~~~~~~~~~~~~i~~v~q~~~~~l~~  377 (529)
T PRK15134        301 VVKNISFTLRPGETLGLVGESGSGKSTTGLALLRLI-NSQG-EIW-FDGQPLHNLNRRQLLPVRHRIQVVFQDPNSSLNP  377 (529)
T ss_pred             eeecceeEEcCCCEEEEECCCCCCHHHHHHHHhCcC-CCCc-EEE-ECCEEccccchhhHHHhhhceEEEEeCchhhcCC
Confidence            466664468999999999999999999998887543 2222 233 3221    1111111  11111110000      


Q ss_pred             ---ccc-cc-----cC-CCCcch-HHHHHHHHHHHhCCCeE---EE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcc
Q psy2892         271 ---QHK-LR-----TG-RLSSDD-WPRINDSIKKINKSQLY---ID-ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQ  335 (452)
Q Consensus       271 ---~~~-i~-----~g-~l~~~~-~~~~~~a~~~l~~~~l~---i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~  335 (452)
                         ... +.     .+ .++..+ ..++.+.++.+   .+.   .. ....+|-.+-...+-...-.. +++++++|.-.
T Consensus       378 ~~tv~e~l~~~~~~~~~~~~~~~~~~~~~~~l~~~---~l~~~~~~~~~~~LSgG~~qrv~la~al~~-~p~llllDEPt  453 (529)
T PRK15134        378 RLNVLQIIEEGLRVHQPTLSAAQREQQVIAVMEEV---GLDPETRHRYPAEFSGGQRQRIAIARALIL-KPSLIILDEPT  453 (529)
T ss_pred             cccHHHHHHHHHHhccccCChHHHHHHHHHHHHHc---CCCHHHHhcCCccCCHHHHHHHHHHHHHhC-CCCEEEeeCCc
Confidence               000 00     00 011111 12222333322   221   11 123556554443322222223 49999999854


Q ss_pred             hhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         336 LMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       336 ~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      .-      -+ ......+...|+.++++.+.+||+++|--.                   .+...||.+++|+..
T Consensus       454 ~~------LD-~~~~~~l~~~l~~~~~~~~~tvi~vsHd~~-------------------~~~~~~d~i~~l~~G  502 (529)
T PRK15134        454 SS------LD-KTVQAQILALLKSLQQKHQLAYLFISHDLH-------------------VVRALCHQVIVLRQG  502 (529)
T ss_pred             cc------cC-HHHHHHHHHHHHHHHHhhCCEEEEEeCCHH-------------------HHHHhcCeEEEEECC
Confidence            21      12 223456778888888888999999988322                   255678999998643

>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=97.11  E-value=0.0029  Score=55.97  Aligned_cols=36  Identities=19%  Similarity=0.399  Sum_probs=29.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        17 ~l~~~~~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          17 VLRNVSFSIEPGESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             ceeeeEEEECCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            445554458899999999999999999999887654

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

>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=97.11  E-value=0.0043  Score=59.26  Aligned_cols=36  Identities=22%  Similarity=0.485  Sum_probs=29.8

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        17 ~l~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (274)
T PRK13644         17 ALENINLVIKKGEYIGIIGKNGSGKSTLALHLNGLL   52 (274)
T ss_pred             eeeeeEEEEeCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            466664468999999999999999999998887643

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

Probab=97.10  E-value=0.0013  Score=62.56  Aligned_cols=54  Identities=17%  Similarity=0.230  Sum_probs=34.7

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEE-EeCCCCHHHHHHHHHHHhCCCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAI-FSMEMSGIQLAMRMLGSVGKLD  270 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~-~s~E~~~~~i~~R~~a~~~~i~  270 (452)
                      .+++|.|++|+|||+++..++..... .+..+.+ +....+..++...+. ...|++
T Consensus        44 ~~~~l~G~~G~GKTtl~~~l~~~l~~-~~~~~~~~~~~~~~~~~~l~~i~-~~lG~~   98 (269)
T TIGR03015        44 GFILITGEVGAGKTTLIRNLLKRLDQ-ERVVAAKLVNTRVDAEDLLRMVA-ADFGLE   98 (269)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHhcCC-CCeEEeeeeCCCCCHHHHHHHHH-HHcCCC
Confidence            38999999999999999999776532 2222222 445566666654443 334544

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.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=97.10  E-value=0.00089  Score=59.34  Aligned_cols=40  Identities=25%  Similarity=0.425  Sum_probs=34.9

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ++|++++|.|.||+||||++..++.... ..|..+.+++.+
T Consensus         2 ~~g~~i~~~G~~GsGKST~a~~la~~l~-~~g~~v~~id~D   41 (175)
T PRK00889          2 QRGVTVWFTGLSGAGKTTIARALAEKLR-EAGYPVEVLDGD   41 (175)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEcCc
Confidence            5799999999999999999999999885 357789888765

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=97.09  E-value=0.0018  Score=59.30  Aligned_cols=174  Identities=18%  Similarity=0.198  Sum_probs=92.4

Q ss_pred             cCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC-----CcEEE-------EeCCCCHHHHHHHHHHHh
Q psy2892         199 TGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK-----LPVAI-------FSMEMSGIQLAMRMLGSV  266 (452)
Q Consensus       199 tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g-----~~vl~-------~s~E~~~~~i~~R~~a~~  266 (452)
                      .-+..|+++.--+.+|+-+-|.|++|+||||++.=++--.--..|     .+|.+       |..|.+..+-. ++.+.+
T Consensus        38 ~~~~aL~disf~i~~Ge~vGiiG~NGaGKSTLlkliaGi~~Pt~G~v~v~G~v~~li~lg~Gf~pelTGreNi-~l~~~~  116 (249)
T COG1134          38 AEFWALKDISFEIYKGERVGIIGHNGAGKSTLLKLIAGIYKPTSGKVKVTGKVAPLIELGAGFDPELTGRENI-YLRGLI  116 (249)
T ss_pred             ceEEEecCceEEEeCCCEEEEECCCCCcHHHHHHHHhCccCCCCceEEEcceEehhhhcccCCCcccchHHHH-HHHHHH
Confidence            446678887556899999999999999999998766543321111     11221       23333333322 222333


Q ss_pred             CCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCC
Q psy2892         267 GKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDE-TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGEN  345 (452)
Q Consensus       267 ~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~  345 (452)
                      .|....          +.+...+.+....+..=|++. -..+|- -...++.-....+-+|+++++|..-..-.      
T Consensus       117 ~G~~~~----------ei~~~~~eIieFaELG~fi~~PvktYSS-GM~aRLaFsia~~~~pdILllDEvlavGD------  179 (249)
T COG1134         117 LGLTRK----------EIDEKVDEIIEFAELGDFIDQPVKTYSS-GMYARLAFSVATHVEPDILLLDEVLAVGD------  179 (249)
T ss_pred             hCccHH----------HHHHHHHHHHHHHHHHHHhhCchhhccH-HHHHHHHHhhhhhcCCCEEEEehhhhcCC------
Confidence            444333          333222222222222112211 011221 22222222122221599999999743321      


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         346 RATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       346 ~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                       ..-.......+..+.++. .+||+++|-.                   +.|.+.||.++.|..-+
T Consensus       180 -~~F~~K~~~rl~e~~~~~-~tiv~VSHd~-------------------~~I~~~Cd~~i~l~~G~  224 (249)
T COG1134         180 -AAFQEKCLERLNELVEKN-KTIVLVSHDL-------------------GAIKQYCDRAIWLEHGQ  224 (249)
T ss_pred             -HHHHHHHHHHHHHHHHcC-CEEEEEECCH-------------------HHHHHhcCeeEEEeCCE
Confidence             122345667777776655 7777877732                   35889999999997643

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.09  E-value=0.0057  Score=62.95  Aligned_cols=38  Identities=21%  Similarity=0.365  Sum_probs=28.1

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      |+.+..-+++.|+||+|||.+|..+|...    |.+.+.++.
T Consensus       255 gl~~pkGILL~GPpGTGKTllAkaiA~e~----~~~~~~l~~  292 (489)
T CHL00195        255 GLPTPRGLLLVGIQGTGKSLTAKAIANDW----QLPLLRLDV  292 (489)
T ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHh----CCCEEEEEh
Confidence            45555568999999999999998887653    556655553

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.08  E-value=0.0026  Score=55.67  Aligned_cols=136  Identities=20%  Similarity=0.260  Sum_probs=56.0

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcc-hHHH-----HHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSD-DWPR-----INDS  290 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~-~~~~-----~~~a  290 (452)
                      ++|.|.||+||||++..++.+     |.+++   .| ....+.....    ..+.     ..++.. +...     +...
T Consensus         2 I~i~G~~stGKTTL~~~L~~~-----g~~~v---~E-~ar~~~~~~~----~~~~-----~~~~~~~~~~~~~~~~l~~~   63 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR-----GYPVV---PE-YAREIIEEGG----RRDR-----DTLPWEDDLLAFQEGILEQQ   63 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH-----T-EEE------TTHHHHHHSS----SS-T-----TSS-TT-THHHHHHH--HHH
T ss_pred             EEEECCCCCCHHHHHHHHHHc-----CCeEE---ee-cHHHHHHHhc----cccc-----hhhhhcchHHHHHHHHHHHH
Confidence            689999999999999999865     55433   33 3343433322    1111     112211 1111     1111


Q ss_pred             HH---HHhCCCeEEEcCCCCCH--------HHHHHHHHHHHHHcCCcc-EEEEcCcchhccCC-CCCCHHHHHHHHHHHH
Q psy2892         291 IK---KINKSQLYIDETPSLNV--------IELRANSRRLSRQCGKIG-VIIIDYLQLMSANS-RGENRATEISEISRNL  357 (452)
Q Consensus       291 ~~---~l~~~~l~i~~~~~~t~--------~~i~~~i~~~~~~~~~~~-~vvID~l~~i~~~~-~~~~~~~~~~~i~~~L  357 (452)
                      .+   ......+.|.|.+.++.        .+....+.+..+... .+ +++++....+..+. +.. .......+-..+
T Consensus        64 ~~~~~~~~~~~~vi~Dr~~~d~~aY~~~~~~~~~~~l~~~~~~~~-yd~v~~l~~~~~~~~D~~R~~-~~~~r~~~~~~~  141 (163)
T PF13521_consen   64 LEAEASAKSSDVVICDRGPLDTLAYSEFYFGDYPEELEREARLSR-YDLVFLLPPDPPWEQDGVRPE-DPEERERIDELL  141 (163)
T ss_dssp             HHHHHHHH-SSEEEESS-HHHHHHHHHHHHS---HHHHHHHHHS---SEEEEEE-----------------SHHHHHHHH
T ss_pred             HHHHHhhcCCCcEEEeCChHHHHHHHHHhcCcchHHHHHHHHhCC-CCEEEEeCCccccCCCCCCCC-CHHHHHHHHHHH
Confidence            11   22346788877653221        111111222222211 22 77777766552222 211 223345677888


Q ss_pred             HHHHHHhCCcEEEEe
Q psy2892         358 KGLAKEINCPILALS  372 (452)
Q Consensus       358 k~lA~~~~i~vi~l~  372 (452)
                      +.+.+++|++++.+.
T Consensus       142 ~~~l~~~~~~~~~v~  156 (163)
T PF13521_consen  142 KELLERHGIPYIIVP  156 (163)
T ss_dssp             HHHHHGGG---EEEE
T ss_pred             HHHHHHCCCeEEEeC
Confidence            999999999999985

>PRK14268 phosphate ABC transporter ATP-binding protein; Provisional

Probab=97.07  E-value=0.017  Score=54.65  Aligned_cols=35  Identities=14%  Similarity=0.314  Sum_probs=28.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        27 il~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl   61 (258)
T PRK14268         27 ALKNVSMQIPKNSVTALIGPSGCGKSTFIRCLNRM   61 (258)
T ss_pred             eeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            45555445899999999999999999999887753

>PHA00729 NTP-binding motif containing protein

Probab=97.07  E-value=0.00069  Score=61.98  Aligned_cols=43  Identities=14%  Similarity=0.274  Sum_probs=33.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHH------------HhCCCcEEEEeCCCCHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIA------------IENKLPVAIFSMEMSGIQL  258 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a------------~~~g~~vl~~s~E~~~~~i  258 (452)
                      -++|.|+||+|||++|..++..+.            ...+..++|++.+.-...+
T Consensus        19 nIlItG~pGvGKT~LA~aLa~~l~~~l~~l~~~~~~~d~~~~~~fid~~~Ll~~L   73 (226)
T PHA00729         19 SAVIFGKQGSGKTTYALKVARDVFWKLNNLSTKDDAWQYVQNSYFFELPDALEKI   73 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhhcccccchhhHHhcCCcEEEEEHHHHHHHH
Confidence            589999999999999999998753            2456778888876544333

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=97.07  E-value=0.005  Score=53.83  Aligned_cols=170  Identities=14%  Similarity=0.217  Sum_probs=89.9

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCC-------CCcc-cc-----cc
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGK-------LDQH-KL-----RT  276 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~-------i~~~-~i-----~~  276 (452)
                      -++.|+.+.|.|++|+|||||..=+|--..-.. ..+..-.-+++...=.+|=.+....       ++.. .+     ..
T Consensus        21 ~v~~ge~vAi~GpSGaGKSTLLnLIAGF~~P~~-G~i~i~g~d~t~~~P~~RPVSmlFQEnNLFaHLtV~qNigLGl~P~   99 (231)
T COG3840          21 TVPAGEIVAILGPSGAGKSTLLNLIAGFETPAS-GEILINGVDHTASPPAERPVSMLFQENNLFAHLTVAQNIGLGLSPG   99 (231)
T ss_pred             eecCCcEEEEECCCCccHHHHHHHHHhccCCCC-ceEEEcCeecCcCCcccCChhhhhhccccchhhhhhhhhcccCCcc
Confidence            489999999999999999998766655443222 2233333333332223332222211       1100 00     11


Q ss_pred             CCCCcchHHHHHHHHHHHhCCCeEEEc-CCCCCHH--HHHHHHHHHHHHcCCccEEEEcC-cchhccCCCCCCHHHHHHH
Q psy2892         277 GRLSSDDWPRINDSIKKINKSQLYIDE-TPSLNVI--ELRANSRRLSRQCGKIGVIIIDY-LQLMSANSRGENRATEISE  352 (452)
Q Consensus       277 g~l~~~~~~~~~~a~~~l~~~~l~i~~-~~~~t~~--~i~~~i~~~~~~~~~~~~vvID~-l~~i~~~~~~~~~~~~~~~  352 (452)
                      =+++.++.+++..+..+..-.. +... .+.+|=.  +=.+..|-+.+.   -.+..+|. +..+.+     .-+   .+
T Consensus       100 LkL~a~~r~~v~~aa~~vGl~~-~~~RLP~~LSGGqRQRvALARclvR~---~PilLLDEPFsALdP-----~LR---~e  167 (231)
T COG3840         100 LKLNAEQREKVEAAAAQVGLAG-FLKRLPGELSGGQRQRVALARCLVRE---QPILLLDEPFSALDP-----ALR---AE  167 (231)
T ss_pred             cccCHHHHHHHHHHHHHhChhh-HhhhCccccCchHHHHHHHHHHHhcc---CCeEEecCchhhcCH-----HHH---HH
Confidence            2567788888888776642111 1111 1223322  222334445544   23555554 333332     112   24


Q ss_pred             HHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         353 ISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       353 i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                      +..-+..++.|.+.++++++|--.             |      ..+.||.++++.+-.
T Consensus       168 Ml~Lv~~l~~E~~~TllmVTH~~~-------------D------a~~ia~~~~fl~~Gr  207 (231)
T COG3840         168 MLALVSQLCDERKMTLLMVTHHPE-------------D------AARIADRVVFLDNGR  207 (231)
T ss_pred             HHHHHHHHHHhhCCEEEEEeCCHH-------------H------HHHhhhceEEEeCCE
Confidence            445567788999999998887432             2      345689999986643

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=97.07  E-value=0.024  Score=52.92  Aligned_cols=35  Identities=23%  Similarity=0.414  Sum_probs=28.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        15 ~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        15 ILKGVNLTVKKGEIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             EEeccceEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            35555445899999999999999999999887754

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.06  E-value=0.015  Score=58.63  Aligned_cols=102  Identities=15%  Similarity=0.259  Sum_probs=62.7

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC-CCcEEEEeCCCCHHHHH--HHHHHHhCCCCccccccCCCCcchHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN-KLPVAIFSMEMSGIQLA--MRMLGSVGKLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~-g~~vl~~s~E~~~~~i~--~R~~a~~~~i~~~~i~~g~l~~~~~~~~  287 (452)
                      +.+|+++.+.|++|+||||++.-+|....... +.+|.+++.+-..--..  .+..+...|++.....+    ..+   +
T Consensus       188 ~~~g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~----~~d---l  260 (420)
T PRK14721        188 IEQGGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKD----IAD---L  260 (420)
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCC----HHH---H
Confidence            45788999999999999999999998764433 35777776664322111  33455556777653322    222   3


Q ss_pred             HHHHHHHhCCCeEEEcCCCCCH--HHHHHHHHHH
Q psy2892         288 NDSIKKINKSQLYIDETPSLNV--IELRANSRRL  319 (452)
Q Consensus       288 ~~a~~~l~~~~l~i~~~~~~t~--~~i~~~i~~~  319 (452)
                      ..+...+.+..+.+.|+.+++.  ..+...+..+
T Consensus       261 ~~al~~l~~~d~VLIDTaGrsqrd~~~~~~l~~l  294 (420)
T PRK14721        261 QLMLHELRGKHMVLIDTVGMSQRDQMLAEQIAML  294 (420)
T ss_pred             HHHHHHhcCCCEEEecCCCCCcchHHHHHHHHHH
Confidence            3445556666666666666553  3445555544

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=97.06  E-value=0.0075  Score=53.56  Aligned_cols=140  Identities=11%  Similarity=0.105  Sum_probs=73.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcc
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSD  282 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~  282 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-......| .|. +..+. ......... ...++-..   ...+.+.
T Consensus        17 ~l~~i~~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G-~i~-~~g~~-~~~~~~~~~-~~i~~~~q---~~~~~~~   89 (178)
T cd03247          17 VLKNLSLELKQGEKIALLGRSGSGKSTLLQLLTGDLKPQQG-EIT-LDGVP-VSDLEKALS-SLISVLNQ---RPYLFDT   89 (178)
T ss_pred             ceEEEEEEEcCCCEEEEECCCCCCHHHHHHHHhccCCCCCC-EEE-ECCEE-HHHHHHHHH-hhEEEEcc---CCeeecc
Confidence            45555456899999999999999999999988765432223 343 43331 111111111 11111000   0001000


Q ss_pred             hHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHH--HHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHH
Q psy2892         283 DWPRINDSIKKINKSQLYIDETPSLNVIELRAN--SRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGL  360 (452)
Q Consensus       283 ~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~--i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~l  360 (452)
                         .+.   +.     +    ...+|-.+.+..  ++.+.  . +++++++|.-..-      -+. .....+.+.|+.+
T Consensus        90 ---tv~---~~-----i----~~~LS~G~~qrv~laral~--~-~p~~lllDEP~~~------LD~-~~~~~l~~~l~~~  144 (178)
T cd03247          90 ---TLR---NN-----L----GRRFSGGERQRLALARILL--Q-DAPIVLLDEPTVG------LDP-ITERQLLSLIFEV  144 (178)
T ss_pred             ---cHH---Hh-----h----cccCCHHHHHHHHHHHHHh--c-CCCEEEEECCccc------CCH-HHHHHHHHHHHHH
Confidence               000   00     1    234554444332  33332  3 4999999985421      122 2234667777777


Q ss_pred             HHHhCCcEEEEecCCc
Q psy2892         361 AKEINCPILALSQLNR  376 (452)
Q Consensus       361 A~~~~i~vi~l~ql~r  376 (452)
                      + + +.+||+++|-..
T Consensus       145 ~-~-~~tii~~sh~~~  158 (178)
T cd03247         145 L-K-DKTLIWITHHLT  158 (178)
T ss_pred             c-C-CCEEEEEecCHH
Confidence            5 3 788888888864

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.

>TIGR00767 rho transcription termination factor Rho

Probab=97.05  E-value=0.0047  Score=61.22  Aligned_cols=54  Identities=15%  Similarity=0.211  Sum_probs=37.6

Q ss_pred             CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC--CcEEEEeCC--CCHHHHHHHH
Q psy2892         209 SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK--LPVAIFSME--MSGIQLAMRM  262 (452)
Q Consensus       209 gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g--~~vl~~s~E--~~~~~i~~R~  262 (452)
                      -.+.+|+.+.|.|+||+|||+++..++.....++.  ..+++++.|  ....++...+
T Consensus       163 ~pig~Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER~~EVtDLqrsI  220 (415)
T TIGR00767       163 APIGKGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSV  220 (415)
T ss_pred             EEeCCCCEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCCCCccHHHHHHHh
Confidence            35789999999999999999999998887753211  224445556  4445555544

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

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=97.05  E-value=0.0086  Score=56.48  Aligned_cols=64  Identities=17%  Similarity=0.237  Sum_probs=48.0

Q ss_pred             ccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHH
Q psy2892         194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLA  259 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~  259 (452)
                      ...+.||+..+|-+. .+.+|+=..|.|++|+|||+++++...+.+ ..+..++|...-+..+++.
T Consensus        50 ~e~L~TGI~~ID~l~-pigrGQr~~Ifg~~g~GKt~L~l~~i~~~~-~~~v~~V~~~iGer~~ev~  113 (274)
T cd01132          50 NEPLQTGIKAIDAMI-PIGRGQRELIIGDRQTGKTAIAIDTIINQK-GKKVYCIYVAIGQKASTVA  113 (274)
T ss_pred             ccccccCCEEeeccC-CcccCCEEEeeCCCCCCccHHHHHHHHHhc-CCCeEEEEEecccchHHHH
Confidence            346899999999864 588999999999999999999877555543 2455557776665655543

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.

>TIGR03415 ABC_choXWV_ATP choline ABC transporter, ATP-binding protein

Probab=97.04  E-value=0.013  Score=58.44  Aligned_cols=160  Identities=13%  Similarity=0.187  Sum_probs=79.6

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC--------CCHHHHHH-H--HHHHhC---CC
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME--------MSGIQLAM-R--MLGSVG---KL  269 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E--------~~~~~i~~-R--~~a~~~---~i  269 (452)
                      |+.+.--+.+|+++.|.|++|+|||||+.-++--.--..| .| ++..+        ++..++.. |  -++...   .+
T Consensus        40 l~~vsf~i~~Gei~~I~G~nGsGKSTLlr~L~Gl~~p~~G-~I-~idG~~~~~~i~~~~~~~l~~~r~~~i~~vfQ~~~l  117 (382)
T TIGR03415        40 VANASLDIEEGEICVLMGLSGSGKSSLLRAVNGLNPVSRG-SV-LVKDGDGSIDVANCDAATLRRLRTHRVSMVFQKFAL  117 (382)
T ss_pred             EEeeEEEEcCCCEEEEECCCCCcHHHHHHHHhCCCCCCCc-EE-EECCEecccccccCCHHHHHHHhcCCEEEEECCCcC
Confidence            4554345899999999999999999999887764422222 34 44432        23333221 1  111110   00


Q ss_pred             Cc-ccccc----C----CCCcch-HHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcch
Q psy2892         270 DQ-HKLRT----G----RLSSDD-WPRINDSIKKINKSQLYIDE-TPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQL  336 (452)
Q Consensus       270 ~~-~~i~~----g----~l~~~~-~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~  336 (452)
                      -. ..+.+    +    .++..+ ..+..++++.+. ..-+.+. ...+|-.+-+.  .++.+.  . +++++++|.-..
T Consensus       118 ~p~~Tv~eNi~~~~~~~g~~~~~~~~~a~e~le~vg-L~~~~~~~~~~LSgGq~QRV~LARALa--~-~P~ILLlDEPts  193 (382)
T TIGR03415       118 MPWLTVEENVAFGLEMQGMPEAERRKRVDEQLELVG-LAQWADKKPGELSGGMQQRVGLARAFA--M-DADILLMDEPFS  193 (382)
T ss_pred             CCCCcHHHHHHHHHHhcCCCHHHHHHHHHHHHHHcC-CchhhcCChhhCCHHHHHHHHHHHHHh--c-CCCEEEEECCCc
Confidence            00 00000    0    111111 122233333221 1111221 12355444332  333332  3 499999998532


Q ss_pred             hccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCc
Q psy2892         337 MSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNR  376 (452)
Q Consensus       337 i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r  376 (452)
                            +-+. .....+.+.|..+.++.+.+||+++|--.
T Consensus       194 ------~LD~-~~r~~l~~~L~~l~~~~~~TII~iTHdl~  226 (382)
T TIGR03415       194 ------ALDP-LIRTQLQDELLELQAKLNKTIIFVSHDLD  226 (382)
T ss_pred             ------cCCH-HHHHHHHHHHHHHHHhcCCEEEEEeCCHH
Confidence                  1122 23346777888888888999999988543

Members of this protein family are the ATP-binding subunit of a three-protein transporter. This family belongs, more broadly, to the family of proline and glycine-betaine transporters, but members have been identified by direct characterization and by bioinformatic means as choline transporters. Many species have several closely-related members of this family, probably with variable abilities to act additionally on related quaternary amines.

>PRK14235 phosphate transporter ATP-binding protein; Provisional

Probab=97.04  E-value=0.032  Score=53.07  Aligned_cols=36  Identities=14%  Similarity=0.184  Sum_probs=29.8

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        34 il~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   69 (267)
T PRK14235         34 ALFDVDLDIPEKTVTAFIGPSGCGKSTFLRCLNRMN   69 (267)
T ss_pred             EEEEEEEEEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            455554458999999999999999999998887644

>PRK01172 ski2-like helicase; Provisional

Probab=97.04  E-value=0.0077  Score=65.23  Aligned_cols=139  Identities=17%  Similarity=0.193  Sum_probs=73.9

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHh-----CCCCccccccCCCCcchHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSV-----GKLDQHKLRTGRLSSDDWP  285 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~-----~~i~~~~i~~g~l~~~~~~  285 (452)
                      +..|+-++++||+|+|||..+...+..... .+.+++|+.   |...++.......     .|+... +..|..+...  
T Consensus        34 l~~~~nvlv~apTGSGKTl~a~lail~~l~-~~~k~v~i~---P~raLa~q~~~~~~~l~~~g~~v~-~~~G~~~~~~--  106 (674)
T PRK01172         34 LRKGENVIVSVPTAAGKTLIAYSAIYETFL-AGLKSIYIV---PLRSLAMEKYEELSRLRSLGMRVK-ISIGDYDDPP--  106 (674)
T ss_pred             HhcCCcEEEECCCCchHHHHHHHHHHHHHH-hCCcEEEEe---chHHHHHHHHHHHHHHhhcCCeEE-EEeCCCCCCh--
Confidence            345667999999999999988776666543 467899986   4445544332211     133222 1223332211  


Q ss_pred             HHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhC
Q psy2892         286 RINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEIN  365 (452)
Q Consensus       286 ~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~  365 (452)
                            ..+....+.+.     |++.+...+++......++++||||-++.+....    +...+..+...++.+.  .+
T Consensus       107 ------~~~~~~dIiv~-----Tpek~~~l~~~~~~~l~~v~lvViDEaH~l~d~~----rg~~le~ll~~~~~~~--~~  169 (674)
T PRK01172        107 ------DFIKRYDVVIL-----TSEKADSLIHHDPYIINDVGLIVADEIHIIGDED----RGPTLETVLSSARYVN--PD  169 (674)
T ss_pred             ------hhhccCCEEEE-----CHHHHHHHHhCChhHHhhcCEEEEecchhccCCC----ccHHHHHHHHHHHhcC--cC
Confidence                  11223455554     3444444443322111258999999999886432    2223334444444332  24


Q ss_pred             CcEEEEec
Q psy2892         366 CPILALSQ  373 (452)
Q Consensus       366 i~vi~l~q  373 (452)
                      +.+|+++-
T Consensus       170 ~riI~lSA  177 (674)
T PRK01172        170 ARILALSA  177 (674)
T ss_pred             CcEEEEeC
Confidence            55555543

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=97.04  E-value=0.013  Score=58.98  Aligned_cols=29  Identities=21%  Similarity=0.298  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      -+.+|+..-|.||+|+||||++.-+.--.
T Consensus       358 ~l~~G~~lgIIGPSgSGKSTLaR~lvG~w  386 (580)
T COG4618         358 ALQAGEALGIIGPSGSGKSTLARLLVGIW  386 (580)
T ss_pred             EecCCceEEEECCCCccHHHHHHHHHccc
Confidence            46899999999999999999998776543

>cd03114 ArgK-like The function of this protein family is unkown

Probab=97.03  E-value=0.0019  Score=55.58  Aligned_cols=37  Identities=22%  Similarity=0.323  Sum_probs=32.6

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      +.+.|++|+|||+|+.+++.... ..|.+|+.+..+..
T Consensus         2 i~~~G~~GsGKTt~~~~l~~~~~-~~g~~v~ii~~D~~   38 (148)
T cd03114           2 IGITGVPGAGKSTLIDALITALR-ARGKRVAVLAIDPS   38 (148)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHH-HCCCEEEEEEeCCC
Confidence            67889999999999999999886 47899999998864

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>TIGR00347 bioD dethiobiotin synthase

Probab=97.03  E-value=0.012  Score=51.55  Aligned_cols=131  Identities=17%  Similarity=0.239  Sum_probs=68.6

Q ss_pred             EEEeCCCCChhHHHHHHHHHHHHhCCCcEEEE-----eCCC-CHH-HHHHHHHHHhCCCCccccccCCCCcchHHHHHHH
Q psy2892         218 IVAGRPSMGKTAFSLNIGEHIAIENKLPVAIF-----SMEM-SGI-QLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDS  290 (452)
Q Consensus       218 ~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~-----s~E~-~~~-~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a  290 (452)
                      +.+..||+|||+++++++..++. +|.+|.|+     ..+. +.+ +++.+...  ...+...+..-.....--..+.. 
T Consensus         2 I~~t~~~~GKT~va~~L~~~l~~-~g~~V~~~kP~~~~~~~~d~d~~~i~~~~~--~~~~~~~~~~~~~~~~~~p~~~~-   77 (166)
T TIGR00347         2 VTGTDTGVGKTVASSALAAKLKK-AGYSVGYYKPVQTGIEKTNSDALLLQNISG--TALDWDEVNPYAFALPLSPHIAA-   77 (166)
T ss_pred             eecCCCCccHHHHHHHHHHHHHH-CCCcEEEEEeeeeCCCCCchHHHHHHHHcC--CCCchhccCCeeeCCCCChHHHH-
Confidence            45678999999999999999975 78999998     2332 111 22222211  11111111000000000000000 


Q ss_pred             HHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEE
Q psy2892         291 IKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILA  370 (452)
Q Consensus       291 ~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~  370 (452)
                        ..        ........++.+.++++..   +.|+||||.-..+..+.. ..         -..-.+++.++.++|+
T Consensus        78 --~~--------~~~~~~~~~i~~~~~~l~~---~~D~viid~~g~~~~~~~-~~---------~~~~dl~~~~~~~vil  134 (166)
T TIGR00347        78 --DQ--------EGRPIDLEELSKHLRTLEQ---KYDFVLVEGAGGLCVPIT-EE---------YTTADLIKLLQLPVIL  134 (166)
T ss_pred             --HH--------hCCCCCHHHHHHHHHHHHh---cCCEEEEEcCCccccCCC-CC---------CcHHHHHHHhCCCEEE
Confidence              00        0112445567777766542   389999999865443321 10         0123467788999999


Q ss_pred             EecCC
Q psy2892         371 LSQLN  375 (452)
Q Consensus       371 l~ql~  375 (452)
                      +..-+
T Consensus       135 V~~~~  139 (166)
T TIGR00347       135 VVRVK  139 (166)
T ss_pred             EECCC
Confidence            98543

Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.

>COG1245 Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]

Probab=97.03  E-value=0.0044  Score=61.47  Aligned_cols=128  Identities=21%  Similarity=0.276  Sum_probs=81.1

Q ss_pred             CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC--------CcEEEEe--CCCCHHHHHHHHHHHhC-----------
Q psy2892         209 SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK--------LPVAIFS--MEMSGIQLAMRMLGSVG-----------  267 (452)
Q Consensus       209 gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g--------~~vl~~s--~E~~~~~i~~R~~a~~~-----------  267 (452)
                      |.+..|+++.+.|+.|.|||||+.-+|--.--..|        ++--|++  ..++.+++..+......           
T Consensus       362 G~i~~gEvigilGpNgiGKTTFvk~LAG~ikPdeg~~~~~~vSyKPQyI~~~~~gtV~~~l~~~~~~~~~~s~~~~ei~~  441 (591)
T COG1245         362 GEIYDGEVIGILGPNGIGKTTFVKLLAGVIKPDEGSEEDLKVSYKPQYISPDYDGTVEDLLRSAIRSAFGSSYFKTEIVK  441 (591)
T ss_pred             CeeecceEEEEECCCCcchHHHHHHHhccccCCCCCCccceEeecceeecCCCCCcHHHHHHHhhhhhcccchhHHhhcC
Confidence            56889999999999999999999988854311112        2233554  45666776666544322           


Q ss_pred             CCCcccccc---CCCCcchHHHHHHHHHHHhCCCeEEEcCCC--CCHHH---HHHHHHHHHHHcC------CccEEEEcC
Q psy2892         268 KLDQHKLRT---GRLSSDDWPRINDSIKKINKSQLYIDETPS--LNVIE---LRANSRRLSRQCG------KIGVIIIDY  333 (452)
Q Consensus       268 ~i~~~~i~~---g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~--~t~~~---i~~~i~~~~~~~~------~~~~vvID~  333 (452)
                      .+++..+.+   ..|+-.|++|+.-|+--.++..+|+.|.|.  +.+++   .-..|+++....+      ..|++++||
T Consensus       442 pl~l~~i~e~~v~~LSGGELQRvaIaa~L~reADlYllDEPSA~LDvEqR~~vakvIRR~~e~~~kta~vVdHDi~~~dy  521 (591)
T COG1245         442 PLNLEDLLERPVDELSGGELQRVAIAAALSREADLYLLDEPSAYLDVEQRIIVAKVIRRFIENNEKTALVVDHDIYMIDY  521 (591)
T ss_pred             ccchHHHHhcccccCCchhHHHHHHHHHhccccCEEEecCchhhccHHHHHHHHHHHHHHHhhcCceEEEEecceehhhh
Confidence            223333332   357778899988777666778999988764  33333   2234555554443      256777777


Q ss_pred             cch
Q psy2892         334 LQL  336 (452)
Q Consensus       334 l~~  336 (452)
                      +..
T Consensus       522 vsD  524 (591)
T COG1245         522 VSD  524 (591)
T ss_pred             hhc
Confidence            764

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=97.02  E-value=0.012  Score=59.89  Aligned_cols=65  Identities=14%  Similarity=0.125  Sum_probs=50.9

Q ss_pred             ccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHH
Q psy2892         194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLA  259 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~  259 (452)
                      ...+.||+..+|-++ .+.+|+=+.|.|++|+|||+++..++.+.+.++..-++|.-..+..+++.
T Consensus       124 ~e~l~TGir~ID~l~-pigkGQR~gIfa~~G~GKt~Ll~~~~~~~~~~~~dv~V~~liGER~rEv~  188 (461)
T PRK12597        124 TEILETGIKVIDLLC-PIAKGGKTGLFGGAGVGKTVLMMELIFNISKQHSGSSVFAGVGERSREGH  188 (461)
T ss_pred             CcceecCCeeecccC-ccccCCEEEeecCCCCChhHHHHHHHHHHHhhCCCEEEEEcCCcchHHHH
Confidence            346899999999864 58899999999999999999999999999754444556665555555543

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

Probab=97.01  E-value=0.014  Score=57.95  Aligned_cols=99  Identities=20%  Similarity=0.252  Sum_probs=62.6

Q ss_pred             CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCc-EEEEeCCC--CHHHHHHHHHHHhCCCCccccccCCCCcchHH
Q psy2892         209 SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLP-VAIFSMEM--SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWP  285 (452)
Q Consensus       209 gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~-vl~~s~E~--~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~  285 (452)
                      .|..|.. ++|.|+||+|||+.+..++..+-...... +.|+.+..  ++.++..+++.....++.              
T Consensus        38 ~~~~p~n-~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~~~p~--------------  102 (366)
T COG1474          38 RGERPSN-IIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLGKVPL--------------  102 (366)
T ss_pred             cCCCCcc-EEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHHcCCCCC--------------
Confidence            3444444 78889999999999998888774332233 89997764  556677777654432221              


Q ss_pred             HHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         286 RINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       286 ~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                                         .+.+..++...+.+.....++.-+||+|-+..+....
T Consensus       103 -------------------~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~  139 (366)
T COG1474         103 -------------------TGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKD  139 (366)
T ss_pred             -------------------CCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhcccc
Confidence                               1233344444444444444457788999988887643

>PLN03140 ABC transporter G family member; Provisional

Probab=97.01  E-value=0.0069  Score=70.52  Aligned_cols=36  Identities=25%  Similarity=0.368  Sum_probs=30.3

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .-|+.+.+-+++|+++.|.|++|+|||||+.-++-.
T Consensus       894 ~iL~~vs~~i~~Gel~aL~G~sGaGKTTLL~~LaG~  929 (1470)
T PLN03140        894 QLLREVTGAFRPGVLTALMGVSGAGKTTLMDVLAGR  929 (1470)
T ss_pred             eEeeCcEEEEECCeEEEEECCCCCCHHHHHHHHcCC
Confidence            345666667899999999999999999999887764

>PRK06851 hypothetical protein; Provisional

Probab=97.01  E-value=0.0089  Score=58.98  Aligned_cols=50  Identities=20%  Similarity=0.402  Sum_probs=40.2

Q ss_pred             ccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHH
Q psy2892         205 DKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQ  257 (452)
Q Consensus       205 D~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~  257 (452)
                      |.++.++.  .+++|.|+||+|||+++.+++..+. ++|..|.|+-+-+.++.
T Consensus       207 ~~l~~~~~--~~~~i~G~pG~GKstl~~~i~~~a~-~~G~~v~~~hC~~dPds  256 (367)
T PRK06851        207 PSLTEGVK--NRYFLKGRPGTGKSTMLKKIAKAAE-ERGFDVEVYHCGFDPDS  256 (367)
T ss_pred             HhHhcccc--eEEEEeCCCCCcHHHHHHHHHHHHH-hCCCeEEEEeCCCCCCC
Confidence            44444443  3799999999999999999999986 57999999977777654

>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]

Probab=97.00  E-value=0.014  Score=58.56  Aligned_cols=160  Identities=14%  Similarity=0.127  Sum_probs=86.3

Q ss_pred             ccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC-----CCCHHHHHHHHHHHhCCCC
Q psy2892         196 GISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM-----EMSGIQLAMRMLGSVGKLD  270 (452)
Q Consensus       196 ~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~-----E~~~~~i~~R~~a~~~~i~  270 (452)
                      .+| |+..+|.+.-.+++|++..|.|..|+|||||+.-+.--.  +....-+|+..     -.|.+.+.       .|+-
T Consensus        13 ~f~-~~~And~V~l~v~~GeIHaLLGENGAGKSTLm~iL~G~~--~P~~GeI~v~G~~v~~~sP~dA~~-------~GIG   82 (501)
T COG3845          13 RFP-GVVANDDVSLSVKKGEIHALLGENGAGKSTLMKILFGLY--QPDSGEIRVDGKEVRIKSPRDAIR-------LGIG   82 (501)
T ss_pred             EcC-CEEecCceeeeecCCcEEEEeccCCCCHHHHHHHHhCcc--cCCcceEEECCEEeccCCHHHHHH-------cCCc
Confidence            344 788889987779999999999999999999987555433  12122222221     11222111       1111


Q ss_pred             c--cc------------cccCCCC----cchHHHHHHHHHHHhC-CCeEEEc---CCCCCHHHHHHHHHHHHHHcCCccE
Q psy2892         271 Q--HK------------LRTGRLS----SDDWPRINDSIKKINK-SQLYIDE---TPSLNVIELRANSRRLSRQCGKIGV  328 (452)
Q Consensus       271 ~--~~------------i~~g~l~----~~~~~~~~~a~~~l~~-~~l~i~~---~~~~t~~~i~~~i~~~~~~~~~~~~  328 (452)
                      .  ++            +.-|.-+    --++.+..+.+..+.+ ..+.++.   -.++++. .+++++-++.-+.++++
T Consensus        83 MVhQHF~Lv~~lTV~ENiiLg~e~~~~~~~~~~~~~~~i~~l~~~yGl~vdp~~~V~dLsVG-~qQRVEIlKaLyr~a~i  161 (501)
T COG3845          83 MVHQHFMLVPTLTVAENIILGLEPSKGGLIDRRQARARIKELSERYGLPVDPDAKVADLSVG-EQQRVEILKALYRGARL  161 (501)
T ss_pred             EEeeccccccccchhhhhhhcCccccccccCHHHHHHHHHHHHHHhCCCCCccceeecCCcc-hhHHHHHHHHHhcCCCE
Confidence            1  00            0001100    0123333333333322 2233321   1234432 22233333333335999


Q ss_pred             EEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         329 IIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       329 vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                      +|+|--+.+-.+       +++.++...|+.+++ .|.+||+++|=
T Consensus       162 LILDEPTaVLTP-------~E~~~lf~~l~~l~~-~G~tIi~ITHK  199 (501)
T COG3845         162 LILDEPTAVLTP-------QEADELFEILRRLAA-EGKTIIFITHK  199 (501)
T ss_pred             EEEcCCcccCCH-------HHHHHHHHHHHHHHH-CCCEEEEEecc
Confidence            999998766553       456778888887765 68999999983

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=97.00  E-value=0.0048  Score=55.74  Aligned_cols=32  Identities=16%  Similarity=0.316  Sum_probs=26.9

Q ss_pred             ccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         207 ITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       207 ~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        19 vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         19 LSITFLPSAITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             EEEEEcCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            43358899999999999999999998877643

>PF02702 KdpD: Osmosensitive K+ channel His kinase sensor domain; InterPro: IPR003852 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []

Probab=96.99  E-value=0.008  Score=53.46  Aligned_cols=119  Identities=19%  Similarity=0.289  Sum_probs=59.5

Q ss_pred             CCcEE-EEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHH
Q psy2892         213 PGDLI-IVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSI  291 (452)
Q Consensus       213 ~G~l~-~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~  291 (452)
                      +|.|. .+++.||+|||--+++-|.... ++|.-|+.=-.|.....-...++..+--++...+..               
T Consensus         3 rGrLkIflG~apGVGKTy~ML~ea~~l~-~~G~DVViG~vethgR~et~~l~~gLe~iP~~~i~y---------------   66 (211)
T PF02702_consen    3 RGRLKIFLGAAPGVGKTYAMLQEAHRLK-EQGVDVVIGYVETHGRPETEALLEGLEVIPRKKIEY---------------   66 (211)
T ss_dssp             ---EEEEEESSTTSSHHHHHHHHHHHHH-HTT--EEEEE---TT-HHHHHHHCTS-B---EEEEE---------------
T ss_pred             CccEEEEEecCCCCCHHHHHHHHHHHHH-HCCCCEEEEEecCCCcHHHHHHHcCCCcCCCeeEee---------------
Confidence            45554 5677899999999999888875 578877765566443333333331111111111110               


Q ss_pred             HHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC-CCCCHHHHHHHHHHHHHHHHHHhCCcEEE
Q psy2892         292 KKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS-RGENRATEISEISRNLKGLAKEINCPILA  370 (452)
Q Consensus       292 ~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~-~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~  370 (452)
                           ....+.   .+.++.+.+   +      +|.+|+||-|..-..++ +...+|+.+.++.        +.||.|+.
T Consensus        67 -----~g~~~~---E~DldaiL~---R------~P~vvLVDELAHtN~pgsr~~kR~qDVeeLL--------~aGIdV~T  121 (211)
T PF02702_consen   67 -----RGRTLE---EMDLDAILA---R------RPQVVLVDELAHTNAPGSRHKKRYQDVEELL--------DAGIDVYT  121 (211)
T ss_dssp             -----TTEEEE---E--HHHHHH---H--------SEEEES-TT-B--TT-SSSBHHHHHHHHH--------HTT-EEEE
T ss_pred             -----CCEecc---cCCHHHHHh---c------CCCEEEeCcccccCCCCCCCcccHHhHHHHH--------HCCCeEEE
Confidence                 011111   233444332   2      59999999998877664 5678998876653        47999988


Q ss_pred             Ee
Q psy2892         371 LS  372 (452)
Q Consensus       371 l~  372 (452)
                      +-
T Consensus       122 Tl  123 (211)
T PF02702_consen  122 TL  123 (211)
T ss_dssp             EE
T ss_pred             ee
Confidence            75

Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the N-terminal domain found in KdpD sensor kinase proteins, which regulate the kdpFABC operon responsible for potassium transport []. The N-terminal domain forms part of the cytoplasmic region of the protein, which may be the sensor domain responsible for sensing turgor pressure [].; GO: 0000155 two-component sensor activity, 0004673 protein histidine kinase activity, 0000160 two-component signal transduction system (phosphorelay), 0016020 membrane; PDB: 2R8R_B.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.99  E-value=0.0038  Score=53.81  Aligned_cols=37  Identities=19%  Similarity=0.348  Sum_probs=30.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      +++|.|.||+|||+++..++.... ..|.++++++.+.
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~-~~g~~~~~i~~d~   37 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLF-QRGRPVYVLDGDN   37 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH-HcCCCEEEEcCHH
Confidence            478999999999999999999886 4577888876543

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>TIGR01007 eps_fam capsular exopolysaccharide family

Probab=96.98  E-value=0.0047  Score=56.17  Aligned_cols=42  Identities=24%  Similarity=0.272  Sum_probs=35.8

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      .-+.+.++.+|+|||+++.++|..++. .|.+|+.+.++....
T Consensus        18 kvI~v~s~kgG~GKTt~a~~LA~~la~-~G~rVllID~D~~~~   59 (204)
T TIGR01007        18 KVLLITSVKPGEGKSTTSANIAVAFAQ-AGYKTLLIDGDMRNS   59 (204)
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHHHh-CCCeEEEEeCCCCCh
Confidence            347777799999999999999999985 799999999986544

This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=96.98  E-value=0.0089  Score=52.47  Aligned_cols=144  Identities=11%  Similarity=0.115  Sum_probs=81.3

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC-----CCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM-----EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~-----E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~  287 (452)
                      +| ++.|.+.+|.|||+.|+.+|..++ .+|.+|+++-+     .........++     ++.......|..        
T Consensus         5 ~G-li~v~~g~GkGKtt~a~g~a~ra~-~~g~~v~ivQFlKg~~~~GE~~~l~~~-----~~~~~~~g~g~~--------   69 (173)
T TIGR00708         5 RG-IIIVHTGNGKGKTTAAFGMALRAL-GHGKKVGVIQFIKGAWPNGERAAFEPH-----GVEFQVMGTGFT--------   69 (173)
T ss_pred             cc-EEEEECCCCCChHHHHHHHHHHHH-HCCCeEEEEEEecCCcccChHHHHHhc-----CcEEEECCCCCe--------
Confidence            45 777777799999999999999997 58999986622     23333344332     344333222210        


Q ss_pred             HHHHHHHhCCCeEEEcCCCC---CHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHh
Q psy2892         288 NDSIKKINKSQLYIDETPSL---NVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEI  364 (452)
Q Consensus       288 ~~a~~~l~~~~l~i~~~~~~---t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~  364 (452)
                                  +....+.-   ...+..+.+++..... .+|+||+|-+.....-+ .-+    ..++.+.|+.  +--
T Consensus        70 ------------~~~~~~~~~~~~~~~~~~~a~~~l~~~-~~DlvVLDEi~~A~~~g-li~----~~~v~~lL~~--rp~  129 (173)
T TIGR00708        70 ------------WETQNREADTAIAKAAWQHAKEMLADP-ELDLVLLDELTYALKYG-YLD----VEEVVEALQE--RPG  129 (173)
T ss_pred             ------------ecCCCcHHHHHHHHHHHHHHHHHHhcC-CCCEEEehhhHHHHHCC-CcC----HHHHHHHHHh--CCC
Confidence                        00000000   0223333444444433 59999999998655432 111    1244555543  455


Q ss_pred             CCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         365 NCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       365 ~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      ++.||++..-.                  +..+-..||.|--+..
T Consensus       130 ~~evVlTGR~~------------------p~~l~e~AD~VTEm~~  156 (173)
T TIGR00708       130 HQHVIITGRGC------------------PQDLLELADLVTEMRP  156 (173)
T ss_pred             CCEEEEECCCC------------------CHHHHHhCceeeeecc
Confidence            77888875311                  2356778999876643

Alternate name: corrinoid adenosyltransferase.

>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional

Probab=96.97  E-value=0.0055  Score=63.77  Aligned_cols=35  Identities=17%  Similarity=0.279  Sum_probs=29.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        13 il~~vs~~i~~Ge~~~liG~nGsGKSTLl~~l~Gl   47 (491)
T PRK10982         13 ALDNVNLKVRPHSIHALMGENGAGKSTLLKCLFGI   47 (491)
T ss_pred             eeeeeeEEEcCCcEEEEECCCCCCHHHHHHHHcCC
Confidence            46666446899999999999999999999877754

>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional

Probab=96.97  E-value=0.0045  Score=64.58  Aligned_cols=36  Identities=19%  Similarity=0.328  Sum_probs=30.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.-.+.+|+++.|.|++|+|||||+.-++-..
T Consensus        19 il~~isl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   54 (501)
T PRK11288         19 ALDDISFDCRAGQVHALMGENGAGKSTLLKILSGNY   54 (501)
T ss_pred             EEeeeeEEEeCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            466665568999999999999999999998877543

>PF13614 AAA_31: AAA domain; PDB: 2VED_B 2PH1_A 3EA0_B 3FKQ_A 3KB1_B 1ION_A 3LA6_H 3BFV_B 3CIO_D

Probab=96.97  E-value=0.0014  Score=56.74  Aligned_cols=45  Identities=18%  Similarity=0.298  Sum_probs=33.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMR  261 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R  261 (452)
                      +.+++..+|+|||+++.++|..++. .+.+|+++.++.....+...
T Consensus         3 i~v~s~~~g~G~t~~a~~lA~~la~-~~~~Vllid~~~~~~~~~~~   47 (157)
T PF13614_consen    3 IAVWSPKGGVGKTTLALNLAAALAR-KGKKVLLIDFDFFSPSLSRL   47 (157)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHH-TTT-EEEEE--SSS-HHHHH
T ss_pred             EEEECCCCCCCHHHHHHHHHHHHHh-cCCCeEEEECCCCCCCcccc
Confidence            4566669999999999999999986 67789999999876655533

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.96  E-value=0.018  Score=54.26  Aligned_cols=35  Identities=9%  Similarity=0.209  Sum_probs=29.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        19 ~l~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~   53 (253)
T PRK14267         19 VIKGVDLKIPQNGVFALMGPSGCGKSTLLRTFNRL   53 (253)
T ss_pred             eeecceEEEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            45665456899999999999999999999877654

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=96.95  E-value=0.0053  Score=64.17  Aligned_cols=34  Identities=18%  Similarity=0.340  Sum_probs=28.2

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      |+.+.--+++|+++.|.|++|+|||||+.-++-.
T Consensus       279 l~~isl~i~~Ge~~~l~G~NGsGKSTLl~~i~Gl  312 (510)
T PRK15439        279 FRNISLEVRAGEILGLAGVVGAGRTELAETLYGL  312 (510)
T ss_pred             ccceeEEEcCCcEEEEECCCCCCHHHHHHHHcCC
Confidence            5555445889999999999999999999877754

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=96.94  E-value=0.0012  Score=62.31  Aligned_cols=46  Identities=22%  Similarity=0.500  Sum_probs=39.4

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRML  263 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~  263 (452)
                      .+.-+++.|+||+|||.++..++..++ +.|.+|+|++.    .+++.++.
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~sv~f~~~----~el~~~Lk  149 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELL-KAGISVLFITA----PDLLSKLK  149 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEEEH----HHHHHHHH
Confidence            566799999999999999999999998 68999999965    45666664

>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=96.93  E-value=0.0012  Score=54.39  Aligned_cols=23  Identities=30%  Similarity=0.731  Sum_probs=20.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +++|+|+||+||||+|..++...
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            47899999999999999998765

...

>CHL00131 ycf16 sulfate ABC transporter protein; Validated

Probab=96.93  E-value=0.0053  Score=57.83  Aligned_cols=34  Identities=21%  Similarity=0.354  Sum_probs=28.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-
T Consensus        22 ~l~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G   55 (252)
T CHL00131         22 ILKGLNLSINKGEIHAIMGPNGSGKSTLSKVIAG   55 (252)
T ss_pred             eeecceeEEcCCcEEEEECCCCCCHHHHHHHHcC
Confidence            4555544589999999999999999999987765

>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.93  E-value=0.027  Score=53.59  Aligned_cols=35  Identities=11%  Similarity=0.296  Sum_probs=29.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        28 il~~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   62 (269)
T PRK14259         28 AVKNVFCDIPRGKVTALIGPSGCGKSTVLRSLNRM   62 (269)
T ss_pred             EEcceEEEEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            45555445899999999999999999999887754

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=96.93  E-value=0.015  Score=62.81  Aligned_cols=56  Identities=13%  Similarity=0.105  Sum_probs=38.4

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHH---hC---CCcEEEEeCCC--CHHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAI---EN---KLPVAIFSMEM--SGIQLAMRMLGS  265 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~---~~---g~~vl~~s~E~--~~~~i~~R~~a~  265 (452)
                      |-.++.++.|.|+||+|||+.+..++..+..   ..   ...++|+.+..  ++..+...+...
T Consensus       777 gsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIYqvI~qq  840 (1164)
T PTZ00112        777 QSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAYQVLYKQ  840 (1164)
T ss_pred             cCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHHHHHHHH
Confidence            4456677889999999999999988766531   12   24578888752  455566665533

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=96.92  E-value=0.019  Score=52.61  Aligned_cols=35  Identities=23%  Similarity=0.161  Sum_probs=28.1

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      |+.+.--+.+|+++.|.|++|+|||||+.-++--.
T Consensus         3 l~~vs~~i~~Ge~~~l~G~NGsGKSTLlk~i~Gl~   37 (213)
T PRK15177          3 LDKTDFVMGYHEHIGILAAPGSGKTTLTRLLCGLD   37 (213)
T ss_pred             eeeeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            34444458999999999999999999998777543

>smart00766 DnaG_DnaB_bind DNA primase DnaG DnaB-binding

Probab=96.92  E-value=0.0019  Score=53.12  Aligned_cols=98  Identities=13%  Similarity=0.095  Sum_probs=64.5

Q ss_pred             HHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHHHHHHHHh--
Q psy2892          22 EQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQ--   99 (452)
Q Consensus        22 E~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~~l~~l~~--   99 (452)
                      |+.+|+.++.+|+.+..+...+.+++|.+|.++.||..+......|. ++...+...+.+.. +     ...+..+..  
T Consensus         1 ~r~lL~lll~~P~l~~~v~~~~~~~~f~~~~~~~l~~~l~~~~~~~~-~~~~~l~~~~~~~~-~-----~~~l~~l~~~~   73 (125)
T smart00766        1 MRELIRLLLQNPELASLVPDLLTLEDFTHPGLALLAELLATCRGNPG-LTTGQLLEHWRDTP-Y-----EELLSELAVWD   73 (125)
T ss_pred             CHHHHHHHHHCHHHHhhCCCchhhhhcccccHHHHHHHHHHHHcCCC-CcHHHHHHHHcCCh-H-----HHHHHHHHhcc
Confidence            57899999999999998877778999999999999999955544444 47777777774321 1     223444432  


Q ss_pred             -cCCC---hHhHHHHHHHHHHHHHHHHHHHH
Q psy2892         100 -NIPS---AANIRRYAEIVRDRGILRKLITV  126 (452)
Q Consensus       100 -~~~~---~~n~~~y~~~l~~~~~~R~l~~~  126 (452)
                       ..+.   ...+..+...+++....+++...
T Consensus        74 ~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~L  104 (125)
T smart00766       74 HLIDEENLEEEFLDTLARLRKQLLERRIEEL  104 (125)
T ss_pred             ccCCchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             1111   12355666666666655555444

DnaG_DnaB_bind defines a domain of primase required for functional interaction with DnaB that attracts primase to the replication fork. DnaG_DnaB_bind is responsible for the interaction between DnaG and DnaB.

>KOG0736|consensus

Probab=96.92  E-value=0.013  Score=61.70  Aligned_cols=118  Identities=23%  Similarity=0.347  Sum_probs=78.0

Q ss_pred             ccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHH
Q psy2892         207 ITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPR  286 (452)
Q Consensus       207 ~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~  286 (452)
                      ...|+++.+=+++.||||+|||-+|..+|-..      ..-|+|--.+  ++..+.+.                      
T Consensus       698 fssglrkRSGILLYGPPGTGKTLlAKAVATEc------sL~FlSVKGP--ELLNMYVG----------------------  747 (953)
T KOG0736|consen  698 FSSGLRKRSGILLYGPPGTGKTLLAKAVATEC------SLNFLSVKGP--ELLNMYVG----------------------  747 (953)
T ss_pred             hhccccccceeEEECCCCCchHHHHHHHHhhc------eeeEEeecCH--HHHHHHhc----------------------
Confidence            35689988889999999999999887776544      3456665433  44444331                      


Q ss_pred             HHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC-C----CCCHHHHHHHHHHHHHHHH
Q psy2892         287 INDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS-R----GENRATEISEISRNLKGLA  361 (452)
Q Consensus       287 ~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~-~----~~~~~~~~~~i~~~Lk~lA  361 (452)
                                      .    +-+.+++..++.+..  .|-+||+|-|..+.+.. +    +.-....+.++..+|..+.
T Consensus       748 ----------------q----SE~NVR~VFerAR~A--~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls  805 (953)
T KOG0736|consen  748 ----------------Q----SEENVREVFERARSA--APCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLS  805 (953)
T ss_pred             ----------------c----hHHHHHHHHHHhhcc--CCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhccc
Confidence                            0    112344444444333  59999999999988653 1    2223445667777777777


Q ss_pred             HHhCCcEEEEecCCc
Q psy2892         362 KEINCPILALSQLNR  376 (452)
Q Consensus       362 ~~~~i~vi~l~ql~r  376 (452)
                      ....-.|+++.-.||
T Consensus       806 ~~~s~~VFViGATNR  820 (953)
T KOG0736|consen  806 DSSSQDVFVIGATNR  820 (953)
T ss_pred             CCCCCceEEEecCCC
Confidence            767778899888886

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

Probab=96.92  E-value=0.0087  Score=58.51  Aligned_cols=37  Identities=11%  Similarity=0.099  Sum_probs=28.1

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      |+++--.++|.||||+|||.+|..+|..+    |.+.+.+|
T Consensus       144 ~ik~PlgllL~GPPGcGKTllAraiA~el----g~~~i~vs  180 (413)
T PLN00020        144 NIKVPLILGIWGGKGQGKSFQCELVFKKM----GIEPIVMS  180 (413)
T ss_pred             CCCCCeEEEeeCCCCCCHHHHHHHHHHHc----CCCeEEEE
Confidence            46666679999999999999998888764    45554443

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=96.89  E-value=0.0034  Score=59.08  Aligned_cols=66  Identities=18%  Similarity=0.169  Sum_probs=48.0

Q ss_pred             cccccCccccccccCC-------CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH
Q psy2892         195 TGISTGFFELDKITSG-------LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM  262 (452)
Q Consensus       195 ~~i~tg~~~LD~~~gG-------~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~  262 (452)
                      .-||+.++.|+++.-.       -.+..|++++||+|+||||-+..+.-++  ++..+.-+++.|.+-+-+..--
T Consensus        99 R~Ip~~i~~~e~LglP~i~~~~~~~~~GLILVTGpTGSGKSTTlAamId~i--N~~~~~HIlTIEDPIE~vh~sk  171 (353)
T COG2805          99 RLIPSKIPTLEELGLPPIVRELAESPRGLILVTGPTGSGKSTTLAAMIDYI--NKHKAKHILTIEDPIEYVHESK  171 (353)
T ss_pred             eccCccCCCHHHcCCCHHHHHHHhCCCceEEEeCCCCCcHHHHHHHHHHHH--hccCCcceEEecCchHhhhcch
Confidence            4467777777765211       1344599999999999999988888877  3457777889999987665443

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=96.89  E-value=0.019  Score=58.06  Aligned_cols=64  Identities=20%  Similarity=0.148  Sum_probs=50.1

Q ss_pred             ccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHH
Q psy2892         194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQL  258 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i  258 (452)
                      ...+.||+..+|-++ .+-+|+=..|.|++|+|||+++.+++.+.......-++|.-.-+..+++
T Consensus       124 ~e~l~TGiraID~l~-pig~GQr~~If~~~G~GKt~L~~~~~~~~~~~~~~v~V~alIGER~rEv  187 (461)
T TIGR01039       124 VEILETGIKVIDLLA-PYAKGGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGERTREG  187 (461)
T ss_pred             ccccccCceeecccC-CcccCCEEEeecCCCCChHHHHHHHHHHHHhcCCCeEEEEEecCCchHH
Confidence            346899999999874 5889999999999999999999999999865434456666554454544

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=96.88  E-value=0.0097  Score=60.32  Aligned_cols=63  Identities=19%  Similarity=0.132  Sum_probs=50.2

Q ss_pred             cccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHH
Q psy2892         195 TGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQL  258 (452)
Q Consensus       195 ~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i  258 (452)
                      ..+.||+..+|-++ .+-+|+=..|.|++|+|||+++.+++.+.+......++|.-.-+..+++
T Consensus       126 ~~l~TGiraID~l~-pigkGQR~gIfa~~GvGKt~Ll~~i~~~~~~~~~~v~V~~liGER~rEv  188 (463)
T PRK09280        126 EILETGIKVIDLLA-PYAKGGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGERTREG  188 (463)
T ss_pred             ceeccCCeeecccC-CcccCCEEEeecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCcHHH
Confidence            46899999999864 5889999999999999999999999999875434456666655555554

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=96.87  E-value=0.0072  Score=63.13  Aligned_cols=36  Identities=17%  Similarity=0.408  Sum_probs=29.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        20 il~~isl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (506)
T PRK13549         20 ALDNVSLKVRAGEIVSLCGENGAGKSTLMKVLSGVY   55 (506)
T ss_pred             eecceeEEEeCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            466664458999999999999999999998877643

>PRK03846 adenylylsulfate kinase; Provisional

Probab=96.87  E-value=0.0066  Score=54.99  Aligned_cols=41  Identities=15%  Similarity=0.234  Sum_probs=34.6

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      ++|.++.|.|.||+||||++..++.... ..|.+++++..+.
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~-~~~~~~~~ld~d~   62 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEALH-ELGVSTYLLDGDN   62 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH-hCCCCEEEEcCEe
Confidence            6788999999999999999999998775 3577888886643

>COG1204 Superfamily II helicase [General function prediction only]

Probab=96.86  E-value=0.0059  Score=66.18  Aligned_cols=147  Identities=16%  Similarity=0.204  Sum_probs=82.3

Q ss_pred             CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHH-HHhCCCCccccccCCCCcchHHH
Q psy2892         209 SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM-SGIQLAMRML-GSVGKLDQHKLRTGRLSSDDWPR  286 (452)
Q Consensus       209 gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~-~~~~i~~R~~-a~~~~i~~~~i~~g~l~~~~~~~  286 (452)
                      .|+..|+=++|++|+|+|||.+|.-.+.+...+.|.+|+|+.-=- =..+...++- -...|+... +.+|......   
T Consensus        42 ~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~~~~~~GirV~-~~TgD~~~~~---  117 (766)
T COG1204          42 KGLLSDENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSRLEELGIRVG-ISTGDYDLDD---  117 (766)
T ss_pred             ccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhhhHHhcCCEEE-EecCCcccch---
Confidence            455557789999999999999999888888766578999985321 1122222222 011233322 2234433211   


Q ss_pred             HHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCC
Q psy2892         287 INDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINC  366 (452)
Q Consensus       287 ~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i  366 (452)
                           +++.+..+.|.     |.+.+-...++...-...+++||||-++.+....++.    -+..+...++.+..  .+
T Consensus       118 -----~~l~~~~ViVt-----T~EK~Dsl~R~~~~~~~~V~lvViDEiH~l~d~~RG~----~lE~iv~r~~~~~~--~~  181 (766)
T COG1204         118 -----ERLARYDVIVT-----TPEKLDSLTRKRPSWIEEVDLVVIDEIHLLGDRTRGP----VLESIVARMRRLNE--LI  181 (766)
T ss_pred             -----hhhccCCEEEE-----chHHhhHhhhcCcchhhcccEEEEeeeeecCCcccCc----eehhHHHHHHhhCc--ce
Confidence                 23445566664     3334433333221111159999999999998753322    23344444444332  27


Q ss_pred             cEEEEecCC
Q psy2892         367 PILALSQLN  375 (452)
Q Consensus       367 ~vi~l~ql~  375 (452)
                      -++.++-.-
T Consensus       182 rivgLSATl  190 (766)
T COG1204         182 RIVGLSATL  190 (766)
T ss_pred             EEEEEeeec
Confidence            778777543

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=96.86  E-value=0.0089  Score=62.34  Aligned_cols=34  Identities=18%  Similarity=0.315  Sum_probs=27.6

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      |+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus       268 l~~vsl~i~~Ge~~~liG~NGsGKSTLl~~l~G~  301 (501)
T PRK10762        268 VNDVSFTLRKGEILGVSGLMGAGRTELMKVLYGA  301 (501)
T ss_pred             cccceEEEcCCcEEEEecCCCCCHHHHHHHHhCC
Confidence            4444335789999999999999999999877743

>COG4674 Uncharacterized ABC-type transport system, ATPase component [General function prediction only]

Probab=96.86  E-value=0.0021  Score=56.74  Aligned_cols=65  Identities=22%  Similarity=0.333  Sum_probs=44.4

Q ss_pred             cCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe-CC---CCHHHHHHHHHH
Q psy2892         199 TGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS-ME---MSGIQLAMRMLG  264 (452)
Q Consensus       199 tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s-~E---~~~~~i~~R~~a  264 (452)
                      -||..|+.+.--+.+|++-+|.||.|+|||||+--|.-..- -...+|+|-. .+   ++..+++++=+.
T Consensus        16 ~GF~Aln~ls~~v~~Gelr~lIGpNGAGKTT~mD~ItGKtr-p~~G~v~f~g~~dl~~~~e~~IAr~GIG   84 (249)
T COG4674          16 GGFKALNDLSFSVDPGELRVLIGPNGAGKTTLMDVITGKTR-PQEGEVLFDGDTDLTKLPEHRIARAGIG   84 (249)
T ss_pred             cceeeeeeeEEEecCCeEEEEECCCCCCceeeeeeecccCC-CCcceEEEcCchhhccCCHHHHHHhccC
Confidence            38889998866789999999999999999999876665441 1223455543 23   344555544443

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=96.84  E-value=0.0024  Score=61.33  Aligned_cols=59  Identities=24%  Similarity=0.435  Sum_probs=45.7

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcE------EEEeCCCCHHHHHHHHHHHhCCCCc
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPV------AIFSMEMSGIQLAMRMLGSVGKLDQ  271 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~v------l~~s~E~~~~~i~~R~~a~~~~i~~  271 (452)
                      =..|.-++++||||+|||++|+.++..+-  .+.|-      =++|+|++..+.+.+.+....|+-.
T Consensus        62 k~aGrgiLi~GppgTGKTAlA~gIa~eLG--~dvPF~~isgsEiYS~E~kKTE~L~qa~RraIGvri  126 (450)
T COG1224          62 KMAGRGILIVGPPGTGKTALAMGIARELG--EDVPFVAISGSEIYSLEVKKTEALTQALRRAIGVRI  126 (450)
T ss_pred             cccccEEEEECCCCCcHHHHHHHHHHHhC--CCCCceeeccceeeeecccHHHHHHHHHHHhhceEe
Confidence            34467799999999999999999998763  33332      2579999999998888877766544

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=96.84  E-value=0.0095  Score=55.53  Aligned_cols=36  Identities=28%  Similarity=0.534  Sum_probs=29.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        17 ~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (237)
T cd03252          17 ILDNISLRIKPGEVVGIVGRSGSGKSTLTKLIQRFY   52 (237)
T ss_pred             ceeceEEEEcCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            455554458899999999999999999998887654

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>TIGR02633 xylG D-xylose ABC transporter, ATP-binding protein

Probab=96.84  E-value=0.013  Score=61.23  Aligned_cols=35  Identities=23%  Similarity=0.402  Sum_probs=29.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        16 il~~isl~i~~Ge~~~liG~nGsGKSTLl~~i~G~   50 (500)
T TIGR02633        16 ALDGIDLEVRPGECVGLCGENGAGKSTLMKILSGV   50 (500)
T ss_pred             eecceEEEEeCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            46666556899999999999999999999887754

Several bacterial species have enzymes xylose isomerase and xylulokinase enzymes for xylose utilization. Members of this protein family are the ATP-binding cassette (ABC) subunit of the known or predicted high-affinity xylose ABC transporter for xylose import. These genes, which closely resemble other sugar transport ABC transporter genes, typically are encoded near xylose utilization enzymes and regulatory proteins. Note that this form of the transporter contains two copies of the ABC transporter domain (pfam00005).

>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed

Probab=96.83  E-value=0.024  Score=53.16  Aligned_cols=35  Identities=20%  Similarity=0.420  Sum_probs=29.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus        16 ~l~~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   50 (248)
T PRK09580         16 ILRGLNLEVRPGEVHAIMGPNGSGKSTLSATLAGR   50 (248)
T ss_pred             eeecceeEEcCCCEEEEECCCCCCHHHHHHHHcCC
Confidence            45555445899999999999999999999877764

>TIGR03689 pup_AAA proteasome ATPase

Probab=96.83  E-value=0.0059  Score=62.91  Aligned_cols=30  Identities=27%  Similarity=0.515  Sum_probs=24.6

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      |+++..-++|.||||+|||+++..++..+.
T Consensus       212 gl~~p~GILLyGPPGTGKT~LAKAlA~eL~  241 (512)
T TIGR03689       212 DLKPPKGVLLYGPPGCGKTLIAKAVANSLA  241 (512)
T ss_pred             cCCCCcceEEECCCCCcHHHHHHHHHHhhc
Confidence            454444589999999999999999988774

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.

>PLN03140 ABC transporter G family member; Provisional

Probab=96.83  E-value=0.012  Score=68.64  Aligned_cols=40  Identities=25%  Similarity=0.453  Sum_probs=34.3

Q ss_pred             cCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         199 TGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       199 tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+..-|+.+.+-+++|+++.|.|+||+|||||+.-++-..
T Consensus       176 ~~~~IL~~vs~~i~~Ge~~~llGpnGSGKSTLLk~LaG~l  215 (1470)
T PLN03140        176 TKLTILKDASGIIKPSRMTLLLGPPSSGKTTLLLALAGKL  215 (1470)
T ss_pred             ccceeccCCeEEEeCCeEEEEEcCCCCCHHHHHHHHhCCC
Confidence            3566788887789999999999999999999998887654

>PRK13409 putative ATPase RIL; Provisional

Probab=96.83  E-value=0.0074  Score=63.99  Aligned_cols=34  Identities=18%  Similarity=0.207  Sum_probs=27.5

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      |..+. -+.+|+++.|.|++|+||||++.-++-..
T Consensus        90 L~~l~-~i~~Gev~gLvG~NGaGKSTLlkiL~G~l  123 (590)
T PRK13409         90 LYGLP-IPKEGKVTGILGPNGIGKTTAVKILSGEL  123 (590)
T ss_pred             EecCC-cCCCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            55544 48899999999999999999997766543

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=96.83  E-value=0.017  Score=58.44  Aligned_cols=65  Identities=14%  Similarity=0.110  Sum_probs=51.0

Q ss_pred             ccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHH
Q psy2892         194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLA  259 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~  259 (452)
                      ...+.||+..+|-+. .+.+|+=..|.|++|+|||+++.+++.+.+..+..-++|...-+..+++.
T Consensus       119 ~e~L~TGIr~ID~l~-pigkGQr~~Ifg~~G~GKt~l~~~~~~~~~~~~~~v~V~~~iGeR~rEv~  183 (449)
T TIGR03305       119 SEVFETGIKAIDVLV-PLERGGKAGLFGGAGVGKTVLLTEMIHNMVGQHQGVSIFCGIGERCREGE  183 (449)
T ss_pred             CcccccCceeecccc-ccccCCEEEeecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCcHHHH
Confidence            346899999999864 58899999999999999999999999997633234566766655555543

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies

Probab=96.82  E-value=0.0012  Score=60.07  Aligned_cols=167  Identities=14%  Similarity=0.215  Sum_probs=78.5

Q ss_pred             ccccCcccccc-ccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh---CCCcEEEEeCCCCHHHHHHHHHHHhCCCCc
Q psy2892         196 GISTGFFELDK-ITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE---NKLPVAIFSMEMSGIQLAMRMLGSVGKLDQ  271 (452)
Q Consensus       196 ~i~tg~~~LD~-~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~---~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~  271 (452)
                      .++.|...... +.-.+....-++|+|.||+|||+++..++..++..   ....+..+..-..  ++     +...+++.
T Consensus        19 ~i~~g~~~~~~~v~~dl~~~~h~li~G~tgsGKS~~l~~ll~~l~~~~~p~~~~l~iiD~k~~--~l-----~~~~~~~~   91 (205)
T PF01580_consen   19 PIPVGVDQRGDPVVLDLKKNPHLLIAGATGSGKSTLLRTLLLSLALTYSPDDVQLYIIDPKGS--DL-----APLADLPH   91 (205)
T ss_dssp             EEEEEEETTS-EEEEEGGGS-SEEEE--TTSSHHHHHHHHHHHHHTT--TTTEEEEEE-TTSS--CC-----GGGTT-TT
T ss_pred             EEEecccCCCCEEEEEcCCCceEEEEcCCCCCccHHHHHHHHHHHHHhcCCccEEEEEcCCcc--cc-----chhhhhhh
Confidence            45555554322 22234444469999999999999999999999862   2333444444322  11     11111111


Q ss_pred             cccccCCCCcchHHHHHHHHHHHh----CCCeEEEcCCCCCHHHHHHHHHHHHH---------HcCCccEEEEcCcchhc
Q psy2892         272 HKLRTGRLSSDDWPRINDSIKKIN----KSQLYIDETPSLNVIELRANSRRLSR---------QCGKIGVIIIDYLQLMS  338 (452)
Q Consensus       272 ~~i~~g~l~~~~~~~~~~a~~~l~----~~~l~i~~~~~~t~~~i~~~i~~~~~---------~~~~~~~vvID~l~~i~  338 (452)
                        +..+.. ..+.+.+...++++.    ...-.+......++.........+..         .. ..-+++||.+..+.
T Consensus        92 --~~~~~~-~~~~~~~~~~l~~l~~em~~R~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~i~~~iDe~~~l~  167 (205)
T PF01580_consen   92 --VAAVAV-ATDPEEILRLLEELVEEMERRQALLREAGVRNIDDYNEERGELPDDIFADPWLKEL-PPIFIVIDEFAALR  167 (205)
T ss_dssp             --BSS-S--B-SHHHHHHHHHHHHHHHHHHHHHHHHCT-SSHHHHHHHHHHHHHTT----B------EEEEEECTHHHHH
T ss_pred             --hccccc-cccHHHHHHHHHHHHHHHHHHHHHHHHcCccchhhHHHHhhhhccccccccccccC-chHHHHhhhHHHHH
Confidence              111001 112222222322221    11111111222233332222222111         22 36799999999887


Q ss_pred             cCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         339 ANSRGENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       339 ~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                      ....... ...+...+..+-+.++..||.+|+.+|-
T Consensus       168 ~~~~~~~-~~~~~~~l~~i~~~gR~~Gi~li~~~Q~  202 (205)
T PF01580_consen  168 DSAPDDS-KKEIMDLLARIARKGRAAGIHLILATQR  202 (205)
T ss_dssp             HHHHHH-----HHHHHHHHHHHCGGGTEEEEEEESS
T ss_pred             hhcchhh-HHHHHHHHHHHHHHHHhcCEEEEEEeCC
Confidence            5431111 2345566666777788999999999984

The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.

>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]

Probab=96.82  E-value=0.014  Score=58.65  Aligned_cols=138  Identities=16%  Similarity=0.143  Sum_probs=89.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCcccc--ccCCCCcchHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKL--RTGRLSSDDWPRINDSIKK  293 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i--~~g~l~~~~~~~~~~a~~~  293 (452)
                      =++++-|+|.|||.+|.-++.+.....+.+++|.+.--|--.-..+.....+|++...+  .+|..++++...      .
T Consensus        31 NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~ltGev~p~~R~~------~  104 (542)
T COG1111          31 NTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALTGEVRPEEREE------L  104 (542)
T ss_pred             CeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCCChhheeeecCCCChHHHHH------H
Confidence            37788899999999999999877655566899999888877777788888899988765  358887765443      2


Q ss_pred             HhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEec
Q psy2892         294 INKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQ  373 (452)
Q Consensus       294 l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~q  373 (452)
                      |...++++. +|..-.++|..-.-.+   . .+.++|+|--+.-.+.    .   +...+++..-..+  .+..|+.++-
T Consensus       105 w~~~kVfva-TPQvveNDl~~Grid~---~-dv~~lifDEAHRAvGn----y---AYv~Va~~y~~~~--k~~~ilgLTA  170 (542)
T COG1111         105 WAKKKVFVA-TPQVVENDLKAGRIDL---D-DVSLLIFDEAHRAVGN----Y---AYVFVAKEYLRSA--KNPLILGLTA  170 (542)
T ss_pred             HhhCCEEEe-ccHHHHhHHhcCccCh---H-HceEEEechhhhccCc----c---hHHHHHHHHHHhc--cCceEEEEec
Confidence            445677775 3322223333322111   1 4789999997654432    1   2345555444443  3555666653

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=96.82  E-value=0.026  Score=59.18  Aligned_cols=59  Identities=8%  Similarity=0.089  Sum_probs=42.5

Q ss_pred             CccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhcee
Q psy2892         325 KIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVI  404 (452)
Q Consensus       325 ~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~v  404 (452)
                      +++++++|.-..      +-+ ......+.+.|+.++++.+.+||+++|--.                   .+.+.||.+
T Consensus       445 ~p~lLllDEPt~------~LD-~~~~~~l~~~l~~l~~~~g~tvi~vsHd~~-------------------~~~~~~d~i  498 (520)
T TIGR03269       445 EPRIVILDEPTG------TMD-PITKVDVTHSILKAREEMEQTFIIVSHDMD-------------------FVLDVCDRA  498 (520)
T ss_pred             CCCEEEEeCCcc------cCC-HHHHHHHHHHHHHHHHHcCcEEEEEeCCHH-------------------HHHHhCCEE
Confidence            499999998532      122 233457778888888888999999988432                   255678999


Q ss_pred             EEEec
Q psy2892         405 LFIYR  409 (452)
Q Consensus       405 l~l~r  409 (452)
                      +.|+.
T Consensus       499 ~~l~~  503 (520)
T TIGR03269       499 ALMRD  503 (520)
T ss_pred             EEEEC
Confidence            98864

The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.

>TIGR00956 3a01205 Pleiotropic Drug Resistance (PDR) Family protein

Probab=96.81  E-value=0.015  Score=67.81  Aligned_cols=37  Identities=30%  Similarity=0.542  Sum_probs=31.8

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ..-|+.+.+-+++|+++.|.|+||+|||||+.-++-.
T Consensus        74 ~~iL~~vs~~i~~Ge~~aIlG~nGsGKSTLLk~LaG~  110 (1394)
T TIGR00956        74 FDILKPMDGLIKPGELTVVLGRPGSGCSTLLKTIASN  110 (1394)
T ss_pred             ceeeeCCEEEEECCEEEEEECCCCCCHHHHHHHHhCC
Confidence            3457777777999999999999999999999888764

>TIGR00956 3a01205 Pleiotropic Drug Resistance (PDR) Family protein

Probab=96.81  E-value=0.02  Score=66.75  Aligned_cols=160  Identities=18%  Similarity=0.229  Sum_probs=80.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCC---cEEEEeCCCCHHHHHHHHHHHhCCCCc----ccc-
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKL---PVAIFSMEMSGIQLAMRMLGSVGKLDQ----HKL-  274 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~---~vl~~s~E~~~~~i~~R~~a~~~~i~~----~~i-  274 (452)
                      -|+.+.+-+++|+++.|.|++|+|||||+.-++-...  .|.   .-+++.......++ .|.++....-+.    -.+ 
T Consensus       778 iL~~vs~~i~~Ge~~aI~G~sGaGKSTLL~~Lag~~~--~g~~~~G~I~i~G~~~~~~~-~~~i~yv~Q~~~~~~~~Tv~  854 (1394)
T TIGR00956       778 ILNNVDGWVKPGTLTALMGASGAGKTTLLNVLAERVT--TGVITGGDRLVNGRPLDSSF-QRSIGYVQQQDLHLPTSTVR  854 (1394)
T ss_pred             eeeCCEEEEECCEEEEEECCCCCCHHHHHHHHhCCCC--CCCcceeEEEECCEECChhh-hcceeeecccccCCCCCCHH
Confidence            4666666789999999999999999999987776432  111   12233332111121 222221111110    000 


Q ss_pred             ---------cc-CCCCcch-HHHHHHHHHHHhCC---CeEEEc-CCCCCHHHHHHHHHHHHHHcCCcc-EEEEcCcchhc
Q psy2892         275 ---------RT-GRLSSDD-WPRINDSIKKINKS---QLYIDE-TPSLNVIELRANSRRLSRQCGKIG-VIIIDYLQLMS  338 (452)
Q Consensus       275 ---------~~-g~l~~~~-~~~~~~a~~~l~~~---~l~i~~-~~~~t~~~i~~~i~~~~~~~~~~~-~vvID~l~~i~  338 (452)
                               +. ...++++ ++++.+.++.+.-.   +-.+.+ ...+|..+-+...-...--. +++ ++++|.-+.  
T Consensus       855 E~L~~~a~l~~~~~~~~~~~~~~v~~~l~~l~L~~~~d~~v~~~~~~LSgGqrqRl~Ia~aL~~-~P~~iLlLDEPTs--  931 (1394)
T TIGR00956       855 ESLRFSAYLRQPKSVSKSEKMEYVEEVIKLLEMESYADAVVGVPGEGLNVEQRKRLTIGVELVA-KPKLLLFLDEPTS--  931 (1394)
T ss_pred             HHHHHHHHhCCCCCCCHHHHHHHHHHHHHHcCChhhCCCeeCCCCCCCCHHHhhHHHHHHHHHc-CCCeEEEEcCCCC--
Confidence                     00 0122222 23344444443211   112211 11466665544322222223 486 999998432  


Q ss_pred             cCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         339 ANSRGENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       339 ~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                          +-+. .....+.+.|++++++ |.+||+++|-
T Consensus       932 ----gLD~-~~~~~i~~~L~~la~~-g~tvI~t~H~  961 (1394)
T TIGR00956       932 ----GLDS-QTAWSICKLMRKLADH-GQAILCTIHQ  961 (1394)
T ss_pred             ----CCCH-HHHHHHHHHHHHHHHc-CCEEEEEecC
Confidence                2222 2345778888888864 7787777763

>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type

Probab=96.81  E-value=0.007  Score=59.23  Aligned_cols=141  Identities=13%  Similarity=0.137  Sum_probs=71.2

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHH---
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDS---  290 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a---  290 (452)
                      +..++|.|+||+||||++..++...    +.++   ..|...+.+.+. ..   +-       ..+..+++..+...   
T Consensus       162 ~~~~~~~G~~~~gkstl~~~l~~~~----~~~~---v~E~~R~~~~~~-~~---~~-------~~l~~~d~~~i~~g~~~  223 (325)
T TIGR01526       162 VKTVAILGGESTGKSTLVNKLAAVF----NTTS---AWEYAREYVEEK-LG---GD-------EALQYSDYAQIALGQQR  223 (325)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhh----CCCE---EeehhHHHHHHh-cC---CC-------cccCHHHHHHHHHHHHH
Confidence            5689999999999999999988743    3444   344433322222 10   00       11222221111111   


Q ss_pred             --HHHHhC-CCeEEEcCCCCCHH---HHH-----HHHHHHHHHcCCcc-EEEEcCcchhccCC-CCCCHHHHHHHHHHHH
Q psy2892         291 --IKKINK-SQLYIDETPSLNVI---ELR-----ANSRRLSRQCGKIG-VIIIDYLQLMSANS-RGENRATEISEISRNL  357 (452)
Q Consensus       291 --~~~l~~-~~l~i~~~~~~t~~---~i~-----~~i~~~~~~~~~~~-~vvID~l~~i~~~~-~~~~~~~~~~~i~~~L  357 (452)
                        ...+.. ..+.+.|.+.++.-   ++.     ..+....+.. +.+ +++++.......++ +.....+....+.+.|
T Consensus       224 ~~~~~~~~a~~iif~D~~~~~t~~y~~~~~~~~~~~~~~~~~~~-~ydl~~l~~p~~~~~~D~~R~~~~~~~R~~~~~ll  302 (325)
T TIGR01526       224 YIDYAVRHAHKIAFIDTDFITTQVFAKQYEGREHPFLDSDIAEY-PFDLTLLLKPNTEWVDDGLRSLGSQKQRQEFQQLL  302 (325)
T ss_pred             HHHHHHhhcCCeEEEcCChHHHHHHHHHHcCCCCHHHHHHHHhc-CCCEEEECCCCCCCccCCcccCchHHHHHHHHHHH
Confidence              111211 24455554433210   000     0112222222 245 55556655433332 3233333445667799


Q ss_pred             HHHHHHhCCcEEEEec
Q psy2892         358 KGLAKEINCPILALSQ  373 (452)
Q Consensus       358 k~lA~~~~i~vi~l~q  373 (452)
                      +++.+++|++++.+.|
T Consensus       303 ~~~l~~~G~~~v~Vtg  318 (325)
T TIGR01526       303 KKLLDEYGVPFVVIES  318 (325)
T ss_pred             HHHHHHcCCcEEEEeC
Confidence            9999999999999988

E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity.

>COG4586 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=96.80  E-value=0.038  Score=51.55  Aligned_cols=179  Identities=15%  Similarity=0.151  Sum_probs=91.6

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC--CHHHHHHHHHHHhCCC------Ccccc
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM--SGIQLAMRMLGSVGKL------DQHKL  274 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~--~~~~i~~R~~a~~~~i------~~~~i  274 (452)
                      ..-++.--+++|+++.+.|+.|+||||...-+.--..- .+..|-.-..+=  ..++...++ ....|.      +....
T Consensus        39 AVqdisf~IP~G~ivgflGaNGAGKSTtLKmLTGll~p-~~G~v~V~G~~Pf~~~~~~~~~~-~~v~gqk~ql~Wdlp~~  116 (325)
T COG4586          39 AVQDISFEIPKGEIVGFLGANGAGKSTTLKMLTGLLLP-TSGKVRVNGKDPFRRREEYLRSI-GLVMGQKLQLWWDLPAL  116 (325)
T ss_pred             hhheeeeecCCCcEEEEEcCCCCcchhhHHHHhCcccc-CCCeEEecCcCcchhHHHHHHHH-HHHhhhhheeeeechhh
Confidence            34444345899999999999999999987654433321 223344332221  112233333 222221      11100


Q ss_pred             cc-------CCCCcchHHHHHHHHHHHhCCCeEEE-cCCCCCHHHH-HHHHHHHHHHcCCccEEEEcCcchhccCCCCCC
Q psy2892         275 RT-------GRLSSDDWPRINDSIKKINKSQLYID-ETPSLNVIEL-RANSRRLSRQCGKIGVIIIDYLQLMSANSRGEN  345 (452)
Q Consensus       275 ~~-------g~l~~~~~~~~~~a~~~l~~~~l~i~-~~~~~t~~~i-~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~  345 (452)
                      .+       -.+++.++.+-.+....+-+..=++. ....+|..+= +..+. +.--| +|+++++|-.+.=       -
T Consensus       117 ds~~v~~~Iy~Ipd~~F~~r~~~l~eiLdl~~~lk~~vr~LSlGqRmraeLa-aaLLh-~p~VLfLDEpTvg-------L  187 (325)
T COG4586         117 DSLEVLKLIYEIPDDEFAERLDFLTEILDLEGFLKWPVRKLSLGQRMRAELA-AALLH-PPKVLFLDEPTVG-------L  187 (325)
T ss_pred             hhHHHHHHHHhCCHHHHHHHHHHHHHHhcchhhhhhhhhhccchHHHHHHHH-HHhcC-CCcEEEecCCccC-------c
Confidence            00       01223222211111111111110111 1233444332 22221 12235 4999999986531       1


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         346 RATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       346 ~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                      ....-..+-+.|+....+++++|++++|-=                   +.|++.||.|++++.-+
T Consensus       188 DV~aq~~ir~Flke~n~~~~aTVllTTH~~-------------------~di~~lc~rv~~I~~Gq  234 (325)
T COG4586         188 DVNAQANIREFLKEYNEERQATVLLTTHIF-------------------DDIATLCDRVLLIDQGQ  234 (325)
T ss_pred             chhHHHHHHHHHHHHHHhhCceEEEEecch-------------------hhHHHhhhheEEeeCCc
Confidence            112234667789999999999999999842                   24899999999997654

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=96.80  E-value=0.011  Score=61.68  Aligned_cols=36  Identities=17%  Similarity=0.168  Sum_probs=28.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus       278 ~l~~isl~i~~Ge~~~l~G~NGsGKSTLlk~i~Gl~  313 (510)
T PRK09700        278 KVRDISFSVCRGEILGFAGLVGSGRTELMNCLFGVD  313 (510)
T ss_pred             cccceeEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            355553357899999999999999999998887543

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=96.77  E-value=0.014  Score=51.87  Aligned_cols=114  Identities=13%  Similarity=0.043  Sum_probs=61.2

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhC-CCcEEEEeCC-CCHHHHHHHHHHHhCCCC--ccccccCCCCcchHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIEN-KLPVAIFSME-MSGIQLAMRMLGSVGKLD--QHKLRTGRLSSDDWPRINDS  290 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~-g~~vl~~s~E-~~~~~i~~R~~a~~~~i~--~~~i~~g~l~~~~~~~~~~a  290 (452)
                      ...+|.|++|+|||+.+...+....... ..+++|++.. ....++..++........  ...+..+....+++.++   
T Consensus        25 ~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---  101 (201)
T smart00487       25 RDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKL---  101 (201)
T ss_pred             CcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhccCCeEEEEEeCCcchHHHHHHH---
Confidence            4789999999999997777777765432 3678888663 223455555554332211  11112222112222221   


Q ss_pred             HHHHhCC-CeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         291 IKKINKS-QLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       291 ~~~l~~~-~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                         .... .+.+.     |.+.+...+........+++++|||..+.+..
T Consensus       102 ---~~~~~~v~~~-----t~~~l~~~~~~~~~~~~~~~~iIiDE~h~~~~  143 (201)
T smart00487      102 ---ESGKTDILVT-----TPGRLLDLLENDLLELSNVDLVILDEAHRLLD  143 (201)
T ss_pred             ---hcCCCCEEEe-----ChHHHHHHHHcCCcCHhHCCEEEEECHHHHhc
Confidence               1122 44443     33444444433111111478999999998875

>COG4172 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]

Probab=96.77  E-value=0.027  Score=55.30  Aligned_cols=178  Identities=16%  Similarity=0.156  Sum_probs=97.7

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC----CHHH---HHHHHHHHhCCCCcc-
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM----SGIQ---LAMRMLGSVGKLDQH-  272 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~----~~~~---i~~R~~a~~~~i~~~-  272 (452)
                      +...|.+.--+++|+..-|.|.+|+|||||++.+..-... .  .-++|..+.    +..+   +..|| .....-++. 
T Consensus       300 ~~AVd~isl~L~~gqTlGlVGESGSGKsTlG~allrL~~s-~--G~I~F~G~~i~~~~~~~mrplR~~m-QvVFQDPygS  375 (534)
T COG4172         300 LRAVDGISLTLRRGQTLGLVGESGSGKSTLGLALLRLIPS-Q--GEIRFDGQDIDGLSRKEMRPLRRRM-QVVFQDPYGS  375 (534)
T ss_pred             eEEeccceeEecCCCeEEEEecCCCCcchHHHHHHhhcCc-C--ceEEECCccccccChhhhhhhhhhc-eEEEeCCCCC
Confidence            3445555445899999999999999999999988765532 2  233443332    1111   11111 111111111 


Q ss_pred             --------cc-ccC------CCCcch-HHHHHHHHHHHhCCCeEE-EcCCCCCH--HHHHHHHHHHHHHcCCccEEEEcC
Q psy2892         273 --------KL-RTG------RLSSDD-WPRINDSIKKINKSQLYI-DETPSLNV--IELRANSRRLSRQCGKIGVIIIDY  333 (452)
Q Consensus       273 --------~i-~~g------~l~~~~-~~~~~~a~~~l~~~~l~i-~~~~~~t~--~~i~~~i~~~~~~~~~~~~vvID~  333 (452)
                              .| .+|      .++..| .+++.+|.....-.+-.. .....+|=  -+=.+.++.+.-   +|.+|++|.
T Consensus       376 LsPRmtV~qII~EGL~vh~~~ls~~eR~~rv~~aL~EVGLDp~~r~RYPhEFSGGQRQRIAIARAliL---kP~~i~LDE  452 (534)
T COG4172         376 LSPRMTVGQIIEEGLRVHEPKLSAAERDQRVIEALEEVGLDPATRNRYPHEFSGGQRQRIAIARALIL---KPELILLDE  452 (534)
T ss_pred             CCcccCHHHHhhhhhhhcCCCCCHHHHHHHHHHHHHHcCCChhHhhcCCcccCcchhhHHHHHHHHhc---CCcEEEecC
Confidence                    11 111      334333 334555555442111111 11112331  233344444443   599999998


Q ss_pred             cchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         334 LQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       334 l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                      -+.       .-+..-..++..-|+.|-+++|+.-+.++|==+                   -+...||.||.+..-+
T Consensus       453 PTS-------ALD~SVQaQvv~LLr~LQ~k~~LsYLFISHDL~-------------------VvrAl~~~viVm~~Gk  504 (534)
T COG4172         453 PTS-------ALDRSVQAQVLDLLRDLQQKHGLSYLFISHDLA-------------------VVRALCHRVIVMRDGK  504 (534)
T ss_pred             Cch-------HhhHHHHHHHHHHHHHHHHHhCCeEEEEeccHH-------------------HHHHhhceEEEEeCCE
Confidence            432       112233468889999999999999999998321                   3455689999886544

>PLN03211 ABC transporter G-25; Provisional

Probab=96.75  E-value=0.013  Score=63.05  Aligned_cols=36  Identities=22%  Similarity=0.393  Sum_probs=30.7

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .-|+.+.+-+++|+++.|.|++|+|||||+.-++-.
T Consensus        82 ~iL~~vs~~i~~Ge~~aI~GpnGaGKSTLL~iLaG~  117 (659)
T PLN03211         82 TILNGVTGMASPGEILAVLGPSGSGKSTLLNALAGR  117 (659)
T ss_pred             eeeeCCEEEEECCEEEEEECCCCCCHHHHHHHHhCC
Confidence            356777667999999999999999999998887754

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=96.75  E-value=0.015  Score=60.79  Aligned_cols=35  Identities=20%  Similarity=0.361  Sum_probs=29.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+++|+++.|.|++|+|||||+.-++-.
T Consensus       277 vl~~vsl~i~~Ge~~~l~G~NGsGKSTLlk~i~Gl  311 (506)
T PRK13549        277 RVDDVSFSLRRGEILGIAGLVGAGRTELVQCLFGA  311 (506)
T ss_pred             cccceeeEEcCCcEEEEeCCCCCCHHHHHHHHhCC
Confidence            45665445899999999999999999999888754

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.73  E-value=0.0029  Score=56.14  Aligned_cols=40  Identities=20%  Similarity=0.200  Sum_probs=33.3

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      .++|.++++.|+||+||||++..++.... ..+..+.+++.
T Consensus         4 ~~~~~~I~i~G~~GsGKst~a~~l~~~l~-~~~~~~~~~~~   43 (176)
T PRK05541          4 KPNGYVIWITGLAGSGKTTIAKALYERLK-LKYSNVIYLDG   43 (176)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHHHHHH-HcCCcEEEEec
Confidence            56788999999999999999999998875 35667777753

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.73  E-value=0.011  Score=58.12  Aligned_cols=60  Identities=13%  Similarity=0.263  Sum_probs=40.7

Q ss_pred             ccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC-CCcEEEEeCCCCHHHH
Q psy2892         198 STGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN-KLPVAIFSMEMSGIQL  258 (452)
Q Consensus       198 ~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~-g~~vl~~s~E~~~~~i  258 (452)
                      +++...+|-+. .+-+|+=.+|.|+||+|||+++.+++..+..+. +..+.|+.......++
T Consensus       118 ~~~~RvID~l~-PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV  178 (380)
T PRK12608        118 DLSMRVVDLVA-PIGKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEV  178 (380)
T ss_pred             chhHhhhhhee-ecCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCH
Confidence            35556677653 456788899999999999999999999886432 2224454444444433

>KOG0739|consensus

Probab=96.73  E-value=0.014  Score=54.81  Aligned_cols=97  Identities=24%  Similarity=0.382  Sum_probs=62.2

Q ss_pred             cccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCcccccc
Q psy2892         197 ISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRT  276 (452)
Q Consensus       197 i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~  276 (452)
                      +|-.||-|  .+|+-.|=.=+++.||||.|||-+|...|-.+    +  ..|||.  |...++.+++.            
T Consensus       151 LPIKFPql--FtGkR~PwrgiLLyGPPGTGKSYLAKAVATEA----n--STFFSv--SSSDLvSKWmG------------  208 (439)
T KOG0739|consen  151 LPIKFPQL--FTGKRKPWRGILLYGPPGTGKSYLAKAVATEA----N--STFFSV--SSSDLVSKWMG------------  208 (439)
T ss_pred             ecccchhh--hcCCCCcceeEEEeCCCCCcHHHHHHHHHhhc----C--CceEEe--ehHHHHHHHhc------------
Confidence            45555544  24666666669999999999998887666433    3  556776  34466666641            


Q ss_pred             CCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHH
Q psy2892         277 GRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRAT  348 (452)
Q Consensus       277 g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~  348 (452)
                            +                         -+.+...+-.+.+++ +|.+||||.+..+.... .+|+.+
T Consensus       209 ------E-------------------------SEkLVknLFemARe~-kPSIIFiDEiDslcg~r-~enEse  247 (439)
T KOG0739|consen  209 ------E-------------------------SEKLVKNLFEMAREN-KPSIIFIDEIDSLCGSR-SENESE  247 (439)
T ss_pred             ------c-------------------------HHHHHHHHHHHHHhc-CCcEEEeehhhhhccCC-CCCchH
Confidence                  0                         123334444566777 59999999999877654 344433

>PRK13343 F0F1 ATP synthase subunit alpha; Provisional

Probab=96.72  E-value=0.011  Score=60.49  Aligned_cols=64  Identities=16%  Similarity=0.244  Sum_probs=49.7

Q ss_pred             ccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHH
Q psy2892         194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLA  259 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~  259 (452)
                      ...+.||+..+|-++ .+.+|+=..|.|.+|+|||+++++...+.. ..+..|+|...-....++.
T Consensus       143 ~epl~TGIkaID~l~-pigrGQR~~I~g~~g~GKt~Lal~~i~~~~-~~dv~~V~~~IGer~rev~  206 (502)
T PRK13343        143 TEPLQTGIKVVDALI-PIGRGQRELIIGDRQTGKTAIAIDAIINQK-DSDVICVYVAIGQKASAVA  206 (502)
T ss_pred             CcccccCCceecccc-ccccCCEEEeeCCCCCCccHHHHHHHHhhc-CCCEEEEEEEeccChHHHH
Confidence            346889999999974 588999999999999999999888777653 3455567777666655543

>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG

Probab=96.72  E-value=0.0045  Score=59.14  Aligned_cols=42  Identities=10%  Similarity=0.109  Sum_probs=36.3

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQ  257 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~  257 (452)
                      -+.+.++.+|.|||+++.++|..+|. .|.+|+.+.+......
T Consensus       105 vi~vts~~~g~Gktt~a~nLA~~la~-~g~~VllID~D~~~~~  146 (274)
T TIGR03029       105 ALAVVSAKSGEGCSYIAANLAIVFSQ-LGEKTLLIDANLRDPV  146 (274)
T ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHh-cCCeEEEEeCCCCCcc
Confidence            47888899999999999999999984 7999999999866543

The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF).

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.71  E-value=0.018  Score=54.88  Aligned_cols=95  Identities=16%  Similarity=0.244  Sum_probs=58.6

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKK  293 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~  293 (452)
                      +.++-|.|+||+|||||+..++..+.  ...++.++..+.....=..|+.  ..|++...+.+|..-             
T Consensus       104 ~~~v~l~G~pGsGKTTLl~~l~~~l~--~~~~~~VI~gD~~t~~Da~rI~--~~g~pvvqi~tG~~C-------------  166 (290)
T PRK10463        104 QLVLNLVSSPGSGKTTLLTETLMRLK--DSVPCAVIEGDQQTVNDAARIR--ATGTPAIQVNTGKGC-------------  166 (290)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhc--cCCCEEEECCCcCcHHHHHHHH--hcCCcEEEecCCCCC-------------
Confidence            55899999999999999999988763  2357888877765443233332  355554444433211             


Q ss_pred             HhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         294 INKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       294 l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                                  -+.-..+...+..+...  +.+++||+..+.+..
T Consensus       167 ------------hl~a~mv~~Al~~L~~~--~~d~liIEnvGnLvc  198 (290)
T PRK10463        167 ------------HLDAQMIADAAPRLPLD--DNGILFIENVGNLVC  198 (290)
T ss_pred             ------------cCcHHHHHHHHHHHhhc--CCcEEEEECCCCccC
Confidence                        11123344445555432  378999999876543

>COG1135 AbcC ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.71  E-value=0.026  Score=53.56  Aligned_cols=158  Identities=15%  Similarity=0.173  Sum_probs=86.9

Q ss_pred             CccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-CCCcEEEEe---CCCCHHHHHHHHHHHhCCCCcccc-
Q psy2892         200 GFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-NKLPVAIFS---MEMSGIQLAMRMLGSVGKLDQHKL-  274 (452)
Q Consensus       200 g~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-~g~~vl~~s---~E~~~~~i~~R~~a~~~~i~~~~i-  274 (452)
                      .+..||.+.--+++|+++-|.|++|+||||+..-+=  ...+ ...+|++-.   ...+...+...  ....|+=+.++ 
T Consensus        18 ~~~al~~vsL~I~~GeI~GIIG~SGAGKSTLiR~iN--~Le~PtsG~v~v~G~di~~l~~~~Lr~~--R~~IGMIFQhFn   93 (339)
T COG1135          18 TVTALDDVSLEIPKGEIFGIIGYSGAGKSTLLRLIN--LLERPTSGSVFVDGQDLTALSEAELRQL--RQKIGMIFQHFN   93 (339)
T ss_pred             ceeeeccceEEEcCCcEEEEEcCCCCcHHHHHHHHh--ccCCCCCceEEEcCEecccCChHHHHHH--HhhccEEecccc
Confidence            467888886679999999999999999999976332  2211 123455544   34444443221  11111111110 


Q ss_pred             ----------------ccCCCCcchH-HHHHHHHHHHhCCCeEEEc-CCCCCH--HHHHHHHHHHHHHcCCccEEEEcCc
Q psy2892         275 ----------------RTGRLSSDDW-PRINDSIKKINKSQLYIDE-TPSLNV--IELRANSRRLSRQCGKIGVIIIDYL  334 (452)
Q Consensus       275 ----------------~~g~l~~~~~-~~~~~a~~~l~~~~l~i~~-~~~~t~--~~i~~~i~~~~~~~~~~~~vvID~l  334 (452)
                                      ..| .+.++. .|+.+..+.+. ..=+-+. ...+|-  .+-...+|.+..   +|++++-|--
T Consensus        94 LLssrTV~~NvA~PLeiag-~~k~ei~~RV~elLelVg-L~dk~~~yP~qLSGGQKQRVaIARALa~---~P~iLL~DEa  168 (339)
T COG1135          94 LLSSRTVFENVAFPLELAG-VPKAEIKQRVAELLELVG-LSDKADRYPAQLSGGQKQRVAIARALAN---NPKILLCDEA  168 (339)
T ss_pred             ccccchHHhhhhhhHhhcC-CCHHHHHHHHHHHHHHcC-ChhhhccCchhcCcchhhHHHHHHHHhc---CCCEEEecCc
Confidence                            012 233222 23444333321 1111111 122332  234455555543   4999999987


Q ss_pred             chhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEec
Q psy2892         335 QLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQ  373 (452)
Q Consensus       335 ~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~q  373 (452)
                      +.--.+.       --..|..-|+.+-+++|++|+++.|
T Consensus       169 TSALDP~-------TT~sIL~LL~~In~~lglTIvlITH  200 (339)
T COG1135         169 TSALDPE-------TTQSILELLKDINRELGLTIVLITH  200 (339)
T ss_pred             cccCChH-------HHHHHHHHHHHHHHHcCCEEEEEec
Confidence            6433221       2347788999999999999999987

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=96.70  E-value=0.24  Score=47.74  Aligned_cols=39  Identities=15%  Similarity=0.204  Sum_probs=34.5

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      ..++++.|-.|+||||-.--+|..+. ++|++|+...++-
T Consensus       139 p~Vil~vGVNG~GKTTTIaKLA~~l~-~~g~~VllaA~DT  177 (340)
T COG0552         139 PFVILFVGVNGVGKTTTIAKLAKYLK-QQGKSVLLAAGDT  177 (340)
T ss_pred             cEEEEEEecCCCchHhHHHHHHHHHH-HCCCeEEEEecch
Confidence            45899999999999999999999985 6899999987763

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=96.70  E-value=0.0031  Score=58.25  Aligned_cols=30  Identities=20%  Similarity=0.331  Sum_probs=26.0

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      ...++++++|.|+.|+|||+++..++....
T Consensus        26 ~~~~~~~~~l~G~n~~GKstll~~i~~~~~   55 (222)
T cd03285          26 TRGKSRFLIITGPNMGGKSTYIRQIGVIVL   55 (222)
T ss_pred             eecCCeEEEEECCCCCChHHHHHHHHHHHH
Confidence            356789999999999999999999987643

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

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=96.70  E-value=0.011  Score=61.65  Aligned_cols=34  Identities=24%  Similarity=0.508  Sum_probs=25.8

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      .++|  +++.||||+|||+++..+|..    .+.++++++
T Consensus        87 ~~~g--iLL~GppGtGKT~la~alA~~----~~~~~~~i~  120 (495)
T TIGR01241        87 IPKG--VLLVGPPGTGKTLLAKAVAGE----AGVPFFSIS  120 (495)
T ss_pred             CCCc--EEEECCCCCCHHHHHHHHHHH----cCCCeeecc
Confidence            3445  899999999999999988754    355666554

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.

>TIGR00954 3a01203 Peroxysomal Fatty Acyl CoA Transporter (FAT) Family protei

Probab=96.69  E-value=0.044  Score=59.14  Aligned_cols=34  Identities=18%  Similarity=0.456  Sum_probs=26.9

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      |+.+.--+++|+.+.|.|++|+|||||+.-++--
T Consensus       468 l~~isl~i~~Ge~~~IvG~nGsGKSTLl~lL~Gl  501 (659)
T TIGR00954       468 IESLSFEVPSGNHLLICGPNGCGKSSLFRILGEL  501 (659)
T ss_pred             eecceEEECCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4444334789999999999999999998777654

>COG2894 MinD Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]

Probab=96.69  E-value=0.014  Score=52.46  Aligned_cols=109  Identities=19%  Similarity=0.272  Sum_probs=72.7

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCcccc------ccCCCCcchHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKL------RTGRLSSDDWPRIND  289 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i------~~g~l~~~~~~~~~~  289 (452)
                      +++=.|--|+||||...+++..+|. .|++|+.+.++..-+     -+-...|...+-+      .+|..      ++.+
T Consensus         5 IVvTSGKGGVGKTTttAnig~aLA~-~GkKv~liD~DiGLR-----NLDlimGlE~RiVYd~vdVi~g~~------~l~Q   72 (272)
T COG2894           5 IVVTSGKGGVGKTTTTANIGTALAQ-LGKKVVLIDFDIGLR-----NLDLIMGLENRIVYDLVDVIEGEA------TLNQ   72 (272)
T ss_pred             EEEecCCCCcCccchhHHHHHHHHH-cCCeEEEEecCcCch-----hhhhhhcccceeeeeehhhhcCcc------chhh
Confidence            3455689999999999999999986 799999999987643     3333334433222      22333      2333


Q ss_pred             HHHHH-hCCCeEEEc------CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhc
Q psy2892         290 SIKKI-NKSQLYIDE------TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMS  338 (452)
Q Consensus       290 a~~~l-~~~~l~i~~------~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~  338 (452)
                      |.-+= +..++++.+      ...+|.+.+...+..++. . +.+.|++|+-.-+.
T Consensus        73 ALIkDKr~~nL~lLPAsQtrdKdalt~E~v~~vv~eL~~-~-~fDyIi~DsPAGIE  126 (272)
T COG2894          73 ALIKDKRLENLFLLPASQTRDKDALTPEGVKKVVNELKA-M-DFDYIIIDSPAGIE  126 (272)
T ss_pred             HhhccccCCceEecccccccCcccCCHHHHHHHHHHHHh-c-CCCEEEecCcchHH
Confidence            32211 123677653      346889999999999987 4 49999999954443

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=96.69  E-value=0.024  Score=52.71  Aligned_cols=36  Identities=14%  Similarity=0.234  Sum_probs=29.6

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--.
T Consensus        16 ~l~~i~~~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~   51 (236)
T cd03253          16 VLKDVSFTIPAGKKVAIVGPSGSGKSTILRLLFRFY   51 (236)
T ss_pred             eeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            455554458899999999999999999999887654

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.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=96.68  E-value=0.0076  Score=53.84  Aligned_cols=41  Identities=15%  Similarity=0.263  Sum_probs=34.5

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ..+|.+++|.|.||+|||+++..++.... ..|..+++++.+
T Consensus        15 ~~~~~~i~i~G~~GsGKstla~~l~~~l~-~~~~~~~~l~~d   55 (184)
T TIGR00455        15 GHRGVVIWLTGLSGSGKSTIANALEKKLE-SKGYRVYVLDGD   55 (184)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEECCh
Confidence            47789999999999999999999998774 456778888765

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>cd00268 DEADc DEAD-box helicases

Probab=96.68  E-value=0.024  Score=51.32  Aligned_cols=137  Identities=20%  Similarity=0.156  Sum_probs=66.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHH-HHHHHHh---CCCcEEEEeCCCCHHHHHHHHHH----Hh--CCCCccccccCCCCcch
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNI-GEHIAIE---NKLPVAIFSMEMSGIQLAMRMLG----SV--GKLDQHKLRTGRLSSDD  283 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~i-a~~~a~~---~g~~vl~~s~E~~~~~i~~R~~a----~~--~~i~~~~i~~g~l~~~~  283 (452)
                      |.-+++.+++|+|||...+-. ...+...   .+.+|+|++-.   .+++..+..    ..  .++....+. |..+..+
T Consensus        36 ~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~---~~L~~q~~~~~~~~~~~~~~~~~~~~-~~~~~~~  111 (203)
T cd00268          36 GRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPT---RELALQIAEVARKLGKHTNLKVVVIY-GGTSIDK  111 (203)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCC---HHHHHHHHHHHHHHhccCCceEEEEE-CCCCHHH
Confidence            566899999999999664333 3333322   34568888632   333333222    11  122222222 2222211


Q ss_pred             HHHHHHHHHHHh-CCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHH
Q psy2892         284 WPRINDSIKKIN-KSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAK  362 (452)
Q Consensus       284 ~~~~~~a~~~l~-~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~  362 (452)
                      .      ...+. +.++.+.     |.+.+...++.-.....+++++|||..+.+...    .....+..+.+.+.    
T Consensus       112 ~------~~~~~~~~~iiv~-----T~~~l~~~l~~~~~~~~~l~~lIvDE~h~~~~~----~~~~~~~~~~~~l~----  172 (203)
T cd00268         112 Q------IRKLKRGPHIVVA-----TPGRLLDLLERGKLDLSKVKYLVLDEADRMLDM----GFEDQIREILKLLP----  172 (203)
T ss_pred             H------HHHhcCCCCEEEE-----ChHHHHHHHHcCCCChhhCCEEEEeChHHhhcc----ChHHHHHHHHHhCC----
Confidence            1      12232 3456664     233444433322111124899999999987632    22223333333322    


Q ss_pred             HhCCcEEEEecC
Q psy2892         363 EINCPILALSQL  374 (452)
Q Consensus       363 ~~~i~vi~l~ql  374 (452)
                       .++.+++++..
T Consensus       173 -~~~~~~~~SAT  183 (203)
T cd00268         173 -KDRQTLLFSAT  183 (203)
T ss_pred             -cccEEEEEecc
Confidence             26667776654

A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=96.68  E-value=0.016  Score=51.11  Aligned_cols=36  Identities=17%  Similarity=0.345  Sum_probs=29.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        17 ~l~~i~~~i~~G~~~~l~G~nGsGKstLl~~i~G~~   52 (171)
T cd03228          17 VLKDVSLTIKPGEKVAIVGPSGSGKSTLLKLLLRLY   52 (171)
T ss_pred             cccceEEEEcCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            355554458999999999999999999998877654

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.

>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=96.67  E-value=0.0031  Score=46.50  Aligned_cols=32  Identities=19%  Similarity=0.410  Sum_probs=26.7

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +.|+|+||+|||+++..++...   .+.++.+++.
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l---~~~~~~~i~~   33 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL---GGRSVVVLDE   33 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh---cCCCEEEEeE
Confidence            6789999999999999999877   3567777754

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.

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=96.67  E-value=0.012  Score=59.27  Aligned_cols=55  Identities=18%  Similarity=0.204  Sum_probs=42.4

Q ss_pred             ccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         196 GISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       196 ~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      .+.||+..+|.+ -.+.+|+.+.|.|++|+|||+++..++.+.  +.+..++.+..|.
T Consensus       139 ~l~TGiraID~l-l~I~~Gqri~I~G~sG~GKTtLl~~Ia~~~--~~~~gvI~~iGer  193 (432)
T PRK06793        139 VFETGIKSIDSM-LTIGIGQKIGIFAGSGVGKSTLLGMIAKNA--KADINVISLVGER  193 (432)
T ss_pred             ccCCCCEEEecc-ceecCCcEEEEECCCCCChHHHHHHHhccC--CCCeEEEEeCCCC
Confidence            577999999986 468999999999999999999988887765  2334455444444

>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules

Probab=96.67  E-value=0.014  Score=54.02  Aligned_cols=36  Identities=19%  Similarity=0.396  Sum_probs=29.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-..
T Consensus        29 ~l~~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   64 (226)
T cd03248          29 VLQDVSFTLHPGEVTALVGPSGSGKSTVVALLENFY   64 (226)
T ss_pred             cccceEEEEcCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            466654458999999999999999999998777543

Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.

>PRK13695 putative NTPase; Provisional

Probab=96.67  E-value=0.0076  Score=53.31  Aligned_cols=33  Identities=33%  Similarity=0.608  Sum_probs=25.6

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhCCCcEE-EEe
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIENKLPVA-IFS  250 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl-~~s  250 (452)
                      +.|.|+||+|||||+..++.... ..|.++. |++
T Consensus         3 i~ltG~~G~GKTTll~~i~~~l~-~~G~~~~g~~~   36 (174)
T PRK13695          3 IGITGPPGVGKTTLVLKIAELLK-EEGYKVGGFYT   36 (174)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEEc
Confidence            68899999999999998887654 3566654 554

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=96.67  E-value=0.014  Score=56.96  Aligned_cols=41  Identities=29%  Similarity=0.466  Sum_probs=35.8

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      -++.|.|+||+|||||+-.++..+. ..|.+|.+++.+.+..
T Consensus        57 ~~igi~G~~GaGKSTl~~~l~~~l~-~~g~~v~vi~~Dp~s~   97 (332)
T PRK09435         57 LRIGITGVPGVGKSTFIEALGMHLI-EQGHKVAVLAVDPSST   97 (332)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEEeCCCcc
Confidence            4899999999999999999998885 4689999999987644

>COG1084 Predicted GTPase [General function prediction only]

Probab=96.66  E-value=0.081  Score=50.65  Aligned_cols=95  Identities=18%  Similarity=0.257  Sum_probs=51.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHH-------HhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCC--cchHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIA-------IENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLS--SDDWPR  286 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a-------~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~--~~~~~~  286 (452)
                      .++|||+|++|||+|+..+.-.--       ...+..|.+|-...-..|+          +|..    |-|+  .++++.
T Consensus       170 TivVaG~PNVGKSSlv~~lT~AkpEvA~YPFTTK~i~vGhfe~~~~R~Qv----------IDTP----GlLDRPl~ErN~  235 (346)
T COG1084         170 TIVVAGYPNVGKSSLVRKLTTAKPEVAPYPFTTKGIHVGHFERGYLRIQV----------IDTP----GLLDRPLEERNE  235 (346)
T ss_pred             eEEEecCCCCcHHHHHHHHhcCCCccCCCCccccceeEeeeecCCceEEE----------ecCC----cccCCChHHhcH
Confidence            589999999999999987654210       0134556665443221111          1111    2221  122222


Q ss_pred             H----HHHHHHHhCCCeEEEcC---CCCCHHHHHHHHHHHHHHcC
Q psy2892         287 I----NDSIKKINKSQLYIDET---PSLNVIELRANSRRLSRQCG  324 (452)
Q Consensus       287 ~----~~a~~~l~~~~l~i~~~---~~~t~~~i~~~i~~~~~~~~  324 (452)
                      +    ..|+..+.+.-+|+.|.   .++++++-....+..+..+.
T Consensus       236 IE~qAi~AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~  280 (346)
T COG1084         236 IERQAILALRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFK  280 (346)
T ss_pred             HHHHHHHHHHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC
Confidence            1    23455566666777663   36777776666666666664

>TIGR01257 rim_protein retinal-specific rim ABC transporter

Probab=96.66  E-value=0.02  Score=68.23  Aligned_cols=37  Identities=22%  Similarity=0.333  Sum_probs=30.8

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ..|+.+.-++.+|+++.|.|+.|+||||++.-++-..
T Consensus      1953 ~aL~~ISf~I~~GEi~gLLG~NGAGKTTLlkmL~Gll 1989 (2272)
T TIGR01257      1953 PAVDRLCVGVRPGECFGLLGVNGAGKTTTFKMLTGDT 1989 (2272)
T ss_pred             eEEEeeEEEEcCCcEEEEECCCCCcHHHHHHHHhCCC
Confidence            3566665568999999999999999999998877654

This model describes the photoreceptor protein (rim protein) in eukaryotes. It is the member of ABC transporter superfamily. Rim protein is a membrane glycoprotein which is localized in the photoreceptor outer segment discs. Mutation/s in its genetic loci is implicated in the recessive Stargardt's disease.

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=96.66  E-value=0.013  Score=61.03  Aligned_cols=34  Identities=21%  Similarity=0.323  Sum_probs=28.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-
T Consensus       275 il~~vsl~i~~Ge~~~i~G~NGsGKSTLl~~l~G  308 (490)
T PRK10938        275 ILHNLSWQVNPGEHWQIVGPNGAGKSTLLSLITG  308 (490)
T ss_pred             EEeeceEEEcCCCEEEEECCCCCCHHHHHHHHcC
Confidence            3455544578999999999999999999988876

>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=96.66  E-value=0.0052  Score=53.01  Aligned_cols=103  Identities=20%  Similarity=0.205  Sum_probs=57.9

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcch----HHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDD----WPRIN  288 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~----~~~~~  288 (452)
                      +|-++.|+|.||+||||+|..+...+- ..|.+|.++..+    .+...       ++.+    -.++.++    ..++.
T Consensus         1 ~g~vIwltGlsGsGKtTlA~~L~~~L~-~~g~~~~~LDgD----~lR~~-------l~~d----l~fs~~dR~e~~rr~~   64 (156)
T PF01583_consen    1 KGFVIWLTGLSGSGKTTLARALERRLF-ARGIKVYLLDGD----NLRHG-------LNAD----LGFSKEDREENIRRIA   64 (156)
T ss_dssp             S-EEEEEESSTTSSHHHHHHHHHHHHH-HTTS-EEEEEHH----HHCTT-------TTTT------SSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH-HcCCcEEEecCc----chhhc-------cCCC----CCCCHHHHHHHHHHHH
Confidence            467899999999999999999999885 578999998765    12111       1110    0133332    23344


Q ss_pred             HHHHHHhC-CCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcC
Q psy2892         289 DSIKKINK-SQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDY  333 (452)
Q Consensus       289 ~a~~~l~~-~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~  333 (452)
                      .....+.+ ..+.|...-... .+.++.+++...... .--|.||-
T Consensus        65 ~~A~ll~~~G~ivIva~isp~-~~~R~~~R~~~~~~~-f~eVyv~~  108 (156)
T PF01583_consen   65 EVAKLLADQGIIVIVAFISPY-REDREWARELIPNER-FIEVYVDC  108 (156)
T ss_dssp             HHHHHHHHTTSEEEEE----S-HHHHHHHHHHHHTTE-EEEEEEES
T ss_pred             HHHHHHHhCCCeEEEeeccCc-hHHHHHHHHhCCcCc-eEEEEeCC
Confidence            44444443 345555432222 567777777665322 55566654

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 ....

>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=96.65  E-value=0.0025  Score=56.74  Aligned_cols=37  Identities=22%  Similarity=0.427  Sum_probs=31.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      ++.|+|.||+|||+|+..++.... ..|.+|..++++.
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~-~~~~~~~~i~~Dd   37 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLR-VNGIGPVVISLDD   37 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHH-HcCCCEEEEehhh
Confidence            478999999999999999998875 3578899888874

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=96.65  E-value=0.02  Score=53.78  Aligned_cols=36  Identities=33%  Similarity=0.701  Sum_probs=30.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      |++++|.||+||||++..++.... ..|.+|.+++.+
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l~-~~~~~v~~i~~D   36 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKLS-EKNIDVIILGTD   36 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH-HcCCceEEEccH
Confidence            589999999999999999998875 357888888664

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 archaeal proteins with this activity.

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=96.64  E-value=0.018  Score=51.37  Aligned_cols=146  Identities=14%  Similarity=0.157  Sum_probs=82.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC-----CCCHHHHHHHHHHHhCCCCccccccCC-CCcchHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM-----EMSGIQLAMRMLGSVGKLDQHKLRTGR-LSSDDWPRI  287 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~-----E~~~~~i~~R~~a~~~~i~~~~i~~g~-l~~~~~~~~  287 (452)
                      +.++.|.+.+|.|||+.|+.++..++ ..|.+|+++-+     +..+.....++    .++.....-.+. +..++...-
T Consensus        22 ~g~v~v~~g~GkGKtt~a~g~a~ra~-g~G~~V~ivQFlKg~~~~GE~~~l~~l----~~v~~~~~g~~~~~~~~~~~e~   96 (191)
T PRK05986         22 KGLLIVHTGNGKGKSTAAFGMALRAV-GHGKKVGVVQFIKGAWSTGERNLLEFG----GGVEFHVMGTGFTWETQDRERD   96 (191)
T ss_pred             CCeEEEECCCCCChHHHHHHHHHHHH-HCCCeEEEEEEecCCCccCHHHHHhcC----CCcEEEECCCCCcccCCCcHHH
Confidence            34899999999999999999999997 58999998743     23333333332    233333222110 000000000


Q ss_pred             HHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCc
Q psy2892         288 NDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCP  367 (452)
Q Consensus       288 ~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~  367 (452)
                                        .....+..+.+++.... +.+++||+|-+.....-+  --   ...++...|+.  +--++.
T Consensus        97 ------------------~~~~~~~~~~a~~~l~~-~~ydlvVLDEi~~Al~~g--li---~~eevi~~L~~--rp~~~e  150 (191)
T PRK05986         97 ------------------IAAAREGWEEAKRMLAD-ESYDLVVLDELTYALKYG--YL---DVEEVLEALNA--RPGMQH  150 (191)
T ss_pred             ------------------HHHHHHHHHHHHHHHhC-CCCCEEEEehhhHHHHCC--Cc---cHHHHHHHHHc--CCCCCE
Confidence                              00112233334444333 359999999998755432  11   12345566653  556778


Q ss_pred             EEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEe
Q psy2892         368 ILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIY  408 (452)
Q Consensus       368 vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~  408 (452)
                      ||++..-.                  +..+-..||.|--+.
T Consensus       151 vVlTGR~~------------------p~~Lie~ADlVTEm~  173 (191)
T PRK05986        151 VVITGRGA------------------PRELIEAADLVTEMR  173 (191)
T ss_pred             EEEECCCC------------------CHHHHHhCchheecc
Confidence            88875321                  234667788887664

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.64  E-value=0.022  Score=50.60  Aligned_cols=31  Identities=26%  Similarity=0.359  Sum_probs=24.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      +++|.|+||+||||++..++...    |  +.++|..
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~----~--~~~is~~   31 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF----G--FTHLSAG   31 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc----C--CeEEECC
Confidence            47899999999999999987643    3  5566653

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.

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.63  E-value=0.0058  Score=55.44  Aligned_cols=158  Identities=12%  Similarity=0.165  Sum_probs=83.0

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-CCCcEEEE---eCCCCHHHHHHHHHHH-------hCCCCcccccc--
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-NKLPVAIF---SMEMSGIQLAMRMLGS-------VGKLDQHKLRT--  276 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-~g~~vl~~---s~E~~~~~i~~R~~a~-------~~~i~~~~i~~--  276 (452)
                      -+.+|++..|.||.|+||||++.-++-+-..+ ....|+|=   -+++++++-+.+=+-.       ..|+....+..  
T Consensus        26 ~v~~GEvhaiMGPNGsGKSTLa~~i~G~p~Y~Vt~G~I~~~GedI~~l~~~ERAr~GifLafQ~P~ei~GV~~~~fLr~a  105 (251)
T COG0396          26 TVKEGEVHAIMGPNGSGKSTLAYTIMGHPKYEVTEGEILFDGEDILELSPDERARAGIFLAFQYPVEIPGVTNSDFLRAA  105 (251)
T ss_pred             eEcCCcEEEEECCCCCCHHHHHHHHhCCCCceEecceEEECCcccccCCHhHHHhcCCEEeecCCccCCCeeHHHHHHHH
Confidence            47899999999999999999999888654211 11223331   2445555433332111       12333222211  


Q ss_pred             -------CCCCcchHHHHHHHHHHHhCCCeEEEc--CCCCCH-HHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCH
Q psy2892         277 -------GRLSSDDWPRINDSIKKINKSQLYIDE--TPSLNV-IELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENR  346 (452)
Q Consensus       277 -------g~l~~~~~~~~~~a~~~l~~~~l~i~~--~~~~t~-~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~  346 (452)
                             ..+..+-..++.++.+.+.-.+.+...  ..++|= +.=+..+.++..-  +|+++|+|-..      ++- .
T Consensus       106 ~n~~~~~~~~~~~~~~~~~e~~~~l~~~~~~l~R~vN~GFSGGEkKR~EilQ~~~l--ePkl~ILDE~D------SGL-D  176 (251)
T COG0396         106 MNARRGARGILPEFIKELKEKAELLGLDEEFLERYVNEGFSGGEKKRNEILQLLLL--EPKLAILDEPD------SGL-D  176 (251)
T ss_pred             HHhhhccccccHHHHHHHHHHHHHcCCCHHHhhcccCCCcCcchHHHHHHHHHHhc--CCCEEEecCCC------cCc-c
Confidence                   001122233444444444323323221  123332 2333444444333  59999999842      122 2


Q ss_pred             HHHHHHHHHHHHHHHHHhCCcEEEEecCCcc
Q psy2892         347 ATEISEISRNLKGLAKEINCPILALSQLNRS  377 (452)
Q Consensus       347 ~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~  377 (452)
                      -.++..+++.+..+..+ +..++++.|-.|-
T Consensus       177 Idalk~V~~~i~~lr~~-~~~~liITHy~rl  206 (251)
T COG0396         177 IDALKIVAEGINALREE-GRGVLIITHYQRL  206 (251)
T ss_pred             HHHHHHHHHHHHHHhcC-CCeEEEEecHHHH
Confidence            34566677777777654 8888888886653

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.63  E-value=0.011  Score=56.20  Aligned_cols=41  Identities=20%  Similarity=0.258  Sum_probs=30.5

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      ++.+++|+|++|+||||++..++.... ..+.++  ++.|.+.+
T Consensus        79 ~~GlilisG~tGSGKTT~l~all~~i~-~~~~~i--itiEdp~E  119 (264)
T cd01129          79 PHGIILVTGPTGSGKTTTLYSALSELN-TPEKNI--ITVEDPVE  119 (264)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhhhC-CCCCeE--EEECCCce
Confidence            455999999999999999988877663 233334  56787754

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.

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=96.62  E-value=0.014  Score=58.67  Aligned_cols=36  Identities=19%  Similarity=0.409  Sum_probs=26.1

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEE
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIF  249 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~  249 (452)
                      |+.+..-+++.|+||+|||++|..++...    +.+.+.+
T Consensus       161 g~~~p~gvLL~GppGtGKT~lAkaia~~~----~~~~i~v  196 (389)
T PRK03992        161 GIEPPKGVLLYGPPGTGKTLLAKAVAHET----NATFIRV  196 (389)
T ss_pred             CCCCCCceEEECCCCCChHHHHHHHHHHh----CCCEEEe
Confidence            34444458999999999999999987754    3444444

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=96.62  E-value=0.0041  Score=56.57  Aligned_cols=31  Identities=16%  Similarity=0.216  Sum_probs=26.1

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAI  240 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~  240 (452)
                      ....|++++|.|++|+|||+++..++.....
T Consensus        25 ~~~~~~~~~l~G~n~~GKstll~~i~~~~~l   55 (204)
T cd03282          25 TRGSSRFHIITGPNMSGKSTYLKQIALLAIM   55 (204)
T ss_pred             eeCCCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4677899999999999999999988765543

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

>PRK07667 uridine kinase; Provisional

Probab=96.62  E-value=0.0035  Score=56.52  Aligned_cols=39  Identities=26%  Similarity=0.471  Sum_probs=34.1

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      -++.|+|+||+|||||+..++..+. ..|.+|..++++.-
T Consensus        18 ~iIgI~G~~gsGKStla~~L~~~l~-~~~~~~~~i~~Dd~   56 (193)
T PRK07667         18 FILGIDGLSRSGKTTFVANLKENMK-QEGIPFHIFHIDDY   56 (193)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH-hCCCcEEEEEcCcc
Confidence            4889999999999999999998885 46889999999864

>COG1129 MglA ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]

Probab=96.61  E-value=0.049  Score=55.61  Aligned_cols=39  Identities=21%  Similarity=0.387  Sum_probs=32.9

Q ss_pred             CccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         200 GFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       200 g~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      |.+.|+.+.--+.+|+++.+.|..|+|||||+.-++--.
T Consensus        20 gV~AL~~v~l~v~~GEV~aL~GeNGAGKSTLmKiLsGv~   58 (500)
T COG1129          20 GVKALDGVSLTVRPGEVHALLGENGAGKSTLMKILSGVY   58 (500)
T ss_pred             CceeeccceeEEeCceEEEEecCCCCCHHHHHHHHhCcc
Confidence            567788775569999999999999999999998777544

>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional

Probab=96.61  E-value=0.015  Score=60.56  Aligned_cols=34  Identities=15%  Similarity=0.235  Sum_probs=27.9

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      |+.+.--+.+|+++.|.|++|+|||||+.-++-.
T Consensus       264 l~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl  297 (491)
T PRK10982        264 IRDVSFDLHKGEILGIAGLVGAKRTDIVETLFGI  297 (491)
T ss_pred             cceeeEEEeCCcEEEEecCCCCCHHHHHHHHcCC
Confidence            5555345899999999999999999999877743

>cd03112 CobW_like The function of this protein family is unkown

Probab=96.61  E-value=0.017  Score=50.29  Aligned_cols=45  Identities=16%  Similarity=0.259  Sum_probs=34.6

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRML  263 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~  263 (452)
                      +++|.|+.|+|||+|...++...   .+.++.++..|.....+-...+
T Consensus         2 ~~~l~G~~GsGKTtl~~~l~~~~---~~~~~~~i~~~~G~~~~d~~~~   46 (158)
T cd03112           2 VTVLTGFLGAGKTTLLNHILTEQ---HGRKIAVIENEFGEVGIDNQLV   46 (158)
T ss_pred             EEEEEECCCCCHHHHHHHHHhcc---cCCcEEEEecCCCccchhHHHH
Confidence            68999999999999999887653   4788998888876555444443

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=96.60  E-value=0.015  Score=55.11  Aligned_cols=25  Identities=16%  Similarity=0.296  Sum_probs=22.0

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      .-++|.|+||+|||||+..++....
T Consensus       112 ~~~~i~g~~g~GKttl~~~l~~~~~  136 (270)
T TIGR02858       112 LNTLIISPPQCGKTTLLRDLARILS  136 (270)
T ss_pred             eEEEEEcCCCCCHHHHHHHHhCccC
Confidence            4689999999999999999987764

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.

>PTZ00293 thymidine kinase; Provisional

Probab=96.60  E-value=0.014  Score=52.95  Aligned_cols=136  Identities=13%  Similarity=0.155  Sum_probs=78.1

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSI  291 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~  291 (452)
                      ..|.+.+|.||-++|||+-+++.+.+... .|.+|+.|..-.+.+.-....+....|+...                   
T Consensus         2 ~~G~i~vi~GpMfSGKTteLLr~i~~y~~-ag~kv~~~kp~~DtR~~~~~~I~Sh~g~~~~-------------------   61 (211)
T PTZ00293          2 YRGTISVIIGPMFSGKTTELMRLVKRFTY-SEKKCVVIKYSKDTRYSDEQNISSHDKQMLK-------------------   61 (211)
T ss_pred             CceEEEEEECCCCChHHHHHHHHHHHHHH-cCCceEEEEecccccCCCCCcEEecCCCcce-------------------
Confidence            35889999999999999988888777754 6888988866544221000000000011000                   


Q ss_pred             HHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEE
Q psy2892         292 KKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL  371 (452)
Q Consensus       292 ~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l  371 (452)
                            -+.+     ....++.+.+      . ++++|+||-.|.+..          +.++++.   + ...|++||+.
T Consensus        62 ------a~~v-----~~~~e~~~~~------~-~~dvI~IDEaQFf~~----------i~~~~~~---l-~~~g~~Viva  109 (211)
T PTZ00293         62 ------AIKV-----SKLKEVLETA------K-NYDVIAIDEGQFFPD----------LVEFSEA---A-ANLGKIVIVA  109 (211)
T ss_pred             ------eEEc-----CCHHHHHHhc------c-CCCEEEEEchHhhHh----------HHHHHHH---H-HHCCCeEEEE
Confidence                  0111     1223443322      2 489999999998631          2233322   2 3689998886


Q ss_pred             ecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEe
Q psy2892         372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIY  408 (452)
Q Consensus       372 ~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~  408 (452)
                      . |......    +|    +.++..+-..||.|.-|.
T Consensus       110 G-Ld~Df~~----~~----F~~~~~Ll~~AD~V~kl~  137 (211)
T PTZ00293        110 A-LDGTFQR----KP----FGQILNLIPLAERVTKLT  137 (211)
T ss_pred             e-cCccccc----Cc----CccHHHHHHhhCEEEEcc
Confidence            5 4443322    22    445666777899987664

>PRK02362 ski2-like helicase; Provisional

Probab=96.60  E-value=0.013  Score=64.00  Aligned_cols=143  Identities=15%  Similarity=0.114  Sum_probs=76.9

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-CCHHHHHHHHHHHh-CCCCccccccCCCCcchHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-MSGIQLAMRMLGSV-GKLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~~~~~i~~R~~a~~-~~i~~~~i~~g~l~~~~~~~~  287 (452)
                      ++..|+=+++++|+|+|||..+.-.+.+... .+.+++|+.-- .-..|...++.... .|+.... ..|......    
T Consensus        35 ~~~~g~nvlv~APTGSGKTlia~lail~~l~-~~~kal~i~P~raLa~q~~~~~~~~~~~g~~v~~-~tGd~~~~~----  108 (737)
T PRK02362         35 GLLDGKNLLAAIPTASGKTLIAELAMLKAIA-RGGKALYIVPLRALASEKFEEFERFEELGVRVGI-STGDYDSRD----  108 (737)
T ss_pred             HHhCCCcEEEECCCcchHHHHHHHHHHHHHh-cCCcEEEEeChHHHHHHHHHHHHHhhcCCCEEEE-EeCCcCccc----
Confidence            3556777999999999999887655555543 56789988532 12233333333210 1333222 234332211    


Q ss_pred             HHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCc
Q psy2892         288 NDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCP  367 (452)
Q Consensus       288 ~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~  367 (452)
                          +++....+.|.     |++.+...++.......++++||||-++.+...    .+...+..+...++.+..  ++.
T Consensus       109 ----~~l~~~~IiV~-----Tpek~~~llr~~~~~l~~v~lvViDE~H~l~d~----~rg~~le~il~rl~~~~~--~~q  173 (737)
T PRK02362        109 ----EWLGDNDIIVA-----TSEKVDSLLRNGAPWLDDITCVVVDEVHLIDSA----NRGPTLEVTLAKLRRLNP--DLQ  173 (737)
T ss_pred             ----cccCCCCEEEE-----CHHHHHHHHhcChhhhhhcCEEEEECccccCCC----cchHHHHHHHHHHHhcCC--CCc
Confidence                11233455553     455555544421111125899999999988653    233344555566665432  455


Q ss_pred             EEEEec
Q psy2892         368 ILALSQ  373 (452)
Q Consensus       368 vi~l~q  373 (452)
                      +|+++-
T Consensus       174 ii~lSA  179 (737)
T PRK02362        174 VVALSA  179 (737)
T ss_pred             EEEEcc
Confidence            666653

>PF00265 TK: Thymidine kinase; InterPro: IPR001267 Thymidine kinase (TK) (2

Probab=96.59  E-value=0.015  Score=51.59  Aligned_cols=138  Identities=19%  Similarity=0.181  Sum_probs=76.4

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKK  293 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~  293 (452)
                      |.|.++.||-++|||+.+++.+.+... .|.+|++|....+.+.-...+. ...|.....                    
T Consensus         1 g~l~~i~GpM~sGKS~eLi~~~~~~~~-~~~~v~~~kp~~D~R~~~~~I~-s~~g~~~~~--------------------   58 (176)
T PF00265_consen    1 GKLEFITGPMFSGKSTELIRRIHRYEI-AGKKVLVFKPAIDTRYGEDKIV-SHDGISLEA--------------------   58 (176)
T ss_dssp             -EEEEEEESTTSSHHHHHHHHHHHHHH-TT-EEEEEEESTSCCCCSSEEE-HTTSCEEEE--------------------
T ss_pred             CEEEEEECCcCChhHHHHHHHHHHHHh-CCCeEEEEEecccCcCCCCeEE-ecCCCcccc--------------------
Confidence            689999999999999999999998854 7899999987665220000000 001111110                    


Q ss_pred             HhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEec
Q psy2892         294 INKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQ  373 (452)
Q Consensus       294 l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~q  373 (452)
                              ...+..++.++...+     .. ++++|+||-.|.+. ..        +.    .|-..+.+.|++|++.. 
T Consensus        59 --------~~~~~~~~~~~~~~~-----~~-~~dvI~IDEaQFf~-~~--------i~----~l~~~~~~~g~~Vi~~G-  110 (176)
T PF00265_consen   59 --------IVDPIDNLFEIIDIL-----EN-DYDVIGIDEAQFFD-EQ--------IV----QLVEILANKGIPVICAG-  110 (176)
T ss_dssp             --------ESSEESSGGGGGGGC-----CT-TCSEEEESSGGGST-TT--------HH----HHHHHHHHTT-EEEEEE-
T ss_pred             --------cccchhhHHHHHHHh-----cc-CCCEEEEechHhhH-HH--------HH----HHHHHHHhCCCeEEEEe-
Confidence                    000111122222211     11 38999999999886 21        22    23344447899988764 


Q ss_pred             CCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         374 LNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       374 l~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      |+....+.    |    +.++..+-..||.|.-|..
T Consensus       111 L~~df~~~----~----F~~~~~Ll~~Ad~i~kl~a  138 (176)
T PF00265_consen  111 LDTDFRGE----P----FGGSPRLLPLADKITKLKA  138 (176)
T ss_dssp             ESB-TTSS----B-----TTHHHHHHH-SEEEEE-E
T ss_pred             eCCccccC----c----chhHHHHHhhCCeEEEecc
Confidence            55443221    2    4446667778999988754

7.1.21 from EC) is an ubiquitous enzyme that catalyzes the ATP-dependent phosphorylation of thymidine. Two different families of Thymidine kinase have been identified [, ] and are represented in this entry; one groups together Thymidine kinase from herpesviruses, as well as cytosolic thymidylate kinases and the second family groups Thymidine kinase from various sources that include, vertebrates, bacteria, the Bacteriophage T4, poxviruses, African swine fever virus (ASFV) and Fish lymphocystis disease virus (FLDV). The major capsid protein of insect iridescent viruses also belongs to this family.; GO: 0004797 thymidine kinase activity, 0005524 ATP binding; PDB: 1XX6_B 2J9R_A 2J87_B 3E2I_A 2JA1_A 2UZ3_B 2B8T_B 2WVJ_A 1W4R_F 1XBT_F ....

>KOG0731|consensus

Probab=96.58  E-value=0.013  Score=62.42  Aligned_cols=113  Identities=21%  Similarity=0.425  Sum_probs=69.0

Q ss_pred             CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHH
Q psy2892         209 SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRIN  288 (452)
Q Consensus       209 gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~  288 (452)
                      --+++|  ++|.||||+|||.||..+|-.+    |  |=|||..  ..+..+++..    +-..                
T Consensus       341 AKiPkG--vLL~GPPGTGKTLLAKAiAGEA----g--VPF~svS--GSEFvE~~~g----~~as----------------  390 (774)
T KOG0731|consen  341 AKIPKG--VLLVGPPGTGKTLLAKAIAGEA----G--VPFFSVS--GSEFVEMFVG----VGAS----------------  390 (774)
T ss_pred             CcCcCc--eEEECCCCCcHHHHHHHHhccc----C--Cceeeec--hHHHHHHhcc----cchH----------------
Confidence            357888  8999999999999998777533    4  5555553  3466666642    1100                


Q ss_pred             HHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC-------CCCCHHHHHHHHHHHHHHHH
Q psy2892         289 DSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS-------RGENRATEISEISRNLKGLA  361 (452)
Q Consensus       289 ~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~-------~~~~~~~~~~~i~~~Lk~lA  361 (452)
                                         .+.++..    .++.. .|.+|+||.|..+....       ....+.+-+.+++-++..+.
T Consensus       391 -------------------rvr~lf~----~ar~~-aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~  446 (774)
T KOG0731|consen  391 -------------------RVRDLFP----LARKN-APSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFE  446 (774)
T ss_pred             -------------------HHHHHHH----Hhhcc-CCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCc
Confidence                               1122322    22333 48999999999876432       12334444556666666553


Q ss_pred             HHhCCcEEEEecCCcc
Q psy2892         362 KEINCPILALSQLNRS  377 (452)
Q Consensus       362 ~~~~i~vi~l~ql~r~  377 (452)
                        .+-.||+++-.||-
T Consensus       447 --~~~~vi~~a~tnr~  460 (774)
T KOG0731|consen  447 --TSKGVIVLAATNRP  460 (774)
T ss_pred             --CCCcEEEEeccCCc
Confidence              34557788877774

>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=96.57  E-value=0.01  Score=54.36  Aligned_cols=60  Identities=20%  Similarity=0.219  Sum_probs=45.7

Q ss_pred             cCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH
Q psy2892         199 TGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM  262 (452)
Q Consensus       199 tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~  262 (452)
                      ||++.+|-+. .+.+|+=..|.|++|+|||+++.+++.+..  . ..++|+-.....+++.+-.
T Consensus         1 TGir~ID~l~-Pig~Gqr~~I~g~~g~GKt~Ll~~i~~~~~--~-d~~V~~~iGer~~Ev~~~~   60 (215)
T PF00006_consen    1 TGIRAIDLLF-PIGRGQRIGIFGGAGVGKTVLLQEIANNQD--A-DVVVYALIGERGREVTEFI   60 (215)
T ss_dssp             -SHHHHHHHS-CEETTSEEEEEESTTSSHHHHHHHHHHHCT--T-TEEEEEEESECHHHHHHHH
T ss_pred             CCCceecccc-ccccCCEEEEEcCcccccchhhHHHHhccc--c-cceeeeeccccchhHHHHH
Confidence            6888888763 578899999999999999999999999873  2 3356766665666655444

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 ....

>PRK13886 conjugal transfer protein TraL; Provisional

Probab=96.56  E-value=0.063  Score=49.85  Aligned_cols=40  Identities=13%  Similarity=0.178  Sum_probs=33.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      ..+++|..|+|||+++.++|..++. .|.+|+.++.+-...
T Consensus         5 ~~i~~~KGGvGKSt~a~~la~~l~~-~g~~vl~iD~D~~n~   44 (241)
T PRK13886          5 HMVLQGKGGVGKSFIAATIAQYKAS-KGQKPLCIDTDPVNA   44 (241)
T ss_pred             EEEecCCCCCcHHHHHHHHHHHHHh-CCCCEEEEECCCCCc
Confidence            4566799999999999999999874 789999999985543

>PRK00254 ski2-like helicase; Provisional

Probab=96.56  E-value=0.022  Score=62.15  Aligned_cols=114  Identities=17%  Similarity=0.136  Sum_probs=61.6

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHh-----CCCCccccccCCCCcchH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSV-----GKLDQHKLRTGRLSSDDW  284 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~-----~~i~~~~i~~g~l~~~~~  284 (452)
                      ++..|+=+++++|+|+|||..+.-.+.+.....+.+++|+.-   ...++.......     .|+.... ..|..+... 
T Consensus        35 ~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P---~~aLa~q~~~~~~~~~~~g~~v~~-~~Gd~~~~~-  109 (720)
T PRK00254         35 GVLEGKNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVP---LKALAEEKYREFKDWEKLGLRVAM-TTGDYDSTD-  109 (720)
T ss_pred             HHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeC---hHHHHHHHHHHHHHHhhcCCEEEE-EeCCCCCch-
Confidence            456677899999999999987744444433445778999853   333333222111     1332221 234443211 


Q ss_pred             HHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         285 PRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       285 ~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                             .++.+..+.|.     |++.+...++.-.....++++||||-++.+...
T Consensus       110 -------~~~~~~~IiV~-----Tpe~~~~ll~~~~~~l~~l~lvViDE~H~l~~~  153 (720)
T PRK00254        110 -------EWLGKYDIIIA-----TAEKFDSLLRHGSSWIKDVKLVVADEIHLIGSY  153 (720)
T ss_pred             -------hhhccCCEEEE-----cHHHHHHHHhCCchhhhcCCEEEEcCcCccCCc
Confidence                   12333455553     344444443311111115899999999988653

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=96.55  E-value=0.027  Score=60.16  Aligned_cols=129  Identities=18%  Similarity=0.219  Sum_probs=74.8

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH---HHHHHHHHHHhCCCCccccccCCCCcchHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG---IQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRIN  288 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~---~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~  288 (452)
                      ..+.+++|.+|.|.||||++.|++...  ..|..|.++|++.+.   .....++++.+...-      ..+.++      
T Consensus        35 ~~~RL~li~APAGfGKttl~aq~~~~~--~~~~~v~Wlslde~dndp~rF~~yLi~al~~~~------p~~~~~------  100 (894)
T COG2909          35 NDYRLILISAPAGFGKTTLLAQWRELA--ADGAAVAWLSLDESDNDPARFLSYLIAALQQAT------PTLGDE------  100 (894)
T ss_pred             CCceEEEEeCCCCCcHHHHHHHHHHhc--CcccceeEeecCCccCCHHHHHHHHHHHHHHhC------ccccHH------
Confidence            345699999999999999999999833  367899999998654   456667766443211      112111      


Q ss_pred             HHHHHHhCCCeEEEcCCCCCHHHHHHH-HHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCc
Q psy2892         289 DSIKKINKSQLYIDETPSLNVIELRAN-SRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCP  367 (452)
Q Consensus       289 ~a~~~l~~~~l~i~~~~~~t~~~i~~~-i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~  367 (452)
                        ...+.+...      ..++..+.+. +..+..-++ |=++|+|.++++..+.        +...++.|-+-+= .|+.
T Consensus       101 --a~~l~q~~~------~~~l~~l~~~L~~Ela~~~~-pl~LVlDDyHli~~~~--------l~~~l~fLl~~~P-~~l~  162 (894)
T COG2909         101 --AQTLLQKHQ------YVSLESLLSSLLNELASYEG-PLYLVLDDYHLISDPA--------LHEALRFLLKHAP-ENLT  162 (894)
T ss_pred             --HHHHHHhcc------cccHHHHHHHHHHHHHhhcC-ceEEEeccccccCccc--------HHHHHHHHHHhCC-CCeE
Confidence              112222111      1223333332 222333344 8899999999988653        2233334332221 3666


Q ss_pred             EEEEe
Q psy2892         368 ILALS  372 (452)
Q Consensus       368 vi~l~  372 (452)
                      .|+++
T Consensus       163 lvv~S  167 (894)
T COG2909         163 LVVTS  167 (894)
T ss_pred             EEEEe
Confidence            66665

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.54  E-value=0.002  Score=51.83  Aligned_cols=34  Identities=18%  Similarity=0.297  Sum_probs=27.2

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia  235 (452)
                      ..|+.+.-.+.+|+.+.|.|++|+|||+++.-++
T Consensus         3 ~aL~~vsl~i~~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820           3 TSLHGVLVDVYGKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             eEEEeeEEEEcCCEEEEEEcCCCCCHHHHHHHhh
Confidence            3455543357889999999999999999998765

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>PRK10263 DNA translocase FtsK; Provisional

Probab=96.54  E-value=0.0091  Score=66.77  Aligned_cols=44  Identities=14%  Similarity=0.181  Sum_probs=34.3

Q ss_pred             cEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCC
Q psy2892         327 GVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLN  375 (452)
Q Consensus       327 ~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~  375 (452)
                      -+||||.+..+....     ...+...+..|-+.++..||++|+..|--
T Consensus      1142 IVVIIDE~AdLm~~~-----~kevE~lI~rLAqkGRAaGIHLILATQRP 1185 (1355)
T PRK10263       1142 IVVLVDEFADLMMTV-----GKKVEELIARLAQKARAAGIHLVLATQRP 1185 (1355)
T ss_pred             EEEEEcChHHHHhhh-----hHHHHHHHHHHHHHhhhcCeEEEEEecCc
Confidence            489999998776432     12456677888899999999999999964

>TIGR00962 atpA proton translocating ATP synthase, F1 alpha subunit

Probab=96.54  E-value=0.019  Score=59.10  Aligned_cols=64  Identities=16%  Similarity=0.242  Sum_probs=50.1

Q ss_pred             ccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHH
Q psy2892         194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLA  259 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~  259 (452)
                      ...+.||+..+|-++ .+.+|+=..|.|.+|+|||+++++...+.+ ..+..|+|...-....++.
T Consensus       142 ~~pl~TGi~aID~l~-pigrGQr~~I~g~~g~GKt~Lal~~i~~~~-~~dv~~V~~~IGer~rev~  205 (501)
T TIGR00962       142 HEPLQTGIKAIDAMI-PIGRGQRELIIGDRQTGKTAVAIDTIINQK-DSDVYCVYVAIGQKASTVA  205 (501)
T ss_pred             CceeccCCceeeccC-CcccCCEEEeecCCCCCccHHHHHHHHhhc-CCCeEEEEEEccCChHHHH
Confidence            346899999999874 588999999999999999999888776664 3455567877766665544

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit.

>TIGR01194 cyc_pep_trnsptr cyclic peptide transporter

Probab=96.53  E-value=0.046  Score=57.82  Aligned_cols=29  Identities=17%  Similarity=0.391  Sum_probs=25.1

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      -+++|+.+.|.|++|+||||++.=++...
T Consensus       364 ~i~~G~~~aivG~sGsGKSTl~~ll~g~~  392 (555)
T TIGR01194       364 RIAQGDIVFIVGENGCGKSTLAKLFCGLY  392 (555)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            46899999999999999999988776544

This model describes cyclic peptide transporter in bacteria. Bacteria have elaborate pathways for the production of toxins and secondary metabolites. Many such compounds, including syringomycin and pyoverdine are synthesized on non-ribosomal templates consisting of a multienzyme complex. On several occasions the proteins of the complex and transporter protein are present on the same operon. Often times these compounds cross the biological membrane by specific transporters. Syringomycin is an amphipathic, cylclic lipodepsipeptide when inserted into host causes formation of channels, permeable to variety of cations. On the other hand, pyoverdine is a cyclic octa-peptidyl dihydroxyquinoline, which is efficient in sequestering iron for uptake.

>PRK10522 multidrug transporter membrane component/ATP-binding component; Provisional

Probab=96.53  E-value=0.02  Score=60.36  Aligned_cols=172  Identities=13%  Similarity=0.130  Sum_probs=85.0

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe---CCCCHHHHHHHHHHHhCCCCccc-cccCCC
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS---MEMSGIQLAMRMLGSVGKLDQHK-LRTGRL  279 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s---~E~~~~~i~~R~~a~~~~i~~~~-i~~g~l  279 (452)
                      |+.+.--+++|+.+.|.|++|+|||||+.-++--.-- ....|.+-.   .+.+...+..+ ++.   ++.+. +.++.+
T Consensus       339 l~~i~~~i~~G~~~aivG~sGsGKSTL~~ll~g~~~~-~~G~i~~~g~~~~~~~~~~~~~~-i~~---v~q~~~lf~~ti  413 (547)
T PRK10522        339 VGPINLTIKRGELLFLIGGNGSGKSTLAMLLTGLYQP-QSGEILLDGKPVTAEQPEDYRKL-FSA---VFTDFHLFDQLL  413 (547)
T ss_pred             EecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCCCC-CCeEEEECCEECCCCCHHHHhhh-eEE---EecChhHHHHhh
Confidence            3443334689999999999999999998766643321 122233311   12233333322 111   11111 111111


Q ss_pred             ----CcchHHHHHHHHHHHhCCC-eEEEc----CCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhccCCCCCCHHH
Q psy2892         280 ----SSDDWPRINDSIKKINKSQ-LYIDE----TPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSANSRGENRAT  348 (452)
Q Consensus       280 ----~~~~~~~~~~a~~~l~~~~-l~i~~----~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~  348 (452)
                          ...+-+.+.++++.+.-.. +...+    ...+|-.+-..  .+|.+.+   +++++++|..+.-      -+.. 
T Consensus       414 ~~n~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~G~~LSgGq~qRl~lARal~~---~~~ililDE~ts~------LD~~-  483 (547)
T PRK10522        414 GPEGKPANPALVEKWLERLKMAHKLELEDGRISNLKLSKGQKKRLALLLALAE---ERDILLLDEWAAD------QDPH-  483 (547)
T ss_pred             ccccCchHHHHHHHHHHHcCCchhhhccccCCCCCCCCHHHHHHHHHHHHHhc---CCCEEEEECCCCC------CCHH-
Confidence                0111223444444432111 11111    12456554433  3333322   5999999996431      1221 


Q ss_pred             HHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         349 EISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       349 ~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      .-..+.+.|....++.+.++|+++|--                    .....||.++.+...
T Consensus       484 ~~~~i~~~l~~~~~~~~~tvi~itH~~--------------------~~~~~~d~i~~l~~G  525 (547)
T PRK10522        484 FRREFYQVLLPLLQEMGKTIFAISHDD--------------------HYFIHADRLLEMRNG  525 (547)
T ss_pred             HHHHHHHHHHHHHHhCCCEEEEEEech--------------------HHHHhCCEEEEEECC
Confidence            123555666655555688999998831                    123458999988653

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=96.53  E-value=0.0034  Score=57.89  Aligned_cols=49  Identities=16%  Similarity=0.242  Sum_probs=35.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHH-------HhCCCcEEEEeCCCCH-HHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIA-------IENKLPVAIFSMEMSG-IQLAMRMLG  264 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a-------~~~g~~vl~~s~E~~~-~~i~~R~~a  264 (452)
                      +++|.||||+|||+++..++..+.       ...+.++++.+.-... +.+..|+..
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            899999999999999999998882       2467889988775544 556677654

>PRK06696 uridine kinase; Validated

Probab=96.51  E-value=0.004  Score=57.54  Aligned_cols=38  Identities=26%  Similarity=0.350  Sum_probs=31.3

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      -++.|+|+||+||||||..++..+. ..|.+|+.++++.
T Consensus        23 ~iI~I~G~sgsGKSTlA~~L~~~l~-~~g~~v~~~~~Dd   60 (223)
T PRK06696         23 LRVAIDGITASGKTTFADELAEEIK-KRGRPVIRASIDD   60 (223)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEecccc
Confidence            3899999999999999999998874 3567787777653

>CHL00176 ftsH cell division protein; Validated

Probab=96.51  E-value=0.016  Score=61.61  Aligned_cols=35  Identities=26%  Similarity=0.486  Sum_probs=27.0

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      .++|  +++.|+||+|||+++..+|...    +.+.+++++
T Consensus       215 ~p~g--VLL~GPpGTGKT~LAralA~e~----~~p~i~is~  249 (638)
T CHL00176        215 IPKG--VLLVGPPGTGKTLLAKAIAGEA----EVPFFSISG  249 (638)
T ss_pred             CCce--EEEECCCCCCHHHHHHHHHHHh----CCCeeeccH
Confidence            4444  8999999999999999987643    567766654

>PRK14528 adenylate kinase; Provisional

Probab=96.51  E-value=0.019  Score=51.41  Aligned_cols=23  Identities=30%  Similarity=0.408  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      -++|.|+||+|||+++..++...
T Consensus         3 ~i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          3 NIIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999998887543

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=96.51  E-value=0.019  Score=54.77  Aligned_cols=36  Identities=22%  Similarity=0.386  Sum_probs=29.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+|+.+.|.|++|+|||||+.-++...
T Consensus        19 ~l~~isl~I~~Ge~~~IvG~nGsGKSTLl~~L~gl~   54 (275)
T cd03289          19 VLENISFSISPGQRVGLLGRTGSGKSTLLSAFLRLL   54 (275)
T ss_pred             ceeceEEEEcCCCEEEEECCCCCCHHHHHHHHhhhc
Confidence            456554468999999999999999999998877654

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.51  E-value=0.011  Score=64.49  Aligned_cols=37  Identities=19%  Similarity=0.377  Sum_probs=29.2

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      |+.++.-++|.|+||+|||+++..++...    +.+.++++
T Consensus       208 gi~~~~giLL~GppGtGKT~laraia~~~----~~~~i~i~  244 (733)
T TIGR01243       208 GIEPPKGVLLYGPPGTGKTLLAKAVANEA----GAYFISIN  244 (733)
T ss_pred             CCCCCceEEEECCCCCChHHHHHHHHHHh----CCeEEEEe
Confidence            57777889999999999999999887654    45555554

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.

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=96.51  E-value=0.044  Score=57.58  Aligned_cols=160  Identities=11%  Similarity=0.091  Sum_probs=0.0

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC-------CcEEEEeCC--------CCHHHHHHHHHHHhCC
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK-------LPVAIFSME--------MSGIQLAMRMLGSVGK  268 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g-------~~vl~~s~E--------~~~~~i~~R~~a~~~~  268 (452)
                      |+.+.--+.+|+++.|.|++|+|||||+.-++-...-..|       .++.|+.-+        ++..+....+.     
T Consensus       335 l~~is~~i~~Ge~~~l~G~NGsGKSTLl~~i~G~~~p~~G~i~~~~~~~i~~~~q~~~~~~~~~~t~~~~~~~~~-----  409 (530)
T PRK15064        335 FKNLNLLLEAGERLAIIGENGVGKTTLLRTLVGELEPDSGTVKWSENANIGYYAQDHAYDFENDLTLFDWMSQWR-----  409 (530)
T ss_pred             ecCcEEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCceEEEEEcccccccCCCCCcHHHHHHHhc-----


Q ss_pred             CCccccccCCCCcchHHHHHHHHHHHhC-CCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHH
Q psy2892         269 LDQHKLRTGRLSSDDWPRINDSIKKINK-SQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRA  347 (452)
Q Consensus       269 i~~~~i~~g~l~~~~~~~~~~a~~~l~~-~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~  347 (452)
                                .......++....+.+.- ....-.....+|-.+-....-...-..+ ++++++|.      +..+-+. 
T Consensus       410 ----------~~~~~~~~~~~~l~~~~l~~~~~~~~~~~LSgGq~qrv~la~al~~~-p~lllLDE------Pt~~LD~-  471 (530)
T PRK15064        410 ----------QEGDDEQAVRGTLGRLLFSQDDIKKSVKVLSGGEKGRMLFGKLMMQK-PNVLVMDE------PTNHMDM-  471 (530)
T ss_pred             ----------cCCccHHHHHHHHHHcCCChhHhcCcccccCHHHHHHHHHHHHHhcC-CCEEEEcC------CCCCCCH-


Q ss_pred             HHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         348 TEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       348 ~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                          .....|..+-++++.+||+++|-..                   .+.+.||.++.++.
T Consensus       472 ----~~~~~l~~~l~~~~~tvi~vsHd~~-------------------~~~~~~d~i~~l~~  510 (530)
T PRK15064        472 ----ESIESLNMALEKYEGTLIFVSHDRE-------------------FVSSLATRIIEITP  510 (530)
T ss_pred             ----HHHHHHHHHHHHCCCEEEEEeCCHH-------------------HHHHhCCEEEEEEC

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

Probab=96.50  E-value=0.024  Score=57.48  Aligned_cols=29  Identities=28%  Similarity=0.563  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      |+.++.-++|.|+||+|||+++..+|...
T Consensus       213 gi~~p~gVLL~GPPGTGKT~LAraIA~el  241 (438)
T PTZ00361        213 GIKPPKGVILYGPPGTGKTLLAKAVANET  241 (438)
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            56677779999999999999999988754

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=96.50  E-value=0.011  Score=54.21  Aligned_cols=25  Identities=12%  Similarity=0.344  Sum_probs=22.3

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      ++++|.|++|+|||+|+..++....
T Consensus        31 ~~~~l~Gpn~sGKstllr~i~~~~~   55 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVALIAL   55 (216)
T ss_pred             eEEEEECCCCCChHHHHHHHHHHHH
Confidence            7999999999999999999986543

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

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=96.49  E-value=0.014  Score=53.73  Aligned_cols=29  Identities=17%  Similarity=0.226  Sum_probs=26.0

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+.+|++++|.|++|+|||+|+..++...
T Consensus        27 ~~~~g~~~~itG~N~~GKStll~~i~~~~   55 (222)
T cd03287          27 SAEGGYCQIITGPNMGGKSSYIRQVALIT   55 (222)
T ss_pred             EecCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            46789999999999999999999998854

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

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=96.49  E-value=0.041  Score=59.08  Aligned_cols=35  Identities=31%  Similarity=0.469  Sum_probs=28.6

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      |+.+.--+.+|+.+.|.|++|+|||||+.-++-..
T Consensus       328 l~~isl~i~~Ge~~~l~G~NGsGKSTLlk~l~G~~  362 (638)
T PRK10636        328 LDSIKLNLVPGSRIGLLGRNGAGKSTLIKLLAGEL  362 (638)
T ss_pred             eccceEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            44443457899999999999999999999888643

>PRK09694 helicase Cas3; Provisional

Probab=96.49  E-value=0.065  Score=59.05  Aligned_cols=50  Identities=14%  Similarity=0.086  Sum_probs=36.1

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCC-CcEEEEeCCC-CHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENK-LPVAIFSMEM-SGIQLAMRML  263 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g-~~vl~~s~E~-~~~~i~~R~~  263 (452)
                      +.+++|.|++|+|||..++..+..++...+ .+++|..-.| +..++..|+.
T Consensus       301 pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~  352 (878)
T PRK09694        301 PGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLE  352 (878)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHH
Confidence            459999999999999999998887654333 3555554444 3466777764

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=96.48  E-value=0.0041  Score=61.54  Aligned_cols=45  Identities=16%  Similarity=0.188  Sum_probs=32.8

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      .+|.+++|+|++|+||||++..++.......+...-.++.|.+.+
T Consensus       132 ~~~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE  176 (358)
T TIGR02524       132 PQEGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIE  176 (358)
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCce
Confidence            378899999999999999998888776432222223466787765

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.48  E-value=0.017  Score=60.77  Aligned_cols=152  Identities=15%  Similarity=0.200  Sum_probs=75.9

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccc------ccc-
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHK------LRT-  276 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~------i~~-  276 (452)
                      |+.+.--+++|+.+.|.|++|+||||++.-++.-..-  ...-+++... +-.++...+....+-++.+.      +++ 
T Consensus       351 L~~isl~i~~G~~vaIvG~SGsGKSTLl~lL~g~~~p--~~G~I~i~g~-~i~~~~~~lr~~i~~V~Q~~~lF~~TI~eN  427 (529)
T TIGR02868       351 LDGVSLDLPPGERVAILGPSGSGKSTLLMLLTGLLDP--LQGEVTLDGV-SVSSLQDELRRRISVFAQDAHLFDTTVRDN  427 (529)
T ss_pred             eecceEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCC--CCcEEEECCE-EhhhHHHHHHhheEEEccCcccccccHHHH
Confidence            4444334789999999999999999998766544322  2223334332 22233111111112222211      111 


Q ss_pred             ---C--CCCcchHHHHHHHHHH------HhCCCe----EEEc-CCCCCHHHHH--HHHHHHHHHcCCccEEEEcCcchhc
Q psy2892         277 ---G--RLSSDDWPRINDSIKK------INKSQL----YIDE-TPSLNVIELR--ANSRRLSRQCGKIGVIIIDYLQLMS  338 (452)
Q Consensus       277 ---g--~l~~~~~~~~~~a~~~------l~~~~l----~i~~-~~~~t~~~i~--~~i~~~~~~~~~~~~vvID~l~~i~  338 (452)
                         |  ..++++   +.++.+.      +...|-    .+-+ ...+|-.+-.  +.+|.+.+   +++++++|..+.- 
T Consensus       428 I~~g~~~~~~e~---i~~al~~a~l~~~i~~lp~GldT~ige~G~~LSGGQrQRiaiARall~---~~~iliLDE~TSa-  500 (529)
T TIGR02868       428 LRLGRPDATDEE---LWAALERVGLADWLRSLPDGLDTVLGEGGARLSGGERQRLALARALLA---DAPILLLDEPTEH-  500 (529)
T ss_pred             HhccCCCCCHHH---HHHHHHHcCCHHHHHhCcccccchhccccCcCCHHHHHHHHHHHHHhc---CCCEEEEeCCccc-
Confidence               1  234443   3333332      222221    1222 1245555443  33444432   5999999986431 


Q ss_pred             cCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEec
Q psy2892         339 ANSRGENRATEISEISRNLKGLAKEINCPILALSQ  373 (452)
Q Consensus       339 ~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~q  373 (452)
                           -+. ..-..+.+.|+.+.  .+.++|+++|
T Consensus       501 -----LD~-~te~~I~~~l~~~~--~~~TvIiItH  527 (529)
T TIGR02868       501 -----LDA-GTESELLEDLLAAL--SGKTVVVITH  527 (529)
T ss_pred             -----CCH-HHHHHHHHHHHHhc--CCCEEEEEec
Confidence                 111 12235667777653  4688888887

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.

>CHL00059 atpA ATP synthase CF1 alpha subunit

Probab=96.48  E-value=0.025  Score=57.49  Aligned_cols=64  Identities=16%  Similarity=0.241  Sum_probs=50.0

Q ss_pred             ccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHH
Q psy2892         194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLA  259 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~  259 (452)
                      ...+.||+..+|-++ .+-+|+=..|.|.+|+|||++|++...+.. ..+..|+|...-....++.
T Consensus       122 ~epl~TGI~aID~l~-pigrGQR~~I~g~~g~GKt~Lal~~I~~q~-~~dv~cV~~~IGer~rev~  185 (485)
T CHL00059        122 YEPLQTGLIAIDSMI-PIGRGQRELIIGDRQTGKTAVATDTILNQK-GQNVICVYVAIGQKASSVA  185 (485)
T ss_pred             CcccccCceeecccc-ccccCCEEEeecCCCCCHHHHHHHHHHhcc-cCCeEEEEEEecCCchHHH
Confidence            346999999999974 588999999999999999999988777664 3455667777665555533

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=96.48  E-value=0.024  Score=57.23  Aligned_cols=62  Identities=11%  Similarity=0.102  Sum_probs=45.4

Q ss_pred             ccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHH
Q psy2892         194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLA  259 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~  259 (452)
                      ...+.||+..+|-++ -+.+|+.+.|.|++|+|||+|+.+++....  .. .++|...-+..+++.
T Consensus       139 ~~~l~TGir~ID~l~-~i~~Gqri~I~G~sG~GKTtLL~~I~~~~~--~d-~~v~~~iGER~rEv~  200 (442)
T PRK08927        139 GEPLDLGVRALNTFL-TCCRGQRMGIFAGSGVGKSVLLSMLARNAD--AD-VSVIGLIGERGREVQ  200 (442)
T ss_pred             ccccccceEEEeeee-EEcCCCEEEEECCCCCCHHHHHHHHHhccC--CC-EEEEEEEecCcHHHH
Confidence            346999999999875 489999999999999999999887775542  22 344544444444443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	452
2vye_A	454	Crystal Structure Of The Dnac-Ssdna Complex Length		1e-117
2r6a_A	454	Crystal Form Bh1 Length = 454		1e-117
2q6t_A	444	Crystal Structure Of The Thermus Aquaticus Dnab Mon		1e-106
3bgw_A	444	The Structure Of A Dnab-like Replicative Helicase A		2e-61
4a1f_A	338	Crystal Structure Of C-Terminal Domain Of Helicobac		7e-57
3bh0_A	315	Atpase Domain Of G40p Length = 315		5e-55
1jwe_A	114	Nmr Structure Of The N-Terminal Domain Of E. Coli D		2e-28
1b79_A	119	N-Terminal Domain Of Dna Replication Protein Dnab L		1e-26
2r5u_A	200	Crystal Structure Of The N-Terminal Domain Of Dnab		1e-23

>pdb|2VYE|A Chain A, Crystal Structure Of The Dnac-Ssdna Complex Length = 454

Iteration: 1
 Score =  418 bits (1075), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 209/441 (47%), Positives = 312/441 (70%), Gaps = 8/441 (1%)
Query: 13  RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
           R+PP SIE+EQ+VLG + LD TA    ++ L  + FYR  H+ IF  ++++ +   P D+
Sbjct: 8   RIPPQSIEAEQAVLGAVFLDPTALTLASERLIPEDFYRAAHQKIFHAMLRVADKGEPVDL 67
Query: 73  ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
           +TV   L+     EE+GG+SYL+ LA ++P+AAN+  YA IV ++ +LR+LI     I+ 
Sbjct: 68  VTVTAELAALEQLEEVGGVSYLSELADSVPTAANVEYYARIVEEKSLLRRLIRTATSIAQ 127
Query: 133 QAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDN 192
             + +R  E+  +LDEAE KI  +++++   +  F+ I+ +L +    I  LHNR   + 
Sbjct: 128 DGY-TREDEIDVLLDEAERKIMEVSQRKH--SGAFKNIKDVLVQTYDNIEMLHNR---NG 181
Query: 193 DVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME 252
           D+TGI TGF ELD++TSG Q  DLIIVA RPS+GKTAF+LNI +++A +    VAIFS+E
Sbjct: 182 DITGIPTGFTELDRMTSGFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSLE 241
Query: 253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIEL 312
           MS  QL MRML + G ++   LRTG+L+ +DW ++  ++  ++ + +YID+TPS+ V ++
Sbjct: 242 MSAQQLVMRMLCAEGNINAQNLRTGKLTPEDWGKLTMAMGSLSNAGIYIDDTPSIRVSDI 301
Query: 313 RANSRRLSRQCGKIGVIIIDYLQLMSANSRG-ENRATEISEISRNLKGLAKEINCPILAL 371
           RA  RRL ++ G +G+++IDYLQL+  + R  ENR  E+SEISR+LK LA+E+  P++AL
Sbjct: 302 RAKCRRLKQESG-LGMVVIDYLQLIQGSGRNRENRQQEVSEISRSLKALARELEVPVIAL 360
Query: 372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR 431
           SQL+RS+EQRQ+KRP+MSDLRESG+IEQDAD++ F+YRD+ YN++S +K I EII++KQR
Sbjct: 361 SQLSRSVEQRQDKRPMMSDLRESGSIEQDADIVAFLYRDDYYNKDSENKNIIEIIIAKQR 420
Query: 432 NGPIGNIRLTFSGQYTKFNNF 452
           NGP+G ++L F  +Y KF N 
Sbjct: 421 NGPVGTVQLAFIKEYNKFVNL 441

>pdb|2R6A|A Chain A, Crystal Form Bh1 Length = 454

Iteration: 1
 Score =  416 bits (1070), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 208/441 (47%), Positives = 311/441 (70%), Gaps = 8/441 (1%)
Query: 13  RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
           R+PP SIE+EQ+VLG + LD  A    ++ L  + FYR  H+ IF  ++++ +   P D+
Sbjct: 8   RIPPQSIEAEQAVLGAVFLDPAALVPASEILIPEDFYRAAHQKIFHAMLRVADRGEPVDL 67
Query: 73  ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
           +TV   L+ +   EEIGG+SYL+ LA  +P+AAN+  YA IV ++ +LR+LI     I+ 
Sbjct: 68  VTVTAELAASEQLEEIGGVSYLSELADAVPTAANVEYYARIVEEKSVLRRLIRTATSIAQ 127
Query: 133 QAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDN 192
             + +R  E+  +LDEA+ KI  +++++   +  F+ I+ +L +    I  LHNR   D 
Sbjct: 128 DGY-TREDEIDVLLDEADRKIMEVSQRKH--SGAFKNIKDILVQTYDNIEMLHNR---DG 181
Query: 193 DVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME 252
           ++TGI TGF ELD++TSG Q  DLIIVA RPS+GKTAF+LNI +++A +    VAIFS+E
Sbjct: 182 EITGIPTGFTELDRMTSGFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSLE 241
Query: 253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIEL 312
           MS  QL MRML + G ++   LRTG+L+ +DW ++  ++  ++ + +YID+TPS+ V ++
Sbjct: 242 MSAQQLVMRMLCAEGNINAQNLRTGKLTPEDWGKLTMAMGSLSNAGIYIDDTPSIRVSDI 301
Query: 313 RANSRRLSRQCGKIGVIIIDYLQLMSANSRG-ENRATEISEISRNLKGLAKEINCPILAL 371
           RA  RRL ++ G +G+I+IDYLQL+  + R  ENR  E+SEISR+LK LA+E+  P++AL
Sbjct: 302 RAKCRRLKQESG-LGMIVIDYLQLIQGSGRSKENRQQEVSEISRSLKALARELEVPVIAL 360
Query: 372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR 431
           SQL+RS+EQRQ+KRP+MSD+RESG+IEQDAD++ F+YRD+ YN++S +K I EII++KQR
Sbjct: 361 SQLSRSVEQRQDKRPMMSDIRESGSIEQDADIVAFLYRDDYYNKDSENKNIIEIIIAKQR 420
Query: 432 NGPIGNIRLTFSGQYTKFNNF 452
           NGP+G ++L F  +Y KF N 
Sbjct: 421 NGPVGTVQLAFIKEYNKFVNL 441

>pdb|2Q6T|A Chain A, Crystal Structure Of The Thermus Aquaticus Dnab Monomer Length = 444

Iteration: 1
 Score =  382 bits (980), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 195/443 (44%), Positives = 286/443 (64%), Gaps = 11/443 (2%)
Query: 14  VPPHSIESEQSVLGGLLLDNTAWDKIADCLNS-DYFYRYDHRLIFKHIIKLINSSHPADV 72
           +PPHS+E+EQSVLG +LLD+   D++   L S + FY   HR I+  +  L +   P D+
Sbjct: 5   IPPHSLEAEQSVLGSILLDSDVMDEVEGLLPSPEAFYAEAHRKIYAAMQALRSQGRPVDL 64
Query: 73  ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
           +T+ + LS  G  EE+GG +YL  L++  P+AA    YA IV ++  LR+LI    E   
Sbjct: 65  VTLSEELSRRGQLEEVGGTAYLLQLSEATPTAAYAEHYARIVAEKWTLRRLIQAAGEAMR 124
Query: 133 QAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDN 192
            A+   G  + +ILD A  KI      E+ + K   + +P+   V +    +     N  
Sbjct: 125 LAYEEAGS-LDEILDTAGKKIL-----EVALTKTDTEARPMRELVHETFEHIEALFQNKG 178
Query: 193 DVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME 252
           +V G+ TGF ELD++   L PG L I+A RP+MGKTAF+L I ++ A++  + V I+S+E
Sbjct: 179 EVAGVRTGFKELDQLIGTLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSLE 238
Query: 253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIEL 312
           M   QL +RM+ S  ++D +++R G+L+  D+ R+ D   +++++ +YID+TP L ++E+
Sbjct: 239 MPAAQLTLRMMCSEARIDMNRVRLGQLTDRDFSRLVDVASRLSEAPIYIDDTPDLTLMEV 298
Query: 313 RANSRRLSRQCGKIGVIIIDYLQLMS---ANSRGENRATEISEISRNLKGLAKEINCPIL 369
           RA +RRL  Q  ++G+IIIDYLQLMS   +   GENR  EI+ ISR LK LA+E+  PI+
Sbjct: 299 RARARRLVSQ-NQVGLIIIDYLQLMSGPGSGKSGENRQQEIAAISRGLKALARELGIPII 357
Query: 370 ALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSK 429
           ALSQL+R++E R NKRP++SDLRESG+IEQDAD+++FIYRDE YN +S   GIAEIIV K
Sbjct: 358 ALSQLSRAVEARPNKRPMLSDLRESGSIEQDADLVMFIYRDEYYNPHSEKAGIAEIIVGK 417
Query: 430 QRNGPIGNIRLTFSGQYTKFNNF 452
           QRNGP G + L F   + +FN+ 
Sbjct: 418 QRNGPTGTVELQFHASHVRFNDL 440

>pdb|3BGW|A Chain A, The Structure Of A Dnab-like Replicative Helicase And Its Interactions With Primase Length = 444

Iteration: 1
 Score =  233 bits (594), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 144/436 (33%), Positives = 249/436 (57%), Gaps = 19/436 (4%)
Query: 21  SEQSVLGGLLLDNTAWDKIADC-LNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSL 79
           +EQ+VLG +L   T  + I +C L  ++F    H  I+  +  L       D  ++   +
Sbjct: 17  AEQAVLGSIL---TEPELIKECPLTPEHFSPGKHFNIYFTMQDLDRKGQSVDFTSIAARV 73
Query: 80  SNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRG 139
                  ++GG  YL  LA ++ S    +++ + V +    RK I++  +I      S  
Sbjct: 74  GE--KLPQLGGFGYLTELAASVASTTTFKQHCQTVSEYFQKRKAISIAQQIIENVNESDD 131
Query: 140 KEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDNDVTGIST 199
             VK I  EA S++  I       + G   I   L  V + I       + D ++TG+ +
Sbjct: 132 GPVKPI-QEAVSELMEIEASGTDDDDG--SIDEALVTVYEEIE------SADGNITGVPS 182
Query: 200 GFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLA 259
           GF ELD++T G +  + +++A RPSMGKTAF+L   ++++ +N   V + S+EM   +  
Sbjct: 183 GFTELDRMTYGYKRRNFVLIAARPSMGKTAFALKQAKNMS-DNDDVVNLHSLEMGKKENI 241
Query: 260 MRMLGSVGKLDQHKLRTGR--LSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSR 317
            R++ + G ++  K++  R   +S+DW +++ +I +I+ S + I +    +V  + + +R
Sbjct: 242 KRLIVTAGSINAQKIKAARRDFASEDWGKLSMAIGEISNSNINIFDKAGQSVNYIWSKTR 301
Query: 318 RLSRQ-CGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNR 376
           +  R+  GK  +++IDYLQL+      ++R  +IS+ISR+LK +A+E++  ++ALSQL+R
Sbjct: 302 QTKRKNPGKRVIVMIDYLQLLEPAKANDSRTNQISQISRDLKKMARELDVVVIALSQLSR 361
Query: 377 SLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIG 436
            +EQRQ+KRP++SDLRESG +EQDAD+I F+YRD+ Y++ S  K I E+I++K R+GP+G
Sbjct: 362 QVEQRQDKRPMLSDLRESGQLEQDADIIEFLYRDDYYDKESESKNIVEVIIAKHRDGPVG 421
Query: 437 NIRLTFSGQYTKFNNF 452
            + L F  +Y  F N 
Sbjct: 422 TVSLAFIKEYGNFVNL 437

>pdb|4A1F|A Chain A, Crystal Structure Of C-Terminal Domain Of Helicobacter Pylori Dnab Helicase Length = 338

Iteration: 1
 Score =  218 bits (554), Expect = 7e-57,   Method: Compositional matrix adjust.
 Identities = 113/294 (38%), Positives = 168/294 (57%), Gaps = 35/294 (11%)
Query: 193 DVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME 252
           +VTGI TGF +LD  TSG   G L+I+  RPSMGKT+  +N+    A+ +   VA+FS+E
Sbjct: 25  EVTGIPTGFVQLDNYTSGFNKGSLVIIGARPSMGKTSLMMNMVLS-ALNDDRGVAVFSLE 83
Query: 253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIEL 312
           MS  QLA+R L  +  ++ H L +GRL  D W  +      +++ +L+  +   + + ++
Sbjct: 84  MSAEQLALRALSDLTSINMHDLESGRLDDDQWENLAKCFDHLSQKKLFFYDKSYVRIEQI 143
Query: 313 RANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALS 372
           R   R+L  Q  ++G+  IDYLQLMS +   + R  +I+EISR LK LA+E+  PI+AL 
Sbjct: 144 RLQLRKLKSQHKELGIAFIDYLQLMSGSKATKERHEQIAEISRELKTLARELEIPIIALV 203
Query: 373 QLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGI---------- 422
           QLNRSLE R +KRPI+SD+++SG IEQDAD++LF+YR  +Y   + D  I          
Sbjct: 204 QLNRSLENRDDKRPILSDIKDSGGIEQDADIVLFLYRGYIYQMRAEDNKIDKLKKEGKIE 263
Query: 423 ------------------------AEIIVSKQRNGPIGNIRLTFSGQYTKFNNF 452
                                   AEIIV+K RNG  G +   F+  +T++ + 
Sbjct: 264 EAQELYLKVNEERRIHKQNGSIEEAEIIVAKNRNGATGTVYTRFNAPFTRYEDM 317

>pdb|3BH0|A Chain A, Atpase Domain Of G40p Length = 315

Iteration: 1
 Score =  211 bits (538), Expect = 5e-55,   Method: Compositional matrix adjust.
 Identities = 104/265 (39%), Positives = 180/265 (67%), Gaps = 4/265 (1%)
Query: 191 DNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS 250
           D ++TG+ +GF ELD++T G +  + +++A RPSMGKTAF+L   ++++ +N   V + S
Sbjct: 45  DGNITGVPSGFTELDRMTYGYKRRNFVLIAARPSMGKTAFALKQAKNMS-DNDDVVNLHS 103
Query: 251 MEMSGIQLAMRMLGSVGKLDQHKLRTGR--LSSDDWPRINDSIKKINKSQLYIDETPSLN 308
           +EM   +   R++ + G ++  K++  R   +S+DW +++ +I +I+ S + I +    +
Sbjct: 104 LEMGKKENIKRLIVTAGSINAQKIKAARRDFASEDWGKLSMAIGEISNSNINIFDKAGQS 163
Query: 309 VIELRANSRRLSRQ-CGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCP 367
           V  + + +R+  R+  GK  +++IDYLQL+      ++R  +IS+ISR+LK +A+E++  
Sbjct: 164 VNYIWSKTRQTKRKNPGKRVIVMIDYLQLLEPAKANDSRTNQISQISRDLKKMARELDVV 223
Query: 368 ILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIV 427
           ++ALSQL+R +EQRQ+KRP++SDLRESG +EQDAD+I F+YRD+ Y++ S  K I E+I+
Sbjct: 224 VIALSQLSRQVEQRQDKRPMLSDLRESGQLEQDADIIEFLYRDDYYDKESESKNIVEVII 283
Query: 428 SKQRNGPIGNIRLTFSGQYTKFNNF 452
           +K R+GP+G + L F  +Y  F N 
Sbjct: 284 AKHRDGPVGTVSLAFIKEYGNFVNL 308

>pdb|1JWE|A Chain A, Nmr Structure Of The N-Terminal Domain Of E. Coli Dnab Helicase Length = 114

Iteration: 1
 Score =  123 bits (309), Expect = 2e-28,   Method: Composition-based stats.
 Identities = 57/113 (50%), Positives = 81/113 (71%)
Query: 13  RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
           +VPPHSIE+EQSVLGGL+LDN  WD +A+ + +D FY   HR IF  + +L  S  P D+
Sbjct: 2   KVPPHSIEAEQSVLGGLMLDNERWDDVAERVVADDFYTRPHRHIFTEMARLQESGSPIDL 61
Query: 73  ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLIT 125
           IT+ +SL   G  + +GG +YL  L++N PSAANI  YA+IVR+R ++R++I+
Sbjct: 62  ITLAESLERQGQLDSVGGFAYLAELSKNTPSAANISAYADIVRERAVVREMIS 114

>pdb|1B79|A Chain A, N-Terminal Domain Of Dna Replication Protein Dnab Length = 119

Iteration: 1
 Score =  117 bits (293), Expect = 1e-26,   Method: Composition-based stats.
 Identities = 55/106 (51%), Positives = 74/106 (69%)
Query: 12  FRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPAD 71
            +VPPHSIE+EQSVLGGL+LDN  WD +A+ + +D FY   HR IF  + +L  S  P D
Sbjct: 14  LKVPPHSIEAEQSVLGGLMLDNERWDDVAERVVADDFYTRPHRHIFTEMARLQESGSPID 73
Query: 72  VITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDR 117
           +IT+ +SL   G  + +GG +YL  L++N PSAANI  YA+IVR+R
Sbjct: 74  LITLAESLERQGQLDSVGGFAYLAELSKNTPSAANISAYADIVRER 119

>pdb|2R5U|A Chain A, Crystal Structure Of The N-Terminal Domain Of Dnab Helicase From Mycobacterium Tuberculosis Length = 200

Iteration: 1
 Score =  107 bits (267), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 55/177 (31%), Positives = 97/177 (54%), Gaps = 3/177 (1%)
Query: 13  RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
           R PP  + +EQSVLGG+LL   A   + + L    FYR  H+ ++  I+ L     PAD 
Sbjct: 25  RQPPQDLAAEQSVLGGMLLSKDAIADVLERLRPGDFYRPAHQNVYDAILDLYGRGEPADA 84
Query: 73  ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
           +TV   L   G    IGG  YL++L   +P+AAN   YA IV ++ +LR+L+     +  
Sbjct: 85  VTVAAELDRRGLLRRIGGAPYLHTLISTVPTAANAGYYASIVAEKALLRRLVEAGTRVVQ 144
Query: 133 QAFI-SRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRG 188
             +  + G +V +++D A+++I+ +A++   +++ F  ++ LL   +  I+ + + G
Sbjct: 145 YGYAGAEGADVAEVVDRAQAEIYDVADRR--LSEDFVALEDLLQPTMDEIDAIASSG 199

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	452
2r6a_A	454	DNAB helicase, replicative helicase; replication,	0.0
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	0.0
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	0.0
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	0.0
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	1e-164
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	1e-134
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	5e-92
2r5u_A	200	Replicative DNA helicase; DNAB, primase, replicati	2e-77
1b79_A	119	DNAB helicase; hexamer, DNA replication, hydrolase	1e-56
3gxv_A	123	Replicative DNA helicase; hexameric helicase, prim	4e-52
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	1e-13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	2e-12
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	9e-11
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	2e-10
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	4e-10
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	2e-09
2cvh_A	220	DNA repair and recombination protein RADB; filamen	9e-05
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	1e-04
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	2e-04
2z43_A	324	DNA repair and recombination protein RADA; archaea	6e-04
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	8e-04

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A Length = 454

 Score =  703 bits (1816), Expect = 0.0
 Identities = 208/447 (46%), Positives = 312/447 (69%), Gaps = 8/447 (1%)

Query: 7   TENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINS 66
           +E    R+PP SIE+EQ+VLG + LD  A    ++ L  + FYR  H+ IF  ++++ + 
Sbjct: 2   SELFSERIPPQSIEAEQAVLGAVFLDPAALVPASEILIPEDFYRAAHQKIFHAMLRVADR 61

Query: 67  SHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITV 126
             P D++TV   L+ +   EEIGG+SYL+ LA  +P+AAN+  YA IV ++ +LR+LI  
Sbjct: 62  GEPVDLVTVTAELAASEQLEEIGGVSYLSELADAVPTAANVEYYARIVEEKSVLRRLIRT 121

Query: 127 TDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHN 186
              I+   + +R  E+  +LDEA+ KI  +++++   +  F+ I+ +L +    I  LHN
Sbjct: 122 ATSIAQDGY-TREDEIDVLLDEADRKIMEVSQRKH--SGAFKNIKDILVQTYDNIEMLHN 178

Query: 187 RGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPV 246
               D ++TGI TGF ELD++TSG Q  DLIIVA RPS+GKTAF+LNI +++A +    V
Sbjct: 179 ---RDGEITGIPTGFTELDRMTSGFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENV 235

Query: 247 AIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPS 306
           AIFS+EMS  QL MRML + G ++   LRTG+L+ +DW ++  ++  ++ + +YID+TPS
Sbjct: 236 AIFSLEMSAQQLVMRMLCAEGNINAQNLRTGKLTPEDWGKLTMAMGSLSNAGIYIDDTPS 295

Query: 307 LNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSR-GENRATEISEISRNLKGLAKEIN 365
           + V ++RA  RRL ++ G +G+I+IDYLQL+  + R  ENR  E+SEISR+LK LA+E+ 
Sbjct: 296 IRVSDIRAKCRRLKQESG-LGMIVIDYLQLIQGSGRSKENRQQEVSEISRSLKALARELE 354

Query: 366 CPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEI 425
            P++ALSQL+RS+EQRQ+KRP+MSD+RESG+IEQDAD++ F+YRD+ YN++S +K I EI
Sbjct: 355 VPVIALSQLSRSVEQRQDKRPMMSDIRESGSIEQDADIVAFLYRDDYYNKDSENKNIIEI 414

Query: 426 IVSKQRNGPIGNIRLTFSGQYTKFNNF 452
           I++KQRNGP+G ++L F  +Y KF N 
Sbjct: 415 IIAKQRNGPVGTVQLAFIKEYNKFVNL 441

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus} Length = 444

 Score =  697 bits (1801), Expect = 0.0
 Identities = 194/444 (43%), Positives = 286/444 (64%), Gaps = 11/444 (2%)

Query: 13  RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNS-DYFYRYDHRLIFKHIIKLINSSHPAD 71
            +PPHS+E+EQSVLG +LLD+   D++   L S + FY   HR I+  +  L +   P D
Sbjct: 4   PIPPHSLEAEQSVLGSILLDSDVMDEVEGLLPSPEAFYAEAHRKIYAAMQALRSQGRPVD 63

Query: 72  VITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEIS 131
           ++T+ + LS  G  EE+GG +YL  L++  P+AA    YA IV ++  LR+LI    E  
Sbjct: 64  LVTLSEELSRRGQLEEVGGTAYLLQLSEATPTAAYAEHYARIVAEKWTLRRLIQAAGEAM 123

Query: 132 SQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTND 191
             A+      + +ILD A  KI  +A  +   +   + ++ L++   + I  L     N 
Sbjct: 124 RLAY-EEAGSLDEILDTAGKKILEVALTKT--DTEARPMRELVHETFEHIEALFQ---NK 177

Query: 192 NDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM 251
            +V G+ TGF ELD++   L PG L I+A RP+MGKTAF+L I ++ A++  + V I+S+
Sbjct: 178 GEVAGVRTGFKELDQLIGTLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSL 237

Query: 252 EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIE 311
           EM   QL +RM+ S  ++D +++R G+L+  D+ R+ D   +++++ +YID+TP L ++E
Sbjct: 238 EMPAAQLTLRMMCSEARIDMNRVRLGQLTDRDFSRLVDVASRLSEAPIYIDDTPDLTLME 297

Query: 312 LRANSRRLSRQCGKIGVIIIDYLQLMSANS---RGENRATEISEISRNLKGLAKEINCPI 368
           +RA +RRL  Q  ++G+IIIDYLQLMS       GENR  EI+ ISR LK LA+E+  PI
Sbjct: 298 VRARARRLVSQ-NQVGLIIIDYLQLMSGPGSGKSGENRQQEIAAISRGLKALARELGIPI 356

Query: 369 LALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVS 428
           +ALSQL+R++E R NKRP++SDLRESG+IEQDAD+++FIYRDE YN +S   GIAEIIV 
Sbjct: 357 IALSQLSRAVEARPNKRPMLSDLRESGSIEQDADLVMFIYRDEYYNPHSEKAGIAEIIVG 416

Query: 429 KQRNGPIGNIRLTFSGQYTKFNNF 452
           KQRNGP G + L F   + +FN+ 
Sbjct: 417 KQRNGPTGTVELQFHASHVRFNDL 440

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1} Length = 444

 Score =  686 bits (1774), Expect = 0.0
 Identities = 136/448 (30%), Positives = 246/448 (54%), Gaps = 17/448 (3%)

Query: 8   ENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSS 67
             ++  V  ++  +EQ+VLG +L +     +    L  ++F    H  I+  +  L    
Sbjct: 4   NPEEKTVMLYNEYAEQAVLGSILTEPELIKECP--LTPEHFSPGKHFNIYFTMQDLDRKG 61

Query: 68  HPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVT 127
              D  ++   +       ++GG  YL  LA ++ S    +++ + V +    RK I++ 
Sbjct: 62  QSVDFTSIAARVGE--KLPQLGGFGYLTELAASVASTTTFKQHCQTVSEYFQKRKAISIA 119

Query: 128 DEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNR 187
            +I             + + EA S++  I       +     I   L  V + I      
Sbjct: 120 QQIIENVN-ESDDGPVKPIQEAVSELMEIEASGT--DDDDGSIDEALVTVYEEIES---- 172

Query: 188 GTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVA 247
              D ++TG+ +GF ELD++T G +  + +++A RPSMGKTAF+L   ++++  +   V 
Sbjct: 173 --ADGNITGVPSGFTELDRMTYGYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDD-VVN 229

Query: 248 IFSMEMSGIQLAMRMLGSVGKLDQHKLRTGR--LSSDDWPRINDSIKKINKSQLYIDETP 305
           + S+EM   +   R++ + G ++  K++  R   +S+DW +++ +I +I+ S + I +  
Sbjct: 230 LHSLEMGKKENIKRLIVTAGSINAQKIKAARRDFASEDWGKLSMAIGEISNSNINIFDKA 289

Query: 306 SLNVIELRANSRRLSRQ-CGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEI 364
             +V  + + +R+  R+  GK  +++IDYLQL+      ++R  +IS+ISR+LK +A+E+
Sbjct: 290 GQSVNYIWSKTRQTKRKNPGKRVIVMIDYLQLLEPAKANDSRTNQISQISRDLKKMAREL 349

Query: 365 NCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAE 424
           +  ++ALSQL+R +EQRQ+KRP++SDLRESG +EQDAD+I F+YRD+ Y++ S  K I E
Sbjct: 350 DVVVIALSQLSRQVEQRQDKRPMLSDLRESGQLEQDADIIEFLYRDDYYDKESESKNIVE 409

Query: 425 IIVSKQRNGPIGNIRLTFSGQYTKFNNF 452
           +I++K R+GP+G + L F  +Y  F N 
Sbjct: 410 VIIAKHRDGPVGTVSLAFIKEYGNFVNL 437

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1} Length = 315

 Score =  509 bits (1312), Expect = 0.0
 Identities = 112/317 (35%), Positives = 194/317 (61%), Gaps = 12/317 (3%)

Query: 139 GKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDNDVTGIS 198
           G    + + EA S++  I       +     I   L  V + I         D ++TG+ 
Sbjct: 1   GSGPVKPIQEAVSELMEIEASGT--DDDDGSIDEALVTVYEEIES------ADGNITGVP 52

Query: 199 TGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQL 258
           +GF ELD++T G +  + +++A RPSMGKTAF+L   ++++  +   V + S+EM   + 
Sbjct: 53  SGFTELDRMTYGYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDD-VVNLHSLEMGKKEN 111

Query: 259 AMRMLGSVGKLDQHKLRTGR--LSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANS 316
             R++ + G ++  K++  R   +S+DW +++ +I +I+ S + I +    +V  + + +
Sbjct: 112 IKRLIVTAGSINAQKIKAARRDFASEDWGKLSMAIGEISNSNINIFDKAGQSVNYIWSKT 171

Query: 317 RRLSRQ-CGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLN 375
           R+  R+  GK  +++IDYLQL+      ++R  +IS+ISR+LK +A+E++  ++ALSQL+
Sbjct: 172 RQTKRKNPGKRVIVMIDYLQLLEPAKANDSRTNQISQISRDLKKMARELDVVVIALSQLS 231

Query: 376 RSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPI 435
           R +EQRQ+KRP++SDLRESG +EQDAD+I F+YRD+ Y++ S  K I E+I++K R+GP+
Sbjct: 232 RQVEQRQDKRPMLSDLRESGQLEQDADIIEFLYRDDYYDKESESKNIVEVIIAKHRDGPV 291

Query: 436 GNIRLTFSGQYTKFNNF 452
           G + L F  +Y  F N 
Sbjct: 292 GTVSLAFIKEYGNFVNL 308

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori} Length = 338

 Score =  464 bits (1197), Expect = e-164
 Identities = 116/319 (36%), Positives = 177/319 (55%), Gaps = 37/319 (11%)

Query: 168 QQIQPLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGK 227
           + I+ +L   +  I +   +     +VTGI TGF +LD  TSG   G L+I+  RPSMGK
Sbjct: 2   RNIKEVLESAMDLITENQRK--GSLEVTGIPTGFVQLDNYTSGFNKGSLVIIGARPSMGK 59

Query: 228 TAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRI 287
           T+  +N+    A+ +   VA+FS+EMS  QLA+R L  +  ++ H L +GRL  D W  +
Sbjct: 60  TSLMMNMVLS-ALNDDRGVAVFSLEMSAEQLALRALSDLTSINMHDLESGRLDDDQWENL 118

Query: 288 NDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRA 347
                 +++ +L+  +   + + ++R   R+L  Q  ++G+  IDYLQLMS +   + R 
Sbjct: 119 AKCFDHLSQKKLFFYDKSYVRIEQIRLQLRKLKSQHKELGIAFIDYLQLMSGSKATKERH 178

Query: 348 TEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFI 407
            +I+EISR LK LA+E+  PI+AL QLNRSLE R +KRPI+SD+++SG IEQDAD++LF+
Sbjct: 179 EQIAEISRELKTLARELEIPIIALVQLNRSLENRDDKRPILSDIKDSGGIEQDADIVLFL 238

Query: 408 YRDEVYNQNSADKGI----------------------------------AEIIVSKQRNG 433
           YR  +Y   + D  I                                  AEIIV+K RNG
Sbjct: 239 YRGYIYQMRAEDNKIDKLKKEGKIEEAQELYLKVNEERRIHKQNGSIEEAEIIVAKNRNG 298

Query: 434 PIGNIRLTFSGQYTKFNNF 452
             G +   F+  +T++ + 
Sbjct: 299 ATGTVYTRFNAPFTRYEDM 317

>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* Length = 296

 Score =  387 bits (996), Expect = e-134
 Identities = 49/277 (17%), Positives = 109/277 (39%), Gaps = 14/277 (5%)

Query: 179 KRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI 238
           +RI +  +   ++  V  + +G   ++  T G + G++I+V     MGK+ F        
Sbjct: 3   ERIREHLS---SEESVGLLFSGCTGINDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQW 59

Query: 239 AIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQ 298
                  V +  +E S  + A  ++G   ++   +  + +    +  + +    ++  + 
Sbjct: 60  GTAMGKKVGLAMLEESVEETAEDLIGLHNRVRLRQSDSLKREIIENGKFDQWFDELFGND 119

Query: 299 --LYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRN 356
                D         L A    +    G   VII+D++ ++ + S   +    I  +   
Sbjct: 120 TFHLYDSFAEAETDRLLAKLAYMRSGLG-CDVIILDHISIVVSASGESDERKMIDNLMTK 178

Query: 357 LKGLAKEINCPILALSQLNRSLEQR---QNKRPIMSDLRESGAIEQDADVILFIYRDEVY 413
           LKG AK     ++ +  L    + +   + +   ++DLR SGA+ Q +D I+ + R++  
Sbjct: 179 LKGFAKSTGVVLVVICHLKNPDKGKAHEEGRPVSITDLRGSGALRQLSDTIIALERNQQG 238

Query: 414 NQNSADKGIAEIIVSKQR-NGPIGNIRLTFSGQYTKF 449
           +       +  + + K R  G  G        + T +
Sbjct: 239 D----MPNLVLVRILKCRFTGDTGIAGYMEYNKETGW 271

>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 Length = 503

 Score =  287 bits (734), Expect = 5e-92
 Identities = 60/417 (14%), Positives = 142/417 (34%), Gaps = 18/417 (4%)

Query: 44  NSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEI--GGLSYLNSLAQNI 101
            SD  +      ++    K++ +    D++TV +          +  G  +   + A N 
Sbjct: 74  KSDALFGKH---LWNGGKKIVVTEGEIDMLTVMELQDCKYPVVSLGHGASAAKKTCAANY 130

Query: 102 PSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEI 161
                  +   +       RK +    ++     +       +  +E         E   
Sbjct: 131 EYFDQFEQIILMFDMDEAGRKAVEEAAQVLPAGKVRVAVLPCKDANECHLN-GHDREIME 189

Query: 162 CINKGFQQIQPLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAG 221
            +      I   +   +    ++    +++  V  + +G   ++  T G + G++I+V  
Sbjct: 190 QVWNAGPWIPDGVVSALSLRERIREHLSSEESVGLLFSGCTGINDKTLGARGGEVIMVTS 249

Query: 222 RPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSS 281
              M  + F               V +  +E S  + A  ++G   ++   +  + +   
Sbjct: 250 GSGMVMSTFVRQQALQWGTAMGKKVGLAMLEESVEETAEDLIGLHNRVRLRQSDSLKREI 309

Query: 282 DDWPRINDSIKKINKSQ--LYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA 339
            +  + +    ++  +      D         L A    +    G   VII+D++ ++ +
Sbjct: 310 IENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLG-CDVIILDHISIVVS 368

Query: 340 NSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQN---KRPIMSDLRESGA 396
            S   +    I  +   LKG AK     ++ +  L    + + +   +   ++DLR SGA
Sbjct: 369 ASGESDERKMIDNLMTKLKGFAKSTGVVLVVICHLKNPDKGKAHEEGRPVSITDLRGSGA 428

Query: 397 IEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR-NGPIGNI-RLTFSGQYTKFNN 451
           + Q +D I+ + R    NQ      +  + + K R  G  G    + ++ +      
Sbjct: 429 LRQLSDTIIALER----NQQGDMPNLVLVRILKCRFTGDTGIAGYMEYNKETGWLEP 481

>2r5u_A Replicative DNA helicase; DNAB, primase, replication, ATP-binding, autocatal cleavage, DNA replication, DNA-binding, endonuclease; 1.90A {Mycobacterium tuberculosis} Length = 200

 Score =  238 bits (610), Expect = 2e-77
 Identities = 55/177 (31%), Positives = 96/177 (54%), Gaps = 3/177 (1%)

Query: 13  RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
           R PP  + +EQSVLGG+LL   A   + + L    FYR  H+ ++  I+ L     PAD 
Sbjct: 25  RQPPQDLAAEQSVLGGMLLSKDAIADVLERLRPGDFYRPAHQNVYDAILDLYGRGEPADA 84

Query: 73  ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
           +TV   L   G    IGG  YL++L   +P+AAN   YA IV ++ +LR+L+     +  
Sbjct: 85  VTVAAELDRRGLLRRIGGAPYLHTLISTVPTAANAGYYASIVAEKALLRRLVEAGTRVVQ 144

Query: 133 QAFISR-GKEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRG 188
             +    G +V +++D A+++I+ +A++   +++ F  ++ LL   +  I+ + + G
Sbjct: 145 YGYAGAEGADVAEVVDRAQAEIYDVADRR--LSEDFVALEDLLQPTMDEIDAIASSG 199

>1b79_A DNAB helicase; hexamer, DNA replication, hydrolase; 2.30A {Escherichia coli} SCOP: a.81.1.1 PDB: 1jwe_A Length = 119

 Score =  182 bits (464), Expect = 1e-56
 Identities = 55/114 (48%), Positives = 76/114 (66%)

Query: 4   PFNTENKKFRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKL 63
             + +    +VPPHSIE+EQSVLGGL+LDN  WD +A+ + +D FY   HR IF  + +L
Sbjct: 6   ERDPQVAGLKVPPHSIEAEQSVLGGLMLDNERWDDVAERVVADDFYTRPHRHIFTEMARL 65

Query: 64  INSSHPADVITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDR 117
             S  P D+IT+ +SL   G  + +GG +YL  L++N PSAANI  YA+IVR+R
Sbjct: 66  QESGSPIDLITLAESLERQGQLDSVGGFAYLAELSKNTPSAANISAYADIVRER 119

>3gxv_A Replicative DNA helicase; hexameric helicase, primase, replication, ATP-binding, autocatalytic cleavage, DNA replication; 2.20A {Helicobacter pylori} PDB: 3gxv_D 3gxv_C Length = 123

 Score =  170 bits (433), Expect = 4e-52
 Identities = 27/123 (21%), Positives = 48/123 (39%), Gaps = 5/123 (4%)

Query: 13  RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADV 72
           +        E+ VL G++L N   +++   L    FY   + L F+  +KL     P D 
Sbjct: 5   KHLQQLQNIERIVLSGIVLANHKIEEVHSVLEPSDFYYPPNGLFFEIALKLHEEDCPIDE 64

Query: 73  ITVFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISS 132
             +   +      +E   ++   +         NI  Y E +++  I RKL  + + I  
Sbjct: 65  NFIRQKMPKDKQIKEEDLVAIFAA-----SPIDNIEAYVEEIKNASIKRKLFGLANTIRE 119

Query: 133 QAF 135
           QA 
Sbjct: 120 QAH 122

>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 Length = 279

 Score = 70.1 bits (171), Expect = 1e-13
 Identities = 38/252 (15%), Positives = 71/252 (28%), Gaps = 35/252 (13%)

Query: 203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIA---------IENKLPVAIFSMEM 253
            LD +   +  G +  +      GK+  +L +   IA              PV     E 
Sbjct: 19  PLDYVLPNMVAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAED 78

Query: 254 SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELR 313
               +  R+      L  H     R +  D   I                  SL  I   
Sbjct: 79  PPTAIHHRLH----ALGAHLSAEERQAVADGLLI-------------QPLIGSLPNIMAP 121

Query: 314 ANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQ 373
                L R      ++++D L+        EN +  ++++   ++ +A +  C I+ L  
Sbjct: 122 EWFDGLKRAAEGRRLMVLDTLRRFHIEE--ENASGPMAQVIGRMEAIAADTGCSIVFLHH 179

Query: 374 LNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD------EVYNQNSADKGIAEIIV 427
            ++               R S  +  +     ++         E    +   +      V
Sbjct: 180 ASKG-AAMMGAGDQQQASRGSSVLVDNIRWQSYLSSMTSAEAEEWGVDDDQRRFFVRFGV 238

Query: 428 SKQRNGPIGNIR 439
           SK   G     R
Sbjct: 239 SKANYGAPFADR 250

>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 = 69.1 bits (168), Expect = 2e-12
 Identities = 57/376 (15%), Positives = 124/376 (32%), Gaps = 105/376 (27%)

Query: 114 VRD--RGILRK-----LITVTDEISSQAFI-----SRGKE-VKQILDEAESKIFS-IAEK 159
           V+D  + IL K     +I   D +S    +     S+ +E V++ ++E     +  +   
Sbjct: 38  VQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSP 97

Query: 160 EICINKGFQQIQPLLNRVIKRINKLHNRGTNDND------VTGISTGFFELDKITSGLQP 213
              I    +Q QP +    +   +  +R  NDN       V+ +   + +L +    L+P
Sbjct: 98  ---IKT--EQRQPSMMT--RMYIEQRDRLYNDNQVFAKYNVSRLQP-YLKLRQALLELRP 149

Query: 214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHK 273
              +++ G    GKT  +L++     ++ K+   IF +             ++   +  +
Sbjct: 150 AKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWL-------------NLKNCNSPE 196

Query: 274 LRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRL-SRQCGKIGVIIID 332
                L       +   I     S+        L +  ++A  RRL   +  +  ++++ 
Sbjct: 197 TVLEMLQK-----LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL 251

Query: 333 YLQ--------------LMS------ANSRGENRATEISEISRNLKG---------LAKE 363
            +Q              L++       +       T IS +  +            L K 
Sbjct: 252 NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHIS-LDHHSMTLTPDEVKSLLLKY 310

Query: 364 INCPI------------LALSQLNRSLEQR----QNKRPIMSDLRESGAIEQDADVI--- 404
           ++C                LS +  S+        N + +  D + +  IE   +V+   
Sbjct: 311 LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCD-KLTTIIESSLNVLEPA 369

Query: 405 --------LFIYRDEV 412
                   L ++    
Sbjct: 370 EYRKMFDRLSVFPPSA 385

>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 = 59.5 bits (143), Expect = 1e-09
 Identities = 63/404 (15%), Positives = 143/404 (35%), Gaps = 104/404 (25%)

Query: 4   PFNTENKKFRVPPHSIESEQSVLGGLL-----------LDNTAWDKIADCLNSDYFYRYD 52
            + + +         I S Q+ L  LL           L N   +        + F   +
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNV-QNA--KAW--NAF---N 263

Query: 53  HR---LI---FKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGL--SYLNSLAQNIPSA 104
                L+   FK +   ++++    +     S++ T   +E+  L   YL+   Q++P  
Sbjct: 264 LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT--PDEVKSLLLKYLDCRPQDLPRE 321

Query: 105 AN------IRRYAEIVRDRGILR----KLITVTDEISS--QAFISRGKEVKQILDEAESK 152
                   +   AE +RD G+      K +   D++++  ++ +        +L+ AE +
Sbjct: 322 VLTTNPRRLSIIAESIRD-GLATWDNWKHVN-CDKLTTIIESSL-------NVLEPAEYR 372

Query: 153 -------IFS----IAEKEICI---NKGFQQIQPLLNRVIKR--INK--------LHN-- 186
                  +F     I    + +   +     +  ++N++ K   + K        + +  
Sbjct: 373 KMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIY 432

Query: 187 ---RGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI-AIEN 242
              +   +N+   +     +   I       DLI     P + +  +S +IG H+  IE+
Sbjct: 433 LELKVKLENEYA-LHRSIVDHYNIPKTFDSDDLIP----PYLDQYFYS-HIGHHLKNIEH 486

Query: 243 KLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYID 302
              + +F M    + L  R L       + K+R    + +    I ++++++   + YI 
Sbjct: 487 PERMTLFRM----VFLDFRFL-------EQKIRHDSTAWNASGSILNTLQQLKFYKPYI- 534

Query: 303 ETPSLNVIELRANS-RRLSRQCGKIGVI--IIDYLQ--LMSANS 341
              +    E   N+      +  +  +     D L+  LM+ + 
Sbjct: 535 -CDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDE 577

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 54.9 bits (131), Expect = 4e-08
 Identities = 61/419 (14%), Positives = 125/419 (29%), Gaps = 144/419 (34%)

Query: 24  SVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTG 83
           + +   +  +    K+   ++   F+           + L N + P  V+ +   L    
Sbjct: 164 TWVALDVCLS---YKVQCKMDFKIFW-----------LNLKNCNSPETVLEMLQKLLYQI 209

Query: 84  NAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVK 143
           +           +       ++NI+     ++    LR+L+    +      +       
Sbjct: 210 DP----------NWTSRSDHSSNIKLRIHSIQAE--LRRLLK--SKPYENCLL------- 248

Query: 144 QILDEAES----KIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDNDVT---- 195
            +L   ++      F+++    C      +I  LL              T    VT    
Sbjct: 249 -VLLNVQNAKAWNAFNLS----C------KI--LLT-------------TRFKQVTDFLS 282

Query: 196 GISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG 255
             +T    LD  +  L P +           K+     +         LP      E+  
Sbjct: 283 AATTTHISLDHHSMTLTPDE----------VKSLLLKYLDCRP---QDLPR-----EVLT 324

Query: 256 IQ-LAMRMLGSVGKLDQHKLRTGRLSSDDWPRIN-DSIKKINKSQLYIDETPSLNVI--- 310
                + ++          +R G  + D+W  +N D +  I +S        SLNV+   
Sbjct: 325 TNPRRLSIIAE-------SIRDGLATWDNWKHVNCDKLTTIIES--------SLNVLEPA 369

Query: 311 ELRANSRRLSRQCGKI---GVII-IDYLQLMSANSRGENRATEISEISRNLKGLAKEINC 366
           E R    RLS     +      I    L L+  +        ++  +   +  L K    
Sbjct: 370 EYRKMFDRLS-----VFPPSAHIPTILLSLIWFDVIKS----DVMVV---VNKLHK---- 413

Query: 367 PILALSQLNRSLEQRQNKRPIMS----DLRESGAIEQDADV---ILFIYR-DEVYNQNS 417
                     SL ++Q K   +S     L     +E +  +   I+  Y   + ++ + 
Sbjct: 414 ---------YSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDD 463

>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 = 41.4 bits (96), Expect = 6e-04
 Identities = 27/143 (18%), Positives = 51/143 (35%), Gaps = 34/143 (23%)

Query: 36  WDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDS-----------LSNTGN 84
            D I   L   YFY +    I  H+  +       + +T+F             + +   
Sbjct: 462 DDLIPPYL-DQYFYSH----IGHHLKNI----EHPERMTLFRMVFLDFRFLEQKIRHDST 512

Query: 85  AEEIGGLSYLNSLAQNIPSAANIRRYAEIVRD-----RGILRKLITVTDEISSQAFISRG 139
           A    G S LN+L Q       ++ Y   + D       ++  ++    +I      S+ 
Sbjct: 513 AWNASG-SILNTLQQ-------LKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKY 564

Query: 140 KEVKQI-LDEAESKIFSIAEKEI 161
            ++ +I L   +  IF  A K++
Sbjct: 565 TDLLRIALMAEDEAIFEEAHKQV 587

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2} Length = 235

 Score = 60.8 bits (148), Expect = 9e-11
 Identities = 38/179 (21%), Positives = 65/179 (36%), Gaps = 17/179 (9%)

Query: 197 ISTGFFELDKITS-GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG 255
           +STG  + DK+   G+  G  I + G P  GKT FSL+        +  P    + E S 
Sbjct: 5   LSTGILDFDKLIQGGIPQGFFIALTGEPGTGKTIFSLHFIAKGL-RDGDPCIYVTTEESR 63

Query: 256 IQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRAN 315
             +  +         Q               I+  +K+       ++ TP   V ++   
Sbjct: 64  DSIIRQA-------KQFNWDFEEYIEKKLIIIDALMKEKEDQWSLVNLTPEELVNKVIEA 116

Query: 316 SRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQL 374
            ++L         ++ID +  +  +     R     +IS  LK +  + N  I A SQ 
Sbjct: 117 KQKLGY---GKARLVIDSVSALFLDKPAMAR-----KISYYLKRVLNKWNFTIYATSQY 167

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii} Length = 247

 Score = 60.1 bits (146), Expect = 2e-10
 Identities = 30/181 (16%), Positives = 64/181 (35%), Gaps = 16/181 (8%)

Query: 197 ISTGFFELDKITS-GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG 255
           + TG   +D+I   G+   ++++++G P  GKT FS     +   +   P    ++E   
Sbjct: 5   VKTGIPGVDEILHGGIPERNVVLLSGGPGTGKTIFSQQFLWNGL-KMGEPGIYVALEEHP 63

Query: 256 IQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRAN 315
           +Q+   M        Q               + D+           ++    ++ ++R  
Sbjct: 64  VQVRQNM-------AQFGWDVKPYEEKGMFAMVDAFTAGIGKSKEYEKYIVHDLTDIREF 116

Query: 316 SRRLSRQCGKIG--VIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQ 373
              L +    I    +++D +  +  N     R      I   LK +     C  + +SQ
Sbjct: 117 IEVLRQAIRDINAKRVVVDSVTTLYINKPAMAR-----SIILQLKRVLAGTGCTSIFVSQ 171

Query: 374 L 374
           +
Sbjct: 172 V 172

>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* Length = 525

 Score = 60.7 bits (147), Expect = 4e-10
 Identities = 31/221 (14%), Positives = 63/221 (28%), Gaps = 30/221 (13%)

Query: 197 ISTGFFELDKITS-GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG 255
           + T     D I+  GL  G   +V+G    GKT FS+    +  IE   P    + E + 
Sbjct: 21  MRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETP 80

Query: 256 IQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRAN 315
             +                       D    +++    I  +    +    +   +L A 
Sbjct: 81  QDIIKNAR--------------SFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSAL 126

Query: 316 SRRLSRQCGKIG--VIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQ 373
             R++    K     + ID +  +       +    +      L    K+I    +  ++
Sbjct: 127 IERINYAIQKYRARRVSIDSVTSVFQQYDASSV---VRRELFRLVARLKQIGATTVMTTE 183

Query: 374 LNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYN 414
                            +   G  E  +D ++ +       
Sbjct: 184 RI----------EEYGPIARYGVEEFVSDNVVILRNVLEGE 214

>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* Length = 525

 Score = 58.8 bits (142), Expect = 2e-09
 Identities = 31/175 (17%), Positives = 54/175 (30%), Gaps = 22/175 (12%)

Query: 175 NRVIKRINKLHNRGTNDNDVTGISTGFFELDKITS-GLQPGDLIIVAGRPSMGKTAFSLN 233
           +  I        R T  +    +S+G   LD++   G     +I+  G    GKT     
Sbjct: 241 DHGINIFPLGAMRLTQRSSNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSR 300

Query: 234 IGEHIAIENKLPVAIFSMEMSGIQLAMRM---------LGSVGKLDQHKLRTGRLSSDD- 283
             E+ A  NK    +F+ E S  QL             +     L            +D 
Sbjct: 301 FVEN-ACANKERAILFAYEESRAQLLRNAYSWGMDFEEMERQNLLKIVCAYPESAGLEDH 359

Query: 284 WPRINDSIKKINKSQLYIDETPSLNVI-------ELRANSRRLSRQCGKIGVIII 331
              I   I     +++ ID   SL+ +         R     ++    +  +  +
Sbjct: 360 LQIIKSEINDFKPARIAID---SLSALARGVSNNAFRQFVIGVTGYAKQEEITGL 411

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A* Length = 220

 Score = 42.6 bits (101), Expect = 9e-05
 Identities = 28/177 (15%), Positives = 56/177 (31%), Gaps = 32/177 (18%)

Query: 197 ISTGFFELDKITSG-LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME--M 253
           +STG   LD +  G   PG L  V G  + GKT  +L       + +   VA    E   
Sbjct: 2   LSTGTKSLDSLLGGGFAPGVLTQVYGPYASGKTTLAL----QTGLLSGKKVAYVDTEGGF 57

Query: 254 SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELR 313
           S  +L                               + ++     +    +       + 
Sbjct: 58  SPERLVQMAE----------------------TRGLNPEEALSRFILFTPSDFKEQRRVI 95

Query: 314 ANSRRLSRQCGKIGVIIIDYLQLM-SANSRGENRATEISEISRNLKGLAKEINCPIL 369
            + ++         ++++D +     A         E+S   + L  +A++ N P++
Sbjct: 96  GSLKKTVDS--NFALVVVDSITAHYRAEENRSGLIAELSRQLQVLLWIARKHNIPVI 150

>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 Length = 343

 Score = 42.9 bits (101), Expect = 1e-04
 Identities = 33/190 (17%), Positives = 67/190 (35%), Gaps = 34/190 (17%)

Query: 193 DVTGISTGFFELDKITS-GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM 251
            V  I+TG  E DK+   G++   +    G    GKT  S      + +  +LP A    
Sbjct: 100 MVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSH----TLCVTAQLPGAGGYP 155

Query: 252 EMSGIQLAMRMLGSVGKLDQ-HKLRTGRLSS---DDWPRINDSIKKINKSQLYIDETPSL 307
                       G +  +D  +  R  RL           +  +  +  ++ Y      +
Sbjct: 156 G-----------GKIIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAY-TSEHQM 203

Query: 308 NVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGE--------NRATEISEISRNLKG 359
            +++  A         G   ++IID +    A  R +         R  +++++   L+ 
Sbjct: 204 ELLDYVAAKFHEEA--GIFKLLIIDSI---MALFRVDFSGRGELAERQQKLAQMLSRLQK 258

Query: 360 LAKEINCPIL 369
           +++E N  + 
Sbjct: 259 ISEEYNVAVF 268

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154

 Score = 41.1 bits (95), Expect = 2e-04
 Identities = 9/27 (33%), Positives = 18/27 (66%), Gaps = 5/27 (18%)

Query: 290 SIKKINKS-QLYIDET-PSLNV---IE 311
           ++KK+  S +LY D++ P+L +   +E
Sbjct: 21  ALKKLQASLKLYADDSAPALAIKATME 47

>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* Length = 324

 Score = 40.5 bits (95), Expect = 6e-04
 Identities = 41/251 (16%), Positives = 85/251 (33%), Gaps = 57/251 (22%)

Query: 140 KEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDNDVTGIST 199
                I      KI   A     ++  F+                        +V  IST
Sbjct: 48  SVAAGIPLSTAQKIIKEARD--ALDIRFK--------------TALEVKKERMNVKKIST 91

Query: 200 GFFELDKITSG-LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQL 258
           G   LD + +G ++   +    G    GKT         +++  +LP      E  G+  
Sbjct: 92  GSQALDGLLAGGIETRTMTEFFGEFGSGKTQLCH----QLSVNVQLPP-----EKGGLS- 141

Query: 259 AMRMLGSVGKLD-QHKLRTGRLSS------DDWPRINDSIKKINKSQLYIDETPSLNVIE 311
                G    +D +   R  R+ +       D   + ++I        YI    + + I 
Sbjct: 142 -----GKAVYIDTEGTFRWERIENMAKALGLDIDNVMNNI-------YYIRAINTDHQIA 189

Query: 312 LRANSRRLSRQCGKIGVIIIDYLQLMSANSRGE--------NRATEISEISRNLKGLAKE 363
           +  + + L  +   I +I++D    ++++ R E         R  ++++    L  LA+ 
Sbjct: 190 IVDDLQELVSKDPSIKLIVVD---SVTSHFRAEYPGRENLAVRQQKLNKHLHQLTRLAEV 246

Query: 364 INCPILALSQL 374
            +  ++  +Q+
Sbjct: 247 YDIAVIITNQV 257

>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 Length = 349

 Score = 40.4 bits (94), Expect = 8e-04
 Identities = 35/192 (18%), Positives = 72/192 (37%), Gaps = 25/192 (13%)

Query: 193 DVTGISTGFFELDKITSG-LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM 251
            +  ISTG   LDK+  G ++   +  V G    GKT  +      +A+  +LP     +
Sbjct: 109 TIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAH----TLAVMVQLPPEEGGL 164

Query: 252 EMSGIQLAMRMLGSVGKLD-QHKLRTGRLSS---DDWPRINDSIKKINKSQLYIDETPSL 307
                       GSV  +D ++  R  R+     +     ++ +K I  ++ +      L
Sbjct: 165 N-----------GSVIWIDTENTFRPERIREIAQNRGLDPDEVLKHIYVARAFNSNHQML 213

Query: 308 NVIELRANSRRLSRQCGKIGVIIID-YLQLMSANSRGEN----RATEISEISRNLKGLAK 362
            V +     + L      + ++I+D       +   G      R  ++++   +L  LA 
Sbjct: 214 LVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIGRGALAERQQKLAKHLADLHRLAN 273

Query: 363 EINCPILALSQL 374
             +  +   +Q+
Sbjct: 274 LYDIAVFVTNQV 285

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	452
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	100.0
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	100.0
2r6a_A	454	DNAB helicase, replicative helicase; replication,	100.0
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	100.0
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	100.0
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	100.0
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	100.0
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	100.0
2r5u_A	200	Replicative DNA helicase; DNAB, primase, replicati	99.97
1xp8_A	366	RECA protein, recombinase A; recombination, radior	99.95
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.95
1u94_A	356	RECA protein, recombinase A; homologous recombinat	99.94
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	99.94
3gxv_A	123	Replicative DNA helicase; hexameric helicase, prim	99.94
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	99.94
2z43_A	324	DNA repair and recombination protein RADA; archaea	99.93
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.93
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	99.93
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	99.93
2cvh_A	220	DNA repair and recombination protein RADB; filamen	99.92
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	99.92
1b79_A	119	DNAB helicase; hexamer, DNA replication, hydrolase	99.92
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	99.91
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	99.89
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	99.89
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	99.88
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	99.87
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	99.87
3io5_A	333	Recombination and repair protein; storage dimer, i	99.82
4a74_A	231	DNA repair and recombination protein RADA; hydrola	99.81
2r6a_C	143	DNAG primase, helicase binding domain, replicative	99.77
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	99.76
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	99.71
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	99.69
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	99.66
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	99.36
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	99.19
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	98.86
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	98.18
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	98.15
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	98.05
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.03
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	98.02
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.02
1xx6_A	191	Thymidine kinase; NESG, northeast structural genom	97.97
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	97.91
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	97.87
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	97.87
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	97.84
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.84
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.82
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	97.8
2og2_A	359	Putative signal recognition particle receptor; nuc	97.79
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	97.78
2xxa_A	433	Signal recognition particle protein; protein trans	97.77
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	97.77
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	97.75
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	97.75
3e2i_A	219	Thymidine kinase; Zn-binding, ATP-binding, DNA syn	97.75
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	97.71
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	97.69
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	97.68
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	97.65
1g6h_A	257	High-affinity branched-chain amino acid transport	97.62
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	97.61
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.59
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	97.59
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	97.58
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	97.58
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.53
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	97.53
3bos_A	242	Putative DNA replication factor; P-loop containing	97.53
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	97.52
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	97.5
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	97.5
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	97.5
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	97.49
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	97.49
1b0u_A	262	Histidine permease; ABC transporter, transport pro	97.48
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	97.46
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	97.45
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	97.44
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	97.42
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	97.41
2qgz_A	308	Helicase loader, putative primosome component; str	97.41
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	97.38
1ji0_A	240	ABC transporter; ATP binding protein, structural g	97.37
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	97.36
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	97.35
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	97.31
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	97.31
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	97.3
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	97.29
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	97.28
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	97.27
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.25
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	97.24
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.22
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	97.22
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.21
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	97.21
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.18
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.18
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	97.17
1sgw_A	214	Putative ABC transporter; structural genomics, P p	97.16
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.16
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.15
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	97.14
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	97.14
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	97.14
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.13
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.1
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	97.07
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	97.04
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.04
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	97.03
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.01
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	97.0
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	96.97
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	96.97
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	96.96
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	96.96
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	96.95
3qxc_A	242	Dethiobiotin synthetase; DTBS, structural genomics	96.94
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	96.92
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	96.92
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	96.92
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	96.88
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	96.85
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.84
2fna_A	357	Conserved hypothetical protein; structural genomic	96.84
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.83
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	96.81
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	96.79
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	96.79
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	96.74
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	96.73
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	96.73
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	96.73
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.68
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	96.67
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.63
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.57
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.53
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.53
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	96.53
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	96.5
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.5
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.49
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	96.48
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.46
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	96.44
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	96.43
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.41
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.4
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	96.37
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.36
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.35
3end_A	307	Light-independent protochlorophyllide reductase ir	96.35
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.34
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.31
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	96.31
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	96.3
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	96.28
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.28
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	96.27
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	96.26
2woj_A	354	ATPase GET3; tail-anchored, membrane protein, targ	96.26
3b6e_A	216	Interferon-induced helicase C domain-containing P;	96.25
2jlq_A	451	Serine protease subunit NS3; ribonucleoprotein, nu	96.25
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.24
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	96.21
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.21
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.2
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	96.19
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.18
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	96.17
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.17
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	96.16
3ice_A	422	Transcription termination factor RHO; transcriptio	96.14
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	96.13
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	96.11
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.1
1tue_A	212	Replication protein E1; helicase, replication, E1E	96.08
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	96.08
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	96.06
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.05
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	96.04
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.03
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.01
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	95.99
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.98
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	95.98
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.98
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.97
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.97
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	95.96
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	95.96
3fwy_A	314	Light-independent protochlorophyllide reductase I	95.94
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	95.92
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	95.92
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.9
3sqw_A	579	ATP-dependent RNA helicase MSS116, mitochondrial;	95.88
3fgn_A	251	Dethiobiotin synthetase; biotin biosynthesis, BIOD	95.88
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	95.88
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	95.88
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	95.88
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	95.87
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.87
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.85
3bor_A	237	Human initiation factor 4A-II; translation initiat	95.85
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	95.84
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	95.84
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	95.84
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.83
4f92_B	1724	U5 small nuclear ribonucleoprotein 200 kDa helica;	95.83
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	95.83
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	95.83
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	95.81
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.81
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.81
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	95.78
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	95.76
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	95.75
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	95.74
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	95.74
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	95.73
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.73
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	95.71
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.7
3co5_A	143	Putative two-component system transcriptional RES	95.7
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	95.7
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	95.69
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	95.67
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	95.67
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.67
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	95.63
3l0o_A	427	Transcription termination factor RHO; helicase, RH	95.62
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	95.62
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	95.61
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.6
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	95.6
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.59
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	95.59
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.58
3cwq_A	209	Para family chromosome partitioning protein; alpha	95.58
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	95.55
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	95.54
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	95.54
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	95.54
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.53
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	95.51
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	95.5
2xgj_A	1010	ATP-dependent RNA helicase DOB1; hydrolase-RNA com	95.49
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.45
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	95.45
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	95.44
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	95.42
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	95.41
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.41
1yks_A	440	Genome polyprotein [contains: flavivirin protease	95.4
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.35
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	95.34
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	95.34
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	95.33
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.32
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	95.29
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	95.26
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	95.26
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	95.25
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.24
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	95.24
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	95.24
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.23
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.22
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.2
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	95.19
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	95.19
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.18
2xj4_A	286	MIPZ; replication, cell division, ATPase, WACA; 1.	95.16
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.16
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	95.16
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.15
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	95.11
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	95.1
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	95.1
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.09
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.07
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.07
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.05
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.03
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	95.02
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	95.02
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.01
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.01
2ykg_A	696	Probable ATP-dependent RNA helicase DDX58; hydrola	95.0
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	94.99
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.99
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	94.98
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	94.98
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	94.97
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	94.96
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	94.93
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	94.93
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	94.9
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	94.9
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	94.9
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	94.9
2ghi_A	260	Transport protein; multidrug resistance protein, M	94.89
2o8b_B	1022	DNA mismatch repair protein MSH6; DNA damage respo	94.89
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	94.89
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	94.86
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	94.85
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	94.85
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	94.81
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	94.81
4a2q_A	797	RIG-I, retinoic acid inducible protein I; hydrolas	94.8
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	94.77
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	94.75
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	94.75
2vli_A	183	Antibiotic resistance protein; transferase, tunica	94.73
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	94.72
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	94.72
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	94.7
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	94.7
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	94.67
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	94.65
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	94.65
4f92_B	1724	U5 small nuclear ribonucleoprotein 200 kDa helica;	94.61
4ddu_A	1104	Reverse gyrase; topoisomerase, DNA supercoiling, a	94.6
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	94.59
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	94.58
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.54
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	94.54
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	94.53
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	94.51
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	94.51
1wrb_A	253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	94.51
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	94.5
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	94.5
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.46
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	94.42
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	94.42
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	94.41
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	94.4
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	94.4
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	94.4
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	94.34
3igf_A	374	ALL4481 protein; two-domained protein consisting o	94.32
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	94.3
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	94.3
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	94.29
4a8j_A	361	Elongator complex protein 4; transcription; 2.10A	94.29
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	94.25
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	94.25
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.24
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	94.22
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	94.21
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	94.21
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	94.2
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	94.19
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	94.18
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	94.16
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	94.13
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.12
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	94.11
1p9r_A	418	General secretion pathway protein E; bacterial typ	94.11
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	94.06
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	94.05
1via_A	175	Shikimate kinase; structural genomics, transferase	94.04
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	94.02
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	94.01
2wv9_A	673	Flavivirin protease NS2B regulatory subunit, FLAV	94.01
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	94.0
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	93.96
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	93.95
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	93.93
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	93.9
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	93.89
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	93.87
2z83_A	459	Helicase/nucleoside triphosphatase; hydrolase, mem	93.87
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	93.86
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	93.85
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	93.84
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	93.79
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	93.78
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	93.76
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	93.73
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	93.71
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	93.71
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	93.7
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	93.7
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	93.69
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	93.69
2whx_A	618	Serine protease/ntpase/helicase NS3; transcription	93.68
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	93.68
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	93.68
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	93.67
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	93.67
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	93.66
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	93.66
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	93.62
3ez9_A	403	Para; DNA binding, winged-HTH, partition, biosynth	93.6
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	93.6
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	93.56
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	93.51
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	93.51
4a4z_A	997	Antiviral helicase SKI2; hydrolase, ATPase, mRNA d	93.45
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	93.45
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	93.44
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	93.43
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	93.41
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	93.41
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	93.4
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	93.4
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	93.34
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	93.32
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	93.3
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	93.29
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	93.28
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	93.25
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	93.2
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	93.19
2i4i_A	417	ATP-dependent RNA helicase DDX3X; DEAD, structural	93.19
1gku_B	1054	Reverse gyrase, TOP-RG; topoisomerase, DNA superco	93.16
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	93.12
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	93.05
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	93.04
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	93.04
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	93.01
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	93.01
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	92.98
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	92.96
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	92.95
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	92.93
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	92.93
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	92.91
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	92.88
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	92.86
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	92.86
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	92.86
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	92.74
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	92.71
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	92.71
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	92.69
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	92.67
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	92.67
2v1x_A	591	ATP-dependent DNA helicase Q1; DNA strand annealin	92.64
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	92.62
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	92.6
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	92.55
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	92.44
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	92.36
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	92.32
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	92.3
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	92.29
4a2w_A	936	RIG-I, retinoic acid inducible protein I; hydrolas	92.28
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	92.28
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	92.27
4gl2_A	699	Interferon-induced helicase C domain-containing P;	92.22
2hf9_A	226	Probable hydrogenase nickel incorporation protein	92.19
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	92.01
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	91.9
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	91.87
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	91.83
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	91.8
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	91.78
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	91.74
2r44_A	331	Uncharacterized protein; putative ATPase, structur	91.72
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	91.64
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	91.62
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	91.62
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	91.58
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	91.58
3of5_A	228	Dethiobiotin synthetase; structural genomics, cent	91.54
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	91.44
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	91.34
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	91.31
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	91.27
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	91.26
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	91.21
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	91.21
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	91.14
3lfu_A	647	DNA helicase II; SF1 helicase, ATP-binding, DNA da	91.13
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	91.03
2wji_A	165	Ferrous iron transport protein B homolog; membrane	90.97
3pvs_A	447	Replication-associated recombination protein A; ma	90.91
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	90.9
1oyw_A	523	RECQ helicase, ATP-dependent DNA helicase; winged	90.85
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	90.81
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	90.71
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	90.69
1e9r_A	437	Conjugal transfer protein TRWB; coupling protein,	90.64
1rif_A	282	DAR protein, DNA helicase UVSW; bacteriophage, REC	90.58
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	90.54
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	90.53
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	90.52
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	90.48
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	90.44
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	90.41

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=100.00  E-value=2e-83  Score=649.83  Aligned_cols=423  Identities=32%  Similarity=0.556  Sum_probs=385.5

Q ss_pred             CCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHH
Q psy2892          13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLS   92 (452)
Q Consensus        13 ~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~   92 (452)
                      +.||+++++|++|||+||.+|+++.++.  |+|+|||.+.||.||++|.+|+.+|+|+|++||..+|++.  ++.+||.+
T Consensus         9 ~~~p~~~eaE~~vLg~ll~~~~~~~~v~--l~~~dF~~~~h~~If~~i~~l~~~~~~~D~~tv~~~l~~~--l~~~gg~~   84 (444)
T 3bgw_A            9 TVMLYNEYAEQAVLGSILTEPELIKECP--LTPEHFSPGKHFNIYFTMQDLDRKGQSVDFTSIAARVGEK--LPQLGGFG   84 (444)
T ss_dssp             -----CHHHHHHHHHHHHHSTTHHHHSC--CCGGGSCTTHHHHHHHHHHHHHHTTCCCSHHHHHHHSSTT--CGGGTCHH
T ss_pred             CCCCCCHHHHHHHHHHHHcCccccceee--cCHHHcCCHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH--HHHcCcHH
Confidence            5789999999999999999999999987  9999999999999999999999999999999999999887  88999999


Q ss_pred             HHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHH--HHHHHHHHHhhhhhhhhhccCcccH
Q psy2892          93 YLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQI--LDEAESKIFSIAEKEICINKGFQQI  170 (452)
Q Consensus        93 ~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~--l~~~~~~l~~l~~~~~~~~~~~~~~  170 (452)
                      ||.+|++.+|+.+|+++|+++|++++.+|+++..+.++.+.++++   +++++  ++++++.+.++....  ...++.++
T Consensus        85 yl~~l~~~~~~~~n~~~ya~~v~e~~~~R~li~~~~~i~~~~~~~---~~~~~~~l~~a~~~l~~i~~~~--~~~~~~~~  159 (444)
T 3bgw_A           85 YLTELAASVASTTTFKQHCQTVSEYFQKRKAISIAQQIIENVNES---DDGPVKPIQEAVSELMEIEASG--TDDDDGSI  159 (444)
T ss_dssp             HHHHHHHHCSCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHC---------CCTHHHHHHHHHHHHSCC--CSSCCCCC
T ss_pred             HHHHHHHcCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC---CHHHHHHHHHHHHHHHHHHhhc--ccCCCccH
Confidence            999999999999999999999999999999999999999988763   78899  999999999998762  33567889


Q ss_pred             HHHHHHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         171 QPLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       171 ~~~~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      .+++.++++.+++..  +    ...|+||||+.||+++|||++|++++|+|+||+|||+|++|+|.+++. +|.+|+|||
T Consensus       160 ~~~~~~~~~~i~~~~--~----~~~gi~TG~~~LD~~lgGl~~G~liiIaG~pG~GKTtlal~ia~~~a~-~g~~vl~fS  232 (444)
T 3bgw_A          160 DEALVTVYEEIESAD--G----NITGVPSGFTELDRMTYGYKRRNFVLIAARPSMGKTAFALKQAKNMSD-NDDVVNLHS  232 (444)
T ss_dssp             HHHHHHHHHHHHTCC--S----SCCSBCCSCHHHHHHHSSBCSSCEEEEEECSSSSHHHHHHHHHHHHHH-TTCEEEEEC
T ss_pred             HHHHHHHHHHHHHhh--c----CCCCcCCCcHHHHhhcCCCCCCcEEEEEeCCCCChHHHHHHHHHHHHH-cCCEEEEEE
Confidence            999999999988543  2    456999999999999999999999999999999999999999999986 489999999


Q ss_pred             CCCCHHHHHHHHHHHhCCCCccccccCC--CCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCcc-
Q psy2892         251 MEMSGIQLAMRMLGSVGKLDQHKLRTGR--LSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIG-  327 (452)
Q Consensus       251 ~E~~~~~i~~R~~a~~~~i~~~~i~~g~--l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~-  327 (452)
                      +||+.+++..|+++..++++..++++|.  +++++|.++..+...+...+++|++.+.+++++|++.+++++++++ ++ 
T Consensus       233 lEms~~ql~~R~~~~~~~i~~~~l~~g~~~l~~~~~~~l~~a~~~l~~~~l~i~d~~~~s~~~i~~~ir~l~~~~~-~~~  311 (444)
T 3bgw_A          233 LEMGKKENIKRLIVTAGSINAQKIKAARRDFASEDWGKLSMAIGEISNSNINIFDKAGQSVNYIWSKTRQTKRKNP-GKR  311 (444)
T ss_dssp             SSSCTTHHHHHHHHHHSCCCHHHHHHTGGGTCCSCHHHHHHHHHHHHTSCEEEECCSSCBHHHHHHHHHHHHHHSC-SSC
T ss_pred             CCCCHHHHHHHHHHHHcCCCHHHHhcccCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHHhC-CCC
Confidence            9999999999999999999999999998  9999999999999999888999999989999999999999999986 99 


Q ss_pred             -EEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEE
Q psy2892         328 -VIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILF  406 (452)
Q Consensus       328 -~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~  406 (452)
                       +|||||||.|.......++.+++.++++.||.+|+++|||||+++|+||+.+.|.+++|.++|+|+||+|+|+||+|++
T Consensus       312 ~lIVID~Lq~~~~~~~~~~r~~~i~~i~~~Lk~lAke~~v~vi~lsql~r~~e~r~~krp~lsdlr~Sg~ieq~aD~Vi~  391 (444)
T 3bgw_A          312 VIVMIDYLQLLEPAKANDSRTNQISQISRDLKKMARELDVVVIALSQLSRQVEQRQDKRPMLSDLRESGQLEQDADIIEF  391 (444)
T ss_dssp             EEEEEECSTTSBCSCSSSCHHHHHHHHHHHHHHHHHHHTCEEEEEEECCGGGGGSSCCCCCGGGCCSCSHHHHHCSEEEE
T ss_pred             eEEEEecHHhccCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEEEecCCccccccCCCCCchhhhhhhhhHHhhCCEEEE
Confidence             9999999999865424688889999999999999999999999999999999999999999999999999999999999


Q ss_pred             EecCcccccCCCCCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         407 IYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       407 l~r~~~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      |+|+++|+++.+.++.++|++.|||+|++|++.+.|+++++||.|+
T Consensus       392 L~r~~~~~~~~~~~~~~~l~i~K~R~G~~g~v~l~f~~~~~rf~~~  437 (444)
T 3bgw_A          392 LYRDDYYDKESESKNIVEVIIAKHRDGPVGTVSLAFIKEYGNFVNL  437 (444)
T ss_dssp             CCBGGGTCTTCSSTTEEEEEEEEESSSCCEEEEEEEETTTTEEECC
T ss_pred             EeccccccccccCCCeEEEEEEcccCCCCeEEEEEEEcCccEEecC
Confidence            9999988765556788999999999999999999999999999875

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=100.00  E-value=2.5e-81  Score=638.10  Aligned_cols=433  Identities=44%  Similarity=0.755  Sum_probs=394.7

Q ss_pred             CCCCCCHHHHHHHHHHHhcCcccHHHHHhcC-CCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCH
Q psy2892          13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCL-NSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGL   91 (452)
Q Consensus        13 ~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L-~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~   91 (452)
                      +.||++++||++|||+||.+|+++.++.+.| +|+|||.+.||.||++|.+++.+|+|+|++||..+|++.+.++.+||.
T Consensus         4 ~~~p~~~eaE~~vLg~ll~~~~~~~~v~~~L~~~edFy~~~h~~If~ai~~l~~~~~~iD~~tv~~~L~~~~~l~~~gg~   83 (444)
T 2q6t_A            4 PIPPHSLEAEQSVLGSILLDSDVMDEVEGLLPSPEAFYAEAHRKIYAAMQALRSQGRPVDLVTLSEELSRRGQLEEVGGT   83 (444)
T ss_dssp             -CCCCCHHHHHHHHHHHHHCGGGHHHHHHHCCSGGGCSSHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTTTTTTTHH
T ss_pred             CCCCCCHHHHHHHHHHHHcChhHHHHHHHhcCCHHHcCcHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCChhhcCcH
Confidence            4689999999999999999999999999999 999999999999999999999999999999999999998888999999


Q ss_pred             HHHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHHHHHHhhhhhhhhhccCcccHH
Q psy2892          92 SYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQ  171 (452)
Q Consensus        92 ~~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~~  171 (452)
                      +||.+|+..+|+.+|+++|+++|++++.+|+++..+.++.+.+++ ...+++++++++++.+.++...  ....++.++.
T Consensus        84 ~yl~~L~~~~~s~~n~~~ya~iv~e~~~~R~li~~~~~i~~~~~~-~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~  160 (444)
T 2q6t_A           84 AYLLQLSEATPTAAYAEHYARIVAEKWTLRRLIQAAGEAMRLAYE-EAGSLDEILDTAGKKILEVALT--KTDTEARPMR  160 (444)
T ss_dssp             HHHHHHHHTCSCSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-CCSCHHHHHHHHHHHHHHHHHC--SCCCSSEEHH
T ss_pred             HHHHHHHHcCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc-cccCHHHHHHHHHHHHHHHHhh--ccCCCCccHH
Confidence            999999999999999999999999999999999999999998887 3468999999999999999876  2345678999


Q ss_pred             HHHHHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         172 PLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       172 ~~~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +++.++++.+++..+++   +...++||||+.||+++|||++|++++|+|+||+|||+|++++|.+++...|.+|+|||+
T Consensus       161 ~~~~~~~~~~~~~~~~~---~~~~~i~tG~~~LD~~lgGl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~sl  237 (444)
T 2q6t_A          161 ELVHETFEHIEALFQNK---GEVAGVRTGFKELDQLIGTLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSL  237 (444)
T ss_dssp             HHHHHHHHHTTC-------------CCCSCHHHHHHHCCCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEES
T ss_pred             HHHHHHHHHHHHHHhCC---CCCCcccCCCHhhhhhcCCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEC
Confidence            99999999998765544   467899999999999999999999999999999999999999999998756889999999


Q ss_pred             CCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEE
Q psy2892         252 EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIII  331 (452)
Q Consensus       252 E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvI  331 (452)
                      ||+.+++..|+++..++++..+++.|.+++++|.++..+...+...++++.+.+..++.++++.+++++++++ +++|||
T Consensus       238 E~~~~~l~~R~~~~~~~i~~~~l~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~~s~~~l~~~~~~l~~~~~-~~lIvI  316 (444)
T 2q6t_A          238 EMPAAQLTLRMMCSEARIDMNRVRLGQLTDRDFSRLVDVASRLSEAPIYIDDTPDLTLMEVRARARRLVSQNQ-VGLIII  316 (444)
T ss_dssp             SSCHHHHHHHHHHHHTTCCTTTCCGGGCCHHHHHHHHHHHHHHHTSCEEEECCTTCBHHHHHHHHHHHHHHSC-CCEEEE
T ss_pred             CCCHHHHHHHHHHHHcCCCHHHHhCCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHHcC-CCEEEE
Confidence            9999999999999999999999999999999999999999999888999999999999999999999999886 999999


Q ss_pred             cCcchhccC--C-CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEe
Q psy2892         332 DYLQLMSAN--S-RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIY  408 (452)
Q Consensus       332 D~l~~i~~~--~-~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~  408 (452)
                      |||+.+...  . ...++.+++.++++.||.+|+++|||||+++|++|..+.|.+++|.++|+|+||+|+|+||+|++|+
T Consensus       317 D~l~~~~~~~~~~~~~~r~~~i~~i~~~Lk~lAke~~v~vi~lsql~r~~e~r~~~~p~l~dlr~Sg~ie~~aD~vi~L~  396 (444)
T 2q6t_A          317 DYLQLMSGPGSGKSGENRQQEIAAISRGLKALARELGIPIIALSQLSRAVEARPNKRPMLSDLRESGSIEQDADLVMFIY  396 (444)
T ss_dssp             ECGGGCBCC-------CHHHHHHHHHHHHHHHHHHHTSCEEEEEECCGGGGSSSSCSCCGGGGGGGCTTGGGCSEEEEEE
T ss_pred             cChhhcCCCcCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEEEecCCcccccCCCCCCChHHhcchhHHHHhCCEEEEEe
Confidence            999999864  2 2357888999999999999999999999999999999888899999999999999999999999999


Q ss_pred             cCcccccCCCCCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         409 RDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       409 r~~~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      |+++|+++++.++.++++|.|||+|++|++.+.|+++++||.|+
T Consensus       397 r~~~~~~~~~~~~~~~l~i~K~R~g~~g~~~l~f~~~~~~f~~~  440 (444)
T 2q6t_A          397 RDEYYNPHSEKAGIAEIIVGKQRNGPTGTVELQFHASHVRFNDL  440 (444)
T ss_dssp             EGGGTCSSSSCCSEEEEEEEECSSSCCEEEEEEEETTTTEEECC
T ss_pred             cccccCCcCCCCCeEEEEEEecCCCCceEEEEEEECCccEEecC
Confidence            99988765555688999999999999999999999999999875

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=100.00  E-value=1.5e-78  Score=619.39  Aligned_cols=433  Identities=47%  Similarity=0.838  Sum_probs=393.5

Q ss_pred             CCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHH
Q psy2892          13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLS   92 (452)
Q Consensus        13 ~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~   92 (452)
                      +.||++++||++|||+||.+|+.+.++.+.|+|+|||.+.||.||++|.+++.+|+|+|++||..+|++.+.++.+||.+
T Consensus         8 ~~~p~~~eaE~~vLg~lL~~~~~~~~v~~~L~~edFy~~~h~~If~ai~~l~~~~~~iD~~tv~~~L~~~~~l~~~gg~~   87 (454)
T 2r6a_A            8 RIPPQSIEAEQAVLGAVFLDPAALVPASEILIPEDFYRAAHQKIFHAMLRVADRGEPVDLVTVTAELAASEQLEEIGGVS   87 (454)
T ss_dssp             CCCCCCHHHHHHHHHHHHHCGGGHHHHHHHCCGGGCSSHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHTTCTTTTTHHH
T ss_pred             cCCCCCHHHHHHHHHHHHcChHHHHHHHhcCCHHHcCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCChhhcchHH
Confidence            56899999999999999999999999999999999999999999999999999999999999999999999899999999


Q ss_pred             HHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHHHHHHhhhhhhhhhccCcccHHH
Q psy2892          93 YLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAESKIFSIAEKEICINKGFQQIQP  172 (452)
Q Consensus        93 ~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~  172 (452)
                      ||.+|+..+|+.+|+++|+++|++++.+|+++..+.++.+.+++. ..+++++++++++.+..+....  ...++.++.+
T Consensus        88 yl~~L~~~~~s~ani~~ya~iv~e~~~~R~li~~~~~i~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~  164 (454)
T 2r6a_A           88 YLSELADAVPTAANVEYYARIVEEKSVLRRLIRTATSIAQDGYTR-EDEIDVLLDEADRKIMEVSQRK--HSGAFKNIKD  164 (454)
T ss_dssp             HHHHHHTSCSCGGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSC-CSCSHHHHHHHHHHHHHHHTTS--CCCCCCCHHH
T ss_pred             HHHHHHHcCCCHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-ccCHHHHHHHHHHHHHHHHhcc--ccccCccHHH
Confidence            999999999999999999999999999999999999999988873 4688999999999999998763  3456789999


Q ss_pred             HHHHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         173 LLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       173 ~~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ++.++++.+++..+++   +...++||||+.||+++|||++|++++|+|+||+|||+|+++++.+++...|.+|+|||+|
T Consensus       165 ~~~~~~~~~~~~~~~~---~~~~~i~tG~~~LD~~~gGl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~E  241 (454)
T 2r6a_A          165 ILVQTYDNIEMLHNRD---GEITGIPTGFTELDRMTSGFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSLE  241 (454)
T ss_dssp             HHHHHHHHHHHHHSCC---CCCCSBCCSCHHHHHHHSSBCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEESS
T ss_pred             HHHHHHHHHHHHHhCC---CCCCCCCCCcHHHHhhcCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEECC
Confidence            9999999999887655   5678999999999999999999999999999999999999999999987668899999999


Q ss_pred             CCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEc
Q psy2892         253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIID  332 (452)
Q Consensus       253 ~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID  332 (452)
                      |+..++..|+++..++++..++..|.+++++|.++.++...+...++++.+.+.++++++++.+++++.+++ +++||||
T Consensus       242 ~s~~~l~~r~~~~~~~~~~~~l~~g~l~~~~~~~~~~a~~~l~~~~l~i~d~~~~s~~~i~~~~~~l~~~~~-~~livID  320 (454)
T 2r6a_A          242 MSAQQLVMRMLCAEGNINAQNLRTGKLTPEDWGKLTMAMGSLSNAGIYIDDTPSIRVSDIRAKCRRLKQESG-LGMIVID  320 (454)
T ss_dssp             SCHHHHHHHHHHHHHTCCHHHHHTSCCCHHHHHHHHHHHHHHHSSCEEEECCTTCCHHHHHHHHHHHHTTTC-CCEEEEE
T ss_pred             CCHHHHHHHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCEEEECCCCCCHHHHHHHHHHHHHHcC-CCEEEEc
Confidence            999999999999899999999989999999999999999999888999999888999999999999988886 9999999


Q ss_pred             CcchhccCC-CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         333 YLQLMSANS-RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       333 ~l~~i~~~~-~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                      |++.+.... ...++.+++.++++.||.+|+++|||||+++|++|+.+.|.+++|.++|+|+||.|+|+||.|++|+|++
T Consensus       321 ~l~~~~~~~~~~~~~~~~i~~i~~~Lk~lAke~~i~vi~~sql~r~~e~~~~~~p~lsdlr~Sg~ie~~aD~vi~l~r~~  400 (454)
T 2r6a_A          321 YLQLIQGSGRSKENRQQEVSEISRSLKALARELEVPVIALSQLSRSVEQRQDKRPMMSDIRESGSIEQDADIVAFLYRDD  400 (454)
T ss_dssp             CGGGSCCSCC----CHHHHHHHHHHHHHHHHHHTCCEEEEECCCTTSTTC---CCCTHHHHTTCSHHHHCSEEEEEEETT
T ss_pred             cHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEEEecCCcccccCCCCCCcHHHhhccchhHhhCCEEEEEeccc
Confidence            999998643 2346778899999999999999999999999999999888889999999999999999999999999999


Q ss_pred             ccccCCCCCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         412 VYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       412 ~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      +|+++++.++.+++++.|||+|++|++.+.|++++++|.++
T Consensus       401 ~~~~~~~~~~~~~l~i~K~R~G~~g~v~l~f~~~~~~f~~~  441 (454)
T 2r6a_A          401 YYNKDSENKNIIEIIIAKQRNGPVGTVQLAFIKEYNKFVNL  441 (454)
T ss_dssp             C-------CCEEEEEEEEESSSCCEEEEEEEETTTTEEECC
T ss_pred             ccCcccCCCCeEEEEEecccCCCCeEEEEEEEcCccEEeCC
Confidence            88655445688999999999999999999999999999874

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=100.00  E-value=1.3e-61  Score=469.72  Aligned_cols=280  Identities=40%  Similarity=0.710  Sum_probs=258.5

Q ss_pred             cHHHHHHHHHHHHHHHHh-CCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEE
Q psy2892         169 QIQPLLNRVIKRINKLHN-RGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVA  247 (452)
Q Consensus       169 ~~~~~~~~~~~~i~~~~~-~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl  247 (452)
                      ++.+++.++++.++++++ ++   +...|+||||+.||+++|||++|++++|+|+||+|||+|++++|.+++. .|.+|+
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~~---~~~~gi~TG~~~LD~~~gGl~~G~LiiIaG~pG~GKTt~al~ia~~~a~-~g~~Vl   78 (338)
T 4a1f_A            3 NIKEVLESAMDLITENQRKGS---LEVTGIPTGFVQLDNYTSGFNKGSLVIIGARPSMGKTSLMMNMVLSALN-DDRGVA   78 (338)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTT---TCCCSBCCSCHHHHHHHCSBCTTCEEEEEECTTSCHHHHHHHHHHHHHH-TTCEEE
T ss_pred             cHHHHHHHHHHHHHHHHhcCC---CCcCcccCCChHHHHHhcCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHH-cCCeEE
Confidence            578889999999999887 55   5788999999999999999999999999999999999999999999986 789999


Q ss_pred             EEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCcc
Q psy2892         248 IFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIG  327 (452)
Q Consensus       248 ~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~  327 (452)
                      |||+||+.+++..|+++..++++..+++.|.+++++|.++..+...+.+.++||++.+..++++|++.++++++++|+++
T Consensus        79 ~fSlEms~~ql~~Rlls~~~~v~~~~l~~g~Ls~~e~~~l~~a~~~l~~~~l~I~d~~~~si~~i~~~ir~l~~~~gg~~  158 (338)
T 4a1f_A           79 VFSLEMSAEQLALRALSDLTSINMHDLESGRLDDDQWENLAKCFDHLSQKKLFFYDKSYVRIEQIRLQLRKLKSQHKELG  158 (338)
T ss_dssp             EEESSSCHHHHHHHHHHHHHCCCHHHHHHTCCCHHHHHHHHHHHHHHHHSCEEEECCTTCCHHHHHHHHHHHHHHCTTEE
T ss_pred             EEeCCCCHHHHHHHHHHHhhCCCHHHHhcCCCCHHHHHHHHHHHHHHhcCCeEEeCCCCCcHHHHHHHHHHHHHhcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999983399


Q ss_pred             EEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEE
Q psy2892         328 VIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFI  407 (452)
Q Consensus       328 ~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l  407 (452)
                      +|||||||+|.......++.++++++++.||.+|+++|||||+++|+||+.++|.+++|.++||||||+|||+||+|++|
T Consensus       159 lIVIDyLqlm~~~~~~~~r~~ei~~isr~LK~lAkel~vpVi~lsQl~R~~e~r~dkrP~lsDLreSg~IeqdAD~Vl~l  238 (338)
T 4a1f_A          159 IAFIDYLQLMSGSKATKERHEQIAEISRELKTLARELEIPIIALVQLNRSLENRDDKRPILSDIKDSGGIEQDADIVLFL  238 (338)
T ss_dssp             EEEEEEEECCCTHHHHHHCCCCHHHHHHHHHHHHHHHTSCEEEEEECCGGGGGSSSCSCCGGGSEETTEECCCCSEEEEE
T ss_pred             EEEEechHHhcCCCCCCChHHHHHHHHHHHHHHHHHcCCeEEEEEecCccccccccCCCChHhcccchhhhhhCcEEEEE
Confidence            99999999998643223556679999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCccccc------------CC-C---------------------CCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         408 YRDEVYNQ------------NS-A---------------------DKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       408 ~r~~~~~~------------~~-~---------------------~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      ||+++|++            ++ +                     .+|.++|+|+|||||++|+++|.|+++++||.|+
T Consensus       239 ~R~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eiiiaK~R~G~~g~v~l~f~~~~~~F~~~  317 (338)
T 4a1f_A          239 YRGYIYQMRAEDNKIDKLKKEGKIEEAQELYLKVNEERRIHKQNGSIEEAEIIVAKNRNGATGTVYTRFNAPFTRYEDM  317 (338)
T ss_dssp             ECHHHHHHHHHHHHHHHHHGGGCHHHHHHHHHHHHHHHHHHHHTTSEEEEEEEEEEETTSCCEEEEEEEEGGGTEECCC
T ss_pred             ecchhcccccccccccccccccccccccchhhhhhhhhcccccccCCCceEEEEEeccCCCCceEEEEEccccceeccc
Confidence            99999865            32 1                     2678999999999999999999999999999885

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=100.00  E-value=1.6e-56  Score=435.14  Aligned_cols=303  Identities=36%  Similarity=0.643  Sum_probs=257.9

Q ss_pred             cchHHHHHHHHHHHHhhhhhhhhhccCcccHHHHHHHHHHHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEE
Q psy2892         140 KEVKQILDEAESKIFSIAEKEICINKGFQQIQPLLNRVIKRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIV  219 (452)
Q Consensus       140 ~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i  219 (452)
                      .+++++++++++.+.++....  ...++.++.+++.++++.+++.   +   +...++||||+.||+++|||++|++++|
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~---~---~~~~~i~TG~~~LD~~lgGl~~G~l~li   73 (315)
T 3bh0_A            2 SGPVKPIQEAVSELMEIEASG--TDDDDGSIDEALVTVYEEIESA---D---GNITGVPSGFTELDRMTYGYKRRNFVLI   73 (315)
T ss_dssp             --------------------------CCCCCHHHHHHHHHHHHTC---S---SSCCSBCCSCHHHHHHHSSBCTTCEEEE
T ss_pred             CCHHHHHHHHHHHHHHHHhcc--CCCCcccHHHHHHHHHHHHHhc---c---CCCCCccCChHHHHhhcCCCCCCcEEEE
Confidence            467888999999999987763  3356778999999999998854   2   3567999999999999999999999999


Q ss_pred             EeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCC--CCcchHHHHHHHHHHHhCC
Q psy2892         220 AGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGR--LSSDDWPRINDSIKKINKS  297 (452)
Q Consensus       220 ~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~--l~~~~~~~~~~a~~~l~~~  297 (452)
                      +|+||+|||+|++|+|.+++. +|.+|+|||+||+.+++..|+++..++++..++..|.  +++++|.++..+...+...
T Consensus        74 ~G~pG~GKTtl~l~ia~~~a~-~g~~vl~~slE~s~~~l~~R~~~~~~~i~~~~l~~~~~~l~~~~~~~l~~a~~~l~~~  152 (315)
T 3bh0_A           74 AARPSMGKTAFALKQAKNMSD-NDDVVNLHSLEMGKKENIKRLIVTAGSINAQKIKAARRDFASEDWGKLSMAIGEISNS  152 (315)
T ss_dssp             ECCTTSSHHHHHHHHHHHHHT-TTCEEEEEESSSCHHHHHHHHHHHHTTCCHHHHHSCHHHHCSSCHHHHHHHHHHHHTS
T ss_pred             EeCCCCCHHHHHHHHHHHHHH-cCCeEEEEECCCCHHHHHHHHHHHHcCCCHHHHhcCCCCCCHHHHHHHHHHHHHHhCC
Confidence            999999999999999999985 5789999999999999999999999999999998888  9999999999999999888


Q ss_pred             CeEEEcCCCCCHHHHHHHHHHHHHHcCCcc--EEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCC
Q psy2892         298 QLYIDETPSLNVIELRANSRRLSRQCGKIG--VIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLN  375 (452)
Q Consensus       298 ~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~--~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~  375 (452)
                      ++++.+.+..++++|++.+++++++++ ++  +||||||+.|.......++.+++..+++.||.+|+++|||||+++|++
T Consensus       153 ~i~i~d~~~~~~~~i~~~i~~l~~~~~-~~~~lVVID~l~~l~~~~~~~~r~~~i~~~~~~Lk~lAk~~~i~vi~lsql~  231 (315)
T 3bh0_A          153 NINIFDKAGQSVNYIWSKTRQTKRKNP-GKRVIVMIDYLQLLEPAKANDSRTNQISQISRDLKKMARELDVVVIALSQLS  231 (315)
T ss_dssp             CEEEECCSCCBHHHHHHHHHHHHHTSS-SCCEEEEEECGGGSBCSCTTSCHHHHHHHHHHHHHHHHHHHTCEEEEEECCC
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhcC-CCCeEEEEeCchhcCCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEEEeecC
Confidence            999999888999999999999998886 89  999999999986543467888999999999999999999999999999


Q ss_pred             cchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeeccCCCcceEEEEEEcCccceecC
Q psy2892         376 RSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFNNF  452 (452)
Q Consensus       376 r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~~~  452 (452)
                      |..+.|.+++|.++|+++|+.|+|+||+|++|+|+++|+++.+.++.++|++.|||+|++|++.+.|++++++|.++
T Consensus       232 r~~e~r~~~~p~l~dlr~sg~ie~~aD~vi~L~r~~~~~~~~~~~~~~~l~v~K~R~G~~g~~~l~f~~~~~~f~~~  308 (315)
T 3bh0_A          232 RQVEQRQDKRPMLSDLRESGQLEQDADIIEFLYRDDYYDKESESKNIVEVIIAKHRDGPVGTVSLAFIKEYGNFVNL  308 (315)
T ss_dssp             GGGTTSSSCCCCGGGGTTTSHHHHHCSEEEEEEEHHHHCTTCTTTTEEEEEEEEETTSCCEEEEEEEEGGGTEEEEC
T ss_pred             cccccCCCCCCCHHHhhhhhhhHhhCCEEEEEecccccCccccCCCcEEEEEECCcCCCCceEEEEEECCCCeEecC
Confidence            99988899999999999999999999999999999988765555778999999999999999999999999999874

>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=100.00  E-value=5.6e-44  Score=369.21  Aligned_cols=297  Identities=18%  Similarity=0.245  Sum_probs=239.7

Q ss_pred             CcchHHHHHHHHH-HHHhhhhhh-hhhccCcccHHHHHHHHHHHHHHHHhCCCCCCCcccccc-CccccccccCCCCCCc
Q psy2892         139 GKEVKQILDEAES-KIFSIAEKE-ICINKGFQQIQPLLNRVIKRINKLHNRGTNDNDVTGIST-GFFELDKITSGLQPGD  215 (452)
Q Consensus       139 ~~~~~~~l~~~~~-~l~~l~~~~-~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~i~t-g~~~LD~~~gG~~~G~  215 (452)
                      +.|+++++.+... .+.++.... .....++.+..+.    ++.+++++..    ....+++| |++.||+++||+++|+
T Consensus       172 ~kD~nd~l~~~g~~~~~~~i~~a~~~~~~~i~~~~~~----~~~i~~~~~~----~~~~~i~t~G~~~LD~~lgGl~~G~  243 (503)
T 1q57_A          172 CKDANECHLNGHDREIMEQVWNAGPWIPDGVVSALSL----RERIREHLSS----EESVGLLFSGCTGINDKTLGARGGE  243 (503)
T ss_dssp             SSSHHHHHTTSCHHHHHHHHTTCCCCCCSSEEEGGGG----HHHHHHHHHH----SCTTCSCCSSCTTHHHHHCCCCTTC
T ss_pred             CCCHHHHHHhcCHHHHHHHHHhcCCCCHHHhcChHHH----HHHHHhhhcc----cccCCccccchhhhhHhhcccCCCe
Confidence            5788887754221 222222221 1111233333333    3444444432    25669999 9999999999999999


Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccc---cccCCCCcchHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHK---LRTGRLSSDDWPRINDSIK  292 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~---i~~g~l~~~~~~~~~~a~~  292 (452)
                      +++|+|+||+|||+|++|+|.+++.+.|.+|+|||+||+.+++..|+++..++++..+   +..|.+++++|.++.+++ 
T Consensus       244 l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~E~s~~~l~~r~~~~~~~~~~~~~~~~~~g~l~~~~~~~~~~~~-  322 (503)
T 1q57_A          244 VIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAMLEESVEETAEDLIGLHNRVRLRQSDSLKREIIENGKFDQWFDEL-  322 (503)
T ss_dssp             EEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEESSSCHHHHHHHHHHHHTTSCCTTCHHHHHHHHHTSHHHHHHHHH-
T ss_pred             EEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEeccCCHHHHHHHHHHHHcCCChhhccccccCCCCHHHHHHHHHHH-
Confidence            9999999999999999999999986448999999999999999999999999999875   667778888888766554 


Q ss_pred             HHhCCCeEEEcCC-CCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEE
Q psy2892         293 KINKSQLYIDETP-SLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL  371 (452)
Q Consensus       293 ~l~~~~l~i~~~~-~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l  371 (452)
                       +...++++.+.+ ..+++++.+.+++++++++ +++||||||+.+.......++.+++.++++.|+.+|+++|||||++
T Consensus       323 -~~~~~l~i~~~~~~~~~~~i~~~i~~~~~~~~-~~lvVID~l~~l~~~~~~~~~~~~~~~~~~~Lk~lak~~~i~vi~~  400 (503)
T 1q57_A          323 -FGNDTFHLYDSFAEAETDRLLAKLAYMRSGLG-CDVIILDHISIVVSASGESDERKMIDNLMTKLKGFAKSTGVVLVVI  400 (503)
T ss_dssp             -HTTTCEEEECCC---CHHHHHHHHHHHHHTTC-CSEEEEECTTCCCSCCSCCCHHHHHHHHHHHHHHHHHHHTCEEEEE
T ss_pred             -hccCCEEEECCCCCCCHHHHHHHHHHHHHhcC-CCEEEEccchhcCCCCCCCCHHHHHHHHHHHHHHHHHHHCCeEEEE
Confidence             456789998765 4899999999999998886 9999999999997654345788899999999999999999999999


Q ss_pred             ecCCcchhhc----CCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeecc-CCCcceE-EEEEEcC
Q psy2892         372 SQLNRSLEQR----QNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR-NGPIGNI-RLTFSGQ  445 (452)
Q Consensus       372 ~ql~r~~~~r----~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~KnR-~G~~g~~-~l~f~~~  445 (452)
                      +|++| .+++    .+++|.++|+++|+.|+|+||+||+|+|++..    +.++.++|++.||| +|++|++ .+.|+++
T Consensus       401 ~q~~r-~~~~~~~~~~~~p~l~dlr~s~~ie~~aD~vi~l~r~~~~----~~~~~~~l~v~K~R~~G~~g~~~~l~f~~~  475 (503)
T 1q57_A          401 CHLKN-PDKGKAHEEGRPVSITDLRGSGALRQLSDTIIALERNQQG----DMPNLVLVRILKCRFTGDTGIAGYMEYNKE  475 (503)
T ss_dssp             EECCC-CSSSSCSTTCCCCCSSSCSSSSHHHHHCSEEEEEEECSSS----SCTTEEEEEEEEETTTCCCEEEEEEEECTT
T ss_pred             EcCCc-hhccCccccCCCCChhhhccchHhhecCcEEEEEEeCCcC----CCCCeEEEEEEeccCCCCCCceEEEEEEcC
Confidence            99999 4444    37899999999999999999999999998643    12468999999999 7999997 9999999


Q ss_pred             ccceec
Q psy2892         446 YTKFNN  451 (452)
Q Consensus       446 ~~~f~~  451 (452)
                      +++|.+
T Consensus       476 ~~~f~~  481 (503)
T 1q57_A          476 TGWLEP  481 (503)
T ss_dssp             TCCEEE
T ss_pred             CceEec
Confidence            999976

>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=100.00  E-value=2.9e-36  Score=290.77  Aligned_cols=264  Identities=19%  Similarity=0.274  Sum_probs=190.2

Q ss_pred             HHHHHHHHhCCCCCCCcccccc-CccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         178 IKRINKLHNRGTNDNDVTGIST-GFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       178 ~~~i~~~~~~~~~~~~~~~i~t-g~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      ++.+++..+..    ...+++| |++.||.+.+|+++|++++|+|+||+|||||+.+++...+...|.+|+|++.|++..
T Consensus         2 ~~~l~~~~~~~----~~~~i~t~g~~~Ld~i~~~l~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~~e~~~~   77 (296)
T 1cr0_A            2 RERIREHLSSE----ESVGLLFSGCTGINDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEESVE   77 (296)
T ss_dssp             HHHHHHHHHHC----CCCCBCCCSCTTHHHHHCSBCTTCEEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEESSSCHH
T ss_pred             hhHhhhhhccC----CcCCcccCCHHHHHHHhcCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEeCcCCHH
Confidence            34555554443    5679999 999999999999999999999999999999999999999865577999999999999


Q ss_pred             HHHHHHHHHhCCCCccc---cccCCCCcchHHHHHHHHHHHhCCCeEEEcC-CCCCHHHHHHHHHHHHHHcCCccEEEEc
Q psy2892         257 QLAMRMLGSVGKLDQHK---LRTGRLSSDDWPRINDSIKKINKSQLYIDET-PSLNVIELRANSRRLSRQCGKIGVIIID  332 (452)
Q Consensus       257 ~i~~R~~a~~~~i~~~~---i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~-~~~t~~~i~~~i~~~~~~~~~~~~vvID  332 (452)
                      ++..|+.+...+++...   +..+.++++++.+....  .+...++++.+. ...++.++++.++.+...++ +++||||
T Consensus        78 ~~~~r~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~--~l~~~~l~i~~~~~~~~~~~l~~~~~a~~~~~~-p~llilD  154 (296)
T 1cr0_A           78 ETAEDLIGLHNRVRLRQSDSLKREIIENGKFDQWFDE--LFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLG-CDVIILD  154 (296)
T ss_dssp             HHHHHHHHHHTTCCGGGCHHHHHHHHHHTHHHHHHHH--HHSSSCEEEECCCCSCCHHHHHHHHHHHHHTTC-CSEEEEE
T ss_pred             HHHHHHHHHHcCCChhhccccccCCCCHHHHHHHHHH--HhccCCEEEECCCCCCCHHHHHHHHHHHHHhcC-CCEEEEc
Confidence            99999988877776532   22233344444432221  234457888876 56889999988886666675 9999999


Q ss_pred             CcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchh---hcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         333 YLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLE---QRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       333 ~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~---~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      +++.+.......++...+..+++.|+.+|+++|++||+++|.+|..+   .+.+++|.++|++||+.+++.||.|++|++
T Consensus       155 ept~~~~~~~~~d~~~~~~~i~~~L~~la~~~~~~vi~vsh~~r~~~~~~~~~~~~p~l~dl~~s~~i~~~aD~vi~L~~  234 (296)
T 1cr0_A          155 HISIVVSASGESDERKMIDNLMTKLKGFAKSTGVVLVVICHLKNPDKGKAHEEGRPVSITDLRGSGALRQLSDTIIALER  234 (296)
T ss_dssp             EEC-----------CHHHHHHHHHHHHHHHHHCCEEEEEEECC-----------------CCC---CHHHHCSEEEEEEE
T ss_pred             CccccCCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEEEEecCccccccccccCCCCCHHHhcccHHhHhhCcEEEEEec
Confidence            99997643211234367789999999999999999999999986221   245789999999999999999999999998


Q ss_pred             CcccccCCCCCCeEEEEEeecc-CCCcceE-EEEEEcCccceecC
Q psy2892         410 DEVYNQNSADKGIAEIIVSKQR-NGPIGNI-RLTFSGQYTKFNNF  452 (452)
Q Consensus       410 ~~~~~~~~~~~~~~~l~i~KnR-~G~~g~~-~l~f~~~~~~f~~~  452 (452)
                      .+.+.    .++.+++++.||| +|++|.+ .+.|++.+++|.+.
T Consensus       235 ~~~~~----~~~~~~l~i~K~R~~g~~g~~~~~~f~~~~~~f~~~  275 (296)
T 1cr0_A          235 NQQGD----MPNLVLVRILKCRFTGDTGIAGYMEYNKETGWLEPS  275 (296)
T ss_dssp             C-----------CEEEEEEEETTTCCCEEEEEEEECTTTCCEEEC
T ss_pred             CcccC----CCCeEEEEEEccccCCCCCceEEEEEEcCccEEecC
Confidence            86531    2457899999999 6999997 99999999999863

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=100.00  E-value=2.8e-32  Score=255.78  Aligned_cols=226  Identities=17%  Similarity=0.180  Sum_probs=166.3

Q ss_pred             CccccccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCc
Q psy2892         193 DVTGISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQ  271 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~  271 (452)
                      ++.++|||++.||+++ ||+++|++++|+|+||+|||+||+|+|.+.+.+.+.+|+|+|+||+++++..|+.+..  .+.
T Consensus         8 ~i~ri~TGi~~LD~~l~GGl~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~E~~~~~~~~~~~~~~--~~~   85 (251)
T 2zts_A            8 PVRRVKSGIPGFDELIEGGFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLEERARDLRREMASFG--WDF   85 (251)
T ss_dssp             CCCEECCSCTTTGGGTTTSEETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHHHHHTTT--CCH
T ss_pred             CCCeecCCcHHHHHhhcCCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecccCCHHHHHHHHHHcC--CCh
Confidence            5779999999999986 7999999999999999999999999999987767899999999999999999987643  333


Q ss_pred             cc-cccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHH
Q psy2892         272 HK-LRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEI  350 (452)
Q Consensus       272 ~~-i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~  350 (452)
                      .. +..+.+...++......   .. ....+......+.+++.+.++++...++ ++++|||+++.+....   .+...+
T Consensus        86 ~~~~~~~~~~~~d~~~~~~~---~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~vviD~~~~l~~~~---~~~~~~  157 (251)
T 2zts_A           86 EKYEKEGKIAIVDGVSSVVG---LP-SEEKFVLEDRFNVDNFLRYIYRVVKAIN-AKRLVIDSIPSIALRL---EEERKI  157 (251)
T ss_dssp             HHHHHTTSEEEEC-----------------------CCHHHHHHHHHHHHHHTT-CSEEEEECHHHHHHHS---SSGGGH
T ss_pred             HHHHhcCcchhhhhHHHHhh---cc-cchhccccccccHHHHHHHHHHHHHhcC-CcEEEEEcHHHHhhhc---cChHHH
Confidence            22 23344433333211111   00 0111222345678889999999888886 9999999999887543   223456


Q ss_pred             HHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeec
Q psy2892         351 SEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQ  430 (452)
Q Consensus       351 ~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~Kn  430 (452)
                      .++++.|+.+|+++||++++++|+++         |..+++++++.+++.||.|+.|++.+..     ....+.+.|.|+
T Consensus       158 ~~~~~~L~~~a~~~~i~vi~~~q~~~---------~~~~~~~~~~~~~~~aD~vi~l~~~~~~-----~~~~R~l~I~K~  223 (251)
T 2zts_A          158 REVLLKLNTILLEMGVTTILTTEAPD---------PQHGKLSRYGIEEFIARGVIVLDLQEKN-----IELKRYVLIRKM  223 (251)
T ss_dssp             HHHHHHHHHHHHHHCCEEEEEECCC-------------CCSSSSSCGGGGCSEEEEEEEEECS-----SSEEEEEEEEEE
T ss_pred             HHHHHHHHHHHHHcCCCeEEEEEEec---------ccccccccCCceeEEeeEEEEEEEEecC-----CeEEEEEEEEEc
Confidence            78899999999999999999999875         4556788999999999999999987543     233567999999


Q ss_pred             cCCCcceEEEEE
Q psy2892         431 RNGPIGNIRLTF  442 (452)
Q Consensus       431 R~G~~g~~~l~f  442 (452)
                      |+|+.+...+.|
T Consensus       224 R~~~~~~~~~~f  235 (251)
T 2zts_A          224 RETRHSMKKYPF  235 (251)
T ss_dssp             TTCCCCCBEEEE
T ss_pred             CCCCCCCEEEEE
Confidence            999865543334

>2r5u_A Replicative DNA helicase; DNAB, primase, replication, ATP-binding, autocatal cleavage, DNA replication, DNA-binding, endonuclease; 1.90A {Mycobacterium tuberculosis}

Probab=99.97  E-value=3.1e-31  Score=238.95  Aligned_cols=172  Identities=31%  Similarity=0.626  Sum_probs=137.5

Q ss_pred             CCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHH
Q psy2892          13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLS   92 (452)
Q Consensus        13 ~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~   92 (452)
                      +.+|++++||++|||+||.+|+.+.++.+.|+|+|||.+.||.||++|.+|+.+|+|+|++||..+|.+.+.++.+||..
T Consensus        25 ~~~P~~~eAEqaVLG~lL~d~~~~~~v~~~L~~edFy~~~H~~If~ai~~L~~~g~piD~vtv~~~L~~~~~l~~vGG~~  104 (200)
T 2r5u_A           25 RQPPQDLAAEQSVLGGMLLSKDAIADVLERLRPGDFYRPAHQNVYDAILDLYGRGEPADAVTVAAELDRRGLLRRIGGAP  104 (200)
T ss_dssp             -CCSCCHHHHHHHHHHHHHCHHHHHHHHTTCCTTCCSSHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHTTCHHHHTCHH
T ss_pred             cCCCCCHHHHHHHHHHHHcCHhhHHHHhccCCHHHcCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCchhhcCcHH
Confidence            56899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc-CcchHHHHHHHHHHHHhhhhhhhhhccCcccHH
Q psy2892          93 YLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISR-GKEVKQILDEAESKIFSIAEKEICINKGFQQIQ  171 (452)
Q Consensus        93 ~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~l~~l~~~~~~~~~~~~~~~  171 (452)
                      ||.+|+..+|+.+|+.+|+++|++++.+|+++..+.++.+.++++. +.+++++++++++.+++++..  ....++.++.
T Consensus       105 yL~~L~~~~~s~ani~~Ya~iV~e~~~~R~li~~~~~i~~~a~~~~~~~~~~~~ld~ae~~l~~i~~~--~~~~~~~~i~  182 (200)
T 2r5u_A          105 YLHTLISTVPTAANAGYYASIVAEKALLRRLVEAGTRVVQYGYAGAEGADVAEVVDRAQAEIYDVADR--RLSEDFVALE  182 (200)
T ss_dssp             HHHHHHTTCSSGGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSTTCCHHHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCccCCCHHHHHHHHHHHHHHHHhh--ccCCCcccHH
Confidence            9999999999999999999999999999999999999999988744 368999999999999999876  3345788899


Q ss_pred             HHHHHHHHHHHHHHh
Q psy2892         172 PLLNRVIKRINKLHN  186 (452)
Q Consensus       172 ~~~~~~~~~i~~~~~  186 (452)
                      +++.++++.|+++.+
T Consensus       183 ~~l~~~~~~ie~~~~  197 (200)
T 2r5u_A          183 DLLQPTMDEIDAIAS  197 (200)
T ss_dssp             ---------------
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999986643

>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=99.95  E-value=7.1e-28  Score=236.71  Aligned_cols=220  Identities=17%  Similarity=0.182  Sum_probs=160.3

Q ss_pred             CccccccCcccccccc--CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCC
Q psy2892         193 DVTGISTGFFELDKIT--SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLD  270 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~~--gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~  270 (452)
                      ...++|||++.||.++  |||++|++++|+|+||+|||+|+++++.+++. .|.+|+||++|++..++.    +...|++
T Consensus        51 ~~~~i~TG~~~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~~~~-~g~~vlyi~~E~s~~~~~----a~~~g~d  125 (366)
T 1xp8_A           51 DVQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQK-AGGTCAFIDAEHALDPVY----ARALGVN  125 (366)
T ss_dssp             CCCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHH-TTCCEEEEESSCCCCHHH----HHHTTCC
T ss_pred             cCceecCCCHHHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHHHHH-CCCeEEEEECCCChhHHH----HHHcCCC
Confidence            4568999999999985  59999999999999999999999999999975 688999999999987764    2234554


Q ss_pred             ccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCC-----C-
Q psy2892         271 QHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRG-----E-  344 (452)
Q Consensus       271 ~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~-----~-  344 (452)
                      ..                         ++++.+.  .+.+++.+.++++.+..+ +++|||||++.+......     + 
T Consensus       126 ~~-------------------------~l~i~~~--~~~e~~l~~l~~l~~~~~-~~lVVIDsl~~l~~~~e~~g~~gd~  177 (366)
T 1xp8_A          126 TD-------------------------ELLVSQP--DNGEQALEIMELLVRSGA-IDVVVVDSVAALTPRAEIEGDMGDS  177 (366)
T ss_dssp             GG-------------------------GCEEECC--SSHHHHHHHHHHHHTTTC-CSEEEEECTTTCCCSTTC-------
T ss_pred             HH-------------------------HceeecC--CcHHHHHHHHHHHHhcCC-CCEEEEeChHHhccccccccccccc
Confidence            32                         2344432  367888888888877665 999999999998742111     1 


Q ss_pred             ---CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcC--CCCCCchhhhhhchhhhhhceeEEEecCcc-cccCCC
Q psy2892         345 ---NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQ--NKRPIMSDLRESGAIEQDADVILFIYRDEV-YNQNSA  418 (452)
Q Consensus       345 ---~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~--~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~-~~~~~~  418 (452)
                         .....+..+++.|+.+|+++||+||+++|+++..+.+.  ..+|     .+++.++++||++++|+|.+. +...+.
T Consensus       178 ~~~~~~r~~~~~lr~L~~~a~~~~~~VI~~nq~~~~~~~~fg~p~~~-----~gg~al~~~a~~rl~L~r~~~~~k~~~~  252 (366)
T 1xp8_A          178 LPGLQARLMSQALRKLTAILSKTGTAAIFINQVREKIGVMYGNPETT-----TGGRALKFYASVRLDVRKIGQPTKVGND  252 (366)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHTTTCCEEEEEEEC--------------------CHHHHHHHCSEEEEEEEESCCC-----
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHcCCEEEEEEecccccCcccCCcccc-----CCcchhhheeeEEEEEEecchhcccCcc
Confidence               12345788999999999999999999999998664331  1233     357889999999999999875 432111


Q ss_pred             -CCCeEEEEEeeccCCCc---ceEEEEEEcCcccee
Q psy2892         419 -DKGIAEIIVSKQRNGPI---GNIRLTFSGQYTKFN  450 (452)
Q Consensus       419 -~~~~~~l~i~KnR~G~~---g~~~l~f~~~~~~f~  450 (452)
                       ..+.+++.|.|||+|++   +.+.+.|.....+|.
T Consensus       253 ~~g~~~~v~v~Knr~~p~~~~~~f~i~~~~Gi~~~~  288 (366)
T 1xp8_A          253 AVANTVKIKTVKNKVAAPFKEVELALVYGKGFDQLS  288 (366)
T ss_dssp             -CEEEEEEEEEEESSSCCCCEEEEEEETTTEECHHH
T ss_pred             ccCCEEEEEEEcCCCCCCCceEEEEEEeCCCcccch
Confidence             12468999999999986   345666666665554

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=99.95  E-value=9.5e-28  Score=270.73  Aligned_cols=232  Identities=21%  Similarity=0.213  Sum_probs=179.4

Q ss_pred             HHHHHHHHHHHHHHHhCCC-------CCCCccccccCcccccccc--CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh
Q psy2892         171 QPLLNRVIKRINKLHNRGT-------NDNDVTGISTGFFELDKIT--SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE  241 (452)
Q Consensus       171 ~~~~~~~~~~i~~~~~~~~-------~~~~~~~i~tg~~~LD~~~--gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~  241 (452)
                      .+++..+++.|++.+..+.       ......+++||++.||+++  ||+++|++++|+|+||+|||+|++++|.+++. 
T Consensus       680 ~~~l~~~~~~ie~~~~~g~~~~l~~~~~~~~~~i~TG~~eLD~lLg~GGl~~G~lVlI~G~PG~GKTtLal~lA~~aa~-  758 (1706)
T 3cmw_A          680 QKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR-  758 (1706)
T ss_dssp             HHHHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHhccCCcccccccccccccccccCcHHHHHHhccCCcCCCceEEEECCCCCCcHHHHHHHHHHHHH-
Confidence            3567777888887654210       0024678999999999996  59999999999999999999999999999985 


Q ss_pred             CCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHH
Q psy2892         242 NKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSR  321 (452)
Q Consensus       242 ~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~  321 (452)
                      .|.+|+|||+||+..++.    +...|++..                         ++++.+.  .+++++.+.++++++
T Consensus       759 ~g~~VlyiS~Ees~~ql~----A~~lGvd~~-------------------------~L~i~~~--~~leei~~~l~~lv~  807 (1706)
T 3cmw_A          759 EGKTCAFIDAEHALDPIY----ARKLGVDID-------------------------NLLCSQP--DTGEQALEICDALAR  807 (1706)
T ss_dssp             TTCCEEEECTTSCCCHHH----HHHTTCCGG-------------------------GCEEECC--SSHHHHHHHHHHHHH
T ss_pred             cCCCeEEEeccchHHHHH----HHHcCCChh-------------------------heEEecC--CcHHHHHHHHHHHHH
Confidence            688999999999998874    444566542                         2455543  378899999999888


Q ss_pred             HcCCccEEEEcCcchhcc-----CCCCC----CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhh
Q psy2892         322 QCGKIGVIIIDYLQLMSA-----NSRGE----NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLR  392 (452)
Q Consensus       322 ~~~~~~~vvID~l~~i~~-----~~~~~----~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~  392 (452)
                      +++ +++|||||++.+..     ...+.    .....+..+++.|+.+|+++|++||+++|+++..+.+.+ +|.  .-.
T Consensus       808 ~~~-~~lVVIDsLq~l~~~~e~~~~~G~~~~~~q~reis~~Lr~Lk~lAke~gi~VIlinql~r~~g~~~G-dp~--~p~  883 (1706)
T 3cmw_A          808 SGA-VDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFG-NPE--TTT  883 (1706)
T ss_dssp             HTC-CSEEEESCSTTCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHHHTCEEEEEECEEECTTCCSS-CCE--EES
T ss_pred             ccC-CCEEEEechhhhccccccccccCccchhHHHHHHHHHHHHHHHHHHHcCCEEEEEecCCCccccccC-Ccc--ccC
Confidence            886 99999999999874     11111    244568888999999999999999999999987655432 221  122


Q ss_pred             hhchhhhhhceeEEEecCcccccCCCCC-CeEEEEEeeccCCCcceE
Q psy2892         393 ESGAIEQDADVILFIYRDEVYNQNSADK-GIAEIIVSKQRNGPIGNI  438 (452)
Q Consensus       393 ~S~~ie~~aD~vl~l~r~~~~~~~~~~~-~~~~l~i~KnR~G~~g~~  438 (452)
                      +|+.|+|+||++++++|+++|++.+... +.++++++|||+|+++..
T Consensus       884 gs~~Leq~ADvvl~L~R~~~~~~g~~~~g~~r~l~V~KnR~gp~~~~  930 (1706)
T 3cmw_A          884 GGNALKFYASVRLDIRRIGAVKEGENVVGSETRVKVVKNKIAAPFKQ  930 (1706)
T ss_dssp             SCSHHHHHEEEEEEEEEEEEEEETTEEEEEEEEEEEEEESSSCSCCE
T ss_pred             CcchhhheeeEEEEEEecccccccccccCcEEEEEEEecCCCCCCce
Confidence            5899999999999999998775322222 378999999999998863

>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=99.94  E-value=8.2e-26  Score=221.42  Aligned_cols=212  Identities=20%  Similarity=0.220  Sum_probs=153.5

Q ss_pred             CccccccCcccccccc--CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCC
Q psy2892         193 DVTGISTGFFELDKIT--SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLD  270 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~~--gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~  270 (452)
                      ...++|||++.||.++  |||++|.+++|+|+||+|||+||++++.+++. .|.+|+||++|++.++..    +...|++
T Consensus        40 ~~~~i~TG~~~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~~~~-~g~~vlyid~E~s~~~~~----a~~~g~~  114 (356)
T 1u94_A           40 DVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR-EGKTCAFIDAEHALDPIY----ARKLGVD  114 (356)
T ss_dssp             CCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHH-TTCCEEEEESSCCCCHHH----HHHTTCC
T ss_pred             cCCcccCCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHH-CCCeEEEEeCCCCccHHH----HHHcCCC
Confidence            4568999999999985  69999999999999999999999999999975 688999999999876553    2234544


Q ss_pred             ccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC----C-CC-
Q psy2892         271 QHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS----R-GE-  344 (452)
Q Consensus       271 ~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~----~-~~-  344 (452)
                      ..                         ++++.+.  .+.+++.+.++.+.+..+ +++||||+++.+....    . ++ 
T Consensus       115 ~~-------------------------~l~i~~~--~~~e~~~~~~~~l~~~~~-~~lVVIDsl~~l~~~~e~~~~~g~~  166 (356)
T 1u94_A          115 ID-------------------------NLLCSQP--DTGEQALEICDALARSGA-VDVIVVDSVAALTPKAEIEGEIGDS  166 (356)
T ss_dssp             GG-------------------------GCEEECC--SSHHHHHHHHHHHHHHTC-CSEEEEECGGGCCCHHHHTTC----
T ss_pred             hh-------------------------heeeeCC--CCHHHHHHHHHHHHhccC-CCEEEEcCHHHhcchhhhccccccc
Confidence            32                         2334332  357888888888877775 9999999999987411    0 01 


Q ss_pred             ---CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhc--CCCCCCchhhhhhchhhhhhceeEEEecCcccccCCC-
Q psy2892         345 ---NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQR--QNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSA-  418 (452)
Q Consensus       345 ---~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r--~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~-  418 (452)
                         .....+..+++.|+.+++++||+||+++|+++..+.+  ...+|.     ++..++++||+++.++|.+++..... 
T Consensus       167 ~~~~q~r~~~~~l~~L~~~a~~~~~~VI~~nq~~~~~~~~fg~~~~~~-----gG~~l~~~advrl~l~r~~~~k~g~~~  241 (356)
T 1u94_A          167 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNPETTT-----GGNALKFYASVRLDIRRIGAVKEGENV  241 (356)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHTCEEEEEEC--------------CT-----TCSHHHHHCSEEEEEEEEEEEESSSSE
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHhCCEEEEEeccccccCcccCCCcccC-----CCcceeeeccEEEEEEEeeeeccCccc
Confidence               1223578889999999999999999999999875443  123342     34579999999999999876532111 


Q ss_pred             CCCeEEEEEeeccCCC-cceEEEEE
Q psy2892         419 DKGIAEIIVSKQRNGP-IGNIRLTF  442 (452)
Q Consensus       419 ~~~~~~l~i~KnR~G~-~g~~~l~f  442 (452)
                      ..+.+.+.|.|||+++ .+.+.|..
T Consensus       242 ~g~~~~~~i~K~r~~p~~~~~~f~i  266 (356)
T 1u94_A          242 VGSETRVKVVKNKIAAPFKQAEFQI  266 (356)
T ss_dssp             EEEEEEEEEEEESSBCSCCEEEEEE
T ss_pred             cCcEEEEEECCCccCCCCCcEEEEE
Confidence            1256899999999998 56666554

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=99.94  E-value=1.5e-26  Score=263.33  Aligned_cols=240  Identities=20%  Similarity=0.216  Sum_probs=178.7

Q ss_pred             HHHHHHHHHHHHHHhCCC-------CCCCccccccCcccccccc--CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC
Q psy2892         172 PLLNRVIKRINKLHNRGT-------NDNDVTGISTGFFELDKIT--SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN  242 (452)
Q Consensus       172 ~~~~~~~~~i~~~~~~~~-------~~~~~~~i~tg~~~LD~~~--gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~  242 (452)
                      .++..+++.+++.+..+.       ......++|||++.||+++  ||+++|++++|+|+||+|||+|+++++.+++. .
T Consensus       332 ~~l~~a~~~i~~~~g~~~~~~l~~~~~~~~~~I~TG~~~LD~lLG~GGl~~G~lilI~G~pGsGKTtLaLqia~~~a~-~  410 (2050)
T 3cmu_A          332 KALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR-E  410 (2050)
T ss_dssp             HHHHHHHHHHHHHHCTTSEEEGGGCTTTSCCEECCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHT-T
T ss_pred             HHHHHHHHHHHHhhCcCcceecccccccCCceeeCCCHHHHHHhccCCccCCcEEEEEeCCCCCHHHHHHHHHHHHHh-c
Confidence            355667777776653220       0124678999999999996  59999999999999999999999999999974 6


Q ss_pred             CCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHH
Q psy2892         243 KLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQ  322 (452)
Q Consensus       243 g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~  322 (452)
                      |.+|+|||+||+..++.    +...|++..                         ++++.+.  .+++++.+.++++.+.
T Consensus       411 G~~vlyis~E~s~~~~~----a~~lGvd~~-------------------------~L~I~~~--~~~e~il~~~~~lv~~  459 (2050)
T 3cmu_A          411 GKTCAFIDAEHALDPIY----ARKLGVDID-------------------------NLLCSQP--DTGEQALEICDALARS  459 (2050)
T ss_dssp             TCCEEEECTTSCCCHHH----HHHTTCCTT-------------------------TCEEECC--SSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCHHHHH----HHHcCCCHH-------------------------HeEEeCC--CCHHHHHHHHHHHHHh
Confidence            88999999999998874    333555432                         3455543  4789999999988888


Q ss_pred             cCCccEEEEcCcchhcc-C----CCCC----CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhc--CCCCCCchhh
Q psy2892         323 CGKIGVIIIDYLQLMSA-N----SRGE----NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQR--QNKRPIMSDL  391 (452)
Q Consensus       323 ~~~~~~vvID~l~~i~~-~----~~~~----~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r--~~~~p~l~dl  391 (452)
                      ++ +++|||||++.+.+ .    ..++    .....+...++.|+.+|+++|||||+++|+++..+.+  .+++|     
T Consensus       460 ~~-~~lIVIDSL~al~~~~e~eg~~Gd~~~~~q~R~is~~Lr~L~~lake~~i~VIlinQl~~~vg~~~g~p~~p-----  533 (2050)
T 3cmu_A          460 GA-VDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNPETT-----  533 (2050)
T ss_dssp             TC-CSEEEESCGGGCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHTTTCEEEEEECCEECTTCCSSCCEEC-----
T ss_pred             cC-CcEEEECCHHHhhcccccccccccchhhHHHHHHHHHHHHHHHHHHHcCCeEEEEeecccccccccCCCcCC-----
Confidence            75 99999999999874 1    1111    2334567788888888999999999999999976544  22344     


Q ss_pred             hhhchhhhhhceeEEEecCcccccCCCC-CCeEEEEEeeccCCCcce---EEEEEEcCccce
Q psy2892         392 RESGAIEQDADVILFIYRDEVYNQNSAD-KGIAEIIVSKQRNGPIGN---IRLTFSGQYTKF  449 (452)
Q Consensus       392 ~~S~~ie~~aD~vl~l~r~~~~~~~~~~-~~~~~l~i~KnR~G~~g~---~~l~f~~~~~~f  449 (452)
                      .|+.+|+++||++++|+|++++.+.++. .+.+++++.|||+|++|.   +.+.|.....+|
T Consensus       534 sGg~ale~~ADv~l~L~R~~~~~~g~~~~g~~~~v~V~KnR~gp~g~~~~f~I~~~~Gi~~~  595 (2050)
T 3cmu_A          534 TGGNALKFYASVRLDIRRIGAVKEGENVVGSETRVKVVKNKIAAPFKQAEFQILYGEGINFY  595 (2050)
T ss_dssp             SSHHHHHHHEEEEEEEEEEEEEEETTEEEEEEEEEEEEEESSSCSCCEEEEEEETTTEECHH
T ss_pred             CCcchhhhhCCEEEEEEecccccCCccccCcEEEEEEEecCCCCCCceEEEEEEeCCCcccc
Confidence            4677899999999999999865322111 135789999999999885   344444444433

>3gxv_A Replicative DNA helicase; hexameric helicase, primase, replication, ATP-binding, autocatalytic cleavage, DNA replication; 2.20A {Helicobacter pylori} PDB: 3gxv_D 3gxv_C

Probab=99.94  E-value=3.8e-27  Score=194.68  Aligned_cols=119  Identities=24%  Similarity=0.352  Sum_probs=112.1

Q ss_pred             cCCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCH
Q psy2892          12 FRVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGL   91 (452)
Q Consensus        12 ~~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~   91 (452)
                      ++.+|+|++||++|||+||.+|+.++++.+.|+|+|||.|.||.||++|.+|+.+|+|+|++||.++|++.+.++.    
T Consensus         4 ~~~~p~~~eAEqaVLGalLld~~~~~~v~~~L~~edFy~~~H~~If~ai~~L~~~~~piD~vtl~~~L~~~~~l~~----   79 (123)
T 3gxv_A            4 LKHLQQLQNIERIVLSGIVLANHKIEEVHSVLEPSDFYYPPNGLFFEIALKLHEEDCPIDENFIRQKMPKDKQIKE----   79 (123)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSGGGHHHHHTTCCGGGCSSHHHHHHHHHHHHHHHTTCCCSHHHHHHTSCSSSCCCH----
T ss_pred             cccCCCCHHHHHHHHHHHHcCHHHHHHHHhhCCHHHCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCchhH----
Confidence            3567999999999999999999999999999999999999999999999999999999999999999999887764    


Q ss_pred             HHHHHHHhcCCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy2892          92 SYLNSLAQNIPSAANIRRYAEIVRDRGILRKLITVTDEISSQAF  135 (452)
Q Consensus        92 ~~l~~l~~~~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~  135 (452)
                      +||.+|+. +|+++|+++|+++|++++.+|+++..+.++.+.++
T Consensus        80 ~yL~~L~~-~ps~ani~~Ya~iV~e~s~~R~li~~~~~i~~~~~  122 (123)
T 3gxv_A           80 EDLVAIFA-ASPIDNIEAYVEEIKNASIKRKLFGLANTIREQAH  122 (123)
T ss_dssp             HHHHHHHT-SCCCSCTHHHHHHHHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHh-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            89999988 99999999999999999999999999999887653

>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=99.94  E-value=4.5e-26  Score=222.02  Aligned_cols=213  Identities=16%  Similarity=0.188  Sum_probs=155.9

Q ss_pred             CccccccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-----------CC----CcEEEEeCCCC--
Q psy2892         193 DVTGISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-----------NK----LPVAIFSMEMS--  254 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----------~g----~~vl~~s~E~~--  254 (452)
                      ...+++||++.||.++ ||+++|++++|+|+||+|||+|+++++.+++..           .|    .+|+||++|++  
T Consensus        76 ~~~~i~TG~~~LD~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~  155 (322)
T 2i1q_A           76 TVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFR  155 (322)
T ss_dssp             TCCEECCSCHHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCC
T ss_pred             cCCeecCCChhHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCC
Confidence            3458999999999996 799999999999999999999999999986431           24    78999999998  


Q ss_pred             HHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHH---HHHHHHHHHHHHcCCccEEEE
Q psy2892         255 GIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVI---ELRANSRRLSRQCGKIGVIII  331 (452)
Q Consensus       255 ~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~---~i~~~i~~~~~~~~~~~~vvI  331 (452)
                      ++++..++..  .|++...             +      +  .++++.+.  .+.+   ++...+..+..++.++++|||
T Consensus       156 ~~~l~~~~~~--~g~~~~~-------------~------~--~~l~~~~~--~~~~~~~~~l~~l~~~~~~~~~~~lvVI  210 (322)
T 2i1q_A          156 PERIMQMAEH--AGIDGQT-------------V------L--DNTFVARA--YNSDMQMLFAEKIEDLIQEGNNIKLVVI  210 (322)
T ss_dssp             HHHHHHHHHH--HTCCHHH-------------H------H--HTEEEEEC--SSHHHHHHHHHTHHHHHHTTCEEEEEEE
T ss_pred             HHHHHHHHHH--cCCCHHH-------------H------h--cCEEEEeC--CCHHHHHHHHHHHHHHHhhccCccEEEE
Confidence            7888877543  3443221             1      1  14666543  2344   355556666666224999999


Q ss_pred             cCcchhccCC-C--CC--CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhc--CCCCCCchhhhhhchhhhhhcee
Q psy2892         332 DYLQLMSANS-R--GE--NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQR--QNKRPIMSDLRESGAIEQDADVI  404 (452)
Q Consensus       332 D~l~~i~~~~-~--~~--~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r--~~~~p~l~dl~~S~~ie~~aD~v  404 (452)
                      |+++.+.... .  +.  ++.+.+.++++.|+.+|+++|++||+++|+++..+.+  ...+|     .++..+++.||++
T Consensus       211 Dsl~~l~~~~~~~~~~~~~r~~~~~~~~~~L~~la~~~~~~vi~~nq~~~~~~~~~g~~~~~-----~g~~~~~~~~d~~  285 (322)
T 2i1q_A          211 DSLTSTFRNEYTGRGKLAERQQKLGRHMATLNKLADLFNCVVLVTNQVSAKPDAFFGMAEQA-----IGGHIVGHAATFR  285 (322)
T ss_dssp             ECSSHHHHHHCCCTTSHHHHHHHHHHHHHHHHHHHHHTTCEEEEEECEECC-------CCEE-----SSHHHHHHHCSEE
T ss_pred             ECcHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHhCCEEEEECceeecCCCCCCCCcCC-----CCcHHHHhcCcEE
Confidence            9999886421 1  11  2345689999999999999999999999999865432  11223     3456799999999


Q ss_pred             EEEecCcccccCCCCCCeEEEEEeeccCCCcceEEEEEE
Q psy2892         405 LFIYRDEVYNQNSADKGIAEIIVSKQRNGPIGNIRLTFS  443 (452)
Q Consensus       405 l~l~r~~~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~  443 (452)
                      +.|+|.+.        ..+.+.+.|||+|+.|.+.|...
T Consensus       286 i~l~~~~~--------~~r~~~v~k~~~~p~~~~~f~I~  316 (322)
T 2i1q_A          286 FFVRKGKG--------DKRVAKLYDSPHLPDAEAIFRIT  316 (322)
T ss_dssp             EEEEECST--------TEEEEEEEECSSSCCEEEEEEEE
T ss_pred             EEEEecCC--------CeEEEEEEECCCCCCeEEEEEEe
Confidence            99998641        24689999999999998765544

>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=99.93  E-value=1.6e-25  Score=218.03  Aligned_cols=212  Identities=14%  Similarity=0.168  Sum_probs=145.6

Q ss_pred             CccccccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC-----CCcEEEEeCCCC--HHHHHHHHHH
Q psy2892         193 DVTGISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN-----KLPVAIFSMEMS--GIQLAMRMLG  264 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~-----g~~vl~~s~E~~--~~~i~~R~~a  264 (452)
                      ...+++||++.||.++ ||+++|++++|+|+||+|||+|+++++.+++...     +.+|+||++|++  ++++..++..
T Consensus        85 ~~~~i~TG~~~LD~~L~GGl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~~~~~  164 (324)
T 2z43_A           85 NVKKISTGSQALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIENMAKA  164 (324)
T ss_dssp             SCCEECCSCHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHHHHH
T ss_pred             cCCcccCCchhHHHhcCCCCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3568999999999996 7999999999999999999999999999876421     679999999997  7888777532


Q ss_pred             HhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHH---HHHHHHHHHHHH-cCCccEEEEcCcchhccC
Q psy2892         265 SVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVI---ELRANSRRLSRQ-CGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       265 ~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~---~i~~~i~~~~~~-~~~~~~vvID~l~~i~~~  340 (452)
                        .|++...             +      +  .++++.+.  .+.+   ++...++.+.++ . ++++||||+++.+...
T Consensus       165 --~g~~~~~-------------~------~--~~l~~~~~--~~~~~~~~~l~~l~~~~~~~~-~~~lvVIDsl~~l~~~  218 (324)
T 2z43_A          165 --LGLDIDN-------------V------M--NNIYYIRA--INTDHQIAIVDDLQELVSKDP-SIKLIVVDSVTSHFRA  218 (324)
T ss_dssp             --TTCCHHH-------------H------H--HTEEEEEC--CSHHHHHHHHHHHHHHHHHCT-TEEEEEETTTTHHHHH
T ss_pred             --hCCCHHH-------------H------h--ccEEEEeC--CCHHHHHHHHHHHHHHHHhcc-CCCEEEEeCcHHHhhh
Confidence              3443221             1      1  14566543  2344   355566666666 5 4999999999988642


Q ss_pred             C---CCC--CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhc--CCCCCCchhhhhhchhhhhhceeEEEecCccc
Q psy2892         341 S---RGE--NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQR--QNKRPIMSDLRESGAIEQDADVILFIYRDEVY  413 (452)
Q Consensus       341 ~---~~~--~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r--~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~  413 (452)
                      .   ++.  ++.+.+.++++.|+.+|+++|++||+++|+++..+.+  ...+|     .++..+++.||+++.|+|.+. 
T Consensus       219 ~~~~~g~~~~r~~~~~~~l~~L~~la~~~~~~Vi~~nq~~~~~~~~~~~~~~~-----~gg~~l~~~~d~~l~l~r~~~-  292 (324)
T 2z43_A          219 EYPGRENLAVRQQKLNKHLHQLTRLAEVYDIAVIITNQVMARPDMFYGDPTVA-----VGGHTLYHVPGIRIQLKKSRG-  292 (324)
T ss_dssp             HSCTTTSHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEEC-----------------------------CEEEEEEECST-
T ss_pred             hhcCcccHHHHHHHHHHHHHHHHHHHHHhCCEEEEEcceeecCCCcCCCCCCC-----CchHHHHhhCcEEEEEEEcCC-
Confidence            1   111  2345689999999999999999999999999865432  11233     345679999999999998641 


Q ss_pred             ccCCCCCCeEEEEEeeccCCCcceEEEEEE
Q psy2892         414 NQNSADKGIAEIIVSKQRNGPIGNIRLTFS  443 (452)
Q Consensus       414 ~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~  443 (452)
                             ..+.+.+.|||+|+.|.+.|...
T Consensus       293 -------~~r~~~v~k~~~~p~~~~~f~I~  315 (324)
T 2z43_A          293 -------NRRIARVVDAPHLPEGEVVFALT  315 (324)
T ss_dssp             -------TEEEEEEEECSSSCCEEEEEEEE
T ss_pred             -------CeEEEEEEECCCCCceEEEEEEe
Confidence                   24689999999999988766554

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=99.93  E-value=1.8e-25  Score=252.39  Aligned_cols=227  Identities=21%  Similarity=0.218  Sum_probs=172.2

Q ss_pred             HHHHHHHHHHHHHhCCC-------CCCCccccccCcccccccc--CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC
Q psy2892         173 LLNRVIKRINKLHNRGT-------NDNDVTGISTGFFELDKIT--SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK  243 (452)
Q Consensus       173 ~~~~~~~~i~~~~~~~~-------~~~~~~~i~tg~~~LD~~~--gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g  243 (452)
                      +++.++..+++.+..+.       ......++|||++.||.++  ||+++|++++|+|+||+|||+|++|++.+++. .|
T Consensus       333 ~l~~a~~~i~~~fg~~~~~~l~~~~~~~~~~isTGi~~LD~lLg~GGl~~G~lilI~G~pGsGKTtLaLq~a~~~~~-~G  411 (1706)
T 3cmw_A          333 ALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR-EG  411 (1706)
T ss_dssp             HHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHH-TT
T ss_pred             HHHHHHHHHHHHhCCCcceeccccccccCceeccCcHHHHHHhccCCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHH-hC
Confidence            44556666665543210       0024568999999999985  69999999999999999999999999999985 68


Q ss_pred             CcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHc
Q psy2892         244 LPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQC  323 (452)
Q Consensus       244 ~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~  323 (452)
                      .+|+|||+||+..++.    +...|++..+                         +++.+.  .+.+++.+.++++.+..
T Consensus       412 ~~vlyis~E~s~~~~~----a~~lGvd~~~-------------------------L~i~~~--~~~e~~l~~l~~lv~~~  460 (1706)
T 3cmw_A          412 KTCAFIDAEHALDPIY----ARKLGVDIDN-------------------------LLCSQP--DTGEQALEICDALARSG  460 (1706)
T ss_dssp             CCEEEECTTSCCCHHH----HHHTTCCGGG-------------------------CEEECC--SSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEccCchHHHH----HHHcCCCHHH-------------------------eEEcCC--CCHHHHHHHHHHHHHhc
Confidence            9999999999998874    3345665432                         333322  35788888888888777


Q ss_pred             CCccEEEEcCcchhccC-----CCCC----CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhc--CCCCCCchhhh
Q psy2892         324 GKIGVIIIDYLQLMSAN-----SRGE----NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQR--QNKRPIMSDLR  392 (452)
Q Consensus       324 ~~~~~vvID~l~~i~~~-----~~~~----~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r--~~~~p~l~dl~  392 (452)
                      + +++|||||++.+...     ..+.    .+...+..+++.|+.+|+++||+||+++|+++..+.+  .+++|     .
T Consensus       461 ~-~~lVVIDSL~al~~~~e~e~~~g~~~~~~q~r~~s~~Lr~L~~~ak~~~v~VI~inQl~~~vg~~fg~~~~p-----~  534 (1706)
T 3cmw_A          461 A-VDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNPETT-----T  534 (1706)
T ss_dssp             C-CSEEEESCSTTCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHHHTCEEEEEECEEECTTCCSSCCEEE-----S
T ss_pred             C-CCEEEECCHHHhhccccccccccccchhHHHHHHHHHHHHHHHHHHHcCCEEEEEeecccccccccCCCccC-----C
Confidence            5 999999999998741     1111    2445678899999999999999999999999976544  22333     3


Q ss_pred             hhchhhhhhceeEEEecCcccccCCC-CCCeEEEEEeeccCCCcce
Q psy2892         393 ESGAIEQDADVILFIYRDEVYNQNSA-DKGIAEIIVSKQRNGPIGN  437 (452)
Q Consensus       393 ~S~~ie~~aD~vl~l~r~~~~~~~~~-~~~~~~l~i~KnR~G~~g~  437 (452)
                      +++.++++||++++++|.+++.+.+. ..+.+++++.|||+|+++.
T Consensus       535 gg~ale~~ADv~L~L~R~~~~~~g~~~~~~~~~l~V~KnR~gp~~~  580 (1706)
T 3cmw_A          535 GGNALKFYASVRLDIRRIGAVKEGENVVGSETRVKVVKNKIAAPFK  580 (1706)
T ss_dssp             SCSHHHHHEEEEEEEEEEEEEEETTEEEEEEEEEEEEEESSSCSCC
T ss_pred             CCcceeeeCCEEEEEEeccccccCccccCcEEEEEEEecCCCCCCC
Confidence            57899999999999999876533211 1235789999999999886

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=99.93  E-value=7e-25  Score=204.86  Aligned_cols=220  Identities=20%  Similarity=0.230  Sum_probs=156.2

Q ss_pred             cccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccc
Q psy2892         195 TGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHK  273 (452)
Q Consensus       195 ~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~  273 (452)
                      .+++||++.||++ .||+++|++++|+|+||+|||+|+++++.+.+. .|.+|+|+++|++..++..|+.  ..|++...
T Consensus         3 ~~i~tG~~~LD~~l~gGl~~G~~~~i~G~~GsGKTtl~~~~~~~~~~-~~~~v~~~~~e~~~~~~~~~~~--~~g~~~~~   79 (247)
T 2dr3_A            3 RRVKTGIPGVDEILHGGIPERNVVLLSGGPGTGKTIFSQQFLWNGLK-MGEPGIYVALEEHPVQVRQNMA--QFGWDVKP   79 (247)
T ss_dssp             CEECCCCTTHHHHTTTSEETTCEEEEEECTTSSHHHHHHHHHHHHHH-TTCCEEEEESSSCHHHHHHHHH--TTTCCCHH
T ss_pred             ccccCCchhHHHHcCCCCCCCcEEEEECCCCCCHHHHHHHHHHHHHh-cCCeEEEEEccCCHHHHHHHHH--HcCCCHHH
Confidence            4799999999998 689999999999999999999999999999975 6889999999999999988875  34555433


Q ss_pred             cc-cCCCCcch--HHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHH
Q psy2892         274 LR-TGRLSSDD--WPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEI  350 (452)
Q Consensus       274 i~-~g~l~~~~--~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~  350 (452)
                      +. .+.+...+  +..+    ..+...+.++.+. ..++.++...++++..+++ +++||||+++.+..+.  .   ...
T Consensus        80 ~~~~~~l~~~~~~~~~~----~~~~~~~~~~~~~-~~~~~~~~~~i~~~~~~~~-~~~vviD~~~~l~~~~--~---~~~  148 (247)
T 2dr3_A           80 YEEKGMFAMVDAFTAGI----GKSKEYEKYIVHD-LTDIREFIEVLRQAIRDIN-AKRVVVDSVTTLYINK--P---AMA  148 (247)
T ss_dssp             HHHHTSEEEEECSTTTT----CC--CCCSCBCSC-CSSHHHHHHHHHHHHHHHT-CCEEEEETSGGGTTTC--G---GGH
T ss_pred             HhhCCcEEEEecchhhc----ccccccccccccC-ccCHHHHHHHHHHHHHHhC-CCEEEECCchHhhcCC--H---HHH
Confidence            21 12211111  0000    0001112333322 3567788888888877776 9999999999987422  1   124


Q ss_pred             HHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeec
Q psy2892         351 SEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQ  430 (452)
Q Consensus       351 ~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~Kn  430 (452)
                      ..++..|+.+++++|++||+++|.++..  +..++|         .+++.||.|+.|++++..     ....+.+.|.|+
T Consensus       149 ~~~l~~l~~~~~~~~~~vi~~~h~~~~~--~~~~~~---------~~~~~~D~vi~L~~~~~~-----~~~~r~l~v~K~  212 (247)
T 2dr3_A          149 RSIILQLKRVLAGTGCTSIFVSQVSVGE--RGFGGP---------GVEHGVDGIIRLDLDEID-----GELKRSLIVWKM  212 (247)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEEEECC------CCC-C---------CHHHHSSEEEEEEEEEET-----TEEEEEEEEEEE
T ss_pred             HHHHHHHHHHHHHCCCeEEEEecCCCCc--cccccc---------ccceeEEEEEEEEEEccC-----CeeEEEEEEEEC
Confidence            4667888999999999999999999853  222222         488999999999987542     124689999999


Q ss_pred             cCCCcce--EEEEEEc
Q psy2892         431 RNGPIGN--IRLTFSG  444 (452)
Q Consensus       431 R~G~~g~--~~l~f~~  444 (452)
                      |+|+.+.  ..|....
T Consensus       213 R~~~~~~~~~~f~i~~  228 (247)
T 2dr3_A          213 RGTSHSMRRHPFDITD  228 (247)
T ss_dssp             TTSCCCCBCEEEEEET
T ss_pred             CCCCCCCceEEEEEcC
Confidence            9998763  4555443

>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=99.93  E-value=4.7e-25  Score=216.19  Aligned_cols=214  Identities=14%  Similarity=0.170  Sum_probs=152.2

Q ss_pred             ccccccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCCC--HHHHHHHHHHH
Q psy2892         194 VTGISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEMS--GIQLAMRMLGS  265 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~~--~~~i~~R~~a~  265 (452)
                      ..+++||++.||.++ ||+++|++++|+|+||+|||+|+++++.+++..     .+.+|+||++|++  ++++..++.. 
T Consensus       101 ~~~i~TG~~~LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~~~~~-  179 (343)
T 1v5w_A          101 VFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADR-  179 (343)
T ss_dssp             CCCBCCSCHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHHHHHH-
T ss_pred             cceeecCChhHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHHHH-
Confidence            458999999999996 799999999999999999999999999987542     3679999999996  7777777543 


Q ss_pred             hCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCC-CCHHHHHHHHHHHHHH--cCCccEEEEcCcchhccCC-
Q psy2892         266 VGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPS-LNVIELRANSRRLSRQ--CGKIGVIIIDYLQLMSANS-  341 (452)
Q Consensus       266 ~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~-~t~~~i~~~i~~~~~~--~~~~~~vvID~l~~i~~~~-  341 (452)
                       .|++...             +      +.  ++++.+... ..+.++...++++..+  . ++++||||+++.+.... 
T Consensus       180 -~g~~~~~-------------~------l~--~l~~~~~~~~e~~~~ll~~l~~~i~~~~~-~~~lvVIDsl~~l~~~~~  236 (343)
T 1v5w_A          180 -FNVDHDA-------------V------LD--NVLYARAYTSEHQMELLDYVAAKFHEEAG-IFKLLIIDSIMALFRVDF  236 (343)
T ss_dssp             -TTCCHHH-------------H------HH--TEEEEECCSTTHHHHHHHHHHHHHHHSCS-SEEEEEEETSGGGHHHHC
T ss_pred             -cCCCHHH-------------H------Hh--ceeEeecCCHHHHHHHHHHHHHHHHhcCC-CccEEEEechHHHHHHHh
Confidence             3443211             1      11  456554322 2233555566677766  5 49999999999887431 


Q ss_pred             C--CC--CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCc--hhhh--hhchhhhhhceeEEEecCccc
Q psy2892         342 R--GE--NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIM--SDLR--ESGAIEQDADVILFIYRDEVY  413 (452)
Q Consensus       342 ~--~~--~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l--~dl~--~S~~ie~~aD~vl~l~r~~~~  413 (452)
                      .  +.  ++.+.+..+++.|+.+|+++|++||+++|+++..+.+    +..  ++.+  ++..+++.||++++|+|.+  
T Consensus       237 ~~~g~~~~r~~~l~~~l~~L~~la~~~~~~Vi~~nq~~~~~~~~----~~~~g~~~~~~gg~~i~~~ad~~l~l~r~~--  310 (343)
T 1v5w_A          237 SGRGELAERQQKLAQMLSRLQKISEEYNVAVFVTNQMTADPGAT----MTFQADPKKPIGGHILAHASTTRISLRKGR--  310 (343)
T ss_dssp             CGGGCHHHHHHHHHHHHHHHHHHHHHHTCEEEEEECC-----------------------CCTTTTSSSEEEEEEESS--
T ss_pred             cccccHHHHHHHHHHHHHHHHHHHHHhCCEEEEEeeceecCCCc----cccCCCCCcCCchHHHHHhCCEEEEEEEcC--
Confidence            1  11  2344689999999999999999999999999876432    111  1222  3447999999999999864  


Q ss_pred             ccCCCCCCeEEEEEeeccCCCcceEEEEEE
Q psy2892         414 NQNSADKGIAEIIVSKQRNGPIGNIRLTFS  443 (452)
Q Consensus       414 ~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~  443 (452)
                            ...+.+.+.|||+|+.|.+.|...
T Consensus       311 ------~~~r~~~v~K~r~~p~~~~~f~I~  334 (343)
T 1v5w_A          311 ------GELRIAKIYDSPEMPENEATFAIT  334 (343)
T ss_dssp             ------TTEEEEEEEECTTCCSSCEEEEEE
T ss_pred             ------CCEEEEEEEECCCCCCeeEEEEEe
Confidence                  125789999999999998766554

>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=99.92  E-value=3.9e-24  Score=196.30  Aligned_cols=206  Identities=18%  Similarity=0.253  Sum_probs=151.0

Q ss_pred             ccccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC--CHHHHHHHHHHHhCCCCcc
Q psy2892         196 GISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM--SGIQLAMRMLGSVGKLDQH  272 (452)
Q Consensus       196 ~i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~--~~~~i~~R~~a~~~~i~~~  272 (452)
                      .++||++.||+++ ||+++|++++|.|+||+|||+|+.+++.  .  .+.+|+|++.|+  +..++.....  ..+++  
T Consensus         1 ri~tG~~~LD~~l~Ggi~~G~~~~i~G~~GsGKTtl~~~l~~--~--~~~~v~~i~~~~~~~~~~~~~~~~--~~~~~--   72 (220)
T 2cvh_A            1 MLSTGTKSLDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGL--L--SGKKVAYVDTEGGFSPERLVQMAE--TRGLN--   72 (220)
T ss_dssp             CBCCSCHHHHHHTTSSBCTTSEEEEECSTTSSHHHHHHHHHH--H--HCSEEEEEESSCCCCHHHHHHHHH--TTTCC--
T ss_pred             CcccCcHHHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHH--H--cCCcEEEEECCCCCCHHHHHHHHH--hcCCC--
Confidence            3799999999996 6999999999999999999999999998  2  478999999999  7766654321  12221  


Q ss_pred             ccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCC-HHHHHHHHHHHHHHcCCccEEEEcCcchhccCC-CCCCHHHHH
Q psy2892         273 KLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLN-VIELRANSRRLSRQCGKIGVIIIDYLQLMSANS-RGENRATEI  350 (452)
Q Consensus       273 ~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t-~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~-~~~~~~~~~  350 (452)
                              .+++         +  .++++.+..... ..++.+.++.+..+ + +++||||+++.+.... ...++...+
T Consensus        73 --------~~~~---------~--~~~~~~~~~~~~~~~~~~~~~~~l~~~-~-~~lliiD~~~~~l~~~~~~~~~~~~~  131 (220)
T 2cvh_A           73 --------PEEA---------L--SRFILFTPSDFKEQRRVIGSLKKTVDS-N-FALVVVDSITAHYRAEENRSGLIAEL  131 (220)
T ss_dssp             --------HHHH---------H--HHEEEECCTTTSHHHHHHHHHHHHCCT-T-EEEEEEECCCCCTTGGGGSSTTHHHH
T ss_pred             --------hHHH---------h--hcEEEEecCCHHHHHHHHHHHHHHhhc-C-CCEEEEcCcHHHhhhcCchHHHHHHH
Confidence                    1111         1  135555443322 23344455555443 4 9999999999875322 223456778


Q ss_pred             HHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeec
Q psy2892         351 SEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQ  430 (452)
Q Consensus       351 ~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~Kn  430 (452)
                      ..+++.|+.++++++++||+++|.++..+. .+.+|..     |..+++.||.+++|++.+.       .+.+.+.+.|+
T Consensus       132 ~~~~~~L~~l~~~~~~~vi~~~h~~~~~~~-~~~~p~~-----~~~~~~~~d~vi~l~~~~~-------~~~r~l~v~K~  198 (220)
T 2cvh_A          132 SRQLQVLLWIARKHNIPVIVINQVHFDSRT-EMTKPVA-----EQTLGYRCKDILRLDKLPK-------PGLRVAVLERH  198 (220)
T ss_dssp             HHHHHHHHHHHHHHTCCEEEEECSSSSCTT-SSCCSCC-----CHHHHHTSSEEEEEEECSS-------TTEEEEEEEEC
T ss_pred             HHHHHHHHHHHHHcCCEEEEEeeEEEcCCC-CccccCC-----CcceeecCcEEEEEEEecC-------CCEEEEEEEeC
Confidence            899999999999999999999999886543 2455643     4579999999999998742       24689999999


Q ss_pred             cCCCcce-EEEEEE
Q psy2892         431 RNGPIGN-IRLTFS  443 (452)
Q Consensus       431 R~G~~g~-~~l~f~  443 (452)
                      |+|+.|. +.|...
T Consensus       199 r~~~~~~~~~f~I~  212 (220)
T 2cvh_A          199 RFRPEGLMAYFRIT  212 (220)
T ss_dssp             SSSCTTCEEEEEEE
T ss_pred             CCCCCCceEEEEEe
Confidence            9999887 566654

>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=99.92  E-value=2.5e-23  Score=203.75  Aligned_cols=212  Identities=18%  Similarity=0.198  Sum_probs=154.1

Q ss_pred             CccccccCcccccccc--CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCC
Q psy2892         193 DVTGISTGFFELDKIT--SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLD  270 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~~--gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~  270 (452)
                      ...+++||++.||.++  ||+++|++++|+|+||+|||+|+++++.+++. .|.+|+|+++|++..+..    +...|++
T Consensus        38 ~~~~i~TG~~~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~~~~-~g~~vlyi~~E~~~~~~~----a~~lG~~  112 (349)
T 2zr9_A           38 PISVIPTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQA-AGGIAAFIDAEHALDPEY----AKKLGVD  112 (349)
T ss_dssp             CCCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHH-TTCCEEEEESSCCCCHHH----HHHTTCC
T ss_pred             cCCccccCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHh-CCCeEEEEECCCCcCHHH----HHHcCCC
Confidence            4568999999999985  59999999999999999999999999999975 688999999999876653    2234554


Q ss_pred             ccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC----CC-CC-
Q psy2892         271 QHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN----SR-GE-  344 (452)
Q Consensus       271 ~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~----~~-~~-  344 (452)
                      ..                         ++++.+  ..+.+++...++.+.+..+ +++||||+++.+...    .. ++ 
T Consensus       113 ~~-------------------------~l~i~~--~~~~e~~l~~~~~l~~~~~-~~lIVIDsl~~l~~~~e~~~~~gd~  164 (349)
T 2zr9_A          113 TD-------------------------SLLVSQ--PDTGEQALEIADMLVRSGA-LDIIVIDSVAALVPRAEIEGEMGDS  164 (349)
T ss_dssp             GG-------------------------GCEEEC--CSSHHHHHHHHHHHHTTTC-CSEEEEECGGGCCCHHHHTTC----
T ss_pred             HH-------------------------HeEEec--CCCHHHHHHHHHHHHhcCC-CCEEEEcChHhhcchhhhccccccc
Confidence            32                         233433  2367888888887776664 999999999998731    10 01 


Q ss_pred             ---CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcC--CCCCCchhhhhhchhhhhhceeEEEecCcccccCCC-
Q psy2892         345 ---NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQ--NKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSA-  418 (452)
Q Consensus       345 ---~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~--~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~-  418 (452)
                         .....+..+++.|+.+++++|++||+++|+++..+...  ...|     .++..+++.||+++.++|.+.+..... 
T Consensus       165 ~~~~q~r~~~~~l~~L~~~a~~~~~tVI~inh~~~~~~~~~~~p~~~-----~gg~~l~~~ad~~l~lrr~~~~k~g~~~  239 (349)
T 2zr9_A          165 HVGLQARLMSQALRKMTGALNNSGTTAIFINELREKIGVMFGSPETT-----TGGKALKFYASVRLDVRRIETLKDGTDA  239 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHHTCEEEEEEECC-----------CC-----SSHHHHHHHCSEEEEEEEEEEECSSSSC
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHhCCEEEEEeccccccCcccCCCccc-----CCchHhhhccceEEEEEEeeeeecCccc
Confidence               12235678889999999999999999999997543221  1223     346789999999999999765432111 


Q ss_pred             CCCeEEEEEeeccCCC-cceEEEEE
Q psy2892         419 DKGIAEIIVSKQRNGP-IGNIRLTF  442 (452)
Q Consensus       419 ~~~~~~l~i~KnR~G~-~g~~~l~f  442 (452)
                      ..+.+.+.+.|||.++ .|...|..
T Consensus       240 ~g~~~~~~i~K~~~~p~~~~~~fdi  264 (349)
T 2zr9_A          240 VGNRTRVKVVKNKVSPPFKQAEFDI  264 (349)
T ss_dssp             CEEEEEEEEEEESSSCCCCEEEEEE
T ss_pred             cCCEEEEEeCCCccCCCCceEEEEE
Confidence            1246899999999998 55555544

>1b79_A DNAB helicase; hexamer, DNA replication, hydrolase; 2.30A {Escherichia coli} SCOP: a.81.1.1 PDB: 1jwe_A

Probab=99.92  E-value=3.2e-25  Score=182.17  Aligned_cols=105  Identities=52%  Similarity=0.916  Sum_probs=99.9

Q ss_pred             CCCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHH
Q psy2892          13 RVPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLS   92 (452)
Q Consensus        13 ~~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~   92 (452)
                      +.+|++++||++|||+||.+|+.+.++.+.|+|+|||.+.||.||++|.+++.+|+|+|++||..+|++.+.++.+||.+
T Consensus        15 ~~~P~~~eAEqaVLGalL~d~~~~~~v~~~L~~edFy~~~H~~If~ai~~L~~~g~piD~vtv~~~L~~~~~l~~~GG~~   94 (119)
T 1b79_A           15 KVPPHSIEAEQSVLGGLMLDNERWDDVAERVVADDFYTRPHRHIFTEMARLQESGSPIDLITLAESLERQGQLDSVGGFA   94 (119)
T ss_dssp             --CCCHHHHHHHHHHHHHHCGGGHHHHHTTCCGGGSSSHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHTTTTHHHHTHHH
T ss_pred             cCCCCcHHHHHHHHHHHHcChHHHHHHHhhCCHHHCCcHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhccCchhhcCcHH
Confidence            56899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCChHhHHHHHHHHHHH
Q psy2892          93 YLNSLAQNIPSAANIRRYAEIVRDR  117 (452)
Q Consensus        93 ~l~~l~~~~~~~~n~~~y~~~l~~~  117 (452)
                      ||.+|++.+|+++|+.+|+++|+++
T Consensus        95 yL~~L~~~~ps~ani~~Ya~iV~ek  119 (119)
T 1b79_A           95 YLAELSKNTPSAANISAYADIVRER  119 (119)
T ss_dssp             HHHHHHHHSCSSSCHHHHHHHHHC-
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhC
Confidence            9999999999999999999999863

>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=99.91  E-value=2.4e-23  Score=198.52  Aligned_cols=231  Identities=14%  Similarity=0.154  Sum_probs=147.0

Q ss_pred             cccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh---------CCCcEEEEeCCCCHHHHHHHHHHH
Q psy2892         195 TGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE---------NKLPVAIFSMEMSGIQLAMRMLGS  265 (452)
Q Consensus       195 ~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~---------~g~~vl~~s~E~~~~~i~~R~~a~  265 (452)
                      ..++||++.||.+++|+++|++++|.|+||+|||+|+++++..++.+         .+.+|+|++.|++..++..|+.+.
T Consensus        11 ~~i~tg~~~ld~~lggl~~G~i~~i~G~~GsGKTtl~~~l~~~~~~g~~~~g~~~~~~~~v~~~~~e~~~~~~~~r~~~~   90 (279)
T 1nlf_A           11 EAFAAAPPPLDYVLPNMVAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPPTAIHHRLHAL   90 (279)
T ss_dssp             HHHHSCCCCCCEEETTEETTSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSCHHHHHHHHHHH
T ss_pred             HHhcCCCCChheeECCccCCCEEEEEcCCCCCHHHHHHHHHHHHhcCCCcCCCccCCCccEEEEECCCCHHHHHHHHHHH
Confidence            46899999999999999999999999999999999999999977531         146899999999998888787653


Q ss_pred             hCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcC-----CCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         266 VGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDET-----PSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       266 ~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~-----~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                      ...+          ....   .....+     .+.+.+.     ..++..+ ...++.+..  + +++||||+++.+...
T Consensus        91 g~~~----------~~~~---~~~~~~-----~l~l~~~~~~~~~~ls~g~-~~~i~~l~~--~-~~livlDe~~~~~~~  148 (279)
T 1nlf_A           91 GAHL----------SAEE---RQAVAD-----GLLIQPLIGSLPNIMAPEW-FDGLKRAAE--G-RRLMVLDTLRRFHIE  148 (279)
T ss_dssp             HTTS----------CHHH---HHHHHH-----HEEECCCTTSCCCTTSHHH-HHHHHHHHT--T-CSEEEEECGGGGCCS
T ss_pred             Hhhc----------Chhh---hhhccC-----ceEEeecCCCCcccCCHHH-HHHHHHhcC--C-CCEEEECCHHHhcCC
Confidence            2211          1111   111122     2233221     1233333 334444432  3 999999999997654


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccc------
Q psy2892         341 SRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYN------  414 (452)
Q Consensus       341 ~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~------  414 (452)
                      .  .+....+..+++.|+.++++.|++||+++|.++... ..+..+..++.+||+.+...+..+..+.+.....      
T Consensus       149 d--~~~~~~~~~~~~~L~~l~~~~g~tvi~i~H~~~~~~-~~g~~~~~~~~~g~~~l~d~v~~~~~~~~~~~~~~~~~gi  225 (279)
T 1nlf_A          149 E--ENASGPMAQVIGRMEAIAADTGCSIVFLHHASKGAA-MMGAGDQQQASRGSSVLVDNIRWQSYLSSMTSAEAEEWGV  225 (279)
T ss_dssp             C--TTCHHHHHHHHHHHHHHHHHHCCEEEEEEEC---------------------CTGGGCSCEEEEEECCHHHHHHTTC
T ss_pred             C--cCchHHHHHHHHHHHHHHHHcCCEEEEEecCCCccc-ccCCchhhhhccchhhhccchhhhhhccCCCHHHHHHhCC
Confidence            3  344556788999999999999999999999998653 2344566788899999976555555555443110      


Q ss_pred             cCCCCCCeEEEEEeeccCCCcceEEEEEEcCcccee
Q psy2892         415 QNSADKGIAEIIVSKQRNGPIGNIRLTFSGQYTKFN  450 (452)
Q Consensus       415 ~~~~~~~~~~l~i~KnR~G~~g~~~l~f~~~~~~f~  450 (452)
                      .++...+.+++.+.|||+|++|........+++.|.
T Consensus       226 ~~~~~~~~~~~~v~K~~~~~~~~~~~~~~~~~G~l~  261 (279)
T 1nlf_A          226 DDDQRRFFVRFGVSKANYGAPFADRWFRRHDGGVLK  261 (279)
T ss_dssp             CTTSGGGEEEEEEEECSSSSCCCCEEEEECGGGCEE
T ss_pred             ChhhcCcEEEeeeccccCCCCCCceEEEEcCCeeEe
Confidence            011123478899999999999986544444777775

>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=99.89  E-value=2.2e-22  Score=199.79  Aligned_cols=212  Identities=14%  Similarity=0.190  Sum_probs=142.4

Q ss_pred             ccccccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCCCHHHHHHHHHHHhC
Q psy2892         194 VTGISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEMSGIQLAMRMLGSVG  267 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~~~~~i~~R~~a~~~  267 (452)
                      ..+++||++.||+++ ||+++|+++.|+|+||+|||+|+.+++...+..     .+.+|+||+.|++......+.++...
T Consensus       157 ~~~i~TG~~~LD~lLgGGI~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~~~a~~~  236 (400)
T 3lda_A          157 LICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVSIAQRF  236 (400)
T ss_dssp             SCEECCSCHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHHT
T ss_pred             CCccccCChhHHHHhcCCcCCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHHHHHHHc
Confidence            458999999999985 899999999999999999999999999887541     35679999999863322222233334


Q ss_pred             CCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHH---HHHHHHHHHHHHcCCccEEEEcCcchhccCC-CC
Q psy2892         268 KLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVI---ELRANSRRLSRQCGKIGVIIIDYLQLMSANS-RG  343 (452)
Q Consensus       268 ~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~---~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~-~~  343 (452)
                      |++...+                   +.  ++++...  .+.+   ++...+..+....+ +++||||+++.+.... .+
T Consensus       237 gl~~~~v-------------------le--ni~~~~~--~~~~~~~~~l~~~~~~l~~~~-~~llVIDs~t~~~~~~~sg  292 (400)
T 3lda_A          237 GLDPDDA-------------------LN--NVAYARA--YNADHQLRLLDAAAQMMSESR-FSLIVVDSVMALYRTDFSG  292 (400)
T ss_dssp             TCCHHHH-------------------HH--TEEEEEC--CSHHHHHHHHHHHHHHHHHSC-EEEEEEETGGGGCC-----
T ss_pred             CCChHhH-------------------hh--cEEEecc--CChHHHHHHHHHHHHHHHhcC-CceEEecchhhhCchhhcC
Confidence            4432211                   11  3444432  2333   33344444555564 9999999999877542 11


Q ss_pred             ----CCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhc-----CCCCCCchhhhhhchhhhhhceeEEEecCcccc
Q psy2892         344 ----ENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQR-----QNKRPIMSDLRESGAIEQDADVILFIYRDEVYN  414 (452)
Q Consensus       344 ----~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r-----~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~  414 (452)
                          ..+...+..+++.|+.+++++|++||+++|+.+..+.+     ...+|     .++..+++.+|++++|++...  
T Consensus       293 ~g~l~~Rq~~l~~il~~L~~lake~gitVIlv~Hv~~~~~g~~~~~g~~~~p-----~gg~~l~~~ad~vl~L~~~~g--  365 (400)
T 3lda_A          293 RGELSARQMHLAKFMRALQRLADQFGVAVVVTNQVVAQVDGGMAFNPDPKKP-----IGGNIMAYSSTTRLGFKKGKG--  365 (400)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEEC-------------------------CHHHHHCSEEEEEEECST--
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHHcCCEEEEEEeecccCCccccccCCCccC-----CchhHHHHhcceEEEEEecCC--
Confidence                12234458899999999999999999999996543221     11223     356789999999999988631  


Q ss_pred             cCCCCCCeEEEEEeeccCCCcceEEEEE
Q psy2892         415 QNSADKGIAEIIVSKQRNGPIGNIRLTF  442 (452)
Q Consensus       415 ~~~~~~~~~~l~i~KnR~G~~g~~~l~f  442 (452)
                            ..+.+.+.|+|+++.+...|..
T Consensus       366 ------~~R~l~v~K~R~~p~~e~~F~I  387 (400)
T 3lda_A          366 ------CQRLCKVVDSPCLPEAECVFAI  387 (400)
T ss_dssp             ------TEEEEEEEECSSSCSCEEEEEE
T ss_pred             ------CcEEEEEEcCCCCCCCceEEEE
Confidence                  2478999999999999855544

>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=99.89  E-value=1.9e-22  Score=187.87  Aligned_cols=212  Identities=15%  Similarity=0.196  Sum_probs=137.7

Q ss_pred             ccccccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCCC--HHHHHHHHHHH
Q psy2892         194 VTGISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEMS--GIQLAMRMLGS  265 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~~--~~~i~~R~~a~  265 (452)
                      ..+++||++.||+++ ||+++|++++|.|+||+|||+|+.+++.+++..     .+.+|+||+.|++  ..++..++.. 
T Consensus         3 ~~~i~tG~~~LD~~l~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~-   81 (243)
T 1n0w_A            3 IIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAER-   81 (243)
T ss_dssp             CCEECCSCHHHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHH-
T ss_pred             ceEecCCChHHHHhhcCCCcCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHHHHHHH-
Confidence            357999999999996 799999999999999999999999999976542     2578999999994  6666555432 


Q ss_pred             hCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHH---HHHHHHHHHcCCccEEEEcCcchhccCC-
Q psy2892         266 VGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELR---ANSRRLSRQCGKIGVIIIDYLQLMSANS-  341 (452)
Q Consensus       266 ~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~---~~i~~~~~~~~~~~~vvID~l~~i~~~~-  341 (452)
                       .+++..          +   +      +.  ++++...  .+..++.   ..+..+...++ +++||||+++.+.... 
T Consensus        82 -~g~~~~----------~---~------~~--~~~~~~~--~~~~~~~~~~~~~~~~~~~~~-~~lliiD~~~~~~~~~~  136 (243)
T 1n0w_A           82 -YGLSGS----------D---V------LD--NVAYARA--FNTDHQTQLLYQASAMMVESR-YALLIVDSATALYRTDY  136 (243)
T ss_dssp             -TTCCHH----------H---H------HH--TEEEEEC--CSHHHHHHHHHHHHHHHHHSC-EEEEEEETSSGGGC---
T ss_pred             -cCCCHH----------H---H------hh--CeEEEec--CCHHHHHHHHHHHHHHHhcCC-ceEEEEeCchHHHHHHh
Confidence             233221          1   1      11  3444322  3444433   33444445554 9999999999876532 


Q ss_pred             CC----CCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCc--hhh--hhhchhhhhhceeEEEecCccc
Q psy2892         342 RG----ENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIM--SDL--RESGAIEQDADVILFIYRDEVY  413 (452)
Q Consensus       342 ~~----~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l--~dl--~~S~~ie~~aD~vl~l~r~~~~  413 (452)
                      .+    ..+...+..+++.|+.+++++|++||+++|.++..+.+    |..  ++.  .++..+++.||.+++|++.+  
T Consensus       137 ~~~~~~~~r~~~~~~~~~~l~~~~~~~~~tvi~~~h~~~~~~~~----~~~~~~~~~~~g~~~~~~~~d~vi~l~~~~--  210 (243)
T 1n0w_A          137 SGRGELSARQMHLARFLRMLLRLADEFGVAVVITNQVVAQVDGA----AMFAADPKKPIGGNIIAHASTTRLYLRKGR--  210 (243)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHHHHHHCCEEEEEC-----------------------------CCTTCEEEEEEECS--
T ss_pred             cCCccHHHHHHHHHHHHHHHHHHHHHcCCEEEEEeeeeecCCCc----cccCCCcccCCccChhhhcCcEEEEEEEcC--
Confidence            11    11122478899999999999999999999999876432    100  111  44557999999999998752  


Q ss_pred             ccCCCCCCeEEEEEeeccCCCcceEEEEEE
Q psy2892         414 NQNSADKGIAEIIVSKQRNGPIGNIRLTFS  443 (452)
Q Consensus       414 ~~~~~~~~~~~l~i~KnR~G~~g~~~l~f~  443 (452)
                            ...+.+.+.|+|+++.+.+.|...
T Consensus       211 ------~~~r~l~v~K~r~~~~~~~~f~I~  234 (243)
T 1n0w_A          211 ------GETRICKIYDSPCLPEAEAMFAIN  234 (243)
T ss_dssp             ------TTEEEEEECCBTTBSCEEEEEEEE
T ss_pred             ------CCeEEEEEEECCCCCCCeEEEEEe
Confidence                  125689999999999887555544

>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=99.88  E-value=9.9e-22  Score=191.61  Aligned_cols=208  Identities=17%  Similarity=0.177  Sum_probs=152.6

Q ss_pred             ccccccCcccccccc--CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCc
Q psy2892         194 VTGISTGFFELDKIT--SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQ  271 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~--gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~  271 (452)
                      ...+|||++.||.++  ||+++|++++|+|+||+|||+|+++++..++. .|.+|+|++.|++..+...+-    .|++.
T Consensus        39 ~~~i~TG~~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~-~gg~VlyId~E~s~~~~ra~r----lgv~~  113 (356)
T 3hr8_A           39 VEVIPTGSLAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQK-MGGVAAFIDAEHALDPVYAKN----LGVDL  113 (356)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHH-TTCCEEEEESSCCCCHHHHHH----HTCCG
T ss_pred             CceecCCCHHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHh-cCCeEEEEecccccchHHHHH----cCCch
Confidence            678999999999984  69999999999999999999999999999875 678999999999877653222    24432


Q ss_pred             cccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc-C---C-CCC--
Q psy2892         272 HKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA-N---S-RGE--  344 (452)
Q Consensus       272 ~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~-~---~-~~~--  344 (452)
                      .                         ++++..  ..+.+++...++.+.+..+ +++||||+++.+.+ .   . .++  
T Consensus       114 ~-------------------------~l~i~~--~~~~e~~l~~~~~l~~~~~-~dlvVIDSi~~l~~~~el~g~~G~~q  165 (356)
T 3hr8_A          114 K-------------------------SLLISQ--PDHGEQALEIVDELVRSGV-VDLIVVDSVAALVPRAEIEGAMGDMQ  165 (356)
T ss_dssp             G-------------------------GCEEEC--CSSHHHHHHHHHHHHHTSC-CSEEEEECTTTCCCHHHHTTCCCSSC
T ss_pred             h-------------------------hhhhhh--ccCHHHHHHHHHHHhhhcC-CCeEEehHhhhhcChhhhcccchhhH
Confidence            2                         233332  3467788888887776664 99999999998764 1   1 111  


Q ss_pred             --CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCC-CCC
Q psy2892         345 --NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSA-DKG  421 (452)
Q Consensus       345 --~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~-~~~  421 (452)
                        .....+..+++.|+.+|+++|++||+++|+......- ...|  ....|+..+++.+|+++.+.+.+.....+. ..+
T Consensus       166 ~~~qar~la~~L~~L~~lak~~~~tVI~inqv~~k~g~~-fg~p--~~~~GG~~l~h~~~~rl~l~k~~~~k~g~~~~g~  242 (356)
T 3hr8_A          166 VGLQARLMSQALRKIAGSVNKSKAVVIFTNQIRMKIGVM-FGSP--ETTTGGLALKFYATMRMEVRRGEPIKEGKDVIGN  242 (356)
T ss_dssp             SSHHHHHHHHHHHHHHHHHHTSSCEEEEEEESSSCSSSS-SCSC--SSCTHHHHHHHHCSEEEEEEEEEEEEETTEEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCEEEEEeeeeeccccc-cCCc--ccCCCcchhhhhCcEEEEEEeccccccCCccccc
Confidence              1235577888999999999999999999995322110 1122  345778889999999999988532211110 113


Q ss_pred             eEEEEEeeccCCCcce
Q psy2892         422 IAEIIVSKQRNGPIGN  437 (452)
Q Consensus       422 ~~~l~i~KnR~G~~g~  437 (452)
                      .+.+.+.|||.++++.
T Consensus       243 ~~~vkvvKnr~~~~~~  258 (356)
T 3hr8_A          243 VISVKIVKNKVAPPFK  258 (356)
T ss_dssp             EEEEEEEEESSSCCCC
T ss_pred             EEEEEEEeCCCCCCCc
Confidence            5789999999998775

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=99.87  E-value=5.6e-21  Score=176.60  Aligned_cols=215  Identities=21%  Similarity=0.214  Sum_probs=149.4

Q ss_pred             cccccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccc
Q psy2892         195 TGISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHK  273 (452)
Q Consensus       195 ~~i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~  273 (452)
                      .+++||++.||++. ||+++|++++|.|+||+|||+|+.+++...+. .+.+|+|++.|++..++..++.  ..+++...
T Consensus         3 ~~i~tg~~~Ld~~~~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~-~~~~v~~~~~~~~~~~~~~~~~--~~~~~~~~   79 (235)
T 2w0m_A            3 SRLSTGILDFDKLIQGGIPQGFFIALTGEPGTGKTIFSLHFIAKGLR-DGDPCIYVTTEESRDSIIRQAK--QFNWDFEE   79 (235)
T ss_dssp             CEECCSCHHHHGGGTTSEETTCEEEEECSTTSSHHHHHHHHHHHHHH-HTCCEEEEESSSCHHHHHHHHH--HTTCCCGG
T ss_pred             ccccCCchHHHHHhcCCCcCCCEEEEEcCCCCCHHHHHHHHHHHHHH-CCCeEEEEEcccCHHHHHHHHH--HhcchHHH
Confidence            37899999999996 69999999999999999999999999988865 4678999999999998888775  34555443


Q ss_pred             cccCCCCc-chHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCcc--EEEEcCcchhccCCCCCCHHHHH
Q psy2892         274 LRTGRLSS-DDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIG--VIIIDYLQLMSANSRGENRATEI  350 (452)
Q Consensus       274 i~~g~l~~-~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~--~vvID~l~~i~~~~~~~~~~~~~  350 (452)
                      +....+.- +.....      ..  +.++.+  ..+.+++...+.++...++ ++  ++|||+++.+....  .   ...
T Consensus        80 ~~~~~~~~~~~~~~~------~~--~~~~~~--~~~~~~~~~~~~~~~~~~~-~~~~llilDe~~~~~~~d--~---~~~  143 (235)
T 2w0m_A           80 YIEKKLIIIDALMKE------KE--DQWSLV--NLTPEELVNKVIEAKQKLG-YGKARLVIDSVSALFLDK--P---AMA  143 (235)
T ss_dssp             GBTTTEEEEECCC------------CTTBCS--SCCHHHHHHHHHHHHHHHC-SSCEEEEEETGGGGSSSC--G---GGH
T ss_pred             HhhCCEEEEeccccc------cC--ceeeec--CCCHHHHHHHHHHHHHhhC-CCceEEEEECchHhhcCC--H---HHH
Confidence            32211100 000000      00  111111  2377888877777776665 99  99999999875322  1   234


Q ss_pred             HHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeec
Q psy2892         351 SEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQ  430 (452)
Q Consensus       351 ~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~Kn  430 (452)
                      ..+++.|+.+++++|++||+++|..+... +.        +.  ..+++.||.|+.|++++..     .+....+.|.|+
T Consensus       144 ~~~~~~l~~~~~~~~~~vi~~~h~~~~~~-~~--------~~--~~~~~~~d~vi~l~~~~~~-----~~~~r~l~v~K~  207 (235)
T 2w0m_A          144 RKISYYLKRVLNKWNFTIYATSQYAITTS-QA--------FG--FGVEHVADGIIRFRRMIRN-----GELHRYILIEKM  207 (235)
T ss_dssp             HHHHHHHHHHHHHTTEEEEEEEC----------------------CHHHHCSEEEEEEEEEET-----TEEEEEEEEEEE
T ss_pred             HHHHHHHHHHHHhCCCeEEEEeccCcccc-cc--------cc--cchheeeeEEEEEEEEecC-----CcEEEEEEEEec
Confidence            67889999999999999999999986321 11        11  3688999999999987542     124578999999


Q ss_pred             cCCCcce--EEEEEEc
Q psy2892         431 RNGPIGN--IRLTFSG  444 (452)
Q Consensus       431 R~G~~g~--~~l~f~~  444 (452)
                      |+++.+.  ..|....
T Consensus       208 r~~~~~~~~~~f~i~~  223 (235)
T 2w0m_A          208 RQTDHDKHVWEIDIVN  223 (235)
T ss_dssp             TTCCCCCSCEEEEEET
T ss_pred             cCCcccceeEEEEEcC
Confidence            9988653  4555543

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=99.87  E-value=1.8e-21  Score=221.82  Aligned_cols=205  Identities=22%  Similarity=0.239  Sum_probs=155.5

Q ss_pred             HHHHHHHHHHHHHHHhCCC-------CCCCccccccCccccccccC--CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh
Q psy2892         171 QPLLNRVIKRINKLHNRGT-------NDNDVTGISTGFFELDKITS--GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE  241 (452)
Q Consensus       171 ~~~~~~~~~~i~~~~~~~~-------~~~~~~~i~tg~~~LD~~~g--G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~  241 (452)
                      .+++..+...++..+....       ......++|||++.||+++|  |+++|++++|+|+||+|||+||+|+|.+++. 
T Consensus       680 ~~~i~~a~~~i~~~f~~~~~~~l~~~~~~~~~~i~TG~~eLD~llggGGl~~G~lilIaG~PG~GKTtLalqlA~~~a~-  758 (2050)
T 3cmu_A          680 QKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQR-  758 (2050)
T ss_dssp             HHHHHHHHHHHHHHHCTTSEEEGGGCTTTSCCEECCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHT-
T ss_pred             HHHHHHHHHHHHHhhccccccchhhhhhcccceeecCChHHHHHhccCCcCCCcEEEEEcCCCCCHHHHHHHHHHHHHh-
Confidence            3455666666655432110       00256789999999999974  9999999999999999999999999999985 


Q ss_pred             CCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHH
Q psy2892         242 NKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSR  321 (452)
Q Consensus       242 ~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~  321 (452)
                      .+.+|+|||+||+..++..    ...|++.                         .++++.+  ..+++++.+.++++++
T Consensus       759 ~g~~VlyiS~Ees~~ql~A----~rlG~~~-------------------------~~l~i~~--~~~i~~i~~~~r~l~~  807 (2050)
T 3cmu_A          759 EGKTCAFIDAEHALDPIYA----RKLGVDI-------------------------DNLLCSQ--PDTGEQALEICDALAR  807 (2050)
T ss_dssp             TTCCEEEECTTSCCCHHHH----HHTTCCT-------------------------TTCEEEC--CSSHHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCcHHHHHH----HHcCCCc-------------------------cceEEec--CCCHHHHHHHHHHHhh
Confidence            5789999999999999852    2233321                         3677763  4789999999999988


Q ss_pred             HcCCccEEEEcCcchhcc-C---CCCCCH-----HHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhh
Q psy2892         322 QCGKIGVIIIDYLQLMSA-N---SRGENR-----ATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLR  392 (452)
Q Consensus       322 ~~~~~~~vvID~l~~i~~-~---~~~~~~-----~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~  392 (452)
                      +++ +++|||||||.+.. .   ....++     ..+++++++.|+.+|+++|||||+++|++|..+.-- ..|  ..-.
T Consensus       808 ~~~-~~LVIIDsLq~i~~~~~~~~~~Gs~~q~La~Reis~ilr~Lk~lAke~~v~VI~l~Qv~r~~e~~f-gdp--~~p~  883 (2050)
T 3cmu_A          808 SGA-VDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMF-GNP--ETTT  883 (2050)
T ss_dssp             HTC-CSEEEESCGGGCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHTTTCEEEEEECCEECTTCCS-SCC--EECS
T ss_pred             ccC-CCEEEEcchhhhcccccccCCCCchhhHHHHHHHHHHHHHHHHHHHHhCCEEEEeccccccchhhc-CCC--cccc
Confidence            875 99999999999975 1   111111     225888999999999999999999999999876421 112  1224


Q ss_pred             hhchhhhhhceeEEEecCc
Q psy2892         393 ESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       393 ~S~~ie~~aD~vl~l~r~~  411 (452)
                      |+..+.+.+++.+.|.|..
T Consensus       884 GG~~l~h~a~~Rl~Lrr~~  902 (2050)
T 3cmu_A          884 GGNALKFYASVRLDIRRIG  902 (2050)
T ss_dssp             SHHHHHHHEEEEEEEEEEE
T ss_pred             CCceeeeeeeEEEEEEeec
Confidence            5668999999999998863

>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=99.82  E-value=1.9e-19  Score=170.18  Aligned_cols=202  Identities=16%  Similarity=0.161  Sum_probs=130.8

Q ss_pred             ccccccCccccccc-c----CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-CCCcEEEEeCCCCHHHHHHHHHHHhC
Q psy2892         194 VTGISTGFFELDKI-T----SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-NKLPVAIFSMEMSGIQLAMRMLGSVG  267 (452)
Q Consensus       194 ~~~i~tg~~~LD~~-~----gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-~g~~vl~~s~E~~~~~i~~R~~a~~~  267 (452)
                      ...++||++.||.+ .    ||+++| ++.|+|+||+|||+|++|++.+++.+ .|.+|+||+.|.+..+.  |  +...
T Consensus         4 ~~risTGi~~LD~~LGg~~~GGl~~G-iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~--r--a~~l   78 (333)
T 3io5_A            4 MDVVRTKIPMMNIALSGEITGGMQSG-LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA--Y--LRSM   78 (333)
T ss_dssp             --CBCCSCHHHHHHHHSSTTCCBCSE-EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH--H--HHHT
T ss_pred             CCEecCCCHHHHHHhCCCCCCCCcCC-eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH--H--HHHh
Confidence            44799999999998 5    789999 99999999999999999999999754 27899999999987654  2  2234


Q ss_pred             CCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHH-HHHHHHH--HHHcCCccEEEEcCcchhccCC--C
Q psy2892         268 KLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIEL-RANSRRL--SRQCGKIGVIIIDYLQLMSANS--R  342 (452)
Q Consensus       268 ~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i-~~~i~~~--~~~~~~~~~vvID~l~~i~~~~--~  342 (452)
                      |++.+                         ++++..  ..+.+++ ...++.+  .+.. ++++||||+++.+.+..  .
T Consensus        79 Gvd~d-------------------------~llv~~--~~~~E~~~l~i~~~l~~i~~~-~~~lvVIDSI~aL~~~~eie  130 (333)
T 3io5_A           79 GVDPE-------------------------RVIHTP--VQSLEQLRIDMVNQLDAIERG-EKVVVFIDSLGNLASKKETE  130 (333)
T ss_dssp             TCCGG-------------------------GEEEEE--CSBHHHHHHHHHHHHHTCCTT-CCEEEEEECSTTCBCC----
T ss_pred             CCCHH-------------------------HeEEEc--CCCHHHHHHHHHHHHHHhhcc-CceEEEEecccccccchhcc
Confidence            55543                         234432  2367777 6655555  3333 59999999999987421  1


Q ss_pred             ---CC------CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCccc
Q psy2892         343 ---GE------NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVY  413 (452)
Q Consensus       343 ---~~------~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~  413 (452)
                         ++      .....+...++.|..+|+++||+||++.|+.+ ... .-..|..   -|...+ +.|.+-+.+.+-...
T Consensus       131 g~~gd~~~gsv~qaR~~s~~LrkL~~~ak~~~i~vi~tNQV~k-~G~-~fg~p~~---~GG~~l-~~ss~Rl~lrk~~~i  204 (333)
T 3io5_A          131 DALNEKVVSDMTRAKTMKSLFRIVTPYFSTKNIPCIAINHTYE-TQE-MFSKTVM---GGGTGP-MYSADTVFIIGKRQI  204 (333)
T ss_dssp             ----------CTHHHHHHHHHHHHHHHHHHTTCEEEEEEEC--------------------CCG-GGGSSEEEEEEEC--
T ss_pred             CccccccccHHHHHHHHHHHHHHHHHHHHHhCCEEEEECCeee-cCc-ccCCCCC---CCccee-eeeeEEEEEEecccc
Confidence               11      23345666677778889999999999999977 321 1123432   455567 888888888664432


Q ss_pred             ccC-CCCCCeEEEEEeeccCCC
Q psy2892         414 NQN-SADKGIAEIIVSKQRNGP  434 (452)
Q Consensus       414 ~~~-~~~~~~~~l~i~KnR~G~  434 (452)
                      .+. +.--+.+.+.+.|+|--+
T Consensus       205 k~~~~~~G~~~~v~~~k~kv~k  226 (333)
T 3io5_A          205 KDGSDLQGYQFVLNVEKSRTVK  226 (333)
T ss_dssp             --------CEEEEEEEECSSBC
T ss_pred             ccCCccEEeEEEEeEEEEEEcc
Confidence            211 111234677788888654

>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=99.81  E-value=4.8e-19  Score=163.40  Aligned_cols=202  Identities=16%  Similarity=0.221  Sum_probs=129.1

Q ss_pred             CccccccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCCC--HHHHHHHHHH
Q psy2892         193 DVTGISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEMS--GIQLAMRMLG  264 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~~--~~~i~~R~~a  264 (452)
                      .+..++||++.||+++ ||+++|+++.|.|+||+|||||+..++......     .+.+++|++.|..  ...+..... 
T Consensus         3 ~~~~i~tG~~~LD~~l~ggi~~G~~~~l~G~nGsGKSTll~~l~g~~~~~~~~g~~~~~~i~~~~~~~~~~~~i~~~~~-   81 (231)
T 4a74_A            3 TIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQ-   81 (231)
T ss_dssp             CCCEECCSCHHHHHHTTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHHHH-
T ss_pred             cCCccCCCChhHHhHhcCCCCCCcEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCEEEEEECCCCCCHHHHHHHHH-
Confidence            3568999999999986 899999999999999999999999999866431     2456999999975  444333322 


Q ss_pred             HhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCC-CCHHHHHHHHHHHHH-----HcCCccEEEEcCcchhc
Q psy2892         265 SVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPS-LNVIELRANSRRLSR-----QCGKIGVIIIDYLQLMS  338 (452)
Q Consensus       265 ~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~-~t~~~i~~~i~~~~~-----~~~~~~~vvID~l~~i~  338 (452)
                       ..++...             .   .   +.  ++.+..... .........+..+..     .. +++++++|+++...
T Consensus        82 -~~~~~~~-------------~---~---~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~llilDe~~~~l  138 (231)
T 4a74_A           82 -NRGLDPD-------------E---V---LK--HIYVARAFNSNHQMLLVQQAEDKIKELLNTDR-PVKLLIVDSLTSHF  138 (231)
T ss_dssp             -HTTSCHH-------------H---H---HH--TEEEEECCSHHHHHHHHHHHHHHHHHHTTSSS-CEEEEEEETSSHHH
T ss_pred             -HcCCCHH-------------H---H---hh--cEEEEecCChHHHHHHHHHHHHHHHHhcccCC-ceeEEEECChHHHh
Confidence             2222211             0   0   11  233322111 011111223333333     34 49999999998764


Q ss_pred             cCC-CCCC----HHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCccc
Q psy2892         339 ANS-RGEN----RATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVY  413 (452)
Q Consensus       339 ~~~-~~~~----~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~  413 (452)
                      ... ...+    +...+..+++.|+.++++.|++||+++|..+.               ++..+++.||.++++.+..  
T Consensus       139 ~~~~~~~~~~~~r~~~~~~~~~~l~~~~~~~g~tvi~vtH~~~~---------------~g~~~~~~~d~~l~l~~~~--  201 (231)
T 4a74_A          139 RSEYIGRGALAERQQKLAKHLADLHRLANLYDIAVFVTNQVQAN---------------GGHILAHSATLRVYLRKGK--  201 (231)
T ss_dssp             HHHSCSTTHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECC------------------------CCSEEEEEEECT--
T ss_pred             ccccCCCcchhHHHHHHHHHHHHHHHHHHHCCCeEEEEeecccC---------------cchhhHhhceEEEEEEecC--
Confidence            321 1111    22235688999999999999999999999874               3456889999999998742  


Q ss_pred             ccCCCCCCeEEEEEeeccCCCcceEEEE
Q psy2892         414 NQNSADKGIAEIIVSKQRNGPIGNIRLT  441 (452)
Q Consensus       414 ~~~~~~~~~~~l~i~KnR~G~~g~~~l~  441 (452)
                            .....+.+.|+|+|+.|.+.|.
T Consensus       202 ------~~~r~l~~~K~r~~~~~~~~f~  223 (231)
T 4a74_A          202 ------GGKRIARLIDAPHLPEGEAVFS  223 (231)
T ss_dssp             ------TSCEEEEEESCC--CCSCEEEE
T ss_pred             ------CCeEEEEEEeCCCCCCceEEEE
Confidence                  2357899999999999987443

>2r6a_C DNAG primase, helicase binding domain, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_G 1z8s_A*

Probab=99.77  E-value=2.5e-18  Score=146.83  Aligned_cols=126  Identities=15%  Similarity=0.121  Sum_probs=109.2

Q ss_pred             CCCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHHH
Q psy2892          14 VPPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSY   93 (452)
Q Consensus        14 ~~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~~   93 (452)
                      ..|++.+||++|||+||.+|+.+..+.+.| |+|||++.||.||++|.+++.+|.|+|+.+|.++|.+ + +     ..|
T Consensus         2 ~~p~~~~AE~~lL~~ll~~~~~~~~v~~~l-~~dF~~~~h~~If~~i~~l~~~~~~~d~~tl~~~l~~-~-~-----~~~   73 (143)
T 2r6a_C            2 LLPAFQNAERLLLAHMMRSRDVALVVQERI-GGRFNIEEHRALAAYIYAFYEEGHEADPGALISRIPG-E-L-----QPL   73 (143)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHC-CSCCSSHHHHHHHHHHHHHHTTSCCSCHHHHTTTSCS-S-S-----HHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHhc-cccCCcHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH-H-H-----HHH
Confidence            368999999999999999999999999999 9999999999999999999999999999999988865 3 2     347


Q ss_pred             HHHHHh-c---CCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCcchHHHHHHHH
Q psy2892          94 LNSLAQ-N---IPSAANIRRYAEIVRDRGILRKLITVTDEISSQAFISRGKEVKQILDEAE  150 (452)
Q Consensus        94 l~~l~~-~---~~~~~n~~~y~~~l~~~~~~R~l~~~~~~~~~~~~~~~~~~~~~~l~~~~  150 (452)
                      +..+.. .   .++..|+.+|+++|++.+.+|+++..+.++.+..+.   .|.+++++.+.
T Consensus        74 l~~l~~~~~~~~~~~~~i~~y~~~v~~~~~~r~l~~~~~~i~~~~~~---~d~~~~l~~~~  131 (143)
T 2r6a_C           74 ASELSLLLIADDVSEQELEDYIRHVLNRPKWLMLKVKEQEKTEAERR---KDFLTAARIAK  131 (143)
T ss_dssp             HHHHTTSCCCSSCCHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHT---TCHHHHHHHHH
T ss_pred             HHHHHHhhcCCcCCHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC---CCHHHHHHHHH
Confidence            777766 3   678899999999999999999999999999887653   36666665553

>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=99.76  E-value=1.2e-17  Score=163.59  Aligned_cols=216  Identities=15%  Similarity=0.214  Sum_probs=140.7

Q ss_pred             ccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh--C---CCcEEEEeCCCC--HHHHHHHHHHH
Q psy2892         194 VTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE--N---KLPVAIFSMEMS--GIQLAMRMLGS  265 (452)
Q Consensus       194 ~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~--~---g~~vl~~s~E~~--~~~i~~R~~a~  265 (452)
                      ...++||++.||.+ .||+++|+++.|.|+||+|||+|+.+++...+..  .   +.+|+||+.|.+  ++++...  +.
T Consensus       110 ~~~isTG~~~LD~lL~ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i~~i--~q  187 (349)
T 1pzn_A          110 IGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIREI--AQ  187 (349)
T ss_dssp             CCEECCSCHHHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHHHHH--HH
T ss_pred             CCeecCCCHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHHHHH--HH
Confidence            45799999999998 5799999999999999999999999999986421  1   357899999986  3333322  22


Q ss_pred             hCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCC-CCHHHHHHHHHHHHHHc----CCccEEEEcCcchhccC
Q psy2892         266 VGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPS-LNVIELRANSRRLSRQC----GKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       266 ~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~-~t~~~i~~~i~~~~~~~----~~~~~vvID~l~~i~~~  340 (452)
                      ..+++...                    +. .++++..... ....++...++.+....    .++++||||+++.....
T Consensus       188 ~~~~~~~~--------------------v~-~ni~~~~~~~~~~~~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta~ld~  246 (349)
T 1pzn_A          188 NRGLDPDE--------------------VL-KHIYVARAFNSNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRS  246 (349)
T ss_dssp             TTTCCHHH--------------------HG-GGEEEEECCSHHHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSSTTHHH
T ss_pred             HcCCCHHH--------------------Hh-hCEEEEecCChHHHHHHHHHHHHHHHHhccccCCCCEEEEeCchHhhhh
Confidence            22222111                    11 1344432211 11234445555665552    24999999999976532


Q ss_pred             C-CCC----CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCccccc
Q psy2892         341 S-RGE----NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQ  415 (452)
Q Consensus       341 ~-~~~----~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~  415 (452)
                      . .+.    .+...+..+++.|+.+++++|++||+++|.....+...+ .|  ....++..+++.+|.++.+.+...   
T Consensus       247 ~~~~~~~~~~r~~~~~~~l~~L~~la~~~~~tvii~~h~~~~~~~~~~-~~--~~~~~G~~l~~~~~~rL~l~~~~~---  320 (349)
T 1pzn_A          247 EYIGRGALAERQQKLAKHLADLHRLANLYDIAVFVTNQVQARPDAFFG-DP--TRPIGGHILAHSATLRVYLRKGKG---  320 (349)
T ss_dssp             HCCSTTTHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECC------------------CCCCCTTCSEEEEEEECTT---
T ss_pred             hhcccccHHHHHHHHHHHHHHHHHHHHHcCcEEEEEcccccccccccC-Cc--cccCCcceEeecCcEEEEEEEcCC---
Confidence            1 111    123457889999999999999999999998764431100 11  123456678999999999987531   


Q ss_pred             CCCCCCeEEEEEeeccCCCcceEEEEEE
Q psy2892         416 NSADKGIAEIIVSKQRNGPIGNIRLTFS  443 (452)
Q Consensus       416 ~~~~~~~~~l~i~KnR~G~~g~~~l~f~  443 (452)
                           ..+.+.+.|+|+++.|...|...
T Consensus       321 -----~~Ri~k~~ks~~~~~~~~~f~It  343 (349)
T 1pzn_A          321 -----GKRIARLIDAPHLPEGEAVFSIT  343 (349)
T ss_dssp             -----SEEEEEESCSSSSCCSEEEEEEE
T ss_pred             -----CeEEEEEEeCCCCCCeEEEEEEc
Confidence                 35688999999999888655443

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=99.69  E-value=5.1e-16  Score=144.47  Aligned_cols=223  Identities=12%  Similarity=-0.064  Sum_probs=138.3

Q ss_pred             ccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCcccc
Q psy2892         196 GISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKL  274 (452)
Q Consensus       196 ~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i  274 (452)
                      .++||++.||++ .||+++|.+++|.|.||+|||+|++|++.+.+. +|.+|+||++|+++.++..++.+  .|+|...+
T Consensus         2 ~i~tGi~~LD~~l~GGl~~gs~~li~g~p~~~~~~l~~qfl~~g~~-~Ge~~~~~~~~e~~~~l~~~~~~--~G~dl~~~   78 (260)
T 3bs4_A            2 SLSWEIEELDREIGKIKKHSLILIHEEDASSRGKDILFYILSRKLK-SDNLVGMFSISYPLQLIIRILSR--FGVDVIKY   78 (260)
T ss_dssp             CBCCSSHHHHHHHCCBCTTCEEEEEECSGGGCHHHHHHHHHHHHHH-TTCEEEEEECSSCHHHHHHHHHH--TTCCHHHH
T ss_pred             cCccCcHHHHHHhCCCCCCCcEEEEEeCCCccHHHHHHHHHHHHHH-CCCcEEEEEEeCCHHHHHHHHHH--cCCCHHHH
Confidence            479999999998 688999999999999999999999999999975 79999999999999999999875  68888765


Q ss_pred             -ccCCCCcchHHHHHHHHHHHhCCCeEEEcCC-CCCHHHHHHHHHHHHHH----------cCCcc-EEEEcCcchhccCC
Q psy2892         275 -RTGRLSSDDWPRINDSIKKINKSQLYIDETP-SLNVIELRANSRRLSRQ----------CGKIG-VIIIDYLQLMSANS  341 (452)
Q Consensus       275 -~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~-~~t~~~i~~~i~~~~~~----------~~~~~-~vvID~l~~i~~~~  341 (452)
                       .+|.+..-+..  ......-...+. +...+ .++++++...++++...          .+..+ ++|||+|..+..-.
T Consensus        79 ~~~g~l~i~d~~--~~~~~~~~~~~~-v~~~~~e~d~~~l~~~i~~iv~~~~~~~~i~~~~~~~rvv~vidsldsl~~~~  155 (260)
T 3bs4_A           79 LENHRLAIVDTF--GSFHGIKATMPG-VWYLEGMLSSETLPIKYAKAVEDHKKVWMDLNLFEGRELYGFAISMSGYLEVF  155 (260)
T ss_dssp             HHTTSEEEECHH--HHHHTC---CTT-EECCCSCCCTTTHHHHHHHHHHHHHHHHHHTTCSTTCCEEEEEETGGGGGGTS
T ss_pred             hhCCcEEEEEcc--cccccccccccc-eecccccCCHHHHHHHHHHHHHhhccccchhhccCCceEEEEEeecchHHHHh
Confidence             45554332210  000000000111 11122 45555664444444433          23244 45888877666432


Q ss_pred             CCCCHHHHHHHHHHHHHH-----HHHH-hCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCccccc
Q psy2892         342 RGENRATEISEISRNLKG-----LAKE-INCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQ  415 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~-----lA~~-~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~  415 (452)
                         ........+...+..     +.++ .+++.+++.+ ....          ..  ....+...||.||.+...+..  
T Consensus       156 ---~~~~~~~~~~~ll~~~~~~~~~~~~~~~ttil~~~-~~~~----------~~--~~~~l~~laD~VI~lr~~e~~--  217 (260)
T 3bs4_A          156 ---TPEETLRYLETSAEVRYGHPAYKKYPRGTNFWLWE-GVKD----------KR--VLLSVYRRADYVLKTRSSLGE--  217 (260)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHCHHHHSSCCCEEEEEEE-SCSC----------HH--HHHHHHHHCSEEEEEEEEEET--
T ss_pred             ---ChhhHHHHHHHHHHhhhhHHHHhccCCcEEEEEEC-CCcc----------cc--cccceEEEeeEEEEEEEEecC--
Confidence               222222222222222     3334 7877777765 3211          01  123567789999999765421  


Q ss_pred             CCCCCCeEEEEEeeccCCCc--ceEEEEEEcC
Q psy2892         416 NSADKGIAEIIVSKQRNGPI--GNIRLTFSGQ  445 (452)
Q Consensus       416 ~~~~~~~~~l~i~KnR~G~~--g~~~l~f~~~  445 (452)
                         ..-...|.|.|.|.+..  +.-.+.|...
T Consensus       218 ---g~~rR~L~V~K~Rg~~~~~~~re~~i~~~  246 (260)
T 3bs4_A          218 ---NGIKRELLVIKTPKPIEELVRFEYEFKGN  246 (260)
T ss_dssp             ---TEEEEEEEEEECCC-----CEEEEEEETT
T ss_pred             ---CceEEEEEEEECCCCCcCCceEEEEEecC
Confidence               12246899999998754  3335777654

>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=99.66  E-value=1.8e-15  Score=156.61  Aligned_cols=203  Identities=19%  Similarity=0.180  Sum_probs=143.4

Q ss_pred             CccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCc
Q psy2892         193 DVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQ  271 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~  271 (452)
                      ...+++||++.||.+ .||+++|+++.|.|+||+|||+|+.+++...+. .|.+|+|+++|.+..++..++..  .|++.
T Consensus       259 ~~~~l~~g~~~ld~vL~g~i~~G~i~~i~G~~GsGKSTLl~~l~g~~~~-~G~~vi~~~~ee~~~~l~~~~~~--~g~~~  335 (525)
T 1tf7_A          259 SNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACA-NKERAILFAYEESRAQLLRNAYS--WGMDF  335 (525)
T ss_dssp             CCCEECCSCHHHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHT-TTCCEEEEESSSCHHHHHHHHHT--TSCCH
T ss_pred             ccceeecChHHHHHHhCCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHh-CCCCEEEEEEeCCHHHHHHHHHH--cCCCH
Confidence            345789999999997 578999999999999999999999999988764 58899999999999888877632  22221


Q ss_pred             cccccCCCCcchHHHHHHHHHHHhCCCeEEEc--CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHH
Q psy2892         272 HKLRTGRLSSDDWPRINDSIKKINKSQLYIDE--TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATE  349 (452)
Q Consensus       272 ~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~--~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~  349 (452)
                                +   .+      .....+.+.+  ...++..+....+.......+ ++++|+|+++.+....  .. .+ 
T Consensus       336 ----------~---~~------~~~g~~~~~~~~p~~LS~g~~q~~~~a~~l~~~-p~llilDp~~~Ld~~~--~~-~~-  391 (525)
T 1tf7_A          336 ----------E---EM------ERQNLLKIVCAYPESAGLEDHLQIIKSEINDFK-PARIAIDSLSALARGV--SN-NA-  391 (525)
T ss_dssp             ----------H---HH------HHTTSEEECCCCGGGSCHHHHHHHHHHHHHTTC-CSEEEEECHHHHTSSS--CH-HH-
T ss_pred             ----------H---HH------HhCCCEEEEEeccccCCHHHHHHHHHHHHHhhC-CCEEEEcChHHHHhhC--Ch-HH-
Confidence                      1   11      1112344433  234677777776666655564 9999999999887653  22 22 


Q ss_pred             HHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhh-chhhhhhceeEEEecCcccccCCCCCCeEEEEEe
Q psy2892         350 ISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRES-GAIEQDADVILFIYRDEVYNQNSADKGIAEIIVS  428 (452)
Q Consensus       350 ~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S-~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~  428 (452)
                      ....+..|...+++.|++||+++|.....+          .+.++ ..+++.||.|+.|+.-+..     ....+.+.+.
T Consensus       392 ~~~~i~~ll~~l~~~g~tvilvsh~~~~~~----------~~~~~~~~l~~~~D~vi~L~~ge~~-----~~~~R~l~v~  456 (525)
T 1tf7_A          392 FRQFVIGVTGYAKQEEITGLFTNTSDQFMG----------AHSITDSHISTITDTIILLQYVEIR-----GEMSRAINVF  456 (525)
T ss_dssp             HHHHHHHHHHHHHHTTCEEEEEEECSSSSC----------CCSSCSSCCTTTCSEEEEEEEEEET-----TEEEEEEEEE
T ss_pred             HHHHHHHHHHHHHhCCCEEEEEECcccccC----------cccccCcccceeeeEEEEEEEEEeC-----CEEEEEEEEE
Confidence            444445555555678999999999763211          12233 4578899999999765421     2235789999


Q ss_pred             eccCCCcce
Q psy2892         429 KQRNGPIGN  437 (452)
Q Consensus       429 KnR~G~~g~  437 (452)
                      |+|.|+...
T Consensus       457 K~R~~~~~~  465 (525)
T 1tf7_A          457 KMRGSWHDK  465 (525)
T ss_dssp             EESSSCCCC
T ss_pred             ECCCCCCCC
Confidence            999998743

>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=99.36  E-value=1.1e-12  Score=124.81  Aligned_cols=124  Identities=16%  Similarity=0.176  Sum_probs=88.7

Q ss_pred             ccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC--CCCHHHHHHHHHHHhCCCCccc
Q psy2892         196 GISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM--EMSGIQLAMRMLGSVGKLDQHK  273 (452)
Q Consensus       196 ~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~--E~~~~~i~~R~~a~~~~i~~~~  273 (452)
                      .++||++.||+++||+++|.+++|.|+||+|||+|+++++.+    .|.+|+|+++  +.+              ++.  
T Consensus       105 ~i~TGi~~LD~lLGGi~~gsviLI~GpPGsGKTtLAlqlA~~----~G~~VlyIs~~~eE~--------------v~~--  164 (331)
T 2vhj_A          105 ELVGCSPVVAEFGGHRYASGMVIVTGKGNSGKTPLVHALGEA----LGGKDKYATVRFGEP--------------LSG--  164 (331)
T ss_dssp             TCCSBCCEEEEETTEEEESEEEEEECSCSSSHHHHHHHHHHH----HHTTSCCEEEEBSCS--------------STT--
T ss_pred             ccccCcHHHHHHhCCCCCCcEEEEEcCCCCCHHHHHHHHHHh----CCCCEEEEEecchhh--------------hhh--
Confidence            367999999998899999999999999999999999999886    3678999999  333              110  


Q ss_pred             cccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCC----CHHHH
Q psy2892         274 LRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGE----NRATE  349 (452)
Q Consensus       274 i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~----~~~~~  349 (452)
                      ..                               ...+++...+.+...+.   ++||||+++.+.......    ...+.
T Consensus       165 ~~-------------------------------~~le~~l~~i~~~l~~~---~LLVIDsI~aL~~~~~~~s~~G~v~~~  210 (331)
T 2vhj_A          165 YN-------------------------------TDFNVFVDDIARAMLQH---RVIVIDSLKNVIGAAGGNTTSGGISRG  210 (331)
T ss_dssp             CB-------------------------------CCHHHHHHHHHHHHHHC---SEEEEECCTTTC-----------CCHH
T ss_pred             hh-------------------------------cCHHHHHHHHHHHHhhC---CEEEEecccccccccccccccchHHHH
Confidence            00                               12334444444443432   299999999986533110    11345


Q ss_pred             HHHHHHHHHHHHHHhCCcEEEEec
Q psy2892         350 ISEISRNLKGLAKEINCPILALSQ  373 (452)
Q Consensus       350 ~~~i~~~Lk~lA~~~~i~vi~l~q  373 (452)
                      +.+++..|..++++.|++++++.+
T Consensus       211 lrqlL~~L~~~~k~~gvtVIlttn  234 (331)
T 2vhj_A          211 AFDLLSDIGAMAASRGCVVIASLN  234 (331)
T ss_dssp             HHHHHHHHHHHHHHHTCEEEEECC
T ss_pred             HHHHHHHHHHHHhhCCCEEEEEeC
Confidence            788899999999999999888754

>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=99.19  E-value=1.1e-09  Score=113.01  Aligned_cols=201  Identities=17%  Similarity=0.169  Sum_probs=123.6

Q ss_pred             CccccccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCc
Q psy2892         193 DVTGISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQ  271 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~  271 (452)
                      ....+++|.+.||.+. |++++|+++.|.|++|+|||||+.+++...+...+..++|++.+.+..++..+.  ...|+..
T Consensus        17 ~~~~~~~g~~~Ld~i~~G~i~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~~~~~g~i~v~g~~~~~~~~~~~--~~~g~~~   94 (525)
T 1tf7_A           17 AIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNA--RSFGWDL   94 (525)
T ss_dssp             SCCEECCCCTTHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHHHH--GGGTCCH
T ss_pred             ccccccCCchhHHHhcCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEEeCCHHHHHHHH--HHcCCCh
Confidence            3567899999999995 599999999999999999999999986555444467799999998876655433  2233332


Q ss_pred             cccccCCCCcchHHHHHHHHHHHhCCCeEEEcC----------CCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         272 HKLRTGRLSSDDWPRINDSIKKINKSQLYIDET----------PSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       272 ~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~----------~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                      ....                  . ..+++....          ..+.++++...+-...... ++++|++|....+.+..
T Consensus        95 q~~~------------------~-~~~l~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LS~g-~~~~lilDe~t~~~~~~  154 (525)
T 1tf7_A           95 AKLV------------------D-EGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKY-RARRVSIDSVTSVFQQY  154 (525)
T ss_dssp             HHHH------------------H-TTSEEEEECCCCSSCCSCCSSHHHHHHHHHHHHHHHHH-TCSEEEEECSTTTSTTT
T ss_pred             HHhh------------------c-cCcEEEEecCcccchhhhhcccCHHHHHHHHHHHHHHc-CCCEEEECCHHHHHHhc
Confidence            2110                  0 012222210          1122334333332222333 58999999998766532


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCC
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKG  421 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~  421 (452)
                        .........+.+.++.+.+ .|++||+++|--....          +....+..+..||.|+.|......     ...
T Consensus       155 --~lD~~~~~~l~~ll~~l~~-~g~tvl~itH~~~~~~----------~~~~~~i~~~laD~vi~L~~~~~~-----G~~  216 (525)
T 1tf7_A          155 --DASSVVRRELFRLVARLKQ-IGATTVMTTERIEEYG----------PIARYGVEEFVSDNVVILRNVLEG-----ERR  216 (525)
T ss_dssp             --CCHHHHHHHHHHHHHHHHH-HTCEEEEEEECSSSSS----------CSSTTSCHHHHCSEEEEEEEECST-----TCC
T ss_pred             --CCHHHHHHHHHHHHHHHHH-CCCEEEEEecCCCCcc----------ccccccceeeeeeEEEEEEEEccC-----Cce
Confidence              2233334455566666654 6999999998754321          000011135669999999764321     123


Q ss_pred             eEEEEEeeccCC
Q psy2892         422 IAEIIVSKQRNG  433 (452)
Q Consensus       422 ~~~l~i~KnR~G  433 (452)
                      ...+.+.|.|..
T Consensus       217 ~r~l~~~k~r~~  228 (525)
T 1tf7_A          217 RRTLEILKLRGT  228 (525)
T ss_dssp             EEEEEEEEETTS
T ss_pred             eEEEEEEECCCC
Confidence            456778888853

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=98.86  E-value=3.4e-09  Score=96.35  Aligned_cols=141  Identities=16%  Similarity=0.092  Sum_probs=88.2

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSI  291 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~  291 (452)
                      .+|.+++++|+||+||||.+++++.+++ ..|.+|++++.+.+..  ....++...|++..                   
T Consensus        10 ~~G~i~litG~mGsGKTT~ll~~~~r~~-~~g~kVli~~~~~d~r--~~~~i~srlG~~~~-------------------   67 (223)
T 2b8t_A           10 KIGWIEFITGPMFAGKTAELIRRLHRLE-YADVKYLVFKPKIDTR--SIRNIQSRTGTSLP-------------------   67 (223)
T ss_dssp             -CCEEEEEECSTTSCHHHHHHHHHHHHH-HTTCCEEEEEECCCGG--GCSSCCCCCCCSSC-------------------
T ss_pred             CCcEEEEEECCCCCcHHHHHHHHHHHHH-hcCCEEEEEEeccCch--HHHHHHHhcCCCcc-------------------
Confidence            5788999999999999999999999996 4789999998877632  11111111111110                   


Q ss_pred             HHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEE
Q psy2892         292 KKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL  371 (452)
Q Consensus       292 ~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l  371 (452)
                            .+.+     .+..++.+.++...... ++++|+||.+|.+..            ...+.|..++. .+++||++
T Consensus        68 ------~~~~-----~~~~~i~~~i~~~~~~~-~~dvViIDEaQ~l~~------------~~ve~l~~L~~-~gi~Vil~  122 (223)
T 2b8t_A           68 ------SVEV-----ESAPEILNYIMSNSFND-ETKVIGIDEVQFFDD------------RICEVANILAE-NGFVVIIS  122 (223)
T ss_dssp             ------CEEE-----SSTHHHHHHHHSTTSCT-TCCEEEECSGGGSCT------------HHHHHHHHHHH-TTCEEEEE
T ss_pred             ------cccc-----CCHHHHHHHHHHHhhCC-CCCEEEEecCccCcH------------HHHHHHHHHHh-CCCeEEEE
Confidence                  1112     12345555544332222 489999999997542            23445566666 49999999


Q ss_pred             ecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEe
Q psy2892         372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIY  408 (452)
Q Consensus       372 ~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~  408 (452)
                      .+... ...    +|    +..+..+-..||.|.-|.
T Consensus       123 Gl~~d-f~~----~~----F~~~~~Ll~lAD~V~el~  150 (223)
T 2b8t_A          123 GLDKN-FKG----EP----FGPIAKLFTYADKITKLT  150 (223)
T ss_dssp             CCSBC-TTS----SB----CTTHHHHHHHCSEEEECC
T ss_pred             ecccc-ccC----Cc----CCCcHHHHHHhheEeecc
Confidence            87542 111    11    223456667899998764

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=98.18  E-value=8.6e-07  Score=78.23  Aligned_cols=136  Identities=18%  Similarity=0.168  Sum_probs=78.0

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK  292 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~  292 (452)
                      +|.+.++.|++|+|||+++++++.++. ..|.+|++++.+.+.     |.     +..  .+.+. +.            
T Consensus         2 ~g~i~vi~G~~gsGKTT~ll~~~~~~~-~~g~~v~~~~~~~d~-----r~-----~~~--~i~s~-~g------------   55 (184)
T 2orw_A            2 SGKLTVITGPMYSGKTTELLSFVEIYK-LGKKKVAVFKPKIDS-----RY-----HST--MIVSH-SG------------   55 (184)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHH-HTTCEEEEEEEC---------------CCC--EECC----------------
T ss_pred             ccEEEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEeecccc-----cc-----Ccc--cEEec-CC------------
Confidence            578999999999999999999999886 468899999877542     21     110  11100 00            


Q ss_pred             HHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEe
Q psy2892         293 KINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALS  372 (452)
Q Consensus       293 ~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~  372 (452)
                       +.-..+.+.     +..++...+.     . +.++||||.+|.+..            .+...|+.++.+ +++|++..
T Consensus        56 -~~~~~~~~~-----~~~~~~~~~~-----~-~~dvviIDE~Q~~~~------------~~~~~l~~l~~~-~~~Vi~~G  110 (184)
T 2orw_A           56 -NGVEAHVIE-----RPEEMRKYIE-----E-DTRGVFIDEVQFFNP------------SLFEVVKDLLDR-GIDVFCAG  110 (184)
T ss_dssp             --CEECEEES-----SGGGGGGGCC-----T-TEEEEEECCGGGSCT------------THHHHHHHHHHT-TCEEEEEE
T ss_pred             -CceeeEEEC-----CHHHHHHHhc-----C-CCCEEEEECcccCCH------------HHHHHHHHHHHC-CCCEEEEe
Confidence             000011111     1222222111     1 489999999998642            134466667666 99999887


Q ss_pred             cCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEe
Q psy2892         373 QLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIY  408 (452)
Q Consensus       373 ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~  408 (452)
                      .... .     +.|   -+..+..+-..||.|.-+.
T Consensus       111 l~~~-f-----~~~---~f~~~~~ll~~ad~v~~l~  137 (184)
T 2orw_A          111 LDLT-H-----KQN---PFETTALLLSLADTVIKKK  137 (184)
T ss_dssp             ESBC-T-----TSC---BCHHHHHHHHHCSEEEECC
T ss_pred             eccc-c-----ccC---CccchHHHHHHhhheEEee
Confidence            6321 1     111   1333445556688886553

>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=98.15  E-value=8.8e-06  Score=71.17  Aligned_cols=41  Identities=20%  Similarity=0.321  Sum_probs=34.8

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .+|..++|.|+||+|||+++..++..+....|..|+|++..
T Consensus        36 ~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~~~~   76 (180)
T 3ec2_A           36 EEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTK   76 (180)
T ss_dssp             GGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEEEHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEEEHH
Confidence            45789999999999999999999988864578889997643

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=98.05  E-value=2.9e-05  Score=69.99  Aligned_cols=41  Identities=22%  Similarity=0.252  Sum_probs=35.7

Q ss_pred             CCCcE-EEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         212 QPGDL-IIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       212 ~~G~l-~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      .+|.+ +++.|+||+|||+++++++..++. .|.+|+++..+.
T Consensus         3 ~~g~l~I~~~~kgGvGKTt~a~~la~~l~~-~G~~V~v~d~D~   44 (228)
T 2r8r_A            3 ARGRLKVFLGAAPGVGKTYAMLQAAHAQLR-QGVRVMAGVVET   44 (228)
T ss_dssp             CCCCEEEEEESSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCC
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHHHHHHH-CCCCEEEEEeCC
Confidence            35666 778999999999999999999975 799999998886

>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=98.03  E-value=0.00035  Score=69.51  Aligned_cols=119  Identities=12%  Similarity=0.059  Sum_probs=70.1

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHH--HHHHhCCCCccccccCCCCcchHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMR--MLGSVGKLDQHKLRTGRLSSDDWPRINDS  290 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R--~~a~~~~i~~~~i~~g~l~~~~~~~~~~a  290 (452)
                      ++.+++++|++|+||||++..+|..++. .|.+|++++++.-.......  .++...|++......+ .++  ......+
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~-~G~kVllv~~D~~r~~a~eqL~~~~~~~gv~~~~~~~~-~dp--~~i~~~a  171 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKK-RGYKVGLVAADVYRPAAYDQLLQLGNQIGVQVYGEPNN-QNP--IEIAKKG  171 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHH-TTCCEEEEEECCSCHHHHHHHHHHHHTTTCCEECCTTC-SCH--HHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH-cCCeEEEEecCccchhHHHHHHHHHHhcCCceeecccc-CCH--HHHHHHH
Confidence            5779999999999999999999999864 78999999988654333322  2334456654432221 111  1223345


Q ss_pred             HHHHh--CCCeEEEcCCCC-C---HHHHHHHHHHHHHHcC-CccEEEEcCcc
Q psy2892         291 IKKIN--KSQLYIDETPSL-N---VIELRANSRRLSRQCG-KIGVIIIDYLQ  335 (452)
Q Consensus       291 ~~~l~--~~~l~i~~~~~~-t---~~~i~~~i~~~~~~~~-~~~~vvID~l~  335 (452)
                      ...+.  +..+.|.|+++. .   -..+...+..+.+... ..-++|+|...
T Consensus       172 l~~a~~~~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~  223 (433)
T 3kl4_A          172 VDIFVKNKMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASI  223 (433)
T ss_dssp             HHHTTTTTCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGG
T ss_pred             HHHHHhcCCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCcc
Confidence            55554  456666666543 1   1223333333333222 24577888753

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=98.02  E-value=1.7e-05  Score=70.93  Aligned_cols=138  Identities=13%  Similarity=0.149  Sum_probs=79.4

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDS  290 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a  290 (452)
                      -.+|.+.+++|+.|+|||+.+++.+.++. ..|.+|++|....+.+.-...+.+ ..|+....+.               
T Consensus        25 ~~~G~l~vitG~MgsGKTT~lL~~a~r~~-~~g~kVli~k~~~d~R~ge~~i~s-~~g~~~~a~~---------------   87 (214)
T 2j9r_A           25 NQNGWIEVICGSMFSGKSEELIRRVRRTQ-FAKQHAIVFKPCIDNRYSEEDVVS-HNGLKVKAVP---------------   87 (214)
T ss_dssp             CCSCEEEEEECSTTSCHHHHHHHHHHHHH-HTTCCEEEEECC------------------CCEEE---------------
T ss_pred             CCCCEEEEEECCCCCcHHHHHHHHHHHHH-HCCCEEEEEEeccCCcchHHHHHh-hcCCeeEEee---------------
Confidence            35689999999999999999999999996 579999999765543211111111 1122211110               


Q ss_pred             HHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEE
Q psy2892         291 IKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILA  370 (452)
Q Consensus       291 ~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~  370 (452)
                                + ..    ..++.+.+.      +++++|+||-.|.+...            .+..|..++.+ +++||+
T Consensus        88 ----------~-~~----~~~~~~~~~------~~~dvViIDEaQF~~~~------------~V~~l~~l~~~-~~~Vi~  133 (214)
T 2j9r_A           88 ----------V-SA----SKDIFKHIT------EEMDVIAIDEVQFFDGD------------IVEVVQVLANR-GYRVIV  133 (214)
T ss_dssp             ----------C-SS----GGGGGGGCC------SSCCEEEECCGGGSCTT------------HHHHHHHHHHT-TCEEEE
T ss_pred             ----------c-CC----HHHHHHHHh------cCCCEEEEECcccCCHH------------HHHHHHHHhhC-CCEEEE
Confidence                      0 00    012221111      14899999999986531            12456666654 999998


Q ss_pred             EecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEe
Q psy2892         371 LSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIY  408 (452)
Q Consensus       371 l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~  408 (452)
                      ..- ..+...    +|    +.++..+-..||.|.-|.
T Consensus       134 ~Gl-~~DF~~----~~----F~~~~~Ll~~AD~Vtel~  162 (214)
T 2j9r_A          134 AGL-DQDFRG----LP----FGQVPQLMAIAEHVTKLQ  162 (214)
T ss_dssp             EEC-SBCTTS----CB----CTTHHHHHHHCSEEEECC
T ss_pred             Eec-cccccc----Cc----cccHHHHHHhcccEEeee
Confidence            763 222211    12    344666778899987764

>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=98.02  E-value=0.00075  Score=67.17  Aligned_cols=145  Identities=10%  Similarity=0.091  Sum_probs=78.8

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHH--HHHHHhCCCCccccccCCCCcchHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAM--RMLGSVGKLDQHKLRTGRLSSDDWPRINDS  290 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~--R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a  290 (452)
                      ++.+++++|+||+||||++..+|..++ +.|.+|++++++.-......  +.++...+++......+   .+-..-+.++
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~-~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~~~~~---~dp~~i~~~a  174 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQ-KRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQE---KDAIKLAKEG  174 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHH-TTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEECCTTC---CCHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHH-HCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEecCCC---CCHHHHHHHH
Confidence            457999999999999999999999886 47999999998854322222  23344455554322111   1111222344


Q ss_pred             HHHHhC--CCeEEEcCCCCC--HHHHHHHHHHHHHHcC-CccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhC
Q psy2892         291 IKKINK--SQLYIDETPSLN--VIELRANSRRLSRQCG-KIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEIN  365 (452)
Q Consensus       291 ~~~l~~--~~l~i~~~~~~t--~~~i~~~i~~~~~~~~-~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~  365 (452)
                      +..+..  ..+.|.|+++..  -..+...++.+..... ..-++|+|...-       .+.       ....+.+....+
T Consensus       175 l~~a~~~~~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~g-------q~a-------~~~a~~f~~~~~  240 (443)
T 3dm5_A          175 VDYFKSKGVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIG-------QQA-------YNQALAFKEATP  240 (443)
T ss_dssp             HHHHHHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGG-------GGH-------HHHHHHHHHSCT
T ss_pred             HHHHHhCCCCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCc-------hhH-------HHHHHHHHhhCC
Confidence            444432  456665654432  1233333433332221 234666775431       111       112244445567


Q ss_pred             CcEEEEecCC
Q psy2892         366 CPILALSQLN  375 (452)
Q Consensus       366 i~vi~l~ql~  375 (452)
                      +..+++..+.
T Consensus       241 i~gVIlTKlD  250 (443)
T 3dm5_A          241 IGSIIVTKLD  250 (443)
T ss_dssp             TEEEEEECCS
T ss_pred             CeEEEEECCC
Confidence            7777776654

>1xx6_A Thymidine kinase; NESG, northeast structural genomics consortium, protein STRU initiative, PSI, structural genomics, DNA synthesis; HET: ADP; 2.00A {Clostridium acetobutylicum} SCOP: c.37.1.24 g.39.1.14

Probab=97.97  E-value=1.8e-05  Score=69.93  Aligned_cols=137  Identities=15%  Similarity=0.159  Sum_probs=80.4

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCcccccc-CCCCcchHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRT-GRLSSDDWPRIND  289 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~-g~l~~~~~~~~~~  289 (452)
                      ..+|.+.++.|++|+|||+.+++++.++. ..|.+|+++....+.     |.     +.  ..+.+ ..++.        
T Consensus         5 ~~~g~i~v~~G~mgsGKTT~ll~~a~r~~-~~g~kV~v~k~~~d~-----r~-----~~--~~i~s~~g~~~--------   63 (191)
T 1xx6_A            5 KDHGWVEVIVGPMYSGKSEELIRRIRRAK-IAKQKIQVFKPEIDN-----RY-----SK--EDVVSHMGEKE--------   63 (191)
T ss_dssp             TTCCEEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEEEC-------------------CEEECTTSCEE--------
T ss_pred             CCCCEEEEEECCCCCcHHHHHHHHHHHHH-HCCCEEEEEEeccCc-----cc-----hH--HHHHhhcCCce--------
Confidence            35688999999999999999999999986 578999999754331     11     00  00100 00000        


Q ss_pred             HHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEE
Q psy2892         290 SIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPIL  369 (452)
Q Consensus       290 a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi  369 (452)
                             ..+.+. ..    .++.+.+.      ++.++|+||-.|.+..            .....|+.++.. +++||
T Consensus        64 -------~a~~~~-~~----~~i~~~~~------~~~dvViIDEaqfl~~------------~~v~~l~~l~~~-~~~Vi  112 (191)
T 1xx6_A           64 -------QAVAIK-NS----REILKYFE------EDTEVIAIDEVQFFDD------------EIVEIVNKIAES-GRRVI  112 (191)
T ss_dssp             -------ECEEES-SS----THHHHHCC------TTCSEEEECSGGGSCT------------HHHHHHHHHHHT-TCEEE
T ss_pred             -------eeEeeC-CH----HHHHHHHh------ccCCEEEEECCCCCCH------------HHHHHHHHHHhC-CCEEE
Confidence                   011111 11    23333221      1389999999988542            123466777665 99999


Q ss_pred             EEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEe
Q psy2892         370 ALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIY  408 (452)
Q Consensus       370 ~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~  408 (452)
                      +... ..+...    +|    +.++..+-..||.|.-+.
T Consensus       113 ~~Gl-~~df~~----~~----F~~~~~L~~~AD~V~el~  142 (191)
T 1xx6_A          113 CAGL-DMDFRG----KP----FGPIPELMAIAEFVDKIQ  142 (191)
T ss_dssp             EEEC-SBCTTS----CB----CTTHHHHHHHCSEEEECC
T ss_pred             EEec-cccccc----Cc----CccHHHHHHHcccEEeee
Confidence            9753 222211    12    344667778899986653

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=97.91  E-value=1.3e-05  Score=70.54  Aligned_cols=131  Identities=12%  Similarity=0.135  Sum_probs=81.7

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHH---HHHHHHHHhCCCCccccccCCCCcchHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQ---LAMRMLGSVGKLDQHKLRTGRLSSDDWPRIN  288 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~---i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~  288 (452)
                      ..|.+.+|.|+.|+|||+.+++.+.+... .+.+|+||+.+.+.+.   +..|+-     .                   
T Consensus        18 ~~g~l~fiyG~MgsGKTt~Ll~~i~n~~~-~~~kvl~~kp~~D~R~~~~i~S~~g-----~-------------------   72 (195)
T 1w4r_A           18 TRGQIQVILGPMFSGKSTELMRRVRRFQI-AQYKCLVIKYAKDTRYSSSFCTHDR-----N-------------------   72 (195)
T ss_dssp             -CCEEEEEEECTTSCHHHHHHHHHHHHHH-TTCCEEEEEETTCCCGGGSCCHHHH-----H-------------------
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHHHHHH-cCCeEEEEccccCccchhhhhhccC-----C-------------------
Confidence            35889999999999999999999998864 6899999998755321   111110     0                   


Q ss_pred             HHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcE
Q psy2892         289 DSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPI  368 (452)
Q Consensus       289 ~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~v  368 (452)
                            .-.-+.+.     +.+++...   .   . ++++|+||-.|.+ .    +        +...+..++ +.|++|
T Consensus        73 ------~~~A~~~~-----~~~d~~~~---~---~-~~DvIlIDEaQFf-k----~--------~ve~~~~L~-~~gk~V  120 (195)
T 1w4r_A           73 ------TMEALPAC-----LLRDVAQE---A---L-GVAVIGIDEGQFF-P----D--------IVEFCEAMA-NAGKTV  120 (195)
T ss_dssp             ------HSEEEEES-----SGGGGHHH---H---H-TCSEEEESSGGGC-T----T--------HHHHHHHHH-HTTCEE
T ss_pred             ------cccceecC-----CHHHHHHh---c---c-CCCEEEEEchhhh-H----H--------HHHHHHHHH-HCCCeE
Confidence                  00001111     12234332   1   1 4899999999998 2    1        123446666 789998


Q ss_pred             EEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEe
Q psy2892         369 LALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIY  408 (452)
Q Consensus       369 i~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~  408 (452)
                      |+.. +..+...+    |    +.++..+-..||.|.-|.
T Consensus       121 I~~G-L~~DF~~~----~----F~~~~~Ll~~Ad~v~kl~  151 (195)
T 1w4r_A          121 IVAA-LDGTFQRK----P----FGAILNLVPLAESVVKLT  151 (195)
T ss_dssp             EEEE-ESBCTTSS----B----CTTGGGGGGGCSEEEECC
T ss_pred             EEEe-cccccccc----c----chhHHHHHHhcCeEEEee
Confidence            8876 33333221    2    344566677889887654

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=97.87  E-value=0.012  Score=55.73  Aligned_cols=44  Identities=16%  Similarity=0.193  Sum_probs=37.4

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      .+.+|+++.|.|++|+||||++..++..... .+.+|++...+..
T Consensus        96 ~~~~g~vi~lvG~nGsGKTTll~~Lag~l~~-~~g~V~l~g~d~~  139 (302)
T 3b9q_A           96 GFRKPAVIMIVGVNGGGKTTSLGKLAHRLKN-EGTKVLMAAGDTF  139 (302)
T ss_dssp             CSSSCEEEEEECCTTSCHHHHHHHHHHHHHH-TTCCEEEECCCCS
T ss_pred             ccCCCcEEEEEcCCCCCHHHHHHHHHHHHHH-cCCeEEEEeeccc
Confidence            3678999999999999999999999988754 5678998877654

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=97.87  E-value=0.0011  Score=63.58  Aligned_cols=144  Identities=14%  Similarity=0.144  Sum_probs=80.8

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH---HHHHHHHHHHhCCCCccccccCCCCcchHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG---IQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~---~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~  287 (452)
                      -.+|+++.|.|++|+||||++..++.... ..+.+|++...+...   .+.. +.++...|++...-..+ +.+.  ..+
T Consensus       126 ~~~g~vi~lvG~nGaGKTTll~~Lag~l~-~~~g~V~l~g~D~~r~~a~eql-~~~~~~~gv~~v~q~~~-~~p~--~~v  200 (328)
T 3e70_C          126 AEKPYVIMFVGFNGSGKTTTIAKLANWLK-NHGFSVVIAASDTFRAGAIEQL-EEHAKRIGVKVIKHSYG-ADPA--AVA  200 (328)
T ss_dssp             SCSSEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEEECCSSTTHHHHH-HHHHHHTTCEEECCCTT-CCHH--HHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHH-hcCCEEEEEeecccccchHHHH-HHHHHHcCceEEecccc-CCHH--HHH
Confidence            46899999999999999999999998775 467789998877532   2212 22233455543221111 2211  112


Q ss_pred             HHHHHH--HhCCCeEEEcCCCC------CHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHH
Q psy2892         288 NDSIKK--INKSQLYIDETPSL------NVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKG  359 (452)
Q Consensus       288 ~~a~~~--l~~~~l~i~~~~~~------t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~  359 (452)
                      .+++..  ..+..+.+.|..+.      .+.++....+.+ .  ....+.++|....              ..+...++.
T Consensus       201 ~e~l~~~~~~~~d~vliDtaG~~~~~~~l~~eL~~i~ral-~--~de~llvLDa~t~--------------~~~~~~~~~  263 (328)
T 3e70_C          201 YDAIQHAKARGIDVVLIDTAGRSETNRNLMDEMKKIARVT-K--PNLVIFVGDALAG--------------NAIVEQARQ  263 (328)
T ss_dssp             HHHHHHHHHHTCSEEEEEECCSCCTTTCHHHHHHHHHHHH-C--CSEEEEEEEGGGT--------------THHHHHHHH
T ss_pred             HHHHHHHHhccchhhHHhhccchhHHHHHHHHHHHHHHHh-c--CCCCEEEEecHHH--------------HHHHHHHHH
Confidence            222211  12334444443322      123333322222 1  1356778885321              134456677


Q ss_pred             HHHHhCCcEEEEecCCc
Q psy2892         360 LAKEINCPILALSQLNR  376 (452)
Q Consensus       360 lA~~~~i~vi~l~ql~r  376 (452)
                      +.++.++.+++++++..
T Consensus       264 ~~~~~~it~iilTKlD~  280 (328)
T 3e70_C          264 FNEAVKIDGIILTKLDA  280 (328)
T ss_dssp             HHHHSCCCEEEEECGGG
T ss_pred             HHHhcCCCEEEEeCcCC
Confidence            88889999999998753

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=97.84  E-value=3.1e-05  Score=72.61  Aligned_cols=178  Identities=18%  Similarity=0.237  Sum_probs=91.2

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-C--CHHHHH--HHHHHHhCCCCcccccc
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-M--SGIQLA--MRMLGSVGKLDQHKLRT  276 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~--~~~~i~--~R~~a~~~~i~~~~i~~  276 (452)
                      ..|+.+.--+++|+++.|.|++|+|||||+.-++--..  .....+++..+ .  +.....  .+-++....-+...+..
T Consensus        22 ~~L~~isl~i~~Ge~~~iiGpnGsGKSTLl~~l~Gl~~--p~~G~I~~~G~~i~~~~~~~~~~~~~ig~v~Q~~~~~~~~   99 (275)
T 3gfo_A           22 HALKGINMNIKRGEVTAILGGNGVGKSTLFQNFNGILK--PSSGRILFDNKPIDYSRKGIMKLRESIGIVFQDPDNQLFS   99 (275)
T ss_dssp             EEEEEEEEEEETTSEEEEECCTTSSHHHHHHHHTTSSC--CSEEEEEETTEECCCSHHHHHHHHHSEEEECSSGGGTCCS
T ss_pred             eEEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHHcCCC--CCCeEEEECCEECCcccccHHHHhCcEEEEEcCccccccc
Confidence            35777755689999999999999999999987764321  11122333322 1  222111  11111111110000000


Q ss_pred             -------------CCCCcch-HHHHHHHHHHHhCCCeEEEcCCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         277 -------------GRLSSDD-WPRINDSIKKINKSQLYIDETPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       277 -------------g~l~~~~-~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                                   ..++..+ .+++.++.+.+.-..+.-.....+|-.+-+.  .++.+  -. +|+++++|--..    
T Consensus       100 ~tv~e~l~~~~~~~~~~~~~~~~~~~~~l~~~~L~~~~~~~~~~LSgGqkQRv~iAraL--~~-~P~lLlLDEPts----  172 (275)
T 3gfo_A          100 ASVYQDVSFGAVNMKLPEDEIRKRVDNALKRTGIEHLKDKPTHCLSFGQKKRVAIAGVL--VM-EPKVLILDEPTA----  172 (275)
T ss_dssp             SBHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTTCGGGTTSBGGGSCHHHHHHHHHHHHH--TT-CCSEEEEECTTT----
T ss_pred             CcHHHHHHHHHHHcCCCHHHHHHHHHHHHHHcCCchhhcCCcccCCHHHHHHHHHHHHH--Hc-CCCEEEEECccc----
Confidence                         0122221 2334444443321111001123456554433  33333  23 499999998432    


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         341 SRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       341 ~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                        +-+. .....+.+.|+.++++.|++||+++|--.                   .+++.||.|++|..-
T Consensus       173 --~LD~-~~~~~i~~~l~~l~~~~g~tvi~vtHdl~-------------------~~~~~~drv~~l~~G  220 (275)
T 3gfo_A          173 --GLDP-MGVSEIMKLLVEMQKELGITIIIATHDID-------------------IVPLYCDNVFVMKEG  220 (275)
T ss_dssp             --TCCH-HHHHHHHHHHHHHHHHHCCEEEEEESCCS-------------------SGGGGCSEEEEEETT
T ss_pred             --cCCH-HHHHHHHHHHHHHHhhCCCEEEEEecCHH-------------------HHHHhCCEEEEEECC
Confidence              2222 23456778888887555999999988432                   245568888888643

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=97.84  E-value=0.00018  Score=65.88  Aligned_cols=177  Identities=14%  Similarity=0.177  Sum_probs=93.2

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC----CCCHHHHHH---HHHHHhCCCCc---
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM----EMSGIQLAM---RMLGSVGKLDQ---  271 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~----E~~~~~i~~---R~~a~~~~i~~---  271 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++--..  ....-+++..    .++..+...   +.++....-+.   
T Consensus        19 ~~L~~isl~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~~--p~~G~I~~~g~~~~~~~~~~~~~~~~~~i~~v~Q~~~l~~   96 (235)
T 3tif_A           19 YALKNVNLNIKEGEFVSIMGPSGSGKSTMLNIIGCLDK--PTEGEVYIDNIKTNDLDDDELTKIRRDKIGFVFQQFNLIP   96 (235)
T ss_dssp             EEEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTSSC--CSEEEEEETTEECTTCCHHHHHHHHHHHEEEECTTCCCCT
T ss_pred             eeEEeeeEEEcCCCEEEEECCCCCcHHHHHHHHhcCCC--CCceEEEECCEEcccCCHHHHHHHhhccEEEEecCCccCC
Confidence            35777755699999999999999999999876654321  1112233322    234444322   11221111000   


Q ss_pred             c-ccc-----------cCCCCc-chHHHHHHHHHHHhCCCeEEE-cCCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcc
Q psy2892         272 H-KLR-----------TGRLSS-DDWPRINDSIKKINKSQLYID-ETPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQ  335 (452)
Q Consensus       272 ~-~i~-----------~g~l~~-~~~~~~~~a~~~l~~~~l~i~-~~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~  335 (452)
                      . .+.           .+..+. +..+++.+..+.+.-...... ....+|-.+-+.  .++.+.  . +|+++++|--.
T Consensus        97 ~~tv~enl~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~~LSgGq~QRv~iAral~--~-~p~llllDEPt  173 (235)
T 3tif_A           97 LLTALENVELPLIFKYRGAMSGEERRKRALECLKMAELEERFANHKPNQLSGGQQQRVAIARALA--N-NPPIILADQPT  173 (235)
T ss_dssp             TSCHHHHHHHHHHTCSSSCCCHHHHHHHHHHHHHHTTCCGGGTTCCGGGSCHHHHHHHHHHHHHT--T-CCSEEEEESTT
T ss_pred             CCcHHHHHHHHHHhhhccCCCHHHHHHHHHHHHHHCCCChhhhhCChhhCCHHHHHHHHHHHHHH--c-CCCEEEEeCCc
Confidence            0 000           011221 122333333333321111101 123456554433  333332  3 49999999853


Q ss_pred             hhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         336 LMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       336 ~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      .      +-+. .....+.+.|+.++++.+.+||+++|--.                    +...||.|+.|..-
T Consensus       174 s------~LD~-~~~~~i~~~l~~l~~~~g~tvi~vtHd~~--------------------~~~~~d~i~~l~~G  221 (235)
T 3tif_A          174 W------ALDS-KTGEKIMQLLKKLNEEDGKTVVVVTHDIN--------------------VARFGERIIYLKDG  221 (235)
T ss_dssp             T------TSCH-HHHHHHHHHHHHHHHHHCCEEEEECSCHH--------------------HHTTSSEEEEEETT
T ss_pred             c------cCCH-HHHHHHHHHHHHHHHHcCCEEEEEcCCHH--------------------HHHhCCEEEEEECC
Confidence            2      1222 23457788888898888999999988311                    23468999999654

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.82  E-value=6.1e-05  Score=63.79  Aligned_cols=40  Identities=20%  Similarity=0.175  Sum_probs=34.5

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      +|+.++|.|++|+|||+++.-++.... ..|.+++|++.+.
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~-~~g~~~~~~~~~~   74 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQAL-EAGKNAAYIDAAS   74 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHH-TTTCCEEEEETTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHH-hcCCcEEEEcHHH
Confidence            899999999999999999999988775 3677899987653

>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=97.80  E-value=0.0002  Score=70.15  Aligned_cols=118  Identities=14%  Similarity=0.060  Sum_probs=68.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhC-CCcEEEEeCCC--CHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIEN-KLPVAIFSMEM--SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK  292 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~-g~~vl~~s~E~--~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~  292 (452)
                      .++|.|+||+|||+++..++.... .. +.+++|+++..  +...+...+.... +...                     
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~~-~~~~~~~~~i~~~~~~~~~~~~~~l~~~l-~~~~---------------------  102 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELYK-DKTTARFVYINGFIYRNFTAIIGEIARSL-NIPF---------------------  102 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT-TSCCCEEEEEETTTCCSHHHHHHHHHHHT-TCCC---------------------
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHh-hhcCeeEEEEeCccCCCHHHHHHHHHHHh-CccC---------------------
Confidence            799999999999999999887764 23 57889988533  3445555544321 2110                     


Q ss_pred             HHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHH--hCCcEEE
Q psy2892         293 KINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKE--INCPILA  370 (452)
Q Consensus       293 ~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~--~~i~vi~  370 (452)
                                .....+..++...+..+....+++.+||||.++.+..        ..+..+.+.+..+...  .++++|+
T Consensus       103 ----------~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~--------~~~~~L~~~~~~~~~~~~~~~~iI~  164 (389)
T 1fnn_A          103 ----------PRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAP--------DILSTFIRLGQEADKLGAFRIALVI  164 (389)
T ss_dssp             ----------CSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCH--------HHHHHHHHHTTCHHHHSSCCEEEEE
T ss_pred             ----------CCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccch--------HHHHHHHHHHHhCCCCCcCCEEEEE
Confidence                      0112234444444444443333478999999887721        1222333333322221  4788888


Q ss_pred             EecC
Q psy2892         371 LSQL  374 (452)
Q Consensus       371 l~ql  374 (452)
                      +++.
T Consensus       165 ~~~~  168 (389)
T 1fnn_A          165 VGHN  168 (389)
T ss_dssp             EESS
T ss_pred             EECC
Confidence            7654

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=97.79  E-value=0.02  Score=55.48  Aligned_cols=43  Identities=14%  Similarity=0.146  Sum_probs=37.1

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      +.+|+++.|.|++|+||||++..++..... .+.+|++...+..
T Consensus       154 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~~-~~G~V~l~g~D~~  196 (359)
T 2og2_A          154 FRKPAVIMIVGVNGGGKTTSLGKLAHRLKN-EGTKVLMAAGDTF  196 (359)
T ss_dssp             SSSSEEEEEECCTTSCHHHHHHHHHHHHHH-TTCCEEEECCCCS
T ss_pred             cCCCeEEEEEcCCCChHHHHHHHHHhhccc-cCCEEEEeccccc
Confidence            678999999999999999999999988754 5778999887754

>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=97.78  E-value=0.0016  Score=61.66  Aligned_cols=40  Identities=15%  Similarity=0.214  Sum_probs=36.2

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      |.++.+.|++|+||||++.++|...+. .|.+|++++.+..
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~-~g~~v~l~~~D~~  137 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKK-KGFKVGLVGADVY  137 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHH-TTCCEEEEECCCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHH-CCCeEEEEecCCC
Confidence            789999999999999999999999875 6899999999854

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.77  E-value=0.0022  Score=63.90  Aligned_cols=146  Identities=14%  Similarity=0.204  Sum_probs=79.2

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHH--HHHHhCCCCccccccCCCCcchHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMR--MLGSVGKLDQHKLRTGRLSSDDWPRINDSI  291 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R--~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~  291 (452)
                      ..+++++|.+|+||||++.++|..++.+.|++|+.++++.-.......  ..+...+++.-.... ..++.+  .+..++
T Consensus       100 ~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~~r~~a~~ql~~~~~~~~l~v~~~~~-~~dp~~--i~~~~l  176 (433)
T 2xxa_A          100 PAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDV-GQKPVD--IVNAAL  176 (433)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCCSSTTHHHHHHHHHHHHTCEECCCCS-SSCHHH--HHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCCCCccHHHHHHhhcccCCeeEEeCCC-CCCHHH--HHHHHH
Confidence            457888899999999999999999975339999999999532211111  122234444321111 122222  224455


Q ss_pred             HHHh--CCCeEEEcCCC-CCH-HHHHHHHHHHHHHcC-CccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCC
Q psy2892         292 KKIN--KSQLYIDETPS-LNV-IELRANSRRLSRQCG-KIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINC  366 (452)
Q Consensus       292 ~~l~--~~~l~i~~~~~-~t~-~~i~~~i~~~~~~~~-~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i  366 (452)
                      ..+.  +..+.|.|+++ ... +.+...+..+..... ..-++|+|...   .    .+-       ...++.+....++
T Consensus       177 ~~~~~~~~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~---g----~~~-------~~~~~~f~~~l~i  242 (433)
T 2xxa_A          177 KEAKLKFYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMT---G----QDA-------ANTAKAFNEALPL  242 (433)
T ss_dssp             HHHHHTTCSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTB---C----TTH-------HHHHHHHHHHSCC
T ss_pred             HHHHhCCCCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecch---h----HHH-------HHHHHHHhccCCC
Confidence            5543  44666666654 332 344444444433222 13355678632   1    111       1223444456777


Q ss_pred             cEEEEecCCc
Q psy2892         367 PILALSQLNR  376 (452)
Q Consensus       367 ~vi~l~ql~r  376 (452)
                      ..++++.+..
T Consensus       243 ~gvVlnK~D~  252 (433)
T 2xxa_A          243 TGVVLTKVDG  252 (433)
T ss_dssp             CCEEEECTTS
T ss_pred             eEEEEecCCC
Confidence            7777777654

>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=97.77  E-value=0.0026  Score=63.12  Aligned_cols=145  Identities=15%  Similarity=0.178  Sum_probs=80.7

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHH--HHHHHhCCCCccccccCCCCcchHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAM--RMLGSVGKLDQHKLRTGRLSSDDWPRINDS  290 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~--R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a  290 (452)
                      +|.++.++|++|+||||++..+|...+. .|.+|+++.++........  +.++...+++.-....+ .++.+.  +.++
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~-~g~~Vllvd~D~~r~aa~~qL~~~~~~~gv~v~~~~~~-~~p~~i--~~~~  172 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKG-KGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDG-ESPESI--RRRV  172 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHT-TTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTT-CCHHHH--HHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH-cCCeEEEeeccccCchhHHHHHHhcccCCccEEecCCC-CCHHHH--HHHH
Confidence            6789999999999999999999999874 6899999999865432221  22333345554221111 122222  2445


Q ss_pred             HHHH--hCCCeEEEcCCCC-CH-HHHHHHHHHHHHHcC-CccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhC
Q psy2892         291 IKKI--NKSQLYIDETPSL-NV-IELRANSRRLSRQCG-KIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEIN  365 (452)
Q Consensus       291 ~~~l--~~~~l~i~~~~~~-t~-~~i~~~i~~~~~~~~-~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~  365 (452)
                      ++.+  .+..+.|.|+++. .. ..+...+..+..... ..-++|+|...    .   .       .....++.+....+
T Consensus       173 l~~~~~~~~DvVIIDTaG~l~~d~~l~~el~~i~~~~~pd~vlLVvDa~t----g---q-------~av~~a~~f~~~l~  238 (425)
T 2ffh_A          173 EEKARLEARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMT----G---Q-------EALSVARAFDEKVG  238 (425)
T ss_dssp             HHHHHHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGG----T---T-------HHHHHHHHHHHHTC
T ss_pred             HHHHHHCCCCEEEEcCCCcccccHHHHHHHHHhhhccCCceEEEEEeccc----h---H-------HHHHHHHHHHhcCC
Confidence            5555  3445666665532 21 223333333322211 23467777631    1   1       11123345555677


Q ss_pred             CcEEEEecCC
Q psy2892         366 CPILALSQLN  375 (452)
Q Consensus       366 i~vi~l~ql~  375 (452)
                      +..++++.+.
T Consensus       239 i~GVIlTKlD  248 (425)
T 2ffh_A          239 VTGLVLTKLD  248 (425)
T ss_dssp             CCEEEEESGG
T ss_pred             ceEEEEeCcC
Confidence            8888887764

>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=97.75  E-value=0.00049  Score=66.81  Aligned_cols=179  Identities=13%  Similarity=0.134  Sum_probs=93.0

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe---CCCCHHHHHH--HHHHHhCCCC----cc
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS---MEMSGIQLAM--RMLGSVGKLD----QH  272 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s---~E~~~~~i~~--R~~a~~~~i~----~~  272 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++.-. .-....|.+..   ..++..++..  |-++....-.    ..
T Consensus        42 ~aL~~vsl~i~~Gei~~IiGpnGaGKSTLlr~i~GL~-~p~~G~I~i~G~~i~~~~~~~~~~~r~~Ig~v~Q~~~l~~~~  120 (366)
T 3tui_C           42 QALNNVSLHVPAGQIYGVIGASGAGKSTLIRCVNLLE-RPTEGSVLVDGQELTTLSESELTKARRQIGMIFQHFNLLSSR  120 (366)
T ss_dssp             EEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSS-CCSEEEEEETTEECSSCCHHHHHHHHTTEEEECSSCCCCTTS
T ss_pred             EEEEeeEEEEcCCCEEEEEcCCCchHHHHHHHHhcCC-CCCceEEEECCEECCcCCHHHHHHHhCcEEEEeCCCccCCCC
Confidence            4577775568999999999999999999977665422 11111233211   1223333211  1111111000    00


Q ss_pred             ccc--------cCCCCc-chHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         273 KLR--------TGRLSS-DDWPRINDSIKKINKSQLYIDETPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       273 ~i~--------~g~l~~-~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                      .+.        ....+. +..+++.++.+.+.-....-.....+|-.+-..  .++.+.  . +|++++.|--..     
T Consensus       121 TV~env~~~~~~~~~~~~~~~~~v~~lL~~vgL~~~~~~~~~~LSGGqkQRVaIArAL~--~-~P~lLLlDEPTs-----  192 (366)
T 3tui_C          121 TVFGNVALPLELDNTPKDEVKRRVTELLSLVGLGDKHDSYPSNLSGGQKQRVAIARALA--S-NPKVLLCDQATS-----  192 (366)
T ss_dssp             CHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCGGGTTCCTTTSCHHHHHHHHHHHHTT--T-CCSEEEEESTTT-----
T ss_pred             CHHHHHHHHHHhcCCCHHHHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHHh--c-CCCEEEEECCCc-----
Confidence            000        001121 122344444444321111001123566554433  233332  3 599999998532     


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                       +-+. .....+...|+.+.++.|++||+++|--.                   .+.+.||.|++|..-
T Consensus       193 -~LD~-~~~~~i~~lL~~l~~~~g~Tii~vTHdl~-------------------~~~~~aDrv~vl~~G  240 (366)
T 3tui_C          193 -ALDP-ATTRSILELLKDINRRLGLTILLITHEMD-------------------VVKRICDCVAVISNG  240 (366)
T ss_dssp             -TSCH-HHHHHHHHHHHHHHHHSCCEEEEEESCHH-------------------HHHHHCSEEEEEETT
T ss_pred             -cCCH-HHHHHHHHHHHHHHHhCCCEEEEEecCHH-------------------HHHHhCCEEEEEECC
Confidence             1222 23457788899999999999999998321                   355668888877653

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=97.75  E-value=6.3e-05  Score=70.21  Aligned_cols=179  Identities=12%  Similarity=0.094  Sum_probs=95.7

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC----CCCHHHHHHHHHHHhCCCC-------
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM----EMSGIQLAMRMLGSVGKLD-------  270 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~----E~~~~~i~~R~~a~~~~i~-------  270 (452)
                      +.|+.+.--+.+|+++.|.|++|+|||||+.-++--..- ....| ++..    ..+..++.. .++....-+       
T Consensus        25 ~vL~~vsl~i~~Ge~~~liG~nGsGKSTLl~~l~Gl~~p-~~G~I-~~~g~~~~~~~~~~~~~-~i~~v~q~~~~~~~~t  101 (266)
T 4g1u_C           25 ALINDVSLHIASGEMVAIIGPNGAGKSTLLRLLTGYLSP-SHGEC-HLLGQNLNSWQPKALAR-TRAVMRQYSELAFPFS  101 (266)
T ss_dssp             EEEEEEEEEEETTCEEEEECCTTSCHHHHHHHHTSSSCC-SSCEE-EETTEETTTSCHHHHHH-HEEEECSCCCCCSCCB
T ss_pred             eEEEeeEEEEcCCCEEEEECCCCCcHHHHHHHHhcCCCC-CCcEE-EECCEECCcCCHHHHhh-eEEEEecCCccCCCCC
Confidence            456666445899999999999999999998877653311 12233 3332    233333322 222111100       


Q ss_pred             ccc-cccC--CC-CcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHH--HHHHHHHHH----cCCccEEEEcCcchhccC
Q psy2892         271 QHK-LRTG--RL-SSDDWPRINDSIKKINKSQLYIDETPSLNVIELR--ANSRRLSRQ----CGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       271 ~~~-i~~g--~l-~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~--~~i~~~~~~----~~~~~~vvID~l~~i~~~  340 (452)
                      ... +.-+  .. ..+..+++.++.+.+.-..+.-.....+|-.+-.  ..++.+...    .+ |+++++|--..    
T Consensus       102 v~e~l~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSgGq~QRv~iAraL~~~~~~~~~-p~lLllDEPts----  176 (266)
T 4g1u_C          102 VSEVIQMGRAPYGGSQDRQALQQVMAQTDCLALAQRDYRVLSGGEQQRVQLARVLAQLWQPQPT-PRWLFLDEPTS----  176 (266)
T ss_dssp             HHHHHHGGGTTSCSTTHHHHHHHHHHHTTCSTTTTSBGGGCCHHHHHHHHHHHHHHHTCCSSCC-CEEEEECCCCS----
T ss_pred             HHHHHHhhhhhcCcHHHHHHHHHHHHHcCChhHhcCCcccCCHHHHHHHHHHHHHhcccccCCC-CCEEEEeCccc----
Confidence            000 0000  01 1223344555555442111100011245654433  344444430    13 99999998432    


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         341 SRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       341 ~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                        +-+. .....+.+.|+.++++.+++||+++|--.                   .+.+.||.|++|..-
T Consensus       177 --~LD~-~~~~~i~~~l~~l~~~~~~tvi~vtHdl~-------------------~~~~~~d~v~vl~~G  224 (266)
T 4g1u_C          177 --ALDL-YHQQHTLRLLRQLTRQEPLAVCCVLHDLN-------------------LAALYADRIMLLAQG  224 (266)
T ss_dssp             --SCCH-HHHHHHHHHHHHHHHHSSEEEEEECSCHH-------------------HHHHHCSEEEEEETT
T ss_pred             --cCCH-HHHHHHHHHHHHHHHcCCCEEEEEEcCHH-------------------HHHHhCCEEEEEECC
Confidence              2222 23457788888998888889999988321                   356678999988754

>3e2i_A Thymidine kinase; Zn-binding, ATP-binding, DNA synthesis, nucleotide-B transferase; HET: MSE; 2.01A {Staphylococcus aureus}

Probab=97.75  E-value=7.2e-05  Score=66.77  Aligned_cols=138  Identities=14%  Similarity=0.137  Sum_probs=83.4

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDS  290 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a  290 (452)
                      -..|.+.+|+|+-|+|||+.+++.+.++. ..|.+|++|....+...-... ++...|+....+                
T Consensus        25 ~~~G~I~vitG~M~sGKTT~Llr~~~r~~-~~g~kvli~kp~~D~R~~~~~-I~Sr~G~~~~a~----------------   86 (219)
T 3e2i_A           25 YHSGWIECITGSMFSGKSEELIRRLRRGI-YAKQKVVVFKPAIDDRYHKEK-VVSHNGNAIEAI----------------   86 (219)
T ss_dssp             --CCEEEEEEECTTSCHHHHHHHHHHHHH-HTTCCEEEEEEC------------CBTTBCCEEE----------------
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHHHHH-HcCCceEEEEeccCCcchhhh-HHHhcCCceeeE----------------
Confidence            35688999999999999999999988875 578999999877654322222 222233222211                


Q ss_pred             HHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEE
Q psy2892         291 IKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILA  370 (452)
Q Consensus       291 ~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~  370 (452)
                               .+.+     ..+|...+     . +++++|+||-.|.+..            .+...|..+| +.|++|++
T Consensus        87 ---------~v~~-----~~di~~~i-----~-~~~dvV~IDEaQFf~~------------~~v~~l~~la-~~gi~Vi~  133 (219)
T 3e2i_A           87 ---------NISK-----ASEIMTHD-----L-TNVDVIGIDEVQFFDD------------EIVSIVEKLS-ADGHRVIV  133 (219)
T ss_dssp             ---------EESS-----GGGGGGSC-----C-TTCSEEEECCGGGSCT------------HHHHHHHHHH-HTTCEEEE
T ss_pred             ---------EeCC-----HHHHHHHH-----h-cCCCEEEEechhcCCH------------HHHHHHHHHH-HCCCEEEE
Confidence                     1111     11222111     1 1489999999998753            3456778888 68999888


Q ss_pred             EecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEe
Q psy2892         371 LSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIY  408 (452)
Q Consensus       371 l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~  408 (452)
                      .. |..+...    +|    +.++..+-..||.|.-|.
T Consensus       134 ~G-Ld~DF~~----~~----F~~~~~Ll~~Ad~v~kl~  162 (219)
T 3e2i_A          134 AG-LDMDFRG----EP----FEPMPKLMAVSEQVTKLQ  162 (219)
T ss_dssp             EE-ESBCTTS----CB----CTTHHHHHHHCSEEEEEC
T ss_pred             ee-ccccccc----CC----CccHHHHHHhcceEEEee
Confidence            65 4433321    22    445667778899998775

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=97.71  E-value=0.00032  Score=66.46  Aligned_cols=90  Identities=11%  Similarity=0.121  Sum_probs=56.3

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHH--HHHHhCCCCccccccCCCCcchHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMR--MLGSVGKLDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R--~~a~~~~i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      .+|.++.+.|++|+||||++..+|..++...|.+|++++.+.......+.  ..+...|++....    .+.   ..+..
T Consensus       103 ~~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~----~~~---~~l~~  175 (296)
T 2px0_A          103 IHSKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDTYRIAAVEQLKTYAELLQAPLEVC----YTK---EEFQQ  175 (296)
T ss_dssp             CCSSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCCSSTTHHHHHHHHHTTTTCCCCBC----SSH---HHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCcccchHHHHHHHHHHhcCCCeEec----CCH---HHHHH
Confidence            36889999999999999999999998875578899999988632212211  2223334433211    111   23444


Q ss_pred             HHHHHhCCCeEEEcCCCCC
Q psy2892         290 SIKKINKSQLYIDETPSLN  308 (452)
Q Consensus       290 a~~~l~~~~l~i~~~~~~t  308 (452)
                      ++..+.+..+.|.|+++..
T Consensus       176 al~~~~~~dlvIiDT~G~~  194 (296)
T 2px0_A          176 AKELFSEYDHVFVDTAGRN  194 (296)
T ss_dssp             HHHHGGGSSEEEEECCCCC
T ss_pred             HHHHhcCCCEEEEeCCCCC
Confidence            5555555566666655443

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=97.69  E-value=0.001  Score=63.22  Aligned_cols=147  Identities=15%  Similarity=0.148  Sum_probs=81.7

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH--HHHhCCCCccccccCCCCcchHHHH-
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM--LGSVGKLDQHKLRTGRLSSDDWPRI-  287 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~--~a~~~~i~~~~i~~g~l~~~~~~~~-  287 (452)
                      ..+|.+++|.|++|+||||++..+|...+. .|.+|+++..+.-.....+.+  ++...+++.-  ..+  +..+..++ 
T Consensus       101 ~~~~~vi~ivG~~GsGKTTl~~~LA~~l~~-~g~kV~lv~~D~~r~~a~eqL~~~~~~~gl~~~--~~~--s~~~~~~v~  175 (306)
T 1vma_A          101 PEPPFVIMVVGVNGTGKTTSCGKLAKMFVD-EGKSVVLAAADTFRAAAIEQLKIWGERVGATVI--SHS--EGADPAAVA  175 (306)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHHHH-TTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEE--CCS--TTCCHHHHH
T ss_pred             CCCCeEEEEEcCCCChHHHHHHHHHHHHHh-cCCEEEEEccccccHHHHHHHHHHHHHcCCcEE--ecC--CccCHHHHH
Confidence            457889999999999999999999998874 688999999886543222221  2223344431  111  11222222 


Q ss_pred             HHHHHH--HhCCCeEEEcCCCC--CHHHHHHHHHHHHHHc-----CCcc--EEEEcCcchhccCCCCCCHHHHHHHHHHH
Q psy2892         288 NDSIKK--INKSQLYIDETPSL--NVIELRANSRRLSRQC-----GKIG--VIIIDYLQLMSANSRGENRATEISEISRN  356 (452)
Q Consensus       288 ~~a~~~--l~~~~l~i~~~~~~--t~~~i~~~i~~~~~~~-----~~~~--~vvID~l~~i~~~~~~~~~~~~~~~i~~~  356 (452)
                      .+++..  ..+..+.+.|++..  .-+.+...+.++....     ..++  ++|+|...          ....    .+.
T Consensus       176 ~~al~~a~~~~~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t----------~~~~----l~~  241 (306)
T 1vma_A          176 FDAVAHALARNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATT----------GQNG----LVQ  241 (306)
T ss_dssp             HHHHHHHHHTTCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGG----------HHHH----HHH
T ss_pred             HHHHHHHHhcCCCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCC----------CHHH----HHH
Confidence            222222  23445666665533  2344444444444321     1244  56666631          1111    223


Q ss_pred             HHHHHHHhCCcEEEEecCCc
Q psy2892         357 LKGLAKEINCPILALSQLNR  376 (452)
Q Consensus       357 Lk~lA~~~~i~vi~l~ql~r  376 (452)
                      .+.+.+..++..++++.+..
T Consensus       242 a~~~~~~~~i~gvVlTk~D~  261 (306)
T 1vma_A          242 AKIFKEAVNVTGIILTKLDG  261 (306)
T ss_dssp             HHHHHHHSCCCEEEEECGGG
T ss_pred             HHHHHhcCCCCEEEEeCCCC
Confidence            34455568888888877754

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=97.68  E-value=0.00032  Score=68.62  Aligned_cols=123  Identities=11%  Similarity=0.140  Sum_probs=69.5

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCC--CHHHHHHHHHHHhCCCCccccccCCCCcchHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEM--SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWP  285 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~--~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~  285 (452)
                      .+..++|.|+||+|||+++..++......     .+.+++|+++..  +...+...+.... +...              
T Consensus        43 ~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l-~~~~--------------  107 (387)
T 2v1u_A           43 KPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAV-GVRV--------------  107 (387)
T ss_dssp             CCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHHHHHHH-SCCC--------------
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHHHHHHh-CCCC--------------
Confidence            34579999999999999999999877432     156788887653  4444555544322 1110              


Q ss_pred             HHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHH---
Q psy2892         286 RINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAK---  362 (452)
Q Consensus       286 ~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~---  362 (452)
                                       .....+..++...+.......+++.++|||.++.+....   ...    .....|.....   
T Consensus       108 -----------------~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~---~~~----~~l~~l~~~~~~~~  163 (387)
T 2v1u_A          108 -----------------PFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRP---GGQ----DLLYRITRINQELG  163 (387)
T ss_dssp             -----------------CSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHST---THH----HHHHHHHHGGGCC-
T ss_pred             -----------------CCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccC---CCC----hHHHhHhhchhhcC
Confidence                             011233445444444443333347799999999886531   011    22233333222   


Q ss_pred             -HhCCcEEEEecC
Q psy2892         363 -EINCPILALSQL  374 (452)
Q Consensus       363 -~~~i~vi~l~ql  374 (452)
                       ..++.+|+++.-
T Consensus       164 ~~~~~~~I~~t~~  176 (387)
T 2v1u_A          164 DRVWVSLVGITNS  176 (387)
T ss_dssp             ----CEEEEECSC
T ss_pred             CCceEEEEEEECC
Confidence             456777777643

>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=97.65  E-value=0.00015  Score=70.97  Aligned_cols=126  Identities=15%  Similarity=0.179  Sum_probs=69.2

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhC--CCcEEEEeCC--CCHHHHHHHHHHHhCCCCccccccCCCCcchHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN--KLPVAIFSME--MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~--g~~vl~~s~E--~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~  287 (452)
                      .++..++|.|+||+|||+++..++.......  +.+++|+++.  .+...+...+... .+.+.                
T Consensus        43 ~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~~-l~~~~----------------  105 (386)
T 2qby_A           43 EKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLES-LDVKV----------------  105 (386)
T ss_dssp             CCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHCSHHHHHHHHTTT-TSCCC----------------
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCCCHHHHHHHHHHH-hCCCC----------------
Confidence            3466899999999999999999988765332  6788888753  2233333333211 01100                


Q ss_pred             HHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCc
Q psy2892         288 NDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCP  367 (452)
Q Consensus       288 ~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~  367 (452)
                                     .....+..++...+.......+++.+||||.++.+.... ...   .+..+.+.+..+ ...++.
T Consensus       106 ---------------~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~-~~~---~l~~l~~~~~~~-~~~~~~  165 (386)
T 2qby_A          106 ---------------PFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKY-NDD---ILYKLSRINSEV-NKSKIS  165 (386)
T ss_dssp             ---------------CSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSS-CST---HHHHHHHHHHSC-CC--EE
T ss_pred             ---------------CCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccC-cCH---HHHHHhhchhhc-CCCeEE
Confidence                           011234455555554444444347899999999887532 011   122222222111 344677


Q ss_pred             EEEEecC
Q psy2892         368 ILALSQL  374 (452)
Q Consensus       368 vi~l~ql  374 (452)
                      +|++++-
T Consensus       166 ~I~~~~~  172 (386)
T 2qby_A          166 FIGITND  172 (386)
T ss_dssp             EEEEESC
T ss_pred             EEEEECC
Confidence            7777753

>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=97.62  E-value=0.00037  Score=64.61  Aligned_cols=174  Identities=14%  Similarity=0.144  Sum_probs=89.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHHHHHHHhCCCC-------c
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAMRMLGSVGKLD-------Q  271 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~R~~a~~~~i~-------~  271 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--..  .....+++...    .+..+...+.++....-+       .
T Consensus        22 vl~~vsl~i~~Ge~~~liG~nGsGKSTLlk~l~Gl~~--p~~G~i~~~g~~~~~~~~~~~~~~~i~~v~q~~~l~~~~tv   99 (257)
T 1g6h_A           22 ALDGVSISVNKGDVTLIIGPNGSGKSTLINVITGFLK--ADEGRVYFENKDITNKEPAELYHYGIVRTFQTPQPLKEMTV   99 (257)
T ss_dssp             EEEEECCEEETTCEEEEECSTTSSHHHHHHHHTTSSC--CSEEEEEETTEECTTCCHHHHHHHTEEECCCCCGGGGGSBH
T ss_pred             eEeeeEEEEeCCCEEEEECCCCCCHHHHHHHHhCCCC--CCCcEEEECCEECCCCCHHHHHhCCEEEEccCCccCCCCcH
Confidence            4666655689999999999999999999987664321  11122333221    122222122111111100       0


Q ss_pred             c-ccccC------C-----------CC-cchHHHHHHHHHHHhCCCeEEE-cCCCCCHHHHHH--HHHHHHHHcCCccEE
Q psy2892         272 H-KLRTG------R-----------LS-SDDWPRINDSIKKINKSQLYID-ETPSLNVIELRA--NSRRLSRQCGKIGVI  329 (452)
Q Consensus       272 ~-~i~~g------~-----------l~-~~~~~~~~~a~~~l~~~~l~i~-~~~~~t~~~i~~--~i~~~~~~~~~~~~v  329 (452)
                      . .+.-+      .           .. .+...++.+..+.+.-..+ .. ....+|-.+-+.  .++.+.  . +|+++
T Consensus       100 ~enl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~-~~~~~~~LSgGqkQrv~iAraL~--~-~p~ll  175 (257)
T 1g6h_A          100 LENLLIGEICPGESPLNSLFYKKWIPKEEEMVEKAFKILEFLKLSHL-YDRKAGELSGGQMKLVEIGRALM--T-NPKMI  175 (257)
T ss_dssp             HHHHHGGGTSTTSCHHHHHHHCSSCCCCHHHHHHHHHHHHHTTCGGG-TTSBGGGSCHHHHHHHHHHHHHH--T-CCSEE
T ss_pred             HHHHHHHHhhhccCcccccccccccCCHHHHHHHHHHHHHHcCCchh-hCCCchhCCHHHHHHHHHHHHHH--c-CCCEE
Confidence            0 00000      0           11 1122344444444321010 11 122466554443  333332  3 49999


Q ss_pred             EEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         330 IIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       330 vID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      ++|--..      +-+. .....+.+.|+.++++ |.+||+++|--.                   .++..||.++++..
T Consensus       176 lLDEPts------~LD~-~~~~~l~~~l~~l~~~-g~tvi~vtHd~~-------------------~~~~~~d~v~~l~~  228 (257)
T 1g6h_A          176 VMDEPIA------GVAP-GLAHDIFNHVLELKAK-GITFLIIEHRLD-------------------IVLNYIDHLYVMFN  228 (257)
T ss_dssp             EEESTTT------TCCH-HHHHHHHHHHHHHHHT-TCEEEEECSCCS-------------------TTGGGCSEEEEEET
T ss_pred             EEeCCcc------CCCH-HHHHHHHHHHHHHHHC-CCEEEEEecCHH-------------------HHHHhCCEEEEEEC
Confidence            9998532      1222 2345677788888766 999999988432                   24567899988854

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=97.61  E-value=0.00093  Score=67.23  Aligned_cols=147  Identities=16%  Similarity=0.182  Sum_probs=79.1

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH----HHHHHHHHHhCCCCccccccCCCCcchHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI----QLAMRMLGSVGKLDQHKLRTGRLSSDDWP  285 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~----~i~~R~~a~~~~i~~~~i~~g~l~~~~~~  285 (452)
                      .+.+|+++.|.|++|+||||++..++.... ..+..|++...+....    ++..  ++...++.+-.-..+ +..  ..
T Consensus       289 ~i~~GeVI~LVGpNGSGKTTLl~~LAgll~-~~~G~V~l~g~D~~r~aa~eQL~~--~~~r~~I~vV~Q~~~-~~p--~~  362 (503)
T 2yhs_A          289 EGKAPFVILMVGVNGVGKTTTIGKLARQFE-QQGKSVMLAAGDTFRAAAVEQLQV--WGQRNNIPVIAQHTG-ADS--AS  362 (503)
T ss_dssp             CSCTTEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEECCCTTCHHHHHHHHH--HHHHHTCCEECCSTT-CCH--HH
T ss_pred             eccCCeEEEEECCCcccHHHHHHHHHHHhh-hcCCeEEEecCcccchhhHHHHHH--HHHhcCceEEecccC-cCH--HH
Confidence            367899999999999999999999998775 3567898887765321    2211  111123332211111 111  11


Q ss_pred             HHHHHHHHH--hCCCeEEEcCCCC--CHHHHHHHHHHH---HHHc--CCcc--EEEEcCcchhccCCCCCCHHHHHHHHH
Q psy2892         286 RINDSIKKI--NKSQLYIDETPSL--NVIELRANSRRL---SRQC--GKIG--VIIIDYLQLMSANSRGENRATEISEIS  354 (452)
Q Consensus       286 ~~~~a~~~l--~~~~l~i~~~~~~--t~~~i~~~i~~~---~~~~--~~~~--~vvID~l~~i~~~~~~~~~~~~~~~i~  354 (452)
                      .+.+.+...  .+..+.+.|+.+.  +-..+...+.++   .+..  ..++  ++++|...         .  +   ..+
T Consensus       363 tV~e~l~~a~~~~~DvVLIDTaGrl~~~~~lm~EL~kiv~iar~l~~~~P~evLLvLDatt---------G--q---~al  428 (503)
T 2yhs_A          363 VIFDAIQAAKARNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDAST---------G--Q---NAV  428 (503)
T ss_dssp             HHHHHHHHHHHTTCSEEEECCCCSCCCHHHHHHHHHHHHHHHHTTCTTCSSEEEEEEEGGG---------T--H---HHH
T ss_pred             HHHHHHHHHHhcCCCEEEEeCCCccchhhhHHHHHHHHHHHHHHhccCCCCeeEEEecCcc---------c--H---HHH
Confidence            222333222  3446667776543  223333332222   2211  1133  45666421         1  1   122


Q ss_pred             HHHHHHHHHhCCcEEEEecCCc
Q psy2892         355 RNLKGLAKEINCPILALSQLNR  376 (452)
Q Consensus       355 ~~Lk~lA~~~~i~vi~l~ql~r  376 (452)
                      ..++.+.+..+++.++++++..
T Consensus       429 ~~ak~f~~~~~itgvIlTKLD~  450 (503)
T 2yhs_A          429 SQAKLFHEAVGLTGITLTKLDG  450 (503)
T ss_dssp             HHHHHHHHHTCCSEEEEECGGG
T ss_pred             HHHHHHHhhcCCCEEEEEcCCC
Confidence            4566677788999999999864

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.59  E-value=0.00027  Score=61.48  Aligned_cols=37  Identities=24%  Similarity=0.358  Sum_probs=29.0

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHh------CCCcEEEEeC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIE------NKLPVAIFSM  251 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~------~g~~vl~~s~  251 (452)
                      ..++|.|+||+|||+++..++......      .+.+++++++
T Consensus        44 ~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (195)
T 1jbk_A           44 NNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDM   86 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECH
T ss_pred             CceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEEeeH
Confidence            468999999999999999999887431      2567777665

>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=97.59  E-value=0.00016  Score=70.92  Aligned_cols=52  Identities=17%  Similarity=0.071  Sum_probs=38.7

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHh------C-CCcEEEEeCCC---CHHHHHHHHHHHh
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIE------N-KLPVAIFSMEM---SGIQLAMRMLGSV  266 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~------~-g~~vl~~s~E~---~~~~i~~R~~a~~  266 (452)
                      ..++|.|+||+|||+++..++..+...      . +.+++|+++..   +...+...++...
T Consensus        46 ~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~~l  107 (384)
T 2qby_B           46 FSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKL  107 (384)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEEHHHHCSCHHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEECccCCCCHHHHHHHHHHHh
Confidence            489999999999999999998876432      1 67888887543   5566666665443

>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=97.58  E-value=0.00035  Score=63.04  Aligned_cols=134  Identities=10%  Similarity=0.112  Sum_probs=77.6

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSI  291 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~  291 (452)
                      ..|.+.+++|+.|+|||+.+++.+.++. ..|.+|++|....+.+.- ..+.+. .|+....+                 
T Consensus        17 ~~g~l~v~~G~MgsGKTT~lL~~~~r~~-~~g~kvli~kp~~D~Ryg-~~i~sr-~G~~~~a~-----------------   76 (234)
T 2orv_A           17 TRGQIQVILGPMFSGKSTELMRRVRRFQ-IAQYKCLVIKYAKDTRYS-SSFCTH-DRNTMEAL-----------------   76 (234)
T ss_dssp             -CCEEEEEECCTTSCHHHHHHHHHHHHH-TTTCCEEEEEETTCCCC-------------CEEE-----------------
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHHHHH-HCCCeEEEEeecCCccch-HHHHhh-cCCeeEEE-----------------
Confidence            3588999999999999999999999986 579999999755442211 122211 12221111                 


Q ss_pred             HHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEE
Q psy2892         292 KKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL  371 (452)
Q Consensus       292 ~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l  371 (452)
                              -+..     ..++.+.+       +++++|+||-.|.+.      +    +.++++.|    .+.+++||+.
T Consensus        77 --------~i~~-----~~di~~~~-------~~~dvViIDEaQF~~------~----v~el~~~l----~~~gi~VI~~  122 (234)
T 2orv_A           77 --------PACL-----LRDVAQEA-------LGVAVIGIDEGQFFP------D----IVEFCEAM----ANAGKTVIVA  122 (234)
T ss_dssp             --------EESS-----GGGGHHHH-------TTCSEEEESSGGGCT------T----HHHHHHHH----HHTTCEEEEE
T ss_pred             --------ecCC-----HHHHHHHh-------ccCCEEEEEchhhhh------h----HHHHHHHH----HhCCCEEEEE
Confidence                    1111     12233222       248999999999873      1    33333333    3489998887


Q ss_pred             ecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEe
Q psy2892         372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIY  408 (452)
Q Consensus       372 ~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~  408 (452)
                      .. +.+...+    |    +.++..+-..||.|.-|.
T Consensus       123 GL-~~DF~~~----~----F~~~~~Ll~~AD~Vtelk  150 (234)
T 2orv_A          123 AL-DGTFQRK----P----FGAILNLVPLAESVVKLT  150 (234)
T ss_dssp             CC-SBCTTSS----B----CTTGGGGGGGCSEEEECC
T ss_pred             ec-ccccccC----C----cccHHHHHHhcccEEeee
Confidence            63 3222211    1    334556677888886553

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=97.58  E-value=0.00032  Score=68.58  Aligned_cols=152  Identities=14%  Similarity=0.144  Sum_probs=82.3

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC----------------CcEEEEeC------CCCHHHH
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK----------------LPVAIFSM------EMSGIQL  258 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g----------------~~vl~~s~------E~~~~~i  258 (452)
                      ...|+.+.--+.+|+++.|.|++|+||||++.-++--..-..|                ..+.|+.-      .|+..+.
T Consensus        16 ~~~L~~vsl~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~G~I~i~G~~~~~~~~~~r~ig~VfQ~~~l~p~ltV~en   95 (381)
T 3rlf_A           16 VVVSKDINLDIHEGEFVVFVGPSGCGKSTLLRMIAGLETITSGDLFIGEKRMNDTPPAERGVGMVFQSYALYPHLSVAEN   95 (381)
T ss_dssp             EEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTCCGGGSCEEEECTTCCCCTTSCHHHH
T ss_pred             EEEEeeeEEEECCCCEEEEEcCCCchHHHHHHHHHcCCCCCCeEEEECCEECCCCCHHHCCEEEEecCCcCCCCCCHHHH
Confidence            3456776556899999999999999999998877653211011                12333311      1222221


Q ss_pred             HHHHHHHhCCCCccccccCCCCcc-hHHHHHHHHHHHhCCCeEEE-cCCCCCHHHH--HHHHHHHHHHcCCccEEEEcCc
Q psy2892         259 AMRMLGSVGKLDQHKLRTGRLSSD-DWPRINDSIKKINKSQLYID-ETPSLNVIEL--RANSRRLSRQCGKIGVIIIDYL  334 (452)
Q Consensus       259 ~~R~~a~~~~i~~~~i~~g~l~~~-~~~~~~~a~~~l~~~~l~i~-~~~~~t~~~i--~~~i~~~~~~~~~~~~vvID~l  334 (452)
                      ..--+. .          ..++.. ..+++.++.+.+.-.. +.+ ....+|-.+-  .+.++.+..   +|+++++|--
T Consensus        96 i~~~~~-~----------~~~~~~~~~~~v~~~l~~~~L~~-~~~r~p~~LSGGqrQRVaiArAL~~---~P~lLLLDEP  160 (381)
T 3rlf_A           96 MSFGLK-L----------AGAKKEVINQRVNQVAEVLQLAH-LLDRKPKALSGGQRQRVAIGRTLVA---EPSVFLLDEP  160 (381)
T ss_dssp             HTHHHH-H----------TTCCHHHHHHHHHHHHHHTTCGG-GTTCCGGGSCHHHHHHHHHHHHHHH---CCSEEEEEST
T ss_pred             HHHHHH-H----------cCCCHHHHHHHHHHHHHHcCCch-hhcCChhHCCHHHHHHHHHHHHHHc---CCCEEEEECC
Confidence            111000 0          112222 2234445544442111 111 1224554433  344444443   4999999984


Q ss_pred             chhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         335 QLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       335 ~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                      ..      +-+. .....+...|+.+.++.|+++|+++|-
T Consensus       161 ts------~LD~-~~~~~l~~~l~~l~~~~g~tii~vTHd  193 (381)
T 3rlf_A          161 LS------NLDA-ALRVQMRIEISRLHKRLGRTMIYVTHD  193 (381)
T ss_dssp             TT------TSCH-HHHHHHHHHHHHHHHHHCCEEEEECSC
T ss_pred             Cc------CCCH-HHHHHHHHHHHHHHHhCCCEEEEEECC
Confidence            21      1222 233567788889989999999999984

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.53  E-value=0.00081  Score=58.07  Aligned_cols=23  Identities=22%  Similarity=0.492  Sum_probs=21.7

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLN  233 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~  233 (452)
                      +++|+++.|.|++|+|||||+..
T Consensus         6 i~~gei~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A            6 IPELSLVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EESSEEEEEECCTTSCHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHH
Confidence            67899999999999999999986

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=97.53  E-value=0.00012  Score=67.86  Aligned_cols=175  Identities=14%  Similarity=0.119  Sum_probs=91.8

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC-----CcEEEEeCCCC---HHHHHHHHHHHhCCCCcccc
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK-----LPVAIFSMEMS---GIQLAMRMLGSVGKLDQHKL  274 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g-----~~vl~~s~E~~---~~~i~~R~~a~~~~i~~~~i  274 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--.--..|     ..+.|+.-+..   ...+.+.+. ... .....+
T Consensus        20 vl~~isl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~I~~~~~i~~v~q~~~~~~~~tv~enl~-~~~-~~~~~~   97 (253)
T 2nq2_C           20 LFQQLNFDLNKGDILAVLGQNGCGKSTLLDLLLGIHRPIQGKIEVYQSIGFVPQFFSSPFAYSVLDIVL-MGR-STHINT   97 (253)
T ss_dssp             EEEEEEEEEETTCEEEEECCSSSSHHHHHHHHTTSSCCSEEEEEECSCEEEECSCCCCSSCCBHHHHHH-GGG-GGGSCT
T ss_pred             EEEEEEEEECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEEeccEEEEcCCCccCCCCCHHHHHH-Hhh-hhhccc
Confidence            46666446899999999999999999998876643211111     24566533211   011222221 100 000000


Q ss_pred             ccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHH
Q psy2892         275 RTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISE  352 (452)
Q Consensus       275 ~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~  352 (452)
                      . +....+..+++.++.+.+.-..+.-.....+|-.+-+.  .++.+.  . +|+++++|--..      +-+. .....
T Consensus        98 ~-~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSgGq~qrv~lAraL~--~-~p~lllLDEPts------~LD~-~~~~~  166 (253)
T 2nq2_C           98 F-AKPKSHDYQVAMQALDYLNLTHLAKREFTSLSGGQRQLILIARAIA--S-ECKLILLDEPTS------ALDL-ANQDI  166 (253)
T ss_dssp             T-CCCCHHHHHHHHHHHHHTTCGGGTTSBGGGSCHHHHHHHHHHHHHH--T-TCSEEEESSSST------TSCH-HHHHH
T ss_pred             c-cCCCHHHHHHHHHHHHHcCChHHhcCChhhCCHHHHHHHHHHHHHH--c-CCCEEEEeCCcc------cCCH-HHHHH
Confidence            0 01122223445555554421111000123466555443  333333  3 499999998532      1222 23456


Q ss_pred             HHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         353 ISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       353 i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      +.+.|+.++++.+.+||+++|--.                   .++..||.+++|..
T Consensus       167 l~~~l~~l~~~~g~tvi~vtHd~~-------------------~~~~~~d~v~~l~~  204 (253)
T 2nq2_C          167 VLSLLIDLAQSQNMTVVFTTHQPN-------------------QVVAIANKTLLLNK  204 (253)
T ss_dssp             HHHHHHHHHHTSCCEEEEEESCHH-------------------HHHHHCSEEEEEET
T ss_pred             HHHHHHHHHHhcCCEEEEEecCHH-------------------HHHHhCCEEEEEeC
Confidence            777888887777999999988321                   24556788887764

>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=97.53  E-value=0.00019  Score=65.12  Aligned_cols=39  Identities=10%  Similarity=-0.028  Sum_probs=33.7

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ++..++|.|+||+|||+++..++..... .+.++.|+++.
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~~~~~-~~~~~~~~~~~   89 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACARANE-LERRSFYIPLG   89 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHHHHH-TTCCEEEEEGG
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHH-cCCeEEEEEHH
Confidence            4568999999999999999999988864 57899999874

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=97.52  E-value=0.00049  Score=62.35  Aligned_cols=174  Identities=11%  Similarity=0.040  Sum_probs=87.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC----CCCHHHHH---HHHHHHhCCCCccccc
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM----EMSGIQLA---MRMLGSVGKLDQHKLR  275 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~----E~~~~~i~---~R~~a~~~~i~~~~i~  275 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--.  .....-+++..    ..+..+..   .+.++....-+  .+.
T Consensus        19 ~l~~vsl~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~--~p~~G~i~~~g~~~~~~~~~~~~~~~~~~i~~v~q~~--~l~   94 (224)
T 2pcj_A           19 ILKGISLSVKKGEFVSIIGASGSGKSTLLYILGLLD--APTEGKVFLEGKEVDYTNEKELSLLRNRKLGFVFQFH--YLI   94 (224)
T ss_dssp             EEEEEEEEEETTCEEEEEECTTSCHHHHHHHHTTSS--CCSEEEEEETTEECCSSCHHHHHHHHHHHEEEECSSC--CCC
T ss_pred             eEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC--CCCceEEEECCEECCCCCHHHHHHHHhCcEEEEecCc--ccC
Confidence            466664568999999999999999999987665422  11112233322    12332221   12121111100  000


Q ss_pred             c--------------CCCCc-chHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         276 T--------------GRLSS-DDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       276 ~--------------g~l~~-~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                      .              ..+.. +..+++.++.+.+.-..+.-.....+|-.+-+...-...--. +|+++++|--..    
T Consensus        95 ~~~tv~e~l~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSgGq~qrv~laral~~-~p~lllLDEPt~----  169 (224)
T 2pcj_A           95 PELTALENVIVPMLKMGKPKKEAKERGEYLLSELGLGDKLSRKPYELSGGEQQRVAIARALAN-EPILLFADEPTG----  169 (224)
T ss_dssp             TTSCHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTCTTCTTCCGGGSCHHHHHHHHHHHHTTT-CCSEEEEESTTT----
T ss_pred             CCCCHHHHHHhHHHHcCCCHHHHHHHHHHHHHHcCCchhhhCChhhCCHHHHHHHHHHHHHHc-CCCEEEEeCCCC----
Confidence            0              00111 112233333333321111000122466555443322222223 599999998532    


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         341 SRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       341 ~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                        +-+. .....+.+.|+.++++ +.+||+++|--.                   .+ ..||.++++..
T Consensus       170 --~LD~-~~~~~~~~~l~~l~~~-g~tvi~vtHd~~-------------------~~-~~~d~v~~l~~  214 (224)
T 2pcj_A          170 --NLDS-ANTKRVMDIFLKINEG-GTSIVMVTHERE-------------------LA-ELTHRTLEMKD  214 (224)
T ss_dssp             --TCCH-HHHHHHHHHHHHHHHT-TCEEEEECSCHH-------------------HH-TTSSEEEEEET
T ss_pred             --CCCH-HHHHHHHHHHHHHHHC-CCEEEEEcCCHH-------------------HH-HhCCEEEEEEC
Confidence              1222 2345677788888777 999999988311                   12 46899988854

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=97.50  E-value=0.00049  Score=63.98  Aligned_cols=175  Identities=14%  Similarity=0.136  Sum_probs=88.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC------CCHHHHHHHHHHHhCCCC-c-c--
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME------MSGIQLAMRMLGSVGKLD-Q-H--  272 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E------~~~~~i~~R~~a~~~~i~-~-~--  272 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--.  .....-+++...      .....+. +.++....-+ . .  
T Consensus        39 vL~~vsl~i~~Gei~~liG~NGsGKSTLlk~l~Gl~--~p~~G~I~~~g~~i~~~~~~~~~~~-~~i~~v~Q~~~l~~~~  115 (263)
T 2olj_A           39 VLKGINVHIREGEVVVVIGPSGSGKSTFLRCLNLLE--DFDEGEIIIDGINLKAKDTNLNKVR-EEVGMVFQRFNLFPHM  115 (263)
T ss_dssp             EEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTTSS--CCSEEEEEETTEESSSTTCCHHHHH-HHEEEECSSCCCCTTS
T ss_pred             EEEeeEEEEcCCCEEEEEcCCCCcHHHHHHHHHcCC--CCCCcEEEECCEECCCccccHHHHh-CcEEEEeCCCcCCCCC
Confidence            466664568999999999999999999988766432  111122333221      1112221 2121111100 0 0  


Q ss_pred             c----cc-----cCCCCcc-hHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         273 K----LR-----TGRLSSD-DWPRINDSIKKINKSQLYIDE-TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       273 ~----i~-----~g~l~~~-~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                      .    +.     ...++.. ..+++.++.+.+.-..+ ... ...+|-.+-+...-...--. +|+++++|--..     
T Consensus       116 tv~e~l~~~~~~~~~~~~~~~~~~~~~~l~~~~L~~~-~~~~~~~LSgGqkQRv~lAraL~~-~p~lllLDEPts-----  188 (263)
T 2olj_A          116 TVLNNITLAPMKVRKWPREKAEAKAMELLDKVGLKDK-AHAYPDSLSGGQAQRVAIARALAM-EPKIMLFDEPTS-----  188 (263)
T ss_dssp             CHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTTCGGG-TTSCGGGSCHHHHHHHHHHHHHTT-CCSEEEEESTTT-----
T ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHCCCchH-hcCChhhCCHHHHHHHHHHHHHHC-CCCEEEEeCCcc-----
Confidence            0    00     0011111 12233333333311011 111 12456555443322222223 599999998532     


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                       +-+. .....+.+.|+.++++ +.+||+++|--                   ..++..||.++++..
T Consensus       189 -~LD~-~~~~~~~~~l~~l~~~-g~tvi~vtHd~-------------------~~~~~~~d~v~~l~~  234 (263)
T 2olj_A          189 -ALDP-EMVGEVLSVMKQLANE-GMTMVVVTHEM-------------------GFAREVGDRVLFMDG  234 (263)
T ss_dssp             -TSCH-HHHHHHHHHHHHHHHT-TCEEEEECSCH-------------------HHHHHHCSEEEEEET
T ss_pred             -cCCH-HHHHHHHHHHHHHHhC-CCEEEEEcCCH-------------------HHHHHhCCEEEEEEC
Confidence             1222 2345677788888776 99999998832                   135667899998864

>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=97.50  E-value=0.00066  Score=67.07  Aligned_cols=95  Identities=12%  Similarity=0.057  Sum_probs=58.8

Q ss_pred             CCcEEEE--EeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeC--CCCHHHHHHHHHHHhCCCCccccccCCCCcch
Q psy2892         213 PGDLIIV--AGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSM--EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDD  283 (452)
Q Consensus       213 ~G~l~~i--~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~--E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~  283 (452)
                      .+..++|  .|+||+|||+++..++......     .+.+++|+++  ..+...+...++... +.+..           
T Consensus        49 ~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l-~~~~~-----------  116 (412)
T 1w5s_A           49 SDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQT-GYPIQ-----------  116 (412)
T ss_dssp             CCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHH-TCCCC-----------
T ss_pred             CCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCCCCHHHHHHHHHHHh-CCCCC-----------
Confidence            3457888  9999999999999998876432     1567899985  345556666655432 21100           


Q ss_pred             HHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         284 WPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       284 ~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                                          ....+..++...+..+....+++-+||||.++.+..
T Consensus       117 --------------------~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~  152 (412)
T 1w5s_A          117 --------------------VRGAPALDILKALVDNLYVENHYLLVILDEFQSMLS  152 (412)
T ss_dssp             --------------------CTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHS
T ss_pred             --------------------CCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhh
Confidence                                012233444444333332223478999999999875

>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=97.50  E-value=0.0057  Score=57.99  Aligned_cols=40  Identities=20%  Similarity=0.258  Sum_probs=34.7

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      +|+++.|.|++|+||||++..++..... .+.+|++...+.
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~-~~g~V~l~g~D~  140 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQN-LGKKVMFCAGDT  140 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHT-TTCCEEEECCCC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHh-cCCEEEEEeecC
Confidence            6899999999999999999999988754 577899987765

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=97.49  E-value=0.0005  Score=66.62  Aligned_cols=152  Identities=13%  Similarity=0.102  Sum_probs=80.9

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC----------------CcEEEEeC------CCCHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK----------------LPVAIFSM------EMSGIQLA  259 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g----------------~~vl~~s~------E~~~~~i~  259 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++--..-..|                ..+.|+.-      .++..+..
T Consensus        29 ~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~eni  108 (355)
T 1z47_A           29 RSVRGVSFQIREGEMVGLLGPSGSGKTTILRLIAGLERPTKGDVWIGGKRVTDLPPQKRNVGLVFQNYALFQHMTVYDNV  108 (355)
T ss_dssp             TCEEEEEEEEETTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTCCGGGSSEEEECGGGCCCTTSCHHHHH
T ss_pred             EEEeeeEEEECCCCEEEEECCCCCcHHHHHHHHhCCCCCCccEEEECCEECCcCChhhCcEEEEecCcccCCCCCHHHHH
Confidence            356666556899999999999999999998877643210011                12333321      12222222


Q ss_pred             HHHHHHhCCCCccccccCCCCcc-hHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcc
Q psy2892         260 MRMLGSVGKLDQHKLRTGRLSSD-DWPRINDSIKKINKSQLYIDE-TPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQ  335 (452)
Q Consensus       260 ~R~~a~~~~i~~~~i~~g~l~~~-~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~  335 (452)
                      .-.+ ...          .++.. ..+++.++.+.+.-..+ .+. ...+|-.+-..  .++.+.  . +|+++++|--.
T Consensus       109 ~~~l-~~~----------~~~~~~~~~~v~~~l~~~gL~~~-~~r~~~~LSGGq~QRvalArAL~--~-~P~lLLLDEP~  173 (355)
T 1z47_A          109 SFGL-REK----------RVPKDEMDARVRELLRFMRLESY-ANRFPHELSGGQQQRVALARALA--P-RPQVLLFDEPF  173 (355)
T ss_dssp             HHHH-HHT----------TCCHHHHHHHHHHHHHHTTCGGG-TTSCGGGSCHHHHHHHHHHHHHT--T-CCSEEEEESTT
T ss_pred             HHHH-HHc----------CCCHHHHHHHHHHHHHHcCChhH-hcCCcccCCHHHHHHHHHHHHHH--c-CCCEEEEeCCc
Confidence            1100 001          11211 12344444444321111 111 12456554433  333332  2 59999999842


Q ss_pred             hhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCC
Q psy2892         336 LMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLN  375 (452)
Q Consensus       336 ~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~  375 (452)
                      .      +-+. .....+...|+.+.++.+++||+++|--
T Consensus       174 s------~LD~-~~r~~l~~~l~~l~~~~g~tvi~vTHd~  206 (355)
T 1z47_A          174 A------AIDT-QIRRELRTFVRQVHDEMGVTSVFVTHDQ  206 (355)
T ss_dssp             C------CSSH-HHHHHHHHHHHHHHHHHTCEEEEECSCH
T ss_pred             c------cCCH-HHHHHHHHHHHHHHHhcCCEEEEECCCH
Confidence            1      1222 2335677788889888999999999853

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=97.49  E-value=0.00023  Score=69.08  Aligned_cols=154  Identities=15%  Similarity=0.143  Sum_probs=80.9

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC--------------------CcEEEEeCC------CC
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK--------------------LPVAIFSME------MS  254 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g--------------------~~vl~~s~E------~~  254 (452)
                      ...|+.+.--+.+|+++.|.||+|+|||||+.-++--..-..|                    .++.|+.-+      ++
T Consensus        17 ~~~L~~vsl~i~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~G~I~i~G~~i~~~~~~~~~~~r~ig~vfQ~~~l~p~lt   96 (359)
T 3fvq_A           17 TPVLNDISLSLDPGEILFIIGASGCGKTTLLRCLAGFEQPDSGEISLSGKTIFSKNTNLPVRERRLGYLVQEGVLFPHLT   96 (359)
T ss_dssp             EEEEEEEEEEECTTCEEEEEESTTSSHHHHHHHHHTSSCCSEEEEEETTEEEESSSCBCCGGGSCCEEECTTCCCCTTSC
T ss_pred             EEEEEeeEEEEcCCCEEEEECCCCchHHHHHHHHhcCCCCCCcEEEECCEECcccccccchhhCCEEEEeCCCcCCCCCC
Confidence            3457776556899999999999999999998877653211011                    112222111      11


Q ss_pred             HHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHH--HHHHHHHHHcCCccEEEEc
Q psy2892         255 GIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELR--ANSRRLSRQCGKIGVIIID  332 (452)
Q Consensus       255 ~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~--~~i~~~~~~~~~~~~vvID  332 (452)
                      ..+   .+.   .+...    .+.-..+..+++.++.+.+.-..+.-.....+|-.+-.  +.++.+.  . +|+++++|
T Consensus        97 V~e---ni~---~~l~~----~~~~~~~~~~~v~~~l~~~gL~~~~~r~~~~LSGGq~QRValArAL~--~-~P~lLLLD  163 (359)
T 3fvq_A           97 VYR---NIA---YGLGN----GKGRTAQERQRIEAMLELTGISELAGRYPHELSGGQQQRAALARALA--P-DPELILLD  163 (359)
T ss_dssp             HHH---HHH---TTSTT----SSCCSHHHHHHHHHHHHHHTCGGGTTSCGGGSCHHHHHHHHHHHHHT--T-CCSEEEEE
T ss_pred             HHH---HHH---HHHHH----cCCChHHHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHHH--c-CCCEEEEe
Confidence            111   110   11100    01112233345555555543111100012245544433  3333332  3 49999999


Q ss_pred             CcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         333 YLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       333 ~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                      --..      +-+. .....+...|+.+.++.|++||+++|-
T Consensus       164 EPts------~LD~-~~r~~l~~~l~~~~~~~g~tvi~vTHd  198 (359)
T 3fvq_A          164 EPFS------ALDE-QLRRQIREDMIAALRANGKSAVFVSHD  198 (359)
T ss_dssp             STTT------TSCH-HHHHHHHHHHHHHHHHTTCEEEEECCC
T ss_pred             CCcc------cCCH-HHHHHHHHHHHHHHHhCCCEEEEEeCC
Confidence            8421      1222 223455567888888999999999984

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=97.48  E-value=0.00052  Score=63.80  Aligned_cols=34  Identities=26%  Similarity=0.396  Sum_probs=28.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-
T Consensus        21 vl~~vsl~i~~Ge~~~liG~nGsGKSTLlk~l~G   54 (262)
T 1b0u_A           21 VLKGVSLQARAGDVISIIGSSGSGKSTFLRCINF   54 (262)
T ss_dssp             EEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            4666645689999999999999999999887664

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=97.46  E-value=0.0006  Score=66.30  Aligned_cols=152  Identities=15%  Similarity=0.143  Sum_probs=80.6

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC----------------CcEEEEeCC------CCHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK----------------LPVAIFSME------MSGIQLA  259 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g----------------~~vl~~s~E------~~~~~i~  259 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++--..-..|                ..+.|+.-+      ++..+..
T Consensus        17 ~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~eni   96 (362)
T 2it1_A           17 TALNNINLKIKDGEFMALLGPSGSGKSTLLYTIAGIYKPTSGKIYFDEKDVTELPPKDRNVGLVFQNWALYPHMTVYKNI   96 (362)
T ss_dssp             EEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTSCGGGTTEEEECTTCCCCTTSCHHHHH
T ss_pred             EEEEeeEEEECCCCEEEEECCCCchHHHHHHHHhcCCCCCceEEEECCEECCcCCHhHCcEEEEecCcccCCCCCHHHHH
Confidence            356666456899999999999999999998877643210011                123333211      2222211


Q ss_pred             HHHHHHhCCCCccccccCCCCcch-HHHHHHHHHHHhCCCeEEEcCCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcch
Q psy2892         260 MRMLGSVGKLDQHKLRTGRLSSDD-WPRINDSIKKINKSQLYIDETPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQL  336 (452)
Q Consensus       260 ~R~~a~~~~i~~~~i~~g~l~~~~-~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~  336 (452)
                      .--+ ..          ..++..+ .+++.++.+.+.=..+.-.....+|-.+-..  .++.+.  . +|+++++|--..
T Consensus        97 ~~~~-~~----------~~~~~~~~~~~v~~~l~~~~L~~~~~r~~~~LSGGq~QRvalArAL~--~-~P~lLLLDEP~s  162 (362)
T 2it1_A           97 AFPL-EL----------RKAPREEIDKKVREVAKMLHIDKLLNRYPWQLSGGQQQRVAIARALV--K-EPEVLLLDEPLS  162 (362)
T ss_dssp             HHHH-HH----------TTCCHHHHHHHHHHHHHHTTCTTCTTCCGGGSCHHHHHHHHHHHHHT--T-CCSEEEEESGGG
T ss_pred             HHHH-Hh----------cCCCHHHHHHHHHHHHHHcCCchHhhCChhhCCHHHHHHHHHHHHHH--c-CCCEEEEECccc
Confidence            1100 00          0112222 2344555544421111101122456554433  333332  3 499999998532


Q ss_pred             hccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         337 MSANSRGENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       337 i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                      -      -+. .....+...|+.+.++.++++|+++|-
T Consensus       163 ~------LD~-~~r~~l~~~l~~l~~~~g~tvi~vTHd  193 (362)
T 2it1_A          163 N------LDA-LLRLEVRAELKRLQKELGITTVYVTHD  193 (362)
T ss_dssp             G------SCH-HHHHHHHHHHHHHHHHHTCEEEEEESC
T ss_pred             c------CCH-HHHHHHHHHHHHHHHhCCCEEEEECCC
Confidence            1      111 223467778888888899999999984

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=97.45  E-value=0.00046  Score=63.89  Aligned_cols=35  Identities=23%  Similarity=0.237  Sum_probs=29.0

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++-
T Consensus        29 ~vl~~vsl~i~~Gei~~l~G~NGsGKSTLlk~l~G   63 (256)
T 1vpl_A           29 EILKGISFEIEEGEIFGLIGPNGAGKTTTLRIIST   63 (256)
T ss_dssp             EEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEeeEEEEcCCcEEEEECCCCCCHHHHHHHHhc
Confidence            35666645689999999999999999999887664

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=97.44  E-value=0.00022  Score=66.49  Aligned_cols=176  Identities=14%  Similarity=0.184  Sum_probs=87.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCcccccc------
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRT------  276 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~------  276 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--..- ....|.+...+.....+ .+.++....-+...+..      
T Consensus        22 vl~~vsl~i~~Ge~~~liG~nGsGKSTLl~~i~Gl~~p-~~G~I~~~g~~~~~~~~-~~~i~~v~q~~~~~~~~~tv~en   99 (266)
T 2yz2_A           22 ALENVSLVINEGECLLVAGNTGSGKSTLLQIVAGLIEP-TSGDVLYDGERKKGYEI-RRNIGIAFQYPEDQFFAERVFDE   99 (266)
T ss_dssp             EEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTSSCC-SEEEEEETTEECCHHHH-GGGEEEECSSGGGGCCCSSHHHH
T ss_pred             eeeeeEEEEcCCCEEEEECCCCCcHHHHHHHHhCCCCC-CCcEEEECCEECchHHh-hhhEEEEeccchhhcCCCcHHHH
Confidence            46766556899999999999999999998876643210 11122221111111100 01011100000000000      


Q ss_pred             ---C--C-CCc-chHHHHHHHHHHHhCC--CeEEEc-CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCH
Q psy2892         277 ---G--R-LSS-DDWPRINDSIKKINKS--QLYIDE-TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENR  346 (452)
Q Consensus       277 ---g--~-l~~-~~~~~~~~a~~~l~~~--~l~i~~-~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~  346 (452)
                         +  . ++. +..+++.++.+.+.-.  .+ ... ...+|-.+-+...-...--. +++++++|--..      +-+.
T Consensus       100 l~~~~~~~~~~~~~~~~~~~~l~~~gl~~~~~-~~~~~~~LSgGq~qRv~lAraL~~-~p~lllLDEPts------~LD~  171 (266)
T 2yz2_A          100 VAFAVKNFYPDRDPVPLVKKAMEFVGLDFDSF-KDRVPFFLSGGEKRRVAIASVIVH-EPDILILDEPLV------GLDR  171 (266)
T ss_dssp             HHHTTTTTCTTSCSHHHHHHHHHHTTCCHHHH-TTCCGGGSCHHHHHHHHHHHHHTT-CCSEEEEESTTT------TCCH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHcCcCCccc-ccCChhhCCHHHHHHHHHHHHHHc-CCCEEEEcCccc------cCCH
Confidence               0  0 111 2233444444443211  10 111 13466555443322222223 499999998532      1222


Q ss_pred             HHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         347 ATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       347 ~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                       .....+.+.|+.++++ +.+||+++|--.                   .+...||.++.+..
T Consensus       172 -~~~~~l~~~l~~l~~~-g~tii~vtHd~~-------------------~~~~~~d~v~~l~~  213 (266)
T 2yz2_A          172 -EGKTDLLRIVEKWKTL-GKTVILISHDIE-------------------TVINHVDRVVVLEK  213 (266)
T ss_dssp             -HHHHHHHHHHHHHHHT-TCEEEEECSCCT-------------------TTGGGCSEEEEEET
T ss_pred             -HHHHHHHHHHHHHHHc-CCEEEEEeCCHH-------------------HHHHhCCEEEEEEC
Confidence             3345677788888776 999999988432                   23456788887754

>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=97.42  E-value=0.0061  Score=57.52  Aligned_cols=144  Identities=14%  Similarity=0.150  Sum_probs=78.3

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH--HHHhCCCCccccccCC-CCcchHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM--LGSVGKLDQHKLRTGR-LSSDDWPRIND  289 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~--~a~~~~i~~~~i~~g~-l~~~~~~~~~~  289 (452)
                      +|.++.+.|++|+||||++.++|...+. .|.+|+++..+.........+  +....+++.-  ..+. .++.+.  ...
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~-~~~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~--~~~~~~~p~~l--~~~  171 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKG-KGRRPLLVAADTQRPAAREQLRLLGEKVGVPVL--EVMDGESPESI--RRR  171 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHH-TTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEE--ECCTTCCHHHH--HHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH-cCCeEEEecCCcccHhHHHHHHHhcccCCeEEE--EcCCCCCHHHH--HHH
Confidence            7889999999999999999999999875 688999999887543332211  2222344332  1111 122222  233


Q ss_pred             HHHHH--hCCCeEEEcCCC-CCHH-HHHHHHHHHHHHcCCcc--EEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHH
Q psy2892         290 SIKKI--NKSQLYIDETPS-LNVI-ELRANSRRLSRQCGKIG--VIIIDYLQLMSANSRGENRATEISEISRNLKGLAKE  363 (452)
Q Consensus       290 a~~~l--~~~~l~i~~~~~-~t~~-~i~~~i~~~~~~~~~~~--~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~  363 (452)
                      ++..+  .+..+.+.|+|+ ...+ .+...+..+..... ++  ++|+|...         . ..    ..+.++.+...
T Consensus       172 ~l~~~~~~~~D~viiDtpp~~~~d~~~~~~l~~~~~~~~-~~~~~lv~~~~~---------~-~~----~~~~~~~~~~~  236 (295)
T 1ls1_A          172 VEEKARLEARDLILVDTAGRLQIDEPLMGELARLKEVLG-PDEVLLVLDAMT---------G-QE----ALSVARAFDEK  236 (295)
T ss_dssp             HHHHHHHHTCCEEEEECCCCSSCCHHHHHHHHHHHHHHC-CSEEEEEEEGGG---------T-HH----HHHHHHHHHHH
T ss_pred             HHHHHHhCCCCEEEEeCCCCccccHHHHHHHHHHhhhcC-CCEEEEEEeCCC---------c-HH----HHHHHHHHhhc
Confidence            44444  355676666663 3221 22333323322221 32  45567531         0 11    12233445556


Q ss_pred             hCCcEEEEecCCc
Q psy2892         364 INCPILALSQLNR  376 (452)
Q Consensus       364 ~~i~vi~l~ql~r  376 (452)
                      .++.-++++++..
T Consensus       237 ~~i~givlnk~d~  249 (295)
T 1ls1_A          237 VGVTGLVLTKLDG  249 (295)
T ss_dssp             TCCCEEEEECGGG
T ss_pred             CCCCEEEEECCCC
Confidence            7777777776643

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=97.41  E-value=0.0011  Score=63.36  Aligned_cols=44  Identities=16%  Similarity=0.098  Sum_probs=38.9

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG  255 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~  255 (452)
                      ..+|.++.|.|++|+||||++.++|...+. .|.+|+++..+...
T Consensus       102 ~~~~~vI~ivG~~G~GKTT~~~~LA~~l~~-~g~kVllid~D~~r  145 (320)
T 1zu4_A          102 ENRLNIFMLVGVNGTGKTTSLAKMANYYAE-LGYKVLIAAADTFR  145 (320)
T ss_dssp             TTSCEEEEEESSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCCSC
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHH-CCCeEEEEeCCCcc
Confidence            567899999999999999999999998875 68999999988743

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=97.41  E-value=0.00038  Score=66.37  Aligned_cols=39  Identities=8%  Similarity=0.220  Sum_probs=32.9

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      +.-++|.|+||+|||.++..++..+....|.+|+|++..
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~~~  190 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFP  190 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEEHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEHH
Confidence            456899999999999999999998862468999999763

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=97.38  E-value=0.0012  Score=64.56  Aligned_cols=152  Identities=14%  Similarity=0.143  Sum_probs=80.1

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC----------------------CcEEEEeC------CC
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK----------------------LPVAIFSM------EM  253 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g----------------------~~vl~~s~------E~  253 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++--..-..|                      .++.|+.-      .+
T Consensus        17 ~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~i~g~~~~~~~~~~~~~~~~r~ig~v~Q~~~l~~~l   96 (372)
T 1g29_1           17 TAVREMSLEVKDGEFMILLGPSGCGKTTTLRMIAGLEEPSRGQIYIGDKLVADPEKGIFVPPKDRDIAMVFQSYALYPHM   96 (372)
T ss_dssp             EEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEEEETTEEEEEGGGTEECCGGGSSEEEECSCCCCCTTS
T ss_pred             EEEeeeEEEEcCCCEEEEECCCCcHHHHHHHHHHcCCCCCccEEEECCEECccccccccCCHhHCCEEEEeCCCccCCCC
Confidence            356666446899999999999999999998877643210011                      11233211      12


Q ss_pred             CHHHHHHHHHHHhCCCCccccccCCCCcch-HHHHHHHHHHHhCCCeEEEcCCCCCHHHHH--HHHHHHHHHcCCccEEE
Q psy2892         254 SGIQLAMRMLGSVGKLDQHKLRTGRLSSDD-WPRINDSIKKINKSQLYIDETPSLNVIELR--ANSRRLSRQCGKIGVII  330 (452)
Q Consensus       254 ~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~-~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~--~~i~~~~~~~~~~~~vv  330 (452)
                      +..+...-.+. ..          .++..+ .+++.++.+.+.=..+.-.....+|-.+-.  +.++.+.  . +|++++
T Consensus        97 tv~eni~~~~~-~~----------~~~~~~~~~~v~~~l~~~~L~~~~~r~~~~LSGGq~QRvalArAL~--~-~P~lLL  162 (372)
T 1g29_1           97 TVYDNIAFPLK-LR----------KVPRQEIDQRVREVAELLGLTELLNRKPRELSGGQRQRVALGRAIV--R-KPQVFL  162 (372)
T ss_dssp             CHHHHHHHHHH-HT----------TCCHHHHHHHHHHHHHHHTCGGGTTCCGGGSCHHHHHHHHHHHHHH--T-CCSEEE
T ss_pred             CHHHHHHHHHH-Hc----------CCCHHHHHHHHHHHHHHCCCchHhcCCcccCCHHHHHHHHHHHHHh--c-CCCEEE
Confidence            22222111000 00          112221 234445554442111100012245654443  3333333  3 499999


Q ss_pred             EcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         331 IDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       331 ID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                      +|--..      +-+. .....+...|+.+.++.++++|+++|-
T Consensus       163 LDEP~s------~LD~-~~r~~l~~~l~~l~~~~g~tvi~vTHd  199 (372)
T 1g29_1          163 MDEPLS------NLDA-KLRVRMRAELKKLQRQLGVTTIYVTHD  199 (372)
T ss_dssp             EECTTT------TSCH-HHHHHHHHHHHHHHHHHTCEEEEEESC
T ss_pred             ECCCCc------cCCH-HHHHHHHHHHHHHHHhcCCEEEEECCC
Confidence            998421      1222 233567778888888899999999984

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=97.37  E-value=0.00062  Score=62.40  Aligned_cols=177  Identities=14%  Similarity=0.085  Sum_probs=88.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC----CCCHHHHHHHHHHHhCC---C----Cc
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM----EMSGIQLAMRMLGSVGK---L----DQ  271 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~----E~~~~~i~~R~~a~~~~---i----~~  271 (452)
                      .|+.+.--+++|+++.|.|++|+|||||+.-++--.  ......+++..    +.+..+...+-++....   +    +.
T Consensus        21 vl~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~--~p~~G~i~~~g~~~~~~~~~~~~~~~i~~v~q~~~l~~~ltv   98 (240)
T 1ji0_A           21 AIKGIDLKVPRGQIVTLIGANGAGKTTTLSAIAGLV--RAQKGKIIFNGQDITNKPAHVINRMGIALVPEGRRIFPELTV   98 (240)
T ss_dssp             EEEEEEEEEETTCEEEEECSTTSSHHHHHHHHTTSS--CCSEEEEEETTEECTTCCHHHHHHTTEEEECSSCCCCTTSBH
T ss_pred             EEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC--CCCCceEEECCEECCCCCHHHHHhCCEEEEecCCccCCCCcH
Confidence            466664458999999999999999999988766432  11111222322    12222222221111110   0    00


Q ss_pred             c-ccccC---CCCcch-HHHHHHHHHHHh-CCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCC
Q psy2892         272 H-KLRTG---RLSSDD-WPRINDSIKKIN-KSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGEN  345 (452)
Q Consensus       272 ~-~i~~g---~l~~~~-~~~~~~a~~~l~-~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~  345 (452)
                      . .+.-+   .....+ .+++.+..+.+. -....-.....+|-.+-+...-...--. +|+++++|--..      +-+
T Consensus        99 ~enl~~~~~~~~~~~~~~~~~~~~l~~~~~l~~~~~~~~~~LSgGq~qrv~lAraL~~-~p~lllLDEPts------~LD  171 (240)
T 1ji0_A           99 YENLMMGAYNRKDKEGIKRDLEWIFSLFPRLKERLKQLGGTLSGGEQQMLAIGRALMS-RPKLLMMDEPSL------GLA  171 (240)
T ss_dssp             HHHHHGGGTTCCCSSHHHHHHHHHHHHCHHHHTTTTSBSSSSCHHHHHHHHHHHHHTT-CCSEEEEECTTT------TCC
T ss_pred             HHHHHHhhhcCCCHHHHHHHHHHHHHHcccHhhHhcCChhhCCHHHHHHHHHHHHHHc-CCCEEEEcCCcc------cCC
Confidence            0 00000   111122 223333333321 0000001123566555443322222223 499999998432      122


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         346 RATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       346 ~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      . .....+.+.|+.+++ .+.+||+++|--.                   .+...||.++++..
T Consensus       172 ~-~~~~~l~~~l~~~~~-~g~tvi~vtHd~~-------------------~~~~~~d~v~~l~~  214 (240)
T 1ji0_A          172 P-ILVSEVFEVIQKINQ-EGTTILLVEQNAL-------------------GALKVAHYGYVLET  214 (240)
T ss_dssp             H-HHHHHHHHHHHHHHH-TTCCEEEEESCHH-------------------HHHHHCSEEEEEET
T ss_pred             H-HHHHHHHHHHHHHHH-CCCEEEEEecCHH-------------------HHHHhCCEEEEEEC
Confidence            2 234567777888765 5899999988321                   25667899998864

>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=97.36  E-value=0.0014  Score=62.78  Aligned_cols=39  Identities=21%  Similarity=0.163  Sum_probs=32.8

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .+..++|.|+||+|||+++..++..... .+.+++|++++
T Consensus        36 ~~~~lll~G~~GtGKT~la~~i~~~~~~-~~~~~~~i~~~   74 (324)
T 1l8q_A           36 LYNPIFIYGSVGTGKTHLLQAAGNEAKK-RGYRVIYSSAD   74 (324)
T ss_dssp             SCSSEEEECSSSSSHHHHHHHHHHHHHH-TTCCEEEEEHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHHH-CCCEEEEEEHH
Confidence            3456899999999999999999988754 57899999864

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=97.35  E-value=0.00029  Score=61.05  Aligned_cols=37  Identities=22%  Similarity=0.311  Sum_probs=28.1

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHh------CCCcEEEEeC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIE------NKLPVAIFSM  251 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~------~g~~vl~~s~  251 (452)
                      ..++|.|+||+|||+++..++......      .+.+++++++
T Consensus        44 ~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (187)
T 2p65_A           44 NNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDL   86 (187)
T ss_dssp             CEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEEECH
T ss_pred             CceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEEEeH
Confidence            357999999999999999998887431      2566666643

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=97.31  E-value=0.00031  Score=66.68  Aligned_cols=40  Identities=23%  Similarity=0.427  Sum_probs=33.4

Q ss_pred             cEEEEEe-CCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH
Q psy2892         215 DLIIVAG-RPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG  255 (452)
Q Consensus       215 ~l~~i~g-~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~  255 (452)
                      .++.|++ .+|+|||+++.++|..+|. .|.+|+.+.+++..
T Consensus       105 kvI~vts~kgG~GKTtva~nLA~~lA~-~G~rVLLID~D~r~  145 (299)
T 3cio_A          105 NILMITGATPDSGKTFVSSTLAAVIAQ-SDQKVLFIDADLRR  145 (299)
T ss_dssp             CEEEEEESSSSSCHHHHHHHHHHHHHH-TTCCEEEEECCTTT
T ss_pred             eEEEEECCCCCCChHHHHHHHHHHHHh-CCCcEEEEECCCCC
Confidence            3555555 6999999999999999985 79999999999853

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=97.31  E-value=0.00038  Score=65.33  Aligned_cols=34  Identities=29%  Similarity=0.321  Sum_probs=28.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-
T Consensus        36 vL~~isl~i~~Ge~~~liG~NGsGKSTLlk~l~G   69 (279)
T 2ihy_A           36 ILKKISWQIAKGDKWILYGLNGAGKTTLLNILNA   69 (279)
T ss_dssp             EEEEEEEEEETTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEeeeEEEcCCCEEEEECCCCCcHHHHHHHHhC
Confidence            4666644589999999999999999999886664

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=97.30  E-value=0.0021  Score=68.56  Aligned_cols=139  Identities=14%  Similarity=0.127  Sum_probs=79.6

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHHHHh--CCCCccccccCCCCcchHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM-SGIQLAMRMLGSV--GKLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~-~~~~i~~R~~a~~--~~i~~~~i~~g~l~~~~~~~~  287 (452)
                      +..|.-++|+|++|+|||+.+...+.......|.+++|+.--- -..++..++ ...  .|+....+ .|.....+-   
T Consensus        43 ~~~~~~~lv~apTGsGKT~~~~l~il~~~~~~~~~il~i~P~r~La~q~~~~~-~~~~~~g~~v~~~-~G~~~~~~~---  117 (715)
T 2va8_A           43 LLEGNRLLLTSPTGSGKTLIAEMGIISFLLKNGGKAIYVTPLRALTNEKYLTF-KDWELIGFKVAMT-SGDYDTDDA---  117 (715)
T ss_dssp             TTTTCCEEEECCTTSCHHHHHHHHHHHHHHHSCSEEEEECSCHHHHHHHHHHH-GGGGGGTCCEEEC-CSCSSSCCG---
T ss_pred             hcCCCcEEEEcCCCCcHHHHHHHHHHHHHHHCCCeEEEEeCcHHHHHHHHHHH-HHhhcCCCEEEEE-eCCCCCchh---
Confidence            5668899999999999999998888776554678899986432 233444444 111  23433322 233222110   


Q ss_pred             HHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCc
Q psy2892         288 NDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCP  367 (452)
Q Consensus       288 ~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~  367 (452)
                           ++.+..+.+.     |++.+...++.-.....++++||||-.+.+...    .+...+..+...++      ++.
T Consensus       118 -----~~~~~~Iiv~-----Tpe~l~~~~~~~~~~l~~~~~vIiDE~H~l~~~----~~~~~l~~i~~~~~------~~~  177 (715)
T 2va8_A          118 -----WLKNYDIIIT-----TYEKLDSLWRHRPEWLNEVNYFVLDELHYLNDP----ERGPVVESVTIRAK------RRN  177 (715)
T ss_dssp             -----GGGGCSEEEE-----CHHHHHHHHHHCCGGGGGEEEEEECSGGGGGCT----TTHHHHHHHHHHHH------TSE
T ss_pred             -----hcCCCCEEEE-----cHHHHHHHHhCChhHhhccCEEEEechhhcCCc----ccchHHHHHHHhcc------cCc
Confidence                 1234456664     455665544431110124899999999997632    23333444444443      666


Q ss_pred             EEEEecC
Q psy2892         368 ILALSQL  374 (452)
Q Consensus       368 vi~l~ql  374 (452)
                      +|+++-.
T Consensus       178 ii~lSAT  184 (715)
T 2va8_A          178 LLALSAT  184 (715)
T ss_dssp             EEEEESC
T ss_pred             EEEEcCC
Confidence            6666643

>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=97.29  E-value=0.00043  Score=69.08  Aligned_cols=38  Identities=21%  Similarity=0.350  Sum_probs=34.1

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      .+++|+|+||+||||++..+|..++. .|++|++++++.
T Consensus       100 ~vI~ivG~~GvGKTTla~~La~~l~~-~G~kVllv~~D~  137 (432)
T 2v3c_C          100 NVILLVGIQGSGKTTTAAKLARYIQK-RGLKPALIAADT  137 (432)
T ss_dssp             CCEEEECCSSSSTTHHHHHHHHHHHH-HHCCEEEECCSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHH-cCCeEEEEeccc
Confidence            47889999999999999999999875 589999999874

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=97.28  E-value=0.00058  Score=66.33  Aligned_cols=151  Identities=17%  Similarity=0.184  Sum_probs=79.2

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC----------------CcEEEEeCC------CCHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK----------------LPVAIFSME------MSGIQLA  259 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g----------------~~vl~~s~E------~~~~~i~  259 (452)
                      ..|+.+.--+.+|+++.|.|++|+||||++.-++--..-..|                .++.|+.-+      ++..+  
T Consensus        17 ~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~e--   94 (359)
T 2yyz_A           17 KAVDGVSFEVKDGEFVALLGPSGCGKTTTLLMLAGIYKPTSGEIYFDDVLVNDIPPKYREVGMVFQNYALYPHMTVFE--   94 (359)
T ss_dssp             EEEEEEEEEECTTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTSCGGGTTEEEECSSCCCCTTSCHHH--
T ss_pred             EEEeeeEEEEcCCCEEEEEcCCCchHHHHHHHHHCCCCCCccEEEECCEECCCCChhhCcEEEEecCcccCCCCCHHH--
Confidence            356666556899999999999999999998877643210011                123333211      11111  


Q ss_pred             HHHHHHhCCCCccccccCCCCcc-hHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcc
Q psy2892         260 MRMLGSVGKLDQHKLRTGRLSSD-DWPRINDSIKKINKSQLYIDE-TPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQ  335 (452)
Q Consensus       260 ~R~~a~~~~i~~~~i~~g~l~~~-~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~  335 (452)
                       .+ +.  +..     ....+.. ..+++.++.+.+.=..+ ... ...+|-.+-..  .++.+.  . +|+++++|--.
T Consensus        95 -ni-~~--~~~-----~~~~~~~~~~~~v~~~l~~~~L~~~-~~r~~~~LSgGq~QRvalArAL~--~-~P~lLLLDEP~  161 (359)
T 2yyz_A           95 -NI-AF--PLR-----ARRISKDEVEKRVVEIARKLLIDNL-LDRKPTQLSGGQQQRVALARALV--K-QPKVLLFDEPL  161 (359)
T ss_dssp             -HH-HG--GGS-----SSCSHHHHTTHHHHHHHHHTTCGGG-TTSCGGGSCHHHHHHHHHHHHHT--T-CCSEEEEESTT
T ss_pred             -HH-HH--HHH-----hcCCCHHHHHHHHHHHHHHcCCchH-hcCChhhCCHHHHHHHHHHHHHH--c-CCCEEEEECCc
Confidence             11 00  000     0011111 12344444444421111 111 12456554433  333332  3 49999999842


Q ss_pred             hhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         336 LMSANSRGENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       336 ~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                      .      +-+. .....+...|+.+.++.++++|+++|-
T Consensus       162 s------~LD~-~~r~~l~~~l~~l~~~~g~tvi~vTHd  193 (359)
T 2yyz_A          162 S------NLDA-NLRMIMRAEIKHLQQELGITSVYVTHD  193 (359)
T ss_dssp             T------TSCH-HHHHHHHHHHHHHHHHHCCEEEEEESC
T ss_pred             c------cCCH-HHHHHHHHHHHHHHHhcCCEEEEEcCC
Confidence            1      1222 233567778888888899999999984

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=97.27  E-value=0.00033  Score=65.48  Aligned_cols=41  Identities=20%  Similarity=0.274  Sum_probs=34.1

Q ss_pred             cEEEEE-eCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         215 DLIIVA-GRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       215 ~l~~i~-g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      .++.|+ +.+|+|||+++.++|..+|. .|.+|+++.+++...
T Consensus        83 kvI~vts~kgG~GKTt~a~nLA~~lA~-~G~rVLLID~D~~~~  124 (271)
T 3bfv_A           83 QSIVITSEAPGAGKSTIAANLAVAYAQ-AGYKTLIVDGDMRKP  124 (271)
T ss_dssp             CEEEEECSSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCSSSC
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHh-CCCeEEEEeCCCCCc
Confidence            355555 56999999999999999985 799999999997543

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.25  E-value=0.0014  Score=61.28  Aligned_cols=38  Identities=21%  Similarity=0.362  Sum_probs=29.9

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      |+.++.-++|.|+||+|||+++..++..    .+.+++++++
T Consensus        47 ~~~~~~~~ll~G~~GtGKT~la~~la~~----~~~~~~~v~~   84 (285)
T 3h4m_A           47 GIEPPKGILLYGPPGTGKTLLAKAVATE----TNATFIRVVG   84 (285)
T ss_dssp             CCCCCSEEEEESSSSSSHHHHHHHHHHH----TTCEEEEEEG
T ss_pred             CCCCCCeEEEECCCCCcHHHHHHHHHHH----hCCCEEEEeh
Confidence            4566667999999999999999988754    3567777764

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=97.24  E-value=0.0017  Score=63.08  Aligned_cols=59  Identities=24%  Similarity=0.442  Sum_probs=42.6

Q ss_pred             CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEE------eCCCCHHHHHHHHHHHhCCC
Q psy2892         209 SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIF------SMEMSGIQLAMRMLGSVGKL  269 (452)
Q Consensus       209 gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~------s~E~~~~~i~~R~~a~~~~i  269 (452)
                      .|..+|..++|.|+||+|||+++..++..+.  ...+...+      +.+++..+...+......+.
T Consensus        65 ~~~~~~~~vLl~GppGtGKT~la~~la~~l~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  129 (368)
T 3uk6_A           65 EGKIAGRAVLIAGQPGTGKTAIAMGMAQALG--PDTPFTAIAGSEIFSLEMSKTEALTQAFRRSIGV  129 (368)
T ss_dssp             TTCCTTCEEEEEESTTSSHHHHHHHHHHHHC--SSCCEEEEEGGGGSCSSSCHHHHHHHHHHHSBEE
T ss_pred             cCCCCCCEEEEECCCCCCHHHHHHHHHHHhc--ccCCcccccchhhhhcccchhHHHHHHHHHHHHH
Confidence            3455677899999999999999999998763  23344433      46788888777776554443

>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=97.22  E-value=0.0019  Score=56.85  Aligned_cols=147  Identities=15%  Similarity=0.162  Sum_probs=82.1

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC-----HHHHHHHHHHHhCCCCccccccCCC-CcchHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS-----GIQLAMRMLGSVGKLDQHKLRTGRL-SSDDWP  285 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~-----~~~i~~R~~a~~~~i~~~~i~~g~l-~~~~~~  285 (452)
                      .+| +++|.+.+|.|||+.|+-++..++ .+|.+|+++.+--.     +..+..++     ++.......|.. ...+.+
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 ERG-IIIVFTGNGKGKTTAAFGTAARAV-GHGKNVGVVQFIKGTWPNGERNLLEPH-----GVEFQVMATGFTWETQNRE   99 (196)
T ss_dssp             CCC-CEEEEESSSSCHHHHHHHHHHHHH-HTTCCEEEEESSCCSSCCHHHHHHGGG-----TCEEEECCTTCCCCGGGHH
T ss_pred             cCc-eEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEEeeCCCCCccHHHHHHhC-----CcEEEEcccccccCCCCcH
Confidence            345 778888889999999999999997 58999999965432     23344333     344443333221 111111


Q ss_pred             HHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhC
Q psy2892         286 RINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEIN  365 (452)
Q Consensus       286 ~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~  365 (452)
                      .-..+                  ...-...+++.... +++|+||+|-+.....-+ .-.    ..++...|.  .+--+
T Consensus       100 ~~~~~------------------a~~~l~~a~~~l~~-~~yDlvILDEi~~al~~g-~l~----~~ev~~~l~--~Rp~~  153 (196)
T 1g5t_A          100 ADTAA------------------CMAVWQHGKRMLAD-PLLDMVVLDELTYMVAYD-YLP----LEEVISALN--ARPGH  153 (196)
T ss_dssp             HHHHH------------------HHHHHHHHHHHTTC-TTCSEEEEETHHHHHHTT-SSC----HHHHHHHHH--TSCTT
T ss_pred             HHHHH------------------HHHHHHHHHHHHhc-CCCCEEEEeCCCccccCC-CCC----HHHHHHHHH--hCcCC
Confidence            10000                  01112222222222 369999999998754322 111    223444443  23346


Q ss_pred             CcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         366 CPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       366 i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      ..||++....                  ...+-..||.|--+..
T Consensus       154 ~~vIlTGr~a------------------p~~l~e~AD~VTem~~  179 (196)
T 1g5t_A          154 QTVIITGRGC------------------HRDILDLADTVSELRP  179 (196)
T ss_dssp             CEEEEECSSC------------------CHHHHHHCSEEEECCC
T ss_pred             CEEEEECCCC------------------cHHHHHhCcceeeecc
Confidence            7888876322                  2356778999977754

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=97.22  E-value=0.0007  Score=65.48  Aligned_cols=153  Identities=16%  Similarity=0.178  Sum_probs=78.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHHHHHHHhCCCCccccccC-
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAMRMLGSVGKLDQHKLRTG-  277 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~R~~a~~~~i~~~~i~~g-  277 (452)
                      .|+.+.--+.+|+++.|.|++|+||||++.-++--..  ....-+++..+    .++.   .|-++.... +. .+... 
T Consensus        15 ~l~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~--p~~G~I~~~g~~i~~~~~~---~r~ig~v~Q-~~-~l~~~l   87 (348)
T 3d31_A           15 SLDNLSLKVESGEYFVILGPTGAGKTLFLELIAGFHV--PDSGRILLDGKDVTDLSPE---KHDIAFVYQ-NY-SLFPHM   87 (348)
T ss_dssp             EEEEEEEEECTTCEEEEECCCTHHHHHHHHHHHTSSC--CSEEEEEETTEECTTSCHH---HHTCEEECT-TC-CCCTTS
T ss_pred             EEeeeEEEEcCCCEEEEECCCCccHHHHHHHHHcCCC--CCCcEEEECCEECCCCchh---hCcEEEEec-Cc-ccCCCC
Confidence            4666645689999999999999999999887764321  11112222211    1111   121111110 00 00000 


Q ss_pred             -------------CCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHH--HHHHHHHcCCccEEEEcCcchhccCCC
Q psy2892         278 -------------RLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRAN--SRRLSRQCGKIGVIIIDYLQLMSANSR  342 (452)
Q Consensus       278 -------------~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~--i~~~~~~~~~~~~vvID~l~~i~~~~~  342 (452)
                                   .... + +++.++.+.+.-..+.-.....+|-.+-+..  ++.+.  . +|+++++|--..      
T Consensus        88 tv~enl~~~~~~~~~~~-~-~~v~~~l~~~~L~~~~~~~~~~LSgGq~QRvalAraL~--~-~P~lLLLDEP~s------  156 (348)
T 3d31_A           88 NVKKNLEFGMRMKKIKD-P-KRVLDTARDLKIEHLLDRNPLTLSGGEQQRVALARALV--T-NPKILLLDEPLS------  156 (348)
T ss_dssp             CHHHHHHHHHHHHCCCC-H-HHHHHHHHHTTCTTTTTSCGGGSCHHHHHHHHHHHHTT--S-CCSEEEEESSST------
T ss_pred             CHHHHHHHHHHHcCCCH-H-HHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHHH--c-CCCEEEEECccc------
Confidence                         0111 1 3444444443211110001124565544332  32222  3 599999998421      


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHhCCcEEEEecC
Q psy2892         343 GENRATEISEISRNLKGLAKEINCPILALSQL  374 (452)
Q Consensus       343 ~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql  374 (452)
                      +-+. .....+...|+.+.++.++++|+++|-
T Consensus       157 ~LD~-~~~~~l~~~l~~l~~~~g~tii~vTHd  187 (348)
T 3d31_A          157 ALDP-RTQENAREMLSVLHKKNKLTVLHITHD  187 (348)
T ss_dssp             TSCH-HHHHHHHHHHHHHHHHTTCEEEEEESC
T ss_pred             cCCH-HHHHHHHHHHHHHHHhcCCEEEEEeCC
Confidence            1222 233567788888888899999999984

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.21  E-value=0.0025  Score=62.45  Aligned_cols=38  Identities=24%  Similarity=0.339  Sum_probs=28.9

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      |+++..=+++.||||+|||.+|..+|...    +.+.+.+++
T Consensus       178 gi~~prGvLL~GPPGTGKTllAkAiA~e~----~~~f~~v~~  215 (405)
T 4b4t_J          178 GIAQPKGVILYGPPGTGKTLLARAVAHHT----DCKFIRVSG  215 (405)
T ss_dssp             TCCCCCCEEEESCSSSSHHHHHHHHHHHH----TCEEEEEEG
T ss_pred             CCCCCCceEEeCCCCCCHHHHHHHHHHhh----CCCceEEEh
Confidence            45444449999999999999999888764    566666654

>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=97.21  E-value=0.0011  Score=62.74  Aligned_cols=37  Identities=22%  Similarity=0.403  Sum_probs=29.6

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      |+.++.-++|.|+||+|||+++..++...    +.+.++++
T Consensus        45 ~~~~~~~vLL~Gp~GtGKT~la~ala~~~----~~~~i~v~   81 (301)
T 3cf0_A           45 GMTPSKGVLFYGPPGCGKTLLAKAIANEC----QANFISIK   81 (301)
T ss_dssp             CCCCCSEEEEECSSSSSHHHHHHHHHHHT----TCEEEEEC
T ss_pred             CCCCCceEEEECCCCcCHHHHHHHHHHHh----CCCEEEEE
Confidence            57788889999999999999999888643    45566554

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.18  E-value=0.0068  Score=61.45  Aligned_cols=117  Identities=10%  Similarity=0.054  Sum_probs=63.4

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHH--HHHHHhCCCCccccccCCCCcchHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAM--RMLGSVGKLDQHKLRTGRLSSDDWPRINDSI  291 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~--R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~  291 (452)
                      ...++|+|+||+||||++..++..++. .|.+|++++++.-......  +..+...+++......+ .++.+  .+.+++
T Consensus       101 ~~vI~ivG~~GvGKTTl~~kLA~~l~~-~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~-~dp~~--i~~~al  176 (504)
T 2j37_W          101 QNVIMFVGLQGSGKTTTCSKLAYYYQR-KGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTE-MDPVI--IASEGV  176 (504)
T ss_dssp             -EEEEEECSTTSSHHHHHHHHHHHHHH-TTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCC-SCHHH--HHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHh-CCCeEEEEeccccchhHHHHHHHHhhccCceEEccCCC-CCHHH--HHHHHH
Confidence            457889999999999999999999874 6899999998753221111  11222234543221111 11111  223444


Q ss_pred             HHH--hCCCeEEEcCCCCC-H-HHHHHHHHHHHHHcC-CccEEEEcCc
Q psy2892         292 KKI--NKSQLYIDETPSLN-V-IELRANSRRLSRQCG-KIGVIIIDYL  334 (452)
Q Consensus       292 ~~l--~~~~l~i~~~~~~t-~-~~i~~~i~~~~~~~~-~~~~vvID~l  334 (452)
                      ..+  .+..+.|.|+++.. . ..+...+..+..... ..-++|||..
T Consensus       177 ~~~~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~  224 (504)
T 2j37_W          177 EKFKNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDAS  224 (504)
T ss_dssp             HHHHHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETT
T ss_pred             HHHHHCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEecc
Confidence            444  44567777765443 1 233333333322112 2336688874

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.18  E-value=0.0041  Score=59.50  Aligned_cols=41  Identities=20%  Similarity=0.237  Sum_probs=31.3

Q ss_pred             CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         209 SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       209 gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ++..+..-++|.|+||+|||++|..++...   .+.++++++..
T Consensus        40 ~~~~~~~~iLL~GppGtGKT~la~ala~~~---~~~~~~~i~~~   80 (322)
T 1xwi_A           40 GKRTPWRGILLFGPPGTGKSYLAKAVATEA---NNSTFFSISSS   80 (322)
T ss_dssp             TTCCCCSEEEEESSSSSCHHHHHHHHHHHT---TSCEEEEEECC
T ss_pred             CCCCCCceEEEECCCCccHHHHHHHHHHHc---CCCcEEEEEhH
Confidence            345566679999999999999999888764   25667776664

>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=97.17  E-value=0.0013  Score=65.90  Aligned_cols=40  Identities=23%  Similarity=0.331  Sum_probs=32.6

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhC-CCcEEEEeCCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIEN-KLPVAIFSMEM  253 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~-g~~vl~~s~E~  253 (452)
                      +.-++|.|+||+|||+++..++....... +.+++|++.+.
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~~~~  170 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEK  170 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEEHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHH
Confidence            45789999999999999999988775432 78899988753

>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=97.16  E-value=0.0012  Score=59.42  Aligned_cols=151  Identities=15%  Similarity=0.164  Sum_probs=77.8

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC------C-------CcEEEEeCC------CCHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN------K-------LPVAIFSME------MSGIQLAMRM  262 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~------g-------~~vl~~s~E------~~~~~i~~R~  262 (452)
                      +.|+.+.--+.+|+++.|.|++|+|||||+.-++--.--..      |       ..+.|+.-+      ++..+...-.
T Consensus        23 ~il~~vsl~i~~Ge~~~iiG~NGsGKSTLlk~l~Gl~~p~~G~I~~~g~~~~~~~~~i~~v~q~~~~~~~~tv~enl~~~  102 (214)
T 1sgw_A           23 PVLERITMTIEKGNVVNFHGPNGIGKTTLLKTISTYLKPLKGEIIYNGVPITKVKGKIFFLPEEIIVPRKISVEDYLKAV  102 (214)
T ss_dssp             EEEEEEEEEEETTCCEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEEGGGGGGGEEEECSSCCCCTTSBHHHHHHHH
T ss_pred             eEEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCeEEEECCEEhhhhcCcEEEEeCCCcCCCCCCHHHHHHHH
Confidence            45666644589999999999999999999887654321001      1       123444222      1222222111


Q ss_pred             HHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         263 LGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDE-TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       263 ~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                      . ...         + +. .+.+++.++++.+.-...  .. ...+|-.+-+...-...--. +++++++|--..--.. 
T Consensus       103 ~-~~~---------~-~~-~~~~~~~~~l~~~gl~~~--~~~~~~LSgGqkqrv~laraL~~-~p~lllLDEPts~LD~-  166 (214)
T 1sgw_A          103 A-SLY---------G-VK-VNKNEIMDALESVEVLDL--KKKLGELSQGTIRRVQLASTLLV-NAEIYVLDDPVVAIDE-  166 (214)
T ss_dssp             H-HHT---------T-CC-CCHHHHHHHHHHTTCCCT--TSBGGGSCHHHHHHHHHHHHTTS-CCSEEEEESTTTTSCT-
T ss_pred             H-Hhc---------C-Cc-hHHHHHHHHHHHcCCCcC--CCChhhCCHHHHHHHHHHHHHHh-CCCEEEEECCCcCCCH-
Confidence            0 000         1 01 113344555555421122  21 22466555443322222223 5999999986432221 


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCC
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLN  375 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~  375 (452)
                         ..   ...+.+.|+.++++ +.+||+++|--
T Consensus       167 ---~~---~~~l~~~l~~~~~~-g~tiiivtHd~  193 (214)
T 1sgw_A          167 ---DS---KHKVLKSILEILKE-KGIVIISSREE  193 (214)
T ss_dssp             ---TT---HHHHHHHHHHHHHH-HSEEEEEESSC
T ss_pred             ---HH---HHHHHHHHHHHHhC-CCEEEEEeCCH
Confidence               12   23555666776655 78888888754

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.16  E-value=0.0031  Score=62.74  Aligned_cols=38  Identities=21%  Similarity=0.393  Sum_probs=30.0

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      |+.+..=+++.||||+|||.+|..+|...    |.+.+++++
T Consensus       211 g~~~prGvLL~GPPGtGKTllAkAiA~e~----~~~~~~v~~  248 (437)
T 4b4t_L          211 GIKPPKGVLLYGPPGTGKTLLAKAVAATI----GANFIFSPA  248 (437)
T ss_dssp             CCCCCCEEEEESCTTSSHHHHHHHHHHHH----TCEEEEEEG
T ss_pred             CCCCCCeEEEECCCCCcHHHHHHHHHHHh----CCCEEEEeh
Confidence            56555569999999999999999988765    566776654

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.15  E-value=0.0027  Score=63.03  Aligned_cols=38  Identities=21%  Similarity=0.359  Sum_probs=29.5

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      |+.+..=+++.||||+|||.+|..+|...    |.+++.+++
T Consensus       202 g~~~prGiLL~GPPGtGKT~lakAiA~~~----~~~~~~v~~  239 (428)
T 4b4t_K          202 GIDPPRGVLLYGPPGTGKTMLVKAVANST----KAAFIRVNG  239 (428)
T ss_dssp             CCCCCCEEEEESCTTTTHHHHHHHHHHHH----TCEEEEEEG
T ss_pred             CCCCCceEEEECCCCCCHHHHHHHHHHHh----CCCeEEEec
Confidence            45554559999999999999999988764    566776654

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=97.14  E-value=0.0033  Score=60.28  Aligned_cols=129  Identities=14%  Similarity=0.148  Sum_probs=70.8

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC--------CHHHHHHHHHHHhCCCCccccccCCCCcchHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM--------SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWP  285 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~--------~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~  285 (452)
                      |.+++|.|++|+|||+++.+++...    +  ++|+++..        +...+...+.......               .
T Consensus        31 ~~~v~i~G~~G~GKT~Ll~~~~~~~----~--~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~---------------~   89 (350)
T 2qen_A           31 YPLTLLLGIRRVGKSSLLRAFLNER----P--GILIDCRELYAERGHITREELIKELQSTISPF---------------Q   89 (350)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHHHHS----S--EEEEEHHHHHHTTTCBCHHHHHHHHHHHSCSH---------------H
T ss_pred             CCeEEEECCCcCCHHHHHHHHHHHc----C--cEEEEeecccccccCCCHHHHHHHHHHHHHHH---------------H
Confidence            3699999999999999999987542    2  88988753        3344444443321110               0


Q ss_pred             HHHHHHHHHhCCCeEEE----cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHH
Q psy2892         286 RINDSIKKINKSQLYID----ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLA  361 (452)
Q Consensus       286 ~~~~a~~~l~~~~l~i~----~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA  361 (452)
                      ++.+... +   .+.+.    +....++.++...+..+....+ +-+||||.+|.+........     ..+...|+.+.
T Consensus        90 ~~~~~~~-~---~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~vlvlDe~~~~~~~~~~~~-----~~~~~~L~~~~  159 (350)
T 2qen_A           90 KFQSKFK-I---SLNLKFLTLEPRKLSLREVFRELNDLGEELG-EFIVAFDEAQYLRFYGSRGG-----KELLALFAYAY  159 (350)
T ss_dssp             HHHHHHT-C---CCCCGGGTSCGGGCCHHHHHHHHHHHHHHHS-CEEEEEETGGGGGGBTTTTT-----HHHHHHHHHHH
T ss_pred             hHhhhce-e---EEEecceeeccccchHHHHHHHHHHHHhccC-CEEEEEeCHHHHhccCccch-----hhHHHHHHHHH
Confidence            1111100 0   00000    0002346666666666555444 78999999999875110011     13344555555


Q ss_pred             HH-hCCcEEEEec
Q psy2892         362 KE-INCPILALSQ  373 (452)
Q Consensus       362 ~~-~~i~vi~l~q  373 (452)
                      .. .++.+|+++.
T Consensus       160 ~~~~~~~~il~g~  172 (350)
T 2qen_A          160 DSLPNLKIILTGS  172 (350)
T ss_dssp             HHCTTEEEEEEES
T ss_pred             HhcCCeEEEEECC
Confidence            44 3777777653

>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=97.14  E-value=0.00061  Score=62.77  Aligned_cols=174  Identities=13%  Similarity=0.133  Sum_probs=89.2

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC----CCHHHHHHHHHHHhCCCC-------
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME----MSGIQLAMRMLGSVGKLD-------  270 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E----~~~~~i~~R~~a~~~~i~-------  270 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++--.-  .. .-+++...    .+..++..+ ++....-+       
T Consensus        14 ~vl~~vsl~i~~Ge~~~liG~NGsGKSTLlk~l~Gl~~--p~-G~i~~~g~~~~~~~~~~~~~~-i~~v~q~~~~~~~~t   89 (249)
T 2qi9_C           14 TRLGPLSGEVRAGEILHLVGPNGAGKSTLLARMAGMTS--GK-GSIQFAGQPLEAWSATKLALH-RAYLSQQQTPPFATP   89 (249)
T ss_dssp             TTEEEEEEEEETTCEEEEECCTTSSHHHHHHHHTTSSC--CE-EEEEETTEEGGGSCHHHHHHH-EEEECSCCCCCTTCB
T ss_pred             EEEeeeEEEEcCCCEEEEECCCCCcHHHHHHHHhCCCC--CC-eEEEECCEECCcCCHHHHhce-EEEECCCCccCCCCc
Confidence            45666645689999999999999999999887664331  11 22333221    233332221 22111100       


Q ss_pred             ccc-cccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHH--HHHHHHHHHcCCcc-------EEEEcCcchhccC
Q psy2892         271 QHK-LRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELR--ANSRRLSRQCGKIG-------VIIIDYLQLMSAN  340 (452)
Q Consensus       271 ~~~-i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~--~~i~~~~~~~~~~~-------~vvID~l~~i~~~  340 (452)
                      ... +.-+.......+++.++.+.+.-..+.-.....+|-.+-+  ..++.+..   +++       ++++|--..    
T Consensus        90 v~e~l~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSgGq~qrv~lAraL~~---~p~~~~~~~~lllLDEPts----  162 (249)
T 2qi9_C           90 VWHYLTLHQHDKTRTELLNDVAGALALDDKLGRSTNQLSGGEWQRVRLAAVVLQ---ITPQANPAGQLLLLDEPMN----  162 (249)
T ss_dssp             HHHHHHTTCSSTTCHHHHHHHHHHTTCGGGTTSBGGGCCHHHHHHHHHHHHHHH---HCTTTCTTCCEEEESSTTT----
T ss_pred             HHHHHHHhhccCCcHHHHHHHHHHcCChhHhcCChhhCCHHHHHHHHHHHHHHc---CCCcCCCCCeEEEEECCcc----
Confidence            000 0001100001233444444432111100012245554443  33444443   377       999998432    


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         341 SRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       341 ~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                        +-+. .....+.+.|+.++++ +.+||+++|--.                   .++..||.++.|..
T Consensus       163 --~LD~-~~~~~l~~~l~~l~~~-g~tviivtHd~~-------------------~~~~~~d~v~~l~~  208 (249)
T 2qi9_C          163 --SLDV-AQQSALDKILSALSQQ-GLAIVMSSHDLN-------------------HTLRHAHRAWLLKG  208 (249)
T ss_dssp             --TCCH-HHHHHHHHHHHHHHHT-TCEEEEECSCHH-------------------HHHHHCSEEEEEET
T ss_pred             --cCCH-HHHHHHHHHHHHHHhC-CCEEEEEeCCHH-------------------HHHHhCCEEEEEEC
Confidence              2222 2345677788888766 899999988321                   24567888888864

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=97.14  E-value=0.0046  Score=58.90  Aligned_cols=55  Identities=7%  Similarity=0.029  Sum_probs=38.0

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhC------CCcEEEEeCC--CCHHHHHHHHHHHhCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIEN------KLPVAIFSME--MSGIQLAMRMLGSVGK  268 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~------g~~vl~~s~E--~~~~~i~~R~~a~~~~  268 (452)
                      +.-++|.|+||+|||+++..++..+....      +..++|+++-  .++..+...++..+.|
T Consensus        45 ~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g  107 (318)
T 3te6_A           45 NKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISK  107 (318)
T ss_dssp             CCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHHHHHHSC
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHHHHHhcC
Confidence            44679999999999999999998874321      2457777754  3556677777665544

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.13  E-value=0.0014  Score=62.02  Aligned_cols=38  Identities=11%  Similarity=0.074  Sum_probs=30.3

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      |.++...+++.|+||+|||+++..+|...    |.+++++++
T Consensus        32 ~~~~p~~lLl~GppGtGKT~la~aiA~~l----~~~~i~v~~   69 (293)
T 3t15_A           32 NIKVPLILGIWGGKGQGKSFQCELVFRKM----GINPIMMSA   69 (293)
T ss_dssp             TCCCCSEEEEEECTTSCHHHHHHHHHHHH----TCCCEEEEH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHh----CCCEEEEeH
Confidence            44444568899999999999999998765    577888875

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.10  E-value=0.0022  Score=63.71  Aligned_cols=38  Identities=16%  Similarity=0.272  Sum_probs=29.7

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      |+++..=+++.||||+|||.+|..+|...    |.+.+.+++
T Consensus       211 g~~~prGvLLyGPPGTGKTllAkAiA~e~----~~~f~~v~~  248 (434)
T 4b4t_M          211 GIRAPKGALMYGPPGTGKTLLARACAAQT----NATFLKLAA  248 (434)
T ss_dssp             CCCCCCEEEEESCTTSSHHHHHHHHHHHH----TCEEEEEEG
T ss_pred             CCCCCCeeEEECcCCCCHHHHHHHHHHHh----CCCEEEEeh
Confidence            55555569999999999999999888764    566776664

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=97.07  E-value=0.00036  Score=60.71  Aligned_cols=43  Identities=19%  Similarity=0.234  Sum_probs=31.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC-HHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS-GIQLAMRML  263 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~-~~~i~~R~~  263 (452)
                      +++|.|++|+|||+||.+++..     |.+++|+..+.. ..++..|+.
T Consensus         1 ~ilV~Gg~~SGKS~~A~~la~~-----~~~~~yiaT~~~~d~e~~~rI~   44 (180)
T 1c9k_A            1 MILVTGGARSGKSRHAEALIGD-----APQVLYIATSQILDDEMAARIQ   44 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHHCS-----CSSEEEEECCCC------CHHH
T ss_pred             CEEEECCCCCcHHHHHHHHHhc-----CCCeEEEecCCCCCHHHHHHHH
Confidence            4789999999999999998743     678999999775 444555543

>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=97.04  E-value=0.0044  Score=64.51  Aligned_cols=157  Identities=17%  Similarity=0.145  Sum_probs=87.2

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC-----CcEEEEeCC------CCHHHHHHHHHHHhCCCCccccccCCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK-----LPVAIFSME------MSGIQLAMRMLGSVGKLDQHKLRTGRL  279 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g-----~~vl~~s~E------~~~~~i~~R~~a~~~~i~~~~i~~g~l  279 (452)
                      +.+|+++.|.|++|+|||||+.-++--..-..|     .++.|+.-+      ++..+........  +     .     
T Consensus       379 v~~Gei~~i~G~NGsGKSTLlk~l~Gl~~p~~G~I~~~~~i~~v~Q~~~~~~~~tv~e~~~~~~~~--~-----~-----  446 (607)
T 3bk7_A          379 IRKGEVIGIVGPNGIGKTTFVKMLAGVEEPTEGKVEWDLTVAYKPQYIKAEYEGTVYELLSKIDSS--K-----L-----  446 (607)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHHTSSCCSBSCCCCCCCEEEECSSCCCCCSSBHHHHHHHHHHH--H-----H-----
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCceEEEEeeEEEEEecCccCCCCCcHHHHHHhhhcc--C-----C-----
Confidence            578999999999999999999877753211112     346666433      3333333221000  0     0     


Q ss_pred             CcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHH
Q psy2892         280 SSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKG  359 (452)
Q Consensus       280 ~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~  359 (452)
                        .+..++.++++.+.-..+.-.....+|-.+-....-...-.. +++++++|--..      +-+. .....+.+.|+.
T Consensus       447 --~~~~~~~~~l~~~~l~~~~~~~~~~LSGGe~QRv~iAraL~~-~p~lLlLDEPt~------~LD~-~~~~~l~~~l~~  516 (607)
T 3bk7_A          447 --NSNFYKTELLKPLGIIDLYDRNVEDLSGGELQRVAIAATLLR-DADIYLLDEPSA------YLDV-EQRLAVSRAIRH  516 (607)
T ss_dssp             --HCHHHHHHTHHHHTCTTTTTSBGGGCCHHHHHHHHHHHHHTS-CCSEEEEECTTT------TCCH-HHHHHHHHHHHH
T ss_pred             --CHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHHHh-CCCEEEEeCCcc------CCCH-HHHHHHHHHHHH
Confidence              011223333333321111101123466555544322222223 499999998432      2222 234577888888


Q ss_pred             HHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEe
Q psy2892         360 LAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIY  408 (452)
Q Consensus       360 lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~  408 (452)
                      ++++.+.+||+++|--.                   .+...||.++.|.
T Consensus       517 l~~~~g~tvi~vsHd~~-------------------~~~~~adrv~vl~  546 (607)
T 3bk7_A          517 LMEKNEKTALVVEHDVL-------------------MIDYVSDRLIVFE  546 (607)
T ss_dssp             HHHHTTCEEEEECSCHH-------------------HHHHHCSEEEEEE
T ss_pred             HHHhCCCEEEEEeCCHH-------------------HHHHhCCEEEEEc
Confidence            88888999999988321                   2556788888886

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.04  E-value=0.0045  Score=61.04  Aligned_cols=38  Identities=21%  Similarity=0.370  Sum_probs=29.4

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      |+++..=+++.||||+|||.+|..+|...    +.+.+.++.
T Consensus       212 Gi~~prGvLLyGPPGTGKTlLAkAiA~e~----~~~fi~v~~  249 (437)
T 4b4t_I          212 GIKPPKGVILYGAPGTGKTLLAKAVANQT----SATFLRIVG  249 (437)
T ss_dssp             TCCCCSEEEEESSTTTTHHHHHHHHHHHH----TCEEEEEES
T ss_pred             CCCCCCCCceECCCCchHHHHHHHHHHHh----CCCEEEEEH
Confidence            55554559999999999999999888765    456666654

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=97.03  E-value=0.0035  Score=57.05  Aligned_cols=39  Identities=13%  Similarity=0.222  Sum_probs=33.0

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      +.+..+..|+|||+++.++|..++...|.+|+++.++..
T Consensus         7 I~v~s~kGGvGKTt~a~~LA~~la~~~g~~VlliD~D~~   45 (245)
T 3ea0_A            7 FGFVSAKGGDGGSCIAANFAFALSQEPDIHVLAVDISLP   45 (245)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHTTSTTCCEEEEECCTT
T ss_pred             EEEECCCCCcchHHHHHHHHHHHHhCcCCCEEEEECCCC
Confidence            456667899999999999999998533999999999865

>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=97.01  E-value=0.0012  Score=60.93  Aligned_cols=39  Identities=18%  Similarity=0.327  Sum_probs=29.8

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      |..+..-++|.|+||+|||+++..++...    +.+++++++.
T Consensus        35 g~~~~~~vll~G~~GtGKT~la~~la~~~----~~~~~~~~~~   73 (262)
T 2qz4_A           35 GAKVPKGALLLGPPGCGKTLLAKAVATEA----QVPFLAMAGA   73 (262)
T ss_dssp             -CCCCCEEEEESCTTSSHHHHHHHHHHHH----TCCEEEEETT
T ss_pred             CCCCCceEEEECCCCCCHHHHHHHHHHHh----CCCEEEechH
Confidence            34445568999999999999999888754    4677777764

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=97.00  E-value=0.00089  Score=61.33  Aligned_cols=174  Identities=14%  Similarity=0.124  Sum_probs=86.8

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-CCHHHHHHHHHHHhCCCCccc-ccc-----
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-MSGIQLAMRMLGSVGKLDQHK-LRT-----  276 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~~~~~i~~R~~a~~~~i~~~~-i~~-----  276 (452)
                      |+.+.--+++ +++.|.|++|+|||||+.-++--..  ....-+++... .....-..+-++.   +.... +..     
T Consensus        15 l~~isl~i~~-e~~~liG~nGsGKSTLl~~l~Gl~~--p~~G~i~~~g~~~~~~~~~~~~i~~---v~q~~~l~~~ltv~   88 (240)
T 2onk_A           15 RLNVDFEMGR-DYCVLLGPTGAGKSVFLELIAGIVK--PDRGEVRLNGADITPLPPERRGIGF---VPQDYALFPHLSVY   88 (240)
T ss_dssp             EEEEEEEECS-SEEEEECCTTSSHHHHHHHHHTSSC--CSEEEEEETTEECTTSCTTTSCCBC---CCSSCCCCTTSCHH
T ss_pred             EeeeEEEECC-EEEEEECCCCCCHHHHHHHHhCCCC--CCceEEEECCEECCcCchhhCcEEE---EcCCCccCCCCcHH
Confidence            6666445889 9999999999999999987764321  11112233221 1100000010110   11000 000     


Q ss_pred             -----C-CCC--cchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHH
Q psy2892         277 -----G-RLS--SDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRAT  348 (452)
Q Consensus       277 -----g-~l~--~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~  348 (452)
                           + ...  ..+.+++.++.+.+.-..+.-.....+|-.+-+...-...--. +|+++++|--..      +-+. .
T Consensus        89 enl~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSgGqkqRv~lAral~~-~p~lllLDEPts------~LD~-~  160 (240)
T 2onk_A           89 RNIAYGLRNVERVERDRRVREMAEKLGIAHLLDRKPARLSGGERQRVALARALVI-QPRLLLLDEPLS------AVDL-K  160 (240)
T ss_dssp             HHHHTTCTTSCHHHHHHHHHHHHHTTTCTTTTTCCGGGSCHHHHHHHHHHHHHTT-CCSSBEEESTTS------SCCH-H
T ss_pred             HHHHHHHHHcCCchHHHHHHHHHHHcCCHHHhcCChhhCCHHHHHHHHHHHHHHc-CCCEEEEeCCcc------cCCH-H
Confidence                 0 000  0112233333332210011000122466555443322222223 499999998432      1222 3


Q ss_pred             HHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         349 EISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       349 ~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      ....+.+.|+.++++.+.+||+++|--.                   .+...||.++++...
T Consensus       161 ~~~~~~~~l~~l~~~~g~tvi~vtHd~~-------------------~~~~~~d~i~~l~~G  203 (240)
T 2onk_A          161 TKGVLMEELRFVQREFDVPILHVTHDLI-------------------EAAMLADEVAVMLNG  203 (240)
T ss_dssp             HHHHHHHHHHHHHHHHTCCEEEEESCHH-------------------HHHHHCSEEEEEETT
T ss_pred             HHHHHHHHHHHHHHhcCCEEEEEeCCHH-------------------HHHHhCCEEEEEECC
Confidence            3456778888888888999999988321                   256678999988643

>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*

Probab=96.97  E-value=0.0028  Score=67.64  Aligned_cols=140  Identities=15%  Similarity=0.117  Sum_probs=81.9

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-CCHHHHHHHHHHHh--CCCCccccccCCCCcchHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-MSGIQLAMRMLGSV--GKLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~~~~~i~~R~~a~~--~~i~~~~i~~g~l~~~~~~~~  287 (452)
                      +..|.-++++|++|+|||..+...+.......|.+++|+.-- .-..++..++. ..  .|+....+ .|....++.   
T Consensus        36 ~~~~~~~lv~apTGsGKT~~~~l~il~~~~~~~~~~l~i~P~raLa~q~~~~~~-~l~~~g~~v~~~-~G~~~~~~~---  110 (720)
T 2zj8_A           36 ILEGKNALISIPTASGKTLIAEIAMVHRILTQGGKAVYIVPLKALAEEKFQEFQ-DWEKIGLRVAMA-TGDYDSKDE---  110 (720)
T ss_dssp             GGGTCEEEEECCGGGCHHHHHHHHHHHHHHHHCSEEEEECSSGGGHHHHHHHTG-GGGGGTCCEEEE-CSCSSCCCG---
T ss_pred             hcCCCcEEEEcCCccHHHHHHHHHHHHHHHhCCCEEEEEcCcHHHHHHHHHHHH-HHHhcCCEEEEe-cCCCCcccc---
Confidence            455788999999999999988666665544357889998643 44566666662 21  24443322 343332221   


Q ss_pred             HHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCc
Q psy2892         288 NDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCP  367 (452)
Q Consensus       288 ~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~  367 (452)
                           ++.+..+.+.     |++.+...++.-.....++++||||-.+.+...    .+...+..+...++    . ++.
T Consensus       111 -----~~~~~~Iiv~-----Tpe~l~~~~~~~~~~l~~~~~vIiDE~H~l~~~----~r~~~~~~ll~~l~----~-~~~  171 (720)
T 2zj8_A          111 -----WLGKYDIIIA-----TAEKFDSLLRHGSSWIKDVKILVADEIHLIGSR----DRGATLEVILAHML----G-KAQ  171 (720)
T ss_dssp             -----GGGGCSEEEE-----CHHHHHHHHHHTCTTGGGEEEEEEETGGGGGCT----TTHHHHHHHHHHHB----T-TBE
T ss_pred             -----ccCCCCEEEE-----CHHHHHHHHHcChhhhhcCCEEEEECCcccCCC----cccHHHHHHHHHhh----c-CCe
Confidence                 1234456654     456665544431110114899999999988653    23344455555554    1 667


Q ss_pred             EEEEecC
Q psy2892         368 ILALSQL  374 (452)
Q Consensus       368 vi~l~ql  374 (452)
                      +|+++-.
T Consensus       172 ii~lSAT  178 (720)
T 2zj8_A          172 IIGLSAT  178 (720)
T ss_dssp             EEEEECC
T ss_pred             EEEEcCC
Confidence            7776644

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=96.97  E-value=0.0019  Score=66.30  Aligned_cols=156  Identities=16%  Similarity=0.123  Sum_probs=85.8

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHh------CCCcEEEEeC------CCCHHHHHHHHHHHhCCCCccccccCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE------NKLPVAIFSM------EMSGIQLAMRMLGSVGKLDQHKLRTGR  278 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~------~g~~vl~~s~------E~~~~~i~~R~~a~~~~i~~~~i~~g~  278 (452)
                      +++|+++.|.|++|+|||||+.-++--..-.      .+..+.|+.-      .++..+.....    ..        ..
T Consensus       291 i~~Gei~~i~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~~~~i~~~~q~~~~~~~~tv~~~l~~~----~~--------~~  358 (538)
T 3ozx_A          291 AKEGEIIGILGPNGIGKTTFARILVGEITADEGSVTPEKQILSYKPQRIFPNYDGTVQQYLENA----SK--------DA  358 (538)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHTTSSCCSBCCEESSCCCEEEECSSCCCCCSSBHHHHHHHH----CS--------ST
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCeeeEeechhcccccCCCHHHHHHHh----hh--------hc
Confidence            6799999999999999999998777532111      2345666543      23333332211    10        00


Q ss_pred             CCcchHHHHHHHHHHHhCCCeE-EEc--CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHH
Q psy2892         279 LSSDDWPRINDSIKKINKSQLY-IDE--TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISR  355 (452)
Q Consensus       279 l~~~~~~~~~~a~~~l~~~~l~-i~~--~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~  355 (452)
                      ..... ..+.++.   ....+. ..+  ...+|-.+-...+-...-.. +++++++|--+.      +-+. .....+.+
T Consensus       359 ~~~~~-~~~~~~l---~~~~l~~~~~~~~~~LSGGq~QRv~iAraL~~-~p~lLlLDEPT~------gLD~-~~~~~i~~  426 (538)
T 3ozx_A          359 LSTSS-WFFEEVT---KRLNLHRLLESNVNDLSGGELQKLYIAATLAK-EADLYVLDQPSS------YLDV-EERYIVAK  426 (538)
T ss_dssp             TCTTS-HHHHHTT---TTTTGGGCTTSBGGGCCHHHHHHHHHHHHHHS-CCSEEEEESTTT------TCCH-HHHHHHHH
T ss_pred             cchhH-HHHHHHH---HHcCCHHHhcCChhhCCHHHHHHHHHHHHHHc-CCCEEEEeCCcc------CCCH-HHHHHHHH
Confidence            10111 1111111   111111 011  22455554433322222223 499999998432      2222 33457788


Q ss_pred             HHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         356 NLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       356 ~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      .|+.++++.+.+||+++|--.                   .+.+.||.|+.+..
T Consensus       427 ~l~~l~~~~g~tvi~vsHdl~-------------------~~~~~aDri~vl~~  461 (538)
T 3ozx_A          427 AIKRVTRERKAVTFIIDHDLS-------------------IHDYIADRIIVFKG  461 (538)
T ss_dssp             HHHHHHHHTTCEEEEECSCHH-------------------HHHHHCSEEEEEEE
T ss_pred             HHHHHHHhCCCEEEEEeCCHH-------------------HHHHhCCEEEEEeC
Confidence            899999999999999987321                   35667888888864

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli}

Probab=96.96  E-value=0.0021  Score=60.49  Aligned_cols=41  Identities=22%  Similarity=0.271  Sum_probs=35.0

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      -+.+.++.+|+|||+++.++|..+|. .|.+|+++.+++...
T Consensus        94 vI~vts~kgG~GKTtva~nLA~~lA~-~G~rVLLID~D~~~~  134 (286)
T 3la6_A           94 VLMMTGVSPSIGMTFVCANLAAVISQ-TNKRVLLIDCDMRKG  134 (286)
T ss_dssp             EEEEEESSSSSSHHHHHHHHHHHHHT-TTCCEEEEECCTTTC
T ss_pred             EEEEECCCCCCcHHHHHHHHHHHHHh-CCCCEEEEeccCCCC
Confidence            35666778999999999999999985 699999999998643

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A

Probab=96.96  E-value=0.006  Score=53.85  Aligned_cols=114  Identities=12%  Similarity=0.030  Sum_probs=62.3

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHH-----hCCCcEEEEeCC-CCHHHHHHHHHHHhCCCCccccccCCCCcch-HHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAI-----ENKLPVAIFSME-MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDD-WPRI  287 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~-----~~g~~vl~~s~E-~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~-~~~~  287 (452)
                      .-+++.+++|+|||..++-.+.....     ..+.+++|+.-- .-..++..++.....++....+. |..+..+ ...+
T Consensus        39 ~~~li~~~TGsGKT~~~~~~~~~~l~~~~~~~~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~  117 (207)
T 2gxq_A           39 KDLIGQARTGTGKTLAFALPIAERLAPSQERGRKPRALVLTPTRELALQVASELTAVAPHLKVVAVY-GGTGYGKQKEAL  117 (207)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHCCCCCCTTCCCSEEEECSSHHHHHHHHHHHHHHCTTSCEEEEC-SSSCSHHHHHHH
T ss_pred             CCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCcEEEEECCHHHHHHHHHHHHHHhhcceEEEEE-CCCChHHHHHHh
Confidence            44889999999999876555555432     245678888643 23355555555443333332222 2222221 1111


Q ss_pred             HHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         288 NDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       288 ~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                            ..+.++.+.     |++.+...+..-.....++++||||-.+.+...
T Consensus       118 ------~~~~~i~v~-----T~~~l~~~~~~~~~~~~~~~~iViDEah~~~~~  159 (207)
T 2gxq_A          118 ------LRGADAVVA-----TPGRALDYLRQGVLDLSRVEVAVLDEADEMLSM  159 (207)
T ss_dssp             ------HHCCSEEEE-----CHHHHHHHHHHTSSCCTTCSEEEEESHHHHHHT
T ss_pred             ------hCCCCEEEE-----CHHHHHHHHHcCCcchhhceEEEEEChhHhhcc
Confidence                  124456664     455555544331111125899999999987653

>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=96.95  E-value=0.0027  Score=64.04  Aligned_cols=35  Identities=26%  Similarity=0.477  Sum_probs=27.6

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +++|  ++|.|+||+|||+++..++...    +.+++++++
T Consensus        48 ~p~g--vLL~GppGtGKT~Laraia~~~----~~~f~~is~   82 (476)
T 2ce7_A           48 MPKG--ILLVGPPGTGKTLLARAVAGEA----NVPFFHISG   82 (476)
T ss_dssp             CCSE--EEEECCTTSSHHHHHHHHHHHH----TCCEEEEEG
T ss_pred             CCCe--EEEECCCCCCHHHHHHHHHHHc----CCCeeeCCH
Confidence            4455  8899999999999999887643    567777764

>3qxc_A Dethiobiotin synthetase; DTBS, structural genomics, ATP BIND biology, protein structure initiative, midwest center for S genomics, MCSG; HET: ATP; 1.34A {Helicobacter pylori} PDB: 3mle_A* 3qxh_A* 3qxj_A* 3qxs_A* 3qxx_A* 3qy0_A* 2qmo_A

Probab=96.94  E-value=0.016  Score=52.83  Aligned_cols=139  Identities=14%  Similarity=0.165  Sum_probs=76.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe-----CCC-----CHHHHHHHHHHHhC-CCCccccccCCCCcchH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS-----MEM-----SGIQLAMRMLGSVG-KLDQHKLRTGRLSSDDW  284 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s-----~E~-----~~~~i~~R~~a~~~-~i~~~~i~~g~l~~~~~  284 (452)
                      +++.+-.+|+|||++++.++..+. ++|.+|.||-     ++.     ..-....+-.+..+ +++...+..-.+.+..-
T Consensus        24 i~ItgT~t~vGKT~vs~gL~~~L~-~~G~~V~~fKPv~~g~~~~~~~~~D~~~~~~~~~~~~~g~~~~~~~p~~~~~p~s  102 (242)
T 3qxc_A           24 LFISATNTNAGKTTCARLLAQYCN-ACGVKTILLKPIETGVNDAINHSSDAHLFLQDNRLLDRSLTLKDISFYRYHKVSA  102 (242)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHH-HTTCCEEEECCEECSCCTTTCCCSHHHHHHHHHHTTCTTCCHHHHCCEECSSSSC
T ss_pred             EEEEeCCCCCcHHHHHHHHHHHHH-hCCCceEEEeeeecCCcccCCCCchHHHHHHHHHHHhCCCChHHeeeEEECCCCC
Confidence            555566699999999999999886 4799999994     321     11111111112333 55432221100100000


Q ss_pred             HHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHh
Q psy2892         285 PRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEI  364 (452)
Q Consensus       285 ~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~  364 (452)
                      ..+.   ..+.+.      ......+.|.+.++++..   +.|+||||.-.-+..+.. ..         ...-.+|+.+
T Consensus       103 p~~a---a~~~g~------~~~i~~~~I~~~~~~l~~---~~D~vlIEGagGl~~pl~-~~---------~~~adlA~~l  160 (242)
T 3qxc_A          103 PLIA---QQEEDP------NAPIDTDNLTQRLHNFTK---TYDLVIVEGAGGLCVPIT-LE---------ENMLDFALKL  160 (242)
T ss_dssp             HHHH---HHHHCT------TCCCCHHHHHHHHHHGGG---TCSEEEEECCSCTTCBSS-SS---------CBHHHHHHHH
T ss_pred             hHHH---HHHcCC------CCcCCHHHHHHHHHHHHh---cCCEEEEECCCCcccccc-cc---------chHHHHHHHc
Confidence            0000   001110      014567788877766543   389999999876554321 11         1224568889


Q ss_pred             CCcEEEEecCCcc
Q psy2892         365 NCPILALSQLNRS  377 (452)
Q Consensus       365 ~i~vi~l~ql~r~  377 (452)
                      ++|||+++-...+
T Consensus       161 ~~pVILV~~~~lg  173 (242)
T 3qxc_A          161 KAKMLLISHDNLG  173 (242)
T ss_dssp             TCEEEEEECCSTT
T ss_pred             CCCEEEEEcCCCc
Confidence            9999999876543

>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A

Probab=96.92  E-value=0.0053  Score=65.33  Aligned_cols=142  Identities=13%  Similarity=0.103  Sum_probs=79.8

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHHHHh--CCCCccccccCCCCcchHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM-SGIQLAMRMLGSV--GKLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~-~~~~i~~R~~a~~--~~i~~~~i~~g~l~~~~~~~~  287 (452)
                      +..|.-++++|++|+|||+.+...+..... .+.+++|++--- -..++..++ ...  .|+....+ .|.....+.   
T Consensus        37 i~~~~~~lv~apTGsGKT~~~~l~il~~~~-~~~~~l~i~P~r~La~q~~~~~-~~~~~~g~~v~~~-~G~~~~~~~---  110 (702)
T 2p6r_A           37 VFSGKNLLLAMPTAAGKTLLAEMAMVREAI-KGGKSLYVVPLRALAGEKYESF-KKWEKIGLRIGIS-TGDYESRDE---  110 (702)
T ss_dssp             HTTCSCEEEECSSHHHHHHHHHHHHHHHHH-TTCCEEEEESSHHHHHHHHHHH-TTTTTTTCCEEEE-CSSCBCCSS---
T ss_pred             HhCCCcEEEEcCCccHHHHHHHHHHHHHHH-hCCcEEEEeCcHHHHHHHHHHH-HHHHhcCCEEEEE-eCCCCcchh---
Confidence            445788999999999999988877776654 577899987432 233444444 111  13332222 233221110   


Q ss_pred             HHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCc
Q psy2892         288 NDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCP  367 (452)
Q Consensus       288 ~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~  367 (452)
                           .+.+..+.+.     |++.+...++.-.....++++||||-.+.+...    .+...+..+...++.+  ..++.
T Consensus       111 -----~~~~~~Iiv~-----Tpe~l~~~l~~~~~~l~~~~~vIiDE~H~l~~~----~r~~~~~~ll~~l~~~--~~~~~  174 (702)
T 2p6r_A          111 -----HLGDCDIIVT-----TSEKADSLIRNRASWIKAVSCLVVDEIHLLDSE----KRGATLEILVTKMRRM--NKALR  174 (702)
T ss_dssp             -----CSTTCSEEEE-----EHHHHHHHHHTTCSGGGGCCEEEETTGGGGGCT----TTHHHHHHHHHHHHHH--CTTCE
T ss_pred             -----hccCCCEEEE-----CHHHHHHHHHcChhHHhhcCEEEEeeeeecCCC----CcccHHHHHHHHHHhc--CcCce
Confidence                 1223455553     455555544331110114889999999988653    2334455566666543  23577


Q ss_pred             EEEEecC
Q psy2892         368 ILALSQL  374 (452)
Q Consensus       368 vi~l~ql  374 (452)
                      +|+++-.
T Consensus       175 ii~lSAT  181 (702)
T 2p6r_A          175 VIGLSAT  181 (702)
T ss_dssp             EEEEECC
T ss_pred             EEEECCC
Confidence            7777644

>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=96.92  E-value=0.0071  Score=60.43  Aligned_cols=65  Identities=20%  Similarity=0.134  Sum_probs=50.8

Q ss_pred             ccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHH
Q psy2892         194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLA  259 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~  259 (452)
                      ...+.||++.+|.+ ..+.+|+-.+|.|+||+|||+++..++.+.+.+.+.-++|...-....+..
T Consensus       132 ~e~l~TGir~ID~L-~pi~kGq~~~i~G~sGvGKTtL~~~l~~~~~~~~~~i~V~~~iGerttev~  196 (473)
T 1sky_E          132 VEILETGIKVVDLL-APYIKGGKIGLFGGAGVGKTVLIQELIHNIAQEHGGISVFAGVGERTREGN  196 (473)
T ss_dssp             CCEECCSCHHHHHH-SCEETTCEEEEECCSSSCHHHHHHHHHHHHHHHTCCCEEEEEESSCHHHHH
T ss_pred             CccccccchHHHHH-hhhccCCEEEEECCCCCCccHHHHHHHhhhhhccCcEEEEeeeccCchHHH
Confidence            34688999999987 357789999999999999999999999998765566666665555544433

>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=96.92  E-value=0.0058  Score=53.88  Aligned_cols=38  Identities=16%  Similarity=0.276  Sum_probs=32.6

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      +.+..+..|+|||+++.++|..++. .|.+|+++.++..
T Consensus         4 i~v~s~kgG~GKTt~a~~la~~la~-~g~~vlliD~D~~   41 (206)
T 4dzz_A            4 ISFLNPKGGSGKTTAVINIATALSR-SGYNIAVVDTDPQ   41 (206)
T ss_dssp             EEECCSSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCTT
T ss_pred             EEEEeCCCCccHHHHHHHHHHHHHH-CCCeEEEEECCCC
Confidence            3455688999999999999999986 7999999999843

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=96.88  E-value=0.0081  Score=59.01  Aligned_cols=36  Identities=19%  Similarity=0.320  Sum_probs=28.7

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ++.-++|.|+||+|||++|..++..    .+.+++++++.
T Consensus       147 ~~~~vLL~GppGtGKT~la~aia~~----~~~~~~~v~~~  182 (389)
T 3vfd_A          147 PARGLLLFGPPGNGKTMLAKAVAAE----SNATFFNISAA  182 (389)
T ss_dssp             CCSEEEEESSTTSCHHHHHHHHHHH----TTCEEEEECSC
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHh----hcCcEEEeeHH
Confidence            4457999999999999999988553    46778888764

>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=96.85  E-value=0.0059  Score=58.36  Aligned_cols=38  Identities=18%  Similarity=0.268  Sum_probs=29.3

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +..+..-++|.|+||+|||++|..++...    +.+++++++
T Consensus        47 ~~~~~~~vLl~GppGtGKT~la~aia~~~----~~~~~~v~~   84 (322)
T 3eie_A           47 NRKPTSGILLYGPPGTGKSYLAKAVATEA----NSTFFSVSS   84 (322)
T ss_dssp             TCCCCCEEEEECSSSSCHHHHHHHHHHHH----TCEEEEEEH
T ss_pred             CCCCCCeEEEECCCCCcHHHHHHHHHHHH----CCCEEEEch
Confidence            34455569999999999999999887653    567777755

>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=96.84  E-value=0.011  Score=57.65  Aligned_cols=132  Identities=14%  Similarity=0.221  Sum_probs=78.2

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh------CC----------CcEEEEeCC------CCH----
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE------NK----------LPVAIFSME------MSG----  255 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~------~g----------~~vl~~s~E------~~~----  255 (452)
                      ..|+.+.--+.+|+++.|.|++|+|||||+.-++--..-.      .|          ..+.|+.-+      ++.    
T Consensus        25 ~vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~eni  104 (372)
T 1v43_A           25 TAVNKLNLTIKDGEFLVLLGPSGCGKTTTLRMIAGLEEPTEGRIYFGDRDVTYLPPKDRNISMVFQSYAVWPHMTVYENI  104 (372)
T ss_dssp             EEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTSCGGGGTEEEEEC------CCCHHHHH
T ss_pred             EEEeeeEEEECCCCEEEEECCCCChHHHHHHHHHcCCCCCceEEEECCEECCCCChhhCcEEEEecCcccCCCCCHHHHH
Confidence            3566664468999999999999999999988776422100      01          124443211      222    


Q ss_pred             -----------HHHHHHHHH--HhCCCCcc-ccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCC--CC---HHHHHHHH
Q psy2892         256 -----------IQLAMRMLG--SVGKLDQH-KLRTGRLSSDDWPRINDSIKKINKSQLYIDETPS--LN---VIELRANS  316 (452)
Q Consensus       256 -----------~~i~~R~~a--~~~~i~~~-~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~--~t---~~~i~~~i  316 (452)
                                 .+...|...  ...++... .-.-..+|-.+.+|+.-|..-+.+.++.+.|.|-  +.   -.+++..+
T Consensus       105 ~~~~~~~~~~~~~~~~~v~~~l~~~~L~~~~~r~~~~LSGGq~QRvalArAL~~~P~lLLLDEP~s~LD~~~r~~l~~~l  184 (372)
T 1v43_A          105 AFPLKIKKFPKDEIDKRVRWAAELLQIEELLNRYPAQLSGGQRQRVAVARAIVVEPDVLLMDEPLSNLDAKLRVAMRAEI  184 (372)
T ss_dssp             HTTCC--CCCHHHHHHHHHHHHHHTTCGGGTTSCTTTCCSSCHHHHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHH
T ss_pred             HHHHHhcCCCHHHHHHHHHHHHHHcCChhHhcCChhhCCHHHHHHHHHHHHHhcCCCEEEEcCCCccCCHHHHHHHHHHH
Confidence                       222222211  12333211 1122468888888887777777778888888763  33   24566667


Q ss_pred             HHHHHHcCCccEEEEcCc
Q psy2892         317 RRLSRQCGKIGVIIIDYL  334 (452)
Q Consensus       317 ~~~~~~~~~~~~vvID~l  334 (452)
                      +++.++.| ..+|++-+=
T Consensus       185 ~~l~~~~g-~tvi~vTHd  201 (372)
T 1v43_A          185 KKLQQKLK-VTTIYVTHD  201 (372)
T ss_dssp             HHHHHHHT-CEEEEEESC
T ss_pred             HHHHHhCC-CEEEEEeCC
Confidence            77766655 677777664

>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=96.84  E-value=0.0056  Score=58.76  Aligned_cols=34  Identities=18%  Similarity=0.261  Sum_probs=28.7

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .+++|.|++|+|||+++.+++...    +.+++|+++.
T Consensus        31 ~~v~i~G~~G~GKT~L~~~~~~~~----~~~~~~~~~~   64 (357)
T 2fna_A           31 PITLVLGLRRTGKSSIIKIGINEL----NLPYIYLDLR   64 (357)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHH----TCCEEEEEGG
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhc----CCCEEEEEch
Confidence            499999999999999999998765    2358899876

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.83  E-value=0.0012  Score=57.54  Aligned_cols=47  Identities=17%  Similarity=0.340  Sum_probs=34.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      .||+- .-..+|.+++|.|.||+||||++..++..... .|.+|.+++.
T Consensus         3 ~~~~~-~~~~~~~~i~l~G~~GsGKsT~~~~L~~~l~~-~~~~~~~~~~   49 (186)
T 2yvu_A            3 ALTTY-KCIEKGIVVWLTGLPGSGKTTIATRLADLLQK-EGYRVEVLDG   49 (186)
T ss_dssp             ------CCCSCCEEEEEECCTTSSHHHHHHHHHHHHHH-TTCCEEEEEH
T ss_pred             ccccc-cccCCCcEEEEEcCCCCCHHHHHHHHHHHHHh-cCCeEEEeeH
Confidence            34552 22457899999999999999999999988753 6788888863

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.81  E-value=0.0075  Score=60.05  Aligned_cols=38  Identities=21%  Similarity=0.321  Sum_probs=29.7

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      |+.+..=+++.||||+|||.+|..+|...    +.+.+.+++
T Consensus       239 Gi~pprGILLyGPPGTGKTlLAkAiA~e~----~~~fi~vs~  276 (467)
T 4b4t_H          239 GIDPPKGILLYGPPGTGKTLCARAVANRT----DATFIRVIG  276 (467)
T ss_dssp             TCCCCSEEEECSCTTSSHHHHHHHHHHHH----TCEEEEEEG
T ss_pred             CCCCCCceEeeCCCCCcHHHHHHHHHhcc----CCCeEEEEh
Confidence            56555569999999999999999888764    456666654

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10

Probab=96.79  E-value=0.0084  Score=55.22  Aligned_cols=38  Identities=24%  Similarity=0.439  Sum_probs=33.7

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      +.+.++.+|+|||+++.++|..++. .|.+|+++.++..
T Consensus         5 I~v~s~kgGvGKTt~a~~LA~~la~-~g~~VlliD~D~~   42 (263)
T 1hyq_A            5 ITVASGKGGTGKTTITANLGVALAQ-LGHDVTIVDADIT   42 (263)
T ss_dssp             EEEEESSSCSCHHHHHHHHHHHHHH-TTCCEEEEECCCS
T ss_pred             EEEECCCCCCCHHHHHHHHHHHHHh-CCCcEEEEECCCC
Confidence            5667889999999999999999985 6999999999863

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=96.79  E-value=0.0097  Score=61.90  Aligned_cols=160  Identities=14%  Similarity=0.109  Sum_probs=87.2

Q ss_pred             CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC-----CcEEEEeCC------CCHHHHHHHHHHHhCCCCccccccC
Q psy2892         209 SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK-----LPVAIFSME------MSGIQLAMRMLGSVGKLDQHKLRTG  277 (452)
Q Consensus       209 gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g-----~~vl~~s~E------~~~~~i~~R~~a~~~~i~~~~i~~g  277 (452)
                      |-+.+|+++.|.|++|+|||||+.-++--..-..|     ..+.|+.-+      .+..+...   ...        . +
T Consensus       373 G~~~~GEiv~iiG~NGsGKSTLlk~l~Gl~~p~~G~~~~~~~i~~~~q~~~~~~~~tv~e~~~---~~~--------~-~  440 (608)
T 3j16_B          373 GEFSDSEILVMMGENGTGKTTLIKLLAGALKPDEGQDIPKLNVSMKPQKIAPKFPGTVRQLFF---KKI--------R-G  440 (608)
T ss_dssp             EECCTTCEEEEESCTTSSHHHHHHHHHTSSCCSBCCCCCSCCEEEECSSCCCCCCSBHHHHHH---HHC--------S-S
T ss_pred             CccccceEEEEECCCCCcHHHHHHHHhcCCCCCCCcCccCCcEEEecccccccCCccHHHHHH---HHh--------h-c
Confidence            34677799999999999999999877653311123     246665433      22333221   110        1 1


Q ss_pred             CCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHH
Q psy2892         278 RLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNL  357 (452)
Q Consensus       278 ~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~L  357 (452)
                      ....  .....++.+.+.-..+.-.....+|-.+-....-...-.. +++++++|--+.      +-+. .....+.+.|
T Consensus       441 ~~~~--~~~~~~~l~~l~l~~~~~~~~~~LSGGqkQRv~iAraL~~-~p~lLlLDEPT~------gLD~-~~~~~i~~ll  510 (608)
T 3j16_B          441 QFLN--PQFQTDVVKPLRIDDIIDQEVQHLSGGELQRVAIVLALGI-PADIYLIDEPSA------YLDS-EQRIICSKVI  510 (608)
T ss_dssp             TTTS--HHHHHHTHHHHTSTTTSSSBSSSCCHHHHHHHHHHHHTTS-CCSEEEECCTTT------TCCH-HHHHHHHHHH
T ss_pred             cccc--HHHHHHHHHHcCChhhhcCChhhCCHHHHHHHHHHHHHHh-CCCEEEEECCCC------CCCH-HHHHHHHHHH
Confidence            1111  1122233333321111111123566555544322222223 499999998432      2232 2345778888


Q ss_pred             HHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         358 KGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       358 k~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      +.++++.+.+||+++|--.                   .+...||.|+.+..
T Consensus       511 ~~l~~~~g~tviivtHdl~-------------------~~~~~aDrvivl~~  543 (608)
T 3j16_B          511 RRFILHNKKTAFIVEHDFI-------------------MATYLADKVIVFEG  543 (608)
T ss_dssp             HHHHHHHTCEEEEECSCHH-------------------HHHHHCSEEEECEE
T ss_pred             HHHHHhCCCEEEEEeCCHH-------------------HHHHhCCEEEEEeC
Confidence            9988889999999988321                   24556777777753

>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=96.74  E-value=0.011  Score=57.27  Aligned_cols=35  Identities=26%  Similarity=0.318  Sum_probs=27.8

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +..-++|.|+||+|||++|..++..    .+.+++++++
T Consensus       116 ~~~~vLl~GppGtGKT~la~aia~~----~~~~~~~i~~  150 (357)
T 3d8b_A          116 PPKGILLFGPPGTGKTLIGKCIASQ----SGATFFSISA  150 (357)
T ss_dssp             CCSEEEEESSTTSSHHHHHHHHHHH----TTCEEEEEEG
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH----cCCeEEEEeh
Confidence            3446899999999999999988754    3567777776

>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=96.73  E-value=0.0095  Score=59.43  Aligned_cols=66  Identities=15%  Similarity=0.091  Sum_probs=52.3

Q ss_pred             ccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHH
Q psy2892         194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAM  260 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~  260 (452)
                      ...+.||++.+|-+. .+-+|+=..|.|++|+|||+++.+++.+.+..++.-++|.-..+..+++.+
T Consensus       134 ~e~l~TGir~ID~l~-pigkGQr~~Ifgg~G~GKT~L~~~i~~~~~~~~~~v~V~~~iGER~rEv~e  199 (482)
T 2ck3_D          134 QEILVTGIKVVDLLA-PYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTREGND  199 (482)
T ss_dssp             CCEECCSCHHHHHHS-CEETTCEEEEEECTTSSHHHHHHHHHHHTTTTCSSEEEEEEESCCHHHHHH
T ss_pred             CcCCccceEEEeccc-ccccCCeeeeecCCCCChHHHHHHHHHhhHhhCCCEEEEEECCCcchHHHH
Confidence            346899999999864 588999999999999999999999999976544445677766666666543

>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=96.73  E-value=0.0078  Score=58.39  Aligned_cols=37  Identities=19%  Similarity=0.272  Sum_probs=28.1

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      ..+..-++|.|+||+|||++|..++...    +.+++++++
T Consensus        81 ~~~~~~iLL~GppGtGKT~la~ala~~~----~~~~~~v~~  117 (355)
T 2qp9_X           81 RKPTSGILLYGPPGTGKSYLAKAVATEA----NSTFFSVSS  117 (355)
T ss_dssp             CCCCCCEEEECSTTSCHHHHHHHHHHHH----TCEEEEEEH
T ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHh----CCCEEEeeH
Confidence            4444458899999999999999888765    456766654

>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=96.73  E-value=0.011  Score=53.53  Aligned_cols=53  Identities=19%  Similarity=0.236  Sum_probs=34.3

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCC----cEEEEeCCC-CHHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKL----PVAIFSMEM-SGIQLAMRML  263 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~----~vl~~s~E~-~~~~i~~R~~  263 (452)
                      +..|+.+++.|++|+|||++...++.......+.    .++|..... ...++..++.
T Consensus        73 i~~g~~~~i~g~TGsGKTt~~~~~~~~~~~~~~~~~~~~~l~~~p~~~la~q~~~~~~  130 (235)
T 3llm_A           73 ISQNSVVIIRGATGCGKTTQVPQFILDDFIQNDRAAECNIVVTQPRRISAVSVAERVA  130 (235)
T ss_dssp             HHHCSEEEEECCTTSSHHHHHHHHHHHHHHHTTCGGGCEEEEEESSHHHHHHHHHHHH
T ss_pred             HhcCCEEEEEeCCCCCcHHhHHHHHhcchhhcCCCCceEEEEeccchHHHHHHHHHHH
Confidence            3457899999999999998777776665444443    677665432 2334444443

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.68  E-value=0.017  Score=54.13  Aligned_cols=35  Identities=20%  Similarity=0.315  Sum_probs=27.5

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      ++.-++|.|+||+|||+++..++...    +.+.+++++
T Consensus        53 ~~~~vll~Gp~GtGKT~la~~la~~~----~~~~~~i~~   87 (297)
T 3b9p_A           53 PAKGLLLFGPPGNGKTLLARAVATEC----SATFLNISA   87 (297)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHHHT----TCEEEEEES
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHh----CCCeEEeeH
Confidence            45679999999999999999887643    456666665

>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=96.67  E-value=0.0017  Score=66.43  Aligned_cols=38  Identities=13%  Similarity=0.138  Sum_probs=30.6

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      .+...++|.|+||+|||+++..++...    |.+++++++..
T Consensus        75 ~~~~~lLL~GppGtGKTtla~~la~~l----~~~~i~in~s~  112 (516)
T 1sxj_A           75 GVFRAAMLYGPPGIGKTTAAHLVAQEL----GYDILEQNASD  112 (516)
T ss_dssp             TSCSEEEEECSTTSSHHHHHHHHHHHT----TCEEEEECTTS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHc----CCCEEEEeCCC
Confidence            345689999999999999999887654    67888887654

>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=96.63  E-value=0.0011  Score=57.91  Aligned_cols=39  Identities=18%  Similarity=0.443  Sum_probs=30.3

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ++.+|++++|.|+||+||||++..++..    .+.+.++++.+
T Consensus         5 ~i~~g~~i~l~G~~GsGKSTl~~~La~~----~~~g~i~i~~d   43 (191)
T 1zp6_A            5 DDLGGNILLLSGHPGSGKSTIAEALANL----PGVPKVHFHSD   43 (191)
T ss_dssp             -CCTTEEEEEEECTTSCHHHHHHHHHTC----SSSCEEEECTT
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHhc----cCCCeEEEccc
Confidence            5889999999999999999999988653    23456666654

>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=96.57  E-value=0.0028  Score=56.00  Aligned_cols=40  Identities=20%  Similarity=0.239  Sum_probs=33.4

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      .++|.++.|.|++|+||||++..++...- ..|..+.|+..
T Consensus        22 ~~~g~~i~l~G~sGsGKSTl~~~La~~l~-~~G~~~~~~d~   61 (200)
T 3uie_A           22 DQKGCVIWVTGLSGSGKSTLACALNQMLY-QKGKLCYILDG   61 (200)
T ss_dssp             TSCCEEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEEH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHH-hcCceEEEecC
Confidence            46899999999999999999999998775 45776667763

>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=96.53  E-value=0.0082  Score=64.19  Aligned_cols=111  Identities=18%  Similarity=0.297  Sum_probs=63.1

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      |+.+..=+++.||||+|||+++..+|..    .|.+++++++.    ++..+                ...+        
T Consensus       234 g~~~p~GILL~GPPGTGKT~LAraiA~e----lg~~~~~v~~~----~l~sk----------------~~ge--------  281 (806)
T 3cf2_A          234 GVKPPRGILLYGPPGTGKTLIARAVANE----TGAFFFLINGP----EIMSK----------------LAGE--------  281 (806)
T ss_dssp             CCCCCCEEEEECCTTSCHHHHHHHHHTT----TTCEEEEEEHH----HHHSS----------------CTTH--------
T ss_pred             CCCCCCeEEEECCCCCCHHHHHHHHHHH----hCCeEEEEEhH----Hhhcc----------------cchH--------
Confidence            4555455999999999999999887753    36667666542    22111                0100        


Q ss_pred             HHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC---CCCCHHHHHHHHHHHHHHHHHHhCC
Q psy2892         290 SIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS---RGENRATEISEISRNLKGLAKEINC  366 (452)
Q Consensus       290 a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~---~~~~~~~~~~~i~~~Lk~lA~~~~i  366 (452)
                                        +-..++..... .+.+ .+.+||||.+..+....   .+......+..+...+..+....++
T Consensus       282 ------------------se~~lr~lF~~-A~~~-~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~V  341 (806)
T 3cf2_A          282 ------------------SESNLRKAFEE-AEKN-APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHV  341 (806)
T ss_dssp             ------------------HHHHHHHHHHH-HTTS-CSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGCE
T ss_pred             ------------------HHHHHHHHHHH-HHHc-CCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCCE
Confidence                              01112222222 2334 48999999999987543   1223333445555555555555566


Q ss_pred             cEEEEe
Q psy2892         367 PILALS  372 (452)
Q Consensus       367 ~vi~l~  372 (452)
                      .||..+
T Consensus       342 ~VIaaT  347 (806)
T 3cf2_A          342 IVMAAT  347 (806)
T ss_dssp             EEEEEC
T ss_pred             EEEEec
Confidence            555554

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.53  E-value=0.014  Score=53.62  Aligned_cols=31  Identities=29%  Similarity=0.488  Sum_probs=25.1

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      ++|.|+||+|||+++..++...    +.+++++++
T Consensus        48 vll~G~~GtGKT~la~~la~~~----~~~~~~i~~   78 (257)
T 1lv7_A           48 VLMVGPPGTGKTLLAKAIAGEA----KVPFFTISG   78 (257)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH----TCCEEEECS
T ss_pred             EEEECcCCCCHHHHHHHHHHHc----CCCEEEEeH
Confidence            8899999999999999887653    456766654

>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=96.53  E-value=0.0054  Score=59.40  Aligned_cols=131  Identities=15%  Similarity=0.192  Sum_probs=77.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh------CC---------------CcEEEEeCC------CCH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE------NK---------------LPVAIFSME------MSG  255 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~------~g---------------~~vl~~s~E------~~~  255 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--..-.      .|               .++.|+.-+      ++.
T Consensus        20 vl~~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~I~i~g~~i~~~~~~~~~~~~r~ig~v~Q~~~l~~~ltv   99 (353)
T 1oxx_K           20 ALDNVNINIENGERFGILGPSGAGKTTFMRIIAGLDVPSTGELYFDDRLVASNGKLIVPPEDRKIGMVFQTWALYPNLTA   99 (353)
T ss_dssp             EEEEEEEEECTTCEEEEECSCHHHHHHHHHHHHTSSCCSEEEEEETTEEEEETTEESSCGGGSCEEEEETTSCCCTTSCH
T ss_pred             eEeceEEEECCCCEEEEECCCCCcHHHHHHHHhCCCCCCceEEEECCEECcccccccCChhhCCEEEEeCCCccCCCCCH
Confidence            566665568999999999999999999998777422100      01               134554221      232


Q ss_pred             HHH---------------HHHHHHH--hCCCCcc-ccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCC-----HHHH
Q psy2892         256 IQL---------------AMRMLGS--VGKLDQH-KLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLN-----VIEL  312 (452)
Q Consensus       256 ~~i---------------~~R~~a~--~~~i~~~-~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t-----~~~i  312 (452)
                      .+.               ..|....  ..|+... .-.-+.+|-.+.+|+.-|..-+.+.++.+.|.|-..     -.++
T Consensus       100 ~eni~~~~~~~~~~~~~~~~~v~~~l~~~~L~~~~~~~~~~LSGGq~QRvalAraL~~~P~lLLLDEP~s~LD~~~r~~l  179 (353)
T 1oxx_K          100 FENIAFPLTNMKMSKEEIRKRVEEVAKILDIHHVLNHFPRELSGAQQQRVALARALVKDPSLLLLDEPFSNLDARMRDSA  179 (353)
T ss_dssp             HHHHHGGGTTSSCCHHHHHHHHHHHHHHTTCGGGTTSCGGGSCHHHHHHHHHHHHHTTCCSEEEEESTTTTSCGGGHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHHcCCchHhcCChhhCCHHHHHHHHHHHHHHhCCCEEEEECCcccCCHHHHHHH
Confidence            221               1122111  1233210 111245777788887777666677788888766322     4567


Q ss_pred             HHHHHHHHHHcCCccEEEEcCc
Q psy2892         313 RANSRRLSRQCGKIGVIIIDYL  334 (452)
Q Consensus       313 ~~~i~~~~~~~~~~~~vvID~l  334 (452)
                      +..++++.++.| ..+|++-+=
T Consensus       180 ~~~l~~l~~~~g-~tvi~vTHd  200 (353)
T 1oxx_K          180 RALVKEVQSRLG-VTLLVVSHD  200 (353)
T ss_dssp             HHHHHHHHHHHC-CEEEEEESC
T ss_pred             HHHHHHHHHhcC-CEEEEEeCC
Confidence            777777766655 677777664

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=96.50  E-value=0.0042  Score=59.50  Aligned_cols=39  Identities=18%  Similarity=0.307  Sum_probs=36.1

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      .+++.+|.+|+||||++.++|..+|. .|++|+.++++..
T Consensus        15 ~i~v~sgKGGvGKTTvA~~LA~~lA~-~G~rVLlvD~D~~   53 (324)
T 3zq6_A           15 TFVFIGGKGGVGKTTISAATALWMAR-SGKKTLVISTDPA   53 (324)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHH-TTCCEEEEECCSS
T ss_pred             EEEEEeCCCCchHHHHHHHHHHHHHH-CCCcEEEEeCCCC
Confidence            68999999999999999999999985 6999999999973

>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=96.50  E-value=0.0034  Score=54.32  Aligned_cols=38  Identities=21%  Similarity=0.365  Sum_probs=31.5

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      .+|.+++|.|++|+||||++..++..... .|.+++++.
T Consensus         3 ~~g~~i~l~G~~GsGKST~~~~L~~~l~~-~g~~~i~~d   40 (179)
T 2pez_A            3 MRGCTVWLTGLSGAGKTTVSMALEEYLVC-HGIPCYTLD   40 (179)
T ss_dssp             -CCEEEEEECCTTSSHHHHHHHHHHHHHH-TTCCEEEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHhh-CCCcEEEEC
Confidence            67899999999999999999998887643 577887775

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.49  E-value=0.0029  Score=55.87  Aligned_cols=37  Identities=19%  Similarity=0.262  Sum_probs=31.6

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .-++|.|+||+|||+++..++.... ..+.+|+|+++.
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~~-~~~~~~~~~~~~   91 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANELA-KRNVSSLIVYVP   91 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHH-TTTCCEEEEEHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEEhH
Confidence            4688999999999999999998876 468899998763

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=96.48  E-value=0.023  Score=56.59  Aligned_cols=131  Identities=10%  Similarity=0.079  Sum_probs=69.1

Q ss_pred             CCcEEEEEeCCCCChhHHH-HHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFS-LNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSI  291 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~-l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~  291 (452)
                      +|..+++.|++|+|||..+ +.++..+. ..|.+++|++   |...++..+.....+++.. +..|.+..         .
T Consensus         1 kg~~~lv~a~TGsGKT~~~l~~~l~~~~-~~g~~~lvl~---Pt~~La~Q~~~~~~~~~v~-~~~~~~~~---------~   66 (431)
T 2v6i_A            1 KRELTVLDLHPGAGKTRRVLPQLVREAV-KKRLRTVILA---PTRVVASEMYEALRGEPIR-YMTPAVQS---------E   66 (431)
T ss_dssp             -CCEEEEECCTTSCTTTTHHHHHHHHHH-HTTCCEEEEE---SSHHHHHHHHHHTTTSCEE-EC----------------
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHH-hCCCCEEEEC---cHHHHHHHHHHHhCCCeEE-EEecCccc---------c
Confidence            4778999999999999876 44443443 5778899987   3455555555544454433 12221110         0


Q ss_pred             HHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEE
Q psy2892         292 KKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL  371 (452)
Q Consensus       292 ~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l  371 (452)
                      . -.+..+.+.     +...+...+.. .....++++||||-.+.+..     .    .......|+.++...++.++++
T Consensus        67 ~-~~~~~~~~~-----~~~~l~~~l~~-~~~~~~l~~vViDEaH~~~~-----~----~~~~~~~l~~~~~~~~~~~l~~  130 (431)
T 2v6i_A           67 R-TGNEIVDFM-----CHSTFTMKLLQ-GVRVPNYNLYIMDEAHFLDP-----A----SVAARGYIETRVSMGDAGAIFM  130 (431)
T ss_dssp             ---CCCSEEEE-----EHHHHHHHHHH-TCCCCCCSEEEEESTTCCSH-----H----HHHHHHHHHHHHHTTSCEEEEE
T ss_pred             C-CCCceEEEE-----chHHHHHHHhc-CccccCCCEEEEeCCccCCc-----c----HHHHHHHHHHHhhCCCCcEEEE
Confidence            0 001122221     22233222211 01123589999999987621     1    1123345555555567888887


Q ss_pred             ec
Q psy2892         372 SQ  373 (452)
Q Consensus       372 ~q  373 (452)
                      +-
T Consensus       131 SA  132 (431)
T 2v6i_A          131 TA  132 (431)
T ss_dssp             ES
T ss_pred             eC
Confidence            73

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.46  E-value=0.0035  Score=55.80  Aligned_cols=41  Identities=22%  Similarity=0.473  Sum_probs=33.1

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ..+|+++.|.|++|+|||||+..++...-. .|..+.+++.+
T Consensus        19 ~~~g~~v~I~G~sGsGKSTl~~~l~~~~~~-~g~~~g~v~~d   59 (208)
T 3c8u_A           19 QPGRQLVALSGAPGSGKSTLSNPLAAALSA-QGLPAEVVPMD   59 (208)
T ss_dssp             CCSCEEEEEECCTTSCTHHHHHHHHHHHHH-TTCCEEEEESG
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHhh-cCCceEEEecC
Confidence            468999999999999999999988876642 35567888765

>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=96.44  E-value=0.0034  Score=57.80  Aligned_cols=41  Identities=17%  Similarity=0.344  Sum_probs=35.9

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      ..+.-++++.|.+|+||||++.+++...+  .|.+|+.++++.
T Consensus        11 ~~~~~i~~~~GkgGvGKTTl~~~La~~l~--~g~~v~vvd~D~   51 (262)
T 1yrb_A           11 GMASMIVVFVGTAGSGKTTLTGEFGRYLE--DNYKVAYVNLDT   51 (262)
T ss_dssp             TCCCEEEEEECSTTSSHHHHHHHHHHHHT--TTSCEEEEECCS
T ss_pred             CcceEEEEEeCCCCCCHHHHHHHHHHHHH--CCCeEEEEeCCC
Confidence            34456899999999999999999999987  689999999885

>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX, structural genomics, structural genomi consortium, SGC, ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}

Probab=96.43  E-value=0.021  Score=51.21  Aligned_cols=116  Identities=17%  Similarity=0.066  Sum_probs=55.9

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHH--------hCCCcEEEEeCCC-CHHHHHHHHHHHh-CCCCccccccCCCCcch
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAI--------ENKLPVAIFSMEM-SGIQLAMRMLGSV-GKLDQHKLRTGRLSSDD  283 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~--------~~g~~vl~~s~E~-~~~~i~~R~~a~~-~~i~~~~i~~g~l~~~~  283 (452)
                      |.-+++.|++|+|||...+-.+.....        ..+.+++|+.--. -..++..++.... .++....+..|.-..++
T Consensus        57 ~~~~l~~apTGsGKT~~~~l~~~~~l~~~~~~~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~  136 (228)
T 3iuy_A           57 GIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYSYKGLKSICIYGGRNRNGQ  136 (228)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHHHHC---------CCCSEEEECSSHHHHHHHHHHHHHHCCTTCCEEEECC------C
T ss_pred             CCCEEEECCCCChHHHHHHHHHHHHHHhccchhhccCCCcEEEEeCCHHHHHHHHHHHHHhcccCceEEEEECCCChHHH
Confidence            345799999999999654443333221        1467788886321 1233444443321 22222222222222222


Q ss_pred             HHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         284 WPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       284 ~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                      +..+      ..+.++.+.     |++.+...+..-.....++++||||-.+.+...
T Consensus       137 ~~~~------~~~~~iiv~-----Tp~~l~~~~~~~~~~~~~~~~lViDEah~~~~~  182 (228)
T 3iuy_A          137 IEDI------SKGVDIIIA-----TPGRLNDLQMNNSVNLRSITYLVIDEADKMLDM  182 (228)
T ss_dssp             HHHH------HSCCSEEEE-----CHHHHHHHHHTTCCCCTTCCEEEECCHHHHHHT
T ss_pred             HHHh------cCCCCEEEE-----CHHHHHHHHHcCCcCcccceEEEEECHHHHhcc
Confidence            2221      123355553     455555533221111125899999999987653

>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=96.41  E-value=0.003  Score=58.44  Aligned_cols=38  Identities=32%  Similarity=0.560  Sum_probs=31.6

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      ++.+++|+|.||+||||++..++..+. ..|.++++++.
T Consensus         3 ~~~lIvl~G~pGSGKSTla~~La~~L~-~~g~~~i~~~~   40 (260)
T 3a4m_A            3 DIMLIILTGLPGVGKSTFSKNLAKILS-KNNIDVIVLGS   40 (260)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEECT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHHHH-hCCCEEEEECc
Confidence            456899999999999999999998764 36788877765

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.40  E-value=0.002  Score=56.02  Aligned_cols=28  Identities=11%  Similarity=0.247  Sum_probs=23.5

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      |-.+|.+++|.|++|+||||++..++..
T Consensus         1 ~~~~g~~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            1 GSHMRKTLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             --CCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3467899999999999999999988764

>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding, hydrolase, nucleotide- RNA-binding, methylation, mRNA processing, mRNA S nucleus; HET: ADP; 2.60A {Homo sapiens} PDB: 4a4d_A

Probab=96.37  E-value=0.018  Score=52.25  Aligned_cols=115  Identities=10%  Similarity=-0.018  Sum_probs=59.8

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHH-------hCCCcEEEEeCCCC-HHHHHHHHHH--HhCCCCccccccCCCCcc-
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAI-------ENKLPVAIFSMEMS-GIQLAMRMLG--SVGKLDQHKLRTGRLSSD-  282 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~-------~~g~~vl~~s~E~~-~~~i~~R~~a--~~~~i~~~~i~~g~l~~~-  282 (452)
                      |.-+++.|++|+|||...+-.+.....       ..+.+++|++---. ..++..++..  ...++....+..| .+.. 
T Consensus        66 g~~~l~~apTGsGKT~~~~l~~l~~l~~~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~~~~~~~~~~~~~g~-~~~~~  144 (242)
T 3fe2_A           66 GLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGG-APKGP  144 (242)
T ss_dssp             TCCEEEEECTTSCHHHHHHHHHHHHHHTSCCCCTTCCCSEEEECSSHHHHHHHHHHHHHHHHHTTCCEEEECTT-SCHHH
T ss_pred             CCCEEEECCCcCHHHHHHHHHHHHHHHhccccccCCCCEEEEEeCcHHHHHHHHHHHHHHHhhcCceEEEEECC-CChHH
Confidence            456889999999999765444444332       13567888863221 2234333322  2234443333322 2221 


Q ss_pred             hHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         283 DWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       283 ~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                      +...+      ..+..+.+.     |++.+...+..-.....++++||||-.+.+...
T Consensus       145 ~~~~~------~~~~~I~v~-----Tp~~l~~~l~~~~~~~~~~~~lViDEah~l~~~  191 (242)
T 3fe2_A          145 QIRDL------ERGVEICIA-----TPGRLIDFLECGKTNLRRTTYLVLDEADRMLDM  191 (242)
T ss_dssp             HHHHH------HHCCSEEEE-----CHHHHHHHHHHTSCCCTTCCEEEETTHHHHHHT
T ss_pred             HHHHh------cCCCCEEEE-----CHHHHHHHHHcCCCCcccccEEEEeCHHHHhhh
Confidence            11111      123455554     456665554332111225889999999987753

>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=96.36  E-value=0.012  Score=64.07  Aligned_cols=108  Identities=17%  Similarity=0.217  Sum_probs=52.6

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHh------CCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIE------NKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~------~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      -++|.|+||+|||+++..++..+...      .+.+++++++..        +.   .|...    .|     +      
T Consensus       193 ~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~~--------l~---~g~~~----~g-----~------  246 (854)
T 1qvr_A          193 NPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGS--------LL---AGAKY----RG-----E------  246 (854)
T ss_dssp             CCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-------------------------------C------
T ss_pred             ceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEEeehHH--------hh---ccCcc----ch-----H------
Confidence            47899999999999999999987542      256677765511        00   00000    00     0      


Q ss_pred             HHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEE
Q psy2892         290 SIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPIL  369 (452)
Q Consensus       290 a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi  369 (452)
                                        ....+...+..+.... ++.++|||.++.+........    .......|+.+..+.++.+|
T Consensus       247 ------------------~~~~l~~~~~~~~~~~-~~~iL~IDEi~~l~~~~~~~g----~~~~~~~L~~~l~~~~i~~I  303 (854)
T 1qvr_A          247 ------------------FEERLKAVIQEVVQSQ-GEVILFIDELHTVVGAGKAEG----AVDAGNMLKPALARGELRLI  303 (854)
T ss_dssp             ------------------HHHHHHHHHHHHHTTC-SSEEEEECCC-----------------------HHHHHTTCCCEE
T ss_pred             ------------------HHHHHHHHHHHHHhcC-CCeEEEEecHHHHhccCCccc----hHHHHHHHHHHHhCCCeEEE
Confidence                              0122333333333322 367999999998875431111    12334556666666778877


Q ss_pred             EEe
Q psy2892         370 ALS  372 (452)
Q Consensus       370 ~l~  372 (452)
                      ..+
T Consensus       304 ~at  306 (854)
T 1qvr_A          304 GAT  306 (854)
T ss_dssp             EEE
T ss_pred             Eec
Confidence            765

>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=96.35  E-value=0.0027  Score=55.46  Aligned_cols=29  Identities=41%  Similarity=0.706  Sum_probs=25.2

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      |+.++.+++|.|+||+||||++..++...
T Consensus         1 ~~~~~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            1 GMQTPALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CCSCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHc
Confidence            46678899999999999999999988654

>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=96.34  E-value=0.0089  Score=59.86  Aligned_cols=39  Identities=21%  Similarity=0.255  Sum_probs=29.6

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ..+..-++|.|+||+|||++|..++...   .+.+++++++.
T Consensus       164 ~~~~~~vLL~GppGtGKT~lA~aia~~~---~~~~~~~v~~~  202 (444)
T 2zan_A          164 RTPWRGILLFGPPGTGKSYLAKAVATEA---NNSTFFSISSS  202 (444)
T ss_dssp             GCCCSEEEEECSTTSSHHHHHHHHHHHC---CSSEEEEECCC
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHHHHc---CCCCEEEEeHH
Confidence            4455679999999999999999888754   25666666653

>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=96.31  E-value=0.0039  Score=55.61  Aligned_cols=40  Identities=15%  Similarity=0.297  Sum_probs=33.6

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      +.+|.+++|.|+||+||||++..++...-...|.++.+++
T Consensus        22 ~~~~~~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~   61 (211)
T 1m7g_A           22 NQRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLD   61 (211)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEC
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHHhccccCCcEEEEC
Confidence            5678899999999999999999998876423577788886

>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=96.31  E-value=0.021  Score=53.64  Aligned_cols=34  Identities=18%  Similarity=0.306  Sum_probs=27.2

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .-++|.|+||+|||+++..++...    +.+++++++.
T Consensus        51 ~~vll~G~~GtGKT~la~~la~~l----~~~~~~i~~~   84 (310)
T 1ofh_A           51 KNILMIGPTGVGKTEIARRLAKLA----NAPFIKVEAT   84 (310)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHH----TCCEEEEEGG
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh----CCCEEEEcch
Confidence            357899999999999999888754    4577777654

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=96.30  E-value=0.017  Score=59.99  Aligned_cols=26  Identities=19%  Similarity=0.383  Sum_probs=23.3

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +.+|+++.|.|++|+|||||+.-++-
T Consensus       100 ~~~Gei~~LvGpNGaGKSTLLkiL~G  125 (608)
T 3j16_B          100 PRPGQVLGLVGTNGIGKSTALKILAG  125 (608)
T ss_dssp             CCTTSEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCCCEEEEECCCCChHHHHHHHHhc
Confidence            67999999999999999999876664

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=96.28  E-value=0.032  Score=56.53  Aligned_cols=44  Identities=14%  Similarity=0.206  Sum_probs=32.8

Q ss_pred             EEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCc
Q psy2892         328 VIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNR  376 (452)
Q Consensus       328 ~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r  376 (452)
                      +||||.++.+...     ....+...+..|.+.++..|+++|+.+|-..
T Consensus       300 vlvIDE~~~ll~~-----~~~~~~~~l~~Lar~gRa~GI~LIlaTQrp~  343 (512)
T 2ius_A          300 VVLVDEFADLMMT-----VGKKVEELIARLAQKARAAGIHLVLATQRPS  343 (512)
T ss_dssp             EEEEETHHHHHHH-----HHHHHHHHHHHHHHHCGGGTEEEEEEESCCC
T ss_pred             EEEEeCHHHHHhh-----hhHHHHHHHHHHHHHhhhCCcEEEEEecCCc
Confidence            8999999866531     1234556677777888899999999999644

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.28  E-value=0.037  Score=52.07  Aligned_cols=38  Identities=18%  Similarity=0.225  Sum_probs=29.6

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCC----CcEEEEeC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENK----LPVAIFSM  251 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g----~~vl~~s~  251 (452)
                      ++.-++|.|+||+|||+++..++..+.. .+    .++++++.
T Consensus        66 ~~~~vll~G~~GtGKT~la~~la~~l~~-~~~~~~~~~~~~~~  107 (309)
T 3syl_A           66 PTLHMSFTGNPGTGKTTVALKMAGLLHR-LGYVRKGHLVSVTR  107 (309)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHHHHHHH-TTSSSSCCEEEECG
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHHh-cCCcCCCcEEEEcH
Confidence            4456999999999999999999887753 22    36777763

>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=96.27  E-value=0.023  Score=57.10  Aligned_cols=65  Identities=17%  Similarity=0.208  Sum_probs=50.6

Q ss_pred             cccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-------CCCcEEEEeCCCCHHHHHH
Q psy2892         195 TGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-------NKLPVAIFSMEMSGIQLAM  260 (452)
Q Consensus       195 ~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-------~g~~vl~~s~E~~~~~i~~  260 (452)
                      ..+.||++.+|-+. .+-+|+=..|.|++|+|||++++..+.+.+..       .+..|+|.-.....+++.+
T Consensus       144 epl~TGiraID~l~-PigrGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~  215 (510)
T 2ck3_A          144 EPMQTGIKAVDSLV-PIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQ  215 (510)
T ss_dssp             SBCCCSCHHHHHHS-CCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHH
T ss_pred             ccccccceeecccc-ccccCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHH
Confidence            46889999999874 58899999999999999999988766666542       3445778777777666543

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=96.26  E-value=0.034  Score=50.16  Aligned_cols=115  Identities=14%  Similarity=0.059  Sum_probs=60.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHH------hCCCcEEEEeCC-CCHHHHHHHHHHHhC--CCCccccccCCCCcchH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAI------ENKLPVAIFSME-MSGIQLAMRMLGSVG--KLDQHKLRTGRLSSDDW  284 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~------~~g~~vl~~s~E-~~~~~i~~R~~a~~~--~i~~~~i~~g~l~~~~~  284 (452)
                      |.-+++.+++|+|||...+-.+.....      ..+.+++|+.-- .-..++..++.....  ++....+. |..+..+ 
T Consensus        62 ~~~~li~a~TGsGKT~~~~~~~l~~l~~~~~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~-g~~~~~~-  139 (236)
T 2pl3_A           62 GKDVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLII-GGKDLKH-  139 (236)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHHHHHHTTCCGGGCCCEEEECSSHHHHHHHHHHHHHHTTTSSCCEEEEC-CC--CHH-
T ss_pred             CCCEEEEeCCCCcHHHHHHHHHHHHHHhhcccccCCceEEEEeCCHHHHHHHHHHHHHHhCCCCeeEEEEE-CCCCHHH-
Confidence            455899999999999865554544432      236678888642 223444544443222  22222222 2222111 


Q ss_pred             HHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHH-HHcCCccEEEEcCcchhccC
Q psy2892         285 PRINDSIKKINKSQLYIDETPSLNVIELRANSRRLS-RQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       285 ~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~-~~~~~~~~vvID~l~~i~~~  340 (452)
                           ....+.+.++.|.     |++.+...+.... ....++++||||-.+.+...
T Consensus       140 -----~~~~~~~~~iiv~-----Tp~~l~~~l~~~~~~~~~~~~~lViDEah~~~~~  186 (236)
T 2pl3_A          140 -----EAERINNINILVC-----TPGRLLQHMDETVSFHATDLQMLVLDEADRILDM  186 (236)
T ss_dssp             -----HHHHHTTCSEEEE-----CHHHHHHHHHHCSSCCCTTCCEEEETTHHHHHHT
T ss_pred             -----HHHhCCCCCEEEE-----CHHHHHHHHHhcCCcccccccEEEEeChHHHhcC
Confidence                 1122344566664     4556655443311 01125889999999987653

>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=96.26  E-value=0.0053  Score=59.54  Aligned_cols=41  Identities=24%  Similarity=0.362  Sum_probs=36.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHH-hCCCcEEEEeCCCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAI-ENKLPVAIFSMEMS  254 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~-~~g~~vl~~s~E~~  254 (452)
                      ..+++.+|.+|+|||+++.++|..+|. +.|++|+.++++..
T Consensus        18 ~~i~v~sgKGGvGKTTvaanLA~~lA~~~~G~rVLLvD~D~~   59 (354)
T 2woj_A           18 HKWIFVGGKGGVGKTTSSCSIAIQMALSQPNKQFLLISTDPA   59 (354)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHHCTTSCEEEEECCSS
T ss_pred             cEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEECCCC
Confidence            358899999999999999999999983 47999999999985

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=96.25  E-value=0.034  Score=49.09  Aligned_cols=114  Identities=17%  Similarity=0.113  Sum_probs=55.3

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCCC-HHHHHHHHHHHhC--CCCccccccCCCCcchHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEMS-GIQLAMRMLGSVG--KLDQHKLRTGRLSSDDWPR  286 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~~-~~~i~~R~~a~~~--~i~~~~i~~g~l~~~~~~~  286 (452)
                      .-+++.|++|+|||..++..+......     .+.+++|+.--.. ..++..+.+....  ++....+..+.-....+..
T Consensus        49 ~~~li~~~tGsGKT~~~~~~~~~~~~~~~~~~~~~~~lil~p~~~L~~q~~~~~~~~~~~~~~~v~~~~g~~~~~~~~~~  128 (216)
T 3b6e_A           49 KNIIICLPTGSGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPE  128 (216)
T ss_dssp             CCEEEECSCHHHHHHHHHHHHHHHHHHHHHTTCCCCEEEEESSHHHHHHHHHHTHHHHHTTTSCEEECCC---CCCCHHH
T ss_pred             CCEEEEcCCCCCHHHHHHHHHHHHHhhcccccCCCcEEEEECHHHHHHHHHHHHHHHHhccCceEEEEeCCcccchhHHh
Confidence            458899999999999988888766432     2568888864311 1231222222222  2222222111111222222


Q ss_pred             HHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHH------HcCCccEEEEcCcchhcc
Q psy2892         287 INDSIKKINKSQLYIDETPSLNVIELRANSRRLSR------QCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       287 ~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~------~~~~~~~vvID~l~~i~~  339 (452)
                      +.      ....+.+.     |++.+...+.....      ...++++||||-.+.+..
T Consensus       129 ~~------~~~~i~v~-----T~~~l~~~~~~~~~~~~~~~~~~~~~~iIiDEah~~~~  176 (216)
T 3b6e_A          129 VV------KSCDIIIS-----TAQILENSLLNLENGEDAGVQLSDFSLIIIDECHHTNK  176 (216)
T ss_dssp             HH------HHCSEEEE-----EHHHHHHHHHC-------CCCGGGCSEEEETTC-----
T ss_pred             hc------cCCCEEEE-----CHHHHHHHHhccCcccccccchhcccEEEEECchhhcc
Confidence            21      23456554     34555554443211      011478999999998853

>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding, viral nucleoprotein, endoplasmic reticulum, helicase, hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A* 2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A 2bhr_A

Probab=96.25  E-value=0.032  Score=55.92  Aligned_cols=57  Identities=21%  Similarity=0.201  Sum_probs=42.4

Q ss_pred             CCCCcEEEEEeCCCCChhH-HHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCc
Q psy2892         211 LQPGDLIIVAGRPSMGKTA-FSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQ  271 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~-~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~  271 (452)
                      +..++++++.|++|+|||. +++.++.++. ..|.+++|++   +..++...+.....|.+.
T Consensus        16 l~~~~~~lv~a~TGsGKT~~~~~~~l~~~~-~~~~~~lvl~---Ptr~La~Q~~~~l~g~~v   73 (451)
T 2jlq_A           16 FRKKRLTIMDLHPGAGKTKRILPSIVREAL-LRRLRTLILA---PTRVVAAEMEEALRGLPI   73 (451)
T ss_dssp             GSTTCEEEECCCTTSSCCTTHHHHHHHHHH-HTTCCEEEEE---SSHHHHHHHHHHTTTSCE
T ss_pred             HhcCCeEEEECCCCCCHhhHHHHHHHHHHH-hcCCcEEEEC---CCHHHHHHHHHHhcCcee
Confidence            4557889999999999998 6777777665 4678899988   456666666655555543

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.24  E-value=0.003  Score=55.76  Aligned_cols=29  Identities=17%  Similarity=0.197  Sum_probs=24.0

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+.+|..++|.|+||+||||++..++...
T Consensus        21 ~~~~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           21 QSNAMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             ---CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ecCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            47789999999999999999999998754

>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=96.21  E-value=0.0055  Score=62.11  Aligned_cols=38  Identities=21%  Similarity=0.350  Sum_probs=29.3

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      |..+..-++|.|+||+|||++|..++..    .+.+++++++
T Consensus       234 g~~~~~~vLL~GppGtGKT~lAraia~~----~~~~fv~vn~  271 (489)
T 3hu3_A          234 GVKPPRGILLYGPPGTGKTLIARAVANE----TGAFFFLING  271 (489)
T ss_dssp             TCCCCCEEEEECSTTSSHHHHHHHHHHH----CSSEEEEEEH
T ss_pred             CCCCCCcEEEECcCCCCHHHHHHHHHHH----hCCCEEEEEc
Confidence            3445556999999999999999888653    3677888874

>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=96.21  E-value=0.041  Score=48.41  Aligned_cols=23  Identities=26%  Similarity=0.589  Sum_probs=21.1

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      ++|.|+||+|||+++..++..+.
T Consensus        41 ~ll~G~~G~GKT~l~~~l~~~~~   63 (226)
T 2chg_A           41 LLFSGPPGTGKTATAIALARDLF   63 (226)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHh
Confidence            89999999999999999988764

>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=96.20  E-value=0.023  Score=54.06  Aligned_cols=35  Identities=14%  Similarity=0.255  Sum_probs=27.6

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      .+++++|+||+|||+++..++...    +.++++++...
T Consensus        49 ~~~L~~G~~G~GKT~la~~la~~l----~~~~~~i~~~~   83 (324)
T 3u61_B           49 HIILHSPSPGTGKTTVAKALCHDV----NADMMFVNGSD   83 (324)
T ss_dssp             SEEEECSSTTSSHHHHHHHHHHHT----TEEEEEEETTT
T ss_pred             eEEEeeCcCCCCHHHHHHHHHHHh----CCCEEEEcccc
Confidence            478999999999999999887543    56777777543

>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=96.19  E-value=0.0053  Score=59.47  Aligned_cols=41  Identities=29%  Similarity=0.391  Sum_probs=36.8

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      ...+++.+|.+|+||||++.++|..+|. .|++|+.++++..
T Consensus        25 ~~~i~v~sgKGGvGKTTvA~~LA~~lA~-~G~rVLlvD~D~~   65 (349)
T 3ug7_A           25 GTKYIMFGGKGGVGKTTMSAATGVYLAE-KGLKVVIVSTDPA   65 (349)
T ss_dssp             SCEEEEEECSSSTTHHHHHHHHHHHHHH-SSCCEEEEECCTT
T ss_pred             CCEEEEEeCCCCccHHHHHHHHHHHHHH-CCCeEEEEeCCCC
Confidence            3458899999999999999999999985 6999999999974

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.18  E-value=0.0067  Score=53.65  Aligned_cols=41  Identities=20%  Similarity=0.373  Sum_probs=33.4

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ..+|.++.|.|++|+||||++..++.... ..+.+|.+++.+
T Consensus        19 ~~~~~~i~i~G~~GsGKstl~~~l~~~~~-~~~~~v~~~~~d   59 (201)
T 1rz3_A           19 TAGRLVLGIDGLSRSGKTTLANQLSQTLR-EQGISVCVFHMD   59 (201)
T ss_dssp             CSSSEEEEEEECTTSSHHHHHHHHHHHHH-HTTCCEEEEEGG
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHHHHh-hcCCeEEEeccC
Confidence            45678999999999999999998887664 356778888655

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=96.17  E-value=0.0058  Score=63.60  Aligned_cols=41  Identities=20%  Similarity=0.238  Sum_probs=37.0

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      +..+++++|.+|+|||+++.++|..+|. .|++|++++++..
T Consensus         7 ~~~i~~~sgkGGvGKTT~a~~lA~~lA~-~G~rVLlvd~D~~   47 (589)
T 1ihu_A            7 IPPYLFFTGKGGVGKTSISCATAIRLAE-QGKRVLLVSTDPA   47 (589)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCTT
T ss_pred             CCEEEEEeCCCcCHHHHHHHHHHHHHHH-CCCcEEEEECCCC
Confidence            4568999999999999999999999985 7999999999963

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.17  E-value=0.0025  Score=57.31  Aligned_cols=36  Identities=8%  Similarity=0.073  Sum_probs=23.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+++|+++.|.|++|+||||++.-++-..
T Consensus        12 ~l~~isl~i~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           12 SGLVPRGSMNNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             ----------CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             cccCCceecCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            455554458899999999999999999998877643

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=96.16  E-value=0.03  Score=57.38  Aligned_cols=27  Identities=26%  Similarity=0.498  Sum_probs=24.0

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++|+++.|.|++|+|||||+.-++--
T Consensus       309 i~~Ge~~~i~G~NGsGKSTLlk~l~Gl  335 (538)
T 1yqt_A          309 IKKGEVIGIVGPNGIGKTTFVKMLAGV  335 (538)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            479999999999999999999887753

>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=96.14  E-value=0.0068  Score=58.85  Aligned_cols=64  Identities=17%  Similarity=0.192  Sum_probs=51.1

Q ss_pred             ccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC-CCcEEEEeCCCCHHHHHH
Q psy2892         196 GISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN-KLPVAIFSMEMSGIQLAM  260 (452)
Q Consensus       196 ~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~-g~~vl~~s~E~~~~~i~~  260 (452)
                      .+.||+..+|-+. .+.+|+-+.|.|+||+|||+++.+++..++.+. +..|+|+-.....+++..
T Consensus       157 ~~~tGiraID~~~-pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~I~~lIGER~~Ev~~  221 (422)
T 3ice_A          157 TEDLTARVLDLAS-PIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEEVTE  221 (422)
T ss_dssp             TTHHHHHHHHHHS-CCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEEEEEEESSCHHHHHH
T ss_pred             cccccceeeeeee-eecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeEEEEEecCChHHHHH
Confidence            4678888888753 588999999999999999999999998887543 345778777777777665

>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA helicase, DEAD-BOX, ATP-binding, HE hydrolase, mitochondrion; HET: ANP; 1.90A {Saccharomyces cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A* 4db2_A 4db4_A

Probab=96.13  E-value=0.076  Score=54.57  Aligned_cols=148  Identities=15%  Similarity=0.036  Sum_probs=75.6

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhC------CCcEEEEeCCC-CHHHHHHHHHHHh---CCC---CccccccCCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIEN------KLPVAIFSMEM-SGIQLAMRMLGSV---GKL---DQHKLRTGRL  279 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~------g~~vl~~s~E~-~~~~i~~R~~a~~---~~i---~~~~i~~g~l  279 (452)
                      .|.-+++.|++|+|||...+-.+.......      +.+++|++--- -..|+..++....   .++   ....+..|.-
T Consensus       110 ~~~~~lv~apTGsGKTl~~~lpil~~l~~~~~~~~~~~~~lil~Ptr~La~Q~~~~~~~~~~~~~~~~~~~~~~~~g~~~  189 (563)
T 3i5x_A          110 EDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTD  189 (563)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHHHHHTTTSSTTSCCEEEECSSHHHHHHHHHHHHHHHHHCGGGTTSCEEEECTTSC
T ss_pred             CCCeEEEECCCCCCccHHHHHHHHHHHHhccccccCCeeEEEEcCcHHHHHHHHHHHHHHHhhccccCceeEEEEECCcC
Confidence            567899999999999965444444333332      23788886432 1233444443311   111   1111222211


Q ss_pred             CcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHH-HcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHH
Q psy2892         280 SSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSR-QCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLK  358 (452)
Q Consensus       280 ~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~-~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk  358 (452)
                      ...++..+.     -.+.++.|.     |++.+...+.+... ....+++||||-.+.+....    ....+..+...+.
T Consensus       190 ~~~~~~~~~-----~~~~~Iiv~-----Tp~~l~~~l~~~~~~~~~~~~~lViDEah~l~~~~----f~~~~~~i~~~l~  255 (563)
T 3i5x_A          190 FRAAMNKMN-----KLRPNIVIA-----TPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIG----FRDDLETISGILN  255 (563)
T ss_dssp             HHHHHHHHH-----HHCCSEEEE-----CHHHHHHHHHHHHHHHCTTCCEEEEETHHHHTSTT----THHHHHHHHHHHH
T ss_pred             HHHHHHHHh-----cCCCCEEEE-----CcHHHHHHHHhccccccccceEEEEeCHHHHhccc----hHHHHHHHHHhhh
Confidence            111121111     113456664     55666666655422 22358999999999887532    3344555555555


Q ss_pred             HHHHH--hCCcEEEEecC
Q psy2892         359 GLAKE--INCPILALSQL  374 (452)
Q Consensus       359 ~lA~~--~~i~vi~l~ql  374 (452)
                      .....  .++.+++++-.
T Consensus       256 ~~~~~~~~~~~~l~~SAT  273 (563)
T 3i5x_A          256 EKNSKSADNIKTLLFSAT  273 (563)
T ss_dssp             HHCSSCTTCCEEEEEESS
T ss_pred             hccccCccCceEEEEEcc
Confidence            43321  25667776643

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=96.11  E-value=0.024  Score=56.86  Aligned_cols=65  Identities=14%  Similarity=0.190  Sum_probs=50.4

Q ss_pred             ccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHH
Q psy2892         194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAM  260 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~  260 (452)
                      ...+.||++.+|-+. .+-+|+=..|.|++|+|||+++++...+.+ ..+..|+|.-.....+++.+
T Consensus       143 ~epl~TGiraID~l~-PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~-~~dv~~V~~~iGeR~~Ev~~  207 (502)
T 2qe7_A          143 HEPLQTGIKAIDSMI-PIGRGQRELIIGDRQTGKTTIAIDTIINQK-GQDVICIYVAIGQKQSTVAG  207 (502)
T ss_dssp             CSBCCCSCHHHHHSS-CCBTTCBCEEEECSSSCHHHHHHHHHHGGG-SCSEEEEEEEESCCHHHHHH
T ss_pred             CCccccceeeccccc-ccccCCEEEEECCCCCCchHHHHHHHHHhh-cCCcEEEEEECCCcchHHHH
Confidence            346889999999864 588999999999999999999887777664 34445677777766666543

>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=96.10  E-value=0.021  Score=59.28  Aligned_cols=35  Identities=17%  Similarity=0.362  Sum_probs=27.8

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      |+.+.--+++|+.+.|.|++|+||||++.-++.-.
T Consensus       359 l~~i~l~i~~G~~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          359 LSHVSFSIPQGKTVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             cccceEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            44443347899999999999999999988776543

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=96.08  E-value=0.0019  Score=57.11  Aligned_cols=37  Identities=19%  Similarity=0.336  Sum_probs=28.8

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ..|.....|+++..-+++.||||+|||++|..++..+
T Consensus        46 ~~l~~~~~~iPkkn~ili~GPPGtGKTt~a~ala~~l   82 (212)
T 1tue_A           46 GALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   82 (212)
T ss_dssp             HHHHHHHHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            3334444567777789999999999999999888765

>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- cell division, DNA translocation, KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas aeruginosa} PDB: 2iuu_A*

Probab=96.08  E-value=0.059  Score=55.12  Aligned_cols=150  Identities=12%  Similarity=0.130  Sum_probs=78.8

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC---CCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN---KLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~---g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~  287 (452)
                      +..+-=++|+|.||+|||+++..++..++...   ..+++.+..-+  .+     ++...+++  ++...-.+  +.++.
T Consensus       211 L~k~pHlLIaG~TGSGKS~~L~tlI~sLl~~~sP~ev~lilIDpKg--~e-----Ls~~~~lP--Hl~~~Vvt--d~~~a  279 (574)
T 2iut_A          211 LAKMPHLLVAGTTGSGKSVGVNAMLLSILFKSTPSEARLIMIDPKM--LE-----LSIYEGIP--HLLCPVVT--DMKEA  279 (574)
T ss_dssp             GGGSCCEEEECCTTSSHHHHHHHHHHHHHTTCCTTTEEEEEECSSS--HH-----HHTTTTCT--TBSSSCBC--CHHHH
T ss_pred             hhhCCeeEEECCCCCCHHHHHHHHHHHHHHhCCCcceEEEEeCCCh--hh-----hHhhcCCC--cccceeeC--CHHHH
Confidence            33444689999999999999999999987532   12355566554  22     12223332  11111111  22333


Q ss_pred             HHHHHHHh----CCCeEEEcCCCCCHHHHHHHHHHHHHH---------------------cC-CccEEEEcCcchhccCC
Q psy2892         288 NDSIKKIN----KSQLYIDETPSLNVIELRANSRRLSRQ---------------------CG-KIGVIIIDYLQLMSANS  341 (452)
Q Consensus       288 ~~a~~~l~----~~~l~i~~~~~~t~~~i~~~i~~~~~~---------------------~~-~~~~vvID~l~~i~~~~  341 (452)
                      ..++.++.    ...-.+...+.-++......+......                     .. ..-+||||.++.+....
T Consensus       280 ~~~L~~lv~EMerR~~ll~~~gvrni~~Yn~~~~~~~~~G~~~~dp~~~~~~~~~~~~~~~~lP~ivvVIDE~~~L~~~~  359 (574)
T 2iut_A          280 ANALRWSVAEMERRYRLMAAMGVRNLAGFNRKVKDAEEAGTPLTDPLFRRESPDDEPPQLSTLPTIVVVVDEFADMMMIV  359 (574)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCSSHHHHHHHHHHHHHTTCCCBCTTCCCCSTTCCCCBCCCCCEEEEEESCCTTHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHhhcccccccccccccccccccccccCCCcEEEEEeCHHHHhhhh
Confidence            33333321    100000111122344443333221110                     01 13489999998765422


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCc
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNR  376 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r  376 (452)
                         .  ..+...+..|-..++.+||.+|+.+|-..
T Consensus       360 ---~--~~~~~~L~~Iar~GRa~GIhLIlaTQRPs  389 (574)
T 2iut_A          360 ---G--KKVEELIARIAQKARAAGIHLILATQRPS  389 (574)
T ss_dssp             ---C--HHHHHHHHHHHHHCTTTTEEEEEEESCCC
T ss_pred             ---h--HHHHHHHHHHHHHHhhCCeEEEEEecCcc
Confidence               1  23456667777788899999999999643

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19

Probab=96.06  E-value=0.034  Score=48.84  Aligned_cols=113  Identities=11%  Similarity=0.086  Sum_probs=56.8

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHH--hCCCcEEEEeCCC-CHHHHHHHHHHHhC---CCCccccccCCCCcchHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAI--ENKLPVAIFSMEM-SGIQLAMRMLGSVG---KLDQHKLRTGRLSSDDWPRIN  288 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~--~~g~~vl~~s~E~-~~~~i~~R~~a~~~---~i~~~~i~~g~l~~~~~~~~~  288 (452)
                      .-+++.+++|+|||..++-.+.....  ..+.+++|+.--. -..++..++.....   ++....+ .|..+..+     
T Consensus        41 ~~~lv~apTGsGKT~~~~~~~~~~~~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~-~g~~~~~~-----  114 (206)
T 1vec_A           41 RDILARAKNGTGKSGAYLIPLLERLDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMAT-TGGTNLRD-----  114 (206)
T ss_dssp             CCEEEECCSSSTTHHHHHHHHHHHCCTTSCSCCEEEECSCHHHHHHHHHHHHHHTTTSSSCCEEEE-CSSSCHHH-----
T ss_pred             CCEEEECCCCCchHHHHHHHHHHHhcccCCCeeEEEEeCcHHHHHHHHHHHHHHHhhcCCceEEEE-eCCccHHH-----
Confidence            44899999999999655544444321  1345788886432 12344444433222   2222211 22222111     


Q ss_pred             HHHHHHh-CCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         289 DSIKKIN-KSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       289 ~a~~~l~-~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                       ....+. +..+.+.     |++.+...+..-.....++++||||-.+.+..
T Consensus       115 -~~~~~~~~~~i~v~-----T~~~l~~~~~~~~~~~~~~~~lViDEah~~~~  160 (206)
T 1vec_A          115 -DIMRLDDTVHVVIA-----TPGRILDLIKKGVAKVDHVQMIVLDEADKLLS  160 (206)
T ss_dssp             -HHHHTTSCCSEEEE-----CHHHHHHHHHTTCSCCTTCCEEEEETHHHHTS
T ss_pred             -HHHhcCCCCCEEEe-----CHHHHHHHHHcCCcCcccCCEEEEEChHHhHh
Confidence             111222 2345553     45566544432111112589999999998765

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.05  E-value=0.0038  Score=55.11  Aligned_cols=27  Identities=19%  Similarity=0.375  Sum_probs=23.4

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +.+|+++.|.|++|+||||++..++..
T Consensus         4 m~~g~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            4 MNKANLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             -CCCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCCcEEEEECcCCCCHHHHHHHHHhh
Confidence            468999999999999999999887754

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=96.04  E-value=0.0078  Score=57.75  Aligned_cols=40  Identities=23%  Similarity=0.313  Sum_probs=36.4

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      ..+.+++|.+|+|||+++.++|..+|. .|++|+.++++..
T Consensus        19 ~~i~v~sgkGGvGKTTva~~LA~~lA~-~G~rVllvD~D~~   58 (329)
T 2woo_A           19 LKWIFVGGKGGVGKTTTSCSLAIQMSK-VRSSVLLISTDPA   58 (329)
T ss_dssp             CCEEEEECSSSSSHHHHHHHHHHHHHT-SSSCEEEEECCTT
T ss_pred             CEEEEEeCCCCCcHHHHHHHHHHHHHH-CCCeEEEEECCCC
Confidence            358899999999999999999999985 7999999999976

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.03  E-value=0.004  Score=55.03  Aligned_cols=28  Identities=29%  Similarity=0.363  Sum_probs=23.8

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +.+|.+++|.|+||+||||++..++...
T Consensus         3 i~~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            3 NEKGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             -CCCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            5689999999999999999998876543

>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=96.01  E-value=0.0071  Score=57.54  Aligned_cols=43  Identities=19%  Similarity=0.123  Sum_probs=33.6

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC-CcEEEEeCCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK-LPVAIFSMEM  253 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g-~~vl~~s~E~  253 (452)
                      ..+|+++.|.|++|+|||||+.-++.......| ..|.|++.+.
T Consensus        87 ~~~g~ivgI~G~sGsGKSTL~~~L~gll~~~~G~~~v~~v~qd~  130 (312)
T 3aez_A           87 RPVPFIIGVAGSVAVGKSTTARVLQALLARWDHHPRVDLVTTDG  130 (312)
T ss_dssp             SCCCEEEEEECCTTSCHHHHHHHHHHHHHTSTTCCCEEEEEGGG
T ss_pred             CCCCEEEEEECCCCchHHHHHHHHHhhccccCCCCeEEEEecCc
Confidence            688999999999999999999888766532223 4688887663

>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19

Probab=95.99  E-value=0.08  Score=52.61  Aligned_cols=112  Identities=13%  Similarity=0.102  Sum_probs=66.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-CCHHHHHHHHHHHhCCCCccc--cccCCCCcchHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-MSGIQLAMRMLGSVGKLDQHK--LRTGRLSSDDWPRINDSIK  292 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~~~~~i~~R~~a~~~~i~~~~--i~~g~l~~~~~~~~~~a~~  292 (452)
                      -+++++++|+|||..++.++.......+.+++++.-- .-..++..++.. ..+.+...  ...|.....+...      
T Consensus        25 ~~ll~~~tG~GKT~~~~~~~~~~~~~~~~~~liv~P~~~L~~q~~~~~~~-~~~~~~~~v~~~~g~~~~~~~~~------   97 (494)
T 1wp9_A           25 NCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAPTKPLVLQHAESFRR-LFNLPPEKIVALTGEKSPEERSK------   97 (494)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECSSHHHHHHHHHHHHH-HBCSCGGGEEEECSCSCHHHHHH------
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHhcCCCeEEEEECCHHHHHHHHHHHHH-HhCcchhheEEeeCCcchhhhhh------
Confidence            4789999999999999888887755567889998754 233455555543 34543222  2234444333221      


Q ss_pred             HHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         293 KINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       293 ~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      .+....+.|.     |.+.+...+..-.....++++||||-.+.+..
T Consensus        98 ~~~~~~ivv~-----T~~~l~~~~~~~~~~~~~~~~vIiDEaH~~~~  139 (494)
T 1wp9_A           98 AWARAKVIVA-----TPQTIENDLLAGRISLEDVSLIVFDEAHRAVG  139 (494)
T ss_dssp             HHHHCSEEEE-----CHHHHHHHHHTTSCCTTSCSEEEEETGGGCST
T ss_pred             hccCCCEEEe-----cHHHHHHHHhcCCcchhhceEEEEECCcccCC
Confidence            1234566664     45555554331100112589999999998864

>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=95.98  E-value=0.11  Score=46.78  Aligned_cols=42  Identities=17%  Similarity=0.194  Sum_probs=32.3

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      ...+|.+++|.|+||+||||++..++.... . |..|+. +.|-.
T Consensus        22 ~~~~g~~i~i~G~~GsGKsT~~~~l~~~l~-~-~~~~~~-~~~p~   63 (229)
T 4eaq_A           22 SNAMSAFITFEGPEGSGKTTVINEVYHRLV-K-DYDVIM-TREPG   63 (229)
T ss_dssp             CCCCCEEEEEECCTTSCHHHHHHHHHHHHT-T-TSCEEE-ECTTT
T ss_pred             ecCCCeEEEEEcCCCCCHHHHHHHHHHHHh-c-CCCcee-ecCCC
Confidence            466899999999999999999999988764 3 566653 33433

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A

Probab=95.98  E-value=0.037  Score=49.38  Aligned_cols=114  Identities=13%  Similarity=0.090  Sum_probs=56.2

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHH--hCCCcEEEEeCC-CCHHHHHHHHHHHhC--CCCccccccCCCCcchHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAI--ENKLPVAIFSME-MSGIQLAMRMLGSVG--KLDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~--~~g~~vl~~s~E-~~~~~i~~R~~a~~~--~i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      .-+++.+++|+|||...+-.+.....  ..+.+++|+.-- .-..++..++.....  ++....+. |..+..+      
T Consensus        52 ~~~lv~~pTGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~-g~~~~~~------  124 (224)
T 1qde_A           52 HDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACI-GGTSFVE------  124 (224)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHCCTTCCSCCEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEEC-C------------
T ss_pred             CCEEEECCCCCcHHHHHHHHHHHHHhccCCCceEEEEECCHHHHHHHHHHHHHHhcccCceEEEEe-CCcchHH------
Confidence            34899999999999764433333321  134578888643 223445555443322  33322222 2211111      


Q ss_pred             HHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         290 SIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       290 a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                      ....+.+.++.+.     |++.+...+..-.....++++||||-.+.+...
T Consensus       125 ~~~~~~~~~iiv~-----Tp~~l~~~~~~~~~~~~~~~~iViDEah~~~~~  170 (224)
T 1qde_A          125 DAEGLRDAQIVVG-----TPGRVFDNIQRRRFRTDKIKMFILDEADEMLSS  170 (224)
T ss_dssp             ----CTTCSEEEE-----CHHHHHHHHHTTSSCCTTCCEEEEETHHHHHHT
T ss_pred             HHhcCCCCCEEEE-----CHHHHHHHHHhCCcchhhCcEEEEcChhHHhhh
Confidence            1112333455554     455555444321111125899999999987653

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.98  E-value=0.0084  Score=52.11  Aligned_cols=34  Identities=24%  Similarity=0.405  Sum_probs=29.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      +++|.|+||+||||++..++.... ..|.++.+++
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~-~~g~~~~~~~   36 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILD-NQGINNKIIN   36 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHH-TTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH-hcCceEEEEE
Confidence            689999999999999999998874 3577788884

>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=95.97  E-value=0.01  Score=50.98  Aligned_cols=38  Identities=16%  Similarity=0.060  Sum_probs=32.6

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      ++.|+|++|+||||++..++..+. ..|.+|..+..+..
T Consensus         6 ~i~i~G~sGsGKTTl~~~L~~~l~-~~g~~v~~ik~~~~   43 (169)
T 1xjc_A            6 VWQVVGYKHSGKTTLMEKWVAAAV-REGWRVGTVKHHGH   43 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEECCC-
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhH-hcCCeeeEEEeCCC
Confidence            789999999999999999998875 46899999987754

>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=95.97  E-value=0.011  Score=61.64  Aligned_cols=34  Identities=18%  Similarity=0.229  Sum_probs=28.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+. -+.+|+++.|.|++|+|||||+.-++-.
T Consensus       107 ~l~~vs-~i~~Ge~~~LiG~NGsGKSTLlkiL~Gl  140 (607)
T 3bk7_A          107 VLYRLP-IVKDGMVVGIVGPNGTGKTTAVKILAGQ  140 (607)
T ss_dssp             EEECCC-CCCTTSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             eeCCCC-CCCCCCEEEEECCCCChHHHHHHHHhCC
Confidence            355554 5799999999999999999999877653

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19

Probab=95.96  E-value=0.06  Score=47.86  Aligned_cols=112  Identities=15%  Similarity=0.112  Sum_probs=59.4

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHh--CCCcEEEEeCC-CCHHHHHHHHHHHhC---CCCccccccCCCCcchHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIE--NKLPVAIFSME-MSGIQLAMRMLGSVG---KLDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~--~g~~vl~~s~E-~~~~~i~~R~~a~~~---~i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      -+++.+++|+|||..++-.+......  .+.+++|+.-- .-..++..++.....   ++....+ .|..+..++.    
T Consensus        53 ~~li~~~TGsGKT~~~~~~~~~~~~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~v~~~-~g~~~~~~~~----  127 (220)
T 1t6n_A           53 DVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVF-FGGLSIKKDE----  127 (220)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHCCCCTTCCCEEEECSCHHHHHHHHHHHHHHTTTSTTCCEEEE-SCCSCHHHHH----
T ss_pred             CEEEECCCCCchhhhhhHHHHHhhhccCCCEEEEEEeCCHHHHHHHHHHHHHHHhhCCCceEEEE-eCCCChHHHH----
Confidence            48899999999998776666655322  23478888643 223445444433221   3332222 2333322221    


Q ss_pred             HHHHHh-C-CCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         290 SIKKIN-K-SQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       290 a~~~l~-~-~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                        +.+. . ..+.+.     |++.+...++.-.....++++||||-.+.+..
T Consensus       128 --~~~~~~~~~i~v~-----T~~~l~~~~~~~~~~~~~~~~lViDEah~~~~  172 (220)
T 1t6n_A          128 --EVLKKNCPHIVVG-----TPGRILALARNKSLNLKHIKHFILDECDKMLE  172 (220)
T ss_dssp             --HHHHHSCCSEEEE-----CHHHHHHHHHTTSSCCTTCCEEEEESHHHHHS
T ss_pred             --HHHhcCCCCEEEe-----CHHHHHHHHHhCCCCcccCCEEEEcCHHHHhc
Confidence              1122 1 245553     45556554432111112589999999998754

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=95.96  E-value=0.0077  Score=54.46  Aligned_cols=38  Identities=21%  Similarity=0.317  Sum_probs=33.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      +.+.++.+|+|||+++.++|..++. .|.+|+++.++..
T Consensus         5 i~v~s~kgGvGKTt~a~~LA~~la~-~g~~VlliD~D~~   42 (237)
T 1g3q_A            5 ISIVSGKGGTGKTTVTANLSVALGD-RGRKVLAVDGDLT   42 (237)
T ss_dssp             EEEECSSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCTT
T ss_pred             EEEecCCCCCCHHHHHHHHHHHHHh-cCCeEEEEeCCCC
Confidence            5566788999999999999999985 6999999999863

>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=95.94  E-value=0.0085  Score=57.05  Aligned_cols=41  Identities=20%  Similarity=0.282  Sum_probs=36.1

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      +..-.++.|+|--|+||||++.|+|..+|. .|++|+.+.++
T Consensus        45 i~~aKVIAIaGKGGVGKTTtavNLA~aLA~-~GkkVllID~D   85 (314)
T 3fwy_A           45 ITGAKVFAVYGKGGIGKSTTSSNLSAAFSI-LGKRVLQIGCD   85 (314)
T ss_dssp             --CCEEEEEECSTTSSHHHHHHHHHHHHHH-TTCCEEEEEES
T ss_pred             CCCceEEEEECCCccCHHHHHHHHHHHHHH-CCCeEEEEecC
Confidence            445569999999999999999999999985 79999999998

>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=95.92  E-value=0.04  Score=55.17  Aligned_cols=65  Identities=14%  Similarity=0.254  Sum_probs=50.5

Q ss_pred             ccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHH
Q psy2892         194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAM  260 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~  260 (452)
                      ...+.||++.+|-+. .+-+|+=..|.|.+|+|||+++++.+.+.. ..+..|+|.-.-...+++.+
T Consensus       143 ~epl~TGikaID~l~-PigrGQR~~Ifg~~g~GKT~l~l~~I~n~~-~~dv~~V~~~IGeR~~ev~e  207 (513)
T 3oaa_A          143 DQPVQTGYKAVDSMI-PIGRGQRELIIGDRQTGKTALAIDAIINQR-DSGIKCIYVAIGQKASTISN  207 (513)
T ss_dssp             CCBCCCSCHHHHHHS-CCBTTCBCEEEESSSSSHHHHHHHHHHTTS-SSSCEEEEEEESCCHHHHHH
T ss_pred             Ccccccceeeecccc-ccccCCEEEeecCCCCCcchHHHHHHHhhc-cCCceEEEEEecCChHHHHH
Confidence            356889999999874 588899999999999999999887766653 34555778877777665543

>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=95.92  E-value=0.0047  Score=55.01  Aligned_cols=27  Identities=22%  Similarity=0.353  Sum_probs=23.8

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++|.+++|.||+|+||||++..++...
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            579999999999999999999887643

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.90  E-value=0.0083  Score=55.53  Aligned_cols=45  Identities=16%  Similarity=0.209  Sum_probs=33.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEE
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIF  249 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~  249 (452)
                      .|+.+.  +++|+++.|.|++|+||||++.-++..........|.+.
T Consensus        16 vl~~i~--i~~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~   60 (261)
T 2eyu_A           16 KVLELC--HRKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITI   60 (261)
T ss_dssp             HHHHGG--GCSSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             HHHHHh--hCCCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEc
Confidence            445444  899999999999999999999888876543313455554

>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA dependent ATPase, RNA helicase; HET: ANP; 1.91A {Saccharomyces cerevisiae S288C}

Probab=95.88  E-value=0.11  Score=53.57  Aligned_cols=148  Identities=16%  Similarity=0.070  Sum_probs=74.1

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhC------CCcEEEEeCCC-CHHHHHHHHHHHh---CCC---CccccccCCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIEN------KLPVAIFSMEM-SGIQLAMRMLGSV---GKL---DQHKLRTGRL  279 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~------g~~vl~~s~E~-~~~~i~~R~~a~~---~~i---~~~~i~~g~l  279 (452)
                      .|.-+++.|++|+|||...+-.++......      +.+++|++--- -..|+..++....   .++   ....+..|  
T Consensus        59 ~~~dvlv~apTGsGKTl~~~lpil~~l~~~~~~~~~~~~~lvl~Ptr~La~Q~~~~~~~~~~~~~~~~~~~~~~~~gg--  136 (579)
T 3sqw_A           59 EDHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGG--  136 (579)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHHHHHTTTSSTTSCCEEEECSSHHHHHHHHHHHHHHHHHCGGGTTSCEEEECTT--
T ss_pred             CCCeEEEEcCCCcHHHHHHHHHHHHHHHhccccccCCCeEEEEcchHHHHHHHHHHHHHHHhhcccccceEEEEEECC--
Confidence            466789999999999974443333333222      34788886432 2234444443321   111   11112222  


Q ss_pred             CcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHH-HcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHH
Q psy2892         280 SSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSR-QCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLK  358 (452)
Q Consensus       280 ~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~-~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk  358 (452)
                        .++......... .+..+.|.     |++.+...+.+... ....+++||||-.+.+....    ....+..+...+.
T Consensus       137 --~~~~~~~~~l~~-~~~~IlV~-----Tp~~l~~~l~~~~~~~~~~~~~lViDEah~l~~~g----f~~~~~~i~~~l~  204 (579)
T 3sqw_A          137 --TDFRAAMNKMNK-LRPNIVIA-----TPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIG----FRDDLETISGILN  204 (579)
T ss_dssp             --SCHHHHHHHHHH-HCCSEEEE-----CHHHHHHHHHHHHHHHCTTCCEEEEETHHHHTSTT----THHHHHHHHHHHH
T ss_pred             --ccHHHHHHHHhc-CCCCEEEE-----CHHHHHHHHHhccccccccCCEEEEEChHHhhcCC----CHHHHHHHHHHhh
Confidence              122211111111 13456554     45666666655421 22358999999999887532    2334445544444


Q ss_pred             HHHHH--hCCcEEEEecC
Q psy2892         359 GLAKE--INCPILALSQL  374 (452)
Q Consensus       359 ~lA~~--~~i~vi~l~ql  374 (452)
                      .....  .++++++++-.
T Consensus       205 ~~~~~~~~~~~~l~~SAT  222 (579)
T 3sqw_A          205 EKNSKSADNIKTLLFSAT  222 (579)
T ss_dssp             HHCSSCTTCCEEEEEESS
T ss_pred             hhhcccccCceEEEEecc
Confidence            33221  15677776643

>3fgn_A Dethiobiotin synthetase; biotin biosynthesis, BIOD, ATP-BIND ligase, magnesium, nucleotide-binding; 1.85A {Mycobacterium tuberculosis} PDB: 3fmf_A* 3fmi_A* 3fpa_A*

Probab=95.88  E-value=0.021  Score=52.44  Aligned_cols=130  Identities=10%  Similarity=0.078  Sum_probs=71.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe-----C--CCCHHHHHHHHHHHhCCCCcc-c-c-ccCCCCcchHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS-----M--EMSGIQLAMRMLGSVGKLDQH-K-L-RTGRLSSDDWP  285 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s-----~--E~~~~~i~~R~~a~~~~i~~~-~-i-~~g~l~~~~~~  285 (452)
                      +++-+-.+|+|||++++.++..+. ++|.+|.||-     .  +...-+...    ..++++.. . + ...-+++.   
T Consensus        29 i~Itgt~t~vGKT~vt~gL~~~l~-~~G~~V~~fKPv~~g~~~~~~D~~~~~----~~~g~~~~~~~~~~~~p~sP~---  100 (251)
T 3fgn_A           29 LVVTGTGTGVGKTVVCAALASAAR-QAGIDVAVCKPVQTGTARGDDDLAEVG----RLAGVTQLAGLARYPQPMAPA---  100 (251)
T ss_dssp             EEEEESSTTSCHHHHHHHHHHHHH-HTTCCEEEEEEEECCGGGTCCHHHHHH----HHHCCCEEEEEEECSSSSCHH---
T ss_pred             EEEEeCCCCCcHHHHHHHHHHHHH-HCCCeEEEEeeeecCCCCCCHHHHHHH----HHcCCCCCCCCeeECCCCChH---
Confidence            666666789999999999999886 5799999995     2  112222222    22343311 0 0 00011110   


Q ss_pred             HHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhC
Q psy2892         286 RINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEIN  365 (452)
Q Consensus       286 ~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~  365 (452)
                       +..   .+.+       ...+..+.+.+.++++..   +.|+||||.-.-+..+.. ...        ...-.+|+.++
T Consensus       101 -~aa---~~~~-------~~~~~~~~i~~~~~~l~~---~~D~vlIEGagGl~~pl~-~~~--------~~~adla~~l~  157 (251)
T 3fgn_A          101 -AAA---EHAG-------MALPARDQIVRLIADLDR---PGRLTLVEGAGGLLVELA-EPG--------VTLRDVAVDVA  157 (251)
T ss_dssp             -HHH---HHTT-------CCCCCHHHHHHHHHTTCC---TTCEEEEECSSSTTCEEE-TTT--------EEHHHHHHHTT
T ss_pred             -HHH---HHcC-------CCCCCHHHHHHHHHHHHh---cCCEEEEECCCCCcCCcC-ccc--------chHHHHHHHcC
Confidence             000   0110       113456777766655422   478999998765443210 100        01234677888


Q ss_pred             CcEEEEecCCc
Q psy2892         366 CPILALSQLNR  376 (452)
Q Consensus       366 i~vi~l~ql~r  376 (452)
                      .|||++.-...
T Consensus       158 ~pVILV~~~~~  168 (251)
T 3fgn_A          158 AAALVVVTADL  168 (251)
T ss_dssp             CEEEEEECSST
T ss_pred             CCEEEEEcCCC
Confidence            99998886654

>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics, structural genomics consort ATP-binding, hydrolase, nucleotide-binding, RNA-B; 2.80A {Homo sapiens}

Probab=95.88  E-value=0.053  Score=49.95  Aligned_cols=114  Identities=13%  Similarity=0.055  Sum_probs=59.7

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHh------CCCcEEEEeCC-CCHHHHHHHHHHHhC--CCCccccccCCCCc-chH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIE------NKLPVAIFSME-MSGIQLAMRMLGSVG--KLDQHKLRTGRLSS-DDW  284 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~------~g~~vl~~s~E-~~~~~i~~R~~a~~~--~i~~~~i~~g~l~~-~~~  284 (452)
                      .-+++.|++|+|||..++-.+.....+      .+.+++|+.-- .-..++..++.....  ++....+. |.... .++
T Consensus        92 ~~~lv~a~TGsGKT~~~~l~~l~~l~~~~~~~~~~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~  170 (262)
T 3ly5_A           92 RDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIM-GGSNRSAEA  170 (262)
T ss_dssp             CCCEECCCTTSCHHHHHHHHHHHHHHHTTCCGGGCCCEEEECSSHHHHHHHHHHHHHHTTTCCSCEEEEC-SSSCHHHHH
T ss_pred             CcEEEEccCCCCchHHHHHHHHHHHHhccccccCCceEEEEeCCHHHHHHHHHHHHHHHhhcCceEEEEE-CCCCHHHHH
Confidence            347899999999997655444443332      46778888642 223445555443322  22222222 22221 111


Q ss_pred             HHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHH-HHcCCccEEEEcCcchhccC
Q psy2892         285 PRINDSIKKINKSQLYIDETPSLNVIELRANSRRLS-RQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       285 ~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~-~~~~~~~~vvID~l~~i~~~  340 (452)
                      ..+      ..+..+.|.     |++.+...+.... ....++++||||-.+.+...
T Consensus       171 ~~~------~~~~~Iiv~-----Tp~~l~~~~~~~~~~~~~~l~~lViDEah~l~~~  216 (262)
T 3ly5_A          171 QKL------GNGINIIVA-----TPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDV  216 (262)
T ss_dssp             HHH------HHCCSEEEE-----CHHHHHHHHHHCTTCCCTTCCEEEECSHHHHHHT
T ss_pred             HHh------cCCCCEEEE-----cHHHHHHHHHccCCcccccCCEEEEcChHHHhhh
Confidence            111      123455554     4566655444321 11125899999999987753

>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=95.88  E-value=0.0079  Score=57.81  Aligned_cols=38  Identities=26%  Similarity=0.373  Sum_probs=35.1

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      .+++++|.+|+||||++.++|..+|. .|++|+.++++-
T Consensus        17 ~i~~~sgkGGvGKTt~a~~lA~~la~-~g~~vllid~D~   54 (334)
T 3iqw_A           17 RWIFVGGKGGVGKTTTSCSLAIQLAK-VRRSVLLLSTDP   54 (334)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHTT-SSSCEEEEECCS
T ss_pred             EEEEEeCCCCccHHHHHHHHHHHHHh-CCCcEEEEECCC
Confidence            58899999999999999999999985 799999999994

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=95.88  E-value=0.0083  Score=55.49  Aligned_cols=38  Identities=11%  Similarity=0.243  Sum_probs=32.9

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      ++.|.|..|+||||++.++|..++. .|++|+.+.++..
T Consensus         3 vI~vs~KGGvGKTT~a~nLA~~la~-~G~~VlliD~D~q   40 (269)
T 1cp2_A            3 QVAIYGKGGIGKSTTTQNLTSGLHA-MGKTIMVVGCDPK   40 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHT-TTCCEEEEEECTT
T ss_pred             EEEEecCCCCcHHHHHHHHHHHHHH-CCCcEEEEcCCCC
Confidence            3455799999999999999999984 7999999999853

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=95.87  E-value=0.011  Score=49.18  Aligned_cols=34  Identities=9%  Similarity=0.129  Sum_probs=25.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      -++|.|+||+|||++|..++.... ..+.+++ +++
T Consensus        26 ~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~v-~~~   59 (145)
T 3n70_A           26 AVWLYGAPGTGRMTGARYLHQFGR-NAQGEFV-YRE   59 (145)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHSST-TTTSCCE-EEE
T ss_pred             CEEEECCCCCCHHHHHHHHHHhCC-ccCCCEE-EEC
Confidence            489999999999999998876543 2355555 544

>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=95.87  E-value=0.053  Score=48.10  Aligned_cols=103  Identities=17%  Similarity=0.175  Sum_probs=52.7

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCC--Cc-cccccCCCCcchHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKL--DQ-HKLRTGRLSSDDWPRINDSIK  292 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i--~~-~~i~~g~l~~~~~~~~~~a~~  292 (452)
                      .++|.|+||+||+|.|..++...    |  +.++|.    .++.+..+...+.+  .. ..+..|.+-++++- +.-..+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~----g--~~~ist----GdllR~~i~~~t~lg~~~~~~~~~G~lvpd~iv-~~lv~~   70 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK----G--FVHIST----GDILREAVQKGTPLGKKAKEYMERGELVPDDLI-IALIEE   70 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH----C--CEEEEH----HHHHHHHHHHTCHHHHHHHHHHHHTCCCCHHHH-HHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH----C--CeEEcH----HHHHHHHHHhcChhhhhHHHHHhcCCcCCHHHH-HHHHHH
Confidence            46889999999999999888654    3  456664    23433332221110  00 11234665544431 111122


Q ss_pred             HHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcC-CccEEE
Q psy2892         293 KINKSQLYIDETPSLNVIELRANSRRLSRQCG-KIGVII  330 (452)
Q Consensus       293 ~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~-~~~~vv  330 (452)
                      .+....-|+.|.-+-|..+....-..+.. .+ .++.||
T Consensus        71 ~l~~~~~~ilDGfPRt~~Qa~~l~~~l~~-~~~~~~~vi  108 (206)
T 3sr0_A           71 VFPKHGNVIFDGFPRTVKQAEALDEMLEK-KGLKVDHVL  108 (206)
T ss_dssp             HCCSSSCEEEESCCCSHHHHHHHHHHHHH-TTCCCCEEE
T ss_pred             hhccCCceEecCCchhHHHHHHHHhhHHH-hccccceee
Confidence            34444456666555677666554333332 22 355544

>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=95.85  E-value=0.0089  Score=51.90  Aligned_cols=37  Identities=19%  Similarity=0.364  Sum_probs=28.9

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      |.+++|.|+||+||||++..++.... ..|.+.-+++.
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~~l~-~~g~~~~~i~~   39 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMDNLR-KEGVNYKMVSF   39 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHH-TTTCCCEEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHH-hcCcceEEEeh
Confidence            56899999999999999999998764 34544556653

>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX, structural genomics, helic binding, HOST-virus interaction, hydrolase; 1.85A {Homo sapiens} PDB: 2g9n_A*

Probab=95.85  E-value=0.019  Score=51.96  Aligned_cols=113  Identities=12%  Similarity=0.005  Sum_probs=54.8

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHh--CCCcEEEEeCC-CCHHHHHHHHHHHhC--CCCccccccCCCCcchHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIE--NKLPVAIFSME-MSGIQLAMRMLGSVG--KLDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~--~g~~vl~~s~E-~~~~~i~~R~~a~~~--~i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      .-+++.|++|+|||...+-.+......  .+.+++|+.-- .-..++..++.....  ++....+..|.-...++.    
T Consensus        68 ~~~li~apTGsGKT~~~~l~~l~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~----  143 (237)
T 3bor_A           68 YDVIAQAQSGTGKTATFAISILQQLEIEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQ----  143 (237)
T ss_dssp             CCEEECCCSSHHHHHHHHHHHHHHCCTTSCSCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECC-------------
T ss_pred             CCEEEECCCCCcHHHHHHHHHHHHHHhcCCCceEEEEECcHHHHHHHHHHHHHHhhhcCceEEEEECCCchHHHHH----
Confidence            348899999999997655555444221  35678888643 123444444433221  222222222211111111    


Q ss_pred             HHHHHhC--CCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         290 SIKKINK--SQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       290 a~~~l~~--~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                         .+..  ..+.+.     |++.+...+..-.....++++||||-.+.+..
T Consensus       144 ---~l~~~~~~Ilv~-----Tp~~l~~~l~~~~~~~~~~~~lViDEah~~~~  187 (237)
T 3bor_A          144 ---KLQAEAPHIVVG-----TPGRVFDMLNRRYLSPKWIKMFVLDEADEMLS  187 (237)
T ss_dssp             -------CCCSEEEE-----CHHHHHHHHHTTSSCSTTCCEEEEESHHHHHH
T ss_pred             ---HHhcCCCCEEEE-----CHHHHHHHHHhCCcCcccCcEEEECCchHhhc
Confidence               1211  244443     45555554432111112589999999998764

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=95.84  E-value=0.009  Score=55.17  Aligned_cols=39  Identities=21%  Similarity=0.419  Sum_probs=34.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG  255 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~  255 (452)
                      +.+..+..|+||||++.++|..++. .|.+|+++.++...
T Consensus        21 I~v~s~kGGvGKTT~a~nLA~~la~-~G~~VlliD~D~~~   59 (262)
T 2ph1_A           21 IAVMSGKGGVGKSTVTALLAVHYAR-QGKKVGILDADFLG   59 (262)
T ss_dssp             EEEECSSSCTTHHHHHHHHHHHHHH-TTCCEEEEECCSSC
T ss_pred             EEEEcCCCCCCHHHHHHHHHHHHHH-CCCeEEEEeCCCCC
Confidence            6677889999999999999999985 69999999998654

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=95.84  E-value=0.009  Score=54.79  Aligned_cols=37  Identities=19%  Similarity=0.386  Sum_probs=33.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      +.+.++..|+|||+++.++|..++. .|.+|+++.++.
T Consensus         5 i~v~s~kgGvGKTt~a~~LA~~la~-~g~~VlliD~D~   41 (260)
T 3q9l_A            5 IVVTSGKGGVGKTTSSAAIATGLAQ-KGKKTVVIDFAI   41 (260)
T ss_dssp             EEEECSSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCC
T ss_pred             EEEECCCCCCcHHHHHHHHHHHHHh-CCCcEEEEECCC
Confidence            5566788999999999999999985 799999999986

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=95.84  E-value=0.0054  Score=54.34  Aligned_cols=29  Identities=14%  Similarity=0.222  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+.+|.+++|+|+||+||||++..++...
T Consensus         8 ~~~~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A            8 HMARIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             -CCCCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             ccccCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            46789999999999999999999887654

>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=95.83  E-value=0.014  Score=50.38  Aligned_cols=42  Identities=12%  Similarity=0.102  Sum_probs=33.3

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      ..-.+++|+|++|+|||||+..++.... ..|.+|..+..+..
T Consensus         4 ~~~~~i~i~G~sGsGKTTl~~~l~~~l~-~~g~~v~~i~~~~~   45 (174)
T 1np6_A            4 TMIPLLAFAAWSGTGKTTLLKKLIPALC-ARGIRPGLIKHTHH   45 (174)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEEEECCC
T ss_pred             CcceEEEEEeCCCCCHHHHHHHHHHhcc-ccCCceeEEeeCCC
Confidence            3345899999999999999999988764 46788888876543

>4f92_B U5 small nuclear ribonucleoprotein 200 kDa helica; RNP remodeling, PRE-mRNA splicing, spliceosome catalytic ACT DEXD/H-box RNA helicase; HET: SAN; 2.66A {Homo sapiens} PDB: 4f93_B* 4f91_B

Probab=95.83  E-value=0.059  Score=62.70  Aligned_cols=144  Identities=17%  Similarity=0.194  Sum_probs=82.9

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHh-CCCcEEEEeCCCC-HHHHHHHHHHHh---CCCCccccccCCCCcchHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-NKLPVAIFSMEMS-GIQLAMRMLGSV---GKLDQHKLRTGRLSSDDWPR  286 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-~g~~vl~~s~E~~-~~~i~~R~~a~~---~~i~~~~i~~g~l~~~~~~~  286 (452)
                      ..++-++++||+|+|||..+.-.+++...+ .+.+++|++---. ..+....+....   .|+.... ..|..+. +   
T Consensus       940 ~~~~nvlv~APTGSGKTliaelail~~l~~~~~~kavyi~P~raLa~q~~~~~~~~f~~~~g~~V~~-ltGd~~~-~--- 1014 (1724)
T 4f92_B          940 NSDDNVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYITPMEALAEQVYMDWYEKFQDRLNKKVVL-LTGETST-D--- 1014 (1724)
T ss_dssp             SCCSCEEEECCTTSCCHHHHHHHHHHHHHHCTTCCEEEECSCHHHHHHHHHHHHHHHTTTSCCCEEE-CCSCHHH-H---
T ss_pred             cCCCcEEEEeCCCCCchHHHHHHHHHHHHhCCCCEEEEEcChHHHHHHHHHHHHHHhchhcCCEEEE-EECCCCc-c---
Confidence            456779999999999998776555555433 4668999865321 123333333322   2332221 1232211 1   


Q ss_pred             HHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHH--cCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHH-
Q psy2892         287 INDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQ--CGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKE-  363 (452)
Q Consensus       287 ~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~--~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~-  363 (452)
                          ...+.+..+.|.     |++.+...++++...  ..++++||||-++.+..     .+...+..+...++.++.. 
T Consensus      1015 ----~~~~~~~~IiV~-----TPEkld~llr~~~~~~~l~~v~lvViDE~H~l~d-----~rg~~le~il~rl~~i~~~~ 1080 (1724)
T 4f92_B         1015 ----LKLLGKGNIIIS-----TPEKWDILSRRWKQRKNVQNINLFVVDEVHLIGG-----ENGPVLEVICSRMRYISSQI 1080 (1724)
T ss_dssp             ----HHHHHHCSEEEE-----CHHHHHHHHTTTTTCHHHHSCSEEEECCGGGGGS-----TTHHHHHHHHHHHHHHHHTT
T ss_pred             ----hhhcCCCCEEEE-----CHHHHHHHHhCcccccccceeeEEEeechhhcCC-----CCCccHHHHHHHHHHHHhhc
Confidence                122344567764     556655544432211  11589999999998864     2344566777788877764 


Q ss_pred             -hCCcEEEEecC
Q psy2892         364 -INCPILALSQL  374 (452)
Q Consensus       364 -~~i~vi~l~ql  374 (452)
                       .++.+|++|-.
T Consensus      1081 ~~~~riI~lSAT 1092 (1724)
T 4f92_B         1081 ERPIRIVALSSS 1092 (1724)
T ss_dssp             SSCCEEEEEESC
T ss_pred             CCCceEEEEeCC
Confidence             36778887743

>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=95.83  E-value=0.0097  Score=55.78  Aligned_cols=38  Identities=18%  Similarity=0.206  Sum_probs=33.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      ++.|.|..|+||||++.++|..++. .|++|+.+.++..
T Consensus         4 vIavs~KGGvGKTT~a~nLA~~La~-~G~rVlliD~D~q   41 (289)
T 2afh_E            4 QCAIYGKGGIGKSTTTQNLVAALAE-MGKKVMIVGCDPK   41 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHH-TTCCEEEEEECSS
T ss_pred             EEEEeCCCcCcHHHHHHHHHHHHHH-CCCeEEEEecCCC
Confidence            4555899999999999999999985 6999999999854

>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=95.83  E-value=0.01  Score=59.43  Aligned_cols=64  Identities=16%  Similarity=0.123  Sum_probs=50.0

Q ss_pred             ccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHH
Q psy2892         194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQL  258 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i  258 (452)
                      ...+.||++.+|-+. .+.+|+=..|.|++|+|||+++.+++.+.+..++.-++|.-..+..+++
T Consensus       146 ~e~l~TGirvID~l~-pigkGqr~gIfgg~GvGKT~L~~~l~~~~a~~~~~v~V~~~iGER~rEv  209 (498)
T 1fx0_B          146 LSIFETGIKVVNLLA-PYRRGGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFGGVGERTREG  209 (498)
T ss_dssp             CCCCCCSCTTHHHHS-CCCTTCCEEEEECSSSSHHHHHHHHHHHTTTTCSSCEEEEEESCCSHHH
T ss_pred             ccccccceeEeeeec-ccccCCeEEeecCCCCCchHHHHHHHHHHHhhCCCEEEEEEcccCcHHH
Confidence            346899999999864 5889999999999999999999999999865444556666554444443

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=95.81  E-value=0.0063  Score=53.70  Aligned_cols=28  Identities=21%  Similarity=0.407  Sum_probs=23.6

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ..+|.+++|.|+||+||||++..++...
T Consensus        26 ~~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           26 GEPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             --CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            3578999999999999999999887654

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.81  E-value=0.035  Score=56.89  Aligned_cols=33  Identities=15%  Similarity=0.228  Sum_probs=27.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|+.+. -+.+|+++.|.|++|+|||||+.-++-
T Consensus        37 ~l~~vs-~i~~Ge~~~LvG~NGaGKSTLlk~l~G   69 (538)
T 1yqt_A           37 VLYRLP-VVKEGMVVGIVGPNGTGKSTAVKILAG   69 (538)
T ss_dssp             EEECCC-CCCTTSEEEEECCTTSSHHHHHHHHHT
T ss_pred             cccCcC-cCCCCCEEEEECCCCCCHHHHHHHHhC
Confidence            455555 689999999999999999999887764

>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=95.81  E-value=0.0053  Score=55.27  Aligned_cols=29  Identities=21%  Similarity=0.334  Sum_probs=22.8

Q ss_pred             CCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         209 SGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       209 gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .-+++|++++|.||+|+|||||+.-++..
T Consensus        11 ~~~~~G~ii~l~GpsGsGKSTLlk~L~g~   39 (219)
T 1s96_A           11 HHMAQGTLYIVSAPSGAGKSSLIQALLKT   39 (219)
T ss_dssp             ----CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             ccCCCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            35889999999999999999998877654

>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=95.78  E-value=0.0056  Score=55.77  Aligned_cols=36  Identities=19%  Similarity=0.205  Sum_probs=32.2

Q ss_pred             EEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         218 IVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       218 ~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      .|+|.+|+||||++.++|..++. .|.+|+.+.++..
T Consensus         4 ~vs~kGGvGKTt~a~~LA~~la~-~g~~VlliD~D~~   39 (254)
T 3kjh_A            4 AVAGKGGVGKTTVAAGLIKIMAS-DYDKIYAVDGDPD   39 (254)
T ss_dssp             EEECSSSHHHHHHHHHHHHHHTT-TCSCEEEEEECTT
T ss_pred             EEecCCCCCHHHHHHHHHHHHHH-CCCeEEEEeCCCC
Confidence            34899999999999999999985 6899999999874

>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=95.76  E-value=0.025  Score=56.81  Aligned_cols=64  Identities=17%  Similarity=0.228  Sum_probs=49.9

Q ss_pred             cccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHH
Q psy2892         195 TGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAM  260 (452)
Q Consensus       195 ~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~  260 (452)
                      ..+.||++.+|-+. .+-+|+=..|.|++|+|||+++++...+.+ ..+..|+|.-.....+++.+
T Consensus       157 epl~TGiraID~l~-PigrGQR~~I~g~~g~GKT~Lal~~I~~~~-~~dv~~V~~~IGeR~~Ev~e  220 (515)
T 2r9v_A          157 TPLQTGIKAIDSMI-PIGRGQRELIIGDRQTGKTAIAIDTIINQK-GQGVYCIYVAIGQKKSAIAR  220 (515)
T ss_dssp             SEECCSCHHHHHHS-CEETTCBEEEEEETTSSHHHHHHHHHHTTT-TTTEEEEEEEESCCHHHHHH
T ss_pred             cchhcCcccccccc-ccccCCEEEEEcCCCCCccHHHHHHHHHhh-cCCcEEEEEEcCCCcHHHHH
Confidence            46889999999864 578899999999999999999887776664 34445678777767666543

>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=95.75  E-value=0.0058  Score=54.29  Aligned_cols=28  Identities=18%  Similarity=0.408  Sum_probs=22.9

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      -+.+|+++.|.|++|+||||++.-++--
T Consensus        16 ~i~~Gei~~l~GpnGsGKSTLl~~l~gl   43 (207)
T 1znw_A           16 PAAVGRVVVLSGPSAVGKSTVVRCLRER   43 (207)
T ss_dssp             ---CCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4889999999999999999999887754

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=95.74  E-value=0.028  Score=58.27  Aligned_cols=50  Identities=14%  Similarity=0.067  Sum_probs=34.3

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHH---HHhCCCcEEEEeCCCC-HHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHI---AIENKLPVAIFSMEMS-GIQLAMRM  262 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~---a~~~g~~vl~~s~E~~-~~~i~~R~  262 (452)
                      .+.+++|.|++|+|||+++.+++...   ...-...|+|++.... ...+...+
T Consensus       146 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~~~~~~~~l  199 (591)
T 1z6t_A          146 EPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKL  199 (591)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCCHHHHHHHH
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCchHHHHHHH
Confidence            35699999999999999999998653   2222235888876543 34444444

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=95.74  E-value=0.013  Score=56.60  Aligned_cols=40  Identities=23%  Similarity=0.333  Sum_probs=36.0

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHH-hCCCcEEEEeCCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAI-ENKLPVAIFSMEM  253 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~-~~g~~vl~~s~E~  253 (452)
                      ..++++.|.+|+||||++.++|..+|. ..|.+|+.++++-
T Consensus        18 ~~i~~~~gkGGvGKTt~a~~lA~~la~~~~g~~vllid~D~   58 (348)
T 3io3_A           18 LKWIFVGGKGGVGKTTTSSSVAVQLALAQPNEQFLLISTDP   58 (348)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHHCTTSCEEEEECCS
T ss_pred             cEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEECCC
Confidence            369999999999999999999999983 4799999999993

>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=95.73  E-value=0.049  Score=59.31  Aligned_cols=29  Identities=17%  Similarity=0.226  Sum_probs=25.1

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+.+|++++|.||.|+||||++.+++...
T Consensus       658 ~~~~g~i~~ItGpNGsGKSTlLr~ial~~  686 (934)
T 3thx_A          658 EKDKQMFHIITGPNMGGKSTYIRQTGVIV  686 (934)
T ss_dssp             ETTTBCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ecCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999999986544

>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=95.73  E-value=0.01  Score=57.62  Aligned_cols=41  Identities=24%  Similarity=0.413  Sum_probs=33.4

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      -.++|+|.||+|||||+.+++...+ ..|.+|+.++.+....
T Consensus        80 ~~I~i~G~~G~GKSTl~~~L~~~l~-~~g~kV~vi~~Dp~~~  120 (355)
T 3p32_A           80 HRVGITGVPGVGKSTAIEALGMHLI-ERGHRVAVLAVDPSST  120 (355)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHH-TTTCCEEEEEEC----
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH-hCCCceEEEecCCCCC
Confidence            3789999999999999999999886 4789999999885544

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=95.71  E-value=0.0077  Score=53.31  Aligned_cols=37  Identities=19%  Similarity=0.310  Sum_probs=26.9

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHH----hCC-CcEEEEeCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAI----ENK-LPVAIFSME  252 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~----~~g-~~vl~~s~E  252 (452)
                      ++++.|+||+|||++|..++...+.    +.| .+|.|..++
T Consensus         7 i~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~   48 (199)
T 2r2a_A            7 ICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIK   48 (199)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCC
Confidence            7899999999999999888766542    356 444444433

>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=95.70  E-value=0.011  Score=57.40  Aligned_cols=37  Identities=16%  Similarity=0.198  Sum_probs=28.7

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEE
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVA  247 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl  247 (452)
                      ..+|.+++|.|++|+||||++..++.......+..++
T Consensus       120 ~~~~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~  156 (356)
T 3jvv_A          120 DVPRGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHIL  156 (356)
T ss_dssp             HCSSEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEE
T ss_pred             hCCCCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEE
Confidence            3678899999999999999999887766443344453

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=95.70  E-value=0.0094  Score=49.55  Aligned_cols=32  Identities=6%  Similarity=-0.015  Sum_probs=23.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      -++|.|+||+|||++|..++...    + +++++++.
T Consensus        29 ~vll~G~~GtGKt~lA~~i~~~~----~-~~~~~~~~   60 (143)
T 3co5_A           29 PVFLTGEAGSPFETVARYFHKNG----T-PWVSPARV   60 (143)
T ss_dssp             CEEEEEETTCCHHHHHGGGCCTT----S-CEECCSST
T ss_pred             cEEEECCCCccHHHHHHHHHHhC----C-CeEEechh
Confidence            38899999999999988766432    2 56555543

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}

Probab=95.70  E-value=0.097  Score=53.31  Aligned_cols=114  Identities=19%  Similarity=0.050  Sum_probs=65.3

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhC----CCcEEEEeCC-CCHHHHHHHHHHHh--CCCCccccccCCCCcchHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIEN----KLPVAIFSME-MSGIQLAMRMLGSV--GKLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~----g~~vl~~s~E-~~~~~i~~R~~a~~--~~i~~~~i~~g~l~~~~~~~~  287 (452)
                      .-+++++++|+|||..++-.+.......    +.+|+|++-- .-..++...+....  .++....+..+.-....+..+
T Consensus        20 ~~~l~~~~tGsGKT~~~~~~~~~~~~~~~~~~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~   99 (555)
T 3tbk_A           20 KNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFANQIPVYEQQATVFSRYFERLGYNIASISGATSDSVSVQHI   99 (555)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHHHTCCSSCCCCEEEECSSHHHHHHHHHHHHHHHHTTTCCEEEECTTTGGGSCHHHH
T ss_pred             CCEEEEeCCCChHHHHHHHHHHHHHHhcccCCCCEEEEEeCCHHHHHHHHHHHHHHhccCCcEEEEEcCCCcchhhHHHH
Confidence            3489999999999988777777765432    6789998754 23344555544332  255544333332222233332


Q ss_pred             HHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHH-HcCCccEEEEcCcchhcc
Q psy2892         288 NDSIKKINKSQLYIDETPSLNVIELRANSRRLSR-QCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       288 ~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~-~~~~~~~vvID~l~~i~~  339 (452)
                      .      .+..+.|.     |++.+...+..-.. ...++++||||-.+.+..
T Consensus       100 ~------~~~~i~v~-----T~~~l~~~~~~~~~~~~~~~~~vViDEah~~~~  141 (555)
T 3tbk_A          100 I------EDNDIIIL-----TPQILVNNLNNGAIPSLSVFTLMIFDECHNTSK  141 (555)
T ss_dssp             H------HHCSEEEE-----CHHHHHHHHHTSSSCCGGGCSEEEETTGGGCST
T ss_pred             h------cCCCEEEE-----CHHHHHHHHhcCcccccccCCEEEEECccccCC
Confidence            2      23456664     45555554432100 111479999999998864

>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=95.69  E-value=0.031  Score=52.81  Aligned_cols=23  Identities=26%  Similarity=0.540  Sum_probs=21.1

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      ++|.|+||+|||+++..++..+.
T Consensus        45 ~ll~G~~G~GKt~la~~l~~~l~   67 (323)
T 1sxj_B           45 MIISGMPGIGKTTSVHCLAHELL   67 (323)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhc
Confidence            89999999999999999998763

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=95.67  E-value=0.0069  Score=51.49  Aligned_cols=29  Identities=17%  Similarity=0.260  Sum_probs=26.1

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      -+++|+++.|.|+.|+|||||+.-++-..
T Consensus        29 ~i~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           29 HTEKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CCSSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            47899999999999999999999887755

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=95.67  E-value=0.017  Score=57.06  Aligned_cols=37  Identities=16%  Similarity=0.293  Sum_probs=30.6

Q ss_pred             cCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         199 TGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       199 tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .+|..|+.+.--+.+| +++|.|++|+|||+++--+..
T Consensus        46 ~nf~~l~~v~l~~~~G-~~~lvG~NGaGKStLl~aI~~   82 (415)
T 4aby_A           46 RNLATITQLELELGGG-FCAFTGETGAGKSIIVDALGL   82 (415)
T ss_dssp             EEETTEEEEEEECCSS-EEEEEESHHHHHHHHTHHHHH
T ss_pred             ccccceeeEEEecCCC-cEEEECCCCCCHHHHHHHHHH
Confidence            4677788775568999 999999999999999876644

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.67  E-value=0.017  Score=51.16  Aligned_cols=39  Identities=23%  Similarity=0.266  Sum_probs=31.2

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      ..+|.+++|.|.||+||||++..++...-. .+..+..+.
T Consensus         7 ~~~~~~I~l~G~~GsGKST~~~~L~~~l~~-~~~~~~~~~   45 (212)
T 2wwf_A            7 KKKGKFIVFEGLDRSGKSTQSKLLVEYLKN-NNVEVKHLY   45 (212)
T ss_dssp             CBCSCEEEEEESTTSSHHHHHHHHHHHHHH-TTCCEEEEE
T ss_pred             hhcCCEEEEEcCCCCCHHHHHHHHHHHHHH-cCCcEEEEe
Confidence            456789999999999999999999987643 467775444

>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural genomics, structural GEN consortium, SGC, ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}

Probab=95.63  E-value=0.072  Score=48.59  Aligned_cols=115  Identities=13%  Similarity=0.055  Sum_probs=60.2

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhC--CCcEEEEeCCC-CHHHHHHHHHHHh--CCCCccccccCCCCcchHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIEN--KLPVAIFSMEM-SGIQLAMRMLGSV--GKLDQHKLRTGRLSSDDWPRIN  288 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~--g~~vl~~s~E~-~~~~i~~R~~a~~--~~i~~~~i~~g~l~~~~~~~~~  288 (452)
                      |.-+++.|++|+|||...+-.+.......  +.+++|+.--- -..++..++....  .++....+. |.....+.    
T Consensus        80 ~~~~lv~a~TGsGKT~~~~~~il~~l~~~~~~~~~lil~Ptr~L~~q~~~~~~~~~~~~~~~~~~~~-g~~~~~~~----  154 (249)
T 3ber_A           80 GRDIIGLAETGSGKTGAFALPILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIV-GGIDSMSQ----  154 (249)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHHHHHHSCCSSCEEEECSSHHHHHHHHHHHHHHHGGGTCCEEEEC-TTSCHHHH----
T ss_pred             CCCEEEEcCCCCCchhHhHHHHHHHHhcCCCCceEEEEeCCHHHHHHHHHHHHHHhccCCeeEEEEE-CCCChHHH----
Confidence            34588999999999976555555443332  34688886421 2234444443322  244333222 22222111    


Q ss_pred             HHHHHH-hCCCeEEEcCCCCCHHHHHHHHHHHHH-HcCCccEEEEcCcchhccC
Q psy2892         289 DSIKKI-NKSQLYIDETPSLNVIELRANSRRLSR-QCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       289 ~a~~~l-~~~~l~i~~~~~~t~~~i~~~i~~~~~-~~~~~~~vvID~l~~i~~~  340 (452)
                        ...+ .+..+.+.     |++.+...+..... ...++++||||-.+.+...
T Consensus       155 --~~~~~~~~~I~v~-----Tp~~l~~~l~~~~~~~l~~~~~lViDEah~l~~~  201 (249)
T 3ber_A          155 --SLALAKKPHIIIA-----TPGRLIDHLENTKGFNLRALKYLVMDEADRILNM  201 (249)
T ss_dssp             --HHHHHTCCSEEEE-----CHHHHHHHHHHSTTCCCTTCCEEEECSHHHHHHT
T ss_pred             --HHHhcCCCCEEEE-----CHHHHHHHHHcCCCcCccccCEEEEcChhhhhcc
Confidence              1112 23455554     45566555443211 1124889999999977653

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=95.62  E-value=0.015  Score=56.45  Aligned_cols=63  Identities=16%  Similarity=0.136  Sum_probs=50.6

Q ss_pred             ccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC-CCcEEEEeCCCCHHHHH
Q psy2892         196 GISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN-KLPVAIFSMEMSGIQLA  259 (452)
Q Consensus       196 ~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~-g~~vl~~s~E~~~~~i~  259 (452)
                      .+.||+..+|-+. .+.+|+=..|.|++|+|||+++.+++.+++.+. +..|+|+-.....+++.
T Consensus       158 ~~~tGiraID~l~-PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~~V~~lIGER~~EV~  221 (427)
T 3l0o_A          158 PKIYSTRLIDLFA-PIGKGQRGMIVAPPKAGKTTILKEIANGIAENHPDTIRIILLIDERPEEVT  221 (427)
T ss_dssp             TTCHHHHHHHHHS-CCBTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSEEEEEECSCCHHHHS
T ss_pred             chhccchhhhhcc-cccCCceEEEecCCCCChhHHHHHHHHHHhhcCCCeEEEEEEeccCcchHH
Confidence            5678999999864 588899999999999999999999999887543 44577877777766554

>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=95.62  E-value=0.0092  Score=58.32  Aligned_cols=36  Identities=14%  Similarity=0.092  Sum_probs=31.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      +.+.+|..|+||||++.++|..+|. .|.+|++++++
T Consensus       146 Iav~s~KGGvGKTT~a~nLA~~La~-~g~rVlliD~D  181 (373)
T 3fkq_A          146 VIFTSPCGGVGTSTVAAACAIAHAN-MGKKVFYLNIE  181 (373)
T ss_dssp             EEEECSSTTSSHHHHHHHHHHHHHH-HTCCEEEEECC
T ss_pred             EEEECCCCCChHHHHHHHHHHHHHh-CCCCEEEEECC
Confidence            4555579999999999999999986 58999999999

>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=95.61  E-value=0.0069  Score=52.01  Aligned_cols=27  Identities=15%  Similarity=0.390  Sum_probs=23.4

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+|.+++|.|+||+||||++..++...
T Consensus         6 ~~g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            6 HDHHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            568899999999999999999887643

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=95.60  E-value=0.017  Score=51.15  Aligned_cols=38  Identities=21%  Similarity=0.337  Sum_probs=31.0

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      .+|-+++|.|+||+||||++..++...-. .+..|..+.
T Consensus         7 ~~~~~I~l~G~~GsGKsT~~~~L~~~l~~-~~~~v~~~~   44 (215)
T 1nn5_A            7 RRGALIVLEGVDRAGKSTQSRKLVEALCA-AGHRAELLR   44 (215)
T ss_dssp             CCCCEEEEEESTTSSHHHHHHHHHHHHHH-TTCCEEEEE
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHH-cCCcEEEee
Confidence            46779999999999999999999988743 577775543

>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=95.60  E-value=0.0084  Score=51.55  Aligned_cols=34  Identities=24%  Similarity=0.370  Sum_probs=26.0

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      |.+++|.|+||+||||++..++...    +.+.+.++.
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l----~~~~~~~~~   36 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVL----PEPWLAFGV   36 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS----SSCEEEEEH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc----CCCeEEecc
Confidence            5689999999999999999887653    344444443

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.59  E-value=0.012  Score=56.60  Aligned_cols=43  Identities=16%  Similarity=0.246  Sum_probs=35.6

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      -+.+|.++.|.|+||+|||||+..++.... ..+.+|.+++.+.
T Consensus        51 ~~~~g~~v~i~G~~GaGKSTLl~~l~g~~~-~~~g~v~i~~~d~   93 (337)
T 2qm8_A           51 QTGRAIRVGITGVPGVGKSTTIDALGSLLT-AAGHKVAVLAVDP   93 (337)
T ss_dssp             GCCCSEEEEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEEEECG
T ss_pred             ccCCCeEEEEECCCCCCHHHHHHHHHHhhh-hCCCEEEEEEEcC
Confidence            367899999999999999999998887664 3567898887664

>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*

Probab=95.59  E-value=0.14  Score=52.31  Aligned_cols=113  Identities=13%  Similarity=0.044  Sum_probs=63.4

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhC----CCcEEEEeCC-CCHHHHHHHHHHHhC--CCCccccccCCCCcchHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIEN----KLPVAIFSME-MSGIQLAMRMLGSVG--KLDQHKLRTGRLSSDDWPRIN  288 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~----g~~vl~~s~E-~~~~~i~~R~~a~~~--~i~~~~i~~g~l~~~~~~~~~  288 (452)
                      -+++++++|+|||..++-.+.+.....    +.+++|++-- .-..++..++.....  ++....+..+.-....+..+.
T Consensus        24 ~~l~~~~tGsGKT~~~~~~~~~~~~~~~~~~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~  103 (556)
T 4a2p_A           24 NALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVI  103 (556)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHHHTCCSSCCCCEEEECSSHHHHHHHHHHHHHHHGGGTCCEEECCCC-----CHHHHH
T ss_pred             CEEEEcCCCChHHHHHHHHHHHHHHhCcccCCCeEEEEeCCHHHHHHHHHHHHHHhcccCceEEEEeCCCCcchhHHHhh
Confidence            489999999999988777777665432    6789998654 233455555544332  555443332222222333221


Q ss_pred             HHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHH-HcCCccEEEEcCcchhcc
Q psy2892         289 DSIKKINKSQLYIDETPSLNVIELRANSRRLSR-QCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       289 ~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~-~~~~~~~vvID~l~~i~~  339 (452)
                            .+..+.|.     |++.+...+..-.. ...++++||||-.+.+..
T Consensus       104 ------~~~~i~v~-----T~~~l~~~~~~~~~~~~~~~~~vViDEah~~~~  144 (556)
T 4a2p_A          104 ------EDSDIIVV-----TPQILVNSFEDGTLTSLSIFTLMIFDECHNTTG  144 (556)
T ss_dssp             ------HHCSEEEE-----CHHHHHHHHHSSSCCCSTTCSEEEEETGGGCST
T ss_pred             ------CCCCEEEE-----CHHHHHHHHHhCcccccccCCEEEEECCcccCC
Confidence                  23456664     45555554432100 112478999999998864

>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=95.58  E-value=0.0055  Score=58.00  Aligned_cols=37  Identities=16%  Similarity=0.284  Sum_probs=31.3

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +.|+.+.-.+++|+.+.|.|++|+|||||+.-++.-.
T Consensus       114 ~vL~~vsl~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          114 NALKLWLKGIPKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             HHHHHHHHTCTTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             hhhccceEEecCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            3566665579999999999999999999998887655

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=95.58  E-value=0.012  Score=52.31  Aligned_cols=37  Identities=11%  Similarity=0.255  Sum_probs=32.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      +.+..+..|+|||+++.++|..++. .| +|+.+.++..
T Consensus         3 I~v~s~KGGvGKTT~a~~LA~~la~-~g-~VlliD~D~q   39 (209)
T 3cwq_A            3 ITVASFKGGVGKTTTAVHLSAYLAL-QG-ETLLIDGDPN   39 (209)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHT-TS-CEEEEEECTT
T ss_pred             EEEEcCCCCCcHHHHHHHHHHHHHh-cC-CEEEEECCCC
Confidence            4567899999999999999999985 68 9999998865

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=95.55  E-value=0.0083  Score=55.48  Aligned_cols=38  Identities=13%  Similarity=0.291  Sum_probs=33.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG  255 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~  255 (452)
                      +.+..+..|+||||++.++|..++  .|.+|+.+.++...
T Consensus        30 I~v~s~kGGvGKTT~a~~LA~~la--~g~~VlliD~D~~~   67 (267)
T 3k9g_A           30 ITIASIKGGVGKSTSAIILATLLS--KNNKVLLIDMDTQA   67 (267)
T ss_dssp             EEECCSSSSSCHHHHHHHHHHHHT--TTSCEEEEEECTTC
T ss_pred             EEEEeCCCCchHHHHHHHHHHHHH--CCCCEEEEECCCCC
Confidence            455578999999999999999998  58999999998654

>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural genomics, structural genomics consortium, SGC, hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*

Probab=95.54  E-value=0.059  Score=48.42  Aligned_cols=115  Identities=15%  Similarity=0.111  Sum_probs=60.6

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHH--hCCCcEEEEeCC-CCHHHHHHHHHHHhC---CCCccccccCCCCcchHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAI--ENKLPVAIFSME-MSGIQLAMRMLGSVG---KLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~--~~g~~vl~~s~E-~~~~~i~~R~~a~~~---~i~~~~i~~g~l~~~~~~~~  287 (452)
                      |.-+++.+++|+|||...+-.+.....  ..+.+++|+.-- .-..++..++.....   ++.... ..|.....++   
T Consensus        61 ~~~~l~~a~TGsGKT~~~~l~~l~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~-~~g~~~~~~~---  136 (230)
T 2oxc_A           61 GLDLIVQAKSGTGKTCVFSTIALDSLVLENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHV-FIGGTPLSQD---  136 (230)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHHHHHCCTTSCSCCEEEECSSHHHHHHHHHHHHHHTTTSTTCCEEE-ECTTSCHHHH---
T ss_pred             CCCEEEECCCCCcHHHHHHHHHHHHHHhcCCCceEEEEeCCHHHHHHHHHHHHHHhcccCCceEEE-EeCCCCHHHH---
Confidence            345889999999999654433333321  235688888643 233455555544322   222221 2233332222   


Q ss_pred             HHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         288 NDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       288 ~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                         ...+.+..+.+.     |++.+...+..-.....++++||||-.+.+...
T Consensus       137 ---~~~~~~~~Iiv~-----Tp~~l~~~~~~~~~~~~~~~~lViDEah~~~~~  181 (230)
T 2oxc_A          137 ---KTRLKKCHIAVG-----SPGRIKQLIELDYLNPGSIRLFILDEADKLLEE  181 (230)
T ss_dssp             ---HHHTTSCSEEEE-----CHHHHHHHHHTTSSCGGGCCEEEESSHHHHHST
T ss_pred             ---HHhccCCCEEEE-----CHHHHHHHHhcCCcccccCCEEEeCCchHhhcC
Confidence               122344566664     455665544321111114789999999988653

>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein, ATPase, RNA binding protein; 3.00A {Methanocaldococcus jannaschii} SCOP: c.37.1.19 c.37.1.19

Probab=95.54  E-value=0.083  Score=50.56  Aligned_cols=113  Identities=19%  Similarity=0.146  Sum_probs=62.8

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHh-CCCcEEEEeCCC-CHHHHHHHHHHHhC--CCCccccccCCCCcchHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIE-NKLPVAIFSMEM-SGIQLAMRMLGSVG--KLDQHKLRTGRLSSDDWPRINDS  290 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~-~g~~vl~~s~E~-~~~~i~~R~~a~~~--~i~~~~i~~g~l~~~~~~~~~~a  290 (452)
                      .-+++.|++|+|||..++..+...... .+.+++++..-. -..++..++.....  ++....+..+ ....      ..
T Consensus        45 ~~~l~~~~TGsGKT~~~~~~~~~~~~~~~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~v~~~~~~-~~~~------~~  117 (367)
T 1hv8_A           45 YNIVAQARTGSGKTASFAIPLIELVNENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGG-KAIY------PQ  117 (367)
T ss_dssp             SEEEEECCSSSSHHHHHHHHHHHHSCSSSSCCEEEECSCHHHHHHHHHHHHHHHCSSCCCEEEECTT-SCHH------HH
T ss_pred             CCEEEECCCCChHHHHHHHHHHHHhcccCCCcEEEEcCCHHHHHHHHHHHHHHhCCCCceEEEEECC-cchH------HH
Confidence            468999999999998877777665432 367899887432 22445555543322  2222222222 1111      11


Q ss_pred             HHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         291 IKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       291 ~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      ...+.+.++.+.     |++.+...+..-.....++++||||-.+.+..
T Consensus       118 ~~~~~~~~iiv~-----T~~~l~~~~~~~~~~~~~~~~iIiDEah~~~~  161 (367)
T 1hv8_A          118 IKALKNANIVVG-----TPGRILDHINRGTLNLKNVKYFILDEADEMLN  161 (367)
T ss_dssp             HHHHHTCSEEEE-----CHHHHHHHHHTTCSCTTSCCEEEEETHHHHHT
T ss_pred             HhhcCCCCEEEe-----cHHHHHHHHHcCCcccccCCEEEEeCchHhhh
Confidence            222345566664     45555544332111112579999999998764

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=95.54  E-value=0.079  Score=57.57  Aligned_cols=29  Identities=14%  Similarity=0.255  Sum_probs=25.5

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+.+|++++|.||.|+||||++.+++...
T Consensus       669 ~~~~g~i~~ItGPNGaGKSTlLr~i~~i~  697 (918)
T 3thx_B          669 SEDSERVMIITGPNMGGKSSYIKQVALIT  697 (918)
T ss_dssp             CTTSCCEEEEESCCCHHHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCCCCchHHHHHHHHHHH
Confidence            46789999999999999999999987543

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.53  E-value=0.0073  Score=55.20  Aligned_cols=51  Identities=22%  Similarity=0.203  Sum_probs=30.1

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh----CCCcEEEEeCC
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE----NKLPVAIFSME  252 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~----~g~~vl~~s~E  252 (452)
                      ..|+.+.--+.+|.++.|.|++|+||||++.-++...-.-    ....+.|++.+
T Consensus        13 ~~l~~isl~i~~g~iigI~G~~GsGKSTl~k~L~~~lG~~~~~~~~~~i~~v~~d   67 (245)
T 2jeo_A           13 LGTENLYFQSMRPFLIGVSGGTASGKSTVCEKIMELLGQNEVEQRQRKVVILSQD   67 (245)
T ss_dssp             ----------CCSEEEEEECSTTSSHHHHHHHHHHHHTGGGSCGGGCSEEEEEGG
T ss_pred             eeecceeccCCCCEEEEEECCCCCCHHHHHHHHHHHhchhcccccCCceEEEeCC
Confidence            3456654468899999999999999999998877643100    02346676654

>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3 (6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...; bifunctional enzyme, EDTA complex; HET: F6P EDT ADP; 2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B* 3qpu_A* 3qpv_A* 3qpw_A*

Probab=95.51  E-value=0.21  Score=50.88  Aligned_cols=109  Identities=12%  Similarity=0.199  Sum_probs=60.5

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchH---HH---
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDW---PR---  286 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~---~~---  286 (452)
                      ...+++++|.||+||||++..++...-. .+..+..|+.+    ++..++..   +.....+... ..++..   ++   
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L~~-~~~d~~v~s~D----~~r~~~~~---~~~~~~~f~~-~~~~~~~~re~~~~  104 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYLNW-IGVPTKVFNVG----EYRREAVK---QYSSYNFFRP-DNEEAMKVRKQCAL  104 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHH-TTCCEEEEEHH----HHHHHHHS---CCCCGGGGCT-TCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhh-cCCCeEEeccc----HHHHHhcc---CCccccccCc-ccHHHHHHHHHHHH
Confidence            3468999999999999999999987754 46778777754    34433321   1111111110 111111   11   


Q ss_pred             --HHHHHHHH--hCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEc
Q psy2892         287 --INDSIKKI--NKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIID  332 (452)
Q Consensus       287 --~~~a~~~l--~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID  332 (452)
                        +..+...+  ......|.|....+.. .+..+..+.+++| +.+++|+
T Consensus       105 ~~l~~~~~~L~~~~g~~VIvDat~~~~~-~R~~~~~~a~~~g-~~v~~l~  152 (520)
T 2axn_A          105 AALRDVKSYLAKEGGQIAVFDATNTTRE-RRHMILHFAKEND-FKAFFIE  152 (520)
T ss_dssp             HHHHHHHHHHHHSCCCEEEEESCCCSHH-HHHHHHHHHHHHT-CEEEEEE
T ss_pred             HHHHHHHHHHHhcCCceEEecCCCCCHH-HHHHHHHHHHHcC-CeEEEEE
Confidence              22223344  3456666666555543 4444445555565 7777775

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=95.50  E-value=0.0064  Score=53.67  Aligned_cols=27  Identities=11%  Similarity=0.210  Sum_probs=21.5

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++|.+++|.||+|+||||++.-++...
T Consensus         2 ~~g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            2 AGPRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             ---CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999998887644

>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae}

Probab=95.49  E-value=0.068  Score=59.00  Aligned_cols=108  Identities=22%  Similarity=0.217  Sum_probs=61.9

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-CCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDS  290 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a  290 (452)
                      ..|.-++++|++|+|||..+.-.+... ...|.+++|++-- .-..++..++.....  +. .+..|..+..        
T Consensus        99 ~~g~~vLV~apTGSGKTlva~lai~~~-l~~g~rvL~l~PtkaLa~Q~~~~l~~~~~--~v-glltGd~~~~--------  166 (1010)
T 2xgj_A           99 DRGESVLVSAHTSAGKTVVAEYAIAQS-LKNKQRVIYTSPIKALSNQKYRELLAEFG--DV-GLMTGDITIN--------  166 (1010)
T ss_dssp             HHTCEEEEECCTTSCHHHHHHHHHHHH-HHTTCEEEEEESSHHHHHHHHHHHHHHHS--CE-EEECSSCEEC--------
T ss_pred             HcCCCEEEECCCCCChHHHHHHHHHHH-hccCCeEEEECChHHHHHHHHHHHHHHhC--CE-EEEeCCCccC--------
Confidence            346779999999999998775444444 4578899998753 223445555543322  11 1233433211        


Q ss_pred             HHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         291 IKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       291 ~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                          .+.++.|.     |.+.+...+.+-.....++++||||-.+.+...
T Consensus       167 ----~~~~IvV~-----Tpe~L~~~L~~~~~~l~~l~lVViDEaH~l~d~  207 (1010)
T 2xgj_A          167 ----PDAGCLVM-----TTEILRSMLYRGSEVMREVAWVIFDEVHYMRDK  207 (1010)
T ss_dssp             ----TTCSEEEE-----EHHHHHHHHHHTCTTGGGEEEEEEETGGGGGCT
T ss_pred             ----CCCCEEEE-----cHHHHHHHHHcCcchhhcCCEEEEechhhhccc
Confidence                02345443     455555544321111125899999999988653

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.45  E-value=0.0082  Score=52.03  Aligned_cols=27  Identities=22%  Similarity=0.478  Sum_probs=22.9

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+|.+++|.|+||+||||++..++...
T Consensus         2 ~~g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            2 DVGQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             -CEEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            357789999999999999999987653

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=95.45  E-value=0.015  Score=54.60  Aligned_cols=39  Identities=15%  Similarity=0.202  Sum_probs=32.8

Q ss_pred             EEEEE---eCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH
Q psy2892         216 LIIVA---GRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG  255 (452)
Q Consensus       216 l~~i~---g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~  255 (452)
                      .++|+   +..|+||||++.++|..++. .|.+|+.+.++...
T Consensus        36 ~i~v~~~s~KGGvGKTT~a~nLA~~la~-~G~rVlliD~D~q~   77 (298)
T 2oze_A           36 AIVILNNYFKGGVGKSKLSTMFAYLTDK-LNLKVLMIDKDLQA   77 (298)
T ss_dssp             CEEEEECCSSSSSSHHHHHHHHHHHHHH-TTCCEEEEEECTTC
T ss_pred             EEEEEeccCCCCchHHHHHHHHHHHHHh-CCCeEEEEeCCCCC
Confidence            44455   59999999999999999985 79999999998653

>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Homo sapiens}

Probab=95.44  E-value=0.04  Score=54.01  Aligned_cols=114  Identities=12%  Similarity=0.022  Sum_probs=61.0

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHh--CCCcEEEEeCCC-CHHHHHHHHHHHh--CCCCccccccCCCCcchHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIE--NKLPVAIFSMEM-SGIQLAMRMLGSV--GKLDQHKLRTGRLSSDDWPRIN  288 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~--~g~~vl~~s~E~-~~~~i~~R~~a~~--~~i~~~~i~~g~l~~~~~~~~~  288 (452)
                      |.-+++.|++|+|||..++..+......  .+.+++|+.--- -..++..++....  .++.......|    ..+..  
T Consensus        77 ~~~~lv~a~TGsGKT~~~~~~~~~~~~~~~~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~~~----~~~~~--  150 (414)
T 3eiq_A           77 GYDVIAQAQSGTGKTATFAISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGG----TNVRA--  150 (414)
T ss_dssp             TCCEEECCCSCSSSHHHHHHHHHHHCCTTSCSCCEEEECSSHHHHHHHHHHHHHHGGGSCCCEEECCCC----TTHHH--
T ss_pred             CCCEEEECCCCCcccHHHHHHHHHHHhhcCCceeEEEEeChHHHHHHHHHHHHHHhcccCceEEEEECC----cchHH--
Confidence            4448999999999998776666655432  356788886542 2344555544322  22322222222    11111  


Q ss_pred             HHHHHHh--CCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         289 DSIKKIN--KSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       289 ~a~~~l~--~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                       ....+.  ...+.+.     |++.+...+..-.....++++||||-.+.+..
T Consensus       151 -~~~~~~~~~~~iiv~-----T~~~l~~~l~~~~~~~~~~~~vViDEah~~~~  197 (414)
T 3eiq_A          151 -EVQKLQMEAPHIIVG-----TPGRVFDMLNRRYLSPKYIKMFVLDEADEMLS  197 (414)
T ss_dssp             -HHHHHTTTCCSEEEE-----CHHHHHHHHHHTSSCSTTCCEEEECSHHHHHH
T ss_pred             -HHHHHhcCCCCEEEE-----CHHHHHHHHHcCCcccccCcEEEEECHHHhhc
Confidence             112222  2355553     45556554433111112489999999998764

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=95.42  E-value=0.016  Score=61.05  Aligned_cols=53  Identities=25%  Similarity=0.224  Sum_probs=42.3

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH-HHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG-IQLAMRMLG  264 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~-~~i~~R~~a  264 (452)
                      +...++.+|.||||+|||+.+.+++.++.. .|.+||..+.-..+ +++.+|+..
T Consensus       202 l~~~~~~lI~GPPGTGKT~ti~~~I~~l~~-~~~~ILv~a~TN~AvD~i~erL~~  255 (646)
T 4b3f_X          202 LSQKELAIIHGPPGTGKTTTVVEIILQAVK-QGLKVLCCAPSNIAVDNLVERLAL  255 (646)
T ss_dssp             HHCSSEEEEECCTTSCHHHHHHHHHHHHHH-TTCCEEEEESSHHHHHHHHHHHHH
T ss_pred             hcCCCceEEECCCCCCHHHHHHHHHHHHHh-CCCeEEEEcCchHHHHHHHHHHHh
Confidence            334569999999999999999999998864 78999998876443 567777753

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=95.41  E-value=0.017  Score=51.67  Aligned_cols=34  Identities=15%  Similarity=0.136  Sum_probs=28.9

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      +.+..+.+|+|||+++.++|..++. .|++|+++.
T Consensus         4 I~v~s~kgGvGKTt~a~nLa~~la~-~G~rVll~d   37 (224)
T 1byi_A            4 YFVTGTDTEVGKTVASCALLQAAKA-AGYRTAGYK   37 (224)
T ss_dssp             EEEEESSTTSCHHHHHHHHHHHHHH-TTCCEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH-CCCCEEEEc
Confidence            4555667999999999999999985 799999984

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=95.41  E-value=0.0098  Score=52.66  Aligned_cols=38  Identities=21%  Similarity=0.306  Sum_probs=29.2

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      -+.+|.++.|.|+||+||||++..++...     ..+.+++.+
T Consensus        17 ~~~~~~~i~i~G~~GsGKSTl~~~L~~~~-----~~~~~i~~D   54 (207)
T 2qt1_A           17 RGSKTFIIGISGVTNSGKTTLAKNLQKHL-----PNCSVISQD   54 (207)
T ss_dssp             CSCCCEEEEEEESTTSSHHHHHHHHHTTS-----TTEEEEEGG
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHHhc-----CCcEEEeCC
Confidence            46788999999999999999998766421     146777665

>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic subunit]; helicase, flavivirus, DEAD-BOX, ATPase, rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP: c.37.1.14 c.37.1.14 PDB: 1ymf_A*

Probab=95.40  E-value=0.025  Score=56.51  Aligned_cols=56  Identities=20%  Similarity=0.189  Sum_probs=39.2

Q ss_pred             CCCCcEEEEEeCCCCChhHHH-HHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFS-LNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLD  270 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~-l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~  270 (452)
                      +..|.-+++.|++|+|||..+ +.++..+ ...+.+++|++   |...++..+.....++.
T Consensus         5 l~~g~~vlv~a~TGSGKT~~~l~~~l~~~-~~~~~~~lil~---Ptr~La~Q~~~~l~~~~   61 (440)
T 1yks_A            5 LKKGMTTVLDFHPGAGKTRRFLPQILAEC-ARRRLRTLVLA---PTRVVLSEMKEAFHGLD   61 (440)
T ss_dssp             TSTTCEEEECCCTTSSTTTTHHHHHHHHH-HHTTCCEEEEE---SSHHHHHHHHHHTTTSC
T ss_pred             hhCCCCEEEEcCCCCCHHHHHHHHHHHHH-HhcCCeEEEEc---chHHHHHHHHHHHhcCC
Confidence            567889999999999999865 4444444 34677899987   45566666655554444

>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=95.35  E-value=0.055  Score=53.58  Aligned_cols=24  Identities=21%  Similarity=0.376  Sum_probs=21.4

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ...+++|+|+||+||||++..++.
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999988764

>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=95.34  E-value=0.11  Score=53.36  Aligned_cols=53  Identities=13%  Similarity=0.111  Sum_probs=36.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHH---HHHHhCCCcEEEEeCCCC----HHHHHHHHHHHh
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGE---HIAIENKLPVAIFSMEMS----GIQLAMRMLGSV  266 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~---~~a~~~g~~vl~~s~E~~----~~~i~~R~~a~~  266 (452)
                      ..++.|.|.+|+|||++|.+++.   ......-..++|++....    ...+...++...
T Consensus       152 ~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il~~l  211 (549)
T 2a5y_B          152 SFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLML  211 (549)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHHH
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHHHHH
Confidence            46899999999999999998885   222222245778876653    566666666543

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=95.33  E-value=0.009  Score=51.31  Aligned_cols=32  Identities=16%  Similarity=0.261  Sum_probs=25.0

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      .+++|.|+||+||||++..++..     .....+++.
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~~-----~~~~~~i~~   34 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIAK-----NPGFYNINR   34 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH-----STTEEEECH
T ss_pred             eEEEEecCCCCCHHHHHHHHHhh-----cCCcEEecH
Confidence            37899999999999999988762     134667765

>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=95.32  E-value=0.0078  Score=54.86  Aligned_cols=36  Identities=25%  Similarity=0.353  Sum_probs=29.7

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +.|+.+.--+.+|+++.|.|++|+|||||+.-++--
T Consensus        19 ~vl~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           19 PTLNGITFSIPEGALVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             CSEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTC
T ss_pred             ceeeeeEEEECCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            346666556899999999999999999999876643

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=95.29  E-value=0.011  Score=52.19  Aligned_cols=27  Identities=11%  Similarity=0.300  Sum_probs=23.4

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ..+|.+++|.||+|+||||++..++..
T Consensus        16 ~~~g~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           16 FQGRKTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             CCSCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCCEEEEECcCCCCHHHHHHHHHhh
Confidence            347889999999999999999988754

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=95.26  E-value=0.0096  Score=50.89  Aligned_cols=25  Identities=16%  Similarity=0.308  Sum_probs=21.5

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|.+++|.|+||+||||++..++..
T Consensus         3 ~~~~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            3 EKRNIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3568999999999999999888764

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=95.26  E-value=0.011  Score=54.49  Aligned_cols=39  Identities=18%  Similarity=0.244  Sum_probs=33.0

Q ss_pred             cEEEE-EeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         215 DLIIV-AGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       215 ~l~~i-~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      .++.| .+.+|+|||+++.++|..++. .|.+|+++.++..
T Consensus         7 ~vI~v~s~kGGvGKTt~a~~LA~~la~-~g~~VlliD~D~~   46 (257)
T 1wcv_1            7 RRIALANQKGGVGKTTTAINLAAYLAR-LGKRVLLVDLDPQ   46 (257)
T ss_dssp             CEEEECCSSCCHHHHHHHHHHHHHHHH-TTCCEEEEECCTT
T ss_pred             EEEEEEeCCCCchHHHHHHHHHHHHHH-CCCCEEEEECCCC
Confidence            34444 578899999999999999985 6999999999864

>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=95.25  E-value=0.013  Score=49.74  Aligned_cols=19  Identities=32%  Similarity=0.718  Sum_probs=18.0

Q ss_pred             EEEEEeCCCCChhHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNI  234 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~i  234 (452)
                      +++|.|+||+||||++..+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            7899999999999999988

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.24  E-value=0.011  Score=55.56  Aligned_cols=36  Identities=22%  Similarity=0.338  Sum_probs=27.9

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      .+|.+++|+|+||+||||++..++...    +..+.++|.
T Consensus        31 ~~~~livl~G~sGsGKSTla~~L~~~~----~~~~~~Is~   66 (287)
T 1gvn_B           31 ESPTAFLLGGQPGSGKTSLRSAIFEET----QGNVIVIDN   66 (287)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHT----TTCCEEECT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh----CCCeEEEec
Confidence            346799999999999999999887643    224566776

>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=95.24  E-value=0.012  Score=50.09  Aligned_cols=23  Identities=22%  Similarity=0.385  Sum_probs=20.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +++|.|+||+||||++..++...
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            78999999999999999887654

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A*

Probab=95.24  E-value=0.031  Score=55.12  Aligned_cols=114  Identities=14%  Similarity=0.175  Sum_probs=66.5

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHHHHh-CCCCccccccCCCCcchHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM-SGIQLAMRMLGSV-GKLDQHKLRTGRLSSDDWPRINDSI  291 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~-~~~~i~~R~~a~~-~~i~~~~i~~g~l~~~~~~~~~~a~  291 (452)
                      |.-+++.|++|+|||.+.+-.+.... ..+.+++|+.--. -..++..++.... .++....+ .|..+..++...   .
T Consensus        36 ~~~~lv~apTGsGKT~~~l~~~~~~~-~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~v~~~-~g~~~~~~~~~~---~  110 (414)
T 3oiy_A           36 GKSFTMVAPTGVGKTTFGMMTALWLA-RKGKKSALVFPTVTLVKQTLERLQKLADEKVKIFGF-YSSMKKEEKEKF---E  110 (414)
T ss_dssp             TCCEECCSCSSSSHHHHHHHHHHHHH-TTTCCEEEEESSHHHHHHHHHHHHHHCCSSCCEEEC-CTTSCHHHHHHH---H
T ss_pred             CCCEEEEeCCCCCHHHHHHHHHHHHh-cCCCEEEEEECCHHHHHHHHHHHHHHccCCceEEEE-ECCCChhhHHHH---H
Confidence            44578999999999996666666654 4678899986542 2345555554422 23333322 344444333222   2


Q ss_pred             HHHh-C-CCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         292 KKIN-K-SQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       292 ~~l~-~-~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      ..+. + .++.+.     |++.+...+..+. .. ++++||||-.+.+..
T Consensus       111 ~~l~~~~~~Iiv~-----Tp~~l~~~l~~~~-~~-~~~~iViDEaH~~~~  153 (414)
T 3oiy_A          111 KSFEEDDYHILVF-----STQFVSKNREKLS-QK-RFDFVFVDDVDAVLK  153 (414)
T ss_dssp             HHHHHTCCSEEEE-----EHHHHHHCHHHHT-TC-CCSEEEESCHHHHHH
T ss_pred             HHhhcCCCCEEEE-----CHHHHHHHHHHhc-cc-cccEEEEeChHhhhh
Confidence            2232 2 456664     4566655555432 22 599999999987653

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.23  E-value=0.069  Score=55.37  Aligned_cols=34  Identities=26%  Similarity=0.438  Sum_probs=26.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|+.+.--+++|+.+.|.|++|+||||++.-++.
T Consensus       358 ~l~~isl~i~~Ge~~~ivG~sGsGKSTll~~l~g  391 (587)
T 3qf4_A          358 VLSGVNFSVKPGSLVAVLGETGSGKSTLMNLIPR  391 (587)
T ss_dssp             SEEEEEEEECTTCEEEEECSSSSSHHHHHHTTTT
T ss_pred             ceeceEEEEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            3444433478999999999999999999876654

>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=95.22  E-value=0.025  Score=54.42  Aligned_cols=45  Identities=24%  Similarity=0.286  Sum_probs=36.9

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      ..+|..+.|.|+||+||||++..++..... .|.+|.+++.+....
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~~~~~-~~~~v~v~~~d~~~~   97 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGMLLIR-EGLKVAVIAVDPSSP   97 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHHHHHH-TTCCEEEEEECCC--
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHHHHHh-cCCeEEEEeecCCcC
Confidence            356788999999999999999999988764 688899998887543

>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=95.20  E-value=0.014  Score=51.27  Aligned_cols=37  Identities=30%  Similarity=0.419  Sum_probs=28.9

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      .+|-+++|.|+||+||||++..++...   .|.+++.+..
T Consensus         2 ~~~~~I~l~G~~GsGKsT~~~~L~~~l---~g~~~~~~~~   38 (204)
T 2v54_A            2 SRGALIVFEGLDKSGKTTQCMNIMESI---PANTIKYLNF   38 (204)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHTS---CGGGEEEEES
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHH---CCCceEEEec
Confidence            357799999999999999999887654   2566766553

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=95.19  E-value=0.015  Score=60.46  Aligned_cols=52  Identities=19%  Similarity=0.279  Sum_probs=42.2

Q ss_pred             cccccccCC--CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         202 FELDKITSG--LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       202 ~~LD~~~gG--~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      +.||.+.++  -..+.+.++.|.+|+|||+++.++|..++. .|.+|++++++..
T Consensus       313 ~~l~~~~~~~~~~~~~~~~~~~~~g~Gktt~a~~lA~~l~~-~g~~vllvD~Dp~  366 (589)
T 1ihu_A          313 PSLSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRLAD-MGFDVHLTTSDPA  366 (589)
T ss_dssp             CCHHHHHHHHHTTSCEEEEEECSTTSSHHHHHHHHHHHHHH-TTCCEEEEESCCC
T ss_pred             chhhhhhhhhhccCCeEEEEecCCCCChhhHHHHHHHHHHH-CCCcEEEEeCCCc
Confidence            556665443  334568888999999999999999999985 7999999999965

>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=95.19  E-value=0.077  Score=57.84  Aligned_cols=129  Identities=14%  Similarity=0.133  Sum_probs=74.1

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh----CCCcEEEEeCC-------CCHHHHH--------HHHH-
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE----NKLPVAIFSME-------MSGIQLA--------MRML-  263 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~----~g~~vl~~s~E-------~~~~~i~--------~R~~-  263 (452)
                      |+.+.--+.+|+++.|.|++|+|||||+.-++......    ...++.|+.-+       ++..+..        .+.. 
T Consensus       451 L~~vsl~I~~Ge~v~LiGpNGsGKSTLLk~LagG~i~g~~~~~~~~~~~v~q~~~~~~~~ltv~e~l~~~~~~~~~~v~~  530 (986)
T 2iw3_A          451 LNKTQLRLKRARRYGICGPNGCGKSTLMRAIANGQVDGFPTQEECRTVYVEHDIDGTHSDTSVLDFVFESGVGTKEAIKD  530 (986)
T ss_dssp             EEEEEEEEETTCEEEEECSTTSSHHHHHHHHHHTCSTTCCCTTTSCEEETTCCCCCCCTTSBHHHHHHTTCSSCHHHHHH
T ss_pred             EecceEEEcCCCEEEEECCCCCCHHHHHHHHhCCCcCCCccccceeEEEEcccccccccCCcHHHHHHHhhcCHHHHHHH
Confidence            44443357899999999999999999998887311000    01234554321       2322221        1111 


Q ss_pred             -HHhCCCCcc--ccccCCCCcchHHHHHHHHHHHhCCCeEEEcCC--CCCHHHHHHHHHHHHHHcCCccEEEEcCc
Q psy2892         264 -GSVGKLDQH--KLRTGRLSSDDWPRINDSIKKINKSQLYIDETP--SLNVIELRANSRRLSRQCGKIGVIIIDYL  334 (452)
Q Consensus       264 -a~~~~i~~~--~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~--~~t~~~i~~~i~~~~~~~~~~~~vvID~l  334 (452)
                       ....|++..  .-.-+.||..+.+++.-|..-+.+.++.+.|.|  .+...........+.. .| ..+|+|-+-
T Consensus       531 ~L~~lgL~~~~~~~~~~~LSGGqkQRvaLArAL~~~P~lLLLDEPTs~LD~~~~~~l~~~L~~-~g-~tvIivSHd  604 (986)
T 2iw3_A          531 KLIEFGFTDEMIAMPISALSGGWKMKLALARAVLRNADILLLDEPTNHLDTVNVAWLVNYLNT-CG-ITSITISHD  604 (986)
T ss_dssp             HHHHTTCCHHHHHSBGGGCCHHHHHHHHHHHHHHTTCSEEEEESTTTTCCHHHHHHHHHHHHH-SC-SEEEEECSC
T ss_pred             HHHHcCCChhhhcCCcccCCHHHHHHHHHHHHHhcCCCEEEEECCccCCCHHHHHHHHHHHHh-CC-CEEEEEECC
Confidence             122455311  112246788888888777777777788888765  4555544444444433 54 677777653

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.18  E-value=0.013  Score=51.72  Aligned_cols=35  Identities=23%  Similarity=0.330  Sum_probs=27.7

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEE
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIF  249 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~  249 (452)
                      +|.+++|.|+||+||||++..++..... .| .|+..
T Consensus         3 ~~~~I~i~G~~GsGKsT~~~~L~~~l~~-~g-~~~~~   37 (213)
T 2plr_A            3 KGVLIAFEGIDGSGKSSQATLLKDWIEL-KR-DVYLT   37 (213)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHTT-TS-CEEEE
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhh-cC-CEEEe
Confidence            4678999999999999999999987642 34 56543

>2xj4_A MIPZ; replication, cell division, ATPase, WACA; 1.60A {Caulobacter vibrioides} PDB: 2xj9_A* 2xit_A

Probab=95.16  E-value=0.018  Score=53.99  Aligned_cols=37  Identities=11%  Similarity=0.345  Sum_probs=32.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      +.+..+..|+|||+++.++|..++. .|.+|+.+.++.
T Consensus         7 I~v~s~KGGvGKTT~a~nLA~~La~-~G~~VlliD~D~   43 (286)
T 2xj4_A            7 IVVGNEKGGAGKSTIAVHLVTALLY-GGAKVAVIDLDL   43 (286)
T ss_dssp             EEECCSSSCTTHHHHHHHHHHHHHH-TTCCEEEEECCT
T ss_pred             EEEEcCCCCCCHHHHHHHHHHHHHH-CCCcEEEEECCC
Confidence            4555688999999999999999985 699999999987

>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=95.16  E-value=0.009  Score=58.33  Aligned_cols=34  Identities=18%  Similarity=0.206  Sum_probs=28.8

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      |+.+.-++++|.+++|.|+||+||||++..++..
T Consensus       159 l~~~~~~i~~~~~i~l~G~~GsGKSTl~~~l~~~  192 (377)
T 1svm_A          159 LKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLEL  192 (377)
T ss_dssp             HHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHhcccccCCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4444457999999999999999999999988864

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=95.16  E-value=0.0087  Score=57.83  Aligned_cols=42  Identities=17%  Similarity=0.114  Sum_probs=35.3

Q ss_pred             ccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         196 GISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       196 ~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+.||...||.+ -.+.+|+.+.|.|++|+||||++..++...
T Consensus        54 ~~~tg~~ald~l-l~i~~Gq~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           54 PFILGVRAIDGL-LTCGIGQRIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             EECCSCHHHHHH-SCEETTCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             ecCCCCEEEEee-eeecCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            456788889998 678999999999999999999976666553

>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=95.15  E-value=0.015  Score=50.15  Aligned_cols=37  Identities=22%  Similarity=0.288  Sum_probs=28.9

Q ss_pred             Ccccc--ccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         200 GFFEL--DKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       200 g~~~L--D~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +|..+  +.+.-.+.+| +++|.|++|+|||+++-.+..-
T Consensus        11 nf~~~~~~~~~~~~~~g-~~~i~G~NGsGKStll~ai~~~   49 (182)
T 3kta_A           11 GFKSYGNKKVVIPFSKG-FTAIVGANGSGKSNIGDAILFV   49 (182)
T ss_dssp             SBGGGCSSCEEEECCSS-EEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEeecCccEEEecCCC-cEEEECCCCCCHHHHHHHHHHH
Confidence            55666  5554457788 9999999999999998877664

>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=95.11  E-value=0.035  Score=55.00  Aligned_cols=65  Identities=15%  Similarity=0.254  Sum_probs=47.4

Q ss_pred             ccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh----------CCCcEEEEeCCCCHHHHH
Q psy2892         194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE----------NKLPVAIFSMEMSGIQLA  259 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~----------~g~~vl~~s~E~~~~~i~  259 (452)
                      ...+.||++.+|-+. .+.+|+=..|.|.+|+|||+++.+++.+....          .+..++|.-.-...+++.
T Consensus       128 ~e~l~TGiraID~l~-pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~  202 (464)
T 3gqb_B          128 EQFIQTGISTIDVMN-TLVRGQKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQRELS  202 (464)
T ss_dssp             CCBCBCSCHHHHTTS-CCBTTCBCCEEEETTSCHHHHHHHHHHHCBCCHHHHCCCSTTCCEEEEEEEEEECHHHHH
T ss_pred             cccccCcceeeeccc-ccccCCEEEEecCCCCCchHHHHHHHHHHHhcccccccccCCCceEEEEEEecCchHHHH
Confidence            346889999999874 57788888899999999999999887765320          111566766665655554

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=95.10  E-value=0.0098  Score=51.80  Aligned_cols=23  Identities=22%  Similarity=0.432  Sum_probs=20.8

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      |++++|.|+||+||||++..++.
T Consensus         2 g~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            2 KKLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHhc
Confidence            57899999999999999999864

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=95.10  E-value=0.013  Score=52.05  Aligned_cols=37  Identities=24%  Similarity=0.365  Sum_probs=28.0

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .+|.++.|.|++|+||||++.-++...-    ..+.|++.+
T Consensus         4 ~~~~~i~i~G~~GsGKSTl~~~l~~~~~----~~i~~v~~d   40 (211)
T 3asz_A            4 PKPFVIGIAGGTASGKTTLAQALARTLG----ERVALLPMD   40 (211)
T ss_dssp             -CCEEEEEEESTTSSHHHHHHHHHHHHG----GGEEEEEGG
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhC----CCeEEEecC
Confidence            5788999999999999999988876541    146666543

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.09  E-value=0.007  Score=54.70  Aligned_cols=27  Identities=15%  Similarity=0.294  Sum_probs=19.3

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHH-HH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIG-EH  237 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia-~~  237 (452)
                      +.+|+++.|.|++|+||||++..++ ..
T Consensus        24 v~~G~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           24 KSVGVILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             EECCCEEEEECSCC----CHHHHHHC--
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            6789999999999999999998887 43

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.07  E-value=0.014  Score=53.76  Aligned_cols=23  Identities=26%  Similarity=0.497  Sum_probs=20.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +++|+|+||+||||++..+|...
T Consensus         3 li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHhcC
Confidence            78999999999999999998754

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.07  E-value=0.017  Score=50.29  Aligned_cols=27  Identities=26%  Similarity=0.404  Sum_probs=23.3

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .++.+++|.|+||+||||++..++...
T Consensus         7 ~~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            7 KKTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TTSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            456799999999999999999988654

>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=95.05  E-value=0.016  Score=49.92  Aligned_cols=27  Identities=22%  Similarity=0.374  Sum_probs=23.1

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .++.+++|.|+||+||||++..++...
T Consensus         9 ~~~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A            9 MLLPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccCCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            456789999999999999999888654

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.03  E-value=0.017  Score=50.02  Aligned_cols=25  Identities=20%  Similarity=0.177  Sum_probs=22.0

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +..++|.|+||+||||++..++...
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            5689999999999999999988654

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=95.02  E-value=0.012  Score=58.61  Aligned_cols=54  Identities=13%  Similarity=0.121  Sum_probs=40.0

Q ss_pred             ccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         196 GISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       196 ~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .+.||...||.+ --+.+|+.+.|.|++|+||||++..++...  .....++.+..+
T Consensus       140 ~~~tg~~vld~v-l~i~~Gq~~~IvG~sGsGKSTLl~~Iag~~--~~~~G~i~~~G~  193 (438)
T 2dpy_A          140 VLDTGVRAINAL-LTVGRGQRMGLFAGSGVGKSVLLGMMARYT--RADVIVVGLIGE  193 (438)
T ss_dssp             BCCCSCHHHHHH-SCCBTTCEEEEEECTTSSHHHHHHHHHHHS--CCSEEEEEEESC
T ss_pred             ecCCCceEEeee-EEecCCCEEEEECCCCCCHHHHHHHHhccc--CCCeEEEEEece
Confidence            455678889998 679999999999999999999976666543  223334455554

>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=95.02  E-value=0.073  Score=48.23  Aligned_cols=96  Identities=16%  Similarity=0.154  Sum_probs=53.6

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHHHHhCCCC-ccccccCCCCcchHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM-SGIQLAMRMLGSVGKLD-QHKLRTGRLSSDDWPRINDSIK  292 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~-~~~~i~~R~~a~~~~i~-~~~i~~g~l~~~~~~~~~~a~~  292 (452)
                      .-.+|+|++|+|||.+++.++...    +.+++|+..-. -..++..++..  .++. ...+ .|....           
T Consensus       109 ~~~ll~~~tG~GKT~~a~~~~~~~----~~~~liv~P~~~L~~q~~~~~~~--~~~~~v~~~-~g~~~~-----------  170 (237)
T 2fz4_A          109 KRGCIVLPTGSGKTHVAMAAINEL----STPTLIVVPTLALAEQWKERLGI--FGEEYVGEF-SGRIKE-----------  170 (237)
T ss_dssp             SEEEEEESSSTTHHHHHHHHHHHS----CSCEEEEESSHHHHHHHHHHHGG--GCGGGEEEE-SSSCBC-----------
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHc----CCCEEEEeCCHHHHHHHHHHHHh--CCCCeEEEE-eCCCCC-----------
Confidence            348899999999999988776543    56788886431 22333443322  2332 2111 221110           


Q ss_pred             HHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         293 KINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       293 ~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                         ..++.+.     |.+.+......+.   .++++||||-.+.+..
T Consensus       171 ---~~~i~v~-----T~~~l~~~~~~~~---~~~~llIiDEaH~l~~  206 (237)
T 2fz4_A          171 ---LKPLTVS-----TYDSAYVNAEKLG---NRFMLLIFDEVHHLPA  206 (237)
T ss_dssp             ---CCSEEEE-----EHHHHHHTHHHHT---TTCSEEEEECSSCCCT
T ss_pred             ---cCCEEEE-----eHHHHHhhHHHhc---ccCCEEEEECCccCCC
Confidence               1244443     3444444333321   2489999999998854

>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=95.01  E-value=0.025  Score=55.14  Aligned_cols=40  Identities=18%  Similarity=0.216  Sum_probs=31.3

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      +.+|++++|.|++|+||||++..++..........|+++.
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e  172 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIE  172 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEE
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEec
Confidence            6889999999999999999999988876433134565543

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.01  E-value=0.012  Score=54.12  Aligned_cols=38  Identities=16%  Similarity=0.197  Sum_probs=29.0

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ..++.+++|.|+||+||||++..++...    +..+.+++.+
T Consensus        29 ~~~~~~i~l~G~~GsGKSTla~~L~~~l----~~~~~~~~~D   66 (253)
T 2p5t_B           29 SKQPIAILLGGQSGAGKTTIHRIKQKEF----QGNIVIIDGD   66 (253)
T ss_dssp             CSSCEEEEEESCGGGTTHHHHHHHHHHT----TTCCEEECGG
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHhc----CCCcEEEecH
Confidence            3456799999999999999999887653    3345666665

>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*

Probab=95.00  E-value=0.3  Score=51.46  Aligned_cols=115  Identities=17%  Similarity=0.058  Sum_probs=64.9

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCC----CcEEEEeCC-CCHHHHHHHHHHHhC--CCCccccccCCCCcchHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENK----LPVAIFSME-MSGIQLAMRMLGSVG--KLDQHKLRTGRLSSDDWPR  286 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g----~~vl~~s~E-~~~~~i~~R~~a~~~--~i~~~~i~~g~l~~~~~~~  286 (452)
                      |.-+++++++|+|||..++..+.+.....+    .++++++.- .-..++...+.....  ++....+..+.-....+..
T Consensus        28 g~~~iv~~~TGsGKTl~~~~~i~~~l~~~~~~~~~~~lvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~g~~~~~~~~~~  107 (696)
T 2ykg_A           28 GKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQ  107 (696)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHHHHHHHHSCTTCCCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECSSSCSSSCHHH
T ss_pred             CCCEEEEcCCCchHHHHHHHHHHHHHHhCccCCCCeEEEEECCHHHHHHHHHHHHHHhccCCceEEEEeCCccccccHHH
Confidence            345899999999999988877776654332    678888653 223445554443322  4444333322222233333


Q ss_pred             HHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHH-HcCCccEEEEcCcchhcc
Q psy2892         287 INDSIKKINKSQLYIDETPSLNVIELRANSRRLSR-QCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       287 ~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~-~~~~~~~vvID~l~~i~~  339 (452)
                      +.      .+..+.|.     |++.+...+..-.. ...++++||||-.+.+..
T Consensus       108 ~~------~~~~Iiv~-----Tp~~L~~~l~~~~~~~l~~~~~vViDEaH~~~~  150 (696)
T 2ykg_A          108 IV------ENNDIIIL-----TPQILVNNLKKGTIPSLSIFTLMIFDECHNTSK  150 (696)
T ss_dssp             HH------HTCSEEEE-----CHHHHHHHHHTTSSCCGGGCSEEEEETGGGCST
T ss_pred             hc------cCCCEEEE-----CHHHHHHHHhcCcccccccccEEEEeCCCcccC
Confidence            21      23456664     45556554432100 111479999999998763

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=94.99  E-value=0.016  Score=50.43  Aligned_cols=25  Identities=28%  Similarity=0.341  Sum_probs=21.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +.+++|.|+||+||||++..++...
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            4689999999999999999887653

>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=94.99  E-value=0.056  Score=56.03  Aligned_cols=34  Identities=24%  Similarity=0.408  Sum_probs=27.4

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      |+.+.--+++|+.+.|.|++|+||||++.-++.-
T Consensus       359 l~~v~~~i~~G~~~~ivG~sGsGKSTLl~~l~g~  392 (582)
T 3b60_A          359 LRNINLKIPAGKTVALVGRSGSGKSTIASLITRF  392 (582)
T ss_dssp             EEEEEEEECTTCEEEEEECTTSSHHHHHHHHTTT
T ss_pred             ccceeEEEcCCCEEEEECCCCCCHHHHHHHHhhc
Confidence            4444334789999999999999999998876653

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae}

Probab=94.98  E-value=0.012  Score=57.18  Aligned_cols=38  Identities=18%  Similarity=0.275  Sum_probs=33.6

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      +.+..+..|+||||++.++|..+|. .|.+|+.+.++..
T Consensus         4 Iav~s~KGGvGKTT~a~nLA~~LA~-~G~rVLlID~D~q   41 (361)
T 3pg5_A            4 ISFFNNKGGVGKTTLSTNVAHYFAL-QGKRVLYVDCDPQ   41 (361)
T ss_dssp             EEBCCSSCCHHHHHHHHHHHHHHHH-TTCCEEEEECCTT
T ss_pred             EEEEcCCCCCcHHHHHHHHHHHHHh-CCCcEEEEEcCCC
Confidence            4556689999999999999999985 7999999999865

>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=94.98  E-value=0.012  Score=54.70  Aligned_cols=34  Identities=21%  Similarity=0.442  Sum_probs=28.6

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-
T Consensus        35 vl~~vsl~i~~Ge~~~l~G~NGsGKSTLlk~l~G   68 (267)
T 2zu0_C           35 ILRGLSLDVHPGEVHAIMGPNGSGKSTLSATLAG   68 (267)
T ss_dssp             EEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEeeEEEEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            4666644589999999999999999999887665

>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=94.97  E-value=0.01  Score=54.20  Aligned_cols=35  Identities=26%  Similarity=0.308  Sum_probs=29.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+++|+++.|.|++|+|||||+.-++--
T Consensus        17 vl~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           17 ILRDISFEAQPNSIIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             SEEEEEEEECTTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             eEEEeEEEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            46666556899999999999999999998877653

>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=94.96  E-value=0.019  Score=49.87  Aligned_cols=27  Identities=30%  Similarity=0.466  Sum_probs=22.9

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ..+|..++|.|+||+||||++..++..
T Consensus         7 ~~~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            7 QPKGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CCSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            345778999999999999999888764

>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=94.93  E-value=0.0099  Score=53.84  Aligned_cols=36  Identities=31%  Similarity=0.399  Sum_probs=29.4

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +.|+.+.--+++|+++.|.|++|+|||||+.-++--
T Consensus        22 ~il~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   57 (229)
T 2pze_A           22 PVLKDINFKIERGQLLAVAGSTGAGKTSLLMMIMGE   57 (229)
T ss_dssp             CSEEEEEEEEETTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             eeeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            356666556899999999999999999998876643

>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=94.93  E-value=0.026  Score=53.44  Aligned_cols=42  Identities=14%  Similarity=0.218  Sum_probs=31.3

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHH-hCCCcEEEEeCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAI-ENKLPVAIFSME  252 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~-~~g~~vl~~s~E  252 (452)
                      ..+|.++.|.|++|+|||||+.-++..... ..+..|.+++.+
T Consensus        77 ~~~g~iigI~G~~GsGKSTl~~~L~~~l~~~~~~G~i~vi~~d  119 (308)
T 1sq5_A           77 QRIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTD  119 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGG
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHhhCCCCCeEEEEecC
Confidence            467899999999999999999887765420 123457776655

>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=94.90  E-value=0.022  Score=57.20  Aligned_cols=65  Identities=15%  Similarity=0.221  Sum_probs=51.2

Q ss_pred             cccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHH
Q psy2892         195 TGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMR  261 (452)
Q Consensus       195 ~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R  261 (452)
                      ..+.||++.+|-+. .+-+|+=..|.|++|+|||++++....+.+ ..+..|+|.-.....+++.+=
T Consensus       145 epl~TGiraID~l~-PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~-~~dv~~V~~~iGeR~~Ev~~~  209 (507)
T 1fx0_A          145 EPLQTGLIAIDAMI-PVGRGQRELIIGDRQTGKTAVATDTILNQQ-GQNVICVYVAIGQKASSVAQV  209 (507)
T ss_dssp             SBCCCSCTTTTTTS-CCBTTCBCBEEESSSSSHHHHHHHHHHTCC-TTTCEEEEEEESCCHHHHHHH
T ss_pred             Ccccccceeccccc-ccccCCEEEEecCCCCCccHHHHHHHHHhh-cCCcEEEEEEcCCCchHHHHH
Confidence            46889999999874 588899999999999999999887776664 345567888777777766543

>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold, winged-helix-turn-helix, antiparallel-coiled-COI domain, ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces cerevisiae}

Probab=94.90  E-value=0.06  Score=60.05  Aligned_cols=108  Identities=21%  Similarity=0.205  Sum_probs=64.1

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM-SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~-~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      +..|.-++++|++|+|||..+...+.... ..|.+|+|++--- -..|+..++......+  . +..|..+..       
T Consensus       196 i~~g~dvLV~ApTGSGKTlva~l~i~~~l-~~g~rvlvl~PtraLa~Q~~~~l~~~~~~V--g-lltGd~~~~-------  264 (1108)
T 3l9o_A          196 IDRGESVLVSAHTSAGKTVVAEYAIAQSL-KNKQRVIYTSPIKALSNQKYRELLAEFGDV--G-LMTGDITIN-------  264 (1108)
T ss_dssp             HTTTCCEEEECCSSSHHHHHHHHHHHHHH-HTTCEEEEEESSHHHHHHHHHHHHHHTSSE--E-EECSSCBCC-------
T ss_pred             HHcCCCEEEECCCCCChHHHHHHHHHHHH-hcCCeEEEEcCcHHHHHHHHHHHHHHhCCc--c-EEeCccccC-------
Confidence            44678899999999999988777766664 4688999987542 2345555555433321  1 233333211       


Q ss_pred             HHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         290 SIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       290 a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                           .+.++.|.     |++.+...+.+-.....++++||||-.+.+..
T Consensus       265 -----~~~~IlV~-----Tpe~L~~~L~~~~~~l~~l~lVVIDEaH~l~d  304 (1108)
T 3l9o_A          265 -----PDAGCLVM-----TTEILRSMLYRGSEVMREVAWVIFDEVHYMRD  304 (1108)
T ss_dssp             -----CSCSEEEE-----EHHHHHHHHHHCSSHHHHEEEEEEETGGGTTS
T ss_pred             -----CCCCEEEe-----ChHHHHHHHHcCccccccCCEEEEhhhhhccc
Confidence                 12345543     45556554433110011489999999997753

>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=94.90  E-value=0.011  Score=54.36  Aligned_cols=34  Identities=15%  Similarity=0.252  Sum_probs=28.6

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-
T Consensus        18 vl~~vsl~i~~Ge~~~l~G~nGsGKSTLlk~l~G   51 (250)
T 2d2e_A           18 ILKGVNLVVPKGEVHALMGPNGAGKSTLGKILAG   51 (250)
T ss_dssp             EEEEEEEEEETTCEEEEECSTTSSHHHHHHHHHT
T ss_pred             EEeceEEEEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            4666644689999999999999999999887765

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=94.90  E-value=0.011  Score=55.08  Aligned_cols=35  Identities=23%  Similarity=0.345  Sum_probs=29.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++--
T Consensus        34 vl~~vsl~i~~Ge~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           34 VLQGLTFTLYPGKVTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             CEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             eeEeeEEEECCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            46666456899999999999999999998876653

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=94.89  E-value=0.011  Score=54.58  Aligned_cols=35  Identities=17%  Similarity=0.227  Sum_probs=29.2

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+++|+++.|.|++|+|||||+.-++--
T Consensus        35 vl~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           35 TLKSINFFIPSGTTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             SEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             eeEeeEEEECCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            46666456899999999999999999998877653

>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic hypermutat protein-DNA complex, DNA mispair, cancer; HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B* 2o8e_B* 2o8f_B*

Probab=94.89  E-value=0.097  Score=57.71  Aligned_cols=46  Identities=20%  Similarity=0.286  Sum_probs=31.2

Q ss_pred             CccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCc
Q psy2892         325 KIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNR  376 (452)
Q Consensus       325 ~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r  376 (452)
                      ++.+|++|-+..      +.+.......+...|+.++++.++.+|+++|.-.
T Consensus       868 ~~sLlLLDEp~~------Gtd~~dg~~~~~~il~~L~~~~g~~vl~~TH~~e  913 (1022)
T 2o8b_B          868 AHSLVLVDELGR------GTATFDGTAIANAVVKELAETIKCRTLFSTHYHS  913 (1022)
T ss_dssp             TTCEEEEECTTT------TSCHHHHHHHHHHHHHHHHHTSCCEEEEECCCHH
T ss_pred             CCcEEEEECCCC------CCChHHHHHHHHHHHHHHHhcCCCEEEEEeCCHH
Confidence            489999999642      2333333334556677777767999999998754

>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=94.89  E-value=0.046  Score=54.17  Aligned_cols=63  Identities=14%  Similarity=0.191  Sum_probs=47.0

Q ss_pred             cccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCC----cEEEEeCCCCHHHHH
Q psy2892         195 TGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKL----PVAIFSMEMSGIQLA  259 (452)
Q Consensus       195 ~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~----~vl~~s~E~~~~~i~  259 (452)
                      ..+.||++.+|-+. .+-+|+=..|.|.+|+|||+++.+++.+... ++.    .++|.-.-...+++.
T Consensus       133 e~l~TGiraID~l~-pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~~-~~d~~~~~~V~~~iGeR~~Ev~  199 (465)
T 3vr4_D          133 EFIQTGISAIDHLN-TLVRGQKLPVFSGSGLPHKELAAQIARQATV-LDSSDDFAVVFAAIGITFEEAE  199 (465)
T ss_dssp             CBCBCSCHHHHTTS-CCBTTCBCCEEECTTSCHHHHHHHHHHHCBC-SSCSSCEEEEEEEEEECHHHHH
T ss_pred             cccccCceEEeccc-ccccCCEEEEeCCCCcChHHHHHHHHHHHHh-ccCCCceEEEEEEecCCcHHHH
Confidence            45889999999874 5778888889999999999999988776532 222    566766665655554

>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=94.86  E-value=0.0095  Score=54.65  Aligned_cols=35  Identities=29%  Similarity=0.494  Sum_probs=28.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+++|+++.|.|++|+|||||+.-++--
T Consensus        24 vl~~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           24 ILDNINLSIKQGEVIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             EEEEEEEEEETTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             eeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            46666446899999999999999999998876553

>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=94.85  E-value=0.02  Score=51.20  Aligned_cols=26  Identities=23%  Similarity=0.383  Sum_probs=22.8

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +|-+++|.|+||+||||++..++...
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            56689999999999999999988754

>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 1xtj_A* 1xtk_A

Probab=94.85  E-value=0.18  Score=48.83  Aligned_cols=114  Identities=16%  Similarity=0.121  Sum_probs=59.8

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHh--CCCcEEEEeCC-CCHHHHHHHHHHHhC---CCCccccccCCCCcchHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIE--NKLPVAIFSME-MSGIQLAMRMLGSVG---KLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~--~g~~vl~~s~E-~~~~~i~~R~~a~~~---~i~~~~i~~g~l~~~~~~~~  287 (452)
                      |.-+++.+++|+|||..++-.+......  .+.+++|+.-- .-..++..++.....   ++....+ .|..+..++.  
T Consensus        45 ~~~~lv~a~TGsGKT~~~~~~~~~~l~~~~~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~-~g~~~~~~~~--  121 (391)
T 1xti_A           45 GMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVF-FGGLSIKKDE--  121 (391)
T ss_dssp             TCCEEEECSSCSSHHHHHHHHHHHHCCCCTTCCCEEEECSCHHHHHHHHHHHHHHTTTCTTCCEEEE-CTTSCHHHHH--
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHhhcccCCCeeEEEECCCHHHHHHHHHHHHHHHhhCCCeEEEEE-eCCCCHHHHH--
Confidence            3458999999999997766666554321  24578888643 223344444433221   3333222 2333322221  


Q ss_pred             HHHHHHHh-C-CCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         288 NDSIKKIN-K-SQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       288 ~~a~~~l~-~-~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                          ..+. . ..+.+.     |++.+...+..-.....++++||||-.+.+..
T Consensus       122 ----~~~~~~~~~iiv~-----T~~~l~~~~~~~~~~~~~~~~vViDEaH~~~~  166 (391)
T 1xti_A          122 ----EVLKKNCPHIVVG-----TPGRILALARNKSLNLKHIKHFILDECDKMLE  166 (391)
T ss_dssp             ----HHHHHSCCSEEEE-----CHHHHHHHHHTTSSCCTTCSEEEECSHHHHTS
T ss_pred             ----HHHhcCCCCEEEE-----CHHHHHHHHHcCCccccccCEEEEeCHHHHhh
Confidence                1122 2 345553     45555554332111112588999999998854

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=94.81  E-value=0.039  Score=53.31  Aligned_cols=44  Identities=18%  Similarity=0.323  Sum_probs=34.0

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      +++..+.|.|+||+|||||...++.... ..+.+|.++..+.+..
T Consensus        72 ~~~~~v~lvG~pgaGKSTLln~L~~~~~-~~~~~v~V~~~dp~~~  115 (349)
T 2www_A           72 PLAFRVGLSGPPGAGKSTFIEYFGKMLT-ERGHKLSVLAVDPSSC  115 (349)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEECCC---
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHHHhh-hcCCeEEEEeecCCCC
Confidence            3456899999999999999999987664 4578899988876543

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=94.81  E-value=0.065  Score=55.71  Aligned_cols=34  Identities=26%  Similarity=0.377  Sum_probs=26.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|+.+.--+++|+.+.|.|++|+||||++.-++.
T Consensus       370 ~l~~isl~i~~G~~~~ivG~sGsGKSTll~~l~g  403 (598)
T 3qf4_B          370 VLKDITFHIKPGQKVALVGPTGSGKTTIVNLLMR  403 (598)
T ss_dssp             SCCSEEEECCTTCEEEEECCTTSSTTHHHHHHTT
T ss_pred             cccceEEEEcCCCEEEEECCCCCcHHHHHHHHhc
Confidence            3444433488999999999999999999876554

>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.40A {Anas platyrhynchos}

Probab=94.80  E-value=0.31  Score=52.47  Aligned_cols=116  Identities=15%  Similarity=0.092  Sum_probs=64.9

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhC----CCcEEEEeCCC-CHHHHHHHHHHHhC--CCCccccccCCCCcchHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIEN----KLPVAIFSMEM-SGIQLAMRMLGSVG--KLDQHKLRTGRLSSDDWP  285 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~----g~~vl~~s~E~-~~~~i~~R~~a~~~--~i~~~~i~~g~l~~~~~~  285 (452)
                      .|.-+++++++|+|||..++..+.......    +.+|++++.-- -..++..++.....  ++....+..+.-....+.
T Consensus       262 ~~~~~ll~~~TGsGKTl~~~~~i~~~l~~~~~~~~~~~Lvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~g~~~~~~~~~  341 (797)
T 4a2q_A          262 NGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVE  341 (797)
T ss_dssp             TTCCEEEECCTTSCHHHHHHHHHHHHHHTCCSSCCCCEEEECSSHHHHHHHHHHHHHHHGGGTCCEEEECCC-----CHH
T ss_pred             hCCCEEEEeCCCChHHHHHHHHHHHHHHhccccCCCeEEEEeCCHHHHHHHHHHHHHhcccCCceEEEEeCCcchhhhHH
Confidence            345689999999999988777777665432    67899987642 33455555544322  555444333221122222


Q ss_pred             HHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHH-HcCCccEEEEcCcchhcc
Q psy2892         286 RINDSIKKINKSQLYIDETPSLNVIELRANSRRLSR-QCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       286 ~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~-~~~~~~~vvID~l~~i~~  339 (452)
                      .+      ..+..+.|.     |++.+...+..-.. ...++++||||-.+.+..
T Consensus       342 ~~------~~~~~Ivv~-----Tp~~l~~~l~~~~~~~~~~~~~iViDEaH~~~~  385 (797)
T 4a2q_A          342 KV------IEDSDIIVV-----TPQILVNSFEDGTLTSLSIFTLMIFDECHNTTG  385 (797)
T ss_dssp             HH------HHTCSEEEE-----CHHHHHHHHHSSSCCCGGGCSEEEETTGGGCST
T ss_pred             Hh------hCCCCEEEE-----chHHHHHHHHhccccccccCCEEEEECccccCC
Confidence            21      234466664     45555554432100 011369999999988765

>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=94.75  E-value=0.046  Score=49.60  Aligned_cols=50  Identities=20%  Similarity=0.270  Sum_probs=35.7

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM  262 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~  262 (452)
                      .+|.+++|.|++|+||||++..++.... ..|.++..++-|-....+.+.+
T Consensus        25 ~~~~~i~~eG~~GsGKsT~~~~l~~~l~-~~~~~~~~~~rep~~t~~g~~i   74 (236)
T 3lv8_A           25 MNAKFIVIEGLEGAGKSTAIQVVVETLQ-QNGIDHITRTREPGGTLLAEKL   74 (236)
T ss_dssp             -CCCEEEEEESTTSCHHHHHHHHHHHHH-HTTCCCEEEEESSCSSHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH-hcCCCeeeeecCCCCCHHHHHH
Confidence            4678999999999999999999998875 4678833444454433444444

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=94.75  E-value=0.024  Score=53.37  Aligned_cols=39  Identities=15%  Similarity=0.300  Sum_probs=31.4

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      +...++|.|+||+|||+++..++.... ..+.+++++++.
T Consensus        46 ~~~~~ll~G~~GtGKt~la~~la~~~~-~~~~~~~~~~~~   84 (311)
T 4fcw_A           46 PIGSFLFLGPTGVGKTELAKTLAATLF-DTEEAMIRIDMT   84 (311)
T ss_dssp             CSEEEEEESCSSSSHHHHHHHHHHHHH-SCGGGEEEEEGG
T ss_pred             CceEEEEECCCCcCHHHHHHHHHHHHc-CCCcceEEeecc
Confidence            344789999999999999999998774 345678888764

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=94.73  E-value=0.016  Score=49.98  Aligned_cols=25  Identities=24%  Similarity=0.336  Sum_probs=17.3

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ++.+++|.|.||+||||++..++..
T Consensus         4 ~~~~I~l~G~~GsGKST~a~~La~~   28 (183)
T 2vli_A            4 RSPIIWINGPFGVGKTHTAHTLHER   28 (183)
T ss_dssp             -CCEEEEECCC----CHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            4568999999999999999988654

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=94.72  E-value=0.02  Score=50.34  Aligned_cols=25  Identities=28%  Similarity=0.351  Sum_probs=21.8

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ..+++|.|+||+||||++..++...
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            3589999999999999999888754

>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase, mRNA-export, nuclear pore, hydrolase-RNA complex; HET: ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A* 3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A 3pev_A* 3peu_A*

Probab=94.72  E-value=0.1  Score=50.56  Aligned_cols=110  Identities=14%  Similarity=0.008  Sum_probs=58.4

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHh--CCCcEEEEeCCC-CHHHHHHHHHHHh--CCCCccccccCCCCcchHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIE--NKLPVAIFSMEM-SGIQLAMRMLGSV--GKLDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~--~g~~vl~~s~E~-~~~~i~~R~~a~~--~~i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      .-+++.|++|+|||..++..+......  .+.+|+|+.--- -..++..++....  .++.......+......      
T Consensus        45 ~~~lv~a~TGsGKT~~~~~~~~~~~~~~~~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~------  118 (395)
T 3pey_A           45 RNMIAQSQSGTGKTAAFSLTMLTRVNPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNK------  118 (395)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHCCTTCCSCCEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEESTTSSCTTS------
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHHhccCCCCccEEEECCCHHHHHHHHHHHHHHhcccCeeEEEEecCchhhhc------
Confidence            568999999999998777666655322  356788886432 2234444443321  22222222211111100      


Q ss_pred             HHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         290 SIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       290 a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                          ..+.++.+.     |++.+...+..-.....++++||||-.+.+..
T Consensus       119 ----~~~~~iiv~-----T~~~l~~~~~~~~~~~~~~~~iIiDEah~~~~  159 (395)
T 3pey_A          119 ----QINAQVIVG-----TPGTVLDLMRRKLMQLQKIKIFVLDEADNMLD  159 (395)
T ss_dssp             ----CBCCSEEEE-----CHHHHHHHHHTTCBCCTTCCEEEEETHHHHHH
T ss_pred             ----cCCCCEEEE-----cHHHHHHHHHcCCcccccCCEEEEEChhhhcC
Confidence                012344443     45566554432111122589999999998775

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=94.70  E-value=0.038  Score=47.92  Aligned_cols=34  Identities=24%  Similarity=0.318  Sum_probs=27.4

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      +++|.|.||+||||++..++.... ..|.+++...
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~-~~g~~~i~~d   35 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLK-QKGYFVSLYR   35 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHH-HTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH-HCCCeEEEEe
Confidence            688999999999999999988764 3577776543

>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=94.70  E-value=0.018  Score=50.59  Aligned_cols=25  Identities=20%  Similarity=0.405  Sum_probs=21.8

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|..++|.|+||+|||++++.++..
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~~   57 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQR   57 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            4667999999999999999998754

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=94.67  E-value=0.022  Score=51.25  Aligned_cols=27  Identities=26%  Similarity=0.274  Sum_probs=21.5

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ..++-+++|.|+||+||||++..++..
T Consensus         4 ~~~~~~I~l~G~~GsGKsT~a~~La~~   30 (227)
T 1zd8_A            4 SARLLRAVIMGAPGSGKGTVSSRITTH   30 (227)
T ss_dssp             ---CCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cccCcEEEEECCCCCCHHHHHHHHHHH
Confidence            455678999999999999999988764

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=94.65  E-value=0.023  Score=55.91  Aligned_cols=39  Identities=10%  Similarity=0.250  Sum_probs=33.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHH-----hCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAI-----ENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~-----~~g~~vl~~s~E~~  254 (452)
                      +.+..+..|+||||++.++|..+|.     +.|.+|+.++++..
T Consensus       111 Iav~s~KGGvGKTT~a~nLA~~La~~~~~~~~g~rVlliD~D~q  154 (398)
T 3ez2_A          111 IFISNLKGGVSKTVSTVSLAHAMRAHPHLLMEDLRILVIDLDPQ  154 (398)
T ss_dssp             EEECCSSSSSSHHHHHHHHHHHHHHCTTTGGGCCCEEEEEECTT
T ss_pred             EEEEeCCCCccHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCCC
Confidence            5566689999999999999999985     36899999999864

>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD; ATP-binding, hydrolase, nucleotide-binding, RNA binding protein, structural genomics; 1.90A {Sulfolobus tokodaii}

Probab=94.65  E-value=0.093  Score=49.58  Aligned_cols=111  Identities=14%  Similarity=0.096  Sum_probs=59.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-CCHHHHHHHHHHHhC--CCCccccccCCCCcchHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-MSGIQLAMRMLGSVG--KLDQHKLRTGRLSSDDWPRINDS  290 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~~~~~i~~R~~a~~~--~i~~~~i~~g~l~~~~~~~~~~a  290 (452)
                      |.-+++.+++|+|||..++..+..    .+.+++++.-- .-..++..++.....  ++....+. |..+..+      .
T Consensus        31 ~~~~lv~~~TGsGKT~~~~~~~~~----~~~~~liv~P~~~L~~q~~~~~~~~~~~~~~~~~~~~-~~~~~~~------~   99 (337)
T 2z0m_A           31 GKNVVVRAKTGSGKTAAYAIPILE----LGMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVY-GGMPYKA------Q   99 (337)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHHHH----HTCCEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEEC-TTSCHHH------H
T ss_pred             CCCEEEEcCCCCcHHHHHHHHHHh----hcCCEEEEeCCHHHHHHHHHHHHHHhhhcCCcEEEEE-CCcchHH------H
Confidence            345899999999999766555443    36789988743 223455555543222  23222222 2222211      1


Q ss_pred             HHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         291 IKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       291 ~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                      ...+...++.+.     |++.+...+..-.....++++||||-.+.+...
T Consensus       100 ~~~~~~~~i~v~-----T~~~l~~~~~~~~~~~~~~~~iViDEah~~~~~  144 (337)
T 2z0m_A          100 INRVRNADIVVA-----TPGRLLDLWSKGVIDLSSFEIVIIDEADLMFEM  144 (337)
T ss_dssp             HHHHTTCSEEEE-----CHHHHHHHHHTTSCCGGGCSEEEEESHHHHHHT
T ss_pred             HhhcCCCCEEEE-----CHHHHHHHHHcCCcchhhCcEEEEEChHHhhcc
Confidence            223444566664     455555433221101114789999999988653

>4f92_B U5 small nuclear ribonucleoprotein 200 kDa helica; RNP remodeling, PRE-mRNA splicing, spliceosome catalytic ACT DEXD/H-box RNA helicase; HET: SAN; 2.66A {Homo sapiens} PDB: 4f93_B* 4f91_B

Probab=94.61  E-value=0.23  Score=57.87  Aligned_cols=156  Identities=14%  Similarity=0.156  Sum_probs=84.1

Q ss_pred             Cccccccc----c-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh----------CCCcEEEEeCCCC-HHHHHHHHH
Q psy2892         200 GFFELDKI----T-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE----------NKLPVAIFSMEMS-GIQLAMRML  263 (452)
Q Consensus       200 g~~~LD~~----~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~----------~g~~vl~~s~E~~-~~~i~~R~~  263 (452)
                      ||+.|+.+    . -.+..++=++++||+|+|||..+.-.+++...+          .+.+|+|++---. ..++...+-
T Consensus        76 g~~~ln~iQs~~~~~al~~~~N~lv~APTGsGKTlva~l~il~~l~~~~~~~~~~~~~~~k~lyiaP~kALa~e~~~~l~  155 (1724)
T 4f92_B           76 GFKTLNRIQSKLYRAALETDENLLLCAPTGAGKTNVALMCMLREIGKHINMDGTINVDDFKIIYIAPMRSLVQEMVGSFG  155 (1724)
T ss_dssp             TCSBCCHHHHHTHHHHHTCCCCEEEECCTTSCCHHHHHHHHHHHHGGGCCTTSSCCTTSCEEEEECSSHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHcCCCcEEEEeCCcchHHHHHHHHHHHHHHhhccccccccCCCCEEEEECCHHHHHHHHHHHHH
Confidence            56666654    1 235678889999999999998776555554332          3568999974211 122333333


Q ss_pred             HHh--CCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHH--HHcCCccEEEEcCcchhcc
Q psy2892         264 GSV--GKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLS--RQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       264 a~~--~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~--~~~~~~~~vvID~l~~i~~  339 (452)
                      ...  .|+.... ..|..+....        .+....+.|.     |++.+...+++..  ....++++||||-++.+..
T Consensus       156 ~~~~~~gi~V~~-~tGd~~~~~~--------~~~~~~IlVt-----TpEkld~llr~~~~~~~l~~v~~vIiDEvH~l~d  221 (1724)
T 4f92_B          156 KRLATYGITVAE-LTGDHQLCKE--------EISATQIIVC-----TPEKWDIITRKGGERTYTQLVRLIILDEIHLLHD  221 (1724)
T ss_dssp             HHHTTTTCCEEE-CCSSCSSCCT--------TGGGCSEEEE-----CHHHHHHHTTSSTTHHHHTTEEEEEETTGGGGGS
T ss_pred             HHHhhCCCEEEE-EECCCCCCcc--------ccCCCCEEEE-----CHHHHHHHHcCCccchhhcCcCEEEEecchhcCC
Confidence            322  2443322 3354332211        1233456664     4555443332211  0112599999999998853


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHH--HhCCcEEEEecC
Q psy2892         340 NSRGENRATEISEISRNLKGLAK--EINCPILALSQL  374 (452)
Q Consensus       340 ~~~~~~~~~~~~~i~~~Lk~lA~--~~~i~vi~l~ql  374 (452)
                           +|...+..+..+++...+  ..++.+|.+|-.
T Consensus       222 -----~RG~~lE~~l~rl~~~~~~~~~~~riI~LSAT  253 (1724)
T 4f92_B          222 -----DRGPVLEALVARAIRNIEMTQEDVRLIGLSAT  253 (1724)
T ss_dssp             -----TTHHHHHHHHHHHHHHHHHHTCCCEEEEEECS
T ss_pred             -----ccHHHHHHHHHHHHHHHHhCCCCCcEEEEecc
Confidence                 233344445555544333  346778887744

>4ddu_A Reverse gyrase; topoisomerase, DNA supercoiling, archaea, helicase, hydrolas; 3.00A {Thermotoga maritima} PDB: 4ddt_A 4ddv_A 4ddw_A 4ddx_A

Probab=94.60  E-value=0.047  Score=60.86  Aligned_cols=114  Identities=14%  Similarity=0.151  Sum_probs=67.3

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHHHHh-CCCCccccccCCCCcchHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM-SGIQLAMRMLGSV-GKLDQHKLRTGRLSSDDWPRINDSI  291 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~-~~~~i~~R~~a~~-~~i~~~~i~~g~l~~~~~~~~~~a~  291 (452)
                      |.-+++.|++|+|||.+++-.+...+ ..|.++++++-.- -..|+..++.... .++.... ..|..+..++..   ..
T Consensus        93 g~dvlv~ApTGSGKTl~~l~~il~~~-~~~~~~Lil~PtreLa~Q~~~~l~~l~~~~i~v~~-l~Gg~~~~er~~---~~  167 (1104)
T 4ddu_A           93 GKSFTMVAPTGVGKTTFGMMTALWLA-RKGKKSALVFPTVTLVKQTLERLQKLADEKVKIFG-FYSSMKKEEKEK---FE  167 (1104)
T ss_dssp             TCCEEECCSTTCCHHHHHHHHHHHHH-TTTCCEEEEESSHHHHHHHHHHHHTTSCTTSCEEE-ECTTCCTTHHHH---HH
T ss_pred             CCCEEEEeCCCCcHHHHHHHHHHHHH-hcCCeEEEEechHHHHHHHHHHHHHhhCCCCeEEE-EeCCCCHHHHHH---HH
Confidence            34578999999999998877777765 4678899986542 2344555554311 1222222 235555433322   12


Q ss_pred             HHHhC--CCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         292 KKINK--SQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       292 ~~l~~--~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      ..+..  .++.|.     |++.+...+..+. .. ++++||||-.+.+..
T Consensus       168 ~~l~~g~~~IlV~-----Tp~rL~~~l~~l~-~~-~l~~lViDEaH~l~~  210 (1104)
T 4ddu_A          168 KSFEEDDYHILVF-----STQFVSKNREKLS-QK-RFDFVFVDDVDAVLK  210 (1104)
T ss_dssp             HHHHTSCCSEEEE-----EHHHHHHSHHHHH-TS-CCSEEEESCHHHHTT
T ss_pred             HHHhCCCCCEEEE-----CHHHHHHHHHhhc-cc-CcCEEEEeCCCcccc
Confidence            23433  356654     4556655554432 22 599999999987654

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=94.58  E-value=0.026  Score=50.58  Aligned_cols=29  Identities=24%  Similarity=0.368  Sum_probs=25.0

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+.+..+++|.|+||+||||.|..++...
T Consensus        25 ~~~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           25 KLAKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             CTTSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             hccCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            46777799999999999999999888654

>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=94.54  E-value=0.044  Score=48.91  Aligned_cols=37  Identities=19%  Similarity=0.314  Sum_probs=30.7

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEE
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIF  249 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~  249 (452)
                      .+|-+++|.|++|+||||.+..++.... ..|.+|...
T Consensus         4 m~g~~i~~eG~~gsGKsT~~~~l~~~l~-~~~~~v~~~   40 (213)
T 4edh_A            4 MTGLFVTLEGPEGAGKSTNRDYLAERLR-ERGIEVQLT   40 (213)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHHH-TTTCCEEEE
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHHHHHH-HcCCCcccc
Confidence            4688999999999999999999988774 467888654

>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=94.54  E-value=0.028  Score=49.40  Aligned_cols=26  Identities=19%  Similarity=0.437  Sum_probs=22.3

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++-+++|.|+||+||||++..++...
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            34589999999999999999888754

>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=94.53  E-value=0.022  Score=51.96  Aligned_cols=26  Identities=19%  Similarity=0.282  Sum_probs=22.8

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++.+++|.|+||+||||++..++...
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            46899999999999999999988654

>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=94.51  E-value=0.02  Score=56.10  Aligned_cols=35  Identities=23%  Similarity=0.358  Sum_probs=29.4

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ..|+.+.--+++|+++.|.|++|+||||++.-++-
T Consensus        35 ~~L~~vsl~i~~Ge~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           35 AILENISFSISPGQRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             CSEEEEEEEECTTCEEEEEESTTSSHHHHHHHHHT
T ss_pred             EEeeceeEEEcCCCEEEEECCCCChHHHHHHHHhC
Confidence            45666644689999999999999999999987764

>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA, N project on protein structural and functional analyses; 2.40A {Dugesia japonica} SCOP: c.37.1.19

Probab=94.51  E-value=0.2  Score=45.46  Aligned_cols=115  Identities=14%  Similarity=-0.002  Sum_probs=58.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhC-----------CCcEEEEeCC-CCHHHHHHHHHHHhC--CCCccccccCCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIEN-----------KLPVAIFSME-MSGIQLAMRMLGSVG--KLDQHKLRTGRL  279 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~-----------g~~vl~~s~E-~~~~~i~~R~~a~~~--~i~~~~i~~g~l  279 (452)
                      |.-+++.+++|+|||...+-.+.......           +.+++|+.-- .-..++..++.....  ++....+..|.-
T Consensus        60 ~~~~l~~a~TGsGKT~~~~~~~l~~l~~~~~~~~~~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~  139 (253)
T 1wrb_A           60 HRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGAD  139 (253)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHHHHHHHTTCC------CCBCCSEEEECSSHHHHHHHHHHHHHHHTTSSCCEEEECSSSC
T ss_pred             CCCEEEECCCCChHHHHHHHHHHHHHHhhccccccccccCCceEEEEECCHHHHHHHHHHHHHHhccCCceEEEEECCCC
Confidence            44588999999999976554444443221           2478888642 123444444433222  222222222221


Q ss_pred             CcchHHHHHHHHHHHh-CCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         280 SSDDWPRINDSIKKIN-KSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       280 ~~~~~~~~~~a~~~l~-~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                      ...+.       ..+. +..+.+.     |++.+...+..-.....++++||||-.+.+...
T Consensus       140 ~~~~~-------~~~~~~~~Ivv~-----Tp~~l~~~l~~~~~~~~~~~~lViDEah~~~~~  189 (253)
T 1wrb_A          140 THSQI-------REVQMGCHLLVA-----TPGRLVDFIEKNKISLEFCKYIVLDEADRMLDM  189 (253)
T ss_dssp             SHHHH-------HHHSSCCSEEEE-----CHHHHHHHHHTTSBCCTTCCEEEEETHHHHHHT
T ss_pred             HHHHH-------HHhCCCCCEEEE-----CHHHHHHHHHcCCCChhhCCEEEEeCHHHHHhC
Confidence            11111       1222 2355554     455665544322111124789999999987653

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=94.50  E-value=0.017  Score=53.87  Aligned_cols=36  Identities=22%  Similarity=0.336  Sum_probs=26.9

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      .+++|  ++|.|+||+|||+++..++...    +.+.++++.
T Consensus        42 ~~~~G--vlL~Gp~GtGKTtLakala~~~----~~~~i~i~g   77 (274)
T 2x8a_A           42 VTPAG--VLLAGPPGCGKTLLAKAVANES----GLNFISVKG   77 (274)
T ss_dssp             CCCSE--EEEESSTTSCHHHHHHHHHHHT----TCEEEEEET
T ss_pred             CCCCe--EEEECCCCCcHHHHHHHHHHHc----CCCEEEEEc
Confidence            35566  9999999999999999887643    345566654

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.46  E-value=0.022  Score=54.40  Aligned_cols=35  Identities=20%  Similarity=0.604  Sum_probs=27.3

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .++.+++|.||+|+|||+++..+|...      +.-++|.+
T Consensus        38 ~~~~lIvI~GPTgsGKTtLa~~LA~~l------~~eiIs~D   72 (339)
T 3a8t_A           38 RKEKLLVLMGATGTGKSRLSIDLAAHF------PLEVINSD   72 (339)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHTTS------CEEEEECC
T ss_pred             cCCceEEEECCCCCCHHHHHHHHHHHC------CCcEEccc
Confidence            456699999999999999999887532      35566665

>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=94.42  E-value=0.078  Score=50.74  Aligned_cols=25  Identities=16%  Similarity=0.410  Sum_probs=22.4

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      ..+++.|+||+|||+++..++..+.
T Consensus        25 ~a~L~~G~~G~GKt~~a~~la~~l~   49 (334)
T 1a5t_A           25 HALLIQALPGMGDDALIYALSRYLL   49 (334)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             eeEEEECCCCchHHHHHHHHHHHHh
Confidence            3699999999999999999998774

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=94.42  E-value=0.029  Score=48.97  Aligned_cols=26  Identities=23%  Similarity=0.360  Sum_probs=22.6

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++.+++|.|+||+||||++..++...
T Consensus        11 ~~~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           11 KCKIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             HSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            45689999999999999999888754

>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=94.41  E-value=0.03  Score=51.57  Aligned_cols=42  Identities=12%  Similarity=0.139  Sum_probs=31.6

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQL  258 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i  258 (452)
                      -++|.|+||+|||++|..++.... ..+.+++++++..-..+.
T Consensus        31 ~vll~G~~GtGKt~la~~i~~~~~-~~~~~~~~v~~~~~~~~~   72 (265)
T 2bjv_A           31 PVLIIGERGTGKELIASRLHYLSS-RWQGPFISLNCAALNENL   72 (265)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHTST-TTTSCEEEEEGGGSCHHH
T ss_pred             CEEEECCCCCcHHHHHHHHHHhcC-ccCCCeEEEecCCCChhH
Confidence            588999999999999998887653 345788888765443333

>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=94.40  E-value=0.012  Score=55.76  Aligned_cols=35  Identities=17%  Similarity=0.287  Sum_probs=28.4

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +.|+.+.--+++|+++.|.|++|+|||||+.-++.
T Consensus        68 ~vL~~isl~i~~Ge~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           68 ETLQDVSFTVMPGQTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             EEEEEEEEEECTTCEEEEESSSCHHHHHHHHHHTT
T ss_pred             ceeeeeeEEEcCCCEEEEECCCCchHHHHHHHHHc
Confidence            34666644589999999999999999999875554

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=94.40  E-value=0.14  Score=54.97  Aligned_cols=41  Identities=17%  Similarity=0.136  Sum_probs=29.1

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC--CCcEEEEe
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN--KLPVAIFS  250 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~--g~~vl~~s  250 (452)
                      .+..|+.++|.|++|+|||+++-.++.......  |..++++.
T Consensus       105 ~l~~~~~vii~gpTGSGKTtllp~ll~~~~~~~~~g~~ilvl~  147 (773)
T 2xau_A          105 LYQNNQIMVFVGETGSGKTTQIPQFVLFDEMPHLENTQVACTQ  147 (773)
T ss_dssp             HHHHCSEEEEECCTTSSHHHHHHHHHHHHHCGGGGTCEEEEEE
T ss_pred             HHhCCCeEEEECCCCCCHHHHHHHHHHHhccccCCCceEEecC
Confidence            355678999999999999997666655443222  55577764

>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=94.40  E-value=0.029  Score=51.38  Aligned_cols=38  Identities=26%  Similarity=0.324  Sum_probs=28.6

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHh----CCCcEEEEeCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIE----NKLPVAIFSME  252 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~----~g~~vl~~s~E  252 (452)
                      -++.|+|+||+||||++..++...-..    .+..|++++++
T Consensus        23 ~iI~I~G~~GSGKST~a~~L~~~lg~~~~d~~~~~~~~i~~D   64 (252)
T 1uj2_A           23 FLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQD   64 (252)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhhhhcccccCCceEEEecC
Confidence            379999999999999999888754221    13567777765

>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=94.34  E-value=0.091  Score=56.17  Aligned_cols=28  Identities=29%  Similarity=0.568  Sum_probs=22.1

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      |+.+..=+++.||||+|||.+|..+|..
T Consensus       507 g~~~~~gvLl~GPPGtGKT~lAkaiA~e  534 (806)
T 3cf2_A          507 GMTPSKGVLFYGPPGCGKTLLAKAIANE  534 (806)
T ss_dssp             CCCCCSCCEEESSTTSSHHHHHHHHHHT
T ss_pred             CCCCCceEEEecCCCCCchHHHHHHHHH
Confidence            4555445899999999999988877764

>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal alpha-beta the C-terminal all beta domain., structural genomics; 2.00A {Nostoc SP}

Probab=94.32  E-value=0.024  Score=55.15  Aligned_cols=35  Identities=11%  Similarity=0.291  Sum_probs=32.6

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      ++++.|..|+|||+++.++|..+|. .|++|+.+++
T Consensus         4 i~~~~gkGG~GKTt~a~~la~~la~-~g~~vllvd~   38 (374)
T 3igf_A            4 ILTFLGKSGVARTKIAIAAAKLLAS-QGKRVLLAGL   38 (374)
T ss_dssp             EEEEECSBHHHHHHHHHHHHHHHHH-TTCCEEEEEC
T ss_pred             EEEEeCCCCCcHHHHHHHHHHHHHH-CCCCeEEEeC
Confidence            6789999999999999999999985 7999999999

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=94.30  E-value=0.055  Score=53.01  Aligned_cols=48  Identities=13%  Similarity=0.039  Sum_probs=38.6

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMR  261 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R  261 (452)
                      .+.-++|.|++|+|||+++..++.... ..|.+|+++..+.+...+...
T Consensus        34 ~~~~~~i~G~~G~GKs~~~~~~~~~~~-~~~~~~~~~D~~~~~~~~~~~   81 (392)
T 4ag6_A           34 TNSNWTILAKPGAGKSFTAKMLLLREY-MQGSRVIIIDPEREYKEMCRK   81 (392)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHHH-TTTCCEEEEESSCCSHHHHHH
T ss_pred             ccCceEEEcCCCCCHHHHHHHHHHHHH-HCCCEEEEEeCCcCHHHHHHH
Confidence            455789999999999999999998875 468889999887776655544

>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=94.30  E-value=0.02  Score=52.41  Aligned_cols=36  Identities=22%  Similarity=0.486  Sum_probs=26.8

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      .+++|  ++|.|+||+|||+++..++...    +.+.++++.
T Consensus        47 ~~~~g--~ll~G~~G~GKTtl~~~i~~~~----~~~~i~~~~   82 (254)
T 1ixz_A           47 RIPKG--VLLVGPPGVGKTHLARAVAGEA----RVPFITASG   82 (254)
T ss_dssp             CCCSE--EEEECCTTSSHHHHHHHHHHHT----TCCEEEEEH
T ss_pred             CCCCe--EEEECCCCCCHHHHHHHHHHHh----CCCEEEeeH
Confidence            35666  8999999999999999887643    245555543

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=94.29  E-value=0.18  Score=53.13  Aligned_cols=31  Identities=23%  Similarity=0.503  Sum_probs=26.3

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHH
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFS  231 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~  231 (452)
                      ...|+.+.--+++|+++.|.|++|+|||||+
T Consensus        31 ~~~L~~vsl~i~~Ge~~~liGpNGaGKSTLl   61 (670)
T 3ux8_A           31 AHNLKNIDVEIPRGKLVVLTGLSGSGKSSLA   61 (670)
T ss_dssp             STTCCSEEEEEETTSEEEEECSTTSSHHHHH
T ss_pred             ccceeccEEEECCCCEEEEECCCCCCHHHHh
Confidence            3457777556899999999999999999996

>4a8j_A Elongator complex protein 4; transcription; 2.10A {Saccharomyces cerevisiae} PDB: 4ejs_A

Probab=94.29  E-value=0.014  Score=55.99  Aligned_cols=131  Identities=15%  Similarity=0.127  Sum_probs=74.4

Q ss_pred             CHHHHHHHHHHHHHHcC-CccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhC--CcEEEEecCCcchhhcCCC
Q psy2892         308 NVIELRANSRRLSRQCG-KIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEIN--CPILALSQLNRSLEQRQNK  384 (452)
Q Consensus       308 t~~~i~~~i~~~~~~~~-~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~--i~vi~l~ql~r~~~~r~~~  384 (452)
                      ....+...|++...+.. ++-.|+|=+|..-............+-.+...||.|.+.+.  |.++++....-        
T Consensus       199 ~y~~lL~~I~~~i~~~~~~ilRIvI~SLgSP~wy~~~~~~~~~ll~FL~~LRaLlR~~~~~~v~~iTlP~~l--------  270 (361)
T 4a8j_A          199 PVSTILSQIEQTIKRNDKKLIRIVIPSLLHPAMYPPKMFESSEIIGLMHGVRSLVKKYYERVVLFASISIDI--------  270 (361)
T ss_dssp             CHHHHHHHHHHHHHHTTTSEEEEEETTTTCTTTSCGGGGBHHHHHHHHHHHHHHHHHTTTTEEEEEEEECTT--------
T ss_pred             hHHHHHHHHHHHHhcCCCceEEEEecCCCCcccCCCcccCHHHHHHHHHHHHHHHhhcCCceEEEEEEChHH--------
Confidence            45677777777665432 57788998876432211111235578899999999999874  45444433221        


Q ss_pred             CCCchhhhhhchhhhhhceeEEEecCc---------ccccCCCCCCeEEEEEeecc----CCC--cceEEEEEEcCccce
Q psy2892         385 RPIMSDLRESGAIEQDADVILFIYRDE---------VYNQNSADKGIAEIIVSKQR----NGP--IGNIRLTFSGQYTKF  449 (452)
Q Consensus       385 ~p~l~dl~~S~~ie~~aD~vl~l~r~~---------~~~~~~~~~~~~~l~i~KnR----~G~--~g~~~l~f~~~~~~f  449 (452)
                      -|.  .+  ...++..+|.|+.|.--.         .|.......-.--|+|.|=-    -|.  .....+.|.-..-+|
T Consensus       271 ~~~--~l--~~rle~l~D~vi~L~pF~~~~~~~~~~~yk~~p~~~~~GLl~V~KLP~l~~~g~~~~~~~dlaFKl~Rkkf  346 (361)
T 4a8j_A          271 ITP--PL--LVLLRNMFDSVINLEPFNQEMTEFLERVYKSQPGKIQHGLVHILKLPVFTDRGEMRVLKSEWAFKNGRKKF  346 (361)
T ss_dssp             SCH--HH--HHHHHHHCSEEEEEEECCHHHHHHHHHHTTTCGGGCCCEEEEEEECTTHHHHTCCCCEEEEEEEEECSSCE
T ss_pred             cCh--HH--HHHHHHhCcEEEEeeecCCchhhhcccccccCcccccceEEEEEecccccccCCCCCCccceEEEecceeE
Confidence            111  12  347999999999986411         11110001123466777732    132  234578887766666


Q ss_pred             e
Q psy2892         450 N  450 (452)
Q Consensus       450 ~  450 (452)
                      .
T Consensus       347 ~  347 (361)
T 4a8j_A          347 E  347 (361)
T ss_dssp             E
T ss_pred             E
Confidence            3

>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding, RNA binding protein; 2.10A {Saccharomyces cerevisiae} SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A

Probab=94.25  E-value=0.078  Score=51.68  Aligned_cols=113  Identities=16%  Similarity=0.095  Sum_probs=58.4

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHh--CCCcEEEEeCCC-CHHHHHHHHHHHhC--CCCccccccCCCCcchHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIE--NKLPVAIFSMEM-SGIQLAMRMLGSVG--KLDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~--~g~~vl~~s~E~-~~~~i~~R~~a~~~--~i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      .-+++.|++|+|||..++-.+......  .+.+++|+.--- -..++..++.....  ++....+ .|.....+      
T Consensus        59 ~~~li~a~TGsGKT~~~~~~~~~~~~~~~~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~-~g~~~~~~------  131 (400)
T 1s2m_A           59 RDILARAKNGTGKTAAFVIPTLEKVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVT-TGGTNLRD------  131 (400)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHCCTTSCSCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEE-CSSSCHHH------
T ss_pred             CCEEEECCCCcHHHHHHHHHHHHHHhhccCCccEEEEcCCHHHHHHHHHHHHHHhcccCceEEEE-eCCcchHH------
Confidence            348999999999998766666655332  355788886431 23344444433222  3332222 22222111      


Q ss_pred             HHHHHh-CCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         290 SIKKIN-KSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       290 a~~~l~-~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      ....+. ..++.+.     |++.+...+..-.....++++||||-.+.+..
T Consensus       132 ~~~~~~~~~~Ivv~-----T~~~l~~~~~~~~~~~~~~~~vIiDEaH~~~~  177 (400)
T 1s2m_A          132 DILRLNETVHILVG-----TPGRVLDLASRKVADLSDCSLFIMDEADKMLS  177 (400)
T ss_dssp             HHHHTTSCCSEEEE-----CHHHHHHHHHTTCSCCTTCCEEEEESHHHHSS
T ss_pred             HHHHhcCCCCEEEE-----chHHHHHHHHhCCcccccCCEEEEeCchHhhh
Confidence            111122 2355554     45555544332111112579999999987653

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=94.25  E-value=0.12  Score=55.52  Aligned_cols=27  Identities=15%  Similarity=0.245  Sum_probs=24.8

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+|++++|.||+|+|||||+.+++.-.
T Consensus       605 ~~g~i~~ItGpNGsGKSTlLr~iagl~  631 (800)
T 1wb9_A          605 PQRRMLIITGPNMGGKSTYMRQTALIA  631 (800)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCChHHHHHHHHHHH
Confidence            689999999999999999999998754

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.24  E-value=0.042  Score=49.53  Aligned_cols=40  Identities=18%  Similarity=0.216  Sum_probs=28.7

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC----CCcEEEEe
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN----KLPVAIFS  250 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~----g~~vl~~s  250 (452)
                      -+.+|-+++|.|++|+||||.+..++..... .    |.+|.+..
T Consensus        21 ~m~~g~~I~~eG~~GsGKsT~~~~l~~~l~~-~~~~~g~~v~~~r   64 (227)
T 3v9p_A           21 SMARGKFITFEGIDGAGKTTHLQWFCDRLQE-RLGPAGRHVVVTR   64 (227)
T ss_dssp             --CCCCEEEEECCC---CHHHHHHHHHHHHH-HHGGGTCCEEEEE
T ss_pred             cccCCeEEEEECCCCCCHHHHHHHHHHHHHh-hccccceeeeeec
Confidence            3567899999999999999999999887743 4    78886543

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=94.22  E-value=0.18  Score=53.10  Aligned_cols=32  Identities=19%  Similarity=0.437  Sum_probs=25.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNI  234 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~i  234 (452)
                      .|+.+.--+++|+++.|.|++|+|||||+.-+
T Consensus       337 ~L~~vsl~I~~Ge~vaIiGpnGsGKSTLl~~i  368 (670)
T 3ux8_A          337 NLKNVSVKIPLGTFVAVTGVSGSGKSTLVNEV  368 (670)
T ss_dssp             TCCSEEEEEETTSEEEEECSTTSSHHHHHTTT
T ss_pred             ccccceeEecCCCEEEEEeeCCCCHHHHHHHH
Confidence            45555445889999999999999999998543

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=94.21  E-value=0.035  Score=49.89  Aligned_cols=43  Identities=19%  Similarity=0.135  Sum_probs=33.9

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      .+|-++++.|.+|+||||++..++.......|.+|.+++-|-.
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~~l~~~~g~~v~~~treP~   61 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAEYLSEIYGVNNVVLTREPG   61 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHHHHHCGGGEEEEESSC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhccCceeeEeeeCCC
Confidence            3578999999999999999999998875315778887555533

>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein, translation; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 2vso_A* 2vsx_A*

Probab=94.21  E-value=0.11  Score=50.23  Aligned_cols=113  Identities=13%  Similarity=0.083  Sum_probs=59.6

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHh--CCCcEEEEeCC-CCHHHHHHHHHHHhC--CCCccccccCCCCcchHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIE--NKLPVAIFSME-MSGIQLAMRMLGSVG--KLDQHKLRTGRLSSDDWPRINDS  290 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~--~g~~vl~~s~E-~~~~~i~~R~~a~~~--~i~~~~i~~g~l~~~~~~~~~~a  290 (452)
                      -+++.+++|+|||..++-.+......  .+.+++|++-- .-..++..++.....  ++....+ .|..+..+.      
T Consensus        60 ~~lv~~~TGsGKT~~~~~~~~~~l~~~~~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~-~g~~~~~~~------  132 (394)
T 1fuu_A           60 DVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHAC-IGGTSFVED------  132 (394)
T ss_dssp             CEEECCCSSHHHHHHHHHHHHHHCCTTCCSCCEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEE-CSSCCHHHH------
T ss_pred             CEEEECCCCChHHHHHHHHHHHHhhccCCCCCEEEEcCCHHHHHHHHHHHHHHhccCCeeEEEE-eCCCchHHH------
Confidence            37899999999997655555444322  35688888643 223444444443322  2332222 232222111      


Q ss_pred             HHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         291 IKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       291 ~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                      ...+.+.++.+.     |++.+...+..-.....++++||||-.+.+...
T Consensus       133 ~~~~~~~~i~v~-----T~~~l~~~~~~~~~~~~~~~~vIiDEah~~~~~  177 (394)
T 1fuu_A          133 AEGLRDAQIVVG-----TPGRVFDNIQRRRFRTDKIKMFILDEADEMLSS  177 (394)
T ss_dssp             HHHHHHCSEEEE-----CHHHHHHHHHTTSSCCTTCCEEEEETHHHHHHT
T ss_pred             HhhcCCCCEEEE-----CHHHHHHHHHhCCcchhhCcEEEEEChHHhhCC
Confidence            112234566664     455555544321111125899999999987643

>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=94.20  E-value=0.051  Score=50.23  Aligned_cols=34  Identities=26%  Similarity=0.407  Sum_probs=26.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      ..-++|.|+||+|||++|..++...    +.+++++++
T Consensus        64 ~~~vLl~G~~GtGKT~la~~ia~~~----~~~~~~i~~   97 (272)
T 1d2n_A           64 LVSVLLEGPPHSGKTALAAKIAEES----NFPFIKICS   97 (272)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHH----TCSEEEEEC
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHh----CCCEEEEeC
Confidence            3468999999999999999888763    466666653

>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=94.19  E-value=0.053  Score=54.35  Aligned_cols=40  Identities=30%  Similarity=0.537  Sum_probs=29.3

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      |..++.-+++.|+||+|||++|..+|....  .+.++++++.
T Consensus        59 ~~~~~~~iLl~GppGtGKT~la~ala~~l~--~~~~~~~~~~   98 (456)
T 2c9o_A           59 KKMAGRAVLLAGPPGTGKTALALAIAQELG--SKVPFCPMVG   98 (456)
T ss_dssp             TCCTTCEEEEECCTTSSHHHHHHHHHHHHC--TTSCEEEEEG
T ss_pred             CCCCCCeEEEECCCcCCHHHHHHHHHHHhC--CCceEEEEeH
Confidence            333444589999999999999999888752  2356666653

>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=94.18  E-value=0.02  Score=53.72  Aligned_cols=34  Identities=32%  Similarity=0.456  Sum_probs=28.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|+.+.--+.+|+++.|.|++|+|||||+.-++-
T Consensus        53 vl~~isl~i~~Ge~~~i~G~NGsGKSTLlk~l~G   86 (290)
T 2bbs_A           53 VLKDINFKIERGQLLAVAGSTGAGKTSLLMMIMG   86 (290)
T ss_dssp             SEEEEEEEECTTCEEEEEESTTSSHHHHHHHHTT
T ss_pred             EEEeeEEEEcCCCEEEEECCCCCcHHHHHHHHhc
Confidence            4666644689999999999999999999887654

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=94.16  E-value=0.12  Score=53.39  Aligned_cols=33  Identities=21%  Similarity=0.338  Sum_probs=26.5

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      |+.+.--+++|+.+.|.|++|+||||++.-++.
T Consensus       357 l~~isl~i~~G~~~~ivG~sGsGKSTll~~l~g  389 (578)
T 4a82_A          357 LKDINLSIEKGETVAFVGMSGGGKSTLINLIPR  389 (578)
T ss_dssp             EEEEEEEECTTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             eeeeEEEECCCCEEEEECCCCChHHHHHHHHhc
Confidence            455434578999999999999999999875554

>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=94.13  E-value=0.03  Score=48.38  Aligned_cols=23  Identities=17%  Similarity=0.450  Sum_probs=20.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +++|.|+||+||||++..++...
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHc
Confidence            68999999999999999988754

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.12  E-value=0.032  Score=49.76  Aligned_cols=26  Identities=23%  Similarity=0.268  Sum_probs=22.4

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +|-.++|.|+||+||||++..++...
T Consensus         4 ~~~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            4 KKHNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             GCCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            45679999999999999999888764

>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation, rRNA processing, mRNA splicing, mRNA transport; HET: ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB: 2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B 2zu6_A

Probab=94.11  E-value=0.19  Score=49.11  Aligned_cols=113  Identities=16%  Similarity=0.088  Sum_probs=59.5

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHH--hCCCcEEEEeCCC-CHHHHHHHHHHHhC--CCCccccccCCCCcchHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAI--ENKLPVAIFSMEM-SGIQLAMRMLGSVG--KLDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~--~~g~~vl~~s~E~-~~~~i~~R~~a~~~--~i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      .-+++.+++|+|||...+-.+.....  ..+.++++++--- -..++..++.....  ++....+. |.....++     
T Consensus        75 ~~~lv~a~TGsGKT~~~~~~~~~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~-g~~~~~~~-----  148 (410)
T 2j0s_A           75 RDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACI-GGTNVGED-----  148 (410)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTCCTTSCSCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEEC-TTSCHHHH-----
T ss_pred             CCEEEECCCCCCchHHHHHHHHHHHhhccCCceEEEEcCcHHHHHHHHHHHHHHhccCCeEEEEEE-CCCCHHHH-----
Confidence            44899999999999766655554432  2457899887431 23444454443222  22222222 22221111     


Q ss_pred             HHHHH-hCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         290 SIKKI-NKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       290 a~~~l-~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                       ...+ .+.++.+.     |++.+...+..-.....++++||||-.+.+..
T Consensus       149 -~~~~~~~~~ivv~-----Tp~~l~~~l~~~~~~~~~~~~vViDEah~~~~  193 (410)
T 2j0s_A          149 -IRKLDYGQHVVAG-----TPGRVFDMIRRRSLRTRAIKMLVLDEADEMLN  193 (410)
T ss_dssp             -HHHHHHCCSEEEE-----CHHHHHHHHHTTSSCCTTCCEEEEETHHHHTS
T ss_pred             -HHHhhcCCCEEEc-----CHHHHHHHHHhCCccHhheeEEEEccHHHHHh
Confidence             1122 23355553     45566554433111112589999999998764

>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=94.11  E-value=0.038  Score=54.65  Aligned_cols=37  Identities=16%  Similarity=0.252  Sum_probs=29.2

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEE
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIF  249 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~  249 (452)
                      .+|++++|.|++|+||||++..++..... ....|.++
T Consensus       165 ~~ggii~I~GpnGSGKTTlL~allg~l~~-~~g~I~~~  201 (418)
T 1p9r_A          165 RPHGIILVTGPTGSGKSTTLYAGLQELNS-SERNILTV  201 (418)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHCC-TTSCEEEE
T ss_pred             hcCCeEEEECCCCCCHHHHHHHHHhhcCC-CCCEEEEe
Confidence            68999999999999999999888776532 33456665

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=94.06  E-value=0.025  Score=50.46  Aligned_cols=114  Identities=14%  Similarity=0.096  Sum_probs=56.1

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHh--CCCcEEEEeCC-CCHHHHHHHHHHHhC------CCCccccccCCCCcchHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIE--NKLPVAIFSME-MSGIQLAMRMLGSVG------KLDQHKLRTGRLSSDDWP  285 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~--~g~~vl~~s~E-~~~~~i~~R~~a~~~------~i~~~~i~~g~l~~~~~~  285 (452)
                      .-+++.+++|+|||...+-.+......  .+.+++|++-- .-..++..++.....      ++....+. |..+   ..
T Consensus        42 ~~~lv~a~TGsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~-g~~~---~~  117 (219)
T 1q0u_A           42 ESMVGQSQTGTGKTHAYLLPIMEKIKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRMIVARCLI-GGTD---KQ  117 (219)
T ss_dssp             CCEEEECCSSHHHHHHHHHHHHHHCCTTSCSCCEEEECSSHHHHHHHHHHHHHHHTTSCGGGCCCEEEEC-CCSH---HH
T ss_pred             CCEEEECCCCChHHHHHHHHHHHHHHhCcCCceEEEEcCcHHHHHHHHHHHHHHhhhcccccceEEEEEe-CCCC---HH
Confidence            347899999999997655555544322  24678888642 122344444433222      22221111 2111   10


Q ss_pred             HHHHHHHHHh-CCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         286 RINDSIKKIN-KSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       286 ~~~~a~~~l~-~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                         ...+.+. +..+.+.     |++.+...+..-.....++++||||-.+.+...
T Consensus       118 ---~~~~~~~~~~~Iiv~-----Tp~~l~~~l~~~~~~~~~~~~lViDEah~~~~~  165 (219)
T 1q0u_A          118 ---KALEKLNVQPHIVIG-----TPGRINDFIREQALDVHTAHILVVDEADLMLDM  165 (219)
T ss_dssp             ---HTTCCCSSCCSEEEE-----CHHHHHHHHHTTCCCGGGCCEEEECSHHHHHHT
T ss_pred             ---HHHHHcCCCCCEEEe-----CHHHHHHHHHcCCCCcCcceEEEEcCchHHhhh
Confidence               0001111 1234443     455665544321101114789999999988653

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=94.05  E-value=0.024  Score=50.50  Aligned_cols=33  Identities=18%  Similarity=0.370  Sum_probs=27.1

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK  243 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g  243 (452)
                      ++.+|+++.|.|++|+|||||+.-++-- .-..|
T Consensus        18 ~i~~Ge~~~liG~nGsGKSTLl~~l~Gl-~p~~G   50 (208)
T 3b85_A           18 AIDTNTIVFGLGPAGSGKTYLAMAKAVQ-ALQSK   50 (208)
T ss_dssp             HHHHCSEEEEECCTTSSTTHHHHHHHHH-HHHTT
T ss_pred             hccCCCEEEEECCCCCCHHHHHHHHhcC-CCcCC
Confidence            3688999999999999999999888765 43344

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=94.04  E-value=0.032  Score=47.76  Aligned_cols=23  Identities=17%  Similarity=0.343  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .++|.|+||+||||++..++...
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l   28 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDL   28 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            48899999999999999998654

>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural genomics, structural GEN consortium, SGC, rRNA, ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}

Probab=94.02  E-value=0.14  Score=46.25  Aligned_cols=50  Identities=12%  Similarity=-0.024  Sum_probs=30.0

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHh---CCCcEEEEeCCC-CHHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIE---NKLPVAIFSMEM-SGIQLAMRMLG  264 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~---~g~~vl~~s~E~-~~~~i~~R~~a  264 (452)
                      .-+++.|++|+|||...+-.+......   .+.+++|+.--- -..++..++..
T Consensus        67 ~~~l~~a~TGsGKT~~~~l~~l~~l~~~~~~~~~~lil~Pt~~L~~q~~~~~~~  120 (245)
T 3dkp_A           67 RELLASAPTGSGKTLAFSIPILMQLKQPANKGFRALIISPTRELASQIHRELIK  120 (245)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHHCSCCSSSCCEEEECSSHHHHHHHHHHHHH
T ss_pred             CCEEEECCCCCcHHHHHHHHHHHHHhhcccCCceEEEEeCCHHHHHHHHHHHHH
Confidence            448999999999997644444443322   355788886432 23444444443

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=94.01  E-value=0.035  Score=52.12  Aligned_cols=39  Identities=10%  Similarity=0.162  Sum_probs=28.0

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      +-++.|+|++|+||||++..++...-. .+..+.+++++.
T Consensus         5 ~~iIgItG~sGSGKSTva~~L~~~lg~-~~~~~~vI~~D~   43 (290)
T 1a7j_A            5 HPIISVTGSSGAGTSTVKHTFDQIFRR-EGVKAVSIEGDA   43 (290)
T ss_dssp             SCEEEEESCC---CCTHHHHHHHHHHH-HTCCEEEEEGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHhh-cCCCeeEeecch
Confidence            458999999999999999999876532 356788888664

>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3 catalytic subunit; nucleotide-binding, capsid protein; 2.75A {Murray valley encephalitis virus}

Probab=94.01  E-value=0.2  Score=52.69  Aligned_cols=54  Identities=20%  Similarity=0.234  Sum_probs=38.0

Q ss_pred             CCcEEEEEeCCCCChhHH-HHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCC
Q psy2892         213 PGDLIIVAGRPSMGKTAF-SLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLD  270 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~-~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~  270 (452)
                      .|.-+++.|++|+|||.. ++.++..+. ..+.+++|++   +..+++..+.....+..
T Consensus       240 ~g~dvlv~apTGSGKTl~~ll~il~~l~-~~~~~~lila---PTr~La~Q~~~~l~~~~  294 (673)
T 2wv9_A          240 KRQLTVLDLHPGAGKTRRILPQIIKDAI-QKRLRTAVLA---PTRVVAAEMAEALRGLP  294 (673)
T ss_dssp             TTCEEEECCCTTTTTTTTHHHHHHHHHH-HTTCCEEEEE---SSHHHHHHHHHHTTTSC
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHHHH-hCCCcEEEEc---cHHHHHHHHHHHHhcCC
Confidence            788999999999999986 455554443 4677899987   44556666555444443

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=94.00  E-value=0.037  Score=49.47  Aligned_cols=26  Identities=19%  Similarity=0.238  Sum_probs=22.2

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++.+++|.|+||+||||++..++...
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            34579999999999999999988754

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=93.96  E-value=0.066  Score=55.33  Aligned_cols=39  Identities=18%  Similarity=0.333  Sum_probs=33.2

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .+.+++|.|+||+|||+++..++..+. ..|.+|++.+.-
T Consensus       203 ~~~~~~I~G~pGTGKTt~i~~l~~~l~-~~g~~Vl~~ApT  241 (574)
T 3e1s_A          203 GHRLVVLTGGPGTGKSTTTKAVADLAE-SLGLEVGLCAPT  241 (574)
T ss_dssp             TCSEEEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEEESS
T ss_pred             hCCEEEEEcCCCCCHHHHHHHHHHHHH-hcCCeEEEecCc
Confidence            467999999999999999999887775 478999988763

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=93.95  E-value=0.036  Score=48.46  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=20.7

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +++|.|+||+||||++..++...
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            58999999999999999998765

>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=93.93  E-value=0.039  Score=47.71  Aligned_cols=24  Identities=29%  Similarity=0.479  Sum_probs=21.0

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+++|.|+||+||||++..++...
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            489999999999999999887653

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=93.90  E-value=0.036  Score=50.83  Aligned_cols=26  Identities=23%  Similarity=0.345  Sum_probs=23.4

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .+|.++.|.|++|+||||++.-++..
T Consensus        25 ~~g~~I~I~G~~GsGKSTl~k~La~~   50 (252)
T 4e22_A           25 AIAPVITVDGPSGAGKGTLCKALAES   50 (252)
T ss_dssp             TTSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            67899999999999999999988754

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=93.89  E-value=0.055  Score=51.51  Aligned_cols=110  Identities=18%  Similarity=0.266  Sum_probs=58.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHH-hCCCcEEEEeCCC---CHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAI-ENKLPVAIFSMEM---SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSI  291 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~-~~g~~vl~~s~E~---~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~  291 (452)
                      ++.|+|++|+|||||+..++..... ..+..|.+++.+.   +...+..+      +.-   -..|....-+...+.+.+
T Consensus        94 iigI~GpsGSGKSTl~~~L~~ll~~~~~~~~v~~i~~D~f~~~~~~l~~~------~~~---~~~g~P~~~D~~~l~~~L  164 (321)
T 3tqc_A           94 IIGIAGSVAVGKSTTSRVLKALLSRWPDHPNVEVITTDGFLYSNAKLEKQ------GLM---KRKGFPESYDMPSLLRVL  164 (321)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGBCCHHHHHHT------TCG---GGTTSGGGBCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcccCCCCeEEEEeecccccchhhhhhH------HHH---hhccCcccccHHHHHHHH
Confidence            8999999999999999877665421 1245688888775   23322111      110   011222223555666666


Q ss_pred             HHHhCC--CeEE--EcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         292 KKINKS--QLYI--DETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       292 ~~l~~~--~l~i--~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                      ..+...  .+.+  .+......  +..   ...... .+++|||+.+..+...
T Consensus       165 ~~L~~g~~~v~~P~yd~~~~~r--~~~---~~~~v~-~~dIVIvEGi~lL~~~  211 (321)
T 3tqc_A          165 NAIKSGQRNVRIPVYSHHYYDI--VRG---QYEIVD-QPDIVILEGLNILQTG  211 (321)
T ss_dssp             HHHHTTCSSEEEEEEETTTTEE--EEE---EEEEEC-SCSEEEEECTTTTCCC
T ss_pred             Hhhhccccccccchhhhhcccc--ccC---ceeecc-CCCEEEEEcccccccc
Confidence            666543  3332  22111100  000   000112 4899999998877654

>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=93.87  E-value=0.15  Score=58.06  Aligned_cols=34  Identities=15%  Similarity=0.238  Sum_probs=27.3

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|+.+.--+++|+++.|.|++|+||||++.-+..
T Consensus       433 vL~~isl~i~~G~~vaivG~sGsGKSTll~ll~~  466 (1321)
T 4f4c_A          433 ILRGMNLRVNAGQTVALVGSSGCGKSTIISLLLR  466 (1321)
T ss_dssp             SEEEEEEEECTTCEEEEEECSSSCHHHHHHHHTT
T ss_pred             eeeceEEeecCCcEEEEEecCCCcHHHHHHHhcc
Confidence            3555544589999999999999999999875553

>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane, nucleotide-binding, RNA replication, transmembrane, viral protein; 1.80A {Japanese encephalitis virus} PDB: 2v8o_A 2qeq_A

Probab=93.87  E-value=0.074  Score=53.36  Aligned_cols=57  Identities=19%  Similarity=0.233  Sum_probs=41.2

Q ss_pred             CCCCcEEEEEeCCCCChhHH-HHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCc
Q psy2892         211 LQPGDLIIVAGRPSMGKTAF-SLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQ  271 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~-~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~  271 (452)
                      +..|..+++.|++|+|||.. ++.++..+. ..+.+++|++   +..+++..+.....|.+.
T Consensus        18 l~~~~~vlv~a~TGsGKT~~~~l~il~~~~-~~~~~~lvl~---Ptr~La~Q~~~~l~g~~v   75 (459)
T 2z83_A           18 LRKRQMTVLDLHPGSGKTRKILPQIIKDAI-QQRLRTAVLA---PTRVVAAEMAEALRGLPV   75 (459)
T ss_dssp             GSTTCEEEECCCTTSCTTTTHHHHHHHHHH-HTTCCEEEEE---CSHHHHHHHHHHTTTSCE
T ss_pred             HhcCCcEEEECCCCCCHHHHHHHHHHHHHH-hCCCcEEEEC---chHHHHHHHHHHhcCceE
Confidence            66788999999999999985 566665554 4678899987   445566666555555544

>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A

Probab=93.86  E-value=0.057  Score=56.46  Aligned_cols=50  Identities=28%  Similarity=0.325  Sum_probs=39.1

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH-HHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG-IQLAMRML  263 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~-~~i~~R~~  263 (452)
                      +.+++|.|+||+|||+++..++..+....+.+|++.+.-... +++..|+.
T Consensus       195 ~~~~li~GppGTGKT~~~~~~i~~l~~~~~~~ilv~a~tn~A~~~l~~~l~  245 (624)
T 2gk6_A          195 RPLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIH  245 (624)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHTSSSCCEEEEESSHHHHHHHHHHHH
T ss_pred             CCCeEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEeCcHHHHHHHHHHHH
Confidence            458999999999999999999988764357889998775444 55666664

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=93.85  E-value=0.067  Score=57.51  Aligned_cols=51  Identities=24%  Similarity=0.266  Sum_probs=40.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH-HHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG-IQLAMRMLG  264 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~-~~i~~R~~a  264 (452)
                      +.+++|.|+||+|||+++..++..+....+.+|+..+.-... +++..|+..
T Consensus       375 ~~~~lI~GppGTGKT~~i~~~i~~l~~~~~~~ILv~a~tn~A~d~l~~rL~~  426 (802)
T 2xzl_A          375 RPLSLIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAPSNVAVDHLAAKLRD  426 (802)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEESSHHHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEEcCcHHHHHHHHHHHHh
Confidence            568999999999999999999887764357889998776544 667777764

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=93.84  E-value=0.037  Score=55.51  Aligned_cols=33  Identities=21%  Similarity=0.231  Sum_probs=27.1

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK  243 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g  243 (452)
                      +.+|+.+.|.|++|+|||||+.-++--.....|
T Consensus       135 i~~Ge~v~IvGpnGsGKSTLlr~L~Gl~~p~~G  167 (460)
T 2npi_A          135 NFEGPRVVIVGGSQTGKTSLSRTLCSYALKFNA  167 (460)
T ss_dssp             SSSCCCEEEEESTTSSHHHHHHHHHHTTHHHHC
T ss_pred             eCCCCEEEEECCCCCCHHHHHHHHhCcccccCC
Confidence            679999999999999999999887765543345

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=93.79  E-value=0.23  Score=50.80  Aligned_cols=26  Identities=19%  Similarity=0.270  Sum_probs=23.3

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .++|+++.|.|++|+|||||+.-++-
T Consensus        22 ~~~Gei~gLiGpNGaGKSTLlkiL~G   47 (538)
T 3ozx_A           22 PKNNTILGVLGKNGVGKTTVLKILAG   47 (538)
T ss_dssp             CCTTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhc
Confidence            56899999999999999999887665

>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=93.78  E-value=0.044  Score=49.94  Aligned_cols=26  Identities=35%  Similarity=0.483  Sum_probs=22.0

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++-.++|.|+||+||||++..++...
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            34579999999999999999988654

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=93.76  E-value=0.047  Score=47.75  Aligned_cols=29  Identities=21%  Similarity=0.412  Sum_probs=25.1

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENK  243 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g  243 (452)
                      |+.+.|.|++|+||||++.-++.... ..|
T Consensus         1 G~~i~i~G~nG~GKTTll~~l~g~~~-~~G   29 (189)
T 2i3b_A            1 ARHVFLTGPPGVGKTTLIHKASEVLK-SSG   29 (189)
T ss_dssp             CCCEEEESCCSSCHHHHHHHHHHHHH-HTT
T ss_pred             CCEEEEECCCCChHHHHHHHHHhhcc-cCC
Confidence            67899999999999999998888775 555

>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=93.73  E-value=0.019  Score=50.89  Aligned_cols=34  Identities=21%  Similarity=0.298  Sum_probs=27.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      +++|.|++|+||||++..++.... ..|.+|.++.
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~-~~g~~v~~~~   35 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFR-AAGRSVATLA   35 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHH-EEEEEEEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH-hcCCeEEEEe
Confidence            689999999999999999988774 2456666553

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=93.71  E-value=0.056  Score=54.71  Aligned_cols=37  Identities=22%  Similarity=0.475  Sum_probs=29.2

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .+++|  ++|.|+||+|||+++..++...    +.+.++++..
T Consensus        62 ~ip~G--vLL~GppGtGKTtLaraIa~~~----~~~~i~i~g~   98 (499)
T 2dhr_A           62 RIPKG--VLLVGPPGVGKTHLARAVAGEA----RVPFITASGS   98 (499)
T ss_dssp             CCCSE--EEEECSSSSSHHHHHHHHHHHT----TCCEEEEEGG
T ss_pred             CCCce--EEEECCCCCCHHHHHHHHHHHh----CCCEEEEehh
Confidence            45666  8999999999999999887643    4677888763

>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=93.71  E-value=0.29  Score=50.37  Aligned_cols=40  Identities=18%  Similarity=0.219  Sum_probs=32.6

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC-CcEEEEeCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK-LPVAIFSME  252 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g-~~vl~~s~E  252 (452)
                      ++|.+++|.|.||+||||++..++..... .| .++.+++.+
T Consensus       394 q~~~~I~l~GlsGSGKSTiA~~La~~L~~-~G~~~~~~lD~D  434 (573)
T 1m8p_A          394 TQGFTIFLTGYMNSGKDAIARALQVTLNQ-QGGRSVSLLLGD  434 (573)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHH-HCSSCEEEEEHH
T ss_pred             ccceEEEeecCCCCCHHHHHHHHHHHhcc-cCCceEEEECcH
Confidence            46779999999999999999999988753 35 778888743

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=93.70  E-value=0.034  Score=57.07  Aligned_cols=43  Identities=12%  Similarity=0.187  Sum_probs=33.5

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      -+.+|++++|.|++|+||||++..++.......|..+.|+..+
T Consensus       365 ~~~~G~iI~LiG~sGSGKSTLar~La~~L~~~~G~~i~~lDgD  407 (552)
T 3cr8_A          365 RERQGFTVFFTGLSGAGKSTLARALAARLMEMGGRCVTLLDGD  407 (552)
T ss_dssp             GGGSCEEEEEEESSCHHHHHHHHHHHHHHHTTCSSCEEEESSH
T ss_pred             ccccceEEEEECCCCChHHHHHHHHHHhhcccCCceEEEECCc
Confidence            4678999999999999999999998887643233457666553

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=93.70  E-value=0.068  Score=47.44  Aligned_cols=37  Identities=19%  Similarity=0.223  Sum_probs=30.6

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      .++|.|++|+|||||+..++....  ...++..++.+..
T Consensus        32 ~i~i~G~~g~GKTTl~~~l~~~~~--~~~~~~~i~~d~~   68 (221)
T 2wsm_A           32 AVNIMGAIGSGKTLLIERTIERIG--NEVKIGAMLGDVV   68 (221)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHT--TTSCEEEEECSCC
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhc--cCCeEEEEecCCC
Confidence            688999999999999999998763  2367888887765

>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=93.69  E-value=0.037  Score=52.28  Aligned_cols=33  Identities=21%  Similarity=0.389  Sum_probs=25.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      +.+++|+||+|+|||+++..+|...      +..++|.+
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~------~~~iis~D   35 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRL------NGEVISGD   35 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTT------TEEEEECC
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhC------ccceeecC
Confidence            4589999999999999999887542      35566664

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=93.69  E-value=0.1  Score=46.45  Aligned_cols=38  Identities=21%  Similarity=0.323  Sum_probs=30.4

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCC-cEEEEeCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKL-PVAIFSME  252 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~-~vl~~s~E  252 (452)
                      +|-++++.|.+|+||||.+..++.... ..|. .|. ++-|
T Consensus         2 ~g~~i~~eG~~gsGKsT~~~~l~~~l~-~~~~~~v~-~~re   40 (213)
T 4tmk_A            2 RSKYIVIEGLEGAGKTTARNVVVETLE-QLGIRDMV-FTRE   40 (213)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHHH-HTTCCCEE-EEES
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCCcce-eeeC
Confidence            478999999999999999999988774 4676 554 4455

>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase, ATP-binding, reticulum, nucleotidyltransferase, multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4} PDB: 2vbc_A 2wzq_A

Probab=93.68  E-value=0.34  Score=50.47  Aligned_cols=57  Identities=21%  Similarity=0.184  Sum_probs=42.1

Q ss_pred             CCCCCcEEEEEeCCCCChhHH-HHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAF-SLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLD  270 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~-~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~  270 (452)
                      -+..|.-+++.|++|+|||.. ++.++..+. ..+.+++|++   +..+++..+.....+..
T Consensus       182 ~l~~g~dvlv~a~TGSGKT~~~~lpil~~l~-~~~~~vLvl~---PtreLa~Qi~~~l~~~~  239 (618)
T 2whx_A          182 IFRKKRLTIMDLHPGAGKTKRILPSIVREAL-KRRLRTLILA---PTRVVAAEMEEALRGLP  239 (618)
T ss_dssp             GGSTTCEEEECCCTTSSTTTTHHHHHHHHHH-HTTCCEEEEE---SSHHHHHHHHHHTTTSC
T ss_pred             HHhcCCeEEEEcCCCCCHHHHHHHHHHHHHH-hCCCeEEEEc---ChHHHHHHHHHHhcCCc
Confidence            356788999999999999984 677777765 3677899987   45666666665544444

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=93.68  E-value=0.046  Score=47.97  Aligned_cols=24  Identities=25%  Similarity=0.349  Sum_probs=20.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ..+++|.|+||+||||++..++..
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~~   38 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVKD   38 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            347999999999999999888754

>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex, ATPase, riken structural genomics/proteomics initiative, RSGI; HET: ANP; 2.20A {Drosophila melanogaster}

Probab=93.68  E-value=0.28  Score=48.59  Aligned_cols=114  Identities=19%  Similarity=0.113  Sum_probs=59.2

Q ss_pred             CcEEEEEeCCCCChhH-HHHHHHHHHHHh------CCCcEEEEeCC-CCHHHHHHHHHHHh--CCCCccccccCCCCcch
Q psy2892         214 GDLIIVAGRPSMGKTA-FSLNIGEHIAIE------NKLPVAIFSME-MSGIQLAMRMLGSV--GKLDQHKLRTGRLSSDD  283 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~-~~l~ia~~~a~~------~g~~vl~~s~E-~~~~~i~~R~~a~~--~~i~~~~i~~g~l~~~~  283 (452)
                      |.-+++.|++|+|||. |++-+..++...      .+.++++++-- .-..++..++....  .++....+ .|..+..+
T Consensus        93 g~d~i~~a~TGsGKT~a~~lpil~~l~~~~~~~~~~~~~~lil~PtreLa~Q~~~~~~~~~~~~~~~~~~~-~gg~~~~~  171 (434)
T 2db3_A           93 GRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIV-YGGTSFRH  171 (434)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHHHHHHHHSCCCCCTTCCSEEEECSSHHHHHHHHHHHHHHTTTSSCCCCEE-CTTSCHHH
T ss_pred             CCCEEEECCCCCCchHHHHHHHHHHHHhcccccccCCccEEEEecCHHHHHHHHHHHHHHhccCCcEEEEE-ECCCCHHH
Confidence            3458999999999997 444444444321      14578888642 12334444443322  22222222 23322211


Q ss_pred             HHHHHHHHHHHh-CCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         284 WPRINDSIKKIN-KSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       284 ~~~~~~a~~~l~-~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      .      ...+. +..+.|.     |++.+...+.+-.....++++||||-.+.|..
T Consensus       172 ~------~~~l~~~~~Ivv~-----Tp~~l~~~l~~~~~~l~~~~~lVlDEah~~~~  217 (434)
T 2db3_A          172 Q------NECITRGCHVVIA-----TPGRLLDFVDRTFITFEDTRFVVLDEADRMLD  217 (434)
T ss_dssp             H------HHHHTTCCSEEEE-----CHHHHHHHHHTTSCCCTTCCEEEEETHHHHTS
T ss_pred             H------HHHhhcCCCEEEE-----ChHHHHHHHHhCCcccccCCeEEEccHhhhhc
Confidence            1      11232 3456654     45666554432211122589999999998765

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=93.67  E-value=0.031  Score=51.93  Aligned_cols=36  Identities=22%  Similarity=0.486  Sum_probs=26.9

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      .+++|  ++|.|+||+|||+++..++...    +.+.++++.
T Consensus        71 ~~~~g--vll~Gp~GtGKTtl~~~i~~~~----~~~~i~~~~  106 (278)
T 1iy2_A           71 RIPKG--VLLVGPPGVGKTHLARAVAGEA----RVPFITASG  106 (278)
T ss_dssp             CCCCE--EEEECCTTSSHHHHHHHHHHHT----TCCEEEEEH
T ss_pred             CCCCe--EEEECCCcChHHHHHHHHHHHc----CCCEEEecH
Confidence            35666  8999999999999999887643    245565553

>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=93.67  E-value=0.046  Score=51.30  Aligned_cols=41  Identities=20%  Similarity=0.202  Sum_probs=29.4

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC--Cc-EEEEeCCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK--LP-VAIFSMEM  253 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g--~~-vl~~s~E~  253 (452)
                      .++.++.|+|++|+|||||+..++..... .|  .+ +.+++.+.
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~~-~g~~~~~~~iv~~D~   72 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLME-KYGGEKSIGYASIDD   72 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHH-HHGGGSCEEEEEGGG
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhhh-cCCCCceEEEecccc
Confidence            35679999999999999999988877643 12  23 44436663

>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=93.66  E-value=0.13  Score=52.18  Aligned_cols=63  Identities=16%  Similarity=0.151  Sum_probs=47.4

Q ss_pred             cccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHH
Q psy2892         195 TGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMR  261 (452)
Q Consensus       195 ~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R  261 (452)
                      ..+.||+..+|-+. .+.+|+=..|.|++|+|||+++.+++.+.   ...-++|.-.....+++.+=
T Consensus       209 epl~TGirvID~l~-PigkGqr~~I~g~~g~GKT~L~~~ia~~~---~~~~~V~~~iGER~~Ev~e~  271 (588)
T 3mfy_A          209 VPLITGQRVIDTFF-PQAKGGTAAIPGPAGSGKTVTQHQLAKWS---DAQVVIYIGCGERGNEMTDV  271 (588)
T ss_dssp             SEECCSCHHHHHHS-CEETTCEEEECSCCSHHHHHHHHHHHHHS---SCSEEEEEECCSSSSHHHHH
T ss_pred             cccccCcchhhccC-CcccCCeEEeecCCCCCHHHHHHHHHhcc---CCCEEEEEEecccHHHHHHH
Confidence            46789999999864 57899999999999999999999876542   23356676665555555443

>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=93.66  E-value=0.039  Score=46.94  Aligned_cols=23  Identities=17%  Similarity=0.323  Sum_probs=20.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +++|.|+||+||||++..++...
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999888754

>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=93.62  E-value=0.051  Score=48.47  Aligned_cols=25  Identities=16%  Similarity=0.347  Sum_probs=22.1

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      ..++|.|+||+|||+++..++....
T Consensus        46 ~~~ll~G~~G~GKT~l~~~~~~~~~   70 (250)
T 1njg_A           46 HAYLFSGTRGVGKTSIARLLAKGLN   70 (250)
T ss_dssp             SEEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhc
Confidence            3789999999999999999987764

>3ez9_A Para; DNA binding, winged-HTH, partition, biosynthetic protein; 2.80A {Salmonella enterica subsp} PDB: 3ezf_A

Probab=93.60  E-value=0.026  Score=55.68  Aligned_cols=39  Identities=10%  Similarity=0.336  Sum_probs=25.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHH-----hCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAI-----ENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~-----~~g~~vl~~s~E~~  254 (452)
                      +.+..|..|+||||++.++|..+|.     +.|.+|+++.++..
T Consensus       114 Iav~s~KGGvGKTT~a~nLA~~LA~~g~~~~~g~rVlliD~D~~  157 (403)
T 3ez9_A          114 IFVVNLKGGVSKTVSTVTLAHALRVHQDLLRHDLRILVIDLDPQ  157 (403)
T ss_dssp             EEECCC--------CHHHHHHHHHSCGGGGGGCCCEEEEEESSS
T ss_pred             EEEEcCCCCchHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCCC
Confidence            5566699999999999999999873     36899999999853

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=93.60  E-value=0.021  Score=52.33  Aligned_cols=36  Identities=22%  Similarity=0.350  Sum_probs=28.1

Q ss_pred             ccccccCCCCC---CcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         203 ELDKITSGLQP---GDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       203 ~LD~~~gG~~~---G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|+.+.--+.+   |..++|.|++|+||||++..++...
T Consensus        34 ~l~~~~~~i~~~l~g~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           34 ILKKKAEEVKPYLNGRSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             HHHHHHHTTHHHHTTCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhhhcCCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            34444334566   9999999999999999999888754

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=93.56  E-value=0.047  Score=48.43  Aligned_cols=23  Identities=30%  Similarity=0.372  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .++|.|+||+||||++..++...
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            37899999999999999887654

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=93.51  E-value=0.027  Score=54.74  Aligned_cols=29  Identities=31%  Similarity=0.448  Sum_probs=25.3

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      -+++|++++|.|++|+||||++.-++...
T Consensus       171 ~i~~G~~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          171 AVQLERVIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             HHHTTCCEEEEESSSSCHHHHHHHHHTTS
T ss_pred             HHhcCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            46799999999999999999998877654

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=93.51  E-value=0.03  Score=51.79  Aligned_cols=34  Identities=26%  Similarity=0.431  Sum_probs=28.1

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .|+.+.--+. |+++.|.|++|+|||||+.-++--
T Consensus        20 il~~vsl~i~-Ge~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           20 SLENINLEVN-GEKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             EEEEEEEEEC-SSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             eEEeeeEEEC-CEEEEEECCCCCCHHHHHHHHhCC
Confidence            4666644589 999999999999999999877653

>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation, exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB: 4a4k_A

Probab=93.45  E-value=0.3  Score=53.89  Aligned_cols=111  Identities=18%  Similarity=0.126  Sum_probs=63.8

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM-SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~-~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      +..|.-+++.|++|+|||..+.-.+... ...|.+++|++--- -..++..++.....++....+ .|..+..       
T Consensus        51 il~g~~vlv~apTGsGKTlv~~~~i~~~-~~~g~~vlvl~PtraLa~Q~~~~l~~~~~~~~v~~l-~G~~~~~-------  121 (997)
T 4a4z_A           51 LEQGDSVFVAAHTSAGKTVVAEYAIAMA-HRNMTKTIYTSPIKALSNQKFRDFKETFDDVNIGLI-TGDVQIN-------  121 (997)
T ss_dssp             HHTTCEEEEECCTTSCSHHHHHHHHHHH-HHTTCEEEEEESCGGGHHHHHHHHHTTC--CCEEEE-CSSCEEC-------
T ss_pred             HHcCCCEEEEECCCCcHHHHHHHHHHHH-HhcCCeEEEEeCCHHHHHHHHHHHHHHcCCCeEEEE-eCCCccC-------
Confidence            4456789999999999997655444444 35678899987643 345666666544334444332 2322211       


Q ss_pred             HHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         290 SIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       290 a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                           .+.++.+.     |++.+.+.+..-.....++++||||-.+.+...
T Consensus       122 -----~~~~IlV~-----Tpe~L~~~l~~~~~~l~~l~lvViDEaH~l~d~  162 (997)
T 4a4z_A          122 -----PDANCLIM-----TTEILRSMLYRGADLIRDVEFVIFDEVHYVNDQ  162 (997)
T ss_dssp             -----TTSSEEEE-----EHHHHHHHHHHTCSGGGGEEEEEECCTTCCCTT
T ss_pred             -----CCCCEEEE-----CHHHHHHHHHhCchhhcCCCEEEEECccccccc
Confidence                 11244443     455565544322111114899999999977654

>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=93.45  E-value=0.059  Score=48.12  Aligned_cols=25  Identities=20%  Similarity=0.417  Sum_probs=21.3

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +..+.|.|+||+||||++.-++...
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            4579999999999999999887643

>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=93.44  E-value=0.033  Score=55.05  Aligned_cols=33  Identities=15%  Similarity=0.264  Sum_probs=27.1

Q ss_pred             cccccCCCCCCcE--EEEEeCCCCChhHHHHHHHH
Q psy2892         204 LDKITSGLQPGDL--IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       204 LD~~~gG~~~G~l--~~i~g~pg~GKT~~~l~ia~  236 (452)
                      |+.+.--+++|++  +.|.|++|+|||||+..++.
T Consensus        30 L~~vsl~i~~Gei~~vaLvG~nGaGKSTLln~L~G   64 (427)
T 2qag_B           30 DQLVNKSVSQGFCFNILCVGETGLGKSTLMDTLFN   64 (427)
T ss_dssp             HHHHHHSCC-CCEEEEEEECSTTSSSHHHHHHHHT
T ss_pred             cCCCceEecCCCeeEEEEECCCCCCHHHHHHHHhC
Confidence            6666456899999  99999999999999887764

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=93.43  E-value=0.17  Score=57.36  Aligned_cols=34  Identities=15%  Similarity=0.273  Sum_probs=27.5

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|+.+.--+++|+.+.|.|++|+||||++.-++.
T Consensus       405 vL~~isl~i~~G~~~~ivG~sGsGKSTl~~ll~g  438 (1284)
T 3g5u_A          405 ILKGLNLKVKSGQTVALVGNSGCGKSTTVQLMQR  438 (1284)
T ss_dssp             SEEEEEEEECTTCEEEEECCSSSSHHHHHHHTTT
T ss_pred             ceecceEEEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            4555544589999999999999999999876654

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=93.41  E-value=0.055  Score=45.89  Aligned_cols=24  Identities=17%  Similarity=0.408  Sum_probs=21.1

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +.++|.|.||+||||++..++...
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999887654

>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=93.41  E-value=0.035  Score=55.33  Aligned_cols=65  Identities=15%  Similarity=0.253  Sum_probs=48.9

Q ss_pred             cccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC---CCcEEEEeCCCCHHHHHH
Q psy2892         195 TGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN---KLPVAIFSMEMSGIQLAM  260 (452)
Q Consensus       195 ~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~---g~~vl~~s~E~~~~~i~~  260 (452)
                      ..+.||+..+|-+. .+.+|+=..|.|++|+|||+++.++|.+....+   +..++|.-..+..+++.+
T Consensus       134 e~l~TGir~ID~l~-pigrGQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~~Ev~e  201 (469)
T 2c61_A          134 DFIQTGISTIDGTN-TLVRGQKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQY  201 (469)
T ss_dssp             SBCBCSCHHHHTTS-CCBTTCBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECHHHHHH
T ss_pred             cccceeeEeeeeee-ccccCCEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCcHHHHH
Confidence            46899999999874 577888888999999999999999998764321   234677666666655443

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=93.40  E-value=0.046  Score=52.30  Aligned_cols=32  Identities=28%  Similarity=0.478  Sum_probs=25.8

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .+++|+|++|+|||+|+..++...    +  +.++|.+
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l----~--~~iis~D   39 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF----N--GEIISGD   39 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT----T--EEEEECC
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc----C--Cceeccc
Confidence            389999999999999999988653    2  5667765

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*

Probab=93.40  E-value=0.22  Score=49.88  Aligned_cols=96  Identities=16%  Similarity=0.102  Sum_probs=58.3

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-CCHHHHHHHHHHHhCCCC-ccccccCCCCcchHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-MSGIQLAMRMLGSVGKLD-QHKLRTGRLSSDDWPRINDSIK  292 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~~~~~i~~R~~a~~~~i~-~~~i~~g~l~~~~~~~~~~a~~  292 (452)
                      .-++|++++|+|||..++..+...    +.+|+++.-. .-..++..++..  .+++ .. +..|....           
T Consensus       109 ~~~ll~~~TGsGKT~~~l~~i~~~----~~~~Lvl~P~~~L~~Q~~~~~~~--~~~~~v~-~~~g~~~~-----------  170 (472)
T 2fwr_A          109 KRGCIVLPTGSGKTHVAMAAINEL----STPTLIVVPTLALAEQWKERLGI--FGEEYVG-EFSGRIKE-----------  170 (472)
T ss_dssp             TEEEEECCTTSCHHHHHHHHHHHH----CSCEEEEESSHHHHHHHHHHGGG--GCGGGEE-EBSSSCBC-----------
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHc----CCCEEEEECCHHHHHHHHHHHHh--CCCcceE-EECCCcCC-----------
Confidence            348999999999999888776654    5789998766 344556666544  2443 22 22232221           


Q ss_pred             HHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         293 KINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       293 ~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                         ..++.|.     |.+.+...+..+.  . ++++||||-.+.+..
T Consensus       171 ---~~~Ivv~-----T~~~l~~~~~~~~--~-~~~liIvDEaH~~~~  206 (472)
T 2fwr_A          171 ---LKPLTVS-----TYDSAYVNAEKLG--N-RFMLLIFDEVHHLPA  206 (472)
T ss_dssp             ---CCSEEEE-----EHHHHHHTHHHHT--T-TCSEEEEETGGGTTS
T ss_pred             ---cCCEEEE-----EcHHHHHHHHHhc--C-CCCEEEEECCcCCCC
Confidence               1245443     3344444333221  2 489999999998764

>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=93.34  E-value=0.063  Score=48.38  Aligned_cols=26  Identities=19%  Similarity=0.383  Sum_probs=22.5

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++..++|.|+||+||||++..++...
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            34589999999999999999998764

>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=93.32  E-value=0.045  Score=49.34  Aligned_cols=35  Identities=14%  Similarity=0.199  Sum_probs=27.8

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEE
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIF  249 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~  249 (452)
                      ...+|.++.|.|+.|+||||++..++..     +..|.+.
T Consensus        16 ~~~~g~~i~i~G~~GsGKSTl~~~L~~~-----~g~v~~~   50 (230)
T 2vp4_A           16 EGTQPFTVLIEGNIGSGKTTYLNHFEKY-----KNDICLL   50 (230)
T ss_dssp             TTCCCEEEEEECSTTSCHHHHHHTTGGG-----TTTEEEE
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHhc-----cCCeEEE
Confidence            4678999999999999999998876653     3456654

>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=93.30  E-value=0.046  Score=47.65  Aligned_cols=22  Identities=18%  Similarity=0.356  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++|+||+|+||||++..+...
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5899999999999999887654

>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=93.29  E-value=0.092  Score=50.21  Aligned_cols=24  Identities=33%  Similarity=0.675  Sum_probs=21.2

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +.++|.|+||+|||+++.-++...
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHh
Confidence            468999999999999999888765

>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=93.28  E-value=0.071  Score=51.83  Aligned_cols=34  Identities=26%  Similarity=0.515  Sum_probs=26.9

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +.-+++.|+||+|||++|..++...    +.+++.+++
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l----~~~~~~~~~  105 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHL----DIPIAISDA  105 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT----TCCEEEEEG
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHh----CCCEEEecc
Confidence            3358999999999999999888654    567777764

>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=93.25  E-value=0.057  Score=50.87  Aligned_cols=33  Identities=27%  Similarity=0.563  Sum_probs=25.6

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ..+++|+||+|+|||+++..+|...      +.-++|.+
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~------~~~iis~D   42 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKIL------PVELISVD   42 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHS------CEEEEECC
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhC------CCcEEecc
Confidence            3489999999999999999987642      34456664

>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=93.20  E-value=0.051  Score=48.25  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCChhHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .++|.|+||+||||++..++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~   23 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEK   23 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999988753

>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=93.19  E-value=0.079  Score=53.15  Aligned_cols=38  Identities=13%  Similarity=0.138  Sum_probs=31.4

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCC-cEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKL-PVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~-~vl~~s~E~~  254 (452)
                      .++|.|+||+|||+++..++..+.. .|. +|+.++.-..
T Consensus        47 ~~li~G~aGTGKT~ll~~~~~~l~~-~~~~~il~~a~T~~   85 (459)
T 3upu_A           47 HVTINGPAGTGATTLTKFIIEALIS-TGETGIILAAPTHA   85 (459)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHH-TTCCCEEEEESSHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHh-cCCceEEEecCcHH
Confidence            9999999999999999999988864 455 7888766543

>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens}

Probab=93.19  E-value=0.24  Score=48.39  Aligned_cols=114  Identities=13%  Similarity=0.069  Sum_probs=58.0

Q ss_pred             CcEEEEEeCCCCChhHH-HHHHHHHHHHhC-------------------CCcEEEEeCC-CCHHHHHHHHHHHh--CCCC
Q psy2892         214 GDLIIVAGRPSMGKTAF-SLNIGEHIAIEN-------------------KLPVAIFSME-MSGIQLAMRMLGSV--GKLD  270 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~-~l~ia~~~a~~~-------------------g~~vl~~s~E-~~~~~i~~R~~a~~--~~i~  270 (452)
                      |.-+++.|++|+|||.. ++-++..+....                   +.+++|+.-- .-..++..++....  .++.
T Consensus        52 ~~~~lv~a~TGsGKT~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~  131 (417)
T 2i4i_A           52 KRDLMACAQTGSGKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVR  131 (417)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHHHHHHHCCCHHHHHHHHCBTTBSCSBCCSEEEECSSHHHHHHHHHHHHHHHTTSSCC
T ss_pred             CCCEEEEcCCCCHHHHHHHHHHHHHHHhccccchhhccccccccccccCCccEEEECCcHHHHHHHHHHHHHHhCcCCce
Confidence            45588999999999964 444444432211                   1458887543 23345555554322  2332


Q ss_pred             ccccccCCCCcchHHHHHHHHHHHh-CCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         271 QHKLRTGRLSSDDWPRINDSIKKIN-KSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       271 ~~~i~~g~l~~~~~~~~~~a~~~l~-~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      ...+. |..+..+      ....+. +.++.+.     |++.+...+..-.....++++||||-.+.+..
T Consensus       132 ~~~~~-g~~~~~~------~~~~~~~~~~I~v~-----Tp~~l~~~l~~~~~~~~~~~~iViDEah~~~~  189 (417)
T 2i4i_A          132 PCVVY-GGADIGQ------QIRDLERGCHLLVA-----TPGRLVDMMERGKIGLDFCKYLVLDEADRMLD  189 (417)
T ss_dssp             EEEEC-SSSCHHH------HHHHHTTCCSEEEE-----CHHHHHHHHHTTSBCCTTCCEEEESSHHHHHH
T ss_pred             EEEEE-CCCCHHH------HHHHhhCCCCEEEE-----ChHHHHHHHHcCCcChhhCcEEEEEChhHhhc
Confidence            22222 2222211      112232 3355554     45566554432111112478999999998765

>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea, helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16 c.37.1.16 e.10.1.1 PDB: 1gl9_B*

Probab=93.16  E-value=0.093  Score=58.30  Aligned_cols=114  Identities=16%  Similarity=0.179  Sum_probs=66.4

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHHHHhCCCCc-----cccccCCCCcchHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM-SGIQLAMRMLGSVGKLDQ-----HKLRTGRLSSDDWPR  286 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~-~~~~i~~R~~a~~~~i~~-----~~i~~g~l~~~~~~~  286 (452)
                      .|.-+++.|++|+|||.+++-++.... ..+.+++|++--- -..|+..++.......+.     -....|..+..+..+
T Consensus        70 ~g~dvlv~apTGSGKTl~~lp~l~~~~-~~~~~~lil~PtreLa~Q~~~~l~~l~~~~~i~~~~~v~~~~Gg~~~~~~~~  148 (1054)
T 1gku_B           70 RKESFAATAPTGVGKTSFGLAMSLFLA-LKGKRCYVIFPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKEN  148 (1054)
T ss_dssp             TTCCEECCCCBTSCSHHHHHHHHHHHH-TTSCCEEEEESCHHHHHHHHHHHHHHHTTTCCSGGGSEEECCSSCCSHHHHH
T ss_pred             hCCCEEEEcCCCCCHHHHHHHHHHHHh-hcCCeEEEEeccHHHHHHHHHHHHHHHhhcCCCccceEEEEeCCCChhhHHH
Confidence            456789999999999998887777665 4677888886432 234455555443332222     112334444433222


Q ss_pred             HHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         287 INDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       287 ~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      .   .+.+.+.++.+.     |++.+...+..    ..++++||||-.+.|..
T Consensus       149 ~---~~~l~~~~IlV~-----TP~~L~~~l~~----L~~l~~lViDEah~~l~  189 (1054)
T 1gku_B          149 F---MQNLRNFKIVIT-----TTQFLSKHYRE----LGHFDFIFVDDVDAILK  189 (1054)
T ss_dssp             H---HHSGGGCSEEEE-----EHHHHHHCSTT----SCCCSEEEESCHHHHHT
T ss_pred             H---HhhccCCCEEEE-----cHHHHHHHHHH----hccCCEEEEeChhhhhh
Confidence            1   223334455554     34555554433    22589999999988664

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=93.12  E-value=0.062  Score=45.42  Aligned_cols=23  Identities=17%  Similarity=0.223  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .++|.|.||+||||++..++...
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            57899999999999999888754

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=93.05  E-value=0.056  Score=51.36  Aligned_cols=32  Identities=19%  Similarity=0.477  Sum_probs=25.3

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .+++|+|+||+|||+++..++...    +  +.+++.+
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l----~--~~iis~D   37 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL----P--CELISVD   37 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS----C--EEEEEEC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc----C--CcEEecc
Confidence            379999999999999999987643    2  5666664

>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=93.04  E-value=0.055  Score=47.49  Aligned_cols=21  Identities=24%  Similarity=0.262  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCChhHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .+.|.|++|+||||++..++.
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            588999999999999988875

>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=93.04  E-value=0.074  Score=51.49  Aligned_cols=34  Identities=18%  Similarity=0.355  Sum_probs=26.6

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +.-+++.|+||+|||++|..++...    +.+.+.+++
T Consensus        51 ~~~vll~GppGtGKT~la~~ia~~~----~~~~~~~~~   84 (363)
T 3hws_A           51 KSNILLIGPTGSGKTLLAETLARLL----DVPFTMADA   84 (363)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT----TCCEEEEEH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc----CCCEEEech
Confidence            3458999999999999999988654    566666654

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=93.01  E-value=0.071  Score=50.35  Aligned_cols=44  Identities=14%  Similarity=0.212  Sum_probs=33.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAM  260 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~  260 (452)
                      -++|.|+||+|||++|..++.... ..+.+++++++..-+..+..
T Consensus        27 ~vLi~Ge~GtGKt~lAr~i~~~~~-~~~~~~v~v~~~~~~~~l~~   70 (304)
T 1ojl_A           27 TVLIHGDSGTGKELVARALHACSA-RSDRPLVTLNCAALNESLLE   70 (304)
T ss_dssp             CEEEESCTTSCHHHHHHHHHHHSS-CSSSCCCEEECSSCCHHHHH
T ss_pred             cEEEECCCCchHHHHHHHHHHhCc-ccCCCeEEEeCCCCChHHHH
Confidence            588999999999999998887653 35678888877655454443

>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=93.01  E-value=0.075  Score=50.26  Aligned_cols=34  Identities=21%  Similarity=0.384  Sum_probs=27.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      .++|.|+||+|||+++..++...    +.++.++++..
T Consensus        40 ~vll~G~~GtGKT~la~~i~~~~----~~~~~~~~~~~   73 (324)
T 1hqc_A           40 HLLLFGPPGLGKTTLAHVIAHEL----GVNLRVTSGPA   73 (324)
T ss_dssp             CCEEECCTTCCCHHHHHHHHHHH----TCCEEEECTTT
T ss_pred             cEEEECCCCCCHHHHHHHHHHHh----CCCEEEEeccc
Confidence            58899999999999999988754    46777776543

>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=92.98  E-value=0.036  Score=51.05  Aligned_cols=22  Identities=23%  Similarity=0.533  Sum_probs=19.7

Q ss_pred             EEEEeCCCCChhHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++|.|+||+|||+++..++...
T Consensus        47 vll~G~~GtGKT~la~~la~~~   68 (268)
T 2r62_A           47 VLLVGPPGTGKTLLAKAVAGEA   68 (268)
T ss_dssp             CCCBCSSCSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHh
Confidence            7899999999999999888754

>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=92.96  E-value=0.9  Score=45.48  Aligned_cols=38  Identities=26%  Similarity=0.430  Sum_probs=30.2

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ..++++.|.||+||||++..++...-. .+.++..|+.+
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~~-~~~~t~~~~~d   76 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLNF-IGVPTREFNVG   76 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHH-TTCCEEEEEHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHhc-cCCCceEEecc
Confidence            458999999999999999999987754 45666666553

>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=92.95  E-value=0.042  Score=52.69  Aligned_cols=23  Identities=26%  Similarity=0.485  Sum_probs=21.1

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      +++.|+||+|||+++..++..+.
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~l~   71 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALAREIY   71 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHc
Confidence            89999999999999999988764

>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=92.93  E-value=0.067  Score=48.38  Aligned_cols=25  Identities=20%  Similarity=0.375  Sum_probs=21.6

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .-++.|.|+||+||||++..++...
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            3489999999999999999887654

>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=92.93  E-value=0.1  Score=53.07  Aligned_cols=64  Identities=19%  Similarity=0.155  Sum_probs=49.8

Q ss_pred             cccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH
Q psy2892         195 TGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM  262 (452)
Q Consensus       195 ~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~  262 (452)
                      ..+.||+..+|-+. .+.+|+=..|.|++|+|||+++.+++.+.   ...-++|.-.....+++.+=+
T Consensus       214 epl~TGirvID~l~-PigrGqr~~Ifgg~g~GKT~L~~~ia~~~---~~~v~V~~~iGER~~Ev~e~~  277 (600)
T 3vr4_A          214 VPMITGQRVIDTFF-PVTKGGAAAVPGPFGAGKTVVQHQIAKWS---DVDLVVYVGCGERGNEMTDVV  277 (600)
T ss_dssp             SBCCCCCHHHHHHS-CCBTTCEEEEECCTTSCHHHHHHHHHHHS---SCSEEEEEEEEECHHHHHHHH
T ss_pred             ceecccchhhhccC-CccCCCEEeeecCCCccHHHHHHHHHhcc---CCCEEEEEEecccHHHHHHHH
Confidence            46889999999864 58899999999999999999999887653   234467776666666665544

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=92.91  E-value=0.067  Score=47.92  Aligned_cols=23  Identities=17%  Similarity=0.206  Sum_probs=20.4

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +++|.|+||+||||++..++...
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            58999999999999999988754

>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=92.88  E-value=0.058  Score=47.47  Aligned_cols=21  Identities=19%  Similarity=0.278  Sum_probs=18.6

Q ss_pred             EEEEEeCCCCChhHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++.|.|++|+||||++..++.
T Consensus         4 ~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999988764

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=92.86  E-value=0.083  Score=47.71  Aligned_cols=29  Identities=21%  Similarity=0.209  Sum_probs=23.7

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ...+|..+.|.|++|+||||++..++...
T Consensus        12 ~~~~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           12 DKMKTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             --CCCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             cccCCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            46778899999999999999998877643

>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=92.86  E-value=0.061  Score=46.49  Aligned_cols=23  Identities=39%  Similarity=0.674  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+.|.|++|+|||||+.-++-..
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            47899999999999998887655

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=92.86  E-value=0.25  Score=56.07  Aligned_cols=34  Identities=15%  Similarity=0.307  Sum_probs=27.7

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|+.+.--+++|+.+.|.|++|+||||++.-++.
T Consensus      1048 ~l~~vsl~i~~Ge~v~ivG~sGsGKSTl~~~l~g 1081 (1284)
T 3g5u_A         1048 VLQGLSLEVKKGQTLALVGSSGCGKSTVVQLLER 1081 (1284)
T ss_dssp             SBSSCCEEECSSSEEEEECSSSTTHHHHHHHHTT
T ss_pred             eecceeEEEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            4555544579999999999999999999887664

>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=92.74  E-value=0.074  Score=52.03  Aligned_cols=24  Identities=25%  Similarity=0.678  Sum_probs=21.7

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+++|+||+|+|||+++..++...
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~   26 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKF   26 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             cEEEEECcchhhHHHHHHHHHHHC
Confidence            488999999999999999999765

>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=92.71  E-value=0.069  Score=47.45  Aligned_cols=24  Identities=13%  Similarity=0.243  Sum_probs=20.5

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++-+++|.|++|+||||++..++.
T Consensus         3 ~~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            3 LRYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            345899999999999999988764

>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=92.71  E-value=0.086  Score=44.03  Aligned_cols=27  Identities=19%  Similarity=0.347  Sum_probs=21.9

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      |.+| +++|.|++|+|||+++-.+....
T Consensus        21 f~~g-~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           21 FKEG-INLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             CCSE-EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cCCC-eEEEECCCCCCHHHHHHHHHHHH
Confidence            4454 99999999999999987776643

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=92.69  E-value=0.1  Score=49.79  Aligned_cols=32  Identities=19%  Similarity=0.249  Sum_probs=24.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      -++|.|+||+|||+++..++..    .+.++..+++
T Consensus        57 ~vll~G~~GtGKT~la~~ia~~----~~~~~~~~~~   88 (338)
T 3pfi_A           57 HILFSGPAGLGKTTLANIISYE----MSANIKTTAA   88 (338)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH----TTCCEEEEEG
T ss_pred             eEEEECcCCCCHHHHHHHHHHH----hCCCeEEecc
Confidence            3799999999999999998654    3455666654

>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=92.67  E-value=0.074  Score=46.42  Aligned_cols=23  Identities=17%  Similarity=0.216  Sum_probs=19.9

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ..++.|+|++|+||||++..++.
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~   30 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRS   30 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            34789999999999999988765

>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=92.67  E-value=0.33  Score=46.37  Aligned_cols=22  Identities=23%  Similarity=0.388  Sum_probs=20.3

Q ss_pred             EEEEeCCCCChhHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++|.|+||+|||+++..++..+
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~~l   60 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLESI   60 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            8999999999999999988865

>2v1x_A ATP-dependent DNA helicase Q1; DNA strand annealing, mismatch repair, nucleotide-binding, DNA-binding, polymorphism, nuclear protein, ATPase; HET: ADP; 2.00A {Homo sapiens} PDB: 2wwy_A*

Probab=92.64  E-value=0.67  Score=47.94  Aligned_cols=113  Identities=10%  Similarity=0.023  Sum_probs=59.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC-HHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS-GIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK  292 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~-~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~  292 (452)
                      |.-+++.+|+|+|||... ++..-   ..+..+++++---+ ..+...++...  |+.... ..+..+.++...+.....
T Consensus        59 g~d~lv~~pTGsGKTl~~-~lpal---~~~g~~lVisP~~~L~~q~~~~l~~~--gi~~~~-l~~~~~~~~~~~~~~~l~  131 (591)
T 2v1x_A           59 GKEVFLVMPTGGGKSLCY-QLPAL---CSDGFTLVICPLISLMEDQLMVLKQL--GISATM-LNASSSKEHVKWVHAEMV  131 (591)
T ss_dssp             TCCEEEECCTTSCTTHHH-HHHHH---TSSSEEEEECSCHHHHHHHHHHHHHH--TCCEEE-CCSSCCHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCChHHHHH-HHHHH---HcCCcEEEEeCHHHHHHHHHHHHHhc--CCcEEE-EeCCCCHHHHHHHHHHhh
Confidence            455899999999999533 33221   23457888864321 23444554432  555433 344555544433322221


Q ss_pred             HHh-CCCeEEEcCCCCCHHHH------HHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         293 KIN-KSQLYIDETPSLNVIEL------RANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       293 ~l~-~~~l~i~~~~~~t~~~i------~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      ... ..++.+.     |++.+      ...+....... ++++||||-.+.+..
T Consensus       132 ~~~~~~~Ilv~-----Tpe~L~~~~~~~~~l~~~~~~~-~i~~iViDEAH~is~  179 (591)
T 2v1x_A          132 NKNSELKLIYV-----TPEKIAKSKMFMSRLEKAYEAR-RFTRIAVDEVHCCSQ  179 (591)
T ss_dssp             CTTCCCCEEEE-----CHHHHHSCHHHHHHHHHHHHTT-CEEEEEEETGGGGST
T ss_pred             cccCCCCEEEE-----ChhHhhccHHHHHHHHhhhhcc-CCcEEEEECcccccc
Confidence            111 2344443     33333      33333332223 599999999998864

>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A

Probab=92.62  E-value=0.12  Score=55.65  Aligned_cols=50  Identities=28%  Similarity=0.325  Sum_probs=38.2

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH-HHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG-IQLAMRML  263 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~-~~i~~R~~  263 (452)
                      +.+++|.|+||+|||+++..++..+....+.+|+..+.-... +++.+|+.
T Consensus       371 ~~~~lI~GppGTGKT~ti~~~i~~l~~~~~~~ilv~a~tn~A~~~l~~~l~  421 (800)
T 2wjy_A          371 RPLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIH  421 (800)
T ss_dssp             SSEEEEECCTTSCHHHHHHHHHHHHHTTCSSCEEEEESSHHHHHHHHHHHH
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHHHHcCCCcEEEEcCcHHHHHHHHHHHH
Confidence            568999999999999999999888764357889888765433 45556654

>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=92.60  E-value=0.076  Score=47.09  Aligned_cols=22  Identities=36%  Similarity=0.419  Sum_probs=19.6

Q ss_pred             EEEEeCCCCChhHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++|.|+||+||||++..++...
T Consensus         3 I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            3 IILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999888754

>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=92.55  E-value=0.064  Score=50.28  Aligned_cols=22  Identities=23%  Similarity=0.487  Sum_probs=20.0

Q ss_pred             cEEEEEeCCCCChhHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .+++|.|+||+||||++..++.
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998876

>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=92.44  E-value=0.11  Score=47.91  Aligned_cols=27  Identities=22%  Similarity=0.318  Sum_probs=22.8

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++..-+++.||||+|||.|+..+|...
T Consensus       102 ~~~n~~~l~GppgtGKt~~a~ala~~~  128 (267)
T 1u0j_A          102 GKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHhhh
Confidence            555679999999999999999887753

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C

Probab=92.36  E-value=0.1  Score=52.82  Aligned_cols=64  Identities=19%  Similarity=0.167  Sum_probs=49.5

Q ss_pred             cccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH
Q psy2892         195 TGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM  262 (452)
Q Consensus       195 ~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~  262 (452)
                      ..+.||+..+|-+. .+.+|+=..|.|++|+|||+++.+++.+.   ...-++|.-.....+++.+=+
T Consensus       203 epl~TGirvID~l~-PigrGqr~~Ifg~~g~GKT~l~~~ia~~~---~~~v~V~~~iGER~~Ev~e~~  266 (578)
T 3gqb_A          203 TPFLTGMRILDVLF-PVAMGGTAAIPGPFGSGKSVTQQSLAKWS---NADVVVYVGSGERGNEMTDVL  266 (578)
T ss_dssp             SEECCSCHHHHTTS-CEETTCEEEECCCTTSCHHHHHHHHHHHS---SCSEEEEEEEEECHHHHHHHH
T ss_pred             Ccccccchhhhhcc-cccCCCEEeeeCCCCccHHHHHHHHHhcc---CCCEEEEEEecccHHHHHHHH
Confidence            46889999999864 57889999999999999999999887653   234567776666666665443

>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=92.32  E-value=0.085  Score=54.13  Aligned_cols=26  Identities=31%  Similarity=0.678  Sum_probs=23.7

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +|..++|.|+||+|||+++..++...
T Consensus       107 ~g~~vll~Gp~GtGKTtlar~ia~~l  132 (543)
T 3m6a_A          107 KGPILCLAGPPGVGKTSLAKSIAKSL  132 (543)
T ss_dssp             CSCEEEEESSSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            68899999999999999999888765

>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=92.30  E-value=0.084  Score=44.95  Aligned_cols=23  Identities=30%  Similarity=0.631  Sum_probs=19.4

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia  235 (452)
                      +|.-++|.|+||+|||+|...++
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~   25 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALA   25 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHh
Confidence            46678999999999999998775

>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=92.29  E-value=0.071  Score=46.81  Aligned_cols=32  Identities=19%  Similarity=0.222  Sum_probs=25.4

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia  235 (452)
                      ..|+.  -.+.+|..++|.|++|+|||||+..++
T Consensus        16 ~~l~~--~~~~~~~~v~lvG~~g~GKSTLl~~l~   47 (210)
T 1pui_A           16 PDIRH--LPSDTGIEVAFAGRSNAGKSSALNTLT   47 (210)
T ss_dssp             SSGGG--SSCSCSEEEEEEECTTSSHHHHHTTTC
T ss_pred             CCHhH--CCCCCCcEEEEECCCCCCHHHHHHHHh
Confidence            34444  247789999999999999999987664

>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.70A {Anas platyrhynchos}

Probab=92.28  E-value=0.64  Score=50.92  Aligned_cols=115  Identities=16%  Similarity=0.092  Sum_probs=63.1

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhC----CCcEEEEeCCC-CHHHHHHHHHHHh--CCCCccccccCCCCc-chH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIEN----KLPVAIFSMEM-SGIQLAMRMLGSV--GKLDQHKLRTGRLSS-DDW  284 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~----g~~vl~~s~E~-~~~~i~~R~~a~~--~~i~~~~i~~g~l~~-~~~  284 (452)
                      .|.-+++++++|+|||..++..+.......    +.+|++++--- -..++..++....  .++....+. |..+. ..+
T Consensus       262 ~g~~~ll~a~TGsGKTl~~~~~i~~~l~~~~~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~-G~~~~~~~~  340 (936)
T 4a2w_A          262 NGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGIS-GENFSNVSV  340 (936)
T ss_dssp             TTCCEEEECCTTSCHHHHHHHHHHTTTTTCCSSCCCCEEEECSSHHHHHHHHHHHHHHHHTTTCCEEEEC-CC-----CC
T ss_pred             cCCCEEEEeCCCchHHHHHHHHHHHHHHhccccCCCeEEEEeCCHHHHHHHHHHHHHHhcccCceEEEEE-CCcchhhHH
Confidence            345689999999999987777666654322    67899987532 3345555544332  245444333 33221 112


Q ss_pred             HHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHH-HcCCccEEEEcCcchhcc
Q psy2892         285 PRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSR-QCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       285 ~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~-~~~~~~~vvID~l~~i~~  339 (452)
                      ..+      ..+..+.|.     |++.+...+..-.. ...++++||||-.+.+..
T Consensus       341 ~~~------~~~~~IvI~-----Tp~~L~~~l~~~~~~~l~~~~liViDEaH~~~~  385 (936)
T 4a2w_A          341 EKV------IEDSDIIVV-----TPQILVNSFEDGTLTSLSIFTLMIFDECHNTTG  385 (936)
T ss_dssp             HHH------HHHCSEEEE-----CHHHHHHHHHSSSCCCGGGCSEEEEETGGGCST
T ss_pred             HHh------ccCCCEEEe-----cHHHHHHHHHcCccccccCCCEEEEECccccCC
Confidence            221      123456664     45555554432000 011368999999988764

>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=92.28  E-value=0.031  Score=53.50  Aligned_cols=29  Identities=38%  Similarity=0.568  Sum_probs=24.5

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      -+++|+++.|.|++|+|||||+.-++...
T Consensus       167 ~i~~g~~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          167 GIAIGKNVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             HHHHTCCEEEEESTTSCHHHHHHHGGGGS
T ss_pred             hccCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            35789999999999999999988776544

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=92.27  E-value=0.086  Score=45.14  Aligned_cols=24  Identities=21%  Similarity=0.436  Sum_probs=21.0

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|.-++|.|+||+|||++++.++.
T Consensus        15 ~G~gvli~G~SGaGKStlal~L~~   38 (181)
T 3tqf_A           15 DKMGVLITGEANIGKSELSLALID   38 (181)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHH
Confidence            355699999999999999998876

>4gl2_A Interferon-induced helicase C domain-containing P; MDA5, dsRNA, anti-viral signaling, RIG-I, MAVS, oligomerizat helicase, ATPase; HET: ANP; 3.56A {Homo sapiens}

Probab=92.22  E-value=0.17  Score=53.35  Aligned_cols=113  Identities=19%  Similarity=0.176  Sum_probs=62.8

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhC-----CCcEEEEeCCCC-HHHH-HHHHHHHhCC-CCccccccCCCC-cchHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIEN-----KLPVAIFSMEMS-GIQL-AMRMLGSVGK-LDQHKLRTGRLS-SDDWP  285 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~-----g~~vl~~s~E~~-~~~i-~~R~~a~~~~-i~~~~i~~g~l~-~~~~~  285 (452)
                      .-++|++++|+|||..++..+.......     +.+|++++---+ ..++ ..++...... +....+. |..+ .+.+.
T Consensus        23 ~~~ll~~~TGsGKTl~~~~~i~~~l~~~~~~~~~~~vlvl~P~~~L~~Q~~~~~l~~~~~~~~~v~~~~-g~~~~~~~~~  101 (699)
T 4gl2_A           23 KNIIICLPTGCGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNKVLLVEQLFRKEFQPFLKKWYRVIGLS-GDTQLKISFP  101 (699)
T ss_dssp             CCEEECCCTTSCHHHHHHHHHHHHHHHHHHHTCCCCBCCEESCSHHHHHHHHHTHHHHHTTTSCEEEEC-----CCCCHH
T ss_pred             CCEEEEcCCCCcHHHHHHHHHHHHHHhccccCCCCeEEEEECCHHHHHHHHHHHHHHHcCcCceEEEEe-CCcchhhHHH
Confidence            3489999999999998887777654321     267888877643 3556 5555443322 3333332 3322 22333


Q ss_pred             HHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHH------HHcCCccEEEEcCcchhcc
Q psy2892         286 RINDSIKKINKSQLYIDETPSLNVIELRANSRRLS------RQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       286 ~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~------~~~~~~~~vvID~l~~i~~  339 (452)
                      .+      .....+.|.     |++.+...+....      ....++++||||-.+.+..
T Consensus       102 ~~------~~~~~Ilv~-----Tp~~L~~~l~~~~~~~~~~~~~~~~~lvViDEaH~~~~  150 (699)
T 4gl2_A          102 EV------VKSCDIIIS-----TAQILENSLLNLENGEDAGVQLSDFSLIIIDECHHTNK  150 (699)
T ss_dssp             HH------HHSCSEEEE-----EHHHHHHHTC--------CCCGGGCSEEEEESGGGCBT
T ss_pred             hh------hcCCCEEEE-----CHHHHHHHHhccccccccceecccCcEEEEECccccCc
Confidence            22      134566664     3455554431110      0111489999999998754

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=92.19  E-value=0.15  Score=45.30  Aligned_cols=37  Identities=16%  Similarity=0.146  Sum_probs=28.7

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      .++|.|.+|+|||+|+.+++.....  ..++..+..+..
T Consensus        40 ~i~ivG~~gvGKTtl~~~l~~~~~~--~~~~~~i~~d~~   76 (226)
T 2hf9_A           40 AFDFMGAIGSGKTLLIEKLIDNLKD--KYKIACIAGDVI   76 (226)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTT--TCCEEEEEEETT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhcc--CCeEEEEECCCC
Confidence            5788899999999999999987642  356776666544

>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=92.01  E-value=0.25  Score=56.27  Aligned_cols=168  Identities=11%  Similarity=0.171  Sum_probs=91.0

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC----CCCHHHHHHHHHHHhCCCCccc-----
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM----EMSGIQLAMRMLGSVGKLDQHK-----  273 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~----E~~~~~i~~R~~a~~~~i~~~~-----  273 (452)
                      -|+.+.--+++|+.+.|+|++|+||||++.-+..-.  ......+++..    +.+...+..++    +=|+.+.     
T Consensus      1094 VL~~isl~I~~Ge~vaIVG~SGsGKSTL~~lL~rl~--~p~~G~I~iDG~di~~i~~~~lR~~i----~~V~Qdp~LF~g 1167 (1321)
T 4f4c_A         1094 ILKGLSFSVEPGQTLALVGPSGCGKSTVVALLERFY--DTLGGEIFIDGSEIKTLNPEHTRSQI----AIVSQEPTLFDC 1167 (1321)
T ss_dssp             SEEEEEEEECTTCEEEEECSTTSSTTSHHHHHTTSS--CCSSSEEEETTEETTTBCHHHHHTTE----EEECSSCCCCSE
T ss_pred             cccceeEEECCCCEEEEECCCCChHHHHHHHHhcCc--cCCCCEEEECCEEhhhCCHHHHHhhe----EEECCCCEeeCc
Confidence            355554457999999999999999999987555432  11122344432    34555554442    1122111     


Q ss_pred             -ccc--------CCCCcchHHHHHHHHHH------HhCC----CeEEEcC-CCCCHH--HHHHHHHHHHHHcCCccEEEE
Q psy2892         274 -LRT--------GRLSSDDWPRINDSIKK------INKS----QLYIDET-PSLNVI--ELRANSRRLSRQCGKIGVIII  331 (452)
Q Consensus       274 -i~~--------g~l~~~~~~~~~~a~~~------l~~~----~l~i~~~-~~~t~~--~i~~~i~~~~~~~~~~~~vvI  331 (452)
                       +++        ...++++   +.+|++.      +...    .-.+-+. ..+|-.  +..+.+|.+.+   +++++|+
T Consensus      1168 TIreNI~~gld~~~~sd~e---i~~Al~~a~l~~~I~~Lp~GldT~vge~G~~LSgGQrQriaiARAllr---~~~ILiL 1241 (1321)
T 4f4c_A         1168 SIAENIIYGLDPSSVTMAQ---VEEAARLANIHNFIAELPEGFETRVGDRGTQLSGGQKQRIAIARALVR---NPKILLL 1241 (1321)
T ss_dssp             EHHHHHSSSSCTTTSCHHH---HHHHHHHTTCHHHHHTSTTTTCSEETTTSCSSCHHHHHHHHHHHHHHS---CCSEEEE
T ss_pred             cHHHHHhccCCCCCCCHHH---HHHHHHHhCChHHHHcCcCCCCCEecCCCcccCHHHHHHHHHHHHHHh---CCCEEEE
Confidence             111        1233333   3333332      2222    2233222 346654  45555666654   4899999


Q ss_pred             cCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         332 DYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       332 D~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                      |--+.--     +...+  ..+.+.|+.+.+  |+++|+++|-=             +-       -.+||.|+.|..-.
T Consensus      1242 DEaTSaL-----D~~tE--~~Iq~~l~~~~~--~~TvI~IAHRL-------------sT-------i~~aD~I~Vld~G~ 1292 (1321)
T 4f4c_A         1242 DEATSAL-----DTESE--KVVQEALDRARE--GRTCIVIAHRL-------------NT-------VMNADCIAVVSNGT 1292 (1321)
T ss_dssp             ESCCCST-----TSHHH--HHHHHHHTTTSS--SSEEEEECSSS-------------ST-------TTTCSEEEEESSSS
T ss_pred             eCccccC-----CHHHH--HHHHHHHHHHcC--CCEEEEeccCH-------------HH-------HHhCCEEEEEECCE
Confidence            9864211     11221  245566776654  88999999921             11       23589999996543

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=91.90  E-value=0.13  Score=52.83  Aligned_cols=40  Identities=15%  Similarity=0.285  Sum_probs=33.2

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      +.|.++++.|.||+||||++..++..... .|.++.+++.+
T Consensus       370 ~~~~~I~l~G~~GsGKSTia~~La~~L~~-~G~~~~~ld~D  409 (546)
T 2gks_A          370 KQGFCVWLTGLPCAGKSTIAEILATMLQA-RGRKVTLLDGD  409 (546)
T ss_dssp             GCCEEEEEECSTTSSHHHHHHHHHHHHHH-TTCCEEEECHH
T ss_pred             ccceEEEccCCCCCCHHHHHHHHHHHhhh-cCCeEEEECch
Confidence            34778999999999999999999987653 67888888743

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=91.87  E-value=0.13  Score=44.06  Aligned_cols=37  Identities=22%  Similarity=0.301  Sum_probs=27.7

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ..+.|.|++|+||||++.-++.... ..|.++..+...
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~-~~g~~~G~I~~d   39 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILR-ERGLRVAVVKRH   39 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHH-HTTCCEEEEEC-
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhh-hcCCceEEEEEc
Confidence            4688999999999999998887764 356566655543

>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=91.83  E-value=0.11  Score=45.48  Aligned_cols=24  Identities=21%  Similarity=0.239  Sum_probs=20.6

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      --++.|+|.+|+||||++..++..
T Consensus        12 ~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           12 HMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            347889999999999999888764

>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=91.80  E-value=0.11  Score=45.37  Aligned_cols=23  Identities=13%  Similarity=0.453  Sum_probs=20.4

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++.|+|++|+||||++..++...
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            78999999999999999887654

>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=91.78  E-value=0.14  Score=53.08  Aligned_cols=37  Identities=22%  Similarity=0.367  Sum_probs=30.9

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      +|.+++|.|.||+||||++..++.... ..|.++++++
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L~-~~G~~~v~lD   87 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYLV-CHGIPCYTLD   87 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEES
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHH-hcCCeEEEec
Confidence            577999999999999999999998774 3577777764

>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=91.74  E-value=0.12  Score=49.10  Aligned_cols=24  Identities=21%  Similarity=0.212  Sum_probs=20.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      -.+++|.|+.|+||||++..++..
T Consensus         4 i~v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            4 IAVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             ccEEEEEecCCCCHHHHHHHHHhh
Confidence            358999999999999999887754

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=91.72  E-value=0.14  Score=48.58  Aligned_cols=39  Identities=15%  Similarity=0.275  Sum_probs=27.9

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC--CCCHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM--EMSGIQ  257 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~--E~~~~~  257 (452)
                      .-+++.|+||+|||+++..++...    +.++..+.+  +....+
T Consensus        47 ~~vll~G~pGtGKT~la~~la~~~----~~~~~~i~~~~~~~~~~   87 (331)
T 2r44_A           47 GHILLEGVPGLAKTLSVNTLAKTM----DLDFHRIQFTPDLLPSD   87 (331)
T ss_dssp             CCEEEESCCCHHHHHHHHHHHHHT----TCCEEEEECCTTCCHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHh----CCCeEEEecCCCCChhh
Confidence            358999999999999999887643    445665554  444443

>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 2.51A {Homo sapiens}

Probab=91.64  E-value=0.48  Score=44.37  Aligned_cols=38  Identities=18%  Similarity=0.142  Sum_probs=25.0

Q ss_pred             CcEEEEEeCCCCChhHH-HHHHHHHHHHh-CCCcEEEEeC
Q psy2892         214 GDLIIVAGRPSMGKTAF-SLNIGEHIAIE-NKLPVAIFSM  251 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~-~l~ia~~~a~~-~g~~vl~~s~  251 (452)
                      |.-+++.|++|+|||.. ++.++..+... .+..++|++-
T Consensus       131 ~~~~l~~a~TGsGKT~a~~lp~l~~l~~~~~~~~~lil~P  170 (300)
T 3fmo_B          131 PQNLIAQSQSGTGKTAAFVLAMLSQVEPANKYPQCLCLSP  170 (300)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHHCCTTSCSCCEEEECS
T ss_pred             CCeEEEECCCCCCccHHHHHHHHHhhhccCCCceEEEEcC
Confidence            46789999999999954 44555444221 2336888864

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=91.62  E-value=0.12  Score=46.69  Aligned_cols=26  Identities=15%  Similarity=0.259  Sum_probs=22.6

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +|.+++|.|.+|+||||++..++...
T Consensus         1 ~~~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            1 GPRRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHc
Confidence            35689999999999999999888764

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=91.62  E-value=0.16  Score=45.35  Aligned_cols=27  Identities=26%  Similarity=0.372  Sum_probs=24.6

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+|.++++.|++|+||||.+..++...
T Consensus         3 ~~g~~i~~eG~~g~GKst~~~~l~~~l   29 (216)
T 3tmk_A            3 GRGKLILIEGLDRTGKTTQCNILYKKL   29 (216)
T ss_dssp             CCCCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999999988876

>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=91.58  E-value=0.11  Score=48.36  Aligned_cols=22  Identities=14%  Similarity=0.197  Sum_probs=19.9

Q ss_pred             CcEEEEEeCCCCChhHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia  235 (452)
                      .-+++|+|+||+||||++..++
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            3479999999999999999888

>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=91.58  E-value=0.11  Score=50.14  Aligned_cols=25  Identities=24%  Similarity=0.393  Sum_probs=21.6

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .+|+++.|.|+||+|||||+..++-
T Consensus       213 ~~G~~~~lvG~sG~GKSTLln~L~g  237 (358)
T 2rcn_A          213 LTGRISIFAGQSGVGKSSLLNALLG  237 (358)
T ss_dssp             HTTSEEEEECCTTSSHHHHHHHHHC
T ss_pred             cCCCEEEEECCCCccHHHHHHHHhc
Confidence            4789999999999999999876653

>3of5_A Dethiobiotin synthetase; structural genomics, center for structural genomics of infec diseases, csgid, ligase; 1.52A {Francisella tularensis subsp}

Probab=91.54  E-value=0.22  Score=44.78  Aligned_cols=34  Identities=18%  Similarity=0.253  Sum_probs=28.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      +++-+-.+|+|||+++..++..++ ++|.+|.||-
T Consensus         7 i~Itgt~t~vGKT~vt~~L~~~l~-~~G~~V~~~K   40 (228)
T 3of5_A            7 FFIIGTDTEVGKTYISTKLIEVCE-HQNIKSLCLK   40 (228)
T ss_dssp             EEEEESSSSSCHHHHHHHHHHHHH-HTTCCEEEEC
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHH-HCCCeeEEec
Confidence            445555599999999999999986 4799999984

>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=91.44  E-value=0.21  Score=47.66  Aligned_cols=37  Identities=19%  Similarity=0.226  Sum_probs=28.2

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHh--CCCcEEEEeCCC
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIE--NKLPVAIFSMEM  253 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~--~g~~vl~~s~E~  253 (452)
                      ++|.|+||+|||+++..++......  ....+..++...
T Consensus        61 ~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~   99 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASD   99 (353)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSS
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEcccc
Confidence            8999999999999999999876421  235677776543

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=91.34  E-value=0.14  Score=45.06  Aligned_cols=27  Identities=19%  Similarity=0.347  Sum_probs=21.9

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      |.+| +++|.|+.|+|||+++-.+.+.+
T Consensus        21 f~~~-~~~I~G~NgsGKStil~ai~~~l   47 (203)
T 3qks_A           21 FKEG-INLIIGQNGSGKSSLLDAILVGL   47 (203)
T ss_dssp             CCSE-EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eCCC-eEEEEcCCCCCHHHHHHHHHHHh
Confidence            4454 99999999999999987766544

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=91.31  E-value=0.21  Score=51.97  Aligned_cols=39  Identities=13%  Similarity=0.251  Sum_probs=30.2

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHH---hCCCcEEEEeC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAI---ENKLPVAIFSM  251 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~---~~g~~vl~~s~  251 (452)
                      .+.+++|.|+||+|||+++..++..+..   ..+.+|+....
T Consensus       163 ~~~~~vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~vll~AP  204 (608)
T 1w36_D          163 TRRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAP  204 (608)
T ss_dssp             TBSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBS
T ss_pred             cCCCEEEEeCCCCCHHHHHHHHHHHHHHhhhcCCCeEEEEeC
Confidence            3569999999999999999888877643   24567877654

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=91.27  E-value=0.1  Score=50.58  Aligned_cols=38  Identities=24%  Similarity=0.442  Sum_probs=27.1

Q ss_pred             CccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         200 GFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       200 g~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +|..++...--+.+| +++|.|++|+||||+.-.++...
T Consensus        10 ~f~~~~~~~i~~~~g-~~~i~G~NGaGKTTll~ai~~al   47 (365)
T 3qf7_A           10 NFLGLKNVDIEFQSG-ITVVEGPNGAGKSSLFEAISFAL   47 (365)
T ss_dssp             EETTEEEEEEECCSE-EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CccCccceEEecCCC-eEEEECCCCCCHHHHHHHHHHHh
Confidence            344444443346677 99999999999999986666543

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=91.26  E-value=0.067  Score=54.39  Aligned_cols=37  Identities=24%  Similarity=0.154  Sum_probs=27.3

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEE
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIF  249 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~  249 (452)
                      +.+|..++|+|++|+||||++..++...  ....+++.+
T Consensus       257 v~~g~~i~I~GptGSGKTTlL~aL~~~i--~~~~giiti  293 (511)
T 2oap_1          257 IEHKFSAIVVGETASGKTTTLNAIMMFI--PPDAKVVSI  293 (511)
T ss_dssp             HHTTCCEEEEESTTSSHHHHHHHHGGGS--CTTCCEEEE
T ss_pred             HhCCCEEEEECCCCCCHHHHHHHHHhhC--CCCCCEEEE
Confidence            3688899999999999999998766543  233445443

>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=91.21  E-value=0.1  Score=52.38  Aligned_cols=38  Identities=11%  Similarity=0.073  Sum_probs=30.6

Q ss_pred             CccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         200 GFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       200 g~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++..|+.+.--+.+ +++.|.|++|+|||||+.-++.-.
T Consensus        16 ~~~~l~~vsl~i~~-e~~~liG~nGsGKSTLl~~l~Gl~   53 (483)
T 3euj_A           16 NWNGFFARTFDFDE-LVTTLSGGNGAGKSTTMAGFVTAL   53 (483)
T ss_dssp             EETTEEEEEEECCS-SEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ccccccceEEEEcc-ceEEEECCCCCcHHHHHHHHhcCC
Confidence            45667776546888 999999999999999998777543

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=91.21  E-value=0.14  Score=51.50  Aligned_cols=25  Identities=28%  Similarity=0.549  Sum_probs=21.9

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      .-++|.|+||+|||+++..++..+.
T Consensus       202 ~~~LL~G~pG~GKT~la~~la~~l~  226 (468)
T 3pxg_A          202 NNPVLIGEPGVGKTAIAEGLAQQII  226 (468)
T ss_dssp             CEEEEESCTTTTTHHHHHHHHHHHH
T ss_pred             CCeEEECCCCCCHHHHHHHHHHHHH
Confidence            3568999999999999999998874

>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=91.14  E-value=0.32  Score=54.71  Aligned_cols=40  Identities=15%  Similarity=0.140  Sum_probs=30.6

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHH-h--CCCcEEEEeCCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAI-E--NKLPVAIFSMEM  253 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~-~--~g~~vl~~s~E~  253 (452)
                      ..++.|.|.+|+|||++|.+++.+... .  ....|+|++...
T Consensus       147 ~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~  189 (1249)
T 3sfz_A          147 PGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGK  189 (1249)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCS
T ss_pred             CCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECC
Confidence            358999999999999999998876422 1  234688888765

>3lfu_A DNA helicase II; SF1 helicase, ATP-binding, DNA damage, DNA REP replication, DNA-binding, hydrolase, nucleotide-B SOS response; HET: DNA; 1.80A {Escherichia coli} PDB: 2is6_A* 2is2_A* 2is1_A* 2is4_A*

Probab=91.13  E-value=0.29  Score=51.07  Aligned_cols=50  Identities=10%  Similarity=0.106  Sum_probs=37.4

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCC---CcEEEEeCC-CCHHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENK---LPVAIFSME-MSGIQLAMRMLGS  265 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g---~~vl~~s~E-~~~~~i~~R~~a~  265 (452)
                      .++|.|+||+|||+.+.+-+.+.+...+   .+++++++- ....++..|+...
T Consensus        24 ~~lV~a~aGsGKT~~l~~ri~~l~~~~~~~~~~iL~ltft~~aa~e~~~rl~~~   77 (647)
T 3lfu_A           24 NLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRHRIGQL   77 (647)
T ss_dssp             CEEEEECTTSCHHHHHHHHHHHHHHTSCCCGGGEEEEESSHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHhCCCChhhEEEEeccHHHHHHHHHHHHHH
Confidence            5788899999999999998888765322   579998864 3445677777654

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=91.03  E-value=0.15  Score=48.93  Aligned_cols=22  Identities=27%  Similarity=0.582  Sum_probs=19.7

Q ss_pred             EEEEeCCCCChhHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++|.|+||+|||+++..++...
T Consensus        27 i~l~G~~G~GKTTl~~~la~~l   48 (359)
T 2ga8_A           27 VILVGSPGSGKSTIAEELCQII   48 (359)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHh
Confidence            8899999999999998887655

>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=90.97  E-value=0.13  Score=43.36  Aligned_cols=20  Identities=25%  Similarity=0.449  Sum_probs=17.9

Q ss_pred             EEEEEeCCCCChhHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia  235 (452)
                      -++|.|+||+|||+|...++
T Consensus         5 ~v~lvG~~gvGKStL~~~l~   24 (165)
T 2wji_A            5 EIALIGNPNVGKSTIFNALT   24 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47899999999999998875

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=90.91  E-value=0.25  Score=49.23  Aligned_cols=34  Identities=26%  Similarity=0.281  Sum_probs=26.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      -++|.|+||+|||+++..++...    +.+...++...
T Consensus        52 ~vLL~GppGtGKTtlAr~ia~~~----~~~f~~l~a~~   85 (447)
T 3pvs_A           52 SMILWGPPGTGKTTLAEVIARYA----NADVERISAVT   85 (447)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT----TCEEEEEETTT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHh----CCCeEEEEecc
Confidence            58999999999999999887653    45566666544

>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=90.90  E-value=0.26  Score=43.45  Aligned_cols=34  Identities=18%  Similarity=0.251  Sum_probs=28.2

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEE
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIF  249 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~  249 (452)
                      |.+++|-|..|+||||.+..++....  .|.+|++.
T Consensus         2 ~kFI~~EG~dGsGKsTq~~~L~~~L~--~~~~v~~~   35 (205)
T 4hlc_A            2 SAFITFEGPEGSGKTTVINEVYHRLV--KDYDVIMT   35 (205)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHT--TTSCEEEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHHH--CCCCEEEe
Confidence            45899999999999999988888773  47788764

>1oyw_A RECQ helicase, ATP-dependent DNA helicase; winged helix, helix-turn-helix, ATP binding, Zn(2+) binding, hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.43 c.37.1.19 c.37.1.19 PDB: 1oyy_A*

Probab=90.85  E-value=0.84  Score=46.42  Aligned_cols=112  Identities=11%  Similarity=0.016  Sum_probs=56.0

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC-HHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS-GIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIK  292 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~-~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~  292 (452)
                      |.-+++.+++|+|||.. .++..-  . .+..++|++---+ ..++..++..  .|+....+ .+..+.++.........
T Consensus        40 g~d~lv~apTGsGKTl~-~~lp~l--~-~~g~~lvi~P~~aL~~q~~~~l~~--~gi~~~~l-~~~~~~~~~~~~~~~~~  112 (523)
T 1oyw_A           40 GRDCLVVMPTGGGKSLC-YQIPAL--L-LNGLTVVVSPLISLMKDQVDQLQA--NGVAAACL-NSTQTREQQLEVMTGCR  112 (523)
T ss_dssp             TCCEEEECSCHHHHHHH-HHHHHH--H-SSSEEEEECSCHHHHHHHHHHHHH--TTCCEEEE-CTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEECCCCcHHHHH-HHHHHH--H-hCCCEEEECChHHHHHHHHHHHHH--cCCcEEEE-eCCCCHHHHHHHHHHHh
Confidence            34578889999999953 333322  2 3456888864321 2334444432  35554333 34444444332222111


Q ss_pred             HHhCCCeEEEcCCCCCHHHHHHH-HHHHHHHcCCccEEEEcCcchhcc
Q psy2892         293 KINKSQLYIDETPSLNVIELRAN-SRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       293 ~l~~~~l~i~~~~~~t~~~i~~~-i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      . ....+.+.     |++.+... ........ ++++||||-.+.+..
T Consensus       113 ~-~~~~ilv~-----Tpe~l~~~~~~~~l~~~-~~~~vViDEaH~i~~  153 (523)
T 1oyw_A          113 T-GQIRLLYI-----APERLMLDNFLEHLAHW-NPVLLAVDEAHCISQ  153 (523)
T ss_dssp             H-TCCSEEEE-----CHHHHTSTTHHHHHTTS-CEEEEEESSGGGGCT
T ss_pred             c-CCCCEEEE-----CHHHHhChHHHHHHhhC-CCCEEEEeCccccCc
Confidence            1 12345443     33333211 11111223 599999999998864

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=90.81  E-value=0.23  Score=53.08  Aligned_cols=36  Identities=22%  Similarity=0.330  Sum_probs=30.4

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      -+++.|+||+|||.+|..++.... ..+.+++++++.
T Consensus       523 ~~Ll~Gp~GtGKT~lA~ala~~l~-~~~~~~i~i~~s  558 (758)
T 3pxi_A          523 SFIFLGPTGVGKTELARALAESIF-GDEESMIRIDMS  558 (758)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHH-SCTTCEEEEEGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc-CCCcceEEEech
Confidence            689999999999999999998874 457788888763

>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=90.71  E-value=0.18  Score=48.55  Aligned_cols=25  Identities=16%  Similarity=0.347  Sum_probs=21.9

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      ..++|.|+||+|||+++..++....
T Consensus        39 ~~~ll~G~~G~GKT~la~~la~~l~   63 (373)
T 1jr3_A           39 HAYLFSGTRGVGKTSIARLLAKGLN   63 (373)
T ss_dssp             SEEEEESCTTSSHHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3789999999999999999987663

>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=90.69  E-value=0.15  Score=47.97  Aligned_cols=25  Identities=24%  Similarity=0.391  Sum_probs=22.6

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia  235 (452)
                      +..|.++.|.|++|+|||||+..++
T Consensus       162 ~l~G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          162 YLEGFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             HTTTCEEEEECSTTSSHHHHHHHHH
T ss_pred             hccCcEEEEECCCCCCHHHHHHHHH
Confidence            4568999999999999999999887

>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial conjugation, F1-ATPase-like quaternary structure, ring helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB: 1e9s_A 1gki_A* 1gl7_A* 1gl6_A*

Probab=90.64  E-value=0.25  Score=48.93  Aligned_cols=36  Identities=14%  Similarity=0.180  Sum_probs=28.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      -++|.|+||+|||+++..++.++.. .|.+|++++..
T Consensus        55 h~~i~G~tGsGKs~~~~~li~~~~~-~g~~viv~Dpk   90 (437)
T 1e9r_A           55 HLLVNGATGTGKSVLLRELAYTGLL-RGDRMVIVDPN   90 (437)
T ss_dssp             CEEEEECTTSSHHHHHHHHHHHHHH-TTCEEEEEEET
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHH-CCCcEEEEeCC
Confidence            5899999999999998777777753 56777777644

>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA binding protein; HET: DNA; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.23

Probab=90.58  E-value=0.23  Score=46.06  Aligned_cols=48  Identities=13%  Similarity=0.025  Sum_probs=33.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-CCHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-MSGIQLAMRML  263 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~~~~~i~~R~~  263 (452)
                      -.+|++++|+|||..++.++.......+.+|+|+.-- .-..++..++.
T Consensus       130 ~~ll~~~tGsGKT~~~~~~~~~~~~~~~~~~lil~Pt~~L~~q~~~~l~  178 (282)
T 1rif_A          130 RRILNLPTSAGRSLIQALLARYYLENYEGKILIIVPTTALTTQMADDFV  178 (282)
T ss_dssp             EEEECCCTTSCHHHHHHHHHHHHHHHCSSEEEEECSSHHHHHHHHHHHH
T ss_pred             CeEEEcCCCCCcHHHHHHHHHHHHHcCCCeEEEEECCHHHHHHHHHHHH
Confidence            3578999999999999887777654444589998642 22345555554

>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase, hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP: b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19 d.315.1.1

Probab=90.54  E-value=1.7  Score=48.72  Aligned_cols=108  Identities=15%  Similarity=0.145  Sum_probs=62.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHHHHhCCCCccc-cccCCCCcchHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM-SGIQLAMRMLGSVGKLDQHK-LRTGRLSSDDWPRINDSIKK  293 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~-~~~~i~~R~~a~~~~i~~~~-i~~g~l~~~~~~~~~~a~~~  293 (452)
                      -.+++|++|+|||..++-.+..++ ..|.+|+++.--. -..|+..++.....+.+..- ...+..+..+...   ....
T Consensus       626 d~ll~~~TGsGKT~val~aa~~~~-~~g~~vlvlvPt~~La~Q~~~~~~~~~~~~~i~v~~l~~~~~~~~~~~---~~~~  701 (1151)
T 2eyq_A          626 DRLVCGDVGFGKTEVAMRAAFLAV-DNHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQ---ILAE  701 (1151)
T ss_dssp             EEEEECCCCTTTHHHHHHHHHHHH-TTTCEEEEECSSHHHHHHHHHHHHHHSTTTTCCEEEESTTSCHHHHHH---HHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHH-HhCCeEEEEechHHHHHHHHHHHHHHhhcCCCeEEEEeCCCCHHHHHH---HHHH
Confidence            689999999999998887777665 4678899986432 34566666655444333221 1233334333332   2233


Q ss_pred             HhC--CCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchh
Q psy2892         294 INK--SQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLM  337 (452)
Q Consensus       294 l~~--~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i  337 (452)
                      +..  ..+.|- ++    .-+.    .. ....++++||||-.+.+
T Consensus       702 l~~g~~dIvV~-T~----~ll~----~~-~~~~~l~lvIiDEaH~~  737 (1151)
T 2eyq_A          702 VAEGKIDILIG-TH----KLLQ----SD-VKFKDLGLLIVDEEHRF  737 (1151)
T ss_dssp             HHTTCCSEEEE-CT----HHHH----SC-CCCSSEEEEEEESGGGS
T ss_pred             HhcCCCCEEEE-CH----HHHh----CC-ccccccceEEEechHhc
Confidence            433  345554 22    1111    10 01225899999999885

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=90.53  E-value=0.049  Score=51.48  Aligned_cols=26  Identities=19%  Similarity=0.297  Sum_probs=22.9

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +.+|+.+.|.|+||+|||||+..++-
T Consensus       170 ~~~G~~~~lvG~sG~GKSTLln~L~g  195 (307)
T 1t9h_A          170 HFQDKTTVFAGQSGVGKSSLLNAISP  195 (307)
T ss_dssp             GGTTSEEEEEESHHHHHHHHHHHHCC
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHhcc
Confidence            56799999999999999999887754

>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=90.52  E-value=0.15  Score=42.59  Aligned_cols=20  Identities=20%  Similarity=0.443  Sum_probs=17.9

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +++.|++|+|||+|+..+..
T Consensus         8 i~v~G~~~~GKssl~~~l~~   27 (168)
T 1z2a_A            8 MVVVGNGAVGKSSMIQRYCK   27 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHc
Confidence            68889999999999998874

>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A motif, P-loop, signature motif, replication/recombination complex; HET: DNA; 1.61A {Deinococcus radiodurans}

Probab=90.48  E-value=0.15  Score=49.19  Aligned_cols=36  Identities=19%  Similarity=0.142  Sum_probs=29.6

Q ss_pred             CccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         200 GFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       200 g~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +|..++.+.--+.+| +++|.|++|+|||+++--+..
T Consensus        13 ~~~~~~~~~~~~~~g-~~~i~G~nG~GKttll~ai~~   48 (359)
T 2o5v_A           13 NYRNLAPGTLNFPEG-VTGIYGENGAGKTNLLEAAYL   48 (359)
T ss_dssp             SBTTCCSEEEECCSE-EEEEECCTTSSHHHHHHHHHH
T ss_pred             CccceeeeEEEEcCC-eEEEECCCCCChhHHHHHHHH
Confidence            566676664457888 999999999999999888775

>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=90.44  E-value=0.12  Score=44.39  Aligned_cols=20  Identities=20%  Similarity=0.449  Sum_probs=17.9

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++|.|+||+|||+|+..++.
T Consensus         5 v~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            5 LMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEESCTTSSHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            78999999999999988764

>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=90.41  E-value=0.16  Score=42.10  Aligned_cols=21  Identities=24%  Similarity=0.599  Sum_probs=18.1

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++.|++|+|||+|+..++..
T Consensus         6 i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            788999999999998887643

---

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	452
d1cr2a_	277	c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase),	9e-50
d1b79a_	102	a.81.1.1 (A:) N-terminal domain of DnaB helicase {	4e-37
d1nlfa_	274	c.37.1.11 (A:) Hexameric replicative helicase repA	4e-29
d2i1qa2	258	c.37.1.11 (A:65-322) DNA repair protein Rad51, cat	3e-27
d1n0wa_	242	c.37.1.11 (A:) DNA repair protein Rad51, catalytic	6e-26
d1tf7a1	242	c.37.1.11 (A:14-255) Circadian clock protein KaiC	5e-23
d1tf7a2	242	c.37.1.11 (A:256-497) Circadian clock protein KaiC	1e-14
d1szpa2	251	c.37.1.11 (A:145-395) DNA repair protein Rad51, ca	4e-12
d1v5wa_	258	c.37.1.11 (A:) Meiotic recombination protein DMC1/	4e-11
d1pzna2	254	c.37.1.11 (A:96-349) DNA repair protein Rad51, cat	2e-09
d1u94a1	263	c.37.1.11 (A:6-268) RecA protein, ATPase-domain {E	2e-04

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]} Length = 277

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]

 Score =  168 bits (426), Expect = 9e-50
 Identities = 43/273 (15%), Positives = 107/273 (39%), Gaps = 10/273 (3%)

Query: 183 KLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN 242
           ++    +++  V  + +G   ++  T G + G++I+V     MGK+ F            
Sbjct: 4   RIREHLSSEESVGLLFSGCTGINDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQWGTAM 63

Query: 243 KLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQ-LYI 301
              V +  +E S  + A  ++G   ++   +  + +    +  + +    ++  +   ++
Sbjct: 64  GKKVGLAMLEESVEETAEDLIGLHNRVRLRQSDSLKREIIENGKFDQWFDELFGNDTFHL 123

Query: 302 DETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLA 361
            ++ +    +         R      VII+D++ ++ + S   +    I  +   LKG A
Sbjct: 124 YDSFAEAETDRLLAKLAYMRSGLGCDVIILDHISIVVSASGESDERKMIDNLMTKLKGFA 183

Query: 362 KEINCPILALSQLNRS---LEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSA 418
           K     ++ +  L          + +   ++DLR SGA+ Q +D I+ + R++       
Sbjct: 184 KSTGVVLVVICHLKNPDKGKAHEEGRPVSITDLRGSGALRQLSDTIIALERNQ----QGD 239

Query: 419 DKGIAEIIVSKQR-NGPIGNI-RLTFSGQYTKF 449
              +  + + K R  G  G    + ++ +    
Sbjct: 240 MPNLVLVRILKCRFTGDTGIAGYMEYNKETGWL 272

>d1b79a_ a.81.1.1 (A:) N-terminal domain of DnaB helicase {Escherichia coli [TaxId: 562]} Length = 102

class: All alpha proteins
fold: N-terminal domain of DnaB helicase
superfamily: N-terminal domain of DnaB helicase
family: N-terminal domain of DnaB helicase
domain: N-terminal domain of DnaB helicase
species: Escherichia coli [TaxId: 562]

 Score =  129 bits (325), Expect = 4e-37
 Identities = 53/102 (51%), Positives = 71/102 (69%)

Query: 15  PPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVIT 74
           PPHSIE+EQSVLGGL+LDN  WD +A+ + +D FY   HR IF  + +L  S  P D+IT
Sbjct: 1   PPHSIEAEQSVLGGLMLDNERWDDVAERVVADDFYTRPHRHIFTEMARLQESGSPIDLIT 60

Query: 75  VFDSLSNTGNAEEIGGLSYLNSLAQNIPSAANIRRYAEIVRD 116
           + +SL   G  + +GG +YL  L++N PSAANI  YA+IVR+
Sbjct: 61  LAESLERQGQLDSVGGFAYLAELSKNTPSAANISAYADIVRE 102

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]} Length = 274

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]

 Score =  113 bits (282), Expect = 4e-29
 Identities = 36/263 (13%), Positives = 72/263 (27%), Gaps = 35/263 (13%)

Query: 192 NDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIA---------IEN 242
           N +   +     LD +   +  G +  +      GK+  +L +   IA            
Sbjct: 7   NILEAFAAAPPPLDYVLPNMVAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELP 66

Query: 243 KLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYID 302
             PV     E     +  R+      L   + +         P                 
Sbjct: 67  TGPVIYLPAEDPPTAIHHRLHALGAHLSAEERQAVADGLLIQP----------------- 109

Query: 303 ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAK 362
              SL  I        L R      ++++D L+        EN +  ++++   ++ +A 
Sbjct: 110 LIGSLPNIMAPEWFDGLKRAAEGRRLMVLDTLRRFH--IEEENASGPMAQVIGRMEAIAA 167

Query: 363 EINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD------EVYNQN 416
           +  C I+ L   ++               R S  +  +     ++         E    +
Sbjct: 168 DTGCSIVFLHHASKGAAMMGAGDQ-QQASRGSSVLVDNIRWQSYLSSMTSAEAEEWGVDD 226

Query: 417 SADKGIAEIIVSKQRNGPIGNIR 439
              +      VSK   G     R
Sbjct: 227 DQRRFFVRFGVSKANYGAPFADR 249

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]} Length = 258

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]

 Score =  107 bits (267), Expect = 3e-27
 Identities = 28/252 (11%), Positives = 69/252 (27%), Gaps = 16/252 (6%)

Query: 190 NDNDVTGISTGFFELDKITSG-LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAI 248
             + V  +ST   ELD +  G L+   +   AG    GKT        ++     L    
Sbjct: 9   QRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDE 68

Query: 249 FSMEMSGIQLA-MRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSL 307
            ++    +       + + G     ++      +         +     ++ Y  +   L
Sbjct: 69  EAVSKGEVAQPKAVYIDTEGTFRPERIMQMAEHAGIDG--QTVLDNTFVARAYNSDMQML 126

Query: 308 NVIELRANSRRLSRQCGKIG-VIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINC 366
              ++    +  +     +   +   +    +   +   R  ++      L  LA   NC
Sbjct: 127 FAEKIEDLIQEGNNIKLVVIDSLTSTFRNEYTGRGKLAERQQKLGRHMATLNKLADLFNC 186

Query: 367 PILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEII 426
            +L  +Q++   +                 +   A    F+ + +               
Sbjct: 187 VVLVTNQVSAKPDAFFGMAEQAIG---GHIVGHAATFRFFVRKGK--------GDKRVAK 235

Query: 427 VSKQRNGPIGNI 438
           +    + P    
Sbjct: 236 LYDSPHLPDAEA 247

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]} Length = 242

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]

 Score =  103 bits (257), Expect = 6e-26
 Identities = 32/247 (12%), Positives = 65/247 (26%), Gaps = 20/247 (8%)

Query: 193 DVTGISTGFFELDKITS-GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM 251
           ++  I+TG  ELDK+   G++ G +  + G    GKT     +     +           
Sbjct: 1   EIIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKA 60

Query: 252 EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIE 311
                +   R      +L     R G   SD    +  +      +  +  +        
Sbjct: 61  MYIDTEGTFRPE----RLLAVAERYGLSGSDVLDNVAYA---RAFNTDHQTQLLYQASAM 113

Query: 312 LRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL 371
           +  +   L        +   DY            R   ++   R L  LA E    ++  
Sbjct: 114 MVESRYALLIVDSATALYRTDYSG----RGELSARQMHLARFLRMLLRLADEFGVAVVIT 169

Query: 372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR 431
           +Q+   ++                 I   +   L++ +                 +    
Sbjct: 170 NQVVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGR--------GETRICKIYDSP 221

Query: 432 NGPIGNI 438
             P    
Sbjct: 222 CLPEAEA 228

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]} Length = 242

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]

 Score = 95.1 bits (235), Expect = 5e-23
 Identities = 31/252 (12%), Positives = 68/252 (26%), Gaps = 31/252 (12%)

Query: 192 NDVTGISTGFFELDKITS-GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS 250
             +  + T     D I+  GL  G   +V+G    GKT FS+    +  IE   P    +
Sbjct: 3   QAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVT 62

Query: 251 MEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVI 310
            E +   +                  G   +         I   +      +     ++ 
Sbjct: 63  FEETPQDIIKNA-----------RSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLS 111

Query: 311 ELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILA 370
            L        ++  +   + ID +  +       +              + +E+   +  
Sbjct: 112 ALIERINYAIQKY-RARRVSIDSVTSVFQQYDASSV-------------VRRELFRLVAR 157

Query: 371 LSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQ 430
           L Q+  +      +      +   G  E  +D ++ +       +         + + K 
Sbjct: 158 LKQIGATTVMTTERIEEYGPIARYGVEEFVSDNVVILRNVLEGERR-----RRTLEILKL 212

Query: 431 RNGPIGNIRLTF 442
           R          F
Sbjct: 213 RGTSHMKGEYPF 224

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]} Length = 242

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]

 Score = 71.1 bits (173), Expect = 1e-14
 Identities = 39/251 (15%), Positives = 65/251 (25%), Gaps = 40/251 (15%)

Query: 193 DVTGISTGFFELDKITS-GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM 251
               +S+G   LD++   G     +I+  G    GKT       E+ A  NK    +F+ 
Sbjct: 4   SNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVEN-ACANKERAILFAY 62

Query: 252 EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIE 311
           E S  QL                       D       ++ KI           S  + +
Sbjct: 63  EESRAQLLRNAY--------------SWGMDFEEMERQNLLKI-----VCAYPESAGLED 103

Query: 312 LRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL 371
                +          + I     L    S          +    + G AK+     L  
Sbjct: 104 HLQIIKSEINDFKPARIAIDSLSALARGVS-----NNAFRQFVIGVTGYAKQEEITGLFT 158

Query: 372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR 431
           +  ++ +                  I    D I+ +   E+  +         I V K R
Sbjct: 159 NTSDQFMGAH---------SITDSHISTITDTIILLQYVEIRGEM-----SRAINVFKMR 204

Query: 432 NGPIGNIRLTF 442
                     F
Sbjct: 205 GSWHDKAIREF 215

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 251

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]

 Score = 64.0 bits (154), Expect = 4e-12
 Identities = 29/220 (13%), Positives = 69/220 (31%), Gaps = 12/220 (5%)

Query: 193 DVTGISTGFFELDKITSG-LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM 251
           ++  ++TG   LD +  G ++ G +  + G    GK+         +A+  ++P+ I   
Sbjct: 12  ELICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCH----TLAVTCQIPLDIGGG 67

Query: 252 EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIE 311
           E   + +         +L     R G    D    +  +       QL + +        
Sbjct: 68  EGKCLYIDTEGTFRPVRLVSIAQRFGLDPDDALNNVAYARAYNADHQLRLLDA------- 120

Query: 312 LRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL 371
                         +  ++  Y    S       R   +++  R L+ LA +    ++  
Sbjct: 121 AAQMMSESRFSLIVVDSVMALYRTDFSGRGELSARQMHLAKFMRALQRLADQFGVAVVVT 180

Query: 372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE 411
           +Q+   ++      P          +   +   L   + +
Sbjct: 181 NQVVAQVDGGMAFNPDPKKPTGGNIMAHSSTTRLGFKKGK 220

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]} Length = 258

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]

 Score = 60.9 bits (146), Expect = 4e-11
 Identities = 26/220 (11%), Positives = 65/220 (29%), Gaps = 10/220 (4%)

Query: 193 DVTGISTGFFELDKITS-GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM 251
            V  I+TG  E DK+   G++   +    G    GKT  S  +     +          +
Sbjct: 15  MVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKI 74

Query: 252 EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIE 311
                +   R      +L     R           +  +    ++ Q+ + +  +    E
Sbjct: 75  IFIDTENTFRPD----RLRDIADRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHE 130

Query: 312 LRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL 371
                     +   I  I+  +    S       R  +++++   L+ +++E N  +   
Sbjct: 131 -----EAGIFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEYNVAVFVT 185

Query: 372 SQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE 411
           +Q+          +           +   +   + + +  
Sbjct: 186 NQMTADPGATMTFQADPKKPIGGHILAHASTTRISLRKGR 225

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 254

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]

 Score = 56.2 bits (134), Expect = 2e-09
 Identities = 41/249 (16%), Positives = 90/249 (36%), Gaps = 22/249 (8%)

Query: 193 DVTGISTGFFELDKITSG-LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM 251
            +  ISTG   LDK+  G ++   +  V G    GKT  +      +A+  +LP      
Sbjct: 14  TIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAH----TLAVMVQLP-----P 64

Query: 252 EMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIE 311
           E  G+  ++  + +       ++R    +       ++ +K I  ++ +      L V +
Sbjct: 65  EEGGLNGSVIWIDTENTFRPERIREIAQNRG--LDPDEVLKHIYVARAFNSNHQMLLVQQ 122

Query: 312 LRANSRRLSRQCGKIGVIIIDYLQLM--SANSRGENRATEISEISRNLKGLAKEINCPIL 369
                + L      + ++I+D L     S        A    +++++L  L +  N   +
Sbjct: 123 AEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIGRGALAERQQKLAKHLADLHRLANLYDI 182

Query: 370 ALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSK 429
           A+   N+   +        +       +   A + +++ + +        K IA +I   
Sbjct: 183 AVFVTNQVQARPDAFFGDPTRPIGGHILAHSATLRVYLRKGK------GGKRIARLI--D 234

Query: 430 QRNGPIGNI 438
             + P G  
Sbjct: 235 APHLPEGEA 243

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]} Length = 263

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]

 Score = 40.7 bits (95), Expect = 2e-04
 Identities = 57/291 (19%), Positives = 97/291 (33%), Gaps = 58/291 (19%)

Query: 174 LNRVIKRINKLHNRGT-------NDNDVTGISTGFFELDKITS--GLQPGDLIIVAGRPS 224
           L   + +I K   +G+          DV  ISTG   LD      GL  G ++ + G  S
Sbjct: 5   LAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPES 64

Query: 225 MGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDW 284
            GKT  +L +      E K   A    E +   +  R LG                    
Sbjct: 65  SGKTTLTLQVIAAAQREGK-TCAFIDAEHALDPIYARKLG-------------------- 103

Query: 285 PRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGE 344
                 I  +  SQ    E  +L + +  A S       G + VI++D +  ++  +  E
Sbjct: 104 ----VDIDNLLCSQPDTGEQ-ALEICDALARS-------GAVDVIVVDSVAALTPKAEIE 151

Query: 345 N---------RATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESG 395
                      A  +S+  R L G  K+ N  ++ ++Q+   +          +      
Sbjct: 152 GEIGDSHMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMFGNPETTTG---GN 208

Query: 396 AIEQDADVILFIYRDEVYNQNSADKGI-AEIIVSKQRNGP---IGNIRLTF 442
           A++  A V L I R     +     G    + V K +          ++ +
Sbjct: 209 ALKFYASVRLDIRRIGAVKEGENVVGSETRVKVVKNKIAAPFKQAEFQILY 259

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	452
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	100.0
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	99.94
d1b79a_	102	N-terminal domain of DnaB helicase {Escherichia co	99.92
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	99.92
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	99.91
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	99.88
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	99.86
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	99.85
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	99.84
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	99.84
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	99.82
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	99.81
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	99.79
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.27
d1okkd2	207	GTPase domain of the signal recognition particle r	98.24
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	98.14
d2awna2	232	Maltose transport protein MalK, N-terminal domain	98.13
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.12
d1g2912	240	Maltose transport protein MalK, N-terminal domain	98.03
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.02
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.0
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.99
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	97.96
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	97.87
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	97.85
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.77
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	97.66
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.6
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	97.58
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	97.55
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	97.52
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	97.47
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	97.46
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.45
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	97.4
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.39
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	97.31
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	97.31
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	97.28
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	97.28
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.28
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	97.25
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.17
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.16
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.16
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.11
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.02
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.99
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.98
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.97
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	96.94
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	96.88
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.84
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.8
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.79
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.78
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.76
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	96.72
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	96.71
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	96.7
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.68
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	96.66
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	96.62
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.56
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	96.52
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.47
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.46
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.46
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.46
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.45
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.42
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.4
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.39
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	96.36
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	96.26
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.2
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.19
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.18
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.17
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	96.16
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.13
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.1
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	96.08
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.04
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.03
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	95.95
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	95.93
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.91
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.9
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	95.82
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.81
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	95.81
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	95.78
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	95.75
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	95.75
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.75
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	95.74
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.7
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.61
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	95.58
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	95.58
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	95.57
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.52
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.49
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.45
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.3
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.27
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	95.24
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	95.2
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	95.19
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	95.18
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	95.12
d1xpua3	289	Transcription termination factor Rho, ATPase domai	95.11
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	95.08
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.03
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	95.02
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.01
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	94.96
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	94.96
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	94.91
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.83
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.78
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	94.78
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	94.75
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	94.73
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	94.68
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	94.64
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	94.64
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.63
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	94.62
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	94.61
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	94.56
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	94.5
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	94.4
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.34
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	94.27
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	94.24
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	94.16
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	94.01
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.94
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	93.92
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	93.86
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	93.76
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	93.76
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	93.69
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	93.64
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	93.43
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	93.18
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	93.17
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	93.12
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	93.11
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	93.06
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	92.86
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	92.85
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.72
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	92.58
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	92.57
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.56
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.49
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	92.48
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	92.47
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	92.46
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	92.28
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	92.18
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	92.12
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	92.0
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	91.89
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	91.88
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	91.87
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	91.73
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	91.58
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	91.53
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	91.42
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	91.31
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	91.3
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	91.26
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	91.18
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	91.18
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	91.15
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	91.14
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	91.13
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	90.94
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	90.91
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	90.89
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	90.84
d1tuea_	205	Replication protein E1 helicase domain {Human papi	90.82
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	90.75
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	90.7
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	90.53
d1nrjb_	209	Signal recognition particle receptor beta-subunit	90.51
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	90.5
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	90.49
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	90.48
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	90.48
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	90.33
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	90.31
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	90.29
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	90.28
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	90.24
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	90.24
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	90.22
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	90.19
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	90.14
d2fh5b1	207	Signal recognition particle receptor beta-subunit	90.11
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	90.08
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	90.06
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	90.05
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	90.02
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	89.9
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	89.87
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	89.8
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	89.8
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	89.79
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	89.78
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	89.68
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	89.66
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	89.57
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	89.54
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	89.53
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	89.41
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	89.4
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	89.22
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	89.14
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	89.04
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	88.83
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	88.79
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	88.79
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	88.77
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	88.67
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	88.67
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	88.59
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	88.58
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	88.56
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	88.56
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	88.43
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	88.18
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	88.11
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	87.89
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	87.68
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	87.66
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	87.51
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	87.29
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	86.91
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	86.83
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	86.8
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	86.71
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	86.56
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	85.99
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	85.99
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	85.95
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	85.8
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	85.35
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	85.29
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	84.79
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	83.62
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	83.4
d1w36b1	485	Exodeoxyribonuclease V beta chain (RecB), N-termin	83.21
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	83.14
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	82.99
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	82.27
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	81.94
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	81.48
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	81.14

>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=100.00  E-value=2.3e-44  Score=341.82  Aligned_cols=265  Identities=18%  Similarity=0.232  Sum_probs=194.6

Q ss_pred             HHHHHHHhCCCCCCCccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHH
Q psy2892         179 KRINKLHNRGTNDNDVTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQL  258 (452)
Q Consensus       179 ~~i~~~~~~~~~~~~~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i  258 (452)
                      +++++.+.++   ....+++|||+.||++++|+.+|++++|+|+||+|||+|++|++.+++..+|.+|+|||+||+..++
T Consensus         3 e~~~~~~~~~---~~~~~i~TG~~~lD~~~~G~~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~E~~~~~~   79 (277)
T d1cr2a_           3 ERIREHLSSE---ESVGLLFSGCTGINDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEESVEET   79 (277)
T ss_dssp             HHHHHHHTSC---CCSCBCCCSCTTHHHHHCSBCTTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEESSSCHHHH
T ss_pred             HHHHHHHhCC---CCccccCCCchhHHHHhcCCCCCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeeeccchhhH
Confidence            3455555555   4667999999999999999999999999999999999999999999887789999999999999999


Q ss_pred             HHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhC-CCeEEEc-CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcch
Q psy2892         259 AMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINK-SQLYIDE-TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQL  336 (452)
Q Consensus       259 ~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~-~~l~i~~-~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~  336 (452)
                      ..|+++..++++............+..++.++.+.+.. ..+++.+ ....+.+++...++.....++ +++|||||++.
T Consensus        80 ~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~vvID~l~~  158 (277)
T d1cr2a_          80 AEDLIGLHNRVRLRQSDSLKREIIENGKFDQWFDELFGNDTFHLYDSFAEAETDRLLAKLAYMRSGLG-CDVIILDHISI  158 (277)
T ss_dssp             HHHHHHHHTTCCGGGCHHHHHHHHHTSHHHHHHHHHHSSSCEEEECCC-CCCHHHHHHHHHHHHHTTC-CSEEEEEEEEC
T ss_pred             HhHHHHHhhcCCchhhcccccchhhhHHHHHHHHHhhccceeeeeccccchhHHHHHHHhhhhhhccC-cceEEEccccc
Confidence            99999999999876543322111122234444555443 3555544 457789999999998888886 99999999999


Q ss_pred             hccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcC---CCCCCchhhhhhchhhhhhceeEEEecCccc
Q psy2892         337 MSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQ---NKRPIMSDLRESGAIEQDADVILFIYRDEVY  413 (452)
Q Consensus       337 i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~---~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~  413 (452)
                      +.......+.+..+.+++..|+.+|+++||+||+++|+||...++.   +.+|.+++++||++|+|.||.||.|+|+...
T Consensus       159 l~~~~~~~~~~~~~~~~~~~l~~lA~~~~i~vi~~~q~~r~~~~~~~~~~~~~~~~~~~gS~~i~~~ad~vl~l~r~~~~  238 (277)
T d1cr2a_         159 VVSASGESDERKMIDNLMTKLKGFAKSTGVVLVVICHLKNPDKGKAHEEGRPVSITDLRGSGALRQLSDTIIALERNQQG  238 (277)
T ss_dssp             ----------CHHHHHHHHHHHHHHHHHCCEEEEEEECC---------------------CHHHHHHCSEEEEEECC---
T ss_pred             ccccccccchhHHHHHHHHHHHHHhhhccccceeecccccccccccccccccchhhhcccccchhhhCcEEEEEEecCcc
Confidence            9865433445567899999999999999999999999999765442   4568999999999999999999999997543


Q ss_pred             ccCCCCCCeEEEEEeeccC-CCcceE-EEEEEcCccceec
Q psy2892         414 NQNSADKGIAEIIVSKQRN-GPIGNI-RLTFSGQYTKFNN  451 (452)
Q Consensus       414 ~~~~~~~~~~~l~i~KnR~-G~~g~~-~l~f~~~~~~f~~  451 (452)
                          .+++.++|++.|||+ |.+|.. .+.|+++|+||.+
T Consensus       239 ----~~~~~~~l~v~KnR~~G~~G~~~~l~~d~~tgr~~~  274 (277)
T d1cr2a_         239 ----DMPNLVLVRILKCRFTGDTGIAGYMEYNKETGWLEP  274 (277)
T ss_dssp             -------CEEEEEEEEETTTCCCEEEEEEEECTTTCCEEE
T ss_pred             ----CCCCeEEEEEEccCCCCCCCCEEEEEEeCCCCeEcC
Confidence                245789999999996 999985 8999999999976

>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=99.94  E-value=4e-26  Score=214.84  Aligned_cols=220  Identities=15%  Similarity=0.161  Sum_probs=145.2

Q ss_pred             cCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh---------CCCcEEEEeCCCCHHHHHHHHHHHhCCC
Q psy2892         199 TGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE---------NKLPVAIFSMEMSGIQLAMRMLGSVGKL  269 (452)
Q Consensus       199 tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~---------~g~~vl~~s~E~~~~~i~~R~~a~~~~i  269 (452)
                      .+.+.+|.+++|+.||.+++|+|+||+|||+|++++|.++|..         .+.+|+|+++|++..++..|+.+...+.
T Consensus        14 ~~~p~~d~li~G~~pg~~~~i~G~~G~GKS~l~l~la~~ia~g~~~~~~~~~~~~~vl~~~~E~~~~~~~~Rl~~~~~~~   93 (274)
T d1nlfa_          14 AAPPPLDYVLPNMVAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPPTAIHHRLHALGAHL   93 (274)
T ss_dssp             SCCCCCCEEETTEETTSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSCHHHHHHHHHHHHTTS
T ss_pred             CCCCCHHHHhCCccCCcEEEEEeCCCCCHHHHHHHHHHHHHcCCCcccccccCCCceEEEeccchHHHHHHHHHHHhhcc
Confidence            4457789998899999999999999999999999999998742         2458999999999999999988765443


Q ss_pred             CccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCC-CCCHHHHHHHHHHHH-HHcCCccEEEEcCcchhccCCCCCCHH
Q psy2892         270 DQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETP-SLNVIELRANSRRLS-RQCGKIGVIIIDYLQLMSANSRGENRA  347 (452)
Q Consensus       270 ~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~-~~t~~~i~~~i~~~~-~~~~~~~~vvID~l~~i~~~~~~~~~~  347 (452)
                      +.          ..+...   .     ..+++.+.. ..........+..+. ..+ ++++||||+++.+....  ++..
T Consensus        94 ~~----------~~~~~~---~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~lvviD~l~~~~~~~--~~~~  152 (274)
T d1nlfa_          94 SA----------EERQAV---A-----DGLLIQPLIGSLPNIMAPEWFDGLKRAAE-GRRLMVLDTLRRFHIEE--ENAS  152 (274)
T ss_dssp             CH----------HHHHHH---H-----HHEEECCCTTSCCCTTSHHHHHHHHHHHT-TCSEEEEECGGGGCCSC--TTCH
T ss_pred             Ch----------hhhhcc---c-----ccceeccccCccchhHHHHHHHHHHHhcc-CccEEecCchhhhcccc--ccch
Confidence            22          221111   1     123443211 111111111112222 224 49999999999887643  5677


Q ss_pred             HHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccc------cCCCCCC
Q psy2892         348 TEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYN------QNSADKG  421 (452)
Q Consensus       348 ~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~------~~~~~~~  421 (452)
                      ..+..+++.|+.+|++++|+||+++|++|....+ +.....++++||++|.+.||+++.|+|.....      .+.....
T Consensus       153 ~~~~~~~~~l~~la~~~~~~vi~v~H~~K~~~~~-~~~~~~~~~~Gssai~~~a~~v~~l~r~~~~~~~~~~~~~~~~~~  231 (274)
T d1nlfa_         153 GPMAQVIGRMEAIAADTGCSIVFLHHASKGAAMM-GAGDQQQASRGSSVLVDNIRWQSYLSSMTSAEAEEWGVDDDQRRF  231 (274)
T ss_dssp             HHHHHHHHHHHHHHHHHCCEEEEEEEC---------------------CTGGGCSCEEEEEECCHHHHHHTTCCTTSGGG
T ss_pred             hhHHHHHHHHHHHhhcCCCceehhhhcccccccc-CCcccccccccHHHHHhhccEEEEEEecchhhhhhccCcccccCc
Confidence            7889999999999999999999999999976433 23345678999999999999999999974321      1112234


Q ss_pred             eEEEEEeeccCCCcceEEE
Q psy2892         422 IAEIIVSKQRNGPIGNIRL  440 (452)
Q Consensus       422 ~~~l~i~KnR~G~~g~~~l  440 (452)
                      .+.+.+.|||+|++|....
T Consensus       232 ~~~~~v~K~~~~~~~~~~~  250 (274)
T d1nlfa_         232 FVRFGVSKANYGAPFADRW  250 (274)
T ss_dssp             EEEEEEEECSSSSCCCCEE
T ss_pred             EEEEEEEeeCCCCCCceEE
Confidence            6889999999999988543

>d1b79a_ a.81.1.1 (A:) N-terminal domain of DnaB helicase {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: N-terminal domain of DnaB helicase
superfamily: N-terminal domain of DnaB helicase
family: N-terminal domain of DnaB helicase
domain: N-terminal domain of DnaB helicase
species: Escherichia coli [TaxId: 562]

Probab=99.92  E-value=1e-25  Score=178.66  Aligned_cols=102  Identities=52%  Similarity=0.908  Sum_probs=99.5

Q ss_pred             CCCCHHHHHHHHHHHhcCcccHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHhcCCCcccccCHHHH
Q psy2892          15 PPHSIESEQSVLGGLLLDNTAWDKIADCLNSDYFYRYDHRLIFKHIIKLINSSHPADVITVFDSLSNTGNAEEIGGLSYL   94 (452)
Q Consensus        15 ~~~~~~aE~~vLg~ll~~~~~~~~i~~~L~p~~F~~~~h~~If~~i~~l~~~~~~id~~tv~~~l~~~~~~~~~gg~~~l   94 (452)
                      ||+|++||++|||+||.+|+.+.++...|+|+|||.+.||.||++|.+|+.+|+++|++||..+|++.+.++.+||.+||
T Consensus         1 pP~~~eaE~~vLg~lL~~~~~~~~v~~~l~~~dFy~~~h~~If~ai~~l~~~g~~iD~vtv~~~l~~~~~l~~igg~~yl   80 (102)
T d1b79a_           1 PPHSIEAEQSVLGGLMLDNERWDDVAERVVADDFYTRPHRHIFTEMARLQESGSPIDLITLAESLERQGQLDSVGGFAYL   80 (102)
T ss_dssp             CCCHHHHHHHHHHHHHHCGGGHHHHHTTCCGGGSSSHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHTTTTHHHHTHHHHH
T ss_pred             CCCCHHHHHHHHHHHHcCchHHHHHHHhcCHHHhchHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHCCChhhcCcHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCChHhHHHHHHHHHH
Q psy2892          95 NSLAQNIPSAANIRRYAEIVRD  116 (452)
Q Consensus        95 ~~l~~~~~~~~n~~~y~~~l~~  116 (452)
                      .+|++.+++++|+++|+++|+|
T Consensus        81 ~~L~~~~~s~~~~~~Ya~~V~e  102 (102)
T d1b79a_          81 AELSKNTPSAANISAYADIVRE  102 (102)
T ss_dssp             HHHHHHSCSSSCHHHHHHHHHC
T ss_pred             HHHHHhCCCHHHHHHHHHHhcC
Confidence            9999999999999999999975

>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=99.92  E-value=1e-24  Score=200.12  Aligned_cols=211  Identities=16%  Similarity=0.166  Sum_probs=155.2

Q ss_pred             CccccccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCc
Q psy2892         193 DVTGISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQ  271 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~  271 (452)
                      ...+||||++.||+++ ||+++|++++|+|+||+|||+|++|++.+.+...+.+|+|+++|++.+.+..++.+  .+.+.
T Consensus         4 ~~~~i~TGi~~LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~e~~~~~~~~~~~~--~~~~~   81 (242)
T d1tf7a1           4 AIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARS--FGWDL   81 (242)
T ss_dssp             SCCEECCCCTTHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHHHHGG--GTCCH
T ss_pred             CCCcccCCcHHHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCcccccccCCHHHHHHHHHH--cCCCh
Confidence            5679999999999984 79999999999999999999999999999887777899999999999988766643  22222


Q ss_pred             cccccCCCCcchHHHHHHHHHHHhCCCeE-EEc---------CCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC
Q psy2892         272 HKLRTGRLSSDDWPRINDSIKKINKSQLY-IDE---------TPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS  341 (452)
Q Consensus       272 ~~i~~g~l~~~~~~~~~~a~~~l~~~~l~-i~~---------~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~  341 (452)
                      ....                   ...... ...         ....+...+.+.+..+..+++ ++++|||+++.+....
T Consensus        82 ~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~i~~~~-~~~viiD~~~~l~~~~  141 (242)
T d1tf7a1          82 AKLV-------------------DEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYR-ARRVSIDSVTSVFQQY  141 (242)
T ss_dssp             HHHH-------------------HTTSEEEEECCCCSSCCSCCSSHHHHHHHHHHHHHHHHHT-CSEEEEECSTTTSTTT
T ss_pred             HHHH-------------------HhcchhhhhhccchhhhhhhccccHHHHHHHHHHHHHhhc-cchhhhhHHHHHHHhc
Confidence            1111                   011111 111         011234556677777777786 9999999999887643


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCC
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKG  421 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~  421 (452)
                         ........++..+..++++.++++++++|.+....          +..+++.+++.+|.++.+.....     ....
T Consensus       142 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~d~i~~~~~~~~-----~~~~  203 (242)
T d1tf7a1         142 ---DASSVVRRELFRLVARLKQIGATTVMTTERIEEYG----------PIARYGVEEFVSDNVVILRNVLE-----GERR  203 (242)
T ss_dssp             ---CCHHHHHHHHHHHHHHHHHHTCEEEEEEECSSSSS----------CSSTTSCHHHHCSEEEEEEEECS-----TTCC
T ss_pred             ---cChhHHHHHHHHHHHHHHhcCCceEEeeccccccc----------ccccCcceeeeccEEEEEEEeee-----CCee
Confidence               33455667888999999999999999999887532          34457788999999999976542     1234


Q ss_pred             eEEEEEeeccCCCcceEEEEEE
Q psy2892         422 IAEIIVSKQRNGPIGNIRLTFS  443 (452)
Q Consensus       422 ~~~l~i~KnR~G~~g~~~l~f~  443 (452)
                      .+.|.|.|+|.++.+...+.|.
T Consensus       204 ~r~l~v~K~R~~~~~~~~~~f~  225 (242)
T d1tf7a1         204 RRTLEILKLRGTSHMKGEYPFT  225 (242)
T ss_dssp             EEEEEEEEETTSCCCCSEEEEE
T ss_pred             EEEEEEEEcCCCCCCCeEEEEE
Confidence            6789999999887544333343

>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=99.91  E-value=5.9e-24  Score=196.01  Aligned_cols=208  Identities=19%  Similarity=0.177  Sum_probs=157.5

Q ss_pred             cccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccc
Q psy2892         195 TGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHK  273 (452)
Q Consensus       195 ~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~  273 (452)
                      .++|||++.||++ .||+++|.+++|.|+||+|||+|++|+|.+++ +++.+|+||++|++...+..++.+  .+++...
T Consensus         6 ~ri~TG~~~LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~-~~~~~~~~is~e~~~~~~~~~~~~--~~~~~~~   82 (242)
T d1tf7a2           6 VRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENAC-ANKERAILFAYEESRAQLLRNAYS--WGMDFEE   82 (242)
T ss_dssp             CEECCSCHHHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHH-TTTCCEEEEESSSCHHHHHHHHHT--TSCCHHH
T ss_pred             CccCCCcHHHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHH-HhccccceeeccCCHHHHHHHHHH--cCCChHH
Confidence            4699999999998 56899999999999999999999999999987 478999999999999998888753  2333221


Q ss_pred             cccCCCCcchHHHHHHHHHHHhCCCeEEEcC--CCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHH
Q psy2892         274 LRTGRLSSDDWPRINDSIKKINKSQLYIDET--PSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEIS  351 (452)
Q Consensus       274 i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~--~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~  351 (452)
                      +                   .....+.+.+.  ......++...+.....+.+ ++++|||+++.+....    ...++.
T Consensus        83 ~-------------------~~~~~~~~~~~~~~~~~~~~~~~~i~~~i~~~~-~~~vviDs~~~~~~~~----~~~~~~  138 (242)
T d1tf7a2          83 M-------------------ERQNLLKIVCAYPESAGLEDHLQIIKSEINDFK-PARIAIDSLSALARGV----SNNAFR  138 (242)
T ss_dssp             H-------------------HHTTSEEECCCCGGGSCHHHHHHHHHHHHHTTC-CSEEEEECHHHHTSSS----CHHHHH
T ss_pred             H-------------------hhcCceEEEEeecchhhHHHHHHHHHHHHHhcC-CceeeeecchhhhcCC----CHHHHH
Confidence            1                   11223444332  24557777777877777775 9999999999887542    345677


Q ss_pred             HHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCCeEEEEEeecc
Q psy2892         352 EISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKGIAEIIVSKQR  431 (452)
Q Consensus       352 ~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~~~~l~i~KnR  431 (452)
                      ..+..|..+++++++++++++|.+....         ....++..+++.||.|+.++.....     ....+.+.|.|+|
T Consensus       139 ~~~~~l~~~~~~~~~~~i~~~~~~~~~~---------~~~~~~~~~~~~ad~vi~l~~~~~~-----~~~~R~i~v~K~R  204 (242)
T d1tf7a2         139 QFVIGVTGYAKQEEITGLFTNTSDQFMG---------AHSITDSHISTITDTIILLQYVEIR-----GEMSRAINVFKMR  204 (242)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEECSSSSC---------CCSSCSSCCTTTCSEEEEEEEEEET-----TEEEEEEEEEEES
T ss_pred             HHHHHHHHHHHHcCCeEEEEEeeEeecc---------ccccCCcceeeecceEEEEEEeecC-----CceEEEEEEEecC
Confidence            8889999999999999999999875321         1234567889999999999775432     1224679999999


Q ss_pred             CCCcce--EEEEEE
Q psy2892         432 NGPIGN--IRLTFS  443 (452)
Q Consensus       432 ~G~~g~--~~l~f~  443 (452)
                      .++...  +.+..+
T Consensus       205 ~~~~~~~~~~f~I~  218 (242)
T d1tf7a2         205 GSWHDKAIREFMIS  218 (242)
T ss_dssp             SSCCCCBCEEEEEC
T ss_pred             CCCCCCeEEEEEEe
Confidence            987544  345443

>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=99.88  E-value=1.8e-21  Score=179.92  Aligned_cols=214  Identities=20%  Similarity=0.187  Sum_probs=149.7

Q ss_pred             CccccccCccccccc-c-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCC
Q psy2892         193 DVTGISTGFFELDKI-T-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLD  270 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~  270 (452)
                      .+..||||.+.||.+ . ||+++|.++.|+|+||+|||+||++++.++. +.|..|+|++.|.+...-  |+  ...|++
T Consensus        31 ~~~~isTG~~~lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~q-~~g~~~vyidtE~~~~~~--~a--~~~Gvd  105 (263)
T d1u94a1          31 DVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ-REGKTCAFIDAEHALDPI--YA--RKLGVD  105 (263)
T ss_dssp             CCCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEESSCCCCHH--HH--HHTTCC
T ss_pred             CCCeEccCCHHHHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHHH-cCCCEEEEEccccccCHH--HH--HHhCCC
Confidence            567899999999987 4 7999999999999999999999999999996 478999999999886542  22  224665


Q ss_pred             ccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC----CC----
Q psy2892         271 QHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN----SR----  342 (452)
Q Consensus       271 ~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~----~~----  342 (452)
                      .++                         +++..  ..+.++....+..+.++.. +++||||+++.+.+.    ..    
T Consensus       106 ~d~-------------------------v~~~~--~~~~E~~~~~i~~l~~~~~-~~liViDSi~al~~~~e~~~~~~~~  157 (263)
T d1u94a1         106 IDN-------------------------LLCSQ--PDTGEQALEICDALARSGA-VDVIVVDSVAALTPKAEIEGEIGDS  157 (263)
T ss_dssp             GGG-------------------------CEEEC--CSSHHHHHHHHHHHHHHTC-CSEEEEECGGGCCCHHHHTTC----
T ss_pred             HHH-------------------------EEEec--CCCHHHHHHHHHHHHhcCC-CCEEEEECccccccchhcccccccc
Confidence            432                         33332  3467888888888877764 999999999988631    11    


Q ss_pred             -CCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCC-
Q psy2892         343 -GENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADK-  420 (452)
Q Consensus       343 -~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~-  420 (452)
                       .......+...++.|..+++++++++|++.|+........ ..|.  ...|...+++.+|+++.+.+........... 
T Consensus       158 ~~~~~a~~l~~~~~~l~~~~~~~~~~vi~~NQv~~~~~~~~-g~~~--~~~GG~al~~~~~~rl~l~k~~~~k~g~~~iG  234 (263)
T d1u94a1         158 HMGLAARMMSQAMRKLAGNLKQSNTLLIFINQIRMKIGVMF-GNPE--TTTGGNALKFYASVRLDIRRIGAVKEGENVVG  234 (263)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHTCEEEEEEC-----------------CTTCSHHHHHCSEEEEEEEEEEEESSSSEEE
T ss_pred             hHHHHHHHHHHHHHHHHHhhhccCceEEEEEEEEecccccc-CCCc--cccccchhheeeEEEEEEEeccccccCCceee
Confidence             0112345678889999999999999999999865432211 1121  1246778999999999998754322111111 


Q ss_pred             CeEEEEEeeccCCCcce-EEEEE
Q psy2892         421 GIAEIIVSKQRNGPIGN-IRLTF  442 (452)
Q Consensus       421 ~~~~l~i~KnR~G~~g~-~~l~f  442 (452)
                      ..+++.+.|||.++++. +.+..
T Consensus       235 ~~~r~~v~Knr~~~p~~~~~f~i  257 (263)
T d1u94a1         235 SETRVKVVKNKIAAPFKQAEFQI  257 (263)
T ss_dssp             EEEEEEEEEESSBCSCCEEEEEE
T ss_pred             eEEEEEEEeCCCCCCCCEEEEEE
Confidence            23568899999998874 44443

>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=99.86  E-value=2.2e-20  Score=172.81  Aligned_cols=216  Identities=18%  Similarity=0.161  Sum_probs=149.5

Q ss_pred             CCccccccCcccccccc--CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCC
Q psy2892         192 NDVTGISTGFFELDKIT--SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKL  269 (452)
Q Consensus       192 ~~~~~i~tg~~~LD~~~--gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i  269 (452)
                      ..+..||||.+.||.++  ||++.|.++.|+|+||+|||+||++++.++. +.|..|+||+.|.+...-  +  +...|+
T Consensus        33 ~~~~~i~TGs~~lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~aq-k~g~~v~yiDtE~~~~~~--~--a~~~Gv  107 (268)
T d1xp8a1          33 LDVQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQ-KAGGTCAFIDAEHALDPV--Y--ARALGV  107 (268)
T ss_dssp             CCCCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHH-HTTCCEEEEESSCCCCHH--H--HHHTTC
T ss_pred             CCCCeEcCCCHHHHHHhcCCCccCceEEEEecCCccchHHHHHHHHHHHH-hCCCEEEEEECCccCCHH--H--HHHhCC
Confidence            35678999999999984  7999999999999999999999999999985 578999999999765432  1  222477


Q ss_pred             CccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCC------
Q psy2892         270 DQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRG------  343 (452)
Q Consensus       270 ~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~------  343 (452)
                      +.++                         +++.  +..+.++....++.+.... .+++||||++..+.+....      
T Consensus       108 d~d~-------------------------i~~~--~~~~~E~~~~~~~~l~~~~-~~~liIiDSi~al~~r~e~~~~~~~  159 (268)
T d1xp8a1         108 NTDE-------------------------LLVS--QPDNGEQALEIMELLVRSG-AIDVVVVDSVAALTPRAEIEGDMGD  159 (268)
T ss_dssp             CGGG-------------------------CEEE--CCSSHHHHHHHHHHHHTTT-CCSEEEEECTTTCCCSTTC------
T ss_pred             Cchh-------------------------EEEE--cCCCHHHHHHHHHHHHhcC-CCcEEEEecccccccHHHHcccccc
Confidence            6542                         2332  2346788888888887665 4999999999988753210      


Q ss_pred             ---CCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCC-CC
Q psy2892         344 ---ENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNS-AD  419 (452)
Q Consensus       344 ---~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~-~~  419 (452)
                         ......+...++.|..++.++++++++++|+........ ..|.  .--|...+.+.+++.+.|.+.....++. ..
T Consensus       160 ~~~~~~a~~l~~~lr~l~~~~~~~~~~vi~tNQv~~~~g~~~-g~~~--~~~GG~al~~~ss~rl~l~k~~~~~k~~~~~  236 (268)
T d1xp8a1         160 SLPGLQARLMSQALRKLTAILSKTGTAAIFINQVREKIGVMY-GNPE--TTTGGRALKFYASVRLDVRKIGQPTKVGNDA  236 (268)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHTTTCCEEEEEEEC------------------CHHHHHHHCSEEEEEEEESCCC------
T ss_pred             hhHHHHHHHHHHHHHHHHhhhhhcCCeEEEEeEEeecccccc-Ccce--eecccchhhhceeEEEEEEecCcccccCCce
Confidence               113455688889999999999999999999975543211 1121  1135668899999999997643221111 11


Q ss_pred             CC-eEEEEEeeccCCCcce-EEEEEE
Q psy2892         420 KG-IAEIIVSKQRNGPIGN-IRLTFS  443 (452)
Q Consensus       420 ~~-~~~l~i~KnR~G~~g~-~~l~f~  443 (452)
                      -| .+.+.+.|||.++++. +.+...
T Consensus       237 iG~~v~~kv~Knr~~~p~~~~~~~i~  262 (268)
T d1xp8a1         237 VANTVKIKTVKNKVAAPFKEVELALV  262 (268)
T ss_dssp             CEEEEEEEEEEESSSCCCCEEEEEEE
T ss_pred             EEEEEEEEEEECCcCCCCCEEEEEEe
Confidence            22 4579999999998874 554433

>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=99.85  E-value=7.4e-20  Score=168.96  Aligned_cols=216  Identities=18%  Similarity=0.151  Sum_probs=150.9

Q ss_pred             CCccccccCcccccccc--CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCC
Q psy2892         192 NDVTGISTGFFELDKIT--SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKL  269 (452)
Q Consensus       192 ~~~~~i~tg~~~LD~~~--gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i  269 (452)
                      .....||||.+.||.++  ||+++|.++.|+|+||+|||+||++++.++. +.|..|+||+.|.+...  +|+-  ..|+
T Consensus        36 ~~~~~i~TG~~~lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q-~~g~~~vyIDtE~~~~~--e~a~--~~Gv  110 (269)
T d1mo6a1          36 QPISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ-AAGGVAAFIDAEHALDP--DYAK--KLGV  110 (269)
T ss_dssp             CCSCCBCCSCHHHHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHHH-HTTCEEEEEESSCCCCH--HHHH--HHTC
T ss_pred             CccceEccCCHHHHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHHh-cCCCEEEEEECCccCCH--HHHH--HhCC
Confidence            35568999999999974  7999999999999999999999999999885 57889999999986532  2222  1266


Q ss_pred             CccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC----CC---
Q psy2892         270 DQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN----SR---  342 (452)
Q Consensus       270 ~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~----~~---  342 (452)
                      |.++                         +++..  ..+.+++.+.++.+..+. ++++||||++..+.+.    ..   
T Consensus       111 D~d~-------------------------il~~~--~~~~E~~~~~~~~l~~~~-~~~liIiDSi~al~~~~E~e~~~~~  162 (269)
T d1mo6a1         111 DTDS-------------------------LLVSQ--PDTGEQALEIADMLIRSG-ALDIVVIDSVAALVPRAELEGEMGD  162 (269)
T ss_dssp             CGGG-------------------------CEEEC--CSSHHHHHHHHHHHHHTT-CEEEEEEECSTTCCCHHHHC-----
T ss_pred             CHHH-------------------------eEEec--CCCHHHHHHHHHHHHhcC-CCCEEEEecccccccHHHhcccccc
Confidence            6432                         23332  246888888888887776 4999999999887741    10   


Q ss_pred             -CC-CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCC
Q psy2892         343 -GE-NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADK  420 (452)
Q Consensus       343 -~~-~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~  420 (452)
                       .. .+...+...++.|..++.++++++++++|+.-....- ...|.  -..|...+++.|++++.+.+.+........-
T Consensus       163 ~~~~~~a~~l~~~l~~l~~~~~~~~~~vi~~NQv~~~~~~~-~g~~~--~~~GG~al~~~ss~rl~l~k~~~~kdg~~~i  239 (269)
T d1mo6a1         163 SHVGLQARLMSQALRKMTGALNNSGTTAIFINQLRDKIGVM-FGSPE--TTTGGKALKFYASVRMDVRRVETLKDGTNAV  239 (269)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHHHHTCEEEEEECC----------------CTTHHHHHHHCSEEEEEEEEECCBCSSSBC
T ss_pred             chHHHHHHHHHHHHHHHHHHHhhcCchhhhhheeeccCccc-cCCce--ecccccceeeeeeEEEEEEecceeccCCceE
Confidence             11 1334577888889999999999999999987544321 11222  1236778999999999997754322111112


Q ss_pred             C-eEEEEEeeccCCCcce-EEEEEE
Q psy2892         421 G-IAEIIVSKQRNGPIGN-IRLTFS  443 (452)
Q Consensus       421 ~-~~~l~i~KnR~G~~g~-~~l~f~  443 (452)
                      | .+.+.+.|||.+++|. +.+...
T Consensus       240 G~~~~~kv~Knr~~~p~~~a~f~I~  264 (269)
T d1mo6a1         240 GNRTRVKVVKNKCLAPFKQAEFDIL  264 (269)
T ss_dssp             EEEEEEEEEEESSSCSCEEEEEEEE
T ss_pred             EEEEEEEEEECCCCCCCCEEEEEEE
Confidence            3 3568999999999875 555443

>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=99.84  E-value=1.5e-21  Score=180.11  Aligned_cols=216  Identities=14%  Similarity=0.136  Sum_probs=144.6

Q ss_pred             CccccccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh---------------CCCcEEEEeCCCCHH
Q psy2892         193 DVTGISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE---------------NKLPVAIFSMEMSGI  256 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~---------------~g~~vl~~s~E~~~~  256 (452)
                      ...++|||++.||+++ ||+++|++++|+|+||+|||+|++|+|.+++..               .+.+|+|+++|.+..
T Consensus        12 ~~~~i~TG~~~LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~   91 (258)
T d2i1qa2          12 TVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFR   91 (258)
T ss_dssp             TCCEECCSCHHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCC
T ss_pred             CCceecCCCHHHHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCCceEEeecccchhcCceEEEEEecCCcC
Confidence            4568999999999984 679999999999999999999999999999753               134688999987665


Q ss_pred             HHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCC-C-HHHHHHHHHHHHHHcCCccEEEEcCc
Q psy2892         257 QLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSL-N-VIELRANSRRLSRQCGKIGVIIIDYL  334 (452)
Q Consensus       257 ~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~-t-~~~i~~~i~~~~~~~~~~~~vvID~l  334 (452)
                      ....+..+........             .      .+  ..+.+...... . .+.+......+.... .+.++++|.+
T Consensus        92 ~~~~~~~~~~~~~~~~-------------~------~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~vid~i  149 (258)
T d2i1qa2          92 PERIMQMAEHAGIDGQ-------------T------VL--DNTFVARAYNSDMQMLFAEKIEDLIQEGN-NIKLVVIDSL  149 (258)
T ss_dssp             HHHHHHHHHHHTCCHH-------------H------HH--HTEEEEECSSHHHHHHHHHTHHHHHHTTC-EEEEEEEECS
T ss_pred             HHHHHHHHhhcchhhh-------------h------hh--hcceeeccCchhhHHHHHHHHHHHHHHhc-ccceeeeeEE
Confidence            5555544332222111             0      01  13333322111 1 122333333333333 4889999999


Q ss_pred             chhccCC--CC---CCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         335 QLMSANS--RG---ENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       335 ~~i~~~~--~~---~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      ..+....  ..   ..+......+++.++.+++.++++++++.|........   .+......++..+++.||+++.+.+
T Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~i~l~~  226 (258)
T d2i1qa2         150 TSTFRNEYTGRGKLAERQQKLGRHMATLNKLADLFNCVVLVTNQVSAKPDAF---FGMAEQAIGGHIVGHAATFRFFVRK  226 (258)
T ss_dssp             SHHHHHHCCCTTSHHHHHHHHHHHHHHHHHHHHHTTCEEEEEECEECC----------CCEESSHHHHHHHCSEEEEEEE
T ss_pred             EEeechhccccccchhhHHHHHHHHHHHHHhhhhcceEEEeecceEeccccc---cCCcccccCcchhhhhceEEEEEEE
Confidence            8765422  11   12344566788899999999999999998876544322   2333345677889999999999987


Q ss_pred             CcccccCCCCCCeEEEEEeeccCCCcceEEEE
Q psy2892         410 DEVYNQNSADKGIAEIIVSKQRNGPIGNIRLT  441 (452)
Q Consensus       410 ~~~~~~~~~~~~~~~l~i~KnR~G~~g~~~l~  441 (452)
                      .+        .+.+.+.|.|+|+|+.|++.|.
T Consensus       227 ~~--------~~~r~l~v~K~R~~~~~~~~f~  250 (258)
T d2i1qa2         227 GK--------GDKRVAKLYDSPHLPDAEAIFR  250 (258)
T ss_dssp             CS--------TTEEEEEEEECSSSCCEEEEEE
T ss_pred             cC--------CCEEEEEEEECCCCCCceEEEE
Confidence            53        2468999999999999887544

>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=99.84  E-value=1e-20  Score=174.89  Aligned_cols=216  Identities=15%  Similarity=0.152  Sum_probs=141.5

Q ss_pred             CccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCCCHHHHHHHHHHHh
Q psy2892         193 DVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEMSGIQLAMRMLGSV  266 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~~~~~i~~R~~a~~  266 (452)
                      .+.++|||++.||.+ .||+++|.+++|+|+||+|||+|++|++.+.+..     .+..++|+..|........|.....
T Consensus        14 ~i~ri~TGi~~LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (254)
T d1pzna2          14 TIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQN   93 (254)
T ss_dssp             TCCEECCSCHHHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHHHHHHHT
T ss_pred             CCCeECCCCHHHHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhhchHHhcCCCceEEEEeccchhHHHHHHHHHHh
Confidence            456899999999998 5779999999999999999999999999998642     3678999999987766655655544


Q ss_pred             CCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHH----HHHHH---HHcCCccEEEEcCcchhcc
Q psy2892         267 GKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRAN----SRRLS---RQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       267 ~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~----i~~~~---~~~~~~~~vvID~l~~i~~  339 (452)
                      .+.+.....                    ....++. .  .+.......    .....   .....+.++++|+++.+..
T Consensus        94 ~~~~~~~~~--------------------~~~~~~~-~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viDs~~~~~~  150 (254)
T d1pzna2          94 RGLDPDEVL--------------------KHIYVAR-A--FNSNHQMLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFR  150 (254)
T ss_dssp             TTCCHHHHG--------------------GGEEEEE-C--CSHHHHHHHHHHHHHHHHHSSSSSSCEEEEEEETSSTTHH
T ss_pred             cCCChHHhh--------------------hhhhhhh-h--ccchhHHHHHHhhhhhhHHHHhhccCceeEeecchhheee
Confidence            444332211                    1111221 1  111111111    11111   1112488999999987653


Q ss_pred             CC--CCC---CHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccc
Q psy2892         340 NS--RGE---NRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYN  414 (452)
Q Consensus       340 ~~--~~~---~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~  414 (452)
                      ..  ...   .....+......++.++...++++++++|.+....   ...+......++..+++.||.++.|.+.+   
T Consensus       151 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~l~l~~~~---  224 (254)
T d1pzna2         151 SEYIGRGALAERQQKLAKHLADLHRLANLYDIAVFVTNQVQARPD---AFFGDPTRPIGGHILAHSATLRVYLRKGK---  224 (254)
T ss_dssp             HHCCSTTTHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECC------------------CCCCCTTCSEEEEEEECT---
T ss_pred             hhhcccchhhhhHHHHHHHHHHHHHHhhccceEEEecceEeeccC---cccCCceeecCceeehhhceEEEEEEecC---
Confidence            21  111   23445667778888899999999999999976542   22344455567888999999999998753   


Q ss_pred             cCCCCCCeEEEEEeeccCCCcceEEEEE
Q psy2892         415 QNSADKGIAEIIVSKQRNGPIGNIRLTF  442 (452)
Q Consensus       415 ~~~~~~~~~~l~i~KnR~G~~g~~~l~f  442 (452)
                           .+.+.+.|.|+|+++.|.+.|..
T Consensus       225 -----~~~R~~~v~K~R~~~~~~~~f~I  247 (254)
T d1pzna2         225 -----GGKRIARLIDAPHLPEGEAVFSI  247 (254)
T ss_dssp             -----TSEEEEEESCSSSSCCSEEEEEE
T ss_pred             -----CCeEEEEEEECCCCCCeEEEEEE
Confidence                 23578999999999999876554

>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=99.82  E-value=2.7e-20  Score=171.14  Aligned_cols=218  Identities=12%  Similarity=0.150  Sum_probs=145.1

Q ss_pred             CccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCCCHHHHHHHHHHHh
Q psy2892         193 DVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEMSGIQLAMRMLGSV  266 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~~~~~i~~R~~a~~  266 (452)
                      ...+||||++.||.+ .||+++|.+++|+|+||+|||+|++|++.+++..     .+.+++|++.|.+......+.....
T Consensus        12 ~~~~i~TGi~~LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~   91 (251)
T d1szpa2          12 ELICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVSIAQR   91 (251)
T ss_dssp             SSCEECCSCHHHHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGGHHHHHH
T ss_pred             CCCeecCCCHHHHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHHHHHHHHh
Confidence            456899999999998 5779999999999999999999999999887531     3678999999987654444433333


Q ss_pred             CCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCC-CCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC----
Q psy2892         267 GKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETP-SLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS----  341 (452)
Q Consensus       267 ~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~-~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~----  341 (452)
                      .+++....                   .  ..+.+.+.. .................. .+.++++|++..+....    
T Consensus        92 ~~~~~~~~-------------------~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ds~~~~~~~~~~~~  149 (251)
T d1szpa2          92 FGLDPDDA-------------------L--NNVAYARAYNADHQLRLLDAAAQMMSES-RFSLIVVDSVMALYRTDFSGR  149 (251)
T ss_dssp             TCCCHHHH-------------------G--GGEEEEECCSTTTHHHHHHHTHHHHHHS-CEEEEEEETGGGGGSCC----
T ss_pred             cCCchhhh-------------------h--cceEEEeccchhHHHHHHHHHHHHhhcc-ccceeeehhhhhhhhhhhccc
Confidence            33332211                   1  123333222 222334444444444444 48999999998876432    


Q ss_pred             -CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCC
Q psy2892         342 -RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADK  420 (452)
Q Consensus       342 -~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~  420 (452)
                       ...........++..|..++...++++++++|++..........+......++..+++.+|.++.+.+.+        .
T Consensus       150 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~~i~l~~~~--------~  221 (251)
T d1szpa2         150 GELSARQMHLAKFMRALQRLADQFGVAVVVTNQVVAQVDGGMAFNPDPKKPTGGNIMAHSSTTRLGFKKGK--------G  221 (251)
T ss_dssp             -CTHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECC----------------CHHHHHHHHCSEEEEEEECS--------T
T ss_pred             cchhhHHHHHHHHHHHHHhhhhhcceEEEEEEEEEeccCccccccCcceeccCccchhhheeEEEEEEecC--------C
Confidence             1123344567788899999999999999999998765433222333344566778999999999998753        2


Q ss_pred             CeEEEEEeeccCCCcceEEE
Q psy2892         421 GIAEIIVSKQRNGPIGNIRL  440 (452)
Q Consensus       421 ~~~~l~i~KnR~G~~g~~~l  440 (452)
                      +.+.+.+.|+|+++.+.+.|
T Consensus       222 ~~r~l~i~K~r~~~~~~~~f  241 (251)
T d1szpa2         222 CQRLCKVVDSPCLPEAECVF  241 (251)
T ss_dssp             TEEEEECCSCSSSCCCCCCE
T ss_pred             cEEEEEEEECCCCCCeeEEE
Confidence            46789999999999887543

>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=99.81  E-value=2e-19  Score=166.10  Aligned_cols=220  Identities=13%  Similarity=0.126  Sum_probs=139.4

Q ss_pred             CccccccCccccccc-cCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-----CCCcEEEEeCCCCHHHHHHHHHHHh
Q psy2892         193 DVTGISTGFFELDKI-TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-----NKLPVAIFSMEMSGIQLAMRMLGSV  266 (452)
Q Consensus       193 ~~~~i~tg~~~LD~~-~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-----~g~~vl~~s~E~~~~~i~~R~~a~~  266 (452)
                      .+.++|||++.||++ .||+++|.+++|+|+||+|||+|++|++.+++..     .+..|+|++.|........+.+...
T Consensus        15 ~~~ri~TGi~~LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (258)
T d1v5wa_          15 MVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADR   94 (258)
T ss_dssp             GCCCBCCSCHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHHHHHH
T ss_pred             CCceecCCCHHHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHHHhhhhcccccceEEEechHHHHHHHHHHHHHhh
Confidence            456899999999998 5799999999999999999999999999987542     2457999999987655444444332


Q ss_pred             CCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCC-CCHHHHHHHHHHHHH-HcCCccEEEEcCcchhccCCC--
Q psy2892         267 GKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPS-LNVIELRANSRRLSR-QCGKIGVIIIDYLQLMSANSR--  342 (452)
Q Consensus       267 ~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~-~t~~~i~~~i~~~~~-~~~~~~~vvID~l~~i~~~~~--  342 (452)
                      .+.+...                   .+  ..+.+..... ....++...+..... +..+++++++|++..+.....  
T Consensus        95 ~~~~~~~-------------------~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vid~~~~~~~~~~~~  153 (258)
T d1v5wa_          95 FNVDHDA-------------------VL--DNVLYARAYTSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRVDFSG  153 (258)
T ss_dssp             TTCCHHH-------------------HH--HTEEEEECCSTTHHHHHHHHHHHHHHHSCSSEEEEEEETSGGGHHHHCCG
T ss_pred             hcccchh-------------------hh--hcccccccCcHHHHHHHHHHHHHHhhhhccCceEEEeeehhhhhhccccC
Confidence            2222110                   01  1233322211 112233322222222 222589999999998654221  


Q ss_pred             ---CCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCC
Q psy2892         343 ---GENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSAD  419 (452)
Q Consensus       343 ---~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~  419 (452)
                         .......+..++..|+.+++++++++++++|.+.................++..+.+.+|.++.+.+.+        
T Consensus       154 ~~~~~~~~~~l~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l~l~~~~--------  225 (258)
T d1v5wa_         154 RGELAERQQKLAQMLSRLQKISEEYNVAVFVTNQMTADPGATMTFQADPKKPIGGHILAHASTTRISLRKGR--------  225 (258)
T ss_dssp             GGCHHHHHHHHHHHHHHHHHHHHHHTCEEEEEECC-------------------CCTTTTSSSEEEEEEESS--------
T ss_pred             CcchhHHHHHHHHHHHHHHHHHHhcCCEEEEeeeEeecccccccccCCceeecccceehheeEEEEEEEEcC--------
Confidence               113445678889999999999999999999997654332222233344566778999999999997642        


Q ss_pred             CCeEEEEEeeccCCCcceEEEE
Q psy2892         420 KGIAEIIVSKQRNGPIGNIRLT  441 (452)
Q Consensus       420 ~~~~~l~i~KnR~G~~g~~~l~  441 (452)
                      .+.+.+.+.|+|+++.+.+.|.
T Consensus       226 ~~~R~l~i~K~r~~~~~~~~F~  247 (258)
T d1v5wa_         226 GELRIAKIYDSPEMPENEATFA  247 (258)
T ss_dssp             TTEEEEEEEECTTCCSSCEEEE
T ss_pred             CCEEEEEEEeCCCCCCcEEEEE
Confidence            2367899999999987766543

>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=99.79  E-value=4e-19  Score=160.25  Aligned_cols=218  Identities=13%  Similarity=0.127  Sum_probs=125.6

Q ss_pred             ccccccCcccccccc-CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC-----CCcEEEEeCCCCHHHHHHHHHHHhC
Q psy2892         194 VTGISTGFFELDKIT-SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN-----KLPVAIFSMEMSGIQLAMRMLGSVG  267 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~-gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~-----g~~vl~~s~E~~~~~i~~R~~a~~~  267 (452)
                      +.+||||++.||.++ ||+++|++++|+|+||+|||+||+|+|.+++...     +..+.++..+........+......
T Consensus         2 ~~ri~TG~~~LD~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (242)
T d1n0wa_           2 IIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERY   81 (242)
T ss_dssp             CCEECCSCHHHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHHT
T ss_pred             CCEEcCCCHHHHHhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHHHhhccccccceehhhhhhhhhHHHHHHHHHhhc
Confidence            458999999999984 6999999999999999999999999999987421     2346666665443333222222111


Q ss_pred             CCCccccccCCCCcchHHHHHHHHHHHhCCCeEE-EcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCC-----
Q psy2892         268 KLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYI-DETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANS-----  341 (452)
Q Consensus       268 ~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i-~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~-----  341 (452)
                      ..+          .+.          ... .+.. .........+............ ...++.+|.+..+....     
T Consensus        82 ~~~----------~~~----------~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~  139 (242)
T d1n0wa_          82 GLS----------GSD----------VLD-NVAYARAFNTDHQTQLLYQASAMMVES-RYALLIVDSATALYRTDYSGRG  139 (242)
T ss_dssp             TCC----------HHH----------HHH-TEEEEECCSHHHHHHHHHHHHHHHHHS-CEEEEEEETSSGGGC-------
T ss_pred             ccc----------hhh----------hhh-hhhhhhhhchhhhhhhhhhhhhhhhhh-hheeecccceeeeehhhhhccc
Confidence            111          000          000 1222 2111111222222222333333 37888888887665432     


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCcccccCCCCCC
Q psy2892         342 RGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDEVYNQNSADKG  421 (452)
Q Consensus       342 ~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~~~~~~~~~~~  421 (452)
                      ...........+.+.|+.++++.+++++.+.|++..........+......++..+++.+|.++.|++.+        ..
T Consensus       140 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~l~~~~--------~~  211 (242)
T d1n0wa_         140 ELSARQMHLARFLRMLLRLADEFGVAVVITNQVVAQVDGAAMFAADPKKPIGGNIIAHASTTRLYLRKGR--------GE  211 (242)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHCCEEEEEC-------------------------CCTTCEEEEEEECS--------TT
T ss_pred             chhhhHHHHHHHHHHHHHhhhhcceeEEEEEEEeccccccceeecccccccchhhHHHhCcEEEEEEEcC--------Cc
Confidence            1122344567788889999999999999999998755444444455556667778999999999998753        24


Q ss_pred             eEEEEEeeccCCCcceEEEE
Q psy2892         422 IAEIIVSKQRNGPIGNIRLT  441 (452)
Q Consensus       422 ~~~l~i~KnR~G~~g~~~l~  441 (452)
                      .+.+.|.|+|+++.+.+.|.
T Consensus       212 ~r~~~i~K~r~~~~~~~~f~  231 (242)
T d1n0wa_         212 TRICKIYDSPCLPEAEAMFA  231 (242)
T ss_dssp             EEEEEECCBTTBSCEEEEEE
T ss_pred             EEEEEEEeCCCCCCeEEEEE
Confidence            57899999999998876543

>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=98.27  E-value=1.4e-05  Score=69.28  Aligned_cols=61  Identities=11%  Similarity=0.098  Sum_probs=45.0

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH--HHHhCCCCccc
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM--LGSVGKLDQHK  273 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~--~a~~~~i~~~~  273 (452)
                      ..+.++++.|++|+||||.+..+|.++. ++|.+|++++++--.-.-.+.+  .+...+++...
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~~~-~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~   70 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALYYK-GKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLE   70 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHHHH-HTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEecccccchHHHHHHHHHHhcCCcccc
Confidence            3456899999999999999999999986 5789999999986544333332  33444555443

>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=98.24  E-value=1e-05  Score=70.23  Aligned_cols=40  Identities=20%  Similarity=0.289  Sum_probs=35.5

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      ++.++++.|++|+||||.+.-+|..+. +.|.+|.+++++-
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~-~~g~kV~lit~Dt   44 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQ-NLGKKVMFCAGDT   44 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHH-TTTCCEEEECCCC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEEecc
Confidence            456899999999999999999998875 5789999999985

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=98.14  E-value=2.3e-06  Score=75.94  Aligned_cols=179  Identities=15%  Similarity=0.179  Sum_probs=101.8

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC----CCCHHHHHH--HHHHHhCC----CCc
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM----EMSGIQLAM--RMLGSVGK----LDQ  271 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~----E~~~~~i~~--R~~a~~~~----i~~  271 (452)
                      ..|+.+.--+.+|+++.|.|++|+||||++.-++--.  .....-++|..    +++..++..  |-++....    ++.
T Consensus        19 ~al~~vsl~i~~Ge~~~iiG~sGsGKSTLl~~i~Gl~--~p~sG~I~~~g~~i~~~~~~~~~~~rr~ig~VfQ~~~l~~~   96 (240)
T d3dhwc1          19 QALNNVSLHVPAGQIYGVIGASGAGKSTLIRCVNLLE--RPTEGSVLVDGQELTTLSESELTKARRQIGMIFQHFNLLSS   96 (240)
T ss_dssp             EEEEEEEEEECSSCEEEEEESTTSSHHHHHHHHTTSS--CCSEEEEEETTEEECTTCHHHHHHHHHHEEECCSSCCCCTT
T ss_pred             EEeeceeEEEcCCCEEEEECCCCCCHHHHHHHHcCCc--cccCCceEEcCeEeeeCChhhhhhhhccccccccccccCCC
Confidence            4577775568999999999999999999977665422  11112233322    335554432  22221111    000


Q ss_pred             ccc--------ccCCCCcch-HHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHH--HHHHHHHcCCccEEEEcCcchhccC
Q psy2892         272 HKL--------RTGRLSSDD-WPRINDSIKKINKSQLYIDETPSLNVIELRAN--SRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       272 ~~i--------~~g~l~~~~-~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~--i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                      ..+        ....++.++ .+++.+..+.+.=....-.....+|-.+-...  ++.+.  . +|++++.|.-..--  
T Consensus        97 ~tv~eni~~~l~~~~~~~~~~~~~v~~~L~~vgL~~~~~~~~~~LSGG~~QRvaiAraL~--~-~P~lLllDEPt~~L--  171 (240)
T d3dhwc1          97 RTVFGNVALPLELDNTPKDEVKRRVTELLSLVGLGDKHDSYPSNLSGGQKQRVAIARALA--S-NPKVLLCDEATSAL--  171 (240)
T ss_dssp             SBHHHHHHHHHHTTTCCTTHHHHHHHHHHHHHSTTTTTSSCBSCCCHHHHHHHHHHHHHH--T-CCSEEEEESGGGSS--
T ss_pred             ccHHHHHHHHHHHcCCCHHHHHHHHHHHHHHcCCchhhhCChhhCCHHHHHHHHHhhhhc--c-CCCeEEeccccccC--
Confidence            000        011244443 34556666655322211111235665554433  33333  3 49999999854321  


Q ss_pred             CCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         341 SRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       341 ~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                          +. .....+.+.|+.+.+++|++||+++|--                   ..+.+.||.|++++.-+
T Consensus       172 ----D~-~~~~~i~~~l~~l~~~~g~tvi~vTHdl-------------------~~~~~~~dri~vl~~G~  218 (240)
T d3dhwc1         172 ----DP-ATTRSILELLKDINRRLGLTILLITHEM-------------------DVVKRICDCVAVISNGE  218 (240)
T ss_dssp             ----CH-HHHHHHHHHHHHHHHHHCCEEEEEBSCH-------------------HHHHHHCSEEEEEETTE
T ss_pred             ----CH-HHhhHHHHHHHHHHhccCCEEEEEcCCH-------------------HHHHHhCCEEEEEECCE
Confidence                22 2345788899999999999999999832                   23567899999997643

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.13  E-value=7.6e-07  Score=78.76  Aligned_cols=178  Identities=15%  Similarity=0.118  Sum_probs=85.3

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhC-------------
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVG-------------  267 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~-------------  267 (452)
                      ...|+.+.--+++|+++.|.|++|+||||++.-++--. .-....|.+-.-+.+...-..|-++...             
T Consensus        13 ~~~l~~isl~i~~Gei~~liGpsGsGKSTLl~~i~Gl~-~p~sG~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~~tv~e   91 (232)
T d2awna2          13 VVVSKDINLDIHEGEFVVFVGPSGCGKSTLLRMIAGLE-TITSGDLFIGEKRMNDTPPAERGVGMVFQSYALYPHLSVAE   91 (232)
T ss_dssp             EEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTSS-CCSEEEEEESSSCCTTSCGGGTCEEEECSSCCC--------
T ss_pred             EEEEeeeEEEEcCCCEEEEECCCCChHHHHHHHHhcCC-CCCCCEEEECCEECCCCchhhceeeeeccccccccchhHHH
Confidence            34566664468999999999999999999977554322 1011112211111110000011110000             


Q ss_pred             CCCccccccCCCCcch-HHHHHHHHHHHhCCCeEEEc-CCCCCHHHH--HHHHHHHHHHcCCccEEEEcCcchhccCCCC
Q psy2892         268 KLDQHKLRTGRLSSDD-WPRINDSIKKINKSQLYIDE-TPSLNVIEL--RANSRRLSRQCGKIGVIIIDYLQLMSANSRG  343 (452)
Q Consensus       268 ~i~~~~i~~g~l~~~~-~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i--~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~  343 (452)
                      .+...... ..++.++ .+++.+..+.+.-.. +.+. ...+|-.+-  .+.++.+.  + +|++++.|.-..      +
T Consensus        92 ni~~~~~~-~~~~~~~~~~~v~~~l~~~~l~~-~~~~~~~~LSGGqkQRvaiAraL~--~-~P~illlDEPts------~  160 (232)
T d2awna2          92 NMSFGLKL-AGAKKEVINQRVNQVAEVLQLAH-LLDRKPKALSGGQRQRVAIGRTLV--A-EPSVFLLDEPLS------N  160 (232)
T ss_dssp             --------------CHHHHHHHHHHHHC----------------------CHHHHHH--T-CCSEEEEESTTT------T
T ss_pred             HHHHHHHH-cCCCHHHHHHHHHHHHHhCCChh-hhhCChhhCCHHHHHHHHHHHHHh--c-CCCEEEEcCCCC------C
Confidence            00000000 1122333 234445544432111 1111 122332222  23333443  3 499999998432      1


Q ss_pred             CCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         344 ENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       344 ~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      -+. ....++.+.|+.+.++.|++||+++|--.                   ...+.||.+++++.-
T Consensus       161 LD~-~~~~~i~~~l~~l~~~~g~tii~vTHd~~-------------------~a~~~~dri~vm~~G  207 (232)
T d2awna2         161 LDA-ALRVQMRIEISRLHKRLGRTMIYVTHDQV-------------------EAMTLADKIVVLDAG  207 (232)
T ss_dssp             SCH-HHHHHHHHHHHHHHHHSCCEEEEEESCHH-------------------HHHHHCSEEEEEETT
T ss_pred             CCH-HHHHHHHHHHHHHHHhcCCEEEEEeCCHH-------------------HHHHhCCEEEEEECC
Confidence            222 23457788999999999999999998321                   356679999999753

>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=98.12  E-value=9.6e-06  Score=70.41  Aligned_cols=41  Identities=15%  Similarity=0.169  Sum_probs=35.6

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      .++++.|++|+||||.+.-+|..+. ++|.+|+.++++--.-
T Consensus        10 ~vi~lvGptGvGKTTTiAKLA~~~~-~~g~kV~lit~Dt~R~   50 (211)
T d2qy9a2          10 FVILMVGVNGVGKTTTIGKLARQFE-QQGKSVMLAAGDTFRA   50 (211)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHH-TTTCCEEEECCCTTCH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEecccccc
Confidence            4888999999999999999998875 6789999999986443

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=98.03  E-value=1.9e-05  Score=69.93  Aligned_cols=170  Identities=14%  Similarity=0.150  Sum_probs=97.4

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC----------------------CCcEEEEeC------C
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN----------------------KLPVAIFSM------E  252 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~----------------------g~~vl~~s~------E  252 (452)
                      ...||.+.--+++|+++.|.|++|+||||++.-++--..-..                      ...|.|+.-      .
T Consensus        16 ~~al~~vsl~i~~Ge~~~liG~sGaGKSTll~~i~gl~~p~sG~I~~~g~~i~~~~~~~~~~~~~r~ig~v~Q~~~L~~~   95 (240)
T d1g2912          16 VTAVREMSLEVKDGEFMILLGPSGCGKTTTLRMIAGLEEPSRGQIYIGDKLVADPEKGIFVPPKDRDIAMVFQSYALYPH   95 (240)
T ss_dssp             EEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEEEETTEEEEEGGGTEECCGGGSSEEEECSCCCCCTT
T ss_pred             EEEEcceeeEEcCCCEEEEECCCCChHHHHHHHHhcCCCCCCCEEEECCEEecccchhhhcccccccceecccchhhcch
Confidence            456777755689999999999999999999886654221000                      123555421      2


Q ss_pred             CCHHHHHHHHHHHhCCCCccccccCCCCcchH-HHHHHHHHHHhCCCeEEEcCCCCCHHHHHH--HHHHHHHHcCCccEE
Q psy2892         253 MSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDW-PRINDSIKKINKSQLYIDETPSLNVIELRA--NSRRLSRQCGKIGVI  329 (452)
Q Consensus       253 ~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~-~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~--~i~~~~~~~~~~~~v  329 (452)
                      ++..+-..-.. ...          .++.++. +++.+..+.+.-..+.-.....+|-.+-..  .++.+.  . +|+++
T Consensus        96 ltV~eni~~~~-~~~----------~~~~~e~~~~v~~~l~~~~l~~~~~~~p~~LSGGqkQRv~IAraL~--~-~P~iL  161 (240)
T d1g2912          96 MTVYDNIAFPL-KLR----------KVPRQEIDQRVREVAELLGLTELLNRKPRELSGGQRQRVALGRAIV--R-KPQVF  161 (240)
T ss_dssp             SCHHHHHHHHH-HHT----------TCCHHHHHHHHHHHHHHHTCGGGTTCCGGGSCHHHHHHHHHHHHHH--T-CCSEE
T ss_pred             hhhhHhhhhhH-HHc----------CCCHHHHHHHHHHHHHHcCChhHhcCChhhCCHHHHHHHHHHHHHh--c-CCCEE
Confidence            23222221111 111          1233332 344555544421111101123456544433  333333  3 49999


Q ss_pred             EEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         330 IIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       330 vID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      +.|--+.      +-+ ......+.+.|+++.+++|++||+++|--.                   .+...||.|+++++
T Consensus       162 llDEPt~------~LD-~~~~~~i~~~l~~l~~~~g~tvi~vTHd~~-------------------~~~~~~drv~vm~~  215 (240)
T d1g2912         162 LMDEPLS------NLD-AKLRVRMRAELKKLQRQLGVTTIYVTHDQV-------------------EAMTMGDRIAVMNR  215 (240)
T ss_dssp             EEECTTT------TSC-HHHHHHHHHHHHHHHHHHTCEEEEEESCHH-------------------HHHHHCSEEEEEET
T ss_pred             EecCCCc------ccC-HHHHHHHHHHHHHHHhccCCEEEEEcCCHH-------------------HHHHhCCEEEEEEC
Confidence            9998532      122 233457888899999999999999998321                   35667999999976


Q ss_pred             C
Q psy2892         410 D  410 (452)
Q Consensus       410 ~  410 (452)
                      -
T Consensus       216 G  216 (240)
T d1g2912         216 G  216 (240)
T ss_dssp             T
T ss_pred             C
Confidence            4

>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=98.02  E-value=7.6e-05  Score=64.65  Aligned_cols=42  Identities=12%  Similarity=0.187  Sum_probs=32.1

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG  255 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~  255 (452)
                      +..++++.|+||+||||.+.-+|.++. .+|.+|.+++++--.
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~~-~~g~kV~lit~Dt~R   52 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFYK-KKGFKVGLVGADVYR   52 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHHH-HTTCCEEEEECCCSS
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH-HCCCceEEEEeeccc
Confidence            445788899999999999999998875 578999999998653

>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=98.00  E-value=4.1e-05  Score=66.47  Aligned_cols=41  Identities=20%  Similarity=0.263  Sum_probs=35.6

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      +..++++.|++|+||||.+..+|.++. .+|.+|.+++++--
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLAa~~~-~~~~kV~lit~Dt~   50 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLAKMFV-DEGKSVVLAAADTF   50 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEEECTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH-HCCCceEEEeeccc
Confidence            345788899999999999999999885 57899999999864

>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=97.99  E-value=2.8e-05  Score=68.37  Aligned_cols=177  Identities=14%  Similarity=0.193  Sum_probs=94.5

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC---CCCHHHHHH---HHHHHhCC----CC
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM---EMSGIQLAM---RMLGSVGK----LD  270 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~---E~~~~~i~~---R~~a~~~~----i~  270 (452)
                      +..|+.+.--+++|+++.|.|++|+||||++. ++.....-....|.|-..   .++..++..   +-++....    ++
T Consensus        18 ~~al~~isl~i~~Ge~~~iiG~sGsGKSTLl~-~i~gl~~p~sG~I~~~g~~i~~~~~~~~~~~r~~~ig~v~Q~~~l~~   96 (230)
T d1l2ta_          18 IYALKNVNLNIKEGEFVSIMGPSGSGKSTMLN-IIGCLDKPTEGEVYIDNIKTNDLDDDELTKIRRDKIGFVFQQFNLIP   96 (230)
T ss_dssp             EEEEEEEEEEECTTCEEEEECSTTSSHHHHHH-HHTTSSCCSEEEEEETTEECTTCCHHHHHHHHHHHEEEECTTCCCCT
T ss_pred             EEEEeceEEEEcCCCEEEEECCCCCCcchhhH-hccCCCCCCcceeEECCEEcCcCChhhcchhhcceEEEEecchhhCc
Confidence            34577775569999999999999999999966 433332111123443222   345555432   11221111    01


Q ss_pred             ccccc-----------cCCCCcchHHHHHHHHHHHhCCCeE--EEc--CCCCCHHHHHH--HHHHHHHHcCCccEEEEcC
Q psy2892         271 QHKLR-----------TGRLSSDDWPRINDSIKKINKSQLY--IDE--TPSLNVIELRA--NSRRLSRQCGKIGVIIIDY  333 (452)
Q Consensus       271 ~~~i~-----------~g~l~~~~~~~~~~a~~~l~~~~l~--i~~--~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~  333 (452)
                      ...+.           .+..+.++.  ...+.+.+....+.  +.+  ...+|-.+-..  .++.+  .. +|++++.|-
T Consensus        97 ~~tv~eni~~~~~~~~~~~~~~~~~--~~~~~~~l~~~~L~~~~~~~~p~~LSGGqkQRvaIAraL--~~-~P~lLllDE  171 (230)
T d1l2ta_          97 LLTALENVELPLIFKYRGAMSGEER--RKRALECLKMAELEERFANHKPNQLSGGQQQRVAIARAL--AN-NPPIILADQ  171 (230)
T ss_dssp             TSCHHHHHHHHHHTCCSSCCCHHHH--HHHHHHHHHHTTCCGGGTTCCGGGSCHHHHHHHHHHHHH--TT-CCSEEEEES
T ss_pred             CccHHHHHhHHHHHhccCCCCHHHH--HHHHHHHHHhhchhhhhhcCChhhCCHHHHHHHHHHhhh--hc-CCCEEEecC
Confidence            00110           112222221  22233333322221  111  12355544433  33333  23 499999998


Q ss_pred             cchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         334 LQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       334 l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      -+.      +-+ ......+...|+++.+++|++||+++|--                    .....||.|++++.-
T Consensus       172 PTs------~LD-~~~~~~i~~~l~~l~~~~g~tii~vTHd~--------------------~~a~~~drv~~m~~G  221 (230)
T d1l2ta_         172 PTG------ALD-SKTGEKIMQLLKKLNEEDGKTVVVVTHDI--------------------NVARFGERIIYLKDG  221 (230)
T ss_dssp             TTT------TSC-HHHHHHHHHHHHHHHHTTCCEEEEECSCH--------------------HHHTTSSEEEEEETT
T ss_pred             Ccc------ccC-HHHHHHHHHHHHHHHHhhCCEEEEECCCH--------------------HHHHhCCEEEEEECC
Confidence            532      122 22345788999999999999999999821                    123469999999653

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=97.96  E-value=3e-05  Score=69.60  Aligned_cols=182  Identities=17%  Similarity=0.162  Sum_probs=93.0

Q ss_pred             CccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC-------------HHH---HHHHHH
Q psy2892         200 GFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS-------------GIQ---LAMRML  263 (452)
Q Consensus       200 g~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~-------------~~~---i~~R~~  263 (452)
                      +...|+.+.--+++|+++.|.|++|+||||++.-++--.  .....-++|..+.-             ...   ...|-+
T Consensus        14 ~~~al~~vs~~i~~GEi~~iiG~sGsGKSTLl~~i~Gl~--~p~~G~I~~~G~~i~~~~~~~~~~~~~~~~~~~~~r~~i   91 (258)
T d1b0ua_          14 GHEVLKGVSLQARAGDVISIIGSSGSGKSTFLRCINFLE--KPSEGAIIVNGQNINLVRDKDGQLKVADKNQLRLLRTRL   91 (258)
T ss_dssp             TEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTTSS--CCSEEEEEETTEECCEEECTTSSEEESCHHHHHHHHHHE
T ss_pred             CEEEEcceeeEEcCCCEEEEECCCCCcHHHHHHHHHcCc--cCCCCCEEECCEEeccCCccchhcccccHhHHHHHhcce
Confidence            345677775568999999999999999999998765321  11112223322210             011   111111


Q ss_pred             HHhC---CC----Cc-cc-----cccCCCCcch-HHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHHHHHHHHHHcCCccE
Q psy2892         264 GSVG---KL----DQ-HK-----LRTGRLSSDD-WPRINDSIKKINKSQLYIDE-TPSLNVIELRANSRRLSRQCGKIGV  328 (452)
Q Consensus       264 a~~~---~i----~~-~~-----i~~g~l~~~~-~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~~i~~~~~~~~~~~~  328 (452)
                      +...   ..    +. +.     +.....+..+ .+++.+..+.+.-.+...+. ...+|-.+....+-.-.-.. +|++
T Consensus        92 g~vfQ~~~l~~~~tv~env~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~p~~LSGG~~QRv~iAraL~~-~P~l  170 (258)
T d1b0ua_          92 TMVFQHFNLWSHMTVLENVMEAPIQVLGLSKHDARERALKYLAKVGIDERAQGKYPVHLSGGQQQRVSIARALAM-EPDV  170 (258)
T ss_dssp             EEECSSCCCCTTSCHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTCCHHHHTSCGGGSCHHHHHHHHHHHHHHT-CCSE
T ss_pred             EEEEechhhccchhcchhhhhhHHHhcCCCHHHHHHHHHHHHHHcCCchhhhccCcccccHHHHHHHHHHHHHhc-CCCE
Confidence            1100   00    00 00     0111223222 22344444333211111111 23466555443322222223 4999


Q ss_pred             EEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEe
Q psy2892         329 IIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIY  408 (452)
Q Consensus       329 vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~  408 (452)
                      +|.|.-+.      +-+. ....++.+.|+.++++ |++||+++|-                +   ..+...||.|++|+
T Consensus       171 lilDEPT~------gLD~-~~~~~i~~ll~~l~~~-g~til~vtHd----------------l---~~~~~~adri~vm~  223 (258)
T d1b0ua_         171 LLFDEPTS------ALDP-ELVGEVLRIMQQLAEE-GKTMVVVTHE----------------M---GFARHVSSHVIFLH  223 (258)
T ss_dssp             EEEESTTT------TSCH-HHHHHHHHHHHHHHHT-TCCEEEECSC----------------H---HHHHHHCSEEEEEE
T ss_pred             EEeccccc------cCCH-HHHHHHHHhhhhhccc-CCceEEEeCC----------------H---HHHHHhCCEEEEEE
Confidence            99998532      1222 2345777888888765 8999998872                1   13567899999997


Q ss_pred             cCc
Q psy2892         409 RDE  411 (452)
Q Consensus       409 r~~  411 (452)
                      .-+
T Consensus       224 ~G~  226 (258)
T d1b0ua_         224 QGK  226 (258)
T ss_dssp             TTE
T ss_pred             CCE
Confidence            643

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=97.87  E-value=9.9e-06  Score=72.80  Aligned_cols=179  Identities=13%  Similarity=0.137  Sum_probs=92.8

Q ss_pred             CccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC---CCCHHHHHHHHHHHhCCCC------
Q psy2892         200 GFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM---EMSGIQLAMRMLGSVGKLD------  270 (452)
Q Consensus       200 g~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~---E~~~~~i~~R~~a~~~~i~------  270 (452)
                      +.+.|+.+.--+++|+++.|.|++|+||||++.-++--..- ....|.|..-   ..++.+...+-++....-+      
T Consensus        16 ~~~aL~~vs~~v~~Gei~~liG~nGaGKSTLl~~i~Gl~~p-~~G~I~~~g~~i~~~~~~~~~~~gi~~v~Q~~~~~~~l   94 (254)
T d1g6ha_          16 EFKALDGVSISVNKGDVTLIIGPNGSGKSTLINVITGFLKA-DEGRVYFENKDITNKEPAELYHYGIVRTFQTPQPLKEM   94 (254)
T ss_dssp             TEEEEEEECCEEETTCEEEEECSTTSSHHHHHHHHTTSSCC-SEEEEEETTEECTTCCHHHHHHHTEEECCCCCGGGGGS
T ss_pred             CeEEEcceEEEECCCCEEEEECCCCCcHHHHHHHHHCCCcC-CCcEEEECCEeccchhHHHHHHhcCCccCCccccCCCC
Confidence            45667777657899999999999999999999876654311 1122333221   2355544333121111100      


Q ss_pred             -cc-cc----------------ccCCC-CcchH-HHHHHHHHHHhCCCeEEE-cCCCCCHHHHH--HHHHHHHHHcCCcc
Q psy2892         271 -QH-KL----------------RTGRL-SSDDW-PRINDSIKKINKSQLYID-ETPSLNVIELR--ANSRRLSRQCGKIG  327 (452)
Q Consensus       271 -~~-~i----------------~~g~l-~~~~~-~~~~~a~~~l~~~~l~i~-~~~~~t~~~i~--~~i~~~~~~~~~~~  327 (452)
                       .. .+                ..... .++++ ++..+..+.+.-.. +.+ ....+|-.+-+  ..++.+.  . +|+
T Consensus        95 tv~enl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~-~~~~~~~~LSgG~~Qrv~iAraL~--~-~P~  170 (254)
T d1g6ha_          95 TVLENLLIGEICPGESPLNSLFYKKWIPKEEEMVEKAFKILEFLKLSH-LYDRKAGELSGGQMKLVEIGRALM--T-NPK  170 (254)
T ss_dssp             BHHHHHHGGGTSTTSCHHHHHHHCSSCCCCHHHHHHHHHHHHHTTCGG-GTTSBGGGSCHHHHHHHHHHHHHH--T-CCS
T ss_pred             eeeeeeeehhhhccccchhhhhhhcccccHHHHHHHHHHHHHhcCcch-hccCchhhCCcHHHHHHHHHHHHH--h-CcC
Confidence             00 00                00011 11111 22222222221111 111 12345554433  3333343  3 499


Q ss_pred             EEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEE
Q psy2892         328 VIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFI  407 (452)
Q Consensus       328 ~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l  407 (452)
                      ++++|.-+.      +-+. .....+...|+.++. .|++|++++|-=.                   .+.+.||.|+++
T Consensus       171 llilDEPt~------gLD~-~~~~~i~~~i~~l~~-~g~til~vsHdl~-------------------~~~~~~Drv~vm  223 (254)
T d1g6ha_         171 MIVMDEPIA------GVAP-GLAHDIFNHVLELKA-KGITFLIIEHRLD-------------------IVLNYIDHLYVM  223 (254)
T ss_dssp             EEEEESTTT------TCCH-HHHHHHHHHHHHHHH-TTCEEEEECSCCS-------------------TTGGGCSEEEEE
T ss_pred             chhhcCCcc------cCCH-HHHHHHHHHHHHHHH-CCCEEEEEeCcHH-------------------HHHHhCCEEEEE
Confidence            999998432      1222 234466777777754 5999999987322                   256779999998


Q ss_pred             ecC
Q psy2892         408 YRD  410 (452)
Q Consensus       408 ~r~  410 (452)
                      +.-
T Consensus       224 ~~G  226 (254)
T d1g6ha_         224 FNG  226 (254)
T ss_dssp             ETT
T ss_pred             eCC
Confidence            754

>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=97.85  E-value=3.7e-06  Score=74.06  Aligned_cols=175  Identities=15%  Similarity=0.190  Sum_probs=93.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCC----cccccc--
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLD----QHKLRT--  276 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~----~~~i~~--  276 (452)
                      .||.+.-.+.+|+++.|.|++|+||||++.-++--.-- ....|+|..-+.+.-.-..|-++....-+    ...+.+  
T Consensus        15 aL~~vs~~i~~Ge~~~liGpsGaGKSTll~~l~Gl~~p-~sG~I~~~G~~i~~~~~~~r~ig~v~Q~~~l~~~~tV~enl   93 (229)
T d3d31a2          15 SLDNLSLKVESGEYFVILGPTGAGKTLFLELIAGFHVP-DSGRILLDGKDVTDLSPEKHDIAFVYQNYSLFPHMNVKKNL   93 (229)
T ss_dssp             EEEEEEEEECTTCEEEEECCCTHHHHHHHHHHHTSSCC-SEEEEEETTEECTTSCHHHHTCEEECTTCCCCTTSCHHHHH
T ss_pred             EEeeeEEEECCCCEEEEECCCCCcHHHHHHHHhcCcCC-CCCEEEEccEeccccchhHhcceeeccccccCccccHHHHH
Confidence            57777556899999999999999999998877653211 11234332111111011122221111000    000000  


Q ss_pred             ------CCCCcchHHHHHHHHHHHhCCCeEEEc-CCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhccCCCCCCHH
Q psy2892         277 ------GRLSSDDWPRINDSIKKINKSQLYIDE-TPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMSANSRGENRA  347 (452)
Q Consensus       277 ------g~l~~~~~~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~  347 (452)
                            ....  +.+++.++.+.+.-..+ .+. ...+|-.+-..  .++.+.  . +|++++.|.-..      +-+. 
T Consensus        94 ~~~~~~~~~~--~~~~~~~~l~~~~l~~~-~~~~~~~LSGG~~QRvaiAraL~--~-~P~iLllDEPts------~LD~-  160 (229)
T d3d31a2          94 EFGMRMKKIK--DPKRVLDTARDLKIEHL-LDRNPLTLSGGEQQRVALARALV--T-NPKILLLDEPLS------ALDP-  160 (229)
T ss_dssp             HHHHHHHCCC--CHHHHHHHHHHTTCTTT-TTSCGGGSCHHHHHHHHHHHHTT--S-CCSEEEEESSST------TSCH-
T ss_pred             HHHHhhcccc--HHHHHHHHHHHhcchhh-HhCChhhCCHHHhcchhhhhhhh--c-cCCceeecCCCc------CCCH-
Confidence                  0111  22345555544421111 111 22455444333  233332  3 599999998432      2222 


Q ss_pred             HHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         348 TEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       348 ~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      ....++.+.|+.+.++.+++||+++|--.                   ...+.||.|++++.-
T Consensus       161 ~~~~~i~~~l~~l~~~~g~tii~vtHd~~-------------------~~~~~~drv~vm~~G  204 (229)
T d3d31a2         161 RTQENAREMLSVLHKKNKLTVLHITHDQT-------------------EARIMADRIAVVMDG  204 (229)
T ss_dssp             HHHHHHHHHHHHHHHHTTCEEEEEESCHH-------------------HHHHHCSEEEEESSS
T ss_pred             HHHHHHHHHHHHHHhcCCcEEEEEcCCHH-------------------HHHHhCCEEEEEECC
Confidence            23457788899999999999999998322                   356679999999764

>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=97.77  E-value=9.8e-05  Score=64.32  Aligned_cols=103  Identities=17%  Similarity=0.200  Sum_probs=66.5

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHHHhC
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINK  296 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~  296 (452)
                      ++|.|+||+|||.|+..++..+. ..+.+|+|++...-...+..-+..            +                   
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~------------~-------------------   86 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEAK-KRGYRVIYSSADDFAQAMVEHLKK------------G-------------------   86 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHH-HTTCCEEEEEHHHHHHHHHHHHHH------------T-------------------
T ss_pred             EEEECCCCCcHHHHHHHHHHHhc-cCccceEEechHHHHHHHHHHHHc------------c-------------------
Confidence            68999999999999999999886 478999999775333222221110            0                   


Q ss_pred             CCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCc
Q psy2892         297 SQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNR  376 (452)
Q Consensus       297 ~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r  376 (452)
                                 ...++...++       ..++++||.++.+...    ..++   ...-.+-..+.+.+.++|+++-..-
T Consensus        87 -----------~~~~~~~~~~-------~~dll~iDDi~~i~~~----~~~~---~~lf~lin~~~~~~~~iiits~~~p  141 (213)
T d1l8qa2          87 -----------TINEFRNMYK-------SVDLLLLDDVQFLSGK----ERTQ---IEFFHIFNTLYLLEKQIILASDRHP  141 (213)
T ss_dssp             -----------CHHHHHHHHH-------TCSEEEEECGGGGTTC----HHHH---HHHHHHHHHHHHTTCEEEEEESSCG
T ss_pred             -----------chhhHHHHHh-------hccchhhhhhhhhcCc----hHHH---HHHHHHHHHHhhccceEEEecCCcc
Confidence                       1222322221       4899999999988652    1222   1222344455688999999986653

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=97.66  E-value=2.9e-05  Score=62.20  Aligned_cols=56  Identities=18%  Similarity=0.112  Sum_probs=40.1

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKL  269 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i  269 (452)
                      +++|..++|.++||+|||..+...+...+.+.+.+++++..-   ..+.........+.
T Consensus         4 l~~~~~~il~~~tGsGKT~~~~~~~~~~~~~~~~~vli~~p~---~~l~~q~~~~~~~~   59 (140)
T d1yksa1           4 LKKGMTTVLDFHPGAGKTRRFLPQILAECARRRLRTLVLAPT---RVVLSEMKEAFHGL   59 (140)
T ss_dssp             TSTTCEEEECCCTTSSTTTTHHHHHHHHHHHTTCCEEEEESS---HHHHHHHHHHTTTS
T ss_pred             HHcCCcEEEEcCCCCChhHHHHHHHHHHhhhcCceeeeeecc---hhHHHHHHHHhhhh
Confidence            678999999999999999887766665555677888888743   34455544444333

>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=97.60  E-value=9.4e-05  Score=66.01  Aligned_cols=175  Identities=19%  Similarity=0.205  Sum_probs=93.4

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC----CCCHHHHHHHHHHHhCCCCc---cc--
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM----EMSGIQLAMRMLGSVGKLDQ---HK--  273 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~----E~~~~~i~~R~~a~~~~i~~---~~--  273 (452)
                      .|+.+.--+++|+++.|.|++|+|||||+.-++--.  .....-++|..    +.+...+..+ ++....-+.   ..  
T Consensus        29 vL~~isl~i~~Ge~vaivG~sGsGKSTLl~li~gl~--~p~~G~I~i~g~~i~~~~~~~~r~~-i~~v~Q~~~lf~~tv~  105 (251)
T d1jj7a_          29 VLQGLTFTLRPGEVTALVGPNGSGKSTVAALLQNLY--QPTGGQLLLDGKPLPQYEHRYLHRQ-VAAVGQEPQVFGRSLQ  105 (251)
T ss_dssp             SEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTSS--CCSEEEEEETTEEGGGBCHHHHHHH-EEEECSSCCCCSSBHH
T ss_pred             eEeceEEEEcCCCEEEEECCCCCcHHHHHHHHhccc--CCCcCEEEECCEecchhhhHHHHHH-hhhccccccccCcchh
Confidence            567775568999999999999999999987655432  11112333332    2344444333 332222110   01  


Q ss_pred             --cccCCCCcchHHHHHHHH------HHHhCC----CeEEEc-CCCCCHHHHH--HHHHHHHHHcCCccEEEEcCcchhc
Q psy2892         274 --LRTGRLSSDDWPRINDSI------KKINKS----QLYIDE-TPSLNVIELR--ANSRRLSRQCGKIGVIIIDYLQLMS  338 (452)
Q Consensus       274 --i~~g~l~~~~~~~~~~a~------~~l~~~----~l~i~~-~~~~t~~~i~--~~i~~~~~~~~~~~~vvID~l~~i~  338 (452)
                        +.-|.-.......+..+.      +.+...    .-.+.. ...+|-.+-.  +.+|.+.  . +++++++|-.+.  
T Consensus       106 eni~~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~~~i~~~~~~LSGGqkQRvaiARal~--~-~p~ililDEpTs--  180 (251)
T d1jj7a_         106 ENIAYGLTQKPTMEEITAAAVKSGAHSFISGLPQGYDTEVDEAGSQLSGGQRQAVALARALI--R-KPCVLILDDATS--  180 (251)
T ss_dssp             HHHHCSCSSCCCHHHHHHHHHHHTCHHHHHTSTTGGGCBCCSSCSSSCHHHHHHHHHHHHHT--T-CCSEEEEESTTT--
T ss_pred             hhhhhhhcccchHHHHHHHHHHHHHHHHHHhccccchhhHhccCccCChhHceEEEEeeccc--c-CCcEEEecCcCc--
Confidence              111211111112222221      122222    122322 2346655443  3333332  2 599999998532  


Q ss_pred             cCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         339 ANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       339 ~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                          +-+.. .-..+.+.|+.+.++.+.+||+++|--                  + .+ +.||.|++|..-
T Consensus       181 ----~LD~~-~~~~i~~~l~~l~~~~~~Tvi~itH~l------------------~-~~-~~aDrI~vl~~G  227 (251)
T d1jj7a_         181 ----ALDAN-SQLQVEQLLYESPERYSRSVLLITQHL------------------S-LV-EQADHILFLEGG  227 (251)
T ss_dssp             ----TCCHH-HHHHHHHHHHTCGGGGGCEEEEECSCH------------------H-HH-HTCSEEEEEETT
T ss_pred             ----ccChh-hHHHHHHHHHHHhhhcCCEEEEEeCCH------------------H-HH-HhCCEEEEEECC
Confidence                12222 234677888888889999999999821                  1 24 349999999654

>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=97.58  E-value=3.1e-05  Score=68.75  Aligned_cols=177  Identities=15%  Similarity=0.143  Sum_probs=91.0

Q ss_pred             CccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC---CCHHHHHHHH-HHHhC---CC---
Q psy2892         200 GFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME---MSGIQLAMRM-LGSVG---KL---  269 (452)
Q Consensus       200 g~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E---~~~~~i~~R~-~a~~~---~i---  269 (452)
                      +...|+.+.--+++|+++.|.|++|+||||++.-++--.-- ....|.+..-+   .+.... .|. ++...   .+   
T Consensus        18 ~~~al~~vs~~i~~Gei~~liGpnGaGKSTl~~~i~Gl~~p-~~G~I~~~G~~i~~~~~~~~-~r~gi~~~~q~~~l~~~   95 (240)
T d1ji0a_          18 AIHAIKGIDLKVPRGQIVTLIGANGAGKTTTLSAIAGLVRA-QKGKIIFNGQDITNKPAHVI-NRMGIALVPEGRRIFPE   95 (240)
T ss_dssp             TEEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHTTSSCC-SEEEEEETTEECTTCCHHHH-HHTTEEEECSSCCCCTT
T ss_pred             CEEEEeeeeEEECCCCEEEEECCCCCcHHHHHHHHhCCCCC-CccEEEecccccccccHHHH-HHhcccccCcccccCCc
Confidence            34567777556899999999999999999998876653311 11223332211   122222 221 11000   00   


Q ss_pred             -Ccc-ccc---cCCCCcch-HHHHHHHHHH---HhCCCeEEEcCCCCCHHHHHH--HHHHHHHHcCCccEEEEcCcchhc
Q psy2892         270 -DQH-KLR---TGRLSSDD-WPRINDSIKK---INKSQLYIDETPSLNVIELRA--NSRRLSRQCGKIGVIIIDYLQLMS  338 (452)
Q Consensus       270 -~~~-~i~---~g~l~~~~-~~~~~~a~~~---l~~~~l~i~~~~~~t~~~i~~--~i~~~~~~~~~~~~vvID~l~~i~  338 (452)
                       +.. .+.   ......+. .+++......   +.+..  -.....+|-.+-+.  .++.+  .. +|+++++|.-+.  
T Consensus        96 ltv~en~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~LSGG~~Qrv~iAraL--~~-~P~lLllDEPt~--  168 (240)
T d1ji0a_          96 LTVYENLMMGAYNRKDKEGIKRDLEWIFSLFPRLKERL--KQLGGTLSGGEQQMLAIGRAL--MS-RPKLLMMDEPSL--  168 (240)
T ss_dssp             SBHHHHHHGGGTTCCCSSHHHHHHHHHHHHCHHHHTTT--TSBSSSSCHHHHHHHHHHHHH--TT-CCSEEEEECTTT--
T ss_pred             ccHHHHHHHHHHhcCCHHHHHHHHHHHHHHhhChHHHH--hCchhhCCHHHHHHHHHHHHH--Hh-CCCEeeecCCCc--
Confidence             000 000   00111111 1122222221   21110  00123456544433  33333  23 499999998532  


Q ss_pred             cCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         339 ANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       339 ~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                          +-+. ....++.+.|++++++ |++|++++|-=.                   .+.+.||.|++|+.-
T Consensus       169 ----gLD~-~~~~~i~~~i~~l~~~-g~til~~tH~l~-------------------~~~~~~drv~vl~~G  215 (240)
T d1ji0a_         169 ----GLAP-ILVSEVFEVIQKINQE-GTTILLVEQNAL-------------------GALKVAHYGYVLETG  215 (240)
T ss_dssp             ----TCCH-HHHHHHHHHHHHHHHT-TCCEEEEESCHH-------------------HHHHHCSEEEEEETT
T ss_pred             ----CCCH-HHHHHHHHHHHHHHhC-CCEEEEEeCCHH-------------------HHHHhCCEEEEEECC
Confidence                2222 3346778888888776 999999987321                   356789999999764

>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=97.55  E-value=4.4e-05  Score=67.60  Aligned_cols=175  Identities=17%  Similarity=0.124  Sum_probs=88.1

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC--CHHHHHHHHHHHhCCCCccccccCC-
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM--SGIQLAMRMLGSVGKLDQHKLRTGR-  278 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~--~~~~i~~R~~a~~~~i~~~~i~~g~-  278 (452)
                      +.||.+.-.+.+|+++.|.|++|+||||++.-++--.-- ....|.+..-+.  .+..+. +.++   -++...-.-.. 
T Consensus        16 ~vl~~vs~~v~~Gei~glvG~nGaGKSTLl~~l~G~~~p-~~G~i~i~G~~i~~~~~~~~-~~i~---~vpq~~~~~~~l   90 (238)
T d1vpla_          16 EILKGISFEIEEGEIFGLIGPNGAGKTTTLRIISTLIKP-SSGIVTVFGKNVVEEPHEVR-KLIS---YLPEEAGAYRNM   90 (238)
T ss_dssp             EEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTTSSCC-SEEEEEETTEETTTCHHHHH-TTEE---EECTTCCCCTTS
T ss_pred             EEEccceeEEcCCCEEEEECCCCCCHHHHHHHHhcCCCC-CCCEEEECcEecccChHHHH-hhEe---EeeeccccCCCc
Confidence            456776556899999999999999999998765543211 111222211111  111111 1111   11110000000 


Q ss_pred             --------------CCcch-HHHHHHHHHHHhCCCeEEE-cCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCC
Q psy2892         279 --------------LSSDD-WPRINDSIKKINKSQLYID-ETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSR  342 (452)
Q Consensus       279 --------------l~~~~-~~~~~~a~~~l~~~~l~i~-~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~  342 (452)
                                    .+..+ .+++....+.+.-.+ +.. ....+|-.+-+...-...-.. +|+++++|.-..      
T Consensus        91 tv~e~l~~~~~~~~~~~~~~~~~~~~~l~~~~l~~-~~~~~~~~lSgG~~qrv~iA~al~~-~p~illLDEPt~------  162 (238)
T d1vpla_          91 QGIEYLRFVAGFYASSSSEIEEMVERATEIAGLGE-KIKDRVSTYSKGMVRKLLIARALMV-NPRLAILDEPTS------  162 (238)
T ss_dssp             BHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCGG-GGGSBGGGCCHHHHHHHHHHHHHTT-CCSEEEEESTTT------
T ss_pred             cHHHHHHHHHHhcCCCHHHHHHHHHHHHHhCCCHH-HHhhhhhhCCHHHHHHHHHHHHHhc-CCCEEEecCCCC------
Confidence                          11111 122222222221000 011 122455554443332222233 599999998432      


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         343 GENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       343 ~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      +-+.. ....+.+-++.++++ |.+||+++|--.                   .++..||.|++|+.-
T Consensus       163 gLD~~-~~~~i~~~i~~~~~~-g~tii~~tH~l~-------------------~~~~~~drv~vl~~G  209 (238)
T d1vpla_         163 GLDVL-NAREVRKILKQASQE-GLTILVSSHNML-------------------EVEFLCDRIALIHNG  209 (238)
T ss_dssp             TCCHH-HHHHHHHHHHHHHHT-TCEEEEEECCHH-------------------HHTTTCSEEEEEETT
T ss_pred             CCCHH-HHHHHHHHHHHHHhc-CCEEEEEeCCHH-------------------HHHHhCCEEEEEECC
Confidence            23332 345667777777765 899999988432                   356679999999764

>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=97.52  E-value=0.00051  Score=60.33  Aligned_cols=37  Identities=22%  Similarity=0.428  Sum_probs=31.0

Q ss_pred             CccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         200 GFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       200 g~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++..||.+.--+++|+++.|.|++|+||||++.-++-
T Consensus        18 ~~~al~~vsl~v~~Ge~~~liGpsGaGKSTLl~~i~G   54 (239)
T d1v43a3          18 NFTAVNKLNLTIKDGEFLVLLGPSGCGKTTTLRMIAG   54 (239)
T ss_dssp             TEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CEEEEcceeEEECCCCEEEEECCCCChHHHHHHHHHc
Confidence            4566777755689999999999999999999986654

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=97.47  E-value=0.00016  Score=63.75  Aligned_cols=177  Identities=12%  Similarity=0.105  Sum_probs=91.7

Q ss_pred             cccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC----CHHHHHHHHHHHhCCCCccccc----
Q psy2892         204 LDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM----SGIQLAMRMLGSVGKLDQHKLR----  275 (452)
Q Consensus       204 LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~----~~~~i~~R~~a~~~~i~~~~i~----  275 (452)
                      |+.+..-+++|+++.|.|++|+|||||+..++- . . .+..-++|..+.    +..++... .+.........+.    
T Consensus        15 l~~isl~I~~Gei~~iiG~nGaGKSTLl~~l~G-l-~-~~~G~I~~~g~~i~~~~~~~~~~~-~~~~~~~~~~~~~~~v~   90 (231)
T d1l7vc_          15 LGPLSGEVRAGEILHLVGPNGAGKSTLLARMAG-M-T-SGKGSIQFAGQPLEAWSATKLALH-RAYLSQQQTPPFATPVW   90 (231)
T ss_dssp             SCSEEEEEETTCEEECBCCTTSSHHHHHHHHHT-S-C-CCSSEEEESSSBGGGSCHHHHHHH-EEEECSCCCCCSSCBHH
T ss_pred             ecCEEEEEcCCCEEEEECCCCCcHHHHHHHHhC-C-C-CCceEEEECCEECCcCCHHHHHhh-ceeeeccccCCccccHH
Confidence            555544689999999999999999999876654 3 2 233445555442    33332211 1111110000000    


Q ss_pred             ----cCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHH--HHHHHHHHHHc----CCccEEEEcCcchhccCCCCCC
Q psy2892         276 ----TGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIEL--RANSRRLSRQC----GKIGVIIIDYLQLMSANSRGEN  345 (452)
Q Consensus       276 ----~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i--~~~i~~~~~~~----~~~~~vvID~l~~i~~~~~~~~  345 (452)
                          -+.......+.+.+....+.-....-.....+|-.+-  ...++.+....    .+|+++++|.-..      +-+
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~LSgG~~Qrv~iA~al~~~~p~~~p~p~llllDEPt~------gLD  164 (231)
T d1l7vc_          91 HYLTLHQHDKTRTELLNDVAGALALDDKLGRSTNQLSGGEWQRVRLAAVVLQITPQANPAGQLLLLDEPMN------SLD  164 (231)
T ss_dssp             HHHHHHCSCTTCHHHHHHHHHHTTCTTTTTSBGGGCCHHHHHHHHHHHHHHHHCTTTCTTCCEEEESSCST------TCC
T ss_pred             HHhhhccchhhHHHHHHHHHHhcCCHhHhCcChhhcCHHHHHHHHHHHHHHhhCcccCCCCCEEEEcCCCC------CCC
Confidence                0011111122333333333211110011224665443  33344444311    1368999998432      233


Q ss_pred             HHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecCc
Q psy2892         346 RATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRDE  411 (452)
Q Consensus       346 ~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~~  411 (452)
                      . .....+.+.|+.++++ |++||+++|--                   ..+...||.+++|+.-.
T Consensus       165 ~-~~~~~i~~~i~~l~~~-g~tii~vtHdl-------------------~~~~~~~dri~vl~~G~  209 (231)
T d1l7vc_         165 V-AQQSALDKILSALCQQ-GLAIVMSSHDL-------------------NHTLRHAHRAWLLKGGK  209 (231)
T ss_dssp             H-HHHHHHHHHHHHHHHT-TCEEEECCCCH-------------------HHHHHHCSBCCBEETTE
T ss_pred             H-HHHHHHHHHHHHHHhC-CCEEEEEeCCH-------------------HHHHHHCCEEEEEECCE
Confidence            2 3345777888888664 99999988732                   13567889999886543

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=97.46  E-value=0.00026  Score=60.86  Aligned_cols=151  Identities=14%  Similarity=0.168  Sum_probs=81.9

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHh-------------CCCcEEEEeC------CCCHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIE-------------NKLPVAIFSM------EMSGIQLAMRM  262 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~-------------~g~~vl~~s~------E~~~~~i~~R~  262 (452)
                      +-|+.+.-.+++|+++.|.|++|+|||||+.-++--.--.             ...++.|+.-      +++.++...- 
T Consensus        15 ~vl~~is~~i~~Gei~~l~G~NGsGKSTLl~~i~gl~~p~~G~I~~~g~~i~~~~~~i~~~~~~~~~~~~~t~~~~l~~-   93 (200)
T d1sgwa_          15 PVLERITMTIEKGNVVNFHGPNGIGKTTLLKTISTYLKPLKGEIIYNGVPITKVKGKIFFLPEEIIVPRKISVEDYLKA-   93 (200)
T ss_dssp             EEEEEEEEEEETTCCEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEEGGGGGGGEEEECSSCCCCTTSBHHHHHHH-
T ss_pred             eEEeceEEEEcCCCEEEEECCCCChHHHHHHHHhcccccCCCEEEECCEehhHhcCcEEEEeecccCCCCcCHHHHHHH-
Confidence            4577775569999999999999999999998776432100             1123555542      3344443322 


Q ss_pred             HHHhCCCCccccccCCCCcchHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCC
Q psy2892         263 LGSVGKLDQHKLRTGRLSSDDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSR  342 (452)
Q Consensus       263 ~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~  342 (452)
                      .+...+..        .+.   .++.++.+.+.-..+. .....+|-.+.+...-...--. +++++++|--..--..  
T Consensus        94 ~~~~~~~~--------~~~---~~~~~~l~~~~~~~~~-~~~~~LSgG~~qrv~ia~al~~-~~~llllDEPt~gLD~--  158 (200)
T d1sgwa_          94 VASLYGVK--------VNK---NEIMDALESVEVLDLK-KKLGELSQGTIRRVQLASTLLV-NAEIYVLDDPVVAIDE--  158 (200)
T ss_dssp             HHHHTTCC--------CCH---HHHHHHHHHTTCCCTT-SBGGGSCHHHHHHHHHHHHTTS-CCSEEEEESTTTTSCT--
T ss_pred             HHHhcCCc--------cCH---HHHHHHHHHcCCcccc-cccCcCCCcHHHHHHHHHHHhc-CCCEEEEcCcccccCH--
Confidence            22222221        122   2233344333211110 0123566665554332222233 4999999985431111  


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHhCCcEEEEec
Q psy2892         343 GENRATEISEISRNLKGLAKEINCPILALSQ  373 (452)
Q Consensus       343 ~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~q  373 (452)
                       ..    ...+++.|+.++++.++.||..+|
T Consensus       159 -~~----~~~i~~~l~~~~~~~~~~ii~~~~  184 (200)
T d1sgwa_         159 -DS----KHKVLKSILEILKEKGIVIISSRE  184 (200)
T ss_dssp             -TT----HHHHHHHHHHHHHHHSEEEEEESS
T ss_pred             -HH----HHHHHHHHHHHHhCCCEEEEEEec
Confidence             11    236778889999988876666543

>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=97.45  E-value=0.00031  Score=62.58  Aligned_cols=174  Identities=20%  Similarity=0.203  Sum_probs=89.8

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC----CCCHHHHHHHHHHHhCCCC---c---
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM----EMSGIQLAMRMLGSVGKLD---Q---  271 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~----E~~~~~i~~R~~a~~~~i~---~---  271 (452)
                      +.|+.+.--+++|+.+.|.|++|+|||||+.-++--.  .....-+++..    +.+...+..++ +....-+   .   
T Consensus        29 ~~L~~isl~i~~Ge~iaivG~sGsGKSTLl~ll~gl~--~p~~G~I~i~g~~i~~~~~~~~r~~i-~~v~Q~~~l~~~ti  105 (253)
T d3b60a1          29 PALRNINLKIPAGKTVALVGRSGSGKSTIASLITRFY--DIDEGHILMDGHDLREYTLASLRNQV-ALVSQNVHLFNDTV  105 (253)
T ss_dssp             CSEEEEEEEECTTCEEEEEECTTSSHHHHHHHHTTTT--CCSEEEEEETTEETTTBCHHHHHHTE-EEECSSCCCCSSBH
T ss_pred             ceeeceEEEEcCCCEEEEECCCCChHHHHHHHHhccc--CCCccEEEECCcccchhhhhhhhheE-EEEeeccccCCcch
Confidence            3567765568999999999999999999986555322  11122333322    23444444332 1111100   0   


Q ss_pred             -cccccCCCCcchHHHHHHHHH------HHhCC----CeEEEcC-CCCCHHHH--HHHHHHHHHHcCCccEEEEcCcchh
Q psy2892         272 -HKLRTGRLSSDDWPRINDSIK------KINKS----QLYIDET-PSLNVIEL--RANSRRLSRQCGKIGVIIIDYLQLM  337 (452)
Q Consensus       272 -~~i~~g~l~~~~~~~~~~a~~------~l~~~----~l~i~~~-~~~t~~~i--~~~i~~~~~~~~~~~~vvID~l~~i  337 (452)
                       ..+.-+.......+++.++.+      .+...    .-.+.+. ..+|-.+-  .+.+|.+.+   +++++|+|-.+.-
T Consensus       106 ~~n~~~~~~~~~~~~~i~~a~~~~~l~~~i~~l~~gl~t~~~~~~~~LSGGqkQRvaiARal~~---~p~ililDEpts~  182 (253)
T d3b60a1         106 ANNIAYARTEEYSREQIEEAARMAYAMDFINKMDNGLDTIIGENGVLLSGGQRQRIAIARALLR---DSPILILDEATSA  182 (253)
T ss_dssp             HHHHHTTTTSCCCHHHHHHHHHTTTCHHHHHHSTTGGGSBCCTTSCSSCHHHHHHHHHHHHHHH---CCSEEEEETTTSS
T ss_pred             hhhhhhcCcccCCHHHHHHHHHHHhHHHHHHhccccchhhhcCCCCCcCHHHHHHHHHHHHHhc---CCCEEEecccccc
Confidence             011112111112233333322      22211    1123222 24665443  344555543   4899999985422


Q ss_pred             ccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         338 SANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       338 ~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                            -+.. .-..+.+.|+.+.+  +.+||+++|--                   ..+ ..||.|++|..-
T Consensus       183 ------LD~~-~~~~i~~~l~~l~~--~~Tvi~itH~l-------------------~~~-~~~D~v~vl~~G  226 (253)
T d3b60a1         183 ------LDTE-SERAIQAALDELQK--NRTSLVIAHRL-------------------STI-EQADEIVVVEDG  226 (253)
T ss_dssp             ------CCHH-HHHHHHHHHHHHHT--TSEEEEECSCG-------------------GGT-TTCSEEEEEETT
T ss_pred             ------CCHH-HHHHHHHHHHHhcc--CCEEEEEECCH-------------------HHH-HhCCEEEEEECC
Confidence                  2222 23466677777754  78999988721                   123 358999999653

>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=97.40  E-value=0.00033  Score=61.70  Aligned_cols=169  Identities=14%  Similarity=0.172  Sum_probs=92.0

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC---------------------CCcEEEEeCC------C
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN---------------------KLPVAIFSME------M  253 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~---------------------g~~vl~~s~E------~  253 (452)
                      +..||.+.--+++|+++.|.|++|+|||||+.-++.-..-..                     ..+|.|+.=+      +
T Consensus        18 ~~aL~~vsl~i~~Ge~~~iiG~sGsGKSTll~~i~gl~~p~~G~I~~~g~~i~~~~~~~~~~~rr~ig~vfQ~~~L~p~l   97 (242)
T d1oxxk2          18 VVALDNVNINIENGERFGILGPSGAGKTTFMRIIAGLDVPSTGELYFDDRLVASNGKLIVPPEDRKIGMVFQTWALYPNL   97 (242)
T ss_dssp             EEEEEEEEEEECTTCEEEEECSCHHHHHHHHHHHHTSSCCSEEEEEETTEEEEETTEESSCGGGSCEEEEETTSCCCTTS
T ss_pred             EEEEeceEEEECCCCEEEEECCCCCcHHHHHHHHHcCcCCCCceEEECCEEeecCchhhcchhhccceEEeccccccccc
Confidence            567888866799999999999999999999987775321100                     1235554211      2


Q ss_pred             CHHHHHHHHHHHhCCCCccccccCCCCcchH-HHHHHHHHHHhCCCeEEEc-CCCCCHHHHH--HHHHHHHHHcCCccEE
Q psy2892         254 SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDW-PRINDSIKKINKSQLYIDE-TPSLNVIELR--ANSRRLSRQCGKIGVI  329 (452)
Q Consensus       254 ~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~-~~~~~a~~~l~~~~l~i~~-~~~~t~~~i~--~~i~~~~~~~~~~~~v  329 (452)
                      +..+-   +. .  +     +....++..+. +++.+..+.+.=.. +.+. ...+|-.+-.  +.++.+.  . +|+++
T Consensus        98 tv~en---i~-~--~-----l~~~~~~~~~~~~~v~~~l~~~gL~~-~~~~~p~~LSGGqkQRvaiARaL~--~-~P~ll  162 (242)
T d1oxxk2          98 TAFEN---IA-F--P-----LTNMKMSKEEIRKRVEEVAKILDIHH-VLNHFPRELSGAQQQRVALARALV--K-DPSLL  162 (242)
T ss_dssp             CHHHH---HH-G--G-----GTTSSCCHHHHHHHHHHHHHHTTCGG-GTTSCGGGSCHHHHHHHHHHHHHT--T-CCSEE
T ss_pred             cHHHH---hh-h--h-----hHhhcCCHHHHHHHHHHHHhhcChHh-hhhCChhhCCHHHHhHHHHHhHHh--h-cccce
Confidence            22221   11 0  1     11123444433 34555555442111 1111 1245543332  3344443  3 49999


Q ss_pred             EEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEec
Q psy2892         330 IIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYR  409 (452)
Q Consensus       330 vID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r  409 (452)
                      +.|--..--.    .....++..+.+.|.+=..  - +||+++|--..                   +...||.+++++.
T Consensus       163 llDEPt~~LD----~~~~~~i~~~i~~l~~~~g--~-tvi~vTHd~~~-------------------~~~~~dri~vm~~  216 (242)
T d1oxxk2         163 LLDEPFSNLD----ARMRDSARALVKEVQSRLG--V-TLLVVSHDPAD-------------------IFAIADRVGVLVK  216 (242)
T ss_dssp             EEESTTTTSC----GGGHHHHHHHHHHHHHHHC--C-EEEEEESCHHH-------------------HHHHCSEEEEEET
T ss_pred             eecCCccCCC----HHHHHHHHHHHHHHHhccC--C-EEEEEECCHHH-------------------HHHhCCEEEEEEC
Confidence            9998654322    3345667788888853222  2 56666666432                   3456899998865


Q ss_pred             C
Q psy2892         410 D  410 (452)
Q Consensus       410 ~  410 (452)
                      -
T Consensus       217 G  217 (242)
T d1oxxk2         217 G  217 (242)
T ss_dssp             T
T ss_pred             C
Confidence            3

>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=97.39  E-value=0.00041  Score=61.98  Aligned_cols=38  Identities=24%  Similarity=0.304  Sum_probs=28.7

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ..+..-+++.||||+|||+++..+|...    +.++++++..
T Consensus        42 ~~~~~~iLL~GppGtGKT~la~~iA~~~----~~~~~~i~~~   79 (256)
T d1lv7a_          42 GKIPKGVLMVGPPGTGKTLLAKAIAGEA----KVPFFTISGS   79 (256)
T ss_dssp             -CCCCEEEEECCTTSCHHHHHHHHHHHH----TCCEEEECSC
T ss_pred             CCCCCeEEeeCCCCCCccHHHHHHHHHc----CCCEEEEEhH
Confidence            3333458999999999999999998654    5778877653

>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=97.31  E-value=0.00022  Score=65.68  Aligned_cols=119  Identities=18%  Similarity=0.224  Sum_probs=64.8

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCc
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSS  281 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~  281 (452)
                      +.+....|.-.++...++.|+||+|||.++..+|..+.  .+.+-..++..                    .+.++...+
T Consensus       111 ~~~~~~~~~~~~~g~~l~~G~pG~GKT~la~ala~~~~--~~~~~~~~~~~--------------------~~~~~~~G~  168 (321)
T d1w44a_         111 PVVAEFGGHRYASGMVIVTGKGNSGKTPLVHALGEALG--GKDKYATVRFG--------------------EPLSGYNTD  168 (321)
T ss_dssp             CEEEEETTEEEESEEEEEECSSSSCHHHHHHHHHHHHH--TTSCCEEEEBS--------------------CSSTTCBCC
T ss_pred             hHHHHHhhcccCCceEEEECCCCccHHHHHHHHHHHhc--CCCCeEEEEhh--------------------Hhhhcccch
Confidence            34444444334455777799999999999999998763  22222222221                    111111111


Q ss_pred             chHHHHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCC----CCCHHHHHHHHHHHH
Q psy2892         282 DDWPRINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSR----GENRATEISEISRNL  357 (452)
Q Consensus       282 ~~~~~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~----~~~~~~~~~~i~~~L  357 (452)
                                                +-..++...+..+ +   +.++|||.+..+.....    .......+.++...+
T Consensus       169 --------------------------~e~~~~~~f~~a~-~---~~ilf~DEid~~~~~r~~~~~~~~~~r~v~~lL~e~  218 (321)
T d1w44a_         169 --------------------------FNVFVDDIARAML-Q---HRVIVIDSLKNVIGAAGGNTTSGGISRGAFDLLSDI  218 (321)
T ss_dssp             --------------------------HHHHHHHHHHHHH-H---CSEEEEECCTTTC-----------CCHHHHHHHHHH
T ss_pred             --------------------------HHHHHHHHHHHHh-h---ccEEEeehhhhhccccccCCCCCcchhhhhhhhhhc
Confidence                                      1123333333332 2   56999999999865431    111123566777778


Q ss_pred             HHHHHHhCCcEEEEe
Q psy2892         358 KGLAKEINCPILALS  372 (452)
Q Consensus       358 k~lA~~~~i~vi~l~  372 (452)
                      ..+....+|.||...
T Consensus       219 dg~~~~~~v~viaat  233 (321)
T d1w44a_         219 GAMAASRGCVVIASL  233 (321)
T ss_dssp             HHHHHHHTCEEEEEC
T ss_pred             cccccCCCeEEEEeC
Confidence            878887787766654

>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=97.31  E-value=0.00013  Score=64.23  Aligned_cols=60  Identities=13%  Similarity=0.161  Sum_probs=44.3

Q ss_pred             CccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhcee
Q psy2892         325 KIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVI  404 (452)
Q Consensus       325 ~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~v  404 (452)
                      +|++++.|--..      +-+. .....+...++.++++++++||+++|--.                   .+.+.||.+
T Consensus       144 ~P~illlDEPts------~LD~-~~~~~i~~~i~~l~~~~g~tvi~vtHd~~-------------------~~~~~adri  197 (240)
T d2onka1         144 QPRLLLLDEPLS------AVDL-KTKGVLMEELRFVQREFDVPILHVTHDLI-------------------EAAMLADEV  197 (240)
T ss_dssp             CCSSBEEESTTS------SCCH-HHHHHHHHHHHHHHHHHTCCEEEEESCHH-------------------HHHHHCSEE
T ss_pred             cCCceEecCccc------cCCH-HHHHHHHHHHHHHHHhcCCeEEEEeCCHH-------------------HHHHhCCEE
Confidence            599999998432      2222 23457888899999999999999988322                   356779999


Q ss_pred             EEEecC
Q psy2892         405 LFIYRD  410 (452)
Q Consensus       405 l~l~r~  410 (452)
                      ++++.-
T Consensus       198 ~vm~~G  203 (240)
T d2onka1         198 AVMLNG  203 (240)
T ss_dssp             EEEETT
T ss_pred             EEEECC
Confidence            999754

>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=97.28  E-value=0.00078  Score=60.30  Aligned_cols=66  Identities=15%  Similarity=0.091  Sum_probs=53.2

Q ss_pred             ccccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHH
Q psy2892         194 VTGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAM  260 (452)
Q Consensus       194 ~~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~  260 (452)
                      ...+.||++.+|-+. .+-+|+=..|.|++|+|||+|+.+++.+.+..+..-++|...-+..+++.+
T Consensus        49 ~~~l~TGIraID~l~-pigkGQr~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~~iGer~~ev~~  114 (276)
T d2jdid3          49 QEILVTGIKVVDLLA-PYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTREGND  114 (276)
T ss_dssp             CCEECCSCHHHHHHS-CEETTCEEEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEEEESCCHHHHHH
T ss_pred             CcccccCceeeeeec-cccCCCEEEeeCCCCCCHHHHHHHHHHHHHhhCCCeEEEEEeccChHHHHH
Confidence            346889999999864 577899999999999999999999999976444445778777777776554

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.28  E-value=0.00043  Score=59.35  Aligned_cols=139  Identities=14%  Similarity=0.158  Sum_probs=68.7

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC-HHHHHHHHHHHhCCCCcc-ccccCCCCcchHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS-GIQLAMRMLGSVGKLDQH-KLRTGRLSSDDWPRINDS  290 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~-~~~i~~R~~a~~~~i~~~-~i~~g~l~~~~~~~~~~a  290 (452)
                      .|.-+++++|+|+|||..+.-.+..... .+.+|+|+.--.. ..+...++.. ..+.... ....+.....+.      
T Consensus        39 ~~~~~il~apTGsGKT~~a~l~i~~~~~-~~~~vl~l~P~~~L~~q~~~~~~~-~~~~~~~v~~~~~~~~~~~~------  110 (202)
T d2p6ra3          39 SGKNLLLAMPTAAGKTLLAEMAMVREAI-KGGKSLYVVPLRALAGEKYESFKK-WEKIGLRIGISTGDYESRDE------  110 (202)
T ss_dssp             TCSCEEEECSSHHHHHHHHHHHHHHHHH-TTCCEEEEESSHHHHHHHHHHHTT-TTTTTCCEEEECSSCBCCSS------
T ss_pred             cCCCEEEEcCCCCchhHHHHHHHHHHhh-ccCcceeecccHHHHHHHHHHHHH-HhhccccceeeccCcccccc------
Confidence            3455789999999999877554444433 5678998855321 2333333321 1111111 111121111100      


Q ss_pred             HHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEE
Q psy2892         291 IKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILA  370 (452)
Q Consensus       291 ~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~  370 (452)
                        .+....+.+.     +...+...++.......+.++||+|..+.+....    +......+.+.++...+  ++.+|+
T Consensus       111 --~~~~~~ii~~-----~~~~~~~~~~~~~~~~~~~~~ii~DE~h~~~~~~----r~~~~~~~l~~i~~~~~--~~~~l~  177 (202)
T d2p6ra3         111 --HLGDCDIIVT-----TSEKADSLIRNRASWIKAVSCLVVDEIHLLDSEK----RGATLEILVTKMRRMNK--ALRVIG  177 (202)
T ss_dssp             --CSTTCSEEEE-----EHHHHHHHHHTTCSGGGGCCEEEETTGGGGGCTT----THHHHHHHHHHHHHHCT--TCEEEE
T ss_pred             --cccccceeee-----ccHHHHHHHhccchhhhhhhhccccHHHHhcccc----cchHHHHHHHHHHhcCC--CCcEEE
Confidence              0111122222     2334433332221111247899999999886542    33344455666665543  567777


Q ss_pred             Ee
Q psy2892         371 LS  372 (452)
Q Consensus       371 l~  372 (452)
                      ++
T Consensus       178 lS  179 (202)
T d2p6ra3         178 LS  179 (202)
T ss_dssp             EE
T ss_pred             Ec
Confidence            66

>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=97.28  E-value=0.00035  Score=62.85  Aligned_cols=37  Identities=22%  Similarity=0.403  Sum_probs=29.4

Q ss_pred             CCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         210 GLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       210 G~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      |+++..-+++.||||+|||+++..+|...    |.++++++
T Consensus        37 g~~~~~giLL~Gp~GtGKT~l~~ala~~~----~~~~~~~~   73 (265)
T d1r7ra3          37 GMTPSKGVLFYGPPGCGKTLLAKAIANEC----QANFISIK   73 (265)
T ss_dssp             CCCCCCEEEEBCCTTSSHHHHHHHHHHHT----TCEEEEEC
T ss_pred             CCCCCCeEEEECCCCCcchhHHHHHHHHh----CCcEEEEE
Confidence            55555569999999999999999987654    67777775

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=97.25  E-value=0.0026  Score=53.89  Aligned_cols=111  Identities=14%  Similarity=0.123  Sum_probs=61.7

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC-HHHHHHHHHHHhCCCCccccc--cCCCCcchHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS-GIQLAMRMLGSVGKLDQHKLR--TGRLSSDDWPRINDSIKK  293 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~-~~~i~~R~~a~~~~i~~~~i~--~g~l~~~~~~~~~~a~~~  293 (452)
                      +++++|+|+|||..+.-++.....+.+.+++|+....+ .+++.+++... .+....++.  .+.....++..      .
T Consensus        26 ~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~P~~~L~~q~~~~~~~~-~~~~~~~v~~~~~~~~~~~~~~------~   98 (200)
T d1wp9a1          26 CLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAPTKPLVLQHAESFRRL-FNLPPEKIVALTGEKSPEERSK------A   98 (200)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECSSHHHHHHHHHHHHHH-BCSCGGGEEEECSCSCHHHHHH------H
T ss_pred             eEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEcCchHHHHHHHHHHHHh-hcccccceeeeecccchhHHHH------h
Confidence            57889999999988787777666667888999875432 34555555443 333222221  22222222221      1


Q ss_pred             HhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         294 INKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       294 l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      +....+.+.     |+..+...+..-.....++++||+|-.+.+..
T Consensus        99 ~~~~~i~i~-----t~~~~~~~~~~~~~~~~~~~~vIiDE~H~~~~  139 (200)
T d1wp9a1          99 WARAKVIVA-----TPQTIENDLLAGRISLEDVSLIVFDEAHRAVG  139 (200)
T ss_dssp             HHHCSEEEE-----CHHHHHHHHHTTSCCTTSCSEEEEETGGGCST
T ss_pred             hhccccccc-----ccchhHHHHhhhhhhccccceEEEEehhhhhc
Confidence            223455554     23444332221111112589999999987754

>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=97.17  E-value=0.00046  Score=61.31  Aligned_cols=32  Identities=22%  Similarity=0.427  Sum_probs=26.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      -+++.||||+|||+++..+|..    .+.++++++.
T Consensus        44 giLl~GppGtGKT~la~aia~~----~~~~~~~i~~   75 (247)
T d1ixza_          44 GVLLVGPPGVGKTHLARAVAGE----ARVPFITASG   75 (247)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH----TTCCEEEEEH
T ss_pred             eEEEecCCCCChhHHHHHHHHH----cCCCEEEEEh
Confidence            3899999999999999999853    3678888764

>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=97.16  E-value=5e-05  Score=63.75  Aligned_cols=42  Identities=21%  Similarity=0.270  Sum_probs=29.5

Q ss_pred             CccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCC
Q psy2892         325 KIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLN  375 (452)
Q Consensus       325 ~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~  375 (452)
                      +++++++|..+......         ..+...|..+.++.++++++++|.+
T Consensus        99 ~~~vlllDE~~~~~~~~---------~~~~~~l~~~l~~~~~~il~~~h~~  140 (178)
T d1ye8a1          99 RRKVIIIDEIGKMELFS---------KKFRDLVRQIMHDPNVNVVATIPIR  140 (178)
T ss_dssp             TTCEEEECCCSTTGGGC---------HHHHHHHHHHHTCTTSEEEEECCSS
T ss_pred             CCCceeecCCCccchhh---------HHHHHHHHHHhccCCCEEEEEEccH
Confidence            59999999975443321         2344566777777899999998854

>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=97.16  E-value=0.00024  Score=58.66  Aligned_cols=39  Identities=13%  Similarity=0.175  Sum_probs=33.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG  255 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~  255 (452)
                      ++.|+|+||+|||||+..++..+. .+|.+|.++-.+...
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l~-~~g~~v~v~~~d~~~   42 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPALC-ARGIRPGLIKHTHHD   42 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEEEECCC-
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH-HCCCeEEEecccccc
Confidence            789999999999999999999886 478999988776543

>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=97.11  E-value=8.7e-05  Score=60.47  Aligned_cols=33  Identities=15%  Similarity=0.280  Sum_probs=24.6

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .+++|+|+||+||||+|..++..     .....+++.+
T Consensus         3 klIii~G~pGsGKTTla~~L~~~-----~~~~~~~~~d   35 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK-----NPGFYNINRD   35 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH-----STTEEEECHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh-----CCCCEEechH
Confidence            37899999999999999876532     2346666644

>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=97.02  E-value=0.00055  Score=61.25  Aligned_cols=31  Identities=19%  Similarity=0.298  Sum_probs=25.0

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      -+++.||||+|||+++..+|..    .+.++++++
T Consensus        40 giLL~GppGtGKT~l~~ala~~----~~~~~~~i~   70 (258)
T d1e32a2          40 GILLYGPPGTGKTLIARAVANE----TGAFFFLIN   70 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH----TTCEEEEEC
T ss_pred             eeEEecCCCCCchHHHHHHHHH----hCCeEEEEE
Confidence            4899999999999998877764    367777765

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.99  E-value=0.0021  Score=54.81  Aligned_cols=36  Identities=28%  Similarity=0.468  Sum_probs=30.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ++++.|.||+||||++..++..... .+.++..++.+
T Consensus         4 li~l~GlpgsGKSTla~~L~~~l~~-~~~~~~~~~~D   39 (213)
T d1bifa1           4 LIVMVGLPARGKTYISKKLTRYLNF-IGVPTREFNVG   39 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHH-TTCCEEEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHh-cCCCCeEEccc
Confidence            7899999999999999999987754 57888877664

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.98  E-value=0.0019  Score=53.74  Aligned_cols=24  Identities=21%  Similarity=0.400  Sum_probs=20.5

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia  235 (452)
                      ++-.+++++|.||+|||||+.+++
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~   35 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHL   35 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            345699999999999999998764

>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=96.97  E-value=0.00033  Score=58.45  Aligned_cols=36  Identities=28%  Similarity=0.460  Sum_probs=29.6

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .++|+|+||+|||+++..++..+.. .|..|.++.+.
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~~l~~-~~~~v~~~~~~   38 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASEVLKS-SGVPVDGFYTE   38 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHHH-TTCCCEEEECC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHH-CCCEEEEEEec
Confidence            4789999999999999999988864 67777766544

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.94  E-value=0.00058  Score=60.11  Aligned_cols=115  Identities=16%  Similarity=0.211  Sum_probs=63.7

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-CCHHHHHHHHHHH--hCCCCcccccc---CCCCcchHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-MSGIQLAMRMLGS--VGKLDQHKLRT---GRLSSDDWP  285 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~~~~~i~~R~~a~--~~~i~~~~i~~---g~l~~~~~~  285 (452)
                      ..|+=+++.||+|+|||.+++-.+...+. .|.+|+|+.-- .-..|+..++...  ..++....+..   +.....+..
T Consensus        56 l~g~~~~i~apTGsGKT~~~~~~~~~~~~-~~~rvliv~Pt~~La~Q~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  134 (237)
T d1gkub1          56 LRKESFAATAPTGVGKTSFGLAMSLFLAL-KGKRCYVIFPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKE  134 (237)
T ss_dssp             HTTCCEECCCCBTSCSHHHHHHHHHHHHT-TSCCEEEEESCHHHHHHHHHHHHHHHTTTCCSGGGSEEECCSSCCSHHHH
T ss_pred             HCCCCEEEEecCCChHHHHHHHHHHHHHH-hcCeEEEEeccHHHHHHHHHHHHHHHHHcCCceEEEEeeeecccchhhhh
Confidence            34667888999999999888777777654 67889998753 2345555555432  23444433221   222222221


Q ss_pred             HHHHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         286 RINDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       286 ~~~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      .   ......+..+.+..     .+.+...    .....++++||||-.+.|..
T Consensus       135 ~---~l~~~~~~~Ilv~T-----p~~l~~~----~~~~~~~~~vVvDE~d~~l~  176 (237)
T d1gkub1         135 N---FMQNLRNFKIVITT-----TQFLSKH----YRELGHFDFIFVDDVDAILK  176 (237)
T ss_dssp             H---HHHSGGGCSEEEEE-----HHHHHHC----STTSCCCSEEEESCHHHHHT
T ss_pred             h---hhccccccceeccC-----hHHHHHh----hhhcCCCCEEEEEChhhhhh
Confidence            1   11222233455432     2323221    11222599999999987754

>d1xbta1 c.37.1.24 (A:18-150) Thymidine kinase, TK1, 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: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.88  E-value=0.0049  Score=48.77  Aligned_cols=42  Identities=10%  Similarity=0.124  Sum_probs=36.5

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG  255 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~  255 (452)
                      +|.|.+|.||-.+|||+-+++.+.+.- ..|.+|+.|..+.+.
T Consensus         1 ~G~L~li~GpMfsGKTt~Li~~~~~~~-~~g~~v~~ikp~~D~   42 (133)
T d1xbta1           1 RGQIQVILGPMFSGKSTELMRRVRRFQ-IAQYKCLVIKYAKDT   42 (133)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHH-TTTCCEEEEEETTCC
T ss_pred             CcEEEEEEecccCHHHHHHHHHHHHHH-HcCCcEEEEeccccc
Confidence            699999999999999999999998875 468899999876553

>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=96.84  E-value=0.00026  Score=58.80  Aligned_cols=36  Identities=19%  Similarity=0.522  Sum_probs=28.7

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .|.+++|.|+||+||||++..++.    +.|.++++++.+
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~----~lg~~~~~~~~d   38 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALAN----LPGVPKVHFHSD   38 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHT----CSSSCEEEECTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH----HhCCCEEEecHH
Confidence            478999999999999999876643    347788877764

>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=96.80  E-value=0.00079  Score=55.81  Aligned_cols=37  Identities=19%  Similarity=0.257  Sum_probs=28.9

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEE
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAI  248 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~  248 (452)
                      .+|-++.|.|.||+||||+|..++..+.......+.+
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~~L~~~~~~~~~~   40 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSL   40 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhhcCCCchhh
Confidence            5788999999999999999999998875433333433

>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=96.79  E-value=0.0035  Score=52.91  Aligned_cols=109  Identities=17%  Similarity=0.249  Sum_probs=60.9

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhC------CCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIEN------KLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~------g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      =.++.|+||+|||+++-.+|..++...      +.+++  +++.      .+++|   |..         ...+|+.   
T Consensus        45 n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~--~ld~------~~LiA---g~~---------~rG~~E~---  101 (195)
T d1jbka_          45 NPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVL--ALDM------GALVA---GAK---------YRGEFEE---  101 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEE--EECH------HHHHT---TTC---------SHHHHHH---
T ss_pred             CeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEE--EeeH------HHHhc---cCC---------ccHHHHH---
Confidence            478999999999999999999987432      33333  3321      23432   211         1223321   


Q ss_pred             HHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEE
Q psy2892         290 SIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPIL  369 (452)
Q Consensus       290 a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi  369 (452)
                                           .+...+..+....+ --++|||.++.+...+.....    ..+..-||..-..-++.+|
T Consensus       102 ---------------------rl~~il~e~~~~~~-~iILfIDeih~l~~~g~~~g~----~d~~~~Lkp~L~rg~l~~I  155 (195)
T d1jbka_         102 ---------------------RLKGVLNDLAKQEG-NVILFIDELHTMVGAGKADGA----MDAGNMLKPALARGELHCV  155 (195)
T ss_dssp             ---------------------HHHHHHHHHHHSTT-TEEEEEETGGGGTT------C----CCCHHHHHHHHHTTSCCEE
T ss_pred             ---------------------HHHHHHHHHhcCCC-cEEEEcchHHHHhcCCCCCCc----ccHHHHHHHHHhCCCceEE
Confidence                                 23333334433222 358899999998754311110    1234567765556778888


Q ss_pred             EEec
Q psy2892         370 ALSQ  373 (452)
Q Consensus       370 ~l~q  373 (452)
                      ..+-
T Consensus       156 gatT  159 (195)
T d1jbka_         156 GATT  159 (195)
T ss_dssp             EEEC
T ss_pred             ecCC
Confidence            8763

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.78  E-value=0.00088  Score=55.27  Aligned_cols=38  Identities=16%  Similarity=0.060  Sum_probs=33.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      ++.|+|++|+|||||+..++..+. .+|.+|..+-.+..
T Consensus         3 ii~I~G~~gSGKTTli~~l~~~L~-~~g~~v~vik~d~~   40 (165)
T d1xjca_           3 VWQVVGYKHSGKTTLMEKWVAAAV-REGWRVGTVKHHGH   40 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEECCC-
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHH-hCCCeEEEEEeccC
Confidence            678999999999999999999986 47899999977755

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.76  E-value=0.0017  Score=57.14  Aligned_cols=174  Identities=17%  Similarity=0.180  Sum_probs=92.0

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC----CCCHHHHHHHHHHHhCCCCc---ccc
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM----EMSGIQLAMRMLGSVGKLDQ---HKL  274 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~----E~~~~~i~~R~~a~~~~i~~---~~i  274 (452)
                      +.|+.+.--+++|+.+.|.|++|+|||||+.-++--..  ....-++|..    +.+..++..+ ++....-+.   ..+
T Consensus        17 ~vL~~isl~i~~Ge~vaIvG~sGsGKSTLl~ll~gl~~--p~~G~I~i~g~~i~~~~~~~lr~~-i~~v~Q~~~lf~~Ti   93 (241)
T d2pmka1          17 VILDNINLSIKQGEVIGIVGRSGSGKSTLTKLIQRFYI--PENGQVLIDGHDLALADPNWLRRQ-VGVVLQDNVLLNRSI   93 (241)
T ss_dssp             EEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHTTSSC--CSEEEEEETTEETTTSCHHHHHHH-EEEECSSCCCTTSBH
T ss_pred             ceEeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHhcCC--CCCCEEEECCEEecccchhhhhce-EEEEecccccCCccc
Confidence            34666655689999999999999999999876665332  1122333432    3455555433 222221110   011


Q ss_pred             cc----C--CCCcchHHHHHHH---HHHHhCCCe----EEEc-CCCCCHHHHH--HHHHHHHHHcCCccEEEEcCcchhc
Q psy2892         275 RT----G--RLSSDDWPRINDS---IKKINKSQL----YIDE-TPSLNVIELR--ANSRRLSRQCGKIGVIIIDYLQLMS  338 (452)
Q Consensus       275 ~~----g--~l~~~~~~~~~~a---~~~l~~~~l----~i~~-~~~~t~~~i~--~~i~~~~~~~~~~~~vvID~l~~i~  338 (452)
                      ++    +  ..+.+++....+.   .+.+...+.    .+.. ...+|-.+-.  +.+|.+.  . +++++++|-...- 
T Consensus        94 ~eNi~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~t~i~~~g~~LSGGq~QRvalARal~--~-~p~ililDEpts~-  169 (241)
T d2pmka1          94 IDNISLANPGMSVEKVIYAAKLAGAHDFISELREGYNTIVGEQGAGLSGGQRQRIAIARALV--N-NPKILIFDEATSA-  169 (241)
T ss_dssp             HHHHCTTSTTCCHHHHHHHHHHHTCHHHHTTSTTGGGSBCSTTTTCCCHHHHHHHHHHHHHT--T-CCSEEEECCCCSC-
T ss_pred             cccccccCccccHHHHHHHHHHHhhHHHHHhhhcchhhhcCCCCCccCHHHHHHHhhhhhhh--c-ccchhhhhCCccc-
Confidence            11    1  1233222221111   122322221    2222 2356655443  3333332  2 5999999985421 


Q ss_pred             cCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         339 ANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       339 ~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                           -+. ..-..+.+.|+.+++  +.+||+++|--.                   .+ ..||.|++|..-
T Consensus       170 -----LD~-~~~~~i~~~l~~l~~--~~Tvi~itH~l~-------------------~~-~~~D~i~vl~~G  213 (241)
T d2pmka1         170 -----LDY-ESEHVIMRNMHKICK--GRTVIIIAHRLS-------------------TV-KNADRIIVMEKG  213 (241)
T ss_dssp             -----CCH-HHHHHHHHHHHHHHT--TSEEEEECSSGG-------------------GG-TTSSEEEEEETT
T ss_pred             -----cCH-HHHHHHHHHHHHHhC--CCEEEEEECCHH-------------------HH-HhCCEEEEEECC
Confidence                 222 223467778888865  789999998221                   23 358999999653

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=96.72  E-value=0.0016  Score=52.14  Aligned_cols=136  Identities=18%  Similarity=0.195  Sum_probs=79.3

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSIKK  293 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~~~  293 (452)
                      |.|.+|.||-.+|||+-++..+.+.. ..|.+|++|...++.+.        ...+.   -..|.--             
T Consensus         2 G~L~~i~GpMfsGKTteLi~~~~~~~-~~~~kv~~ikp~~D~R~--------~~~i~---s~~g~~~-------------   56 (139)
T d2b8ta1           2 GWIEFITGPMFAGKTAELIRRLHRLE-YADVKYLVFKPKIDTRS--------IRNIQ---SRTGTSL-------------   56 (139)
T ss_dssp             CEEEEEECSTTSCHHHHHHHHHHHHH-HTTCCEEEEEECCCGGG--------CSSCC---CCCCCSS-------------
T ss_pred             cEEEEEEccccCHHHHHHHHHHHHHH-HCCCcEEEEEEcccccc--------cceEE---cccCcee-------------
Confidence            78999999999999999999998875 47899999988877431        00110   0111100             


Q ss_pred             HhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEec
Q psy2892         294 INKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILALSQ  373 (452)
Q Consensus       294 l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~q  373 (452)
                         ....+.     +..++...+..... ..++++|+||-.|.+..         .+    ..+...+.+.|++|++.. 
T Consensus        57 ---~~~~~~-----~~~~~~~~~~~~~~-~~~~dvI~IDE~QFf~d---------~i----~~~~~~~~~~g~~Viv~G-  113 (139)
T d2b8ta1          57 ---PSVEVE-----SAPEILNYIMSNSF-NDETKVIGIDEVQFFDD---------RI----CEVANILAENGFVVIISG-  113 (139)
T ss_dssp             ---CCEEES-----STHHHHHHHHSTTS-CTTCCEEEECSGGGSCT---------HH----HHHHHHHHHTTCEEEEEC-
T ss_pred             ---eeEEec-----cchhhHHHHHhhcc-ccCcCEEEechhhhcch---------hH----HHHHHHHHhcCceEEEEE-
Confidence               011221     12344443322111 11589999999998741         11    133344446799877754 


Q ss_pred             CCcchhhcCCCCCCchhhhhhchhhhhhceeE
Q psy2892         374 LNRSLEQRQNKRPIMSDLRESGAIEQDADVIL  405 (452)
Q Consensus       374 l~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl  405 (452)
                      |+.+..++    |    +.++..+--.||.|.
T Consensus       114 Ld~Df~~~----~----F~~~~~Li~~Ad~V~  137 (139)
T d2b8ta1         114 LDKNFKGE----P----FGPIAKLFTYADKIT  137 (139)
T ss_dssp             CSBCTTSS----B----CTTHHHHHHHCSEEE
T ss_pred             eccccccC----c----CccHHHHHHhhCeEE
Confidence            66554322    2    334555666777764

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=96.71  E-value=0.0072  Score=48.23  Aligned_cols=42  Identities=17%  Similarity=0.186  Sum_probs=35.7

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      ..|.+.+|.||-.+|||+-+++.+.+.. ..|.+|+.|.-..+
T Consensus         5 ~~G~l~lI~GpMfSGKTteLi~~~~~~~-~~g~~vl~i~~~~D   46 (141)
T d1xx6a1           5 DHGWVEVIVGPMYSGKSEELIRRIRRAK-IAKQKIQVFKPEID   46 (141)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEEEC--
T ss_pred             cceeEEEEEeccccHHHHHHHHHHHHhh-hcCCcEEEEEeccc
Confidence            3689999999999999999999998885 47899999987766

>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=96.70  E-value=0.00077  Score=58.09  Aligned_cols=34  Identities=21%  Similarity=0.186  Sum_probs=29.9

Q ss_pred             EEEEeC-CCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         217 IIVAGR-PSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       217 ~~i~g~-pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +.|+|. ||+|||+++.++|..++. .|++|++|..
T Consensus         4 ~~i~gt~~GVGKTtvs~~La~aLa~-~G~rVl~id~   38 (224)
T d1byia_           4 YFVTGTDTEVGKTVASCALLQAAKA-AGYRTAGYKP   38 (224)
T ss_dssp             EEEEESSTTSCHHHHHHHHHHHHHH-TTCCEEEECS
T ss_pred             EEEEECCCCccHHHHHHHHHHHHHH-CCCeEEEECc
Confidence            567777 699999999999999985 7999999964

>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=96.68  E-value=0.001  Score=59.88  Aligned_cols=39  Identities=23%  Similarity=0.367  Sum_probs=35.6

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      .+++++|.-|+||||++.++|..+|. .|++|+.++++..
T Consensus        21 ~iii~sGKGGVGKTT~a~nLA~~lA~-~G~rVllvD~Dp~   59 (279)
T d1ihua2          21 GLIMLMGKGGVGKTTMAAAIAVRLAD-MGFDVHLTTSDPA   59 (279)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHH-TTCCEEEEESCCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHH-CCCcEEEEeCCCC
Confidence            48889999999999999999999985 7999999999954

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=96.66  E-value=0.00083  Score=61.11  Aligned_cols=134  Identities=12%  Similarity=0.080  Sum_probs=71.4

Q ss_pred             CCCCcEEEEEeCCCCChhH-HHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTA-FSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRIND  289 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~-~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~  289 (452)
                      |.+|..++|.|++|+|||. |+..++..+. ..|.+|+|++   |..+++..+.....+.... .....     ..    
T Consensus         6 ~~~~~~~lv~~~TGsGKT~~~l~~~~~~~~-~~~~~~lvi~---Ptr~La~q~~~~l~~~~~~-~~~~~-----~~----   71 (305)
T d2bmfa2           6 FRKKRLTIMDLHPGAGKTKRYLPAIVREAI-KRGLRTLILA---PTRVVAAEMEEALRGLPIR-YQTPA-----IR----   71 (305)
T ss_dssp             SSTTCEEEECCCTTSSTTTTHHHHHHHHHH-HHTCCEEEEE---SSHHHHHHHHHHTTTSCCB-CCC-------------
T ss_pred             hhcCCcEEEEECCCCCHHHHHHHHHHHHHH-hcCCEEEEEc---cHHHHHHHHHHHHhcCCcc-eeeeE-----Ee----
Confidence            7799999999999999995 6555555554 4578899985   3455555554433332211 00000     00    


Q ss_pred             HHHHHh-CCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcE
Q psy2892         290 SIKKIN-KSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPI  368 (452)
Q Consensus       290 a~~~l~-~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~v  368 (452)
                        .... ...+.+..     ...+...... .....++++||||-.+.+...     ..    .+...++.+....++.+
T Consensus        72 --~~~~~~~~i~~~t-----~~~l~~~~~~-~~~~~~~~~vViDE~H~~~~~-----~~----~~~~~l~~~~~~~~~~~  134 (305)
T d2bmfa2          72 --AEHTGREIVDLMC-----HATFTMRLLS-PIRVPNYNLIIMDEAHFTDPA-----SI----AARGYISTRVEMGEAAG  134 (305)
T ss_dssp             ------CCCSEEEEE-----HHHHHHHHTS-SSCCCCCSEEEEESTTCCSHH-----HH----HHHHHHHHHHHHTSCEE
T ss_pred             --ecccCccccccCC-----cHHHHHHHhc-CccccceeEEEeeeeeecchh-----hH----HHHHHHHHhhccccceE
Confidence              0011 12333321     2222211110 011125899999999876431     11    22334566666778888


Q ss_pred             EEEecCC
Q psy2892         369 LALSQLN  375 (452)
Q Consensus       369 i~l~ql~  375 (452)
                      ++++-..
T Consensus       135 v~~SAT~  141 (305)
T d2bmfa2         135 IFMTATP  141 (305)
T ss_dssp             EEECSSC
T ss_pred             EEeecCC
Confidence            8887543

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=96.62  E-value=0.0019  Score=51.17  Aligned_cols=46  Identities=9%  Similarity=0.016  Sum_probs=31.6

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-CCHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-MSGIQLAMRML  263 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~~~~~i~~R~~  263 (452)
                      -...+|.|++|+|||.++..++    .+.|.+|+|+.-- .-.+++..++.
T Consensus         8 ~~~~ll~apTGsGKT~~~~~~~----~~~~~~vli~~P~~~l~~q~~~~~~   54 (136)
T d1a1va1           8 FQVAHLHAPTGSGKSTKVPAAY----AAQGYKVLVLNPSVAATLGFGAYMS   54 (136)
T ss_dssp             CEEEEEECCTTSCTTTHHHHHH----HTTTCCEEEEESCHHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCHHHHHHHHH----HHcCCcEEEEcChHHHHHHHHHHHH
Confidence            4578999999999998764433    3568889987653 33445555544

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.56  E-value=0.00053  Score=57.95  Aligned_cols=40  Identities=23%  Similarity=0.430  Sum_probs=31.1

Q ss_pred             CCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         209 SGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       209 gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      +|+ +|-++.|.|.||+||||+|..++...-. ....+.++.
T Consensus        15 ~~~-~g~vI~L~G~pGSGKTTiAk~La~~l~~-~~~~~~~~~   54 (195)
T d1x6va3          15 GGF-RGCTVWLTGLSGAGKTTVSMALEEYLVC-HGIPCYTLD   54 (195)
T ss_dssp             CSC-CCEEEEEESSCHHHHHHHHHHHHHHHHH-TTCCEEEEC
T ss_pred             cCC-CCeEEEEECCCCCCHHHHHHHHHHHHHh-cCCCccchh
Confidence            345 6778999999999999999999988754 455555543

>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=96.52  E-value=0.0038  Score=55.80  Aligned_cols=66  Identities=15%  Similarity=0.207  Sum_probs=50.3

Q ss_pred             cccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHH
Q psy2892         195 TGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQLAMRM  262 (452)
Q Consensus       195 ~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~i~~R~  262 (452)
                      ..+.||++.+|-++ .+.+|+=..|.|++|+|||+++.+++.+... ....|+|.-.-....++.+..
T Consensus        49 ~~l~TGi~~ID~l~-pig~GQr~~Ifg~~g~GKt~l~~~~~~~~~~-~~~v~V~~~iGer~~Ev~e~~  114 (276)
T d1fx0a3          49 EPLQTGLIAIDAMI-PVGRGQRELIIGDRQTGKTAVATDTILNQQG-QNVICVYVAIGQKASSVAQVV  114 (276)
T ss_dssp             SBCCCSCTTTTTTS-CCBTTCBCBEEESSSSSHHHHHHHHHHTCCT-TTCEEEEEEESCCHHHHHHHH
T ss_pred             ccccccceEEeccc-cccCCceEeeccCCCCChHHHHHHHHhhhcc-cCceeeeeeecchhHHHHHHH
Confidence            46889999999874 5788888999999999999999998776532 344566666666666665544

>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=96.47  E-value=0.00076  Score=55.52  Aligned_cols=23  Identities=22%  Similarity=0.465  Sum_probs=20.5

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .+++|+|+||+||||+|..++..
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999988764

>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=96.46  E-value=0.004  Score=55.51  Aligned_cols=110  Identities=16%  Similarity=0.283  Sum_probs=62.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCC----CcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENK----LPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSI  291 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g----~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~  291 (452)
                      -.++.|+||+|||+++..+|..++.+.-    ...-+++++.+      +++            .|.-...+|+.     
T Consensus        41 n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~------~li------------ag~~~~g~~e~-----   97 (268)
T d1r6bx2          41 NPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIG------SLL------------AGTKYRGDFEK-----   97 (268)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---------------------CCCCCSSCHHH-----
T ss_pred             CcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeec------hHh------------ccCccchhHHH-----
Confidence            5789999999999999999998875321    11223344433      222            22222233332     


Q ss_pred             HHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEE
Q psy2892         292 KKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL  371 (452)
Q Consensus       292 ~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l  371 (452)
                                         .+...+..+ .+.+ --++|||.++.+...+......   ..++.-||.+-.+-++.+|..
T Consensus        98 -------------------r~~~i~~~~-~~~~-~iIlfiDeih~l~~~g~~~g~~---~d~a~~Lkp~L~rg~i~vIga  153 (268)
T d1r6bx2          98 -------------------RFKALLKQL-EQDT-NSILFIDEIHTIIGAGAASGGQ---VDAANLIKPLLSSGKIRVIGS  153 (268)
T ss_dssp             -------------------HHHHHHHHH-SSSS-CEEEEETTTTTTTTSCCSSSCH---HHHHHHHSSCSSSCCCEEEEE
T ss_pred             -------------------HHHHHHHHh-hccC-CceEEecchHHHhcCCCCCCcc---ccHHHHhhHHHhCCCCeEEEe
Confidence                               222233333 2333 5688999999987654222222   244566775444567888887


Q ss_pred             e
Q psy2892         372 S  372 (452)
Q Consensus       372 ~  372 (452)
                      +
T Consensus       154 t  154 (268)
T d1r6bx2         154 T  154 (268)
T ss_dssp             E
T ss_pred             C
Confidence            6

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.46  E-value=0.0019  Score=54.28  Aligned_cols=36  Identities=19%  Similarity=0.441  Sum_probs=29.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ++.|+|++|+||||||..++..... .+..+..++..
T Consensus        24 iIgI~G~~GSGKSTla~~L~~~l~~-~~~~~~~~~~~   59 (198)
T d1rz3a_          24 VLGIDGLSRSGKTTLANQLSQTLRE-QGISVCVFHMD   59 (198)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHH-TTCCEEEEEGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhcc-ccccceecccc
Confidence            5669999999999999999988754 67777777643

>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=96.46  E-value=0.0009  Score=55.15  Aligned_cols=27  Identities=15%  Similarity=0.390  Sum_probs=23.7

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +.+.+++|.|+||+||||++..++.+.
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            456799999999999999999988765

>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=96.45  E-value=0.0016  Score=58.94  Aligned_cols=37  Identities=22%  Similarity=0.298  Sum_probs=34.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      ++++.|--|+||||++.++|..+|. .|++|+.++++-
T Consensus        10 ~i~~sGKGGVGKTTvaa~lA~~lA~-~G~rVLlvD~Dp   46 (296)
T d1ihua1          10 YLFFTGKGGVGKTSISCATAIRLAE-QGKRVLLVSTDP   46 (296)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCT
T ss_pred             EEEEECCCcChHHHHHHHHHHHHHH-CCCCEEEEeCCC
Confidence            7889999999999999999999985 799999999984

>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=96.42  E-value=0.0044  Score=54.41  Aligned_cols=34  Identities=26%  Similarity=0.318  Sum_probs=27.9

Q ss_pred             ccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         203 ELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       203 ~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|+.+.--+++|+.+.|.|++|+|||||+.-++-
T Consensus        17 vL~~isl~i~~Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          17 ILRDISFEAQPNSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             SEEEEEEEECTTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             eeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHHH
Confidence            4666645689999999999999999998876554

>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=96.40  E-value=0.0011  Score=57.10  Aligned_cols=41  Identities=15%  Similarity=0.307  Sum_probs=34.1

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      .+|-++.++|.||+||||++..++.......+.++.+++.+
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD   62 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGD   62 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcch
Confidence            57789999999999999999999988754456788877654

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.39  E-value=0.0015  Score=54.39  Aligned_cols=36  Identities=19%  Similarity=0.371  Sum_probs=30.4

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      .+++|.|+||+||||++..++..+. ..+.++..++.
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~-~~~~~~~~~~~   37 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLR-KEGVNYKMVSF   37 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH-TTTCCCEEEEH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH-HcCCCeEEEec
Confidence            4899999999999999999998875 35777777765

>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=96.36  E-value=0.0022  Score=55.75  Aligned_cols=39  Identities=23%  Similarity=0.398  Sum_probs=34.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG  255 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~  255 (452)
                      +.+.+|..|+||||++.++|..++. .|.+|+++.++...
T Consensus         4 Iav~s~KGGvGKTtia~nlA~~la~-~g~~VlliD~D~~~   42 (232)
T d1hyqa_           4 ITVASGKGGTGKTTITANLGVALAQ-LGHDVTIVDADITM   42 (232)
T ss_dssp             EEEEESSSCSCHHHHHHHHHHHHHH-TTCCEEEEECCCSS
T ss_pred             EEEECCCCCChHHHHHHHHHHHHHh-CCCCEEEEeCCCCC
Confidence            5677799999999999999999985 79999999998654

>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=96.26  E-value=0.011  Score=52.94  Aligned_cols=64  Identities=19%  Similarity=0.232  Sum_probs=48.2

Q ss_pred             cccccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhC-------CCcEEEEeCCCCHHHHH
Q psy2892         195 TGISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIEN-------KLPVAIFSMEMSGIQLA  259 (452)
Q Consensus       195 ~~i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~-------g~~vl~~s~E~~~~~i~  259 (452)
                      ..+.||++.+|-+. .+.+|+=..|.|++|+|||+++.+++.+....+       +..|.|.-..+..+++.
T Consensus        50 e~l~TGIraID~l~-pig~GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~  120 (285)
T d2jdia3          50 EPMQTGIKAVDSLV-PIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVA  120 (285)
T ss_dssp             SBCCCSCHHHHHHS-CCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHH
T ss_pred             cccccCceEEeccc-CccCCCEEEeecCCCCChHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHH
Confidence            46899999999864 588899999999999999999999998865321       12355655455555543

>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=96.20  E-value=0.0016  Score=60.99  Aligned_cols=43  Identities=12%  Similarity=0.111  Sum_probs=34.9

Q ss_pred             ccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         207 ITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       207 ~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      +..|.+++..+++.||||+|||+||..+|..+    |.+++.+++-.
T Consensus       147 ~~~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~----~~~~i~in~s~  189 (362)
T d1svma_         147 MVYNIPKKRYWLFKGPIDSGKTTLAAALLELC----GGKALNVNLPL  189 (362)
T ss_dssp             HHHCCTTCCEEEEECSTTSSHHHHHHHHHHHH----CCEEECCSSCT
T ss_pred             HHhCCCCcCeEEEECCCCCCHHHHHHHHHHHc----CCCEEEEECcc
Confidence            35688888899999999999999999998765    46777775443

>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=96.19  E-value=0.0016  Score=53.69  Aligned_cols=27  Identities=30%  Similarity=0.521  Sum_probs=23.1

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++|-.++|+|+||+||||++..++...
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            456789999999999999998888653

>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=96.18  E-value=0.0014  Score=53.97  Aligned_cols=27  Identities=26%  Similarity=0.519  Sum_probs=22.0

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhCCCcEE
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIENKLPVA  247 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl  247 (452)
                      ++|+|+||+||||+|..++...    |.+++
T Consensus         7 I~i~G~pGsGKTTia~~La~~l----~~~~i   33 (173)
T d1rkba_           7 ILLTGTPGVGKTTLGKELASKS----GLKYI   33 (173)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH----CCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHH----CCcEE
Confidence            7799999999999999888654    55553

>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=96.17  E-value=0.0026  Score=53.04  Aligned_cols=35  Identities=23%  Similarity=0.392  Sum_probs=30.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +++|.|.||+||||++..++..+. ..|..+..++.
T Consensus         3 iivi~G~~GsGKTT~~~~La~~L~-~~~~~~~~~~~   37 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEILD-NQGINNKIINY   37 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHH-TTTCCEEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH-HcCCCEEEEEC
Confidence            789999999999999999998875 46888888874

>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=96.16  E-value=0.0032  Score=54.65  Aligned_cols=38  Identities=21%  Similarity=0.317  Sum_probs=32.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      +.+.++..|+||||++.++|..++. .|.+|+++.++..
T Consensus         5 Iav~~~kGGvGKTtia~nLA~~la~-~g~~VlliD~D~~   42 (237)
T d1g3qa_           5 ISIVSGKGGTGKTTVTANLSVALGD-RGRKVLAVDGDLT   42 (237)
T ss_dssp             EEEECSSTTSSHHHHHHHHHHHHHH-TTCCEEEEECCTT
T ss_pred             EEEECCCCCCcHHHHHHHHHHHHHh-CCCCEEEEeCCCC
Confidence            3455589999999999999999985 7999999998854

>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=96.13  E-value=0.012  Score=55.14  Aligned_cols=108  Identities=19%  Similarity=0.312  Sum_probs=49.7

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhC------CCcEEEEeCCCCHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIEN------KLPVAIFSMEMSGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDS  290 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~------g~~vl~~s~E~~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a  290 (452)
                      .++.|+||+|||+++-.+|..+..+.      +.++  ++++++      +++|            |.-...+|+.    
T Consensus        46 ~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i--~~ld~~------~l~a------------g~~~~g~~e~----  101 (387)
T d1qvra2          46 PVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRI--VSLQMG------SLLA------------GAKYRGEFEE----  101 (387)
T ss_dssp             CEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEE--EEECC-----------------------------CHHH----
T ss_pred             CeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceE--EEeeHh------hhhc------------ccCcchhHHH----
Confidence            46779999999999999999886532      2233  344432      3332            1111122221    


Q ss_pred             HHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEE
Q psy2892         291 IKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILA  370 (452)
Q Consensus       291 ~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~  370 (452)
                                          .+...+..+....+ .-++|||.++.+...+...+    -...+.-||-.-..-++.+|.
T Consensus       102 --------------------r~~~i~~~~~~~~~-~~ilfide~h~l~~~g~~~g----~~d~a~~Lkp~L~rg~~~~I~  156 (387)
T d1qvra2         102 --------------------RLKAVIQEVVQSQG-EVILFIDELHTVVGAGKAEG----AVDAGNMLKPALARGELRLIG  156 (387)
T ss_dssp             --------------------HHHHHHHHHHTTCS-SEEEEECCC-----------------------HHHHHTTCCCEEE
T ss_pred             --------------------HHHHHHHHhccCCC-ceEEEeccHHHHhcCCCCCC----cccHHHHHHHHHhCCCcceee
Confidence                                22333333333222 45789999999876442111    124467788766667888888


Q ss_pred             Eec
Q psy2892         371 LSQ  373 (452)
Q Consensus       371 l~q  373 (452)
                      .+-
T Consensus       157 ~tT  159 (387)
T d1qvra2         157 ATT  159 (387)
T ss_dssp             EEC
T ss_pred             ecC
Confidence            763

>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=96.10  E-value=0.0027  Score=56.68  Aligned_cols=37  Identities=11%  Similarity=0.249  Sum_probs=33.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      .+.|+|.-|+||||++.++|..+|. .|++|+.+.++-
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA~~LA~-~G~rVllID~D~   39 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLTSGLHA-MGKTIMVVGCDP   39 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHT-TTCCEEEEEECT
T ss_pred             EEEEECCCcCCHHHHHHHHHHHHHh-CCCcEEEEecCC
Confidence            4567899999999999999999985 799999999984

>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=96.08  E-value=0.022  Score=48.41  Aligned_cols=24  Identities=17%  Similarity=0.422  Sum_probs=21.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      -+++.|+||+|||+++..+|..+.
T Consensus        26 ~lLl~Gp~G~GKtt~a~~~a~~l~   49 (207)
T d1a5ta2          26 ALLIQALPGMGDDALIYALSRYLL   49 (207)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHHHhcc
Confidence            489999999999999999998774

>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=96.04  E-value=0.002  Score=52.98  Aligned_cols=34  Identities=24%  Similarity=0.370  Sum_probs=26.3

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      ..+++|+|+||+||||+|..++...    +.+++.++.
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l----~~~~~~~~~   36 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVL----PEPWLAFGV   36 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS----SSCEEEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHc----CCCeEEeec
Confidence            4589999999999999999887654    455655543

>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=96.03  E-value=0.012  Score=52.08  Aligned_cols=24  Identities=21%  Similarity=0.295  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      ++++.|+||+|||+++..++..+.
T Consensus        48 ~l~l~GppGtGKT~l~~~l~~~l~   71 (287)
T d1w5sa2          48 IYGSIGRVGIGKTTLAKFTVKRVS   71 (287)
T ss_dssp             EEECTTCCSSSHHHHHHHHHHHHH
T ss_pred             EEEeECCCCCCHHHHHHHHHHHHH
Confidence            456789999999999999988763

>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=95.95  E-value=0.0032  Score=54.96  Aligned_cols=31  Identities=26%  Similarity=0.506  Sum_probs=24.1

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +++.||||+|||++|.-+|.+.    +.+...++.
T Consensus        38 ~L~~GPpGtGKT~lA~~la~~~----~~~~~~~~~   68 (238)
T d1in4a2          38 VLLAGPPGLGKTTLAHIIASEL----QTNIHVTSG   68 (238)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHH----TCCEEEEET
T ss_pred             EEEECCCCCcHHHHHHHHHhcc----CCCcccccC
Confidence            7899999999999999887765    345555543

>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=95.93  E-value=0.0026  Score=56.48  Aligned_cols=33  Identities=24%  Similarity=0.363  Sum_probs=25.2

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      ..++++||||+|||++|..+|...    +.+.+.++.
T Consensus        33 ~~ilL~GpPGtGKT~la~~la~~~----~~~~~~i~~   65 (273)
T d1gvnb_          33 TAFLLGGQPGSGKTSLRSAIFEET----QGNVIVIDN   65 (273)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHHT----TTCCEEECT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHh----hcceEEEec
Confidence            358999999999999998887654    345555654

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.91  E-value=0.0056  Score=52.50  Aligned_cols=39  Identities=21%  Similarity=0.348  Sum_probs=33.6

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      ++|-+++|.|+.|+||||.+..++..+. ..|.+|.++..
T Consensus         1 ~rG~lI~ieG~dGsGKsT~~~~L~~~L~-~~g~~v~~~~~   39 (209)
T d1nn5a_           1 RRGALIVLEGVDRAGKSTQSRKLVEALC-AAGHRAELLRF   39 (209)
T ss_dssp             CCCCEEEEEESTTSSHHHHHHHHHHHHH-HTTCCEEEEES
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHHHHHH-HCCCcEEEEeC
Confidence            4788999999999999999999988875 47899987753

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=95.90  E-value=0.0044  Score=53.94  Aligned_cols=36  Identities=22%  Similarity=0.495  Sum_probs=29.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      +++|.|++|+|||||+..+..+.  ..+..+..++.+.
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~--~~~~~~~ivn~d~   37 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYL--EDNYKVAYVNLDT   37 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH--TTTSCEEEEECCS
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHH--hhCCeEEEEecCc
Confidence            68999999999999999998765  3567788887543

>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=95.82  E-value=0.0042  Score=54.91  Aligned_cols=48  Identities=15%  Similarity=0.038  Sum_probs=33.7

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC--CCHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME--MSGIQLAMRML  263 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E--~~~~~i~~R~~  263 (452)
                      -++|.|+||+|||+++..++..+....+.+++++++-  .........+.
T Consensus        45 ~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   94 (276)
T d1fnna2          45 RATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIA   94 (276)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHH
T ss_pred             ceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhhhhhhhhhhH
Confidence            6889999999999999999988743345566666542  34445554444

>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=95.81  E-value=0.0047  Score=55.72  Aligned_cols=37  Identities=19%  Similarity=0.211  Sum_probs=32.9

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      .++|.|--|+||||++.++|..+|. .|++||.+.++-
T Consensus         4 ~IaisgKGGVGKTT~a~NLA~~LA~-~G~rVLlID~Dp   40 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNLVAALAE-MGKKVMIVGCDP   40 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHH-TTCCEEEEEECS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH-CCCCEEEEecCC
Confidence            3567899999999999999999985 799999999984

>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=95.81  E-value=0.011  Score=51.73  Aligned_cols=24  Identities=17%  Similarity=0.356  Sum_probs=20.9

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      .++|.|+||+|||++|..++..+-
T Consensus        36 ~~Ll~Gp~G~GKtt~a~~~~~~l~   59 (239)
T d1njfa_          36 AYLFSGTRGVGKTSIARLLAKGLN   59 (239)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHHhc
Confidence            589999999999999998877663

>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=95.78  E-value=0.0022  Score=51.99  Aligned_cols=23  Identities=17%  Similarity=0.403  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .++|.|+||+||||++..+|.++
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            46777999999999999998754

>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=95.75  E-value=0.002  Score=53.38  Aligned_cols=23  Identities=17%  Similarity=0.310  Sum_probs=20.6

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .++|.|+||+||||+|..++...
T Consensus         9 ~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           9 TVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             EEEEECCTTSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999988754

>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=95.75  E-value=0.0049  Score=54.19  Aligned_cols=38  Identities=13%  Similarity=0.138  Sum_probs=29.2

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      .+....++.||||+|||+++..+|...    +..+.+++..+
T Consensus        50 ~~~~~lll~GPpG~GKTt~a~~la~~~----~~~~~~~~~~~   87 (253)
T d1sxja2          50 GVFRAAMLYGPPGIGKTTAAHLVAQEL----GYDILEQNASD   87 (253)
T ss_dssp             TSCSEEEEECSTTSSHHHHHHHHHHHT----TCEEEEECTTS
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHH----Hhhhhcccccc
Confidence            333468999999999999999887643    56788876644

>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=0.0058  Score=52.24  Aligned_cols=40  Identities=20%  Similarity=0.267  Sum_probs=33.2

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM  253 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~  253 (452)
                      +|.+++|-|..|+||||++-.++-.+. ..|.++..+..|-
T Consensus         1 rgkfIviEG~dGsGKsT~~~~L~~~L~-~~g~~~~~~~~ep   40 (210)
T d4tmka_           1 RSKYIVIEGLEGAGKTTARNVVVETLE-QLGIRDMVFTREP   40 (210)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHHH-HTTCCCEEEEESS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHH-hCCCCeEEEecCC
Confidence            588999999999999999999988875 4677766666654

>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=95.74  E-value=0.0034  Score=52.92  Aligned_cols=25  Identities=28%  Similarity=0.438  Sum_probs=21.6

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ..+++|.|+||+||||+|..++.+.
T Consensus         6 p~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3589999999999999999888654

>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=95.70  E-value=0.0046  Score=55.59  Aligned_cols=79  Identities=14%  Similarity=0.201  Sum_probs=46.6

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHh--CCCcEEEEeCCC---CHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIE--NKLPVAIFSMEM---SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDS  290 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~--~g~~vl~~s~E~---~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a  290 (452)
                      ++.|+|++|+||||++..+...+...  ...+|..+|++.   +.++ ..++-....+-+. -...|.-.-.|...+.+.
T Consensus        29 iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~-r~~L~~~~~~~pl-~~~RG~PgThD~~ll~~~  106 (286)
T d1odfa_          29 FIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHED-QLKLNEQFKNNKL-LQGRGLPGTHDMKLLQEV  106 (286)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHH-HHHHHHHTTTCGG-GSSSCSTTSBCHHHHHHH
T ss_pred             EEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCCCCHHH-HHHHhhhcccccc-ceecCCCcchhHHHHHHH
Confidence            67799999999999999988776543  245789998774   3332 1222221111111 112343334466666667


Q ss_pred             HHHHhC
Q psy2892         291 IKKINK  296 (452)
Q Consensus       291 ~~~l~~  296 (452)
                      +..+..
T Consensus       107 l~~l~~  112 (286)
T d1odfa_         107 LNTIFN  112 (286)
T ss_dssp             HHHHTC
T ss_pred             HHHHHh
Confidence            766653

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=95.61  E-value=0.0067  Score=55.75  Aligned_cols=43  Identities=26%  Similarity=0.336  Sum_probs=34.5

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGIQ  257 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~~  257 (452)
                      .-.+.|+|+||+|||||...++.+.. ..|.+|..+..+-+...
T Consensus        54 ~~~IgitG~pGaGKSTLi~~l~~~~~-~~g~~vavlavDpss~~   96 (327)
T d2p67a1          54 TLRLGVTGTPGAGKSTFLEAFGMLLI-REGLKVAVIAVDPSSPV   96 (327)
T ss_dssp             SEEEEEEECTTSCHHHHHHHHHHHHH-HTTCCEEEEEECCC---
T ss_pred             ceEEEeeCCCCCCHHHHHHHHHHHHH-hcCCceeeecCCCceee
Confidence            34688999999999999999998885 57899999988866544

>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=95.58  E-value=0.0057  Score=53.88  Aligned_cols=31  Identities=29%  Similarity=0.539  Sum_probs=24.9

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEe
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFS  250 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s  250 (452)
                      -+++.||||+|||+++..+|...    +.+++.++
T Consensus        42 ~vLL~GppGtGKT~la~alA~~~----~~~~~~i~   72 (246)
T d1d2na_          42 SVLLEGPPHSGKTALAAKIAEES----NFPFIKIC   72 (246)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH----TCSEEEEE
T ss_pred             EEEEECcCCCCHHHHHHHHhhcc----cccccccc
Confidence            37899999999999999887643    56777664

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.58  E-value=0.003  Score=56.85  Aligned_cols=36  Identities=22%  Similarity=0.357  Sum_probs=29.7

Q ss_pred             ccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         201 FFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       201 ~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      -+.|+.+.--+++|+++.|.|++|+|||||+.-++-
T Consensus        49 ~pvL~~isl~i~~Ge~vaivG~nGsGKSTLl~~i~G   84 (281)
T d1r0wa_          49 NPVLKNINLNIEKGEMLAITGSTGSGKTSLLMLILG   84 (281)
T ss_dssp             CEEEEEEEEEECTTCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CeEEeCeEEEEcCCCEEEEECCCCChHHHHHHHHhC
Confidence            345777655699999999999999999999876654

>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=95.57  E-value=0.0049  Score=53.40  Aligned_cols=36  Identities=19%  Similarity=0.319  Sum_probs=31.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS  254 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~  254 (452)
                      +++|+|..|+|||||+.+++.+   ..|.++..+..|+.
T Consensus         5 v~iitGFLGaGKTTll~~lL~~---~~~~riaVI~Ne~g   40 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNE---QHGYKIAVIENEFG   40 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS---CCCCCEEEECSSCC
T ss_pred             EEEEeeCCCCCHHHHHHHHHhc---CCCCcEEEEEeccc
Confidence            7999999999999999888764   35789999999875

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.52  E-value=0.0042  Score=51.90  Aligned_cols=25  Identities=24%  Similarity=0.574  Sum_probs=21.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      |.+++|.||||+||||++..++...
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhhC
Confidence            7899999999999999988776543

>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=95.49  E-value=0.0061  Score=55.40  Aligned_cols=107  Identities=14%  Similarity=0.156  Sum_probs=62.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHH-hCCCcEEEEeCCC---CHHHHHHHHHHHhCCCCccccccCCCCcchHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAI-ENKLPVAIFSMEM---SGIQLAMRMLGSVGKLDQHKLRTGRLSSDDWPRINDSI  291 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~-~~g~~vl~~s~E~---~~~~i~~R~~a~~~~i~~~~i~~g~l~~~~~~~~~~a~  291 (452)
                      ++.|+|++|+||||||..+...+.. ..+.+|..+|++.   +...+..+-..     .    ..|...--+++.+.+.+
T Consensus        82 iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F~~~~~~l~~~~~~-----~----~~g~Pes~D~~~L~~~L  152 (308)
T d1sq5a_          82 IISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFLHPNQVLKERGLM-----K----KKGFPESYDMHRLVKFV  152 (308)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGBCCHHHHHHHTCT-----T----CTTSGGGBCHHHHHHHH
T ss_pred             EEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeeeECCchHHHHhcCC-----c----cCCchHhhhHHHHHHHH
Confidence            7889999999999999999887742 1367899988773   44433322110     0    11222234677888888


Q ss_pred             HHHhCC--CeEE--EcC--CCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         292 KKINKS--QLYI--DET--PSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       292 ~~l~~~--~l~i--~~~--~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      ..+...  .+.+  .+.  .....++       ... .+.+++|||+.+..+..
T Consensus       153 ~~lk~g~~~v~~P~yd~~~~d~~~~~-------~~~-~~~~dIlIvEGi~vL~~  198 (308)
T d1sq5a_         153 SDLKSGVPNVTAPVYSHLIYDVIPDG-------DKT-VVQPDILILEGLNVLQS  198 (308)
T ss_dssp             HHHTTTCSCEEECCEETTTTEECTTC-------CEE-EC-CCEEEEECTTTTCC
T ss_pred             HHHHcCCCcceeeccchhhcccCCCC-------ceE-eCCCCEEEEcchhhccC
Confidence            777542  2332  111  1100000       001 12479999999987653

>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=95.45  E-value=0.0053  Score=51.51  Aligned_cols=34  Identities=18%  Similarity=0.305  Sum_probs=25.8

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      ++|--++|.|+||+||||.|..+|.+.    |  ..|++.
T Consensus         1 p~~~riil~G~pGSGKsT~a~~La~~~----g--~~~i~~   34 (190)
T d1ak2a1           1 PKGVRAVLLGPPGAGKGTQAPKLAKNF----C--VCHLAT   34 (190)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHHH----T--CEEEEH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHHHh----C--CeEEeH
Confidence            356667788999999999999888654    3  445664

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=95.30  E-value=0.0089  Score=54.81  Aligned_cols=41  Identities=20%  Similarity=0.313  Sum_probs=34.5

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG  255 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~  255 (452)
                      .-.+-|+|+||+|||||.-.++.+.. ..|.+|..+..+-+.
T Consensus        51 ~~~igitG~pGaGKSTli~~l~~~~~-~~g~~vaViavDpss   91 (323)
T d2qm8a1          51 AIRVGITGVPGVGKSTTIDALGSLLT-AAGHKVAVLAVDPSS   91 (323)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHHH-HTTCCEEEEEECGGG
T ss_pred             ceEEeeeCCCCCCHHHHHHHHHHHHh-hcCCceeeeeccccc
Confidence            34688999999999999999998875 478999999887553

>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=95.27  E-value=0.0085  Score=54.64  Aligned_cols=27  Identities=22%  Similarity=0.433  Sum_probs=21.3

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .+++ -+++.||||+|||.+|..+|...
T Consensus        47 ~~~~-~iLl~GPpG~GKT~lAkalA~~~   73 (309)
T d1ofha_          47 VTPK-NILMIGPTGVGKTEIARRLAKLA   73 (309)
T ss_dssp             CCCC-CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCc-eEEEECCCCCCHHHHHHHHhhcc
Confidence            4444 35678999999999999988754

>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=95.24  E-value=0.0049  Score=53.79  Aligned_cols=31  Identities=23%  Similarity=0.455  Sum_probs=23.8

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +++.||||+|||++|.-++...    +.+...++.
T Consensus        38 ~Ll~GPpG~GKTtla~~la~~~----~~~~~~~~~   68 (239)
T d1ixsb2          38 LLLFGPPGLGKTTLAHVIAHEL----GVNLRVTSG   68 (239)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH----TCCEEEEET
T ss_pred             EEEECCCCCCHHHHHHHHHHHh----CCCeEeccC
Confidence            6799999999999999887654    345555553

>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=95.20  E-value=0.092  Score=45.33  Aligned_cols=27  Identities=15%  Similarity=0.266  Sum_probs=24.4

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAI  240 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~  240 (452)
                      +.+++|+||..+|||+++.+++.....
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l~~~l   67 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTALIALM   67 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             ceEEEEeccCchhhHHHHHHHHHHHHH
Confidence            468999999999999999999998765

>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=95.19  E-value=0.0044  Score=52.28  Aligned_cols=26  Identities=27%  Similarity=0.426  Sum_probs=22.1

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .++.+++|.|+||+||||.|..++..
T Consensus         6 ~~~~iI~l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_           6 KKSKIIFVVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             HTSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            45678999999999999999988653

>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=95.18  E-value=0.011  Score=52.18  Aligned_cols=34  Identities=18%  Similarity=0.262  Sum_probs=26.4

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +..++|.|++|+|||+++.+++...    +..+.|+++
T Consensus        29 ~~~i~i~G~~G~GKTsLl~~~~~~~----~~~~~~i~~   62 (283)
T d2fnaa2          29 APITLVLGLRRTGKSSIIKIGINEL----NLPYIYLDL   62 (283)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHH----TCCEEEEEG
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHHHC----CCCeEEEEe
Confidence            4579999999999999999877553    456666643

>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=95.12  E-value=0.006  Score=50.58  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=19.3

Q ss_pred             EEEEeCCCCChhHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++|.|+||+||||.|..+|.+.
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            6799999999999999887754

>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=95.11  E-value=0.0078  Score=53.92  Aligned_cols=61  Identities=20%  Similarity=0.181  Sum_probs=45.4

Q ss_pred             cccCccccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEE-eCCCCHHHH
Q psy2892         197 ISTGFFELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIF-SMEMSGIQL  258 (452)
Q Consensus       197 i~tg~~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~-s~E~~~~~i  258 (452)
                      .++|...+|-+. .+.+|+=..|.|++|+|||+++.+++.+.......-|+++ ..+...+++
T Consensus        27 ~~~~~r~ID~l~-PigrGQr~~I~g~~g~GKT~l~~~i~~~~~~~~~~~v~~~~~iger~~ev   88 (289)
T d1xpua3          27 EDLTARVLDLAS-PIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEEV   88 (289)
T ss_dssp             THHHHHHHHHHS-CCBTTCEEEEEECSSSSHHHHHHHHHHHHHHHCTTSEEEEEEEEECHHHH
T ss_pred             ccccceeeeecc-cccCCCeeeEeCCCCCCHHHHHHHHHHHHhhcCCCeEEEEEeeceeHHHH
Confidence            346667788753 5889999999999999999999999999876554445443 444455544

>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=95.08  E-value=0.0064  Score=50.96  Aligned_cols=22  Identities=23%  Similarity=0.407  Sum_probs=19.0

Q ss_pred             EEEEeCCCCChhHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++|.|+||+||||+|.-++.+.
T Consensus         6 I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           6 VMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7799999999999998877654

>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=95.03  E-value=0.007  Score=50.85  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .++|.|+||+||||.|..+|.+.
T Consensus         3 iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999888754

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.02  E-value=0.027  Score=49.70  Aligned_cols=110  Identities=18%  Similarity=0.223  Sum_probs=66.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC-CCHHHHHHHHHHHhCCCCcc-ccccCCCCcchHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME-MSGIQLAMRMLGSVGKLDQH-KLRTGRLSSDDWPRINDSIKK  293 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E-~~~~~i~~R~~a~~~~i~~~-~i~~g~l~~~~~~~~~~a~~~  293 (452)
                      ..+|.|..|+|||.+++..+..+.. .|+.|++..-+ .=..|...++.......+.. .+..|..+..+...+..   .
T Consensus       106 ~rLL~GdvGSGKT~Va~~a~~~~~~-~g~q~~~m~Pt~~La~Qh~~~~~~~f~~~~~~v~~l~~~~~~~~r~~~~~---~  181 (264)
T d1gm5a3         106 NRLLQGDVGSGKTVVAQLAILDNYE-AGFQTAFMVPTSILAIQHYRRTVESFSKFNIHVALLIGATTPSEKEKIKS---G  181 (264)
T ss_dssp             CCEEECCSSSSHHHHHHHHHHHHHH-HTSCEEEECSCHHHHHHHHHHHHHHHTCSSCCEEECCSSSCHHHHHHHHH---H
T ss_pred             eeeeeccccccccHHHHHHHHHHHh-cccceeEEeehHhhhHHHHHHHHHhhhhccccceeeccccchHHHHHHHH---H
Confidence            3689999999999999999988864 68888887654 44566677776666544332 23456666655444333   2


Q ss_pred             HhCC--CeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         294 INKS--QLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       294 l~~~--~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      +...  .+.|= +.  +  -+...   +  .+.++++||||-=+.+..
T Consensus       182 ~~~g~~~iiIG-Th--s--l~~~~---~--~f~~LglviiDEqH~fgv  219 (264)
T d1gm5a3         182 LRNGQIDVVIG-TH--A--LIQED---V--HFKNLGLVIIDEQHRFGV  219 (264)
T ss_dssp             HHSSCCCEEEE-CT--T--HHHHC---C--CCSCCCEEEEESCCCC--
T ss_pred             HHCCCCCEEEe-eh--H--HhcCC---C--Cccccceeeeccccccch
Confidence            3333  44443 22  1  11110   0  122589999999766544

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.01  E-value=0.0081  Score=51.33  Aligned_cols=37  Identities=27%  Similarity=0.373  Sum_probs=28.0

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHh----CCCcEEEEeCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIE----NKLPVAIFSME  252 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~----~g~~vl~~s~E  252 (452)
                      ++.|+|++|+|||||+..++..+...    .+..|..++++
T Consensus         4 iIgI~G~~gSGKSTla~~L~~~l~~~~~~~~~~~~~vi~~D   44 (213)
T d1uj2a_           4 LIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQD   44 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhchhccccCCCceEEEecc
Confidence            57799999999999999998776321    13467777765

>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=94.96  E-value=0.007  Score=50.29  Aligned_cols=22  Identities=23%  Similarity=0.610  Sum_probs=19.7

Q ss_pred             EEEEeCCCCChhHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++|.|+||+||||.|..++.+.
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6788999999999999998765

>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=94.96  E-value=0.0047  Score=54.61  Aligned_cols=171  Identities=17%  Similarity=0.162  Sum_probs=88.9

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC----CCCHHHHHHHHHHHhCCCCc------
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM----EMSGIQLAMRMLGSVGKLDQ------  271 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~----E~~~~~i~~R~~a~~~~i~~------  271 (452)
                      +.|+.+.--+++|+.+.|.|++|+|||||+.-++--.  ......+++..    +.+..++..++ +....-+.      
T Consensus        32 ~vL~~isl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~--~p~~G~I~i~g~~i~~~~~~~lr~~i-~~v~Q~~~lf~~Ti  108 (255)
T d2hyda1          32 PILKDINLSIEKGETVAFVGMSGGGKSTLINLIPRFY--DVTSGQILIDGHNIKDFLTGSLRNQI-GLVQQDNILFSDTV  108 (255)
T ss_dssp             CSEEEEEEEECTTCEEEEECSTTSSHHHHHTTTTTSS--CCSEEEEEETTEEGGGSCHHHHHHTE-EEECSSCCCCSSBH
T ss_pred             cceeceEEEEcCCCEEEEECCCCCcHHHHHHHHHhcC--CccccccccCCEEcccCCHHHhhhee-eeeeccccCCCCCH
Confidence            3466664568999999999999999999976444322  11122333322    34555544332 22111110      


Q ss_pred             -cccccC--CCCcchHHHHHHHHHH------HhCCC----eEEEc-CCCCCHHHHH--HHHHHHHHHcCCccEEEEcCcc
Q psy2892         272 -HKLRTG--RLSSDDWPRINDSIKK------INKSQ----LYIDE-TPSLNVIELR--ANSRRLSRQCGKIGVIIIDYLQ  335 (452)
Q Consensus       272 -~~i~~g--~l~~~~~~~~~~a~~~------l~~~~----l~i~~-~~~~t~~~i~--~~i~~~~~~~~~~~~vvID~l~  335 (452)
                       +.+.-|  ..++++   +.++.+.      +...+    -.+.+ ...+|-.+-.  +.+|.+.+   +++++|+|-..
T Consensus       109 ~eNi~~g~~~~~~~~---~~~al~~~~l~~~i~~lp~gl~t~i~~~g~~LSgGq~QRi~iARal~~---~p~ililDEpt  182 (255)
T d2hyda1         109 KENILLGRPTATDEE---VVEAAKMANAHDFIMNLPQGYDTEVGERGVKLSGGQKQRLSIARIFLN---NPPILILDEAT  182 (255)
T ss_dssp             HHHHGGGCSSCCHHH---HHHHHHHTTCHHHHHTSTTGGGCBCCGGGTTSCHHHHHHHHHHHHHHH---CCSEEEEESTT
T ss_pred             HHHHhccCcCCCHHH---HHHHHHHhCCHHHHHhccccccchhcCCCCCcCHHHHHHHHHHHHHhc---CCCEEEEeCcc
Confidence             001111  223333   3333322      22222    12222 2346655433  34444433   49999999854


Q ss_pred             hhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEEecCCcchhhcCCCCCCchhhhhhchhhhhhceeEEEecC
Q psy2892         336 LMSANSRGENRATEISEISRNLKGLAKEINCPILALSQLNRSLEQRQNKRPIMSDLRESGAIEQDADVILFIYRD  410 (452)
Q Consensus       336 ~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l~ql~r~~~~r~~~~p~l~dl~~S~~ie~~aD~vl~l~r~  410 (452)
                      .-      -+.. .-..+...|+.+.+  +.+||+++|--.                   .+ ..||.|++|..-
T Consensus       183 s~------LD~~-t~~~i~~~l~~l~~--~~TvI~itH~~~-------------------~~-~~~D~ii~l~~G  228 (255)
T d2hyda1         183 SA------LDLE-SESIIQEALDVLSK--DRTTLIVAHRLS-------------------TI-THADKIVVIENG  228 (255)
T ss_dssp             TT------CCHH-HHHHHHHHHHHHTT--TSEEEEECSSGG-------------------GT-TTCSEEEEEETT
T ss_pred             cc------CCHH-HHHHHHHHHHHHhc--CCEEEEEeCCHH-------------------HH-HhCCEEEEEECC
Confidence            32      2222 23466777777765  678888887211                   23 348999999654

>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=94.91  E-value=0.0074  Score=50.22  Aligned_cols=22  Identities=32%  Similarity=0.428  Sum_probs=19.6

Q ss_pred             EEEEeCCCCChhHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++|.|+||+||||.|..+|.+.
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6789999999999999888765

>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=94.83  E-value=0.0087  Score=51.07  Aligned_cols=26  Identities=23%  Similarity=0.335  Sum_probs=22.6

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .|.+++|+||+|+|||++...++...
T Consensus         1 ~G~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           1 QGTLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhhC
Confidence            37899999999999999998877653

>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=94.78  E-value=0.019  Score=51.60  Aligned_cols=48  Identities=17%  Similarity=0.104  Sum_probs=34.2

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhC---CCcEEEEeCCCC-HHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIEN---KLPVAIFSMEMS-GIQLAMRMLG  264 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~---g~~vl~~s~E~~-~~~i~~R~~a  264 (452)
                      .+|.|+||+|||+.+++-+..++...   ..+|++++.--. ..++..|+..
T Consensus        17 ~lI~g~aGTGKTt~l~~rv~~ll~~~~~~~~~ILvlt~tn~a~~~i~~~~~~   68 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQ   68 (306)
T ss_dssp             EEECCCTTSCHHHHHHHHHHHHHHHHCCCGGGEEEEESSHHHHHHHHHHHHH
T ss_pred             EEEEeeCCccHHHHHHHHHHHHHHhcCCChhHEEEEeCcHHHHHHHHHHHHH
Confidence            56779999999999988777765432   357999988644 3445566644

>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=94.78  E-value=0.0084  Score=50.47  Aligned_cols=32  Identities=22%  Similarity=0.275  Sum_probs=25.1

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      -.+++|.|+||+||||+|..++.+.      ...|+|.
T Consensus         8 ~~iI~i~GppGSGKsT~a~~La~~~------g~~~is~   39 (196)
T d1ukza_           8 VSVIFVLGGPGAGKGTQCEKLVKDY------SFVHLSA   39 (196)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHS------SCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh------CCeEEeh
Confidence            3478899999999999999887543      3566775

>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=94.75  E-value=0.0085  Score=49.24  Aligned_cols=30  Identities=13%  Similarity=0.242  Sum_probs=23.4

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      .+++.|+||+||||++..+|...    |.+  |++.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~L----g~~--~id~   33 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARAL----GYE--FVDT   33 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHH----TCE--EEEH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh----CCC--EEeh
Confidence            36778999999999999998765    454  5554

>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=94.73  E-value=0.0091  Score=51.05  Aligned_cols=23  Identities=22%  Similarity=0.456  Sum_probs=21.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +++|.||||+||||.|..++-+.
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            78999999999999999998876

>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=94.68  E-value=0.0094  Score=48.73  Aligned_cols=22  Identities=18%  Similarity=0.502  Sum_probs=18.7

Q ss_pred             EEEEeCCCCChhHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +++.|+||+||||++..+|...
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            4566999999999999998765

>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=94.64  E-value=0.0095  Score=49.47  Aligned_cols=22  Identities=27%  Similarity=0.545  Sum_probs=18.9

Q ss_pred             EEEEeCCCCChhHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++|.|+||+||||++..++...
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5677999999999999998654

>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=94.64  E-value=0.0089  Score=50.24  Aligned_cols=30  Identities=27%  Similarity=0.393  Sum_probs=22.9

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      -++|.|+||+||||++..+|.+.    |  ..++|.
T Consensus         8 rIiliG~PGSGKtT~a~~La~~~----g--~~~is~   37 (189)
T d2ak3a1           8 RAAIMGAPGSGKGTVSSRITKHF----E--LKHLSS   37 (189)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHB----C--CEEEEH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH----C--CeEEcH
Confidence            36677999999999999888643    3  455655

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=94.63  E-value=0.017  Score=52.47  Aligned_cols=46  Identities=11%  Similarity=0.168  Sum_probs=31.9

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhCC---CcEEEEeCCCCHH-HHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIENK---LPVAIFSMEMSGI-QLAMRM  262 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~g---~~vl~~s~E~~~~-~i~~R~  262 (452)
                      ++|.|+||+|||+.+++-+..+....+   .++++++.--+.. ++..|+
T Consensus        27 ~lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~t~~aa~~~~~~~   76 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTNKAAREMRERV   76 (318)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESSHHHHHHHHHHH
T ss_pred             EEEEecCCccHHHHHHHHHHHHHHcCCCCHHHeEeEeccHHHHHHHHHHH
Confidence            567799999999999987777654322   4799998765432 344444

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=94.62  E-value=0.094  Score=42.11  Aligned_cols=37  Identities=22%  Similarity=0.296  Sum_probs=30.4

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +| ++.|.=.+|=||||-|+-+|+.++ ..|.+|+++.+
T Consensus         2 kG-~i~vytG~GKGKTTAAlG~alRA~-G~G~rV~ivQF   38 (157)
T d1g5ta_           2 RG-IIIVFTGNGKGKTTAAFGTAARAV-GHGKNVGVVQF   38 (157)
T ss_dssp             CC-CEEEEESSSSCHHHHHHHHHHHHH-HTTCCEEEEES
T ss_pred             Cc-EEEEEeCCCCCcHHHHHHHHHHHh-cCCCEEEEEEE
Confidence            45 455555679999999999999997 68999999865

>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=94.61  E-value=0.097  Score=43.93  Aligned_cols=25  Identities=24%  Similarity=0.284  Sum_probs=21.6

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +.-+++.|+||+|||++|..++...
T Consensus        15 ~~~~l~~G~~g~gk~~~a~~l~~~i   39 (198)
T d2gnoa2          15 GISILINGEDLSYPREVSLELPEYV   39 (198)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHH
Confidence            4478999999999999999988654

>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=94.56  E-value=0.011  Score=49.00  Aligned_cols=22  Identities=36%  Similarity=0.419  Sum_probs=19.0

Q ss_pred             EEEEeCCCCChhHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++|.|+||+||||.+..++-+.
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999998888654

>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=94.50  E-value=0.01  Score=51.39  Aligned_cols=37  Identities=22%  Similarity=0.311  Sum_probs=27.1

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHh-CCCcEEEEeCCC
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIE-NKLPVAIFSMEM  253 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~-~g~~vl~~s~E~  253 (452)
                      ++|.||||+|||+++.-+|..+... .+..++.++...
T Consensus        48 lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~   85 (231)
T d1iqpa2          48 LLFAGPPGVGKTTAALALARELFGENWRHNFLELNASD   85 (231)
T ss_dssp             EEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTC
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCc
Confidence            7899999999999999988876321 124566666543

>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=94.40  E-value=0.012  Score=47.97  Aligned_cols=22  Identities=18%  Similarity=0.404  Sum_probs=19.2

Q ss_pred             EEEEeCCCCChhHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++|.|+||+||||++.-+|...
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            5667999999999999988775

>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=94.34  E-value=0.011  Score=52.87  Aligned_cols=36  Identities=11%  Similarity=0.227  Sum_probs=28.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ++.|+|++|+|||||+..+...+- ..+.+++.++.+
T Consensus         6 IIgIaG~SGSGKTTva~~l~~i~~-~~~v~~~iI~~D   41 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQIFR-REGVKAVSIEGD   41 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHH-HHTCCEEEEEGG
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHh-hcCCCeEEEeCC
Confidence            799999999999999999887774 357888888887

>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=94.27  E-value=0.013  Score=50.07  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++.|.||||+||||.|..+|.++
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            45688999999999999999876

>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=94.24  E-value=0.01  Score=51.83  Aligned_cols=23  Identities=22%  Similarity=0.338  Sum_probs=21.0

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      ++|.||||+|||+++..+|....
T Consensus        36 lll~Gp~G~GKTt~~~~la~~l~   58 (252)
T d1sxje2          36 LLLYGPNGTGKKTRCMALLESIF   58 (252)
T ss_dssp             EEEECSTTSSHHHHHHTHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHhhc
Confidence            78999999999999999998763

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=94.16  E-value=0.092  Score=44.36  Aligned_cols=113  Identities=17%  Similarity=0.100  Sum_probs=57.5

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH-HHhCCCcEEEEeCC-CCHHHHHHHHHHHhCCCCccc-cccCCCCcchHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI-AIENKLPVAIFSME-MSGIQLAMRMLGSVGKLDQHK-LRTGRLSSDDWPRINDSIK  292 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~-a~~~g~~vl~~s~E-~~~~~i~~R~~a~~~~i~~~~-i~~g~l~~~~~~~~~~a~~  292 (452)
                      -+++.+++|+|||....-.+... ....+..++++..- .-..++...+.....+.+... ...|..+..+      -.+
T Consensus        44 d~iv~a~TGsGKT~~~~l~~~~~~~~~~~~~~lil~pt~~l~~q~~~~~~~~~~~~~~~v~~~~g~~~~~~------~~~  117 (208)
T d1hv8a1          44 NIVAQARTGSGKTASFAIPLIELVNENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYP------QIK  117 (208)
T ss_dssp             EEEEECCSSSSHHHHHHHHHHHHSCSSSSCCEEEECSCHHHHHHHHHHHHHHHCSSCCCEEEECTTSCHHH------HHH
T ss_pred             CeeeechhcccccceeecccccccccccCcceEEEeeccccchhhhhhhhhhcccCCeEEEEeeCCCChHH------HHH
Confidence            57888999999997554444332 22345567776432 223344333333322222221 1223322211      112


Q ss_pred             HHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         293 KINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       293 ~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      .+.+..+.|.     |++.+...+++-.-...+++++|||-...|..
T Consensus       118 ~l~~~~IlV~-----TP~~l~~~l~~~~~~~~~l~~lViDEad~l~~  159 (208)
T d1hv8a1         118 ALKNANIVVG-----TPGRILDHINRGTLNLKNVKYFILDEADEMLN  159 (208)
T ss_dssp             HHHTCSEEEE-----CHHHHHHHHHTTCSCTTSCCEEEEETHHHHHT
T ss_pred             hcCCCCEEEE-----ChHHHHHHHHcCCCCcccCcEEEEEChHHhhc
Confidence            3445566664     45555554432111112588999999998765

>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=94.01  E-value=0.012  Score=55.68  Aligned_cols=42  Identities=19%  Similarity=0.250  Sum_probs=32.7

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      .++.+++|+||+|+||||.+..+..... ..+.+  +++.|.+.+
T Consensus       156 ~~~GliLvtGpTGSGKSTTl~~~l~~~~-~~~~~--i~tiEdPiE  197 (401)
T d1p9ra_         156 RPHGIILVTGPTGSGKSTTLYAGLQELN-SSERN--ILTVEDPIE  197 (401)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHC-CTTSC--EEEEESSCC
T ss_pred             hhhceEEEEcCCCCCccHHHHHHhhhhc-CCCce--EEEeccCcc
Confidence            4566999999999999999999887763 23344  478998865

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=93.94  E-value=0.016  Score=46.39  Aligned_cols=21  Identities=24%  Similarity=0.362  Sum_probs=18.3

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ++|.|+||+|||+|+..++.+
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999987643

>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=93.92  E-value=0.011  Score=51.03  Aligned_cols=26  Identities=19%  Similarity=0.386  Sum_probs=23.7

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAI  240 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~  240 (452)
                      ++++|.||..+|||+++.+++.....
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~il   61 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIALL   61 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHHHHHH
Confidence            48999999999999999999998755

>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=93.86  E-value=0.037  Score=46.59  Aligned_cols=35  Identities=20%  Similarity=0.304  Sum_probs=30.0

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +++|.|..|+||||++-.++..+. ..|.+|.++..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~-~~g~~v~~~~~   36 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFR-AAGRSVATLAF   36 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH-HTTCCEEEEES
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH-HCCCCEEEEec
Confidence            688999999999999999998774 46889988754

>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=93.76  E-value=0.018  Score=49.76  Aligned_cols=23  Identities=26%  Similarity=0.483  Sum_probs=20.7

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      +++.||||+|||+++..++....
T Consensus        36 lll~Gp~G~GKTtl~~~i~~~l~   58 (237)
T d1sxjd2          36 MLFYGPPGTGKTSTILALTKELY   58 (237)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHHHHc
Confidence            78999999999999999998763

>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=93.76  E-value=0.039  Score=46.72  Aligned_cols=33  Identities=18%  Similarity=0.073  Sum_probs=24.9

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      .-.+|.+++|+|||..++.++.    +.+.+++++..
T Consensus        86 ~~~ll~~~tG~GKT~~a~~~~~----~~~~~~Liv~p  118 (206)
T d2fz4a1          86 KRGCIVLPTGSGKTHVAMAAIN----ELSTPTLIVVP  118 (206)
T ss_dssp             SEEEEEESSSTTHHHHHHHHHH----HSCSCEEEEES
T ss_pred             CCcEEEeCCCCCceehHHhHHH----HhcCceeEEEc
Confidence            3467889999999988776553    34678999875

>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=93.69  E-value=0.019  Score=49.37  Aligned_cols=23  Identities=26%  Similarity=0.540  Sum_probs=20.6

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      +++.||||+|||++|.-++..+.
T Consensus        39 ~ll~Gp~G~GKTt~a~~la~~l~   61 (224)
T d1sxjb2          39 MIISGMPGIGKTTSVHCLAHELL   61 (224)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCchhhHHHHHHHHh
Confidence            68999999999999999987764

>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=93.64  E-value=0.021  Score=46.20  Aligned_cols=29  Identities=17%  Similarity=0.282  Sum_probs=26.1

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      .++|+++.+.|.=|+|||+|+..++..+.
T Consensus        30 ~~~g~ii~L~G~LGaGKTtfvr~~~~~lg   58 (158)
T d1htwa_          30 TEKAIMVYLNGDLGAGKTTLTRGMLQGIG   58 (158)
T ss_dssp             CSSCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCCCeEEEEecCCCccHHHHHHHHHhhcc
Confidence            56899999999999999999999997764

>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=93.43  E-value=0.021  Score=48.97  Aligned_cols=23  Identities=26%  Similarity=0.485  Sum_probs=20.5

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIA  239 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a  239 (452)
                      +++.||||+|||+++.-+|..+.
T Consensus        38 lLl~Gp~G~GKttl~~~la~~l~   60 (227)
T d1sxjc2          38 LLFYGPPGTGKTSTIVALAREIY   60 (227)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCChhHHHHHHHHHhh
Confidence            67999999999999999998763

>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=93.18  E-value=0.047  Score=50.52  Aligned_cols=39  Identities=13%  Similarity=0.250  Sum_probs=29.5

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHH---hCCCcEEEEeCC
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAI---ENKLPVAIFSME  252 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~---~~g~~vl~~s~E  252 (452)
                      +.+++|.|+||+|||+.+..+...+..   ..+.+|+..+.-
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApT  204 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPT  204 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSS
T ss_pred             CCeEEEEcCCCCCceehHHHHHHHHHHHHhccCCeEEEecCc
Confidence            459999999999999998877655532   246678877653

>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=93.17  E-value=0.16  Score=44.87  Aligned_cols=48  Identities=8%  Similarity=0.039  Sum_probs=31.4

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHH--hC-CCcEEEEeC--CCCHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAI--EN-KLPVAIFSM--EMSGIQLAMRM  262 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~--~~-g~~vl~~s~--E~~~~~i~~R~  262 (452)
                      .++.|.|.+|+|||++|.+++.+...  +. -..+.|++.  ..+...+...+
T Consensus        45 ~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~   97 (277)
T d2a5yb3          45 FFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFT   97 (277)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCHHHHHHHH
Confidence            47899999999999999998876321  11 134666643  44444444443

>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=93.12  E-value=0.027  Score=47.11  Aligned_cols=23  Identities=13%  Similarity=0.300  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .++|.||||+|||+++..++...
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            37899999999999998887765

>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=93.11  E-value=0.026  Score=47.04  Aligned_cols=23  Identities=17%  Similarity=0.330  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      .++|.||||+|||+++..++...
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHC
T ss_pred             eEEEECCCCCCHHHHHHHHHHhC
Confidence            48999999999999999887654

>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=93.06  E-value=0.046  Score=49.64  Aligned_cols=26  Identities=23%  Similarity=0.503  Sum_probs=22.0

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      |...++++||||+|||.+|..+|...
T Consensus        51 p~~~~lf~Gp~GvGKT~lak~la~~l   76 (315)
T d1r6bx3          51 PVGSFLFAGPTGVGKTEVTVQLSKAL   76 (315)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CceEEEEECCCcchhHHHHHHHHhhc
Confidence            34468899999999999999998754

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

Probab=92.86  E-value=0.23  Score=41.41  Aligned_cols=33  Identities=15%  Similarity=-0.039  Sum_probs=22.1

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      .=+++.+|+|+|||.... +..   ...+.+++|+.-
T Consensus        41 ~~vlv~apTGsGKT~~~~-~~~---~~~~~~~~~v~P   73 (206)
T d1oywa2          41 RDCLVVMPTGGGKSLCYQ-IPA---LLLNGLTVVVSP   73 (206)
T ss_dssp             CCEEEECSCHHHHHHHHH-HHH---HHSSSEEEEECS
T ss_pred             CCEEEEcCCCCCCcchhh-hhh---hhccCceEEecc
Confidence            347889999999996543 222   235677777754

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=92.85  E-value=0.088  Score=45.35  Aligned_cols=130  Identities=18%  Similarity=0.202  Sum_probs=76.0

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCC-HHHHHHHHHHHhCCCCccc-cccCCCCcchHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMS-GIQLAMRMLGSVGKLDQHK-LRTGRLSSDDWPRINDSIKK  293 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~-~~~i~~R~~a~~~~i~~~~-i~~g~l~~~~~~~~~~a~~~  293 (452)
                      ..+|.|.+|+|||.+++..+..++ .+|+.|++...|.. ..|...++-....+++..- +..+..+..+...+   ...
T Consensus        78 ~~LL~GdvGsGKT~V~~~a~~~~~-~~g~qv~~l~Pt~~La~Q~~~~~~~~~~~~~~~v~~l~~~~~~~~~~~~---~~~  153 (233)
T d2eyqa3          78 DRLVCGDVGFGKTEVAMRAAFLAV-DNHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQI---LAE  153 (233)
T ss_dssp             EEEEECCCCTTTHHHHHHHHHHHH-TTTCEEEEECSSHHHHHHHHHHHHHHSTTTTCCEEEESTTSCHHHHHHH---HHH
T ss_pred             CeEEEcCCCCCcHHHHHHHHHHHH-HcCCceEEEccHHHhHHHHHHHHHHHHhhCCCEEEeccCcccchhHHHH---HHH
Confidence            689999999999999999999886 57899999876643 4566666665544443321 33455555444332   222


Q ss_pred             HhCC--CeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEE
Q psy2892         294 INKS--QLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNLKGLAKEINCPILAL  371 (452)
Q Consensus       294 l~~~--~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~Lk~lA~~~~i~vi~l  371 (452)
                      +...  .+.|= +.        +.+... -.+.+.++||||-=+....       .+.  +   .|+  ++..++++++.
T Consensus       154 ~~~g~~~iviG-th--------s~l~~~-~~f~~LgLiIiDEeH~fg~-------kQ~--~---~l~--~~~~~~~~l~~  209 (233)
T d2eyqa3         154 VAEGKIDILIG-TH--------KLLQSD-VKFKDLGLLIVDEEHRFGV-------RHK--E---RIK--AMRANVDILTL  209 (233)
T ss_dssp             HHTTCCSEEEE-CT--------HHHHSC-CCCSSEEEEEEESGGGSCH-------HHH--H---HHH--HHHTTSEEEEE
T ss_pred             HhCCCCCEEEe-eh--------hhhccC-Cccccccceeeechhhhhh-------HHH--H---HHH--hhCCCCCEEEE
Confidence            3333  34442 21        111000 0122588999999664332       111  1   222  34578898887


Q ss_pred             ec
Q psy2892         372 SQ  373 (452)
Q Consensus       372 ~q  373 (452)
                      +-
T Consensus       210 SA  211 (233)
T d2eyqa3         210 TA  211 (233)
T ss_dssp             ES
T ss_pred             ec
Confidence            63

>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=92.58  E-value=0.036  Score=45.85  Aligned_cols=23  Identities=9%  Similarity=0.267  Sum_probs=19.9

Q ss_pred             cEEEEEeCCCCChhHHHHHHHHH
Q psy2892         215 DLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       215 ~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .+++|.||+|+|||+++..++..
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHh
Confidence            47999999999999999877654

>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=92.57  E-value=0.035  Score=46.30  Aligned_cols=19  Identities=37%  Similarity=0.621  Sum_probs=17.7

Q ss_pred             EEEEeCCCCChhHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia  235 (452)
                      +.|.|+||+|||||...+.
T Consensus        26 I~lvG~~n~GKSTLin~L~   44 (195)
T d1svia_          26 IALAGRSNVGKSSFINSLI   44 (195)
T ss_dssp             EEEEEBTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHhc
Confidence            8999999999999998886

>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=92.56  E-value=0.031  Score=44.92  Aligned_cols=20  Identities=25%  Similarity=0.403  Sum_probs=17.8

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++|.|+||+|||+|...+..
T Consensus         8 I~ivG~~~vGKSSLi~~~~~   27 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQV   27 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            78999999999999988754

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=92.49  E-value=0.033  Score=45.46  Aligned_cols=19  Identities=26%  Similarity=0.494  Sum_probs=16.9

Q ss_pred             EEEEeCCCCChhHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia  235 (452)
                      ++|.|.||+|||+|+.++.
T Consensus        18 I~vvG~~~~GKSsLi~rl~   36 (177)
T d1zj6a1          18 VIIVGLDNAGKTTILYQFS   36 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            7899999999999998764

>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=92.48  E-value=0.98  Score=38.78  Aligned_cols=46  Identities=13%  Similarity=0.296  Sum_probs=30.7

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC-CCCHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM-EMSGIQLAMRML  263 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~-E~~~~~i~~R~~  263 (452)
                      ++|.|++|+|||.+|..+..... ....+...+.+ .++.......+.
T Consensus        26 vlI~Ge~GtGK~~~A~~ih~~s~-~~~~~~~~~~~~~~~~~~~~~~lf   72 (247)
T d1ny5a2          26 VLITGESGVGKEVVARLIHKLSD-RSKEPFVALNVASIPRDIFEAELF   72 (247)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHST-TTTSCEEEEETTTSCHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHHhcC-CcccccccchhhhhhhcccHHHhc
Confidence            78899999999999987765432 23344444544 566666666654

>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=92.47  E-value=0.046  Score=49.63  Aligned_cols=39  Identities=15%  Similarity=0.313  Sum_probs=29.0

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM  251 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~  251 (452)
                      +|...++++||||+|||.+|..+|..+. ..+.+++.+.+
T Consensus        51 kp~~~~lf~Gp~G~GKt~lak~la~~l~-~~~~~~~~~~~   89 (315)
T d1qvra3          51 RPIGSFLFLGPTGVGKTELAKTLAATLF-DTEEAMIRIDM   89 (315)
T ss_dssp             SCSEEEEEBSCSSSSHHHHHHHHHHHHH-SSGGGEEEECT
T ss_pred             CCceEEEEECCCcchHHHHHHHHHHHhc-CCCcceEEEec
Confidence            3444788999999999999999998874 34455555543

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.46  E-value=0.099  Score=44.74  Aligned_cols=129  Identities=19%  Similarity=0.255  Sum_probs=62.3

Q ss_pred             CCcEEEEEeCCCCChhH-HHHHHHHHHHHh-CCCcEEEEeC-CCCHHHHHHHHHHHh--CCCCccccccCCCCcchHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTA-FSLNIGEHIAIE-NKLPVAIFSM-EMSGIQLAMRMLGSV--GKLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~-~~l~ia~~~a~~-~g~~vl~~s~-E~~~~~i~~R~~a~~--~~i~~~~i~~g~l~~~~~~~~  287 (452)
                      .|.=+++.|++|+|||. |++-+..++... .+..++++.. -.-..++...+....  .++....+. |..+..+    
T Consensus        53 ~g~dvi~~a~TGSGKTlayllPil~~l~~~~~~~~~lil~PtreLa~Qi~~~~~~l~~~~~i~~~~~~-g~~~~~~----  127 (222)
T d2j0sa1          53 KGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACI-GGTNVGE----  127 (222)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHHHHTCCTTSCSCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEEC-TTSCHHH----
T ss_pred             CCCCeEEEcCcchhhhhhhcccccccccccccCceeEEecchHHHHHHHHHHHHHHhCccceeEEEEe-ecccchh----
Confidence            35568899999999994 555555544222 2234555532 222233333332222  222222222 2222211    


Q ss_pred             HHHHHHHh-CCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHH
Q psy2892         288 NDSIKKIN-KSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNL  357 (452)
Q Consensus       288 ~~a~~~l~-~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~L  357 (452)
                        ....+. +..+.+.     |+..+...+..-.....+++++|+|-...|...+    ....+..+.+.+
T Consensus       128 --~~~~l~~~~~Ilv~-----TPgrl~~~~~~~~~~~~~l~~lVlDEaD~ll~~~----f~~~i~~I~~~l  187 (222)
T d2j0sa1         128 --DIRKLDYGQHVVAG-----TPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKG----FKEQIYDVYRYL  187 (222)
T ss_dssp             --HHHHHHHCCSEEEE-----CHHHHHHHHHTTSSCCTTCCEEEEETHHHHTSTT----THHHHHHHHTTS
T ss_pred             --hHHHhccCCeEEeC-----CCCcHHhcccccccccccceeeeecchhHhhhcC----cHHHHHHHHHhC
Confidence              112233 2345553     4556655443322112258899999999887532    233444554443

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.28  E-value=0.18  Score=42.68  Aligned_cols=130  Identities=17%  Similarity=0.186  Sum_probs=61.3

Q ss_pred             CCcEEEEEeCCCCChhH-HHHHHHHHHHHh-CCCcEEEEeC-CCCHHHHHHHHHHHhCCCCccccc-cCCCCcchHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTA-FSLNIGEHIAIE-NKLPVAIFSM-EMSGIQLAMRMLGSVGKLDQHKLR-TGRLSSDDWPRIN  288 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~-~~l~ia~~~a~~-~g~~vl~~s~-E~~~~~i~~R~~a~~~~i~~~~i~-~g~l~~~~~~~~~  288 (452)
                      .|.=+++.+++|+|||. +++-+..+.... .+..++++.. -....++................. .+.-+..      
T Consensus        46 ~g~dvl~~a~TGsGKT~a~~lp~i~~l~~~~~~~~~lil~pt~el~~q~~~~~~~~~~~~~~~~~~~~~~~~~~------  119 (212)
T d1qdea_          46 EGHDVLAQAQSGTGKTGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFV------  119 (212)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHHHHHCCTTCCSCCEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEECC-----------
T ss_pred             cCCCEEeecccccchhhhhHhhhHhhhhccCCCcceEEEcccHHHhhhhhhhhcccccccccceeeEeeccchh------
Confidence            45669999999999994 454444443211 2345555532 222333444433332222211111 1111100      


Q ss_pred             HHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHH
Q psy2892         289 DSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNL  357 (452)
Q Consensus       289 ~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~L  357 (452)
                      .-...+++..+.|.     |++.+...++.-.....+++.+|||....+...+    ....+..+.+.+
T Consensus       120 ~~~~~~~~~~IvI~-----TP~~l~~~~~~~~~~l~~l~~lVlDEad~lld~~----f~~~v~~I~~~~  179 (212)
T d1qdea_         120 EDAEGLRDAQIVVG-----TPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSG----FKEQIYQIFTLL  179 (212)
T ss_dssp             -----CTTCSEEEE-----CHHHHHHHHHTTSSCCTTCCEEEEETHHHHHHTT----CHHHHHHHHHHS
T ss_pred             HHHHHhcCCcEEEE-----CCCccccccccCceecCcceEEeehhhhhhcccc----hHHHHHHHHHhC
Confidence            01112334455553     4566665443321111258999999999887642    233444444443

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=92.18  E-value=0.058  Score=44.53  Aligned_cols=42  Identities=19%  Similarity=0.231  Sum_probs=27.6

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCH-HHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSG-IQLAMRM  262 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~-~~i~~R~  262 (452)
                      +++|.|...+|||.||-+++     ..+.+++|+.+=... .++..|+
T Consensus         1 iiLVtGGarSGKS~~AE~l~-----~~~~~~~YiAT~~~~D~em~~RI   43 (180)
T d1c9ka_           1 MILVTGGARSGKSRHAEALI-----GDAPQVLYIATSQILDDEMAARI   43 (180)
T ss_dssp             CEEEEECTTSSHHHHHHHHH-----CSCSSEEEEECCCC------CHH
T ss_pred             CEEEECCCCccHHHHHHHHH-----hcCCCcEEEEccCCCCHHHHHHH
Confidence            57999999999999998764     245689998653332 3344444

>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=92.12  E-value=0.068  Score=50.48  Aligned_cols=35  Identities=14%  Similarity=0.203  Sum_probs=28.5

Q ss_pred             EEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      ++|.|.||+|||+++..++.++.. .|.++++++..
T Consensus        53 ~~I~G~tGsGKT~~l~~li~~~~~-~g~~~iiiD~k   87 (433)
T d1e9ra_          53 LLVNGATGTGKSVLLRELAYTGLL-RGDRMVIVDPN   87 (433)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHH-TTCEEEEEEET
T ss_pred             EEEEeCCCCcHHHHHHHHHHHHHh-CCCCEEEEeCC
Confidence            789999999999998888888764 67777777554

>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=92.00  E-value=0.04  Score=43.88  Aligned_cols=19  Identities=21%  Similarity=0.331  Sum_probs=16.6

Q ss_pred             EEEEeCCCCChhHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia  235 (452)
                      +++.|+||+|||+|+..+.
T Consensus         3 I~liG~~nvGKSSLln~l~   21 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLK   21 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            5789999999999998754

>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=91.89  E-value=0.047  Score=44.95  Aligned_cols=24  Identities=25%  Similarity=0.493  Sum_probs=20.3

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .|.=++|.|++|+|||++++.++.
T Consensus        14 ~g~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          14 FGVGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHH
Confidence            355689999999999999988764

>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=91.88  E-value=0.046  Score=46.86  Aligned_cols=23  Identities=26%  Similarity=0.452  Sum_probs=20.2

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia  235 (452)
                      +|..+++.|+||+|||||.-.+.
T Consensus        94 ~~kt~~~~G~SGVGKSTLiN~L~  116 (225)
T d1u0la2          94 KGKISTMAGLSGVGKSSLLNAIN  116 (225)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHS
T ss_pred             cCCeEEEECCCCCCHHHHHHhhc
Confidence            57899999999999999987654

>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=91.87  E-value=0.042  Score=44.41  Aligned_cols=20  Identities=20%  Similarity=0.443  Sum_probs=17.7

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +++.|.||+|||+|+..+..
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999988764

>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=91.73  E-value=0.044  Score=44.60  Aligned_cols=20  Identities=25%  Similarity=0.627  Sum_probs=17.8

Q ss_pred             EEEEEeCCCCChhHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia  235 (452)
                      .++|.|+||+|||+|...++
T Consensus         2 ~V~liG~~n~GKSsLi~~L~   21 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLV   21 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47899999999999998875

>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=91.58  E-value=0.048  Score=45.31  Aligned_cols=27  Identities=22%  Similarity=0.297  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEE
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVA  247 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl  247 (452)
                      ++.|+|.+|+||||+|-.+     .+.|.+|+
T Consensus         5 IIgitG~~gSGKstva~~l-----~~~g~~~~   31 (191)
T d1uf9a_           5 IIGITGNIGSGKSTVAALL-----RSWGYPVL   31 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHH-----HHTTCCEE
T ss_pred             EEEEECCCCCCHHHHHHHH-----HHCCCeEE
Confidence            5668999999999998654     23577664

>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=91.53  E-value=0.052  Score=44.62  Aligned_cols=23  Identities=22%  Similarity=0.476  Sum_probs=19.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      |.-++|.|+||+|||++++.++.
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~   36 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQ   36 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHH
Confidence            45689999999999999987664

>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=91.42  E-value=0.043  Score=44.80  Aligned_cols=20  Identities=20%  Similarity=0.285  Sum_probs=16.9

Q ss_pred             EEEEEeCCCCChhHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia  235 (452)
                      =++|.|+||+|||+|...+.
T Consensus        15 kI~lvG~~~vGKTsLl~~l~   34 (186)
T d1f6ba_          15 KLVFLGLDNAGKTTLLHMLK   34 (186)
T ss_dssp             EEEEEEETTSSHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47899999999999987653

>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=91.31  E-value=0.056  Score=44.14  Aligned_cols=24  Identities=21%  Similarity=0.469  Sum_probs=20.2

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      |.=++|.|+||+|||++++.++.+
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc
Confidence            456899999999999999877653

>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=91.30  E-value=0.052  Score=43.89  Aligned_cols=21  Identities=24%  Similarity=0.415  Sum_probs=18.3

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ++|.|.||+|||+|+.++...
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999988753

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.26  E-value=0.052  Score=44.30  Aligned_cols=20  Identities=25%  Similarity=0.551  Sum_probs=17.5

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++|.|.||+|||+|+..+..
T Consensus         6 ivvvG~~~vGKTsli~r~~~   25 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTD   25 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            67899999999999988764

>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=91.18  E-value=0.057  Score=43.21  Aligned_cols=19  Identities=32%  Similarity=0.756  Sum_probs=16.6

Q ss_pred             EEEEeCCCCChhHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia  235 (452)
                      +++.|+||+|||+|..++.
T Consensus         4 I~lvG~~nvGKSsLin~l~   22 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALA   22 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6899999999999987665

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.18  E-value=0.054  Score=43.81  Aligned_cols=20  Identities=25%  Similarity=0.542  Sum_probs=17.8

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +++.|.+|+|||+|+..++.
T Consensus         6 i~lvG~~~vGKTsLi~r~~~   25 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVT   25 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67889999999999998764

>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=91.15  E-value=0.054  Score=44.17  Aligned_cols=20  Identities=20%  Similarity=0.345  Sum_probs=18.2

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +++.|.||+|||+|+.++..
T Consensus         9 I~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            78999999999999988875

>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=91.14  E-value=0.057  Score=43.63  Aligned_cols=21  Identities=24%  Similarity=0.599  Sum_probs=18.3

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++.|.+|+|||+|+.++..+
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678899999999999988753

>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=91.13  E-value=0.051  Score=49.50  Aligned_cols=39  Identities=28%  Similarity=0.349  Sum_probs=27.7

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCCCHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEMSGI  256 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~~~~  256 (452)
                      |.-++|+|++|+|||||+..++..+  ..+.+++.+  |.+.+
T Consensus       166 ~~nili~G~tgSGKTT~l~al~~~i--~~~~rivti--Ed~~E  204 (323)
T d1g6oa_         166 GKNVIVCGGTGSGKTTYIKSIMEFI--PKEERIISI--EDTEE  204 (323)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGS--CTTCCEEEE--ESSCC
T ss_pred             CCCEEEEeeccccchHHHHHHhhhc--ccccceeec--cchhh
Confidence            3348999999999999997776544  345676654  65543

>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=90.94  E-value=0.058  Score=44.44  Aligned_cols=20  Identities=25%  Similarity=0.439  Sum_probs=17.7

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +++.|.||+|||+|+..+..
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            68999999999999988754

>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=90.91  E-value=0.056  Score=43.52  Aligned_cols=18  Identities=22%  Similarity=0.397  Sum_probs=16.3

Q ss_pred             EEEEeCCCCChhHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNI  234 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~i  234 (452)
                      ++|.|+||+|||+|...+
T Consensus         5 i~ivG~~~~GKTsLi~~l   22 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKF   22 (165)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            679999999999999875

>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=90.89  E-value=0.061  Score=43.38  Aligned_cols=20  Identities=30%  Similarity=0.391  Sum_probs=17.1

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +++.|++|+|||+|+.++..
T Consensus         5 i~i~G~~~~GKTsLl~~l~~   24 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIAS   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            56789999999999988753

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=90.84  E-value=0.035  Score=47.84  Aligned_cols=24  Identities=21%  Similarity=0.383  Sum_probs=20.3

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +|..+++.|+||+|||||.-.+.-
T Consensus        96 ~~~~~vl~G~SGVGKSSLiN~L~~  119 (231)
T d1t9ha2          96 QDKTTVFAGQSGVGKSSLLNAISP  119 (231)
T ss_dssp             TTSEEEEEESHHHHHHHHHHHHCC
T ss_pred             ccceEEEECCCCccHHHHHHhhcc
Confidence            567889999999999999876653

>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=90.82  E-value=0.075  Score=44.46  Aligned_cols=31  Identities=19%  Similarity=0.396  Sum_probs=26.4

Q ss_pred             cCCCCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         208 TSGLQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       208 ~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +.|.++...+++.|||++|||.|+..++.-.
T Consensus        47 l~~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          47 LKGTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHTCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HcCCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            4677888899999999999999998876653

>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=90.75  E-value=0.062  Score=43.72  Aligned_cols=20  Identities=25%  Similarity=0.451  Sum_probs=17.7

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++|.|+||+|||+|+.++..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            67899999999999998764

>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=90.53  E-value=0.07  Score=43.43  Aligned_cols=21  Identities=24%  Similarity=0.392  Sum_probs=18.4

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++.|.||+|||+|+.++...
T Consensus         8 I~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            789999999999999988653

>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=90.51  E-value=0.066  Score=44.83  Aligned_cols=21  Identities=33%  Similarity=0.430  Sum_probs=18.3

Q ss_pred             EEEEEeCCCCChhHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .++|.|+||+|||+|...+..
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~   25 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTT   25 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999877753

>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=90.50  E-value=0.07  Score=43.30  Aligned_cols=21  Identities=24%  Similarity=0.542  Sum_probs=18.5

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ++|.|.||+|||+|+..++..
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            788999999999999988753

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.49  E-value=0.069  Score=43.32  Aligned_cols=21  Identities=19%  Similarity=0.506  Sum_probs=18.3

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++.|.+|+|||+|+.++...
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            578899999999999998753

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.48  E-value=0.3  Score=40.90  Aligned_cols=129  Identities=12%  Similarity=0.177  Sum_probs=60.1

Q ss_pred             CcEEEEEeCCCCChh-HHHHHHHHHHHHh-CCCcEEEEeCC-CCHHHHHHHHHHHhC---CCCccccccCCCCcchHHHH
Q psy2892         214 GDLIIVAGRPSMGKT-AFSLNIGEHIAIE-NKLPVAIFSME-MSGIQLAMRMLGSVG---KLDQHKLRTGRLSSDDWPRI  287 (452)
Q Consensus       214 G~l~~i~g~pg~GKT-~~~l~ia~~~a~~-~g~~vl~~s~E-~~~~~i~~R~~a~~~---~i~~~~i~~g~l~~~~~~~~  287 (452)
                      |.=+++.|++|+||| +|++-+..+...+ .+..++.+..- .-..++..-+.....   ++.... ..|.....     
T Consensus        40 g~dvl~~a~TGsGKTlayllP~l~~~~~~~~~~~~lil~pt~el~~q~~~~~~~~~~~~~~~~~~~-~~g~~~~~-----  113 (206)
T d1veca_          40 GRDILARAKNGTGKSGAYLIPLLERLDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMA-TTGGTNLR-----  113 (206)
T ss_dssp             TCCEEEECCSSSTTHHHHHHHHHHHCCTTSCSCCEEEECSCHHHHHHHHHHHHHHTTTSSSCCEEE-ECSSSCHH-----
T ss_pred             CCCEEeeccCccccccccccchhhcccccccCcceEEEeecchhhHHHHHHHHHHhhcccCccccc-ccCCccHH-----
Confidence            455889999999999 4555555544322 23345554322 222333322222111   111111 11222111     


Q ss_pred             HHHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccCCCCCCHHHHHHHHHHHH
Q psy2892         288 NDSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSANSRGENRATEISEISRNL  357 (452)
Q Consensus       288 ~~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~~~~~~~~~~~~~i~~~L  357 (452)
                       .....+...+-.+..    |+..+...+..-.....+++.+|+|-...|...+    ....+..+.+.+
T Consensus       114 -~~~~~l~~~~~ivv~----TPgrl~~~~~~~~~~~~~l~~lVlDEaD~ll~~~----f~~~i~~I~~~~  174 (206)
T d1veca_         114 -DDIMRLDDTVHVVIA----TPGRILDLIKKGVAKVDHVQMIVLDEADKLLSQD----FVQIMEDIILTL  174 (206)
T ss_dssp             -HHHHHTTSCCSEEEE----CHHHHHHHHHTTCSCCTTCCEEEEETHHHHTSTT----THHHHHHHHHHS
T ss_pred             -HHHHHHHhccCeEEe----CCccccccccchhccccccceEEEeccccccccc----hHHHHHHHHHhC
Confidence             112234443333332    4556655443211111258999999999887532    333455554443

>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=90.48  E-value=0.069  Score=43.72  Aligned_cols=19  Identities=37%  Similarity=0.681  Sum_probs=16.7

Q ss_pred             EEEEeCCCCChhHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia  235 (452)
                      ++|.|+||+|||+|...+.
T Consensus         3 I~lvG~~nvGKSsLin~l~   21 (184)
T d2cxxa1           3 IIFAGRSNVGKSTLIYRLT   21 (184)
T ss_dssp             EEEEEBTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            7899999999999987664

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.33  E-value=0.07  Score=43.98  Aligned_cols=20  Identities=25%  Similarity=0.537  Sum_probs=17.2

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++|.|.||+|||+|+..++.
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            67889999999999887753

>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=90.31  E-value=0.074  Score=43.30  Aligned_cols=20  Identities=25%  Similarity=0.572  Sum_probs=17.7

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++|.|.+|+|||+|+.++..
T Consensus         9 v~lvG~~~vGKTsLi~r~~~   28 (173)
T d2fn4a1           9 LVVVGGGGVGKSALTIQFIQ   28 (173)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999988764

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.29  E-value=0.076  Score=43.10  Aligned_cols=21  Identities=24%  Similarity=0.468  Sum_probs=18.5

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ++|.|.+|+|||+|+..++.+
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            788999999999999988753

>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=90.28  E-value=0.073  Score=43.80  Aligned_cols=21  Identities=24%  Similarity=0.455  Sum_probs=18.5

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ++|.|.+|+|||+|+.+++..
T Consensus         8 ivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           8 CVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            788999999999999998753

>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=90.24  E-value=0.077  Score=42.82  Aligned_cols=21  Identities=29%  Similarity=0.510  Sum_probs=18.0

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ++|.|.+|+|||+|+.++..+
T Consensus         7 v~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           7 IAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999888653

>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=90.24  E-value=0.074  Score=43.10  Aligned_cols=20  Identities=20%  Similarity=0.561  Sum_probs=18.0

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++|.|.+|+|||+|+.++..
T Consensus         9 i~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999988764

>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=90.22  E-value=0.074  Score=43.08  Aligned_cols=20  Identities=25%  Similarity=0.441  Sum_probs=17.2

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +++.|.+|+|||+|+..++.
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            57889999999999987764

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.19  E-value=0.074  Score=42.96  Aligned_cols=20  Identities=30%  Similarity=0.559  Sum_probs=17.9

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++|.|.+|+|||+|+..+..
T Consensus         6 ivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            58899999999999998764

>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=90.14  E-value=0.074  Score=43.24  Aligned_cols=18  Identities=28%  Similarity=0.473  Sum_probs=16.3

Q ss_pred             EEEEeCCCCChhHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNI  234 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~i  234 (452)
                      +++.|+||+|||+|+..+
T Consensus        19 I~vvG~~~vGKSsLi~~l   36 (176)
T d1fzqa_          19 ILLLGLDNAGKTTLLKQL   36 (176)
T ss_dssp             EEEEESTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            789999999999998765

>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=90.11  E-value=0.075  Score=44.62  Aligned_cols=21  Identities=19%  Similarity=0.256  Sum_probs=18.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      -++|.|+||+|||+|...+..
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~   22 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLT   22 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            378999999999999887764

>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=90.08  E-value=0.081  Score=42.63  Aligned_cols=20  Identities=25%  Similarity=0.527  Sum_probs=17.7

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +++.|.||+|||+|..+++.
T Consensus         5 i~vvG~~~vGKTSli~~l~~   24 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVE   24 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999988764

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.06  E-value=0.078  Score=42.93  Aligned_cols=21  Identities=24%  Similarity=0.482  Sum_probs=18.3

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++.|.+|+|||+|+.+++.+
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            578899999999999988753

>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=90.05  E-value=0.079  Score=42.79  Aligned_cols=20  Identities=25%  Similarity=0.567  Sum_probs=17.7

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +++.|.+|+|||+|+..+..
T Consensus         6 ivvvG~~~vGKTsli~r~~~   25 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQ   25 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            67889999999999998865

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=90.02  E-value=0.08  Score=42.90  Aligned_cols=21  Identities=33%  Similarity=0.694  Sum_probs=18.5

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++.|.+|+|||+|+..++.+
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            789999999999999988754

>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=89.90  E-value=0.083  Score=43.93  Aligned_cols=21  Identities=19%  Similarity=0.578  Sum_probs=18.6

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ++|.|.+|+|||+|+.++...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            788999999999999998753

>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=89.87  E-value=0.085  Score=43.04  Aligned_cols=20  Identities=20%  Similarity=0.436  Sum_probs=17.0

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++|.|.+|+|||+|+.+++.
T Consensus         5 ivvvG~~~vGKTsLi~~~~~   24 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSK   24 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            56779999999999988764

>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=89.80  E-value=0.084  Score=42.72  Aligned_cols=19  Identities=32%  Similarity=0.728  Sum_probs=16.6

Q ss_pred             EEEEeCCCCChhHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia  235 (452)
                      +++.|.+|+|||+|+..+.
T Consensus         4 i~lvG~~~vGKTsLi~~~~   22 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFG   22 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHh
Confidence            5788999999999998764

>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=89.79  E-value=0.085  Score=42.72  Aligned_cols=20  Identities=30%  Similarity=0.539  Sum_probs=17.6

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++|.|.+|+|||+|+.++..
T Consensus         7 ivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           7 VIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999988764

>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=89.78  E-value=0.085  Score=42.59  Aligned_cols=20  Identities=20%  Similarity=0.400  Sum_probs=17.7

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++|.|.+|+|||+|+..+..
T Consensus         7 i~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            57889999999999998865

>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=89.68  E-value=0.086  Score=42.97  Aligned_cols=20  Identities=15%  Similarity=0.423  Sum_probs=17.8

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +++.|.||+|||+|+..+..
T Consensus         7 i~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999988764

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase VlgB
species: Flatworm (Dugesia japonica) [TaxId: 6161]

Probab=89.66  E-value=0.41  Score=41.09  Aligned_cols=118  Identities=14%  Similarity=0.070  Sum_probs=60.1

Q ss_pred             CCCcEEEEEeCCCCChhH-HHHHHHHHHHHh----------CCCcEEEEeC-CCCHHHHHHHHHHHhCCCCccc-cccCC
Q psy2892         212 QPGDLIIVAGRPSMGKTA-FSLNIGEHIAIE----------NKLPVAIFSM-EMSGIQLAMRMLGSVGKLDQHK-LRTGR  278 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~-~~l~ia~~~a~~----------~g~~vl~~s~-E~~~~~i~~R~~a~~~~i~~~~-i~~g~  278 (452)
                      ..|.=+++.|++|+|||. +++-+..++..+          .+..+++++- ..-..++...+.....+.+... ...|.
T Consensus        56 l~g~dvvi~a~TGsGKTlayllp~l~~l~~~~~~~~~~~~~~~~~alil~pt~el~~q~~~~~~~~~~~~~~~~~~~~g~  135 (238)
T d1wrba1          56 LEHRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGG  135 (238)
T ss_dssp             HTTCCEEEECCTTSSHHHHHHHHHHHHHHTTCC------CCBCCSEEEECSSHHHHHHHHHHHHHHHTTSSCCEEEECSS
T ss_pred             hCCCCEEEECCCCCCcceeeHHHHHHHHHhcccccccccCCCCceEEEeccchhhhcchheeeeecccCCCcEEEEEecc
Confidence            356679999999999994 666666665321          1334666543 3333444433332222322221 11222


Q ss_pred             CCcchHHHHHHHHHHHhCC-CeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         279 LSSDDWPRINDSIKKINKS-QLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       279 l~~~~~~~~~~a~~~l~~~-~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                      ....+..      +..... .+.+.     |+..+...++.-.....++..+|||-...+...
T Consensus       136 ~~~~~~~------~~~~~~~~ivV~-----TP~~l~~~~~~~~~~l~~v~~lViDEaD~ll~~  187 (238)
T d1wrba1         136 ADTHSQI------REVQMGCHLLVA-----TPGRLVDFIEKNKISLEFCKYIVLDEADRMLDM  187 (238)
T ss_dssp             SCSHHHH------HHHSSCCSEEEE-----CHHHHHHHHHTTSBCCTTCCEEEEETHHHHHHT
T ss_pred             chhhHHH------hhcccCCceeec-----CHHHHHhHHccCceeccccceeeeehhhhhhhh
Confidence            2221111      122222 44443     455665544322111225899999999887754

>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=89.57  E-value=0.13  Score=43.13  Aligned_cols=27  Identities=19%  Similarity=0.311  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEE
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVA  247 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl  247 (452)
                      ++.|+|.+|+||||++.-+     .+.|.+|+
T Consensus         4 iIgITG~igSGKStv~~~l-----~~~G~~vi   30 (205)
T d1jjva_           4 IVGLTGGIGSGKTTIANLF-----TDLGVPLV   30 (205)
T ss_dssp             EEEEECSTTSCHHHHHHHH-----HTTTCCEE
T ss_pred             EEEEECCCCCCHHHHHHHH-----HHCCCeEE
Confidence            5679999999999987533     24566654

>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=89.54  E-value=0.091  Score=42.49  Aligned_cols=21  Identities=19%  Similarity=0.514  Sum_probs=18.0

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++.|.+|+|||+|+.++...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            578899999999999988753

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.53  E-value=0.091  Score=42.17  Aligned_cols=21  Identities=33%  Similarity=0.540  Sum_probs=18.7

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++.|.+|+|||+|+.+++..
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999998754

>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=89.41  E-value=0.099  Score=41.95  Aligned_cols=20  Identities=25%  Similarity=0.381  Sum_probs=17.8

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++|.|.+|+|||+|+..+..
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            57889999999999998874

>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=89.22  E-value=0.064  Score=43.68  Aligned_cols=19  Identities=26%  Similarity=0.450  Sum_probs=16.7

Q ss_pred             EEEEeCCCCChhHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia  235 (452)
                      +++.|.||+|||+|...++
T Consensus        15 IvlvG~~~vGKTSli~rl~   33 (173)
T d1e0sa_          15 ILMLGLDAAGKTTILYKLK   33 (173)
T ss_dssp             EEEEEETTSSHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6788999999999998764

>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=89.14  E-value=0.089  Score=50.01  Aligned_cols=45  Identities=13%  Similarity=0.175  Sum_probs=30.1

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeC---------CCCHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSM---------EMSGIQLAMRMLG  264 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~---------E~~~~~i~~R~~a  264 (452)
                      =+++.||||+|||.+|..+|.-+    +.|.+.+++         -...+.+..+++.
T Consensus        51 NILliGPTGvGKTlLAr~LAk~l----~VPFv~~daT~fTeaGYvG~DVesii~~L~~  104 (443)
T d1g41a_          51 NILMIGPTGVGKTEIARRLAKLA----NAPFIKVEATKFTEVGYVGKEVDSIIRDLTD  104 (443)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHT----TCCEEEEEGGGGC----CCCCTHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHh----CCCEEEeecceeeecceeecchhHHHHHHHH
Confidence            38889999999999999988633    445443321         1234566777654

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=89.04  E-value=0.11  Score=42.17  Aligned_cols=20  Identities=30%  Similarity=0.630  Sum_probs=17.9

Q ss_pred             EEEEEeCCCCChhHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia  235 (452)
                      .++|.|.||+|||+|.-.+.
T Consensus         7 ~I~iiG~~nvGKSSLin~L~   26 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLL   26 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            47899999999999998876

>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=88.83  E-value=0.12  Score=42.16  Aligned_cols=20  Identities=25%  Similarity=0.632  Sum_probs=17.7

Q ss_pred             EEEEEeCCCCChhHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia  235 (452)
                      .++|.|.||+|||+|...++
T Consensus         7 ~I~lvG~~~~GKSSLin~l~   26 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLL   26 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            68999999999999987764

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.79  E-value=0.11  Score=42.05  Aligned_cols=21  Identities=24%  Similarity=0.555  Sum_probs=18.0

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++.|.+|+|||+|+..++..
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            567899999999999988753

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.79  E-value=0.11  Score=42.34  Aligned_cols=21  Identities=24%  Similarity=0.605  Sum_probs=18.3

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++.|.+|+|||+|...+..+
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            689999999999999987653

>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=88.77  E-value=0.08  Score=43.40  Aligned_cols=23  Identities=22%  Similarity=0.293  Sum_probs=18.2

Q ss_pred             CCCcEEEEEeCCCCChhHHHHHH
Q psy2892         212 QPGDLIIVAGRPSMGKTAFSLNI  234 (452)
Q Consensus       212 ~~G~l~~i~g~pg~GKT~~~l~i  234 (452)
                      .+.-=+++.|.||+|||+|..++
T Consensus        15 ~k~~KI~lvG~~~vGKTsLi~~l   37 (182)
T d1moza_          15 NKELRILILGLDGAGKTTILYRL   37 (182)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHT
T ss_pred             CceEEEEEECCCCCCHHHHHHHH
Confidence            33334789999999999999765

>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=88.67  E-value=0.13  Score=43.59  Aligned_cols=36  Identities=19%  Similarity=0.309  Sum_probs=27.5

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCC
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSME  252 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E  252 (452)
                      +|-+++|-|.-|+||||.+..++-.+.    .++.+++.+
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~----~~~~~~~~p   37 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQ----PNCKLLKFP   37 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTT----TSEEEEESS
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHH----hCCEEEEEC
Confidence            789999999999999999988876542    234455544

>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=88.67  E-value=0.063  Score=43.85  Aligned_cols=19  Identities=26%  Similarity=0.391  Sum_probs=16.7

Q ss_pred             EEEEEeCCCCChhHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNI  234 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~i  234 (452)
                      -++|.|+|++|||+|...+
T Consensus        18 ~I~lvG~~NvGKSSL~n~L   36 (188)
T d1puia_          18 EVAFAGRSNAGKSSALNTL   36 (188)
T ss_dssp             EEEEEECTTSSHHHHHTTT
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3899999999999998665

>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=88.59  E-value=0.12  Score=43.53  Aligned_cols=27  Identities=15%  Similarity=0.281  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEE
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVA  247 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl  247 (452)
                      ++.|+|.+|+||||++--+     .+.|.+|+
T Consensus         5 iIgitG~igSGKStv~~~l-----~~~G~~vi   31 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAF-----ADLGINVI   31 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHH-----HHTTCEEE
T ss_pred             EEEEECCCcCCHHHHHHHH-----HHCCCcEE
Confidence            6779999999999988643     23566543

>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=88.58  E-value=0.12  Score=42.76  Aligned_cols=21  Identities=24%  Similarity=0.455  Sum_probs=18.0

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++.|.+|+|||+|+.++...
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999887753

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.56  E-value=0.25  Score=41.90  Aligned_cols=117  Identities=13%  Similarity=0.150  Sum_probs=55.6

Q ss_pred             CcEEEEEeCCCCChhH-HHHHHHHHHHHh-CCCcEEEEeC-CCCHHHHHHHHHHHhCCCCccc--cccCCCCcchHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTA-FSLNIGEHIAIE-NKLPVAIFSM-EMSGIQLAMRMLGSVGKLDQHK--LRTGRLSSDDWPRIN  288 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~-~~l~ia~~~a~~-~g~~vl~~s~-E~~~~~i~~R~~a~~~~i~~~~--i~~g~l~~~~~~~~~  288 (452)
                      |.=+++.|++|+|||. +++-+..+.... .+..+++++. -.-..++...+.....+.....  +..+.-..++..+. 
T Consensus        49 g~dvl~~a~TGsGKTlayllp~l~~i~~~~~~~~alil~Pt~eL~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  127 (218)
T d2g9na1          49 GYDVIAQAQSGTGKTATFAISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQKL-  127 (218)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHHHHHCCTTCCSCCEEEECSSHHHHHHHHHHHHHHHTTTTCCEEEECC--CCCSTTTSS-
T ss_pred             CCCEEEEcccchhhhhhhhhhhhheecccccCccEEEEcccchhhhhHHHHHhhhccccceeEEeeecccchhHHHHHH-
Confidence            4458899999999994 455444443221 2445666643 2223334443333322222221  11111111111000 


Q ss_pred             HHHHHHhCCCeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhccC
Q psy2892         289 DSIKKINKSQLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSAN  340 (452)
Q Consensus       289 ~a~~~l~~~~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~~  340 (452)
                          ......+.|.     |+..+...+.+-.....+++.+|+|-...|...
T Consensus       128 ----~~~~~~IvV~-----TP~rl~~~l~~~~~~~~~l~~lVlDEaD~ll~~  170 (218)
T d2g9na1         128 ----QMEAPHIIVG-----TPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSR  170 (218)
T ss_dssp             ----SSCCCSEEEE-----CHHHHHHHHHTTSSCSTTCCEEEEESHHHHHHT
T ss_pred             ----hcCCCEEEEe-----CChhHHHHHhcCCcccccceEEEeeecchhhcC
Confidence                0011234443     456666555332111125899999999988764

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=88.56  E-value=0.084  Score=43.36  Aligned_cols=18  Identities=28%  Similarity=0.480  Sum_probs=15.8

Q ss_pred             EEEEeCCCCChhHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNI  234 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~i  234 (452)
                      +.|.|+||+|||+|...+
T Consensus         4 VaiiG~~nvGKSSLin~L   21 (185)
T d1lnza2           4 VGLVGFPSVGKSTLLSVV   21 (185)
T ss_dssp             EEEESSTTSSHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            678999999999998765

>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=88.43  E-value=0.086  Score=43.76  Aligned_cols=24  Identities=17%  Similarity=0.254  Sum_probs=20.2

Q ss_pred             CcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .-+++|.|..|+||||++..++.+
T Consensus         9 p~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           9 PFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            348999999999999999877643

>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=88.18  E-value=0.13  Score=42.05  Aligned_cols=21  Identities=33%  Similarity=0.480  Sum_probs=18.3

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++.|.+|+|||+|+..++..
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            578999999999999988754

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.11  E-value=0.13  Score=41.74  Aligned_cols=19  Identities=16%  Similarity=0.469  Sum_probs=16.8

Q ss_pred             EEEEeCCCCChhHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia  235 (452)
                      +++.|.+|+|||+|+..+.
T Consensus         6 v~lvG~~~vGKTsLi~~~~   24 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFA   24 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            6789999999999988765

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Spliceosome RNA helicase BAT1 (UAP56)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.89  E-value=0.62  Score=38.87  Aligned_cols=115  Identities=17%  Similarity=0.157  Sum_probs=54.4

Q ss_pred             CcEEEEEeCCCCChhH-HHHHHHHHHHHh-CCCcEEEEeCC-CCHHHHHHHHHHHhCCCCc--cccccCCCCcchHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTA-FSLNIGEHIAIE-NKLPVAIFSME-MSGIQLAMRMLGSVGKLDQ--HKLRTGRLSSDDWPRIN  288 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~-~~l~ia~~~a~~-~g~~vl~~s~E-~~~~~i~~R~~a~~~~i~~--~~i~~g~l~~~~~~~~~  288 (452)
                      |.=+++.|++|+|||. |++-+....... .+..+++++-- .-..++...+.......+.  ..+..|..+....    
T Consensus        38 g~dvl~~A~TGsGKTla~~lp~l~~~~~~~~~~~~lil~PtreL~~qi~~~~~~~~~~~~~~~~~~~~g~~~~~~~----  113 (207)
T d1t6na_          38 GMDVLCQAKSGMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKD----  113 (207)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHHHCCCCTTCCCEEEECSCHHHHHHHHHHHHHHTTTSTTCCEEEESCCSCHHHH----
T ss_pred             CCCeEEEeccccccccccccceeeeecccCCCceEEEEeccchhhHHHHHHHHHHHhhCCCceeEEEeccccHHHH----
Confidence            4458999999999994 444444333211 23456666431 1222333333222222221  1122233332211    


Q ss_pred             HHHHHH-hCC-CeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         289 DSIKKI-NKS-QLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       289 ~a~~~l-~~~-~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                        ...+ ... .+.|.     |++.+...++.-.....++..+|+|-...|..
T Consensus       114 --~~~l~~~~~~ilI~-----TP~rl~~~~~~~~~~l~~l~~lVlDEaD~ll~  159 (207)
T d1t6na_         114 --EEVLKKNCPHIVVG-----TPGRILALARNKSLNLKHIKHFILDECDKMLE  159 (207)
T ss_dssp             --HHHHHHSCCSEEEE-----CHHHHHHHHHTTSSCCTTCCEEEEESHHHHHS
T ss_pred             --HHHHHhcCCCEEEe-----CcchhhhhccCCceeccccceeehhhhhhhhh
Confidence              1112 222 34443     45666655543211122588999999987764

>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=87.68  E-value=0.15  Score=41.96  Aligned_cols=21  Identities=24%  Similarity=0.483  Sum_probs=18.4

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ++|.|.+|+|||+|...++.+
T Consensus        12 i~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            789999999999999887643

>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=87.66  E-value=0.097  Score=42.47  Aligned_cols=21  Identities=24%  Similarity=0.340  Sum_probs=16.6

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++.|.+|+|||+|+.+++..
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            577899999999998876543

>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=87.51  E-value=0.092  Score=47.81  Aligned_cols=20  Identities=20%  Similarity=0.361  Sum_probs=18.4

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++|.|+||+|||+++..++.
T Consensus        31 vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          31 VLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             EEEECCGGGCTTHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHH
Confidence            79999999999999998875

>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=87.29  E-value=0.15  Score=41.60  Aligned_cols=19  Identities=32%  Similarity=0.602  Sum_probs=16.6

Q ss_pred             EEEEeCCCCChhHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia  235 (452)
                      +.|.|+||+|||+|.-.+.
T Consensus        11 V~iiG~~~~GKSTLin~l~   29 (186)
T d1mkya2          11 VAIVGRPNVGKSTLFNAIL   29 (186)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            6888999999999997664

>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=86.91  E-value=0.21  Score=46.50  Aligned_cols=26  Identities=15%  Similarity=0.210  Sum_probs=21.3

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      |..+.+++|.|+.|+|||+++-.|.+
T Consensus        22 f~~~~l~~i~G~NGsGKS~ileAi~~   47 (427)
T d1w1wa_          22 FGESNFTSIIGPNGSGKSNMMDAISF   47 (427)
T ss_dssp             CTTCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHH
Confidence            44455999999999999999777754

>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=86.83  E-value=0.17  Score=41.25  Aligned_cols=20  Identities=20%  Similarity=0.219  Sum_probs=17.5

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +++.|.+|+|||+|+.++..
T Consensus         8 i~vlG~~~vGKTsLi~~~~~   27 (175)
T d2bmja1           8 LGVLGDARSGKSSLIHRFLT   27 (175)
T ss_dssp             EEEECCTTTTHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            67889999999999988754

>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=86.80  E-value=0.12  Score=42.29  Aligned_cols=19  Identities=21%  Similarity=0.445  Sum_probs=16.3

Q ss_pred             EEEEeCCCCChhHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia  235 (452)
                      +.|.|+||+|||+|...+.
T Consensus         4 VaivG~~nvGKSTLin~L~   22 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMT   22 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHh
Confidence            6788999999999987664

>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=86.71  E-value=0.1  Score=42.34  Aligned_cols=21  Identities=24%  Similarity=0.537  Sum_probs=8.1

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      ++|.|.||+|||+|+..++.+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEECCCCC------------
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999888753

>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=86.56  E-value=0.16  Score=46.80  Aligned_cols=26  Identities=27%  Similarity=0.539  Sum_probs=20.9

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      .+++. +++.||+|+|||-+|..+|..
T Consensus        66 ~p~~n-iLfiGPTGvGKTElAk~LA~~   91 (364)
T d1um8a_          66 LSKSN-ILLIGPTGSGKTLMAQTLAKH   91 (364)
T ss_dssp             CCCCC-EEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcc-eeeeCCCCccHHHHHHHHHhh
Confidence            45554 677799999999999999865

>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: DNA helicase UvsW
domain: DNA helicase UvsW
species: Bacteriophage T4 [TaxId: 10665]

Probab=85.99  E-value=0.33  Score=42.92  Aligned_cols=48  Identities=13%  Similarity=0.026  Sum_probs=32.8

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHHHHhCCCcEEEEeCCC-CHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHIAIENKLPVAIFSMEM-SGIQLAMRML  263 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~a~~~g~~vl~~s~E~-~~~~i~~R~~  263 (452)
                      -.++..++|+|||..+..++.......+.+++++..-. -..|+...+.
T Consensus       130 ~~il~~pTGsGKT~i~~~i~~~~~~~~~~k~Liivp~~~Lv~Q~~~~f~  178 (282)
T d1rifa_         130 RRILNLPTSAGRSLIQALLARYYLENYEGKILIIVPTTALTTQMADDFV  178 (282)
T ss_dssp             EEEECCCTTSCHHHHHHHHHHHHHHHCSSEEEEECSSHHHHHHHHHHHH
T ss_pred             CceeEEEcccCccHHHHHHHHHhhhcccceEEEEEcCchhHHHHHHHHH
Confidence            46888899999999888877666555567899986421 2234444443

>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=85.99  E-value=0.066  Score=42.73  Aligned_cols=20  Identities=20%  Similarity=0.610  Sum_probs=17.6

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +++.|+||+|||+|...+.-
T Consensus         3 I~liG~~n~GKSSLin~l~g   22 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLN   22 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            57999999999999998754

>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=85.95  E-value=0.19  Score=41.48  Aligned_cols=18  Identities=28%  Similarity=0.529  Sum_probs=16.9

Q ss_pred             EEEEeCCCCChhHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNI  234 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~i  234 (452)
                      ++|.|.+|+|||+|+.++
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            688999999999999998

>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=85.80  E-value=0.24  Score=44.03  Aligned_cols=25  Identities=16%  Similarity=0.167  Sum_probs=19.6

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      |.++ +++|.|+.|+|||++.-.+.+
T Consensus        22 f~~~-lnvlvG~NgsGKS~iL~Ai~~   46 (308)
T d1e69a_          22 FSDR-VTAIVGPNGSGKSNIIDAIKW   46 (308)
T ss_dssp             CCSS-EEEEECCTTTCSTHHHHHHHH
T ss_pred             CCCC-eEEEECCCCCcHHHHHHHHHH
Confidence            4444 999999999999999655543

>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=85.35  E-value=0.13  Score=44.04  Aligned_cols=26  Identities=19%  Similarity=0.201  Sum_probs=22.4

Q ss_pred             CCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         213 PGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       213 ~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      ++.+++|-|+.|+||||++-.++-++
T Consensus         1 ~~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           1 RIKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            46789999999999999999877654

>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=85.29  E-value=0.22  Score=43.38  Aligned_cols=20  Identities=30%  Similarity=0.418  Sum_probs=17.5

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++|.|+||+|||+|+-.+.-
T Consensus        35 I~LvG~tg~GKSSliN~ilg   54 (257)
T d1h65a_          35 ILVMGKGGVGKSSTVNSIIG   54 (257)
T ss_dssp             EEEEESTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCcHHHHHHHHhC
Confidence            78899999999999887763

>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=84.79  E-value=0.28  Score=40.14  Aligned_cols=21  Identities=19%  Similarity=0.352  Sum_probs=18.3

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++.|.+|+|||+|+.++...
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            688999999999999998544

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.62  E-value=1.5  Score=36.25  Aligned_cols=114  Identities=18%  Similarity=0.161  Sum_probs=51.8

Q ss_pred             CcEEEEEeCCCCChhHHH-HHHHHHHHH-hCCCcEEEE-eCCCCHHHHHHHHHHHh--CCCCccccccCCCCcchHHHHH
Q psy2892         214 GDLIIVAGRPSMGKTAFS-LNIGEHIAI-ENKLPVAIF-SMEMSGIQLAMRMLGSV--GKLDQHKLRTGRLSSDDWPRIN  288 (452)
Q Consensus       214 G~l~~i~g~pg~GKT~~~-l~ia~~~a~-~~g~~vl~~-s~E~~~~~i~~R~~a~~--~~i~~~~i~~g~l~~~~~~~~~  288 (452)
                      |.=+++.|++|+|||.-- +-+..+... ..+..++++ .......+.........  .++....+ .|.....      
T Consensus        38 g~dvi~~a~tGsGKTlay~lp~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~------  110 (206)
T d1s2ma1          38 GRDILARAKNGTGKTAAFVIPTLEKVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVT-TGGTNLR------  110 (206)
T ss_dssp             TCCEEEECCTTSCHHHHHHHHHHHHCCTTSCSCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEE-CSSSCHH------
T ss_pred             CCCEEEecCCcchhhhhhccccccccccccccccceeeccchhhhhhhhhhhhhcccccCeeEEee-cCccchh------
Confidence            344899999999999432 222222211 123344443 33222333333332222  22222111 1222211      


Q ss_pred             HHHHHHhCC-CeEEEcCCCCCHHHHHHHHHHHHHHcCCccEEEEcCcchhcc
Q psy2892         289 DSIKKINKS-QLYIDETPSLNVIELRANSRRLSRQCGKIGVIIIDYLQLMSA  339 (452)
Q Consensus       289 ~a~~~l~~~-~l~i~~~~~~t~~~i~~~i~~~~~~~~~~~~vvID~l~~i~~  339 (452)
                      .....+... .+.|.     |+..+...++.-.-...+++.+|||-...|..
T Consensus       111 ~~~~~l~~~~~Ili~-----TP~~l~~~l~~~~~~l~~l~~lV~DEaD~l~~  157 (206)
T d1s2ma1         111 DDILRLNETVHILVG-----TPGRVLDLASRKVADLSDCSLFIMDEADKMLS  157 (206)
T ss_dssp             HHHHHTTSCCSEEEE-----CHHHHHHHHHTTCSCCTTCCEEEEESHHHHSS
T ss_pred             hHHHHhcccceEEEE-----CCcccccccccceeecccceEEEeechhhhhh
Confidence            122234333 33443     45556554432111112588999999998864

>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=83.40  E-value=0.34  Score=41.02  Aligned_cols=20  Identities=15%  Similarity=0.313  Sum_probs=17.8

Q ss_pred             EEEEeCCCCChhHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~  236 (452)
                      +++.|.+|+|||+|+.++..
T Consensus         9 illlG~~~vGKTsll~~~~~   28 (221)
T d1azta2           9 LLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhc
Confidence            68999999999999998854

>d1w36b1 c.37.1.19 (B:1-485) Exodeoxyribonuclease V beta chain (RecB), 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: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V beta chain (RecB), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=83.21  E-value=0.68  Score=43.49  Aligned_cols=62  Identities=13%  Similarity=0.097  Sum_probs=40.2

Q ss_pred             cccccccCCCCCCcEEEEEeCCCCChhHHHHHHHHHHHHhCC-----------CcEEEEeCCC-CHHHHHHHHHHH
Q psy2892         202 FELDKITSGLQPGDLIIVAGRPSMGKTAFSLNIGEHIAIENK-----------LPVAIFSMEM-SGIQLAMRMLGS  265 (452)
Q Consensus       202 ~~LD~~~gG~~~G~l~~i~g~pg~GKT~~~l~ia~~~a~~~g-----------~~vl~~s~E~-~~~~i~~R~~a~  265 (452)
                      ..||-+-  .+....++|.|.+|+|||+.+.+-++.......           ..+|-+++-. ...++..|+...
T Consensus         6 ~~~~~~~--~p~~g~~lv~A~AGsGKT~~l~~r~~~ll~~~~~~~~~~~~~~~~~IL~lTFT~kAA~Emk~RI~~~   79 (485)
T d1w36b1           6 ETLDPLR--LPLQGERLIEASAGTGKTFTIAALYLRLLLGLGGSAAFPRPLTVEELLVVTFTEAATAELRGRIRSN   79 (485)
T ss_dssp             EECCGGG--CCCSSCEEEECCTTSCHHHHHHHHHHHHHTTCSSSSSCSSCCCGGGEEEEESCHHHHHHHHHHHHHH
T ss_pred             hccCccc--CCCCCCeEEEEcCchHHHHHHHHHHHHHHhhCcccccccCCCCcccEeEeccHHHHHHHHHHHHHHH
Confidence            3455332  444557999999999999999988877754211           2478887732 234566666443

>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=83.14  E-value=0.33  Score=39.48  Aligned_cols=19  Identities=26%  Similarity=0.307  Sum_probs=16.8

Q ss_pred             EEEEeCCCCChhHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIG  235 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia  235 (452)
                      +.|.|+|++|||||.-.+.
T Consensus         8 IaiiG~~naGKSTL~n~L~   26 (179)
T d1wb1a4           8 LGIFGHIDHGKTTLSKVLT   26 (179)
T ss_dssp             EEEEECTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCcHHHHHHHHH
Confidence            7899999999999987765

>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=82.99  E-value=0.33  Score=41.40  Aligned_cols=21  Identities=29%  Similarity=0.275  Sum_probs=17.9

Q ss_pred             EEEEEeCCCCChhHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      ++.|+|..|+||||+|..++-
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            688999999999998876643

>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=82.27  E-value=0.46  Score=38.57  Aligned_cols=21  Identities=14%  Similarity=0.262  Sum_probs=18.2

Q ss_pred             EEEEeCCCCChhHHHHHHHHH
Q psy2892         217 IIVAGRPSMGKTAFSLNIGEH  237 (452)
Q Consensus       217 ~~i~g~pg~GKT~~~l~ia~~  237 (452)
                      +++.|..|+|||+|+.++...
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhhC
Confidence            588999999999999987654

>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=81.94  E-value=0.45  Score=40.45  Aligned_cols=23  Identities=17%  Similarity=0.343  Sum_probs=21.0

Q ss_pred             EEEEEeCCCCChhHHHHHHHHHH
Q psy2892         216 LIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       216 l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      +++|-|.-|+||||++..++.+.
T Consensus         4 ~IviEG~~GsGKST~~~~L~~~l   26 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHH
Confidence            79999999999999999888765

>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=81.48  E-value=0.067  Score=44.19  Aligned_cols=27  Identities=15%  Similarity=0.179  Sum_probs=21.8

Q ss_pred             CCCCcEEEEEeCCCCChhHHHHHHHHHH
Q psy2892         211 LQPGDLIIVAGRPSMGKTAFSLNIGEHI  238 (452)
Q Consensus       211 ~~~G~l~~i~g~pg~GKT~~~l~ia~~~  238 (452)
                      |.+| +++|.|+.|+|||+++-.+.+-+
T Consensus        22 f~~~-~tvi~G~NGsGKStil~Ai~~~L   48 (222)
T d1qhla_          22 LDEL-VTTLSGGNGAGKSTTMAAFVTAL   48 (222)
T ss_dssp             HHHH-HHHHHSCCSHHHHHHHHHHHHHH
T ss_pred             cCCC-eEEEECCCCCCHHHHHHHHHHHh
Confidence            3344 99999999999999988777554

>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=81.14  E-value=0.6  Score=40.78  Aligned_cols=29  Identities=24%  Similarity=0.304  Sum_probs=23.9

Q ss_pred             cCCCCCCcEEEEEeCCCCChhHHHHHHHH
Q psy2892         208 TSGLQPGDLIIVAGRPSMGKTAFSLNIGE  236 (452)
Q Consensus       208 ~gG~~~G~l~~i~g~pg~GKT~~~l~ia~  236 (452)
                      .++.++-..+++.|+|+.|||+|+.-++.
T Consensus        98 ~~~~~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_          98 TKKFGKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             TTCSTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCCCccEEEEEEcCCCCCHHHHHHHHHH
Confidence            35667778899999999999999876655