Citrus Sinensis ID: 016044

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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------
Protein Sequence
MVKRMGNSSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEYTLNSQSSGWSRNNESNDYQVQAAISELSRLVVSQIMNIQSEPDTQDP
Secondary Structure (PSIPRED)
cccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHccccccccHHHHHHHcccccccccccccccccccHHHHHHHHHHHHcccccccccccccccccccccEEEcccccHHHHHHHHHHHHcccEEEEEcccccccHHHcHHHHHHHHHHHHHHHHcccEEEEEccccccccccccHHHHHHHHHHHHHHHHccccccccccEEEEEcccccccHHHHHHHccccccccccccHHHHHHHHHHHcccccccccccHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHcHHHHHHHHHHHHcccccccccHHcccccccccccHcccccHHHHHHHHHHHHccccccHHHHHHccccccEEEEEEEccccccHHHHHHHHHHHHcccEEEEccHHHHHHHHcHHHHHHHHHHHHHHHcccEEEEEEcHHHHcccccccccHHHHHHHHHHHHHHccccccccccEEEEEEccccccHcHHHHHHcccEEEcccccHHHHHHHHHHHHccccccccccHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHcccHHHHccccccHHHHHHHHHHccccccHHHHEHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHccccccccccc
Coil and Loop (DISEMBL)
mvkrmgnsseTKFLQELILYAASAALSCLVLFAGlrhldpnrEASKKALEHKKEISKRlgrpliqtnpyedviacdvinpdhidvefesiggLETIKQALYELVIlplrrpelfshgkllgpqkgvllygppgtgkTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDsflgqrrtsDHEALTNMKTEFMAlwdgfttdqNARVMVLAATNRPSELDEAILRRLPqafeigmpDRKERAQILKVILKGEKVEENIDFDYLAGlcegftgsdlLEVCKQAAYFSIRELLDEerkgkpaaaprplsrldLEKVLTTSRKTRVAATEYtlnsqssgwsrnnesnDYQVQAAISELSRLVVSQIMNiqsepdtqdp
Flexible Loop (DISEMBL)
mvkrmgnssETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKeiskrlgrpliqtnpyEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQafeigmpdrkERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDeerkgkpaaaprplsrldlekvlttsrktrvaateytlnsqssgwsrnneSNDYQVQAAISELSRLVVSQIMniqsepdtqdp
Low Complexity Region (SEG)
MVKRMGNSSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEYTLNSQSSGWSRNNESNDYQVQAAISELSRLVVSQIMNIQSEPDTQDP
Disordered region (IsUnstruct)
************FLQELILYAASAALSCLVLFAGLRHL*********************GRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELL***************************************************************LSRLVV***************
Disordered Region (DISOPRED)
**************QELILYAASAALSCLVLFAG********************************NPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDS*****************TEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE*****************SRLDLEKVLT***********************************************************
Disordered Region (DISEMBL)
**********TKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE*********PRPLSRLDLEKVLTTSRKTRVAATEY*************ESNDYQVQAAISELSRLVVSQIMNIQ********
Disordered Region (DISPRO)
MVKRMGNSSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEYTLNSQSSGWSRNNESNDYQVQAAISELSRLVVSQIMN**********
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVKRMGNSSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEYTLNSQSSGWSRNNESNDYQVQAAISELSRLVVSQIMNIQSEPDTQDP
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	396	2.2.26 [Sep-21-2011]
Q505J9	361	ATPase family AAA domain-	yes	no	0.795	0.872	0.449	6e-78
Q9D5T0	361	ATPase family AAA domain-	yes	no	0.795	0.872	0.449	6e-78
Q8NBU5	361	ATPase family AAA domain-	yes	no	0.795	0.872	0.449	6e-78
F6QV99	361	ATPase family AAA domain-	yes	no	0.795	0.872	0.449	6e-78
B4F6J6	360	ATPase family AAA domain-	yes	no	0.792	0.872	0.445	1e-77
Q7ZZ25	380	ATPase family AAA domain-	yes	no	0.777	0.810	0.444	7e-77
Q503W7	362	ATPase family AAA domain-	no	no	0.780	0.853	0.440	7e-76
P28737	362	Protein MSP1 OS=Saccharom	yes	no	0.770	0.842	0.438	9e-72
Q9P7J5	355	Uncharacterized AAA domai	yes	no	0.777	0.867	0.430	3e-71
P54815	342	Mitochondrial sorting hom	yes	no	0.674	0.780	0.444	1e-64

>sp|Q505J9|ATAD1_RAT ATPase family AAA domain-containing protein 1 OS=Rattus norvegicus GN=Atad1 PE=1 SV=1

 Score =  291 bits (745), Expect = 6e-78,   Method: Compositional matrix adjust.
 Identities = 142/316 (44%), Positives = 210/316 (66%), Gaps = 1/316 (0%)

Query: 38  LDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIK 97
           +DP R+   +A +  +++ K++G   ++ + YE  IA  +++P ++ V +  I GL+ + 
Sbjct: 41  IDPTRKQKVEAQKQAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVI 100

Query: 98  QALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS 157
             L + VILP+++  LF + +LL P KGVLLYGPPG GKT++AKA AKE+G  FIN++ S
Sbjct: 101 TDLKDTVILPIKKKHLFENSRLLQPPKGVLLYGPPGCGKTLIAKATAKEAGCRFINLQPS 160

Query: 158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW 217
            L  KW+G++QKL AAVFSLA KLQP+IIFIDE+DSFL  R +SDHEA   MK +FM+LW
Sbjct: 161 TLTDKWYGESQKLAAAVFSLAIKLQPSIIFIDEIDSFLRNRSSSDHEATAMMKAQFMSLW 220

Query: 218 DGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE 277
           DG  TD + +V+V+ ATNRP +LD AI+RR+P  F I  P  K+R  ILK+ILK E V+ 
Sbjct: 221 DGLDTDHSCQVIVMGATNRPQDLDSAIMRRMPTRFHINQPALKQREAILKLILKNENVDR 280

Query: 278 NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE-ERKGKPAAAPRPLSRLDLEKVL 336
           ++D   +A   +GF+GSDL E+C+ AA   +RE ++    +       RP+ + DL + +
Sbjct: 281 HVDLLEVAQETDGFSGSDLKEMCRDAALLCVREYVNSTSEESHDEDEIRPVQQQDLHRAI 340

Query: 337 TTSRKTRVAATEYTLN 352
              +K++ AA +  L 
Sbjct: 341 EKMKKSKDAAFQSVLT 356

ATPase that plays a critical role in regulating the surface expression of AMPA receptors (AMPAR), thereby regulating synaptic plasticity and learning and memory. Required for NMDA-stimulated AMPAR internalization and inhibition of GRIA1 and GRIA2 recycling back to the plasma membrane; these activities are ATPase-dependent.
Rattus norvegicus (taxid: 10116)
EC: 3EC: .EC: 6EC: .EC: 1EC: .EC: 3

>sp|Q9D5T0|ATAD1_MOUSE ATPase family AAA domain-containing protein 1 OS=Mus musculus GN=Atad1 PE=1 SV=1

 Score =  291 bits (745), Expect = 6e-78,   Method: Compositional matrix adjust.
 Identities = 142/316 (44%), Positives = 210/316 (66%), Gaps = 1/316 (0%)

Query: 38  LDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIK 97
           +DP R+   +A +  +++ K++G   ++ + YE  IA  +++P ++ V +  I GL+ + 
Sbjct: 41  IDPTRKQKVEAQKQAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVI 100

Query: 98  QALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS 157
             L + VILP+++  LF + +LL P KGVLLYGPPG GKT++AKA AKE+G  FIN++ S
Sbjct: 101 TDLKDTVILPIKKKHLFENSRLLQPPKGVLLYGPPGCGKTLIAKATAKEAGCRFINLQPS 160

Query: 158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW 217
            L  KW+G++QKL AAVFSLA KLQP+IIFIDE+DSFL  R +SDHEA   MK +FM+LW
Sbjct: 161 TLTDKWYGESQKLAAAVFSLAIKLQPSIIFIDEIDSFLRNRSSSDHEATAMMKAQFMSLW 220

Query: 218 DGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE 277
           DG  TD + +V+V+ ATNRP +LD AI+RR+P  F I  P  K+R  ILK+ILK E V+ 
Sbjct: 221 DGLDTDHSCQVIVMGATNRPQDLDSAIMRRMPTRFHINQPALKQREAILKLILKNENVDR 280

Query: 278 NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE-ERKGKPAAAPRPLSRLDLEKVL 336
           ++D   +A   +GF+GSDL E+C+ AA   +RE ++    +       RP+ + DL + +
Sbjct: 281 HVDLLEVAQETDGFSGSDLKEMCRDAALLCVREYVNSTSEESHDEDEIRPVQQQDLHRAI 340

Query: 337 TTSRKTRVAATEYTLN 352
              +K++ AA +  L 
Sbjct: 341 EKMKKSKDAAFQNVLT 356

ATPase that plays a critical role in regulating the surface expression of AMPA receptors (AMPAR), thereby regulating synaptic plasticity and learning and memory. Required for NMDA-stimulated AMPAR internalization and inhibition of GRIA1 and GRIA2 recycling back to the plasma membrane; these activities are ATPase-dependent.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 3

>sp|Q8NBU5|ATAD1_HUMAN ATPase family AAA domain-containing protein 1 OS=Homo sapiens GN=ATAD1 PE=1 SV=1

 Score =  291 bits (745), Expect = 6e-78,   Method: Compositional matrix adjust.
 Identities = 142/316 (44%), Positives = 210/316 (66%), Gaps = 1/316 (0%)

Query: 38  LDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIK 97
           +DP R+   +A +  +++ K++G   ++ + YE  IA  +++P ++ V +  I GL+ + 
Sbjct: 41  IDPTRKQKVEAQKQAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVI 100

Query: 98  QALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS 157
             L + VILP+++  LF + +LL P KGVLLYGPPG GKT++AKA AKE+G  FIN++ S
Sbjct: 101 TDLKDTVILPIKKKHLFENSRLLQPPKGVLLYGPPGCGKTLIAKATAKEAGCRFINLQPS 160

Query: 158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW 217
            L  KW+G++QKL AAVFSLA KLQP+IIFIDE+DSFL  R +SDHEA   MK +FM+LW
Sbjct: 161 TLTDKWYGESQKLAAAVFSLAIKLQPSIIFIDEIDSFLRNRSSSDHEATAMMKAQFMSLW 220

Query: 218 DGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE 277
           DG  TD + +V+V+ ATNRP +LD AI+RR+P  F I  P  K+R  ILK+ILK E V+ 
Sbjct: 221 DGLDTDHSCQVIVMGATNRPQDLDSAIMRRMPTRFHINQPALKQREAILKLILKNENVDR 280

Query: 278 NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE-ERKGKPAAAPRPLSRLDLEKVL 336
           ++D   +A   +GF+GSDL E+C+ AA   +RE ++    +       RP+ + DL + +
Sbjct: 281 HVDLLEVAQETDGFSGSDLKEMCRDAALLCVREYVNSTSEESHDEDEIRPVQQQDLHRAI 340

Query: 337 TTSRKTRVAATEYTLN 352
              +K++ AA +  L 
Sbjct: 341 EKMKKSKDAAFQNVLT 356

ATPase that plays a critical role in regulating the surface expression of AMPA receptors (AMPAR), thereby regulating synaptic plasticity and learning and memory. Required for NMDA-stimulated AMPAR internalization and inhibition of GRIA1 and GRIA2 recycling back to the plasma membrane; these activities are ATPase-dependent.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 3

>sp|F6QV99|ATAD1_BOVIN ATPase family AAA domain-containing protein 1 OS=Bos taurus GN=ATAD1 PE=2 SV=2

 Score =  291 bits (745), Expect = 6e-78,   Method: Compositional matrix adjust.
 Identities = 142/316 (44%), Positives = 210/316 (66%), Gaps = 1/316 (0%)

Query: 38  LDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIK 97
           +DP R+   +A +  +++ K++G   ++ + YE  IA  +++P ++ V +  I GL+ + 
Sbjct: 41  IDPTRKQKVEAQKQAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVI 100

Query: 98  QALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS 157
             L + VILP+++  LF + +LL P KGVLLYGPPG GKT++AKA AKE+G  FIN++ S
Sbjct: 101 TDLKDTVILPIKKKHLFENSRLLQPPKGVLLYGPPGCGKTLIAKATAKEAGCRFINLQPS 160

Query: 158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW 217
            L  KW+G++QKL AAVFSLA KLQP+IIFIDE+DSFL  R +SDHEA   MK +FM+LW
Sbjct: 161 TLTDKWYGESQKLAAAVFSLAIKLQPSIIFIDEIDSFLRNRSSSDHEATAMMKAQFMSLW 220

Query: 218 DGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE 277
           DG  TD + +V+V+ ATNRP +LD AI+RR+P  F I  P  K+R  ILK+ILK E V+ 
Sbjct: 221 DGLDTDHSCQVIVMGATNRPQDLDSAIMRRMPTRFHINQPALKQREAILKLILKNENVDR 280

Query: 278 NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE-ERKGKPAAAPRPLSRLDLEKVL 336
           ++D   +A   +GF+GSDL E+C+ AA   +RE ++    +       RP+ + DL + +
Sbjct: 281 HVDLLEVAQETDGFSGSDLKEMCRDAALLCVREYVNSTSEESHDEDEIRPVQQQDLHRAI 340

Query: 337 TTSRKTRVAATEYTLN 352
              +K++ AA +  L 
Sbjct: 341 EKMKKSKDAAFQNVLT 356

ATPase that plays a critical role in regulating the surface expression of AMPA receptors (AMPAR), thereby regulating synaptic plasticity and learning and memory. Required for NMDA-stimulated AMPAR internalization and inhibition of GRIA1 and GRIA2 recycling back to the plasma membrane; these activities are ATPase-dependent.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 3

>sp|B4F6J6|ATAD1_XENTR ATPase family AAA domain-containing protein 1 OS=Xenopus tropicalis GN=atad1 PE=2 SV=2

 Score =  290 bits (743), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 140/314 (44%), Positives = 207/314 (65%)

Query: 38  LDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIK 97
           +DP R+   +A +  +++ +++G   ++   YE  IA  +++P  + V +  I GL+ + 
Sbjct: 41  IDPTRKQKVEAQKQAEKLMRQIGVKNVKLTEYEMSIAAHLVDPLSMLVTWSDIAGLDDVI 100

Query: 98  QALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS 157
             L + VILP+R+  LF + +LL P KGVLLYGPPG GKTM+AKA AKE+G  FIN++ S
Sbjct: 101 TDLKDTVILPIRKRYLFENSRLLQPPKGVLLYGPPGCGKTMIAKATAKEAGCRFINLQPS 160

Query: 158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW 217
            L  KW+G++QKL AAVFSLA KLQP+IIFIDE+DSFL  R +SDHEA   MK +FM+LW
Sbjct: 161 TLTDKWYGESQKLAAAVFSLAVKLQPSIIFIDEIDSFLRSRSSSDHEATAMMKAQFMSLW 220

Query: 218 DGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE 277
           DG  TD N +V+V+ ATNRP +LD AI+RR+P  F I  P  K+R  IL +IL+ E V+ 
Sbjct: 221 DGLDTDFNCQVIVMGATNRPQDLDTAIMRRMPTRFHINQPSLKQREAILDLILRNESVDS 280

Query: 278 NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLT 337
           ++D   +A   +GF+GSDL E+C+ AA   +R+ ++   +  P    RP+ + DL + + 
Sbjct: 281 HVDLMEIARGSDGFSGSDLKEMCRDAALLCVRDSVNNSSEESPCEEIRPIHQQDLLRAID 340

Query: 338 TSRKTRVAATEYTL 351
             ++++ A  +  L
Sbjct: 341 KMKRSKSATNQNVL 354

ATPase that plays a critical role in regulating the surface expression of AMPA receptors (AMPAR). Required for NMDA-stimulated AMPAR internalization in an ATPase-dependent manner.

Xenopus tropicalis (taxid: 8364)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 3

>sp|Q7ZZ25|ATD1A_DANRE ATPase family AAA domain-containing protein 1-A OS=Danio rerio GN=atad1a PE=2 SV=2

 Score =  288 bits (736), Expect = 7e-77,   Method: Compositional matrix adjust.
 Identities = 143/322 (44%), Positives = 208/322 (64%), Gaps = 14/322 (4%)

Query: 38  LDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIK 97
           LDP ++   +A +  +++ K++G   +    YE  IA  +++P  I V +  + GL+ I 
Sbjct: 44  LDPTQKQKSQAKKRAEQLMKQIGVEGVSLTEYEMNIATLLVDPRSIKVTWRDVAGLDEII 103

Query: 98  QALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS 157
             + + VILP ++  LFS  KLL P KGVLLYGPPG GKT++AKA AK SG  FIN++ S
Sbjct: 104 SEMQDTVILPFQKRHLFSGSKLLQPPKGVLLYGPPGCGKTLIAKATAKASGCRFINLQAS 163

Query: 158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW 217
            L  KW+G++QKL AAVFSLA K+QP IIF+DE+DSFL  R + DHEA   MK +FM+LW
Sbjct: 164 TLTDKWYGESQKLTAAVFSLAVKIQPCIIFLDEIDSFLRNRSSMDHEATAMMKAQFMSLW 223

Query: 218 DGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE 277
           DG  T +N++VMV+ ATNRP ++D AILRR+P AF +G+P+  +R +IL++IL GE +  
Sbjct: 224 DGLDTGENSQVMVMGATNRPQDVDAAILRRMPTAFHVGLPNAAQREEILRLILSGENLSN 283

Query: 278 NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIREL--------------LDEERKGKPAAA 323
            I+   +A   EG++GSDL E+C+ AA + +R+               LDEE +   +  
Sbjct: 284 AINLKEIASQSEGYSGSDLKELCRDAAMYRVRDYVRKQQMKQIAQQFQLDEEEEHVDSRQ 343

Query: 324 PRPLSRLDLEKVLTTSRKTRVA 345
            RP+++LDL   L   R+++ A
Sbjct: 344 LRPVTQLDLLFGLDKMRESKQA 365

ATPase that plays a critical role in regulating the surface expression of AMPA receptors (AMPAR). Required for NMDA-stimulated AMPAR internalization in an ATPase-dependent manner.

Danio rerio (taxid: 7955)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 3

>sp|Q503W7|ATD1B_DANRE ATPase family AAA domain-containing protein 1-B OS=Danio rerio GN=atad1b PE=2 SV=2

 Score =  284 bits (727), Expect = 7e-76,   Method: Compositional matrix adjust.
 Identities = 137/311 (44%), Positives = 207/311 (66%), Gaps = 2/311 (0%)

Query: 38  LDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIK 97
           +DP R+   +A +  +++ +++G   ++ + YE  IA  +++P  + + +  I GL+ + 
Sbjct: 45  IDPTRKQKVEAQKQAEKLMRQIGVQNVKLSEYEMSIAAHLVDPLTMQITWHDIAGLDEVI 104

Query: 98  QALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS 157
             L + VILP+++  LF   +LL P KGVLLYGPPG GKT++AKA AKE+G  FIN++ S
Sbjct: 105 TELKDTVILPIQKRHLFEGSRLLQPPKGVLLYGPPGCGKTLIAKATAKEAGFRFINLQPS 164

Query: 158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW 217
            L  KW+G++QKL AAVFSLA KLQP+IIFIDE+DSFL  R +SDHEA   MK +FM+LW
Sbjct: 165 TLTDKWYGESQKLAAAVFSLAIKLQPSIIFIDEIDSFLRNRSSSDHEATAMMKAQFMSLW 224

Query: 218 DGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE 277
           DG  TD N +V+++ ATNRP +LD AILRR+P  F I  P+ ++R  ILK+IL+ E VE 
Sbjct: 225 DGLDTDYNCQVIIMGATNRPQDLDSAILRRMPTRFHINQPNVRQRKDILKLILENENVES 284

Query: 278 NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLT 337
            ++   +A   +GF+GSDL E+C+ AA   +R+ + +E   +     RP+ + DL++ + 
Sbjct: 285 AVELSEIAKQTDGFSGSDLREMCRDAALLCVRDFVHQESPEEDFI--RPIRQEDLQRAIE 342

Query: 338 TSRKTRVAATE 348
             +K++ A   
Sbjct: 343 KMKKSKSAGVH 353

ATPase that plays a critical role in regulating the surface expression of AMPA receptors (AMPAR). Required for NMDA-stimulated AMPAR internalization in an ATPase-dependent manner.

Danio rerio (taxid: 7955)

EC: 3

EC: .

EC: 6

EC: .

EC: 1

EC: .

EC: 3

>sp|P28737|MSP1_YEAST Protein MSP1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=MSP1 PE=1 SV=2

 Score =  271 bits (692), Expect = 9e-72,   Method: Compositional matrix adjust.
 Identities = 143/326 (43%), Positives = 211/326 (64%), Gaps = 21/326 (6%)

Query: 41  NREA-SKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIKQA 99
           +RE+ +K++L+ +K + +      +  + YE  I   ++ PD I++ F+ IGGL+ +   
Sbjct: 43  SRESKAKQSLQWEKLVKRSPALAEVTLDAYERTILSSIVTPDEINITFQDIGGLDPLISD 102

Query: 100 LYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL 159
           L+E VI PL  PE++S+  LL    GVLLYGPPG GKTMLAKA+AKESGA FI++R+S++
Sbjct: 103 LHESVIYPLMMPEVYSNSPLLQAPSGVLLYGPPGCGKTMLAKALAKESGANFISIRMSSI 162

Query: 160 MSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDG 219
           M KW+G++ K+V A+FSLA KLQP IIFIDE+DSFL +R ++DHE    +K EFM LWDG
Sbjct: 163 MDKWYGESNKIVDAMFSLANKLQPCIIFIDEIDSFLRERSSTDHEVTATLKAEFMTLWDG 222

Query: 220 FTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEEN- 278
                N RVM++ ATNR +++D+A LRRLP+ F + +P   +R +IL V+LK  K++E+ 
Sbjct: 223 LL--NNGRVMIIGATNRINDIDDAFLRRLPKRFLVSLPGSDQRYKILSVLLKDTKLDEDE 280

Query: 279 IDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERK----------GKPAAAPRPLS 328
            D   +A   +GF+GSDL E+C++AA  + +E + ++R+             +   RPL 
Sbjct: 281 FDLQLIADNTKGFSGSDLKELCREAALDAAKEYIKQKRQLIDSGTIDVNDTSSLKIRPLK 340

Query: 329 RLDLEKVLTTSRKTRVAATEYTLNSQ 354
             D  K      K R+ AT  TL+SQ
Sbjct: 341 TKDFTK------KLRMDATS-TLSSQ 359

Involved in intramitochondrial sorting of proteins.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q9P7J5|YJNA_SCHPO Uncharacterized AAA domain-containing protein C24B10.10c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPCC24B10.10c PE=3 SV=1

 Score =  269 bits (687), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 136/316 (43%), Positives = 206/316 (65%), Gaps = 8/316 (2%)

Query: 7   NSSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKAL-EHKKEISKRLGRPL-- 63
           N +  + ++E+++YA +   S       L  LDP R+  +  + + +K + +  G  +  
Sbjct: 2   NPTTKRAIKEIVVYALAFGCSWYAAHKLLSTLDPYRQKRQDTVSKSRKRLDEWAGEQVKE 61

Query: 64  ---IQTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELF-SHGKL 119
              ++ N YE ++A  ++ P  IDV F+ IGG++     L + V+ PL+ PE+F +HG L
Sbjct: 62  LETLELNEYEQIVASQLVLPSEIDVSFDDIGGMDEHVNQLLQDVLFPLKYPEVFDTHGGL 121

Query: 120 LGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAY 179
           L   KG+LLYGPPG GKTMLAKA+AK+S A FINV +  L  KWFG++ KLV A+F+LA 
Sbjct: 122 LSCPKGLLLYGPPGCGKTMLAKALAKQSQATFINVSVGLLTDKWFGESNKLVDALFTLAR 181

Query: 180 KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE 239
           KL+P IIFIDE+D+FL QR+ +DHEA+  +K EFM++WDG  + Q +RV+VL ATNRP++
Sbjct: 182 KLEPTIIFIDEIDTFLRQRQRTDHEAMAQIKAEFMSMWDGLLSGQ-SRVLVLGATNRPAD 240

Query: 240 LDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEV 299
           +DEAI RR+P+ F I +P+ ++R +IL++ LK   +E N D++ +     G +GS + EV
Sbjct: 241 IDEAIRRRMPKVFSIPLPNAEQRRKILELYLKKVPLEANFDWNGVVNATAGLSGSYIKEV 300

Query: 300 CKQAAYFSIRELLDEE 315
           C+ A     REL D+ 
Sbjct: 301 CRSALSVPRRELFDKH 316

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

>sp|P54815|MSP1_CAEEL Mitochondrial sorting homolog OS=Caenorhabditis elegans GN=mspn-1 PE=3 SV=2

 Score =  247 bits (631), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 120/270 (44%), Positives = 183/270 (67%), Gaps = 3/270 (1%)

Query: 35  LRHLDPNREASKKALEHKKEISKRLG-RPLIQTNPYEDVIACDVINPDHIDVEFESIGGL 93
           +++LDPN   ++++ +   ++   LG    I+ + +E  IA   +  + +  +++ IGG 
Sbjct: 29  VKYLDPNYSVNEESKKKVAQLFHELGIDRQIELSEHEIRIATQFVGGEDVGADWDEIGGC 88

Query: 94  ETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFIN 153
           E +   L + +ILPLR     S   LL P +G+LLYGPPG GKT+LAKA+A+ +G  FIN
Sbjct: 89  EELVAELKDRIILPLRFASQ-SGSHLLSPPRGILLYGPPGCGKTLLAKAVARAAGCRFIN 147

Query: 154 VRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEF 213
           +++SNL  KW+G++QKL AAVFS+A K QP IIFIDE+DSFL  R++ DHE+   MK +F
Sbjct: 148 LQVSNLTDKWYGESQKLAAAVFSVAQKFQPTIIFIDEIDSFLRDRQSHDHESTAMMKAQF 207

Query: 214 MALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGE 273
           M LWDGF++  + +++V+ ATNRP ++D AILRR+   F++ +P+ K+R+QIL VIL+ E
Sbjct: 208 MTLWDGFSSSGD-QIIVMGATNRPRDVDAAILRRMTARFQVPVPNAKQRSQILNVILRNE 266

Query: 274 KVEENIDFDYLAGLCEGFTGSDLLEVCKQA 303
           K+   ++   +A   EG +GSDL EVC+ A
Sbjct: 267 KINNTVNLGEIAQAAEGLSGSDLKEVCRLA 296

Involved in intramitochondrial sorting of proteins.

Caenorhabditis elegans (taxid: 6239)

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	396
225455284	867	PREDICTED: uncharacterized protein LOC10	0.972	0.444	0.863	0.0
449456399	392	PREDICTED: ATPase family AAA domain-cont	0.982	0.992	0.862	0.0
15234242	398	26S proteasome regulatory particle chain	0.977	0.972	0.833	0.0
297803328	398	hypothetical protein ARALYDRAFT_492017 [	0.977	0.972	0.820	0.0
399920235	394	AAA domain-containing protein [Rosa rugo	0.984	0.989	0.818	0.0
224132668	390	predicted protein [Populus trichocarpa]	0.979	0.994	0.857	0.0
356552741	390	PREDICTED: ATPase family AAA domain-cont	0.979	0.994	0.813	0.0
363814356	392	uncharacterized protein LOC100796908 [Gl	0.984	0.994	0.829	0.0
388523063	374	unknown [Lotus japonicus]	0.941	0.997	0.826	0.0
302143952	700	unnamed protein product [Vitis vinifera]	0.878	0.497	0.882	0.0

>gi|225455284|ref|XP_002271615.1| PREDICTED: uncharacterized protein LOC100264007 [Vitis vinifera]

 Score =  699 bits (1805), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 335/388 (86%), Positives = 368/388 (94%), Gaps = 3/388 (0%)

Query: 10  ETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLIQTNPY 69
           ET+FLQEL+LYAASAALSCLVLFAGLRHLDPNRE+SKKALEH+KEI+KRLGRPLIQTN Y
Sbjct: 3   ETRFLQELVLYAASAALSCLVLFAGLRHLDPNRESSKKALEHRKEIAKRLGRPLIQTNSY 62

Query: 70  EDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLY 129
           EDVIACDVINPDHIDVEF+SIGGLETIKQAL ELVILPLRRPELFSHGKLLGPQKGVLLY
Sbjct: 63  EDVIACDVINPDHIDVEFDSIGGLETIKQALVELVILPLRRPELFSHGKLLGPQKGVLLY 122

Query: 130 GPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFID 189
           GPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFID
Sbjct: 123 GPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFID 182

Query: 190 EVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLP 249
           EVD+FLGQRRT+DHEA+ NMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLP
Sbjct: 183 EVDTFLGQRRTTDHEAMANMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLP 242

Query: 250 QAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIR 309
           QAFEIG+PDR+ER +ILKV+LKGEKV ++I++D +A LCEG+TGSD+LE+CK+AAYF IR
Sbjct: 243 QAFEIGIPDRRERVEILKVVLKGEKVADDINYDRIASLCEGYTGSDILELCKKAAYFPIR 302

Query: 310 ELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEYT-LNSQSSGWSRNNESNDYQ 368
           ELLD+E+ GKP+ APRPLS+LDLEKVL TSRKT+VAA+EYT LN QSSGWS N E +DYQ
Sbjct: 303 ELLDDEKNGKPSPAPRPLSQLDLEKVLATSRKTKVAASEYTGLNPQSSGWSGNREPDDYQ 362

Query: 369 VQAAISELSRLVVSQIMNIQSEPDTQDP 396
           VQ+AI ELS+LV+SQIMN+QS  D QDP
Sbjct: 363 VQSAIGELSKLVLSQIMNLQS--DAQDP 388

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449456399|ref|XP_004145937.1| PREDICTED: ATPase family AAA domain-containing protein 1-A-like [Cucumis sativus] gi|449497367|ref|XP_004160382.1| PREDICTED: ATPase family AAA domain-containing protein 1-A-like [Cucumis sativus]

 Score =  699 bits (1804), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 339/393 (86%), Positives = 373/393 (94%), Gaps = 4/393 (1%)

Query: 5   MGN-SSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPL 63
           MG+ SSET+F+QELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEI+KRLGRPL
Sbjct: 1   MGSGSSETRFVQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEIAKRLGRPL 60

Query: 64  IQTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQ 123
           IQTNPYEDVIACDVINPDHIDVEF SIGGLE+IKQAL ELVILPL+RPELFSHGKLLGPQ
Sbjct: 61  IQTNPYEDVIACDVINPDHIDVEFNSIGGLESIKQALIELVILPLKRPELFSHGKLLGPQ 120

Query: 124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQP 183
           KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQP
Sbjct: 121 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQP 180

Query: 184 AIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEA 243
           AIIFIDEVDSFLGQRRT+DHEA+TNMKTEFMALWDGFTTDQ+ARVMVLAATNRPSELDEA
Sbjct: 181 AIIFIDEVDSFLGQRRTTDHEAMTNMKTEFMALWDGFTTDQSARVMVLAATNRPSELDEA 240

Query: 244 ILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQA 303
           ILRRLPQAFEIG+PDR+ER +ILKVILKGE+VE NID+D +A LCEG+TGSD+LE+CK+A
Sbjct: 241 ILRRLPQAFEIGIPDRRERVEILKVILKGERVENNIDYDRVASLCEGYTGSDILELCKKA 300

Query: 304 AYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEYT-LNSQSSGWSRNN 362
           AYF IR+LLDEE+KGK ++ PRPLS+ DLEKVL TS KT+VAA+EYT L+S SSGW+ + 
Sbjct: 301 AYFPIRDLLDEEKKGKQSSEPRPLSQSDLEKVLATSTKTKVAASEYTGLSSNSSGWTGHR 360

Query: 363 ESNDYQVQAAISELSRLVVSQIMNIQSEPDTQD 395
           E+ DY+VQAAISELS+LVVSQI+NIQS  DT+D
Sbjct: 361 EAGDYEVQAAISELSKLVVSQILNIQS--DTRD 391

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15234242|ref|NP_194498.1| 26S proteasome regulatory particle chain RPT6-like protein [Arabidopsis thaliana] gi|4469019|emb|CAB38280.1| putative protein [Arabidopsis thaliana] gi|7269622|emb|CAB81418.1| putative protein [Arabidopsis thaliana] gi|20260328|gb|AAM13062.1| putative protein [Arabidopsis thaliana] gi|21553404|gb|AAM62497.1| 26S proteasome regulatory particle chain RPT6-like protein [Arabidopsis thaliana] gi|23197836|gb|AAN15445.1| putative protein [Arabidopsis thaliana] gi|110740771|dbj|BAE98483.1| hypothetical protein [Arabidopsis thaliana] gi|332659980|gb|AEE85380.1| 26S proteasome regulatory particle chain RPT6-like protein [Arabidopsis thaliana]

 Score =  675 bits (1742), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 326/391 (83%), Positives = 364/391 (93%), Gaps = 4/391 (1%)

Query: 5   MGNSSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLI 64
           MG SSETK LQELILYAASAA SCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPL+
Sbjct: 1   MGGSSETKILQELILYAASAAFSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLV 60

Query: 65  QTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQK 124
           QTNPYEDVIACDVINPDHIDVEF SIGGLETIKQALYELVILPL+RPELF++GKLLGPQK
Sbjct: 61  QTNPYEDVIACDVINPDHIDVEFGSIGGLETIKQALYELVILPLKRPELFAYGKLLGPQK 120

Query: 125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPA 184
           GVLLYGPPGTGKTMLAKAIAKESGAVFINVR+SNLMSKWFGDAQKLV+AVFSLAYKLQPA
Sbjct: 121 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRVSNLMSKWFGDAQKLVSAVFSLAYKLQPA 180

Query: 185 IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAI 244
           IIFIDEV+SFLGQRR++DHEA+ NMKTEFMALWDGF+TD +ARVMVLAATNRPSELDEAI
Sbjct: 181 IIFIDEVESFLGQRRSTDHEAMANMKTEFMALWDGFSTDPHARVMVLAATNRPSELDEAI 240

Query: 245 LRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAA 304
           LRRLPQAFEIG+PDR+ERA+ILKV LKGE+VE +IDFD++A LCEG+TGSD+ E+CK+AA
Sbjct: 241 LRRLPQAFEIGIPDRRERAEILKVTLKGERVEPDIDFDHIARLCEGYTGSDIFELCKKAA 300

Query: 305 YFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEYTLNSQSSGWSRNNES 364
           YF IRE+LD ERKGKP   PRPLS+LDLEKVL TS+KT+VAA EY+L+SQSS W  + E 
Sbjct: 301 YFPIREILDAERKGKPCLDPRPLSQLDLEKVLATSKKTQVAAGEYSLSSQSSAWRGSREP 360

Query: 365 NDYQVQAAISELSRLVVSQIMNIQSEPDTQD 395
           +  +VQAAIS +S+L+VSQI+N+QSE  +QD
Sbjct: 361 D--EVQAAISGISKLLVSQIINLQSE--SQD 387

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297803328|ref|XP_002869548.1| hypothetical protein ARALYDRAFT_492017 [Arabidopsis lyrata subsp. lyrata] gi|297315384|gb|EFH45807.1| hypothetical protein ARALYDRAFT_492017 [Arabidopsis lyrata subsp. lyrata]

 Score =  671 bits (1730), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 321/391 (82%), Positives = 365/391 (93%), Gaps = 4/391 (1%)

Query: 5   MGNSSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLI 64
           MG SSETK LQELILYAASAA SCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPL+
Sbjct: 1   MGRSSETKILQELILYAASAAFSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLV 60

Query: 65  QTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQK 124
           QTNPYEDVIACDVINPDHI+VEF+SIGGLETIKQALYELVILPL+RPELF++GKLLGPQK
Sbjct: 61  QTNPYEDVIACDVINPDHINVEFDSIGGLETIKQALYELVILPLKRPELFAYGKLLGPQK 120

Query: 125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPA 184
           GVLLYGPPGTGKTMLAKAIAKESGAVFINVR+SNLMSKWFGDAQKLV+AVFSLAYKLQPA
Sbjct: 121 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRVSNLMSKWFGDAQKLVSAVFSLAYKLQPA 180

Query: 185 IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAI 244
           IIFIDEV+SFLGQRR++DHEA+ NMKTEFMALWDGF+TD +ARVMVLAATNRPSELDEAI
Sbjct: 181 IIFIDEVESFLGQRRSTDHEAMANMKTEFMALWDGFSTDPHARVMVLAATNRPSELDEAI 240

Query: 245 LRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAA 304
           LRRLPQAFEIG+PDR+ERA+ILKV LKGE+VE +IDFD++A LCEG+TGSD+ E+CK+AA
Sbjct: 241 LRRLPQAFEIGIPDRRERAEILKVTLKGERVEPDIDFDHIARLCEGYTGSDIFELCKKAA 300

Query: 305 YFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEYTLNSQSSGWSRNNES 364
           YF IRE+L+ ERKG P  APRPLS+LD EKVL TS+KT+VAA EY+L+SQSS W  ++E 
Sbjct: 301 YFPIREILEAERKGTPCLAPRPLSQLDFEKVLATSKKTQVAAGEYSLSSQSSAWRGSSEP 360

Query: 365 NDYQVQAAISELSRLVVSQIMNIQSEPDTQD 395
           +  +VQAAIS +S+L++SQI+N+Q+  D+QD
Sbjct: 361 D--EVQAAISGISKLLLSQIINLQA--DSQD 387

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|399920235|gb|AFP55582.1| AAA domain-containing protein [Rosa rugosa]

 Score =  670 bits (1728), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 324/396 (81%), Positives = 365/396 (92%), Gaps = 6/396 (1%)

Query: 5   MGNSSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLI 64
           M +  ETKFLQELILYAASAA+SCLVLF GLRHLDPNREASKKA+EHKKEI+KRLGRPLI
Sbjct: 1   MASQRETKFLQELILYAASAAMSCLVLFVGLRHLDPNREASKKAMEHKKEIAKRLGRPLI 60

Query: 65  QTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQK 124
            TNPYEDVIACDVINPDHIDVEF SIGGLE IK+AL+ELVILPL+RP+LF+HGKLLGPQK
Sbjct: 61  HTNPYEDVIACDVINPDHIDVEFNSIGGLEAIKEALFELVILPLKRPDLFNHGKLLGPQK 120

Query: 125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPA 184
           GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLV+AVFSLA+KLQPA
Sbjct: 121 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVSAVFSLAHKLQPA 180

Query: 185 IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAI 244
           IIFIDEVDSFLGQRRT++HEALTNMKTEFMALWDGFTTDQ+ARVMVLAATNRPSELDEAI
Sbjct: 181 IIFIDEVDSFLGQRRTTEHEALTNMKTEFMALWDGFTTDQHARVMVLAATNRPSELDEAI 240

Query: 245 LRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAA 304
           LRRLPQAFEIGMP++++RA+ILKV+LKGE+VE+NID+D LA L EG++GSDLLE+CK+AA
Sbjct: 241 LRRLPQAFEIGMPNQRDRAEILKVVLKGERVEKNIDYDRLAALAEGYSGSDLLELCKKAA 300

Query: 305 YFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEY--TLNSQSS--GWSR 360
           YF IR+LLDEE++GK A+ PRPL++ DLE VL TSR T+VAA +Y   LNS SS  G SR
Sbjct: 301 YFPIRDLLDEEKRGKKASVPRPLTQKDLENVLATSRHTKVAANDYYTVLNSPSSSPGLSR 360

Query: 361 NNESNDYQVQAAISELSRLVVSQIMNIQSEPDTQDP 396
           N ES +  VQAAI+ELS+LVVSQI+NIQ++P  QDP
Sbjct: 361 NRESGEIPVQAAINELSKLVVSQILNIQTDP--QDP 394

Source: Rosa rugosa

Species: Rosa rugosa

Genus: Rosa

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224132668|ref|XP_002321379.1| predicted protein [Populus trichocarpa] gi|222868375|gb|EEF05506.1| predicted protein [Populus trichocarpa]

 Score =  669 bits (1726), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 336/392 (85%), Positives = 367/392 (93%), Gaps = 4/392 (1%)

Query: 5   MGNSSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLI 64
           M  SSETKFLQEL+LYAASAALSCLVLFAGLR LDPNREASKKALEHKKEI+KRLGRPLI
Sbjct: 1   MRGSSETKFLQELLLYAASAALSCLVLFAGLRQLDPNREASKKALEHKKEIAKRLGRPLI 60

Query: 65  QTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQK 124
           QTNPYEDVIACDVINPDHIDVEF SIGGLE IKQALYELVILPLRRPELFSHGKLLGPQK
Sbjct: 61  QTNPYEDVIACDVINPDHIDVEFGSIGGLEAIKQALYELVILPLRRPELFSHGKLLGPQK 120

Query: 125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPA 184
           GVLLYGPPGTGKTMLAKAIA+ESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPA
Sbjct: 121 GVLLYGPPGTGKTMLAKAIARESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPA 180

Query: 185 IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAI 244
           IIFIDEVDSFLGQRRT+DHEALTNMKTEFMALWDGFTTDQNA+VMVLAATNRPSELDEAI
Sbjct: 181 IIFIDEVDSFLGQRRTTDHEALTNMKTEFMALWDGFTTDQNAQVMVLAATNRPSELDEAI 240

Query: 245 LRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAA 304
           LRRLPQAFEIGMPD++ERA+ILKV+LKGEK+E +IDF+Y+A LCEG+TGSDLLE+CK+AA
Sbjct: 241 LRRLPQAFEIGMPDQRERAEILKVVLKGEKIENSIDFNYIASLCEGYTGSDLLELCKKAA 300

Query: 305 YFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEYTL-NSQSSGWSRNNE 363
           YF IRE+LDEE+KGK + APRPLS+ DL++VL TS KT VAA EY+  +SQS GW R  +
Sbjct: 301 YFPIREILDEEKKGKKSCAPRPLSQADLQRVLATSTKTGVAANEYSRSSSQSPGWPR--Q 358

Query: 364 SNDYQVQAAISELSRLVVSQIMNIQSEPDTQD 395
           S+DYQVQA I+ELS+L+VSQI+N+Q  PD QD
Sbjct: 359 SDDYQVQATINELSKLMVSQILNLQP-PDNQD 389

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356552741|ref|XP_003544721.1| PREDICTED: ATPase family AAA domain-containing protein 1-like [Glycine max]

 Score =  655 bits (1691), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 319/392 (81%), Positives = 357/392 (91%), Gaps = 4/392 (1%)

Query: 5   MGNSSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLI 64
           MG  +E+K +QEL+LYAASAALSCLVLF GLR LDPNREASKKA +HKKEI+KRLGRPL+
Sbjct: 1   MGRLAESKLVQELVLYAASAALSCLVLFVGLRQLDPNREASKKAFQHKKEIAKRLGRPLV 60

Query: 65  QTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQK 124
           QTNPYEDVIACDVINPD+IDVEF SIGGLETIK AL+ELVILPL+RP+LFSHGKLLGPQK
Sbjct: 61  QTNPYEDVIACDVINPDNIDVEFNSIGGLETIKLALFELVILPLKRPDLFSHGKLLGPQK 120

Query: 125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPA 184
           GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLV A+FSLA+KLQPA
Sbjct: 121 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVTAIFSLAHKLQPA 180

Query: 185 IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAI 244
           IIFIDEVDSFLGQRRT+DHEAL NMKTEFMALWDGFTTDQNA+VMVLAATNRPSELDEAI
Sbjct: 181 IIFIDEVDSFLGQRRTTDHEALLNMKTEFMALWDGFTTDQNAQVMVLAATNRPSELDEAI 240

Query: 245 LRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAA 304
           LRRLPQAFEIG+PD++ERA ILKVILKGE+VEENIDFD++A LCEG+TGSDL ++CK+AA
Sbjct: 241 LRRLPQAFEIGIPDQRERADILKVILKGERVEENIDFDHIAYLCEGYTGSDLFDLCKKAA 300

Query: 305 YFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEYT-LNSQSSGWSRNNE 363
           YF IRELLDEE+KG+  +APRPLS+LDLEKVL TSRKT VAA EY  L++ +  WS   E
Sbjct: 301 YFPIRELLDEEKKGRSFSAPRPLSQLDLEKVLATSRKTTVAAFEYNGLSADALRWSGQGE 360

Query: 364 SNDYQVQAAISELSRLVVSQIMNIQSEPDTQD 395
            +DYQVQAAI+EL + VVS ++N Q  PD +D
Sbjct: 361 QDDYQVQAAINEL-KFVVSHMINRQ--PDAKD 389

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363814356|ref|NP_001242817.1| uncharacterized protein LOC100796908 [Glycine max] gi|255634909|gb|ACU17813.1| unknown [Glycine max]

 Score =  655 bits (1690), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 327/394 (82%), Positives = 365/394 (92%), Gaps = 4/394 (1%)

Query: 5   MGNSSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLI 64
           MG SSETK +Q+L+LYAASAALSCLVLFAGLRHLDPNRE+SKKALEHKKEI+KRLGRPLI
Sbjct: 1   MGGSSETKLMQDLLLYAASAALSCLVLFAGLRHLDPNRESSKKALEHKKEIAKRLGRPLI 60

Query: 65  QTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQK 124
           QTNPYEDVIACD+INPDHIDVEF SIGGLETIKQAL+ELVILPL+RP+LFSHGKLLGPQK
Sbjct: 61  QTNPYEDVIACDIINPDHIDVEFNSIGGLETIKQALFELVILPLKRPDLFSHGKLLGPQK 120

Query: 125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPA 184
           GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPA
Sbjct: 121 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPA 180

Query: 185 IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAI 244
           IIFIDEVDSFLGQRRT+DHEAL NMKTEFMALWDGFTTDQNA+VMVL ATNRPSELDEAI
Sbjct: 181 IIFIDEVDSFLGQRRTTDHEALLNMKTEFMALWDGFTTDQNAQVMVLTATNRPSELDEAI 240

Query: 245 LRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAA 304
           LRRLPQAFEIG+PD++ER +ILKV+LKGE+VE+NIDF ++AGLCEG+TGSDL ++CK+AA
Sbjct: 241 LRRLPQAFEIGVPDQRERTEILKVVLKGERVEDNIDFGHIAGLCEGYTGSDLFDLCKKAA 300

Query: 305 YFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEYT-LNSQS-SGWSRNN 362
           YF IRELLDEE+KGK + APRPLS+LDLEK L TS+KT VAA+EY+  + QS S W+   
Sbjct: 301 YFPIRELLDEEKKGKRSPAPRPLSQLDLEKALATSQKTNVAASEYSGFSLQSPSRWTVPG 360

Query: 363 ESNDYQVQAAISELSRLVVSQIMNIQSEPDTQDP 396
           ES D Q QAAI E+S+LVVS ++N+QS  D+QDP
Sbjct: 361 ESGDSQFQAAIHEVSKLVVSHMINLQS--DSQDP 392

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388523063|gb|AFK49593.1| unknown [Lotus japonicus]

 Score =  647 bits (1669), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 315/381 (82%), Positives = 348/381 (91%), Gaps = 8/381 (2%)

Query: 17  LILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACD 76
           ++LYAASAALSCLVLF GLR LDPNREASKKALEHKKEI+KRLGRPLIQTNPYEDVIACD
Sbjct: 1   MLLYAASAALSCLVLFVGLRQLDPNREASKKALEHKKEIAKRLGRPLIQTNPYEDVIACD 60

Query: 77  VINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGK 136
           VINPDHIDVEF SIGGLE+IK+AL+ELVILPL+RP+LFSHGKLLGPQKGVLLYGPPGTGK
Sbjct: 61  VINPDHIDVEFGSIGGLESIKEALFELVILPLKRPDLFSHGKLLGPQKGVLLYGPPGTGK 120

Query: 137 TMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLG 196
           TMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLA+KLQPAI FIDEVDSFLG
Sbjct: 121 TMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAHKLQPAITFIDEVDSFLG 180

Query: 197 QRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGM 256
           QRRT+DHEAL NMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQ+FEIGM
Sbjct: 181 QRRTTDHEALLNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQSFEIGM 240

Query: 257 PDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEER 316
           PD+ ERA+ILKVILKGE+VE+NIDF ++A LCEG+TGSDL ++CK+AAYF IRELLD+E+
Sbjct: 241 PDQSERAEILKVILKGERVEDNIDFGHIAALCEGYTGSDLFDLCKKAAYFPIRELLDDEK 300

Query: 317 KGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEY-TLNSQSSGWSRNNESNDYQVQAAISE 375
           KGK + A RPLS LDL K L TSRKT+VAA EY  LN +  G     ES DYQ+QAAI+E
Sbjct: 301 KGKRSPASRPLSELDLAKALATSRKTKVAANEYGGLNLRVQG-----ESGDYQIQAAINE 355

Query: 376 LSRLVVSQIMNIQSEPDTQDP 396
            S+LVVS ++N+QS  D+QDP
Sbjct: 356 FSKLVVSHMVNLQS--DSQDP 374

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143952|emb|CBI23057.3| unnamed protein product [Vitis vinifera]

 Score =  646 bits (1667), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 308/349 (88%), Positives = 336/349 (96%), Gaps = 1/349 (0%)

Query: 10  ETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLIQTNPY 69
           ET+FLQEL+LYAASAALSCLVLFAGLRHLDPNRE+SKKALEH+KEI+KRLGRPLIQTN Y
Sbjct: 3   ETRFLQELVLYAASAALSCLVLFAGLRHLDPNRESSKKALEHRKEIAKRLGRPLIQTNSY 62

Query: 70  EDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLY 129
           EDVIACDVINPDHIDVEF+SIGGLETIKQAL ELVILPLRRPELFSHGKLLGPQKGVLLY
Sbjct: 63  EDVIACDVINPDHIDVEFDSIGGLETIKQALVELVILPLRRPELFSHGKLLGPQKGVLLY 122

Query: 130 GPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFID 189
           GPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFID
Sbjct: 123 GPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFID 182

Query: 190 EVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLP 249
           EVD+FLGQRRT+DHEA+ NMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLP
Sbjct: 183 EVDTFLGQRRTTDHEAMANMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLP 242

Query: 250 QAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIR 309
           QAFEIG+PDR+ER +ILKV+LKGEKV ++I++D +A LCEG+TGSD+LE+CK+AAYF IR
Sbjct: 243 QAFEIGIPDRRERVEILKVVLKGEKVADDINYDRIASLCEGYTGSDILELCKKAAYFPIR 302

Query: 310 ELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEYT-LNSQSSG 357
           ELLD+E+ GKP+ APRPLS+LDLEKVL TSRKT+VAA+EYT LN QSSG
Sbjct: 303 ELLDDEKNGKPSPAPRPLSQLDLEKVLATSRKTKVAASEYTGLNPQSSG 351

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	396
TAIR|locus:2137777	398	AT4G27680 [Arabidopsis thalian	0.977	0.972	0.833	3.4e-171
TAIR|locus:2168646	403	AT5G53540 [Arabidopsis thalian	0.984	0.967	0.759	8.9e-157
TAIR|locus:2133298	1265	AT4G02480 [Arabidopsis thalian	0.782	0.245	0.485	3e-73
UNIPROTKB|F1NT80	363	ATAD1 "Uncharacterized protein	0.777	0.848	0.461	1.1e-71
TAIR|locus:2031005	1003	AT1G50140 [Arabidopsis thalian	0.785	0.310	0.478	1.8e-71
UNIPROTKB|F6QV99	361	ATAD1 "ATPase family AAA domai	0.792	0.869	0.450	2.9e-71
UNIPROTKB|E2RHY1	369	ATAD1 "Uncharacterized protein	0.792	0.850	0.450	2.9e-71
UNIPROTKB|F1PX89	418	ATAD1 "Uncharacterized protein	0.792	0.751	0.450	2.9e-71
UNIPROTKB|Q8NBU5	361	ATAD1 "ATPase family AAA domai	0.792	0.869	0.450	2.9e-71
UNIPROTKB|F2Z5H2	365	ATAD1 "Uncharacterized protein	0.792	0.860	0.450	2.9e-71

TAIR|locus:2137777 AT4G27680 [Arabidopsis thaliana (taxid:3702)]

 Score = 1664 (590.8 bits), Expect = 3.4e-171, P = 3.4e-171
 Identities = 326/391 (83%), Positives = 364/391 (93%)

Query:     5 MGNSSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLI 64
             MG SSETK LQELILYAASAA SCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPL+
Sbjct:     1 MGGSSETKILQELILYAASAAFSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLV 60

Query:    65 QTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQK 124
             QTNPYEDVIACDVINPDHIDVEF SIGGLETIKQALYELVILPL+RPELF++GKLLGPQK
Sbjct:    61 QTNPYEDVIACDVINPDHIDVEFGSIGGLETIKQALYELVILPLKRPELFAYGKLLGPQK 120

Query:   125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPA 184
             GVLLYGPPGTGKTMLAKAIAKESGAVFINVR+SNLMSKWFGDAQKLV+AVFSLAYKLQPA
Sbjct:   121 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRVSNLMSKWFGDAQKLVSAVFSLAYKLQPA 180

Query:   185 IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAI 244
             IIFIDEV+SFLGQRR++DHEA+ NMKTEFMALWDGF+TD +ARVMVLAATNRPSELDEAI
Sbjct:   181 IIFIDEVESFLGQRRSTDHEAMANMKTEFMALWDGFSTDPHARVMVLAATNRPSELDEAI 240

Query:   245 LRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAA 304
             LRRLPQAFEIG+PDR+ERA+ILKV LKGE+VE +IDFD++A LCEG+TGSD+ E+CK+AA
Sbjct:   241 LRRLPQAFEIGIPDRRERAEILKVTLKGERVEPDIDFDHIARLCEGYTGSDIFELCKKAA 300

Query:   305 YFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEYTLNSQSSGWSRNNES 364
             YF IRE+LD ERKGKP   PRPLS+LDLEKVL TS+KT+VAA EY+L+SQSS W  + E 
Sbjct:   301 YFPIREILDAERKGKPCLDPRPLSQLDLEKVLATSKKTQVAAGEYSLSSQSSAWRGSREP 360

Query:   365 NDYQVQAAISELSRLVVSQIMNIQSEPDTQD 395
             ++  VQAAIS +S+L+VSQI+N+QSE  +QD
Sbjct:   361 DE--VQAAISGISKLLVSQIINLQSE--SQD 387

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

TAIR|locus:2168646 AT5G53540 [Arabidopsis thaliana (taxid:3702)]

 Score = 1528 (542.9 bits), Expect = 8.9e-157, P = 8.9e-157
 Identities = 300/395 (75%), Positives = 354/395 (89%)

Query:     2 VKRMGNSSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGR 61
             +KR     ++ F+++LILY ASAALS LVL+ GLR LDPNR+A+KK+LEHK+EI+KRLGR
Sbjct:     1 MKRSSGRKDSNFIEQLILYVASAALSSLVLYVGLRQLDPNRDAAKKSLEHKREIAKRLGR 60

Query:    62 PLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG 121
             PLIQTN YEDVIACDVINP HIDVEF SIGGLE+IKQALYELVILPL+RPELF++GKLLG
Sbjct:    61 PLIQTNQYEDVIACDVINPLHIDVEFGSIGGLESIKQALYELVILPLKRPELFAYGKLLG 120

Query:   122 PQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKL 181
             PQKGVLLYGPPGTGKTMLAKAIA+ES AVFINV++SNLMSKWFGDAQKLV+AVFSLAYKL
Sbjct:   121 PQKGVLLYGPPGTGKTMLAKAIARESEAVFINVKVSNLMSKWFGDAQKLVSAVFSLAYKL 180

Query:   182 QPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELD 241
             QPAIIFIDEVDSFLGQRR++D+EA++NMKTEFMALWDGFTTDQNARVMVLAATNRPSELD
Sbjct:   181 QPAIIFIDEVDSFLGQRRSTDNEAMSNMKTEFMALWDGFTTDQNARVMVLAATNRPSELD 240

Query:   242 EAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCK 301
             EAILRR PQ+FEIGMPD +ERAQILKV+LKGE VE +I++D +A LCE +TGSD+ E+CK
Sbjct:   241 EAILRRFPQSFEIGMPDCQERAQILKVVLKGESVESDINYDRIARLCEDYTGSDIFELCK 300

Query:   302 QAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEYT-LNSQSSGWSR 360
             +AAYF IRE+L+ E++GK  + PRPL++LDLEKVL TS+KT+VAA+EYT L+SQSS W  
Sbjct:   301 KAAYFPIREILEAEKEGKRVSVPRPLTQLDLEKVLATSKKTQVAASEYTGLSSQSSVWG- 359

Query:   361 NNESNDYQVQAAISELSRLVVSQIMNIQSEPDTQD 395
              + SN  +VQAAI+ +S+L VSQ+ NIQ  PD+QD
Sbjct:   360 -SPSNADEVQAAINGISKLFVSQLRNIQ--PDSQD 391

GO:0000166 "nucleotide binding" evidence=IEA

GO:0004176 "ATP-dependent peptidase activity" evidence=IEA

GO:0004252 "serine-type endopeptidase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISM

GO:0006508 "proteolysis" evidence=IEA

GO:0016887 "ATPase activity" evidence=ISS

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

TAIR|locus:2133298 AT4G02480 [Arabidopsis thaliana (taxid:3702)]

 Score = 748 (268.4 bits), Expect = 3.0e-73, P = 3.0e-73
 Identities = 153/315 (48%), Positives = 210/315 (66%)

Query:    53 KEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPE 112
             K + K L + ++  N +E  +  DVI P  I V F+ IG LE +K+ L ELV+LPL+RPE
Sbjct:   929 KSLKKSL-KDVVTENEFEKKLLSDVIPPSDIGVSFDDIGALENVKETLKELVMLPLQRPE 987

Query:   113 LFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVA 172
             LF  G+L  P KG+LL+GPPGTGKTMLAKA+A E+GA FIN+ +S++ SKWFG+ +K V 
Sbjct:   988 LFDKGQLTKPTKGILLFGPPGTGKTMLAKAVATEAGANFINISMSSITSKWFGEGEKYVK 1047

Query:   173 AVFSLAYKLQPAIIFIDEVDSFLGQRRT-SDHEALTNMKTEFMALWDGFTTDQNARVMVL 231
             AVFSLA K+ P++IF+DEVDS LG+R    +HEA+  MK EFM  WDG  T    RV+VL
Sbjct:  1048 AVFSLASKIAPSVIFVDEVDSMLGRRENPGEHEAMRKMKNEFMVNWDGLRTKDRERVLVL 1107

Query:   232 AATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGF 291
             AATNRP +LDEA++RRLP+   + +PD   R++IL VIL  E++  ++D + +A + +G+
Sbjct:  1108 AATNRPFDLDEAVIRRLPRRLMVNLPDATNRSKILSVILAKEEIAPDVDLEAIANMTDGY 1167

Query:   292 TGSDLLEVCKQAAYFSIRELLDEERKGKPAAAP--RPLSRL-DLEKVLTTSRKTRVAATE 348
             +GSDL  +C  AA+F IRE+L++E+K K AA    RP   L     V + +     AA +
Sbjct:  1168 SGSDLKNLCVTAAHFPIREILEKEKKEKTAAQAENRPTPPLYSCTDVRSLTMNDFKAAHD 1227

Query:   349 YTLNSQSSGWSRNNE 363
                 S SS  S  NE
Sbjct:  1228 QVCASVSSDSSNMNE 1242

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0006487 "protein N-linked glycosylation" evidence=RCA

GO:0009630 "gravitropism" evidence=RCA

UNIPROTKB|F1NT80 ATAD1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 725 (260.3 bits), Expect = 1.1e-71, P = 1.1e-71
 Identities = 143/310 (46%), Positives = 208/310 (67%)

Query:    38 LDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIK 97
             +DP R+   +A +  +++ K++G   ++ + YE  IA  +++P  + V +  I GL+ + 
Sbjct:    42 IDPTRKQKVEAQKQAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLSMHVTWNDIAGLDDVI 101

Query:    98 QALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS 157
               L + VILP+++  LF + +LL P KGVLLYGPPG GKT++AKA AKE+G  FIN++ S
Sbjct:   102 TDLKDTVILPIKKKYLFENSRLLQPPKGVLLYGPPGCGKTLIAKATAKEAGCRFINLQPS 161

Query:   158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW 217
              L  KW+G++QKL AAVFSLA KLQP+IIFIDE+DSFL  R +SDHEA   MK +FM+LW
Sbjct:   162 TLTDKWYGESQKLAAAVFSLAIKLQPSIIFIDEIDSFLRSRSSSDHEATAMMKAQFMSLW 221

Query:   218 DGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE 277
             DG  TD N +V+V+ ATNRP +LD AI+RR+P  F I  P  K+R  ILK+ILK E V+ 
Sbjct:   222 DGLDTDYNCQVIVMGATNRPQDLDSAIMRRMPTRFHINQPALKQREAILKLILKNENVDR 281

Query:   278 NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE--ERKGKPAAAPRPLSRLDLEKV 335
             ++D   +A   +GF+GSDL E+C+ AA   +RE ++   E + +     RP+ + DL + 
Sbjct:   282 HVDLLQVAKETDGFSGSDLKEMCRDAALLCVREYVNSACEEENRDEDEIRPVQQQDLHRA 341

Query:   336 LTTSRKTRVA 345
             +   RK++ A
Sbjct:   342 IEKMRKSKNA 351

GO:0005524 "ATP binding" evidence=IEA

GO:0002092 "positive regulation of receptor internalization" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0005778 "peroxisomal membrane" evidence=IEA

GO:0007612 "learning" evidence=IEA

GO:0007613 "memory" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0045211 "postsynaptic membrane" evidence=IEA

GO:0051967 "negative regulation of synaptic transmission, glutamatergic" evidence=IEA

TAIR|locus:2031005 AT1G50140 [Arabidopsis thaliana (taxid:3702)]

 Score = 723 (259.6 bits), Expect = 1.8e-71, P = 1.8e-71
 Identities = 156/326 (47%), Positives = 210/326 (64%)

Query:    30 VLFAGLRHLDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFES 89
             +  A LR L+ N   S K  ++ K I+K         + YE      V+ P  I V+FE 
Sbjct:   668 ISIARLRKLEDN---SLKPSQNLKNIAK---------DEYERNFVSAVVAPGEIGVKFED 715

Query:    90 IGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA 149
             IG LE +K+AL ELVILP+RRPELF+ G LL P KG+LL+GPPGTGKT+LAKA+A E+GA
Sbjct:   716 IGALEDVKKALNELVILPMRRPELFARGNLLRPCKGILLFGPPGTGKTLLAKALATEAGA 775

Query:   150 VFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRR-TSDHEALTN 208
              FI++  S L SKWFGDA+KL  A+FS A KL P IIF+DE+DS LG R  +S+HEA   
Sbjct:   776 NFISITGSTLTSKWFGDAEKLTKALFSFATKLAPVIIFVDEIDSLLGARGGSSEHEATRR 835

Query:   209 MKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKV 268
             M+ EFMA WDG  +  + R+++L ATNRP +LD+A++RRLP+   + +PD + R +ILK+
Sbjct:   836 MRNEFMAAWDGLRSKDSQRILILGATNRPFDLDDAVIRRLPRRIYVDLPDAENRLKILKI 895

Query:   269 ILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLS 328
              L  E +E +  F+ LA   EG++GSDL  +C  AAY  ++ELL EE+KG  A A   L 
Sbjct:   896 FLTPENLESDFQFEKLAKETEGYSGSDLKNLCIAAAYRPVQELLQEEQKGARAEASPGLR 955

Query:   329 RLDLEKVLTTSRKTR--VAATEYTLN 352
              L L+  + +  K    VA    T+N
Sbjct:   956 SLSLDDFIQSKAKVSPSVAYDATTMN 981

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=ISM

GO:0016887 "ATPase activity" evidence=ISS

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

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0007129 "synapsis" evidence=RCA

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

GO:0009887 "organ morphogenesis" evidence=RCA

GO:0009888 "tissue development" evidence=RCA

GO:0010332 "response to gamma radiation" evidence=RCA

GO:0010638 "positive regulation of organelle organization" evidence=RCA

GO:0016926 "protein desumoylation" evidence=RCA

GO:0032204 "regulation of telomere maintenance" evidence=RCA

GO:0032504 "multicellular organism reproduction" evidence=RCA

GO:0033044 "regulation of chromosome organization" evidence=RCA

GO:0042138 "meiotic DNA double-strand break formation" evidence=RCA

GO:0043247 "telomere maintenance in response to DNA damage" evidence=RCA

GO:0045132 "meiotic chromosome segregation" evidence=RCA

UNIPROTKB|F6QV99 ATAD1 "ATPase family AAA domain-containing protein 1" [Bos taurus (taxid:9913)]

 Score = 721 (258.9 bits), Expect = 2.9e-71, P = 2.9e-71
 Identities = 142/315 (45%), Positives = 210/315 (66%)

Query:    38 LDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIK 97
             +DP R+   +A +  +++ K++G   ++ + YE  IA  +++P ++ V +  I GL+ + 
Sbjct:    41 IDPTRKQKVEAQKQAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVI 100

Query:    98 QALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS 157
               L + VILP+++  LF + +LL P KGVLLYGPPG GKT++AKA AKE+G  FIN++ S
Sbjct:   101 TDLKDTVILPIKKKHLFENSRLLQPPKGVLLYGPPGCGKTLIAKATAKEAGCRFINLQPS 160

Query:   158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW 217
              L  KW+G++QKL AAVFSLA KLQP+IIFIDE+DSFL  R +SDHEA   MK +FM+LW
Sbjct:   161 TLTDKWYGESQKLAAAVFSLAIKLQPSIIFIDEIDSFLRNRSSSDHEATAMMKAQFMSLW 220

Query:   218 DGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE 277
             DG  TD + +V+V+ ATNRP +LD AI+RR+P  F I  P  K+R  ILK+ILK E V+ 
Sbjct:   221 DGLDTDHSCQVIVMGATNRPQDLDSAIMRRMPTRFHINQPALKQREAILKLILKNENVDR 280

Query:   278 NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE-ERKGKPAAAPRPLSRLDLEKVL 336
             ++D   +A   +GF+GSDL E+C+ AA   +RE ++    +       RP+ + DL + +
Sbjct:   281 HVDLLEVAQETDGFSGSDLKEMCRDAALLCVREYVNSTSEESHDEDEIRPVQQQDLHRAI 340

Query:   337 TTSRKTRVAATEYTL 351
                +K++ AA +  L
Sbjct:   341 EKMKKSKDAAFQNVL 355

GO:0045211 "postsynaptic membrane" evidence=ISS

GO:0016887 "ATPase activity" evidence=ISS

GO:0051967 "negative regulation of synaptic transmission, glutamatergic" evidence=ISS

GO:0007613 "memory" evidence=ISS

GO:0007612 "learning" evidence=ISS

GO:0002092 "positive regulation of receptor internalization" evidence=ISS

GO:0005778 "peroxisomal membrane" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0030054 "cell junction" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|E2RHY1 ATAD1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 721 (258.9 bits), Expect = 2.9e-71, P = 2.9e-71
 Identities = 142/315 (45%), Positives = 210/315 (66%)

Query:    38 LDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIK 97
             +DP R+   +A +  +++ K++G   ++ + YE  IA  +++P ++ V +  I GL+ + 
Sbjct:    49 IDPTRKQKVEAQKQAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVI 108

Query:    98 QALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS 157
               L + VILP+++  LF + +LL P KGVLLYGPPG GKT++AKA AKE+G  FIN++ S
Sbjct:   109 TDLKDTVILPIKKKHLFENSRLLQPPKGVLLYGPPGCGKTLIAKATAKEAGCRFINLQPS 168

Query:   158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW 217
              L  KW+G++QKL AAVFSLA KLQP+IIFIDE+DSFL  R +SDHEA   MK +FM+LW
Sbjct:   169 TLTDKWYGESQKLAAAVFSLAIKLQPSIIFIDEIDSFLRNRSSSDHEATAMMKAQFMSLW 228

Query:   218 DGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE 277
             DG  TD + +V+V+ ATNRP +LD AI+RR+P  F I  P  K+R  ILK+ILK E V+ 
Sbjct:   229 DGLDTDHSCQVIVMGATNRPQDLDSAIMRRMPTRFHINQPALKQREAILKLILKNENVDR 288

Query:   278 NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE-ERKGKPAAAPRPLSRLDLEKVL 336
             ++D   +A   +GF+GSDL E+C+ AA   +RE ++    +       RP+ + DL + +
Sbjct:   289 HVDLLEVAQETDGFSGSDLKEMCRDAALLCVREYVNSTSEESHDEDEIRPVQQQDLHRAI 348

Query:   337 TTSRKTRVAATEYTL 351
                +K++ AA +  L
Sbjct:   349 EKMKKSKDAAFQNVL 363

GO:0051967 "negative regulation of synaptic transmission, glutamatergic" evidence=IEA

GO:0045211 "postsynaptic membrane" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0007613 "memory" evidence=IEA

GO:0007612 "learning" evidence=IEA

GO:0005778 "peroxisomal membrane" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0002092 "positive regulation of receptor internalization" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|F1PX89 ATAD1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 721 (258.9 bits), Expect = 2.9e-71, P = 2.9e-71
 Identities = 142/315 (45%), Positives = 210/315 (66%)

Query:    38 LDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIK 97
             +DP R+   +A +  +++ K++G   ++ + YE  IA  +++P ++ V +  I GL+ + 
Sbjct:    98 IDPTRKQKVEAQKQAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVI 157

Query:    98 QALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS 157
               L + VILP+++  LF + +LL P KGVLLYGPPG GKT++AKA AKE+G  FIN++ S
Sbjct:   158 TDLKDTVILPIKKKHLFENSRLLQPPKGVLLYGPPGCGKTLIAKATAKEAGCRFINLQPS 217

Query:   158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW 217
              L  KW+G++QKL AAVFSLA KLQP+IIFIDE+DSFL  R +SDHEA   MK +FM+LW
Sbjct:   218 TLTDKWYGESQKLAAAVFSLAIKLQPSIIFIDEIDSFLRNRSSSDHEATAMMKAQFMSLW 277

Query:   218 DGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE 277
             DG  TD + +V+V+ ATNRP +LD AI+RR+P  F I  P  K+R  ILK+ILK E V+ 
Sbjct:   278 DGLDTDHSCQVIVMGATNRPQDLDSAIMRRMPTRFHINQPALKQREAILKLILKNENVDR 337

Query:   278 NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE-ERKGKPAAAPRPLSRLDLEKVL 336
             ++D   +A   +GF+GSDL E+C+ AA   +RE ++    +       RP+ + DL + +
Sbjct:   338 HVDLLEVAQETDGFSGSDLKEMCRDAALLCVREYVNSTSEESHDEDEIRPVQQQDLHRAI 397

Query:   337 TTSRKTRVAATEYTL 351
                +K++ AA +  L
Sbjct:   398 EKMKKSKDAAFQNVL 412

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|Q8NBU5 ATAD1 "ATPase family AAA domain-containing protein 1" [Homo sapiens (taxid:9606)]

 Score = 721 (258.9 bits), Expect = 2.9e-71, P = 2.9e-71
 Identities = 142/315 (45%), Positives = 210/315 (66%)

Query:    38 LDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIK 97
             +DP R+   +A +  +++ K++G   ++ + YE  IA  +++P ++ V +  I GL+ + 
Sbjct:    41 IDPTRKQKVEAQKQAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVI 100

Query:    98 QALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS 157
               L + VILP+++  LF + +LL P KGVLLYGPPG GKT++AKA AKE+G  FIN++ S
Sbjct:   101 TDLKDTVILPIKKKHLFENSRLLQPPKGVLLYGPPGCGKTLIAKATAKEAGCRFINLQPS 160

Query:   158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW 217
              L  KW+G++QKL AAVFSLA KLQP+IIFIDE+DSFL  R +SDHEA   MK +FM+LW
Sbjct:   161 TLTDKWYGESQKLAAAVFSLAIKLQPSIIFIDEIDSFLRNRSSSDHEATAMMKAQFMSLW 220

Query:   218 DGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE 277
             DG  TD + +V+V+ ATNRP +LD AI+RR+P  F I  P  K+R  ILK+ILK E V+ 
Sbjct:   221 DGLDTDHSCQVIVMGATNRPQDLDSAIMRRMPTRFHINQPALKQREAILKLILKNENVDR 280

Query:   278 NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE-ERKGKPAAAPRPLSRLDLEKVL 336
             ++D   +A   +GF+GSDL E+C+ AA   +RE ++    +       RP+ + DL + +
Sbjct:   281 HVDLLEVAQETDGFSGSDLKEMCRDAALLCVREYVNSTSEESHDEDEIRPVQQQDLHRAI 340

Query:   337 TTSRKTRVAATEYTL 351
                +K++ AA +  L
Sbjct:   341 EKMKKSKDAAFQNVL 355

GO:0005524 "ATP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0030054 "cell junction" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0002092 "positive regulation of receptor internalization" evidence=ISS

GO:0007612 "learning" evidence=ISS

GO:0007613 "memory" evidence=ISS

GO:0016887 "ATPase activity" evidence=ISS

GO:0045211 "postsynaptic membrane" evidence=ISS

GO:0005778 "peroxisomal membrane" evidence=IDA

GO:0051967 "negative regulation of synaptic transmission, glutamatergic" evidence=ISS

UNIPROTKB|F2Z5H2 ATAD1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 721 (258.9 bits), Expect = 2.9e-71, P = 2.9e-71
 Identities = 142/315 (45%), Positives = 210/315 (66%)

Query:    38 LDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIK 97
             +DP R+   +A +  +++ K++G   ++ + YE  IA  +++P ++ V +  I GL+ + 
Sbjct:    45 IDPTRKQKVEAQKQAEKLMKQIGVKNVKLSEYEMSIAAHLVDPLNMHVTWSDIAGLDDVI 104

Query:    98 QALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS 157
               L + VILP+++  LF + +LL P KGVLLYGPPG GKT++AKA AKE+G  FIN++ S
Sbjct:   105 TDLKDTVILPIKKKHLFENSRLLQPPKGVLLYGPPGCGKTLIAKATAKEAGCRFINLQPS 164

Query:   158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW 217
              L  KW+G++QKL AAVFSLA KLQP+IIFIDE+DSFL  R +SDHEA   MK +FM+LW
Sbjct:   165 TLTDKWYGESQKLAAAVFSLAIKLQPSIIFIDEIDSFLRNRSSSDHEATAMMKAQFMSLW 224

Query:   218 DGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE 277
             DG  TD + +V+V+ ATNRP +LD AI+RR+P  F I  P  K+R  ILK+ILK E V+ 
Sbjct:   225 DGLDTDHSCQVIVMGATNRPQDLDSAIMRRMPTRFHINQPALKQREAILKLILKNENVDR 284

Query:   278 NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE-ERKGKPAAAPRPLSRLDLEKVL 336
             ++D   +A   +GF+GSDL E+C+ AA   +RE ++    +       RP+ + DL + +
Sbjct:   285 HVDLLEVAQETDGFSGSDLKEMCRDAALLCVREYVNSTSEESHDEDEIRPVQQQDLHRAI 344

Query:   337 TTSRKTRVAATEYTL 351
                +K++ AA +  L
Sbjct:   345 EKMKKSKDAAFQNVL 359

GO:0051967 "negative regulation of synaptic transmission, glutamatergic" evidence=IEA

GO:0045211 "postsynaptic membrane" evidence=IEA

GO:0016887 "ATPase activity" evidence=IEA

GO:0007613 "memory" evidence=IEA

GO:0007612 "learning" evidence=IEA

GO:0005778 "peroxisomal membrane" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0002092 "positive regulation of receptor internalization" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00037206001 SubName- Full=Chromosome chr16 scaffold_86, whole genome shotgun sequence; (388 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	396
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	2e-69
COG1222	406	COG1222, RPT1, ATP-dependent 26S proteasome regula	6e-66
PRK03992	389	PRK03992, PRK03992, proteasome-activating nucleoti	8e-66
TIGR01242	364	TIGR01242, 26Sp45, 26S proteasome subunit P45 fami	4e-58
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	5e-55
TIGR01243	733	TIGR01243, CDC48, AAA family ATPase, CDC48 subfami	2e-52
PTZ00454	398	PTZ00454, PTZ00454, 26S protease regulatory subuni	2e-47
pfam00004	131	pfam00004, AAA, ATPase family associated with vari	5e-43
TIGR01241	495	TIGR01241, FtsH_fam, ATP-dependent metalloprotease	3e-41
PTZ00361	438	PTZ00361, PTZ00361, 26 proteosome regulatory subun	1e-37
CHL00176	638	CHL00176, ftsH, cell division protein; Validated	1e-36
COG1223	368	COG1223, COG1223, Predicted ATPase (AAA+ superfami	8e-35
PRK10733	644	PRK10733, hflB, ATP-dependent metalloprotease; Rev	2e-34
COG0465	596	COG0465, HflB, ATP-dependent Zn proteases [Posttra	4e-34
COG0464	494	COG0464, SpoVK, ATPases of the AAA+ class [Posttra	3e-30
TIGR03689	512	TIGR03689, pup_AAA, proteasome ATPase	3e-29
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	4e-21
CHL00195	489	CHL00195, ycf46, Ycf46; Provisional	7e-15
smart00382	148	smart00382, AAA, ATPases associated with a variety	7e-15
PRK13342	413	PRK13342, PRK13342, recombination factor protein R	2e-08
COG0714	329	COG0714, COG0714, MoxR-like ATPases [General funct	6e-07
PRK00080	328	PRK00080, ruvB, Holliday junction DNA helicase Ruv	2e-06
PRK04195	482	PRK04195, PRK04195, replication factor C large sub	2e-06
COG2256	436	COG2256, MGS1, ATPase related to the helicase subu	2e-06
COG0593	408	COG0593, DnaA, ATPase involved in DNA replication	9e-06
COG0466	782	COG0466, Lon, ATP-dependent Lon protease, bacteria	1e-05
COG2255	332	COG2255, RuvB, Holliday junction resolvasome, heli	1e-05
pfam05496	231	pfam05496, RuvB_N, Holliday junction DNA helicase	4e-05
pfam07728	135	pfam07728, AAA_5, AAA domain (dynein-related subfa	5e-05
COG1224	450	COG1224, TIP49, DNA helicase TIP49, TBP-interactin	5e-05
TIGR00763	775	TIGR00763, lon, ATP-dependent protease La	5e-05
pfam06068	395	pfam06068, TIP49, TIP49 C-terminus	7e-05
pfam00308	219	pfam00308, Bac_DnaA, Bacterial dnaA protein	1e-04
COG1474	366	COG1474, CDC6, Cdc6-related protein, AAA superfami	2e-04
pfam01057	271	pfam01057, Parvo_NS1, Parvovirus non-structural pr	2e-04
pfam01078	207	pfam01078, Mg_chelatase, Magnesium chelatase, subu	2e-04
pfam13401	124	pfam13401, AAA_22, AAA domain	2e-04
PRK06835	329	PRK06835, PRK06835, DNA replication protein DnaC;	4e-04
PRK08116	268	PRK08116, PRK08116, hypothetical protein; Validate	4e-04
PRK13341	725	PRK13341, PRK13341, recombination factor protein R	5e-04
pfam00910	105	pfam00910, RNA_helicase, RNA helicase	6e-04
pfam13481	154	pfam13481, AAA_25, AAA domain	7e-04
TIGR00635	305	TIGR00635, ruvB, Holliday junction DNA helicase, R	0.001
pfam13207	114	pfam13207, AAA_17, AAA domain	0.001
cd00267	157	cd00267, ABC_ATPase, ATP-binding cassette transpor	0.002
COG1484	254	COG1484, DnaC, DNA replication protein [DNA replic	0.002
pfam07724	168	pfam07724, AAA_2, AAA domain (Cdc48 subfamily)	0.003
PHA02544	316	PHA02544, 44, clamp loader, small subunit; Provisi	0.003
pfam07726	131	pfam07726, AAA_3, ATPase family associated with va	0.004
COG1373	398	COG1373, COG1373, Predicted ATPase (AAA+ superfami	0.004
pfam05673	248	pfam05673, DUF815, Protein of unknown function (DU	0.004
PRK13765	637	PRK13765, PRK13765, ATP-dependent protease Lon; Pr	0.004

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

 Score =  226 bits (578), Expect = 2e-69
 Identities = 110/316 (34%), Positives = 170/316 (53%), Gaps = 31/316 (9%)

Query: 31  LFAGLRHLDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESI 90
           L    R +D   E      +  +E  K++                  +  +  DV  + I
Sbjct: 198 LRELRRAIDLVGEYIGVTEDDFEEALKKVLPS-------------RGVLFEDEDVTLDDI 244

Query: 91  GGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV 150
           GGLE  K+ L E +  PL+RPELF     L P KGVLLYGPPGTGKT+LAKA+A ES + 
Sbjct: 245 GGLEEAKEELKEAIETPLKRPELFR-KLGLRPPKGVLLYGPPGTGKTLLAKAVALESRSR 303

Query: 151 FINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMK 210
           FI+V+ S L+SKW G+++K +  +F  A KL P+IIFIDE+DS    R  S+  +   + 
Sbjct: 304 FISVKGSELLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGPSEDGSGRRVV 363

Query: 211 TEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDRKERAQILKV 268
            + +   DG   ++   V+V+AATNRP +LD A+LR  R  +   + +PD +ER +I K+
Sbjct: 364 GQLLTELDGI--EKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKI 421

Query: 269 ILKGEKV--EENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRP 326
            L+ +K    E++D + LA + EG++G+D+  + ++AA  ++RE              R 
Sbjct: 422 HLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAALEALREAR-----------RRE 470

Query: 327 LSRLDLEKVLTTSRKT 342
           ++  D    L   + +
Sbjct: 471 VTLDDFLDALKKIKPS 486

Length = 494

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

 Score =  214 bits (548), Expect = 6e-66
 Identities = 106/235 (45%), Positives = 146/235 (62%), Gaps = 14/235 (5%)

Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAK 141
           DV +E IGGL+   Q + E+V LPL+ PELF   + LG  P KGVLLYGPPGTGKT+LAK
Sbjct: 147 DVTYEDIGGLDEQIQEIREVVELPLKNPELF---EELGIDPPKGVLLYGPPGTGKTLLAK 203

Query: 142 AIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQR--- 198
           A+A ++ A FI V  S L+ K+ G+  +LV  +F LA +  P+IIFIDE+D+   +R   
Sbjct: 204 AVANQTDATFIRVVGSELVQKYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDS 263

Query: 199 -RTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIG 255
             + D E    M  E +   DGF  D    V V+ ATNRP  LD A+LR  R  +  E  
Sbjct: 264 GTSGDREVQRTM-LELLNQLDGF--DPRGNVKVIMATNRPDILDPALLRPGRFDRKIEFP 320

Query: 256 MPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
           +PD + RA+ILK+  +   + +++D + LA L EGF+G+DL  +C +A  F+IRE
Sbjct: 321 LPDEEGRAEILKIHTRKMNLADDVDLELLARLTEGFSGADLKAICTEAGMFAIRE 375

Length = 406

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

 Score =  213 bits (546), Expect = 8e-66
 Identities = 101/236 (42%), Positives = 147/236 (62%), Gaps = 16/236 (6%)

Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAK 141
           +V +E IGGLE   + + E V LPL++PELF   + +G  P KGVLLYGPPGTGKT+LAK
Sbjct: 127 NVTYEDIGGLEEQIREVREAVELPLKKPELF---EEVGIEPPKGVLLYGPPGTGKTLLAK 183

Query: 142 AIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS 201
           A+A E+ A FI V  S L+ K+ G+  +LV  +F LA +  P+IIFIDE+D+ +  +RT 
Sbjct: 184 AVAHETNATFIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDA-IAAKRTD 242

Query: 202 -----DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEI 254
                D E    +  + +A  DGF    N +++  AATNR   LD AILR  R  +  E+
Sbjct: 243 SGTSGDREVQRTL-MQLLAEMDGFDPRGNVKII--AATNRIDILDPAILRPGRFDRIIEV 299

Query: 255 GMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
            +PD + R +ILK+  +   + +++D + LA L EG +G+DL  +C +A  F+IR+
Sbjct: 300 PLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEAGMFAIRD 355

Length = 389

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

 Score =  193 bits (491), Expect = 4e-58
 Identities = 105/239 (43%), Positives = 147/239 (61%), Gaps = 14/239 (5%)

Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAK 141
           +V +E IGGLE   + + E V LPL+ PELF     +G  P KGVLLYGPPGTGKT+LAK
Sbjct: 118 NVSYEDIGGLEEQIREIREAVELPLKHPELFEE---VGIEPPKGVLLYGPPGTGKTLLAK 174

Query: 142 AIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS 201
           A+A E+ A FI V  S L+ K+ G+  +LV  +F LA +  P+IIFIDE+D+   +R  S
Sbjct: 175 AVAHETNATFIRVVGSELVRKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDS 234

Query: 202 ----DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIG 255
               D E    +  + +A  DGF  D    V V+AATNRP  LD A+LR  R  +  E+ 
Sbjct: 235 GTSGDREVQRTL-MQLLAELDGF--DPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVP 291

Query: 256 MPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE 314
           +PD + R +ILK+  +  K+ E++D + +A + EG +G+DL  +C +A  F+IRE  D 
Sbjct: 292 LPDFEGRLEILKIHTRKMKLAEDVDLEAIAKMTEGASGADLKAICTEAGMFAIREERDY 350

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

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

 Score =  192 bits (490), Expect = 5e-55
 Identities = 104/256 (40%), Positives = 152/256 (59%), Gaps = 10/256 (3%)

Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAK 141
            V +E IGGL+  K+ + E+V LP++ PELF H   LG  P KGVLLYGPPGTGKT+LAK
Sbjct: 174 KVTYEDIGGLKEAKEKIREMVELPMKHPELFEH---LGIEPPKGVLLYGPPGTGKTLLAK 230

Query: 142 AIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS 201
           A+A E+GA FI++    +MSK++G++++ +  +F  A +  P+IIFIDE+D+   +R   
Sbjct: 231 AVANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEV 290

Query: 202 DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDR 259
             E    +  + + L DG       RV+V+ ATNRP  LD A+ R  R  +   I +PD+
Sbjct: 291 TGEVEKRVVAQLLTLMDGLK--GRGRVIVIGATNRPDALDPALRRPGRFDREIVIRVPDK 348

Query: 260 KERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGK 319
           + R +ILKV  +   + E++D D LA +  GF G+DL  + K+AA  ++R  + E  K  
Sbjct: 349 RARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFIREG-KIN 407

Query: 320 PAAAPRPLSRLDLEKV 335
             A   P   L   KV
Sbjct: 408 FEAEEIPAEVLKELKV 423

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

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

 Score =  185 bits (471), Expect = 2e-52
 Identities = 99/241 (41%), Positives = 149/241 (61%), Gaps = 10/241 (4%)

Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAK 141
           +V +  IGGLE +KQ L E V  PL+ PE+F   + +G  P KGVLL+GPPGTGKT+LAK
Sbjct: 449 NVRWSDIGGLEEVKQELREAVEWPLKHPEIF---EKMGIRPPKGVLLFGPPGTGKTLLAK 505

Query: 142 AIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS 201
           A+A ESGA FI VR   ++SKW G+++K +  +F  A +  PAIIF DE+D+    R   
Sbjct: 506 AVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGAR 565

Query: 202 DHEALTN-MKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPD 258
              ++T+ +  + +   DG    + + V+V+AATNRP  LD A+LR  R  +   +  PD
Sbjct: 566 FDTSVTDRIVNQLLTEMDGI--QELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPD 623

Query: 259 RKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKG 318
            + R +I K+  +   + E++D + LA + EG+TG+D+  VC++AA  ++RE +    K 
Sbjct: 624 EEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAMAALRESIGSPAKE 683

Query: 319 K 319
           K
Sbjct: 684 K 684

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

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

 Score =  166 bits (421), Expect = 2e-47
 Identities = 93/234 (39%), Positives = 134/234 (57%), Gaps = 12/234 (5%)

Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAK 141
           DV +  IGGL+  KQ + E V LPL  PEL+   + +G  P +GVLLYGPPGTGKTMLAK
Sbjct: 141 DVTYSDIGGLDIQKQEIREAVELPLTCPELY---EQIGIDPPRGVLLYGPPGTGKTMLAK 197

Query: 142 AIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQR--- 198
           A+A  + A FI V  S  + K+ G+  ++V  VF LA +  P+IIFIDEVDS   +R   
Sbjct: 198 AVAHHTTATFIRVVGSEFVQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDA 257

Query: 199 RTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGM 256
           +T     +  +  E +   DGF  DQ   V V+ ATNR   LD A+LR  RL +  E  +
Sbjct: 258 QTGADREVQRILLELLNQMDGF--DQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPL 315

Query: 257 PDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
           PDR+++  I + I     + E +D +      E  + +D+  +C++A   ++R+
Sbjct: 316 PDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVRK 369

Length = 398

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

 Score =  146 bits (370), Expect = 5e-43
 Identities = 60/131 (45%), Positives = 85/131 (64%), Gaps = 2/131 (1%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAI 185
           +LLYGPPGTGKT LAKA+AKE GA FI +  S L+SK+ G+++K +  +F  A KL P +
Sbjct: 1   LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCV 60

Query: 186 IFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAIL 245
           IFIDE+D+  G R +        +  + +   DGFT+   ++V+V+AATNRP +LD A+L
Sbjct: 61  IFIDEIDALAGSRGSGGDSESRRVVNQLLTELDGFTSS-LSKVIVIAATNRPDKLDPALL 119

Query: 246 R-RLPQAFEIG 255
           R R  +  E  
Sbjct: 120 RGRFDRIIEFP 130

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

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

 Score =  151 bits (384), Expect = 3e-41
 Identities = 91/245 (37%), Positives = 137/245 (55%), Gaps = 21/245 (8%)

Query: 77  VINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG-PQKGVLLYGPPGTG 135
           ++N +   V F+ + G++  K+ L E+V   L+ P  F+  KL     KGVLL GPPGTG
Sbjct: 44  LLNEEKPKVTFKDVAGIDEAKEELMEIVDF-LKNPSKFT--KLGAKIPKGVLLVGPPGTG 100

Query: 136 KTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFL 195
           KT+LAKA+A E+G  F ++  S+ +  + G     V  +F  A K  P IIFIDE+D+ +
Sbjct: 101 KTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDA-V 159

Query: 196 GQRR----TSDH----EALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR- 246
           G++R       +    + L  +  E     DGF T  N  V+V+AATNRP  LD A+LR 
Sbjct: 160 GRQRGAGLGGGNDEREQTLNQLLVEM----DGFGT--NTGVIVIAATNRPDVLDPALLRP 213

Query: 247 -RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAY 305
            R  +   + +PD K R +ILKV  K +K+  ++D   +A    GF+G+DL  +  +AA 
Sbjct: 214 GRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVARRTPGFSGADLANLLNEAAL 273

Query: 306 FSIRE 310
            + R+
Sbjct: 274 LAARK 278

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

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

 Score =  141 bits (356), Expect = 1e-37
 Identities = 87/232 (37%), Positives = 129/232 (55%), Gaps = 14/232 (6%)

Query: 87  FESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAKAIA 144
           +  IGGLE   Q + E V LPL  PEL+     +G  P KGV+LYGPPGTGKT+LAKA+A
Sbjct: 182 YADIGGLEQQIQEIKEAVELPLTHPELYDD---IGIKPPKGVILYGPPGTGKTLLAKAVA 238

Query: 145 KESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD-- 202
            E+ A F+ V  S L+ K+ GD  KLV  +F +A +  P+I+FIDE+D+   +R  +   
Sbjct: 239 NETSATFLRVVGSELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSG 298

Query: 203 --HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPD 258
              E    M  E +   DGF  D    V V+ ATNR   LD A++R  R+ +  E   PD
Sbjct: 299 GEKEIQRTM-LELLNQLDGF--DSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPD 355

Query: 259 RKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
            K + +I ++      + E++D +      +  +G+D+  +C +A   ++RE
Sbjct: 356 EKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALRE 407

Length = 438

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

 Score =  140 bits (356), Expect = 1e-36
 Identities = 82/233 (35%), Positives = 127/233 (54%), Gaps = 11/233 (4%)

Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
            + F  I G+E  K+   E+V   L++PE F+      P KGVLL GPPGTGKT+LAKAI
Sbjct: 179 GITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIP-KGVLLVGPPGTGKTLLAKAI 236

Query: 144 AKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS-- 201
           A E+   F ++  S  +  + G     V  +F  A +  P I+FIDE+D+ +G++R +  
Sbjct: 237 AGEAEVPFFSISGSEFVEMFVGVGAARVRDLFKKAKENSPCIVFIDEIDA-VGRQRGAGI 295

Query: 202 --DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMP 257
              ++       + +   DGF    N  V+V+AATNR   LD A+LR  R  +   + +P
Sbjct: 296 GGGNDEREQTLNQLLTEMDGF--KGNKGVIVIAATNRVDILDAALLRPGRFDRQITVSLP 353

Query: 258 DRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
           DR+ R  ILKV  + +K+  ++  + +A    GF+G+DL  +  +AA  + R 
Sbjct: 354 DREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLNEAAILTARR 406

Length = 638

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

 Score =  131 bits (331), Expect = 8e-35
 Identities = 92/266 (34%), Positives = 135/266 (50%), Gaps = 29/266 (10%)

Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
           D+  + + G E  K+    L++  L  PE F  G    P K VL YGPPGTGKTM+AKA+
Sbjct: 117 DITLDDVIGQEEAKRKC-RLIMEYLENPERF--GDW-AP-KNVLFYGPPGTGKTMMAKAL 171

Query: 144 AKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD- 202
           A E+    + V+ + L+ +  GD  + +  ++  A K  P I+FIDE+D+    RR  + 
Sbjct: 172 ANEAKVPLLLVKATELIGEHVGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQEL 231

Query: 203 ----HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPD 258
                E +  + TE     DG    +N  V+ +AATNRP  LD AI  R  +  E  +P+
Sbjct: 232 RGDVSEIVNALLTEL----DG--IKENEGVVTIAATNRPELLDPAIRSRFEEEIEFKLPN 285

Query: 259 RKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLE-VCKQAAYFSIRELLDEERK 317
            +ER +IL+   K   +  + D  YLA   +G +G D+ E V K A + +I E  D E+ 
Sbjct: 286 DEERLEILEYYAKKFPLPVDADLRYLAAKTKGMSGRDIKEKVLKTALHRAIAE--DREK- 342

Query: 318 GKPAAAPRPLSRLDLEKVLTTSRKTR 343
                    + R D+EK L   RK R
Sbjct: 343 ---------VEREDIEKALKKERKRR 359

Length = 368

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

 Score =  134 bits (338), Expect = 2e-34
 Identities = 90/239 (37%), Positives = 128/239 (53%), Gaps = 11/239 (4%)

Query: 77  VINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGP-QKGVLLYGPPGTG 135
           ++  D I   F  + G +  K+ + ELV   LR P  F   KL G   KGVL+ GPPGTG
Sbjct: 141 MLTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQ--KLGGKIPKGVLMVGPPGTG 197

Query: 136 KTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFL 195
           KT+LAKAIA E+   F  +  S+ +  + G     V  +F  A K  P IIFIDE+D+  
Sbjct: 198 KTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVG 257

Query: 196 GQRRT---SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQ 250
            QR       H+       + +   DGF  + N  ++V+AATNRP  LD A+LR  R  +
Sbjct: 258 RQRGAGLGGGHDEREQTLNQMLVEMDGF--EGNEGIIVIAATNRPDVLDPALLRPGRFDR 315

Query: 251 AFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIR 309
              +G+PD + R QILKV ++   +  +ID   +A    GF+G+DL  +  +AA F+ R
Sbjct: 316 QVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAAR 374

Length = 644

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

 Score =  132 bits (335), Expect = 4e-34
 Identities = 99/275 (36%), Positives = 138/275 (50%), Gaps = 28/275 (10%)

Query: 78  INPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSH-GKLLGPQKGVLLYGPPGTGK 136
              D + V F  + G++  K+ L ELV   L+ P+ +   G  +   KGVLL GPPGTGK
Sbjct: 140 YLEDQVKVTFADVAGVDEAKEELSELVD-FLKNPKKYQALGAKIP--KGVLLVGPPGTGK 196

Query: 137 TMLAKAIAKESGAVFINVRISNLMSKWF-GDAQKLVAAVFSLAYKLQPAIIFIDEVDSFL 195
           T+LAKA+A E+G  F ++  S+ + + F G     V  +F  A K  P IIFIDE+D+  
Sbjct: 197 TLLAKAVAGEAGVPFFSISGSDFV-EMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVG 255

Query: 196 GQRRTSD-------HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR-- 246
            QR            + L  +  E M   DGF    N  V+V+AATNRP  LD A+LR  
Sbjct: 256 RQRGAGLGGGNDEREQTLNQLLVE-M---DGF--GGNEGVIVIAATNRPDVLDPALLRPG 309

Query: 247 RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAA-- 304
           R  +   + +PD K R QILKV  K + + E++D   +A    GF+G+DL  +  +AA  
Sbjct: 310 RFDRQILVELPDIKGREQILKVHAKNKPLAEDVDLKKIARGTPGFSGADLANLLNEAALL 369

Query: 305 -----YFSIRELLDEERKGKPAAAPRPLSRLDLEK 334
                   I     EE   +  A P   SR+  E 
Sbjct: 370 AARRNKKEITMRDIEEAIDRVIAGPERKSRVISEA 404

Length = 596

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

 Score =  121 bits (304), Expect = 3e-30
 Identities = 78/211 (36%), Positives = 121/211 (57%), Gaps = 7/211 (3%)

Query: 106 LPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFG 165
           LPL+ PELF     + P KGVLL+GPPGTGKT+LA+A+A   GA F+++    ++SK+ G
Sbjct: 2   LPLKEPELFKK-LGIEPPKGVLLHGPPGTGKTLLARALA-NEGAEFLSINGPEILSKYVG 59

Query: 166 DAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQN 225
           +++  +  +F  A KL P+IIFIDE+D+   +R +   E    +  + +AL DG    + 
Sbjct: 60  ESELRLRELFEEAEKLAPSIIFIDEIDALAPKRSSDQGEVERRVVAQLLALMDGL---KR 116

Query: 226 ARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDY 283
            +V+V+ ATNRP  LD A  R  R  +  E+ +PD   R +IL++  +   +        
Sbjct: 117 GQVIVIGATNRPDGLDPAKRRPGRFDREIEVNLPDEAGRLEILQIHTRLMFLGPPGTGKT 176

Query: 284 LAGLCEGFTGSDLLEVCKQAAYFSIRELLDE 314
           LA    G +G+DL  + K+AA   +R  +D 
Sbjct: 177 LAARTVGKSGADLGALAKEAALRELRRAIDL 207

Length = 494

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

 Score =  118 bits (297), Expect = 3e-29
 Identities = 76/207 (36%), Positives = 109/207 (52%), Gaps = 34/207 (16%)

Query: 84  DVEFESIGGL----ETIKQALYELVILPLRRPELF-SHGKLLGPQKGVLLYGPPGTGKTM 138
           DV +  IGGL    E I+ A    V LP   PEL+  +G  L P KGVLLYGPPG GKT+
Sbjct: 178 DVTYADIGGLGSQIEQIRDA----VELPFLHPELYREYG--LKPPKGVLLYGPPGCGKTL 231

Query: 139 LAKAIA-------KESG---AVFINVRISNLMSKWFGDAQKLVAAVFSLAYKL----QPA 184
           +AKA+A          G   + F+N++   L++K+ G+ ++ +  +F  A +     +P 
Sbjct: 232 IAKAVANSLAARIGAEGGGKSYFLNIKGPELLNKYVGETERQIRLIFQRAREKASEGRPV 291

Query: 185 IIFIDEVDSFLGQR---RTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELD 241
           I+F DE+DS    R    +SD E  T +  + +A  DG  +  N  V+V+ A+NR   +D
Sbjct: 292 IVFFDEMDSLFRTRGSGVSSDVE--TTVVPQLLAEIDGVESLDN--VIVIGASNREDMID 347

Query: 242 EAILR--RLPQAFEIGMPDRKERAQIL 266
            AILR  RL     I  PD +  A I 
Sbjct: 348 PAILRPGRLDVKIRIERPDAEAAADIF 374

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

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

 Score = 88.7 bits (220), Expect = 4e-21
 Identities = 58/173 (33%), Positives = 73/173 (42%), Gaps = 31/173 (17%)

Query: 91  GGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES--- 147
            G E   +AL E + LP              P K +LLYGPPGTGKT LA+AIA E    
Sbjct: 1   VGQEEAIEALREALELP--------------PPKNLLLYGPPGTGKTTLARAIANELFRP 46

Query: 148 GAVFINVRISNLMSKWFGDAQKLVAAV---FSLAYKLQPAIIFIDEVDSFLGQRRTSDHE 204
           GA F+ +  S+L+             V   F LA K +P ++FIDE+DS           
Sbjct: 47  GAPFLYLNASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSL----SRGAQN 102

Query: 205 ALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE--LDEAILRRLPQAFEIG 255
           AL  +                  V V+ ATNRP    LD A+  RL     I 
Sbjct: 103 ALLRVLETLN-----DLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIP 150

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

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

 Score = 75.8 bits (187), Expect = 7e-15
 Identities = 60/240 (25%), Positives = 108/240 (45%), Gaps = 21/240 (8%)

Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKL---LGPQKGVLLYGPPGTGKTMLA 140
           + +   IGGL+ +K  L        +R   FS       L   +G+LL G  GTGK++ A
Sbjct: 224 NEKISDIGGLDNLKDWLK-------KRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTA 276

Query: 141 KAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRT 200
           KAIA +     + + +  L     G+++  +  +  +A  L P I++IDE+D       +
Sbjct: 277 KAIANDWQLPLLRLDVGKLFGGIVGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSES 336

Query: 201 SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPD 258
                 TN        W    +++ + V V+A  N    L   ILR  R  + F + +P 
Sbjct: 337 KGDSGTTNRVLATFITW---LSEKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPS 393

Query: 259 RKERAQILKVILKGEKVE--ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEER 316
            +ER +I K+ L+  + +  +  D   L+ L   F+G+++    +Q+   ++     E+R
Sbjct: 394 LEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEI----EQSIIEAMYIAFYEKR 449

Length = 489

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

 Score = 71.3 bits (174), Expect = 7e-15
 Identities = 37/143 (25%), Positives = 65/143 (45%), Gaps = 24/143 (16%)

Query: 122 PQKGVLLYGPPGTGKTMLAKAIAKES-----GAVFIN------------VRISNLMSKWF 164
           P + +L+ GPPG+GKT LA+A+A+E      G ++I+            + I     K  
Sbjct: 1   PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKAS 60

Query: 165 GDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQ 224
           G  +  +    +LA KL+P ++ +DE+ S L   + +    L  ++   +          
Sbjct: 61  GSGELRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLK-------S 113

Query: 225 NARVMVLAATNRPSELDEAILRR 247
              + V+  TN   +L  A+LRR
Sbjct: 114 EKNLTVILTTNDEKDLGPALLRR 136

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

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

 Score = 55.5 bits (135), Expect = 2e-08
 Identities = 31/97 (31%), Positives = 48/97 (49%), Gaps = 17/97 (17%)

Query: 107 PLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGD 166
           PLRR  +   G+L      ++L+GPPGTGKT LA+ IA  + A F    +S + S    D
Sbjct: 26  PLRR--MIEAGRLSS----MILWGPPGTGKTTLARIIAGATDAPF--EALSAVTSG-VKD 76

Query: 167 AQKLVAAVFSLAYKLQPAIIFIDEV--------DSFL 195
            ++++          +  I+FIDE+        D+ L
Sbjct: 77  LREVIEEARQRRSAGRRTILFIDEIHRFNKAQQDALL 113

Length = 413

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

 Score = 50.5 bits (121), Expect = 6e-07
 Identities = 49/246 (19%), Positives = 86/246 (34%), Gaps = 45/246 (18%)

Query: 123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI------SNLMSKWFGDAQKLVAAVFS 176
              VLL GPPG GKT+LA+A+A+  G  F+ ++       S+L+  +   A  L    F 
Sbjct: 43  GGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTYAYAALLLEPGEFR 102

Query: 177 L----AYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFM---ALWD------GFTTD 223
                 +     I+ +DE++                 + +     AL +      G TT 
Sbjct: 103 FVPGPLFAAVRVILLLDEINR-------------APPEVQNALLEALEERQVTVPGLTTI 149

Query: 224 Q-NARVMVLAATNRP-----SELDEAILRRLPQAFEIGMPDRKE-------RAQILKVIL 270
           +     +V+A  N         L EA+L R      +  PD +E       R   +  + 
Sbjct: 150 RLPPPFIVIATQNPGEYEGTYPLPEALLDRFLLRIYVDYPDSEEEERIILARVGGVDELD 209

Query: 271 KGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRL 330
               V+  +  + L  L +      + +         +  L +       A+    L+ L
Sbjct: 210 LESLVKPVLSDEELLRLQKEVKKVPVSDEVIDYIVTLVAALREAPDVALGASPRASLALL 269

Query: 331 DLEKVL 336
              + L
Sbjct: 270 AALRAL 275

Length = 329

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

 Score = 49.0 bits (118), Expect = 2e-06
 Identities = 30/69 (43%), Positives = 41/69 (59%), Gaps = 14/69 (20%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISN--LMSKWFGDAQKLVAAVFSLAYKLQP 183
           VLLYGPPG GKT LA  IA E G    N+RI++   + K  GD    +AA+ +    L+ 
Sbjct: 54  VLLYGPPGLGKTTLANIIANEMGV---NIRITSGPALEK-PGD----LAAILTN---LEE 102

Query: 184 A-IIFIDEV 191
             ++FIDE+
Sbjct: 103 GDVLFIDEI 111

Length = 328

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

 Score = 49.5 bits (119), Expect = 2e-06
 Identities = 32/86 (37%), Positives = 47/86 (54%), Gaps = 13/86 (15%)

Query: 112 ELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFI-----NVRISNLMSKWFGD 166
           E +  GK   P+K +LLYGPPG GKT LA A+A + G   I     + R ++++ +  G+
Sbjct: 31  ESWLKGK---PKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRTADVIERVAGE 87

Query: 167 AQKLVAAVFSLAYKLQPAIIFIDEVD 192
           A     ++F    KL    I +DEVD
Sbjct: 88  AAT-SGSLFGARRKL----ILLDEVD 108

Length = 482

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

 Score = 49.2 bits (118), Expect = 2e-06
 Identities = 30/101 (29%), Positives = 47/101 (46%), Gaps = 25/101 (24%)

Query: 107 PLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVF--INVRISNL--MSK 162
           PLRR      G L      ++L+GPPGTGKT LA+ IA  + A F  ++   S +  + +
Sbjct: 38  PLRR--AVEAGHL----HSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVTSGVKDLRE 91

Query: 163 WFGDAQKLVAAVFSLAYKLQPAIIFIDEV--------DSFL 195
              +A+K            +  I+F+DE+        D+ L
Sbjct: 92  IIEEARKN------RLLGRRT-ILFLDEIHRFNKAQQDALL 125

Length = 436

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

 Score = 47.3 bits (113), Expect = 9e-06
 Identities = 43/172 (25%), Positives = 69/172 (40%), Gaps = 26/172 (15%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRI-----SNLMSKWFGDAQKLVAAVFSLAYK 180
           + +YG  G GKT L +AI  E+ A   N R+      +  + +    +      F   Y 
Sbjct: 116 LFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKYS 175

Query: 181 LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSEL 240
           L   +  ID++    G+ RT   E   +    F AL +      N + +VL +   P EL
Sbjct: 176 LDLLL--IDDIQFLAGKERT--QEEFFH---TFNALLE------NGKQIVLTSDRPPKEL 222

Query: 241 DEAILRRLPQAF------EIGMPDRKERAQILKVILKGEKVE-ENIDFDYLA 285
              +  RL          EI  PD + R  IL+   +   +E  +   ++LA
Sbjct: 223 -NGLEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAEDRGIEIPDEVLEFLA 273

Length = 408

>gnl|CDD|223542 COG0466, Lon, ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

 Score = 47.6 bits (114), Expect = 1e-05
 Identities = 29/68 (42%), Positives = 34/68 (50%), Gaps = 14/68 (20%)

Query: 92  GLETIKQALYELVILPLRRPELFSHGKLLGPQKG--VLLYGPPGTGKTMLAKAIAKESGA 149
           GLE +K+          R  E  +  KL    KG  + L GPPG GKT L K+IAK  G 
Sbjct: 327 GLEKVKE----------RILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGR 376

Query: 150 VFINVRIS 157
            F  VRIS
Sbjct: 377 KF--VRIS 382

Length = 782

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

 Score = 46.8 bits (112), Expect = 1e-05
 Identities = 28/69 (40%), Positives = 40/69 (57%), Gaps = 14/69 (20%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRIS--NLMSKWFGDAQKLVAAVFSLAYKLQP 183
           VLL+GPPG GKT LA  IA E G    N++I+    + K  GD    +AA+ +    L+ 
Sbjct: 55  VLLFGPPGLGKTTLAHIIANELGV---NLKITSGPALEK-PGD----LAAILTN---LEE 103

Query: 184 A-IIFIDEV 191
             ++FIDE+
Sbjct: 104 GDVLFIDEI 112

Length = 332

>gnl|CDD|203260 pfam05496, RuvB_N, Holliday junction DNA helicase ruvB N-terminus

 Score = 44.4 bits (106), Expect = 4e-05
 Identities = 31/69 (44%), Positives = 42/69 (60%), Gaps = 14/69 (20%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISN--LMSKWFGDAQKLVAAVFSLAYKLQP 183
           VLLYGPPG GKT LA  IA E G    N+RI++   + K  GD    +AA+ +    L+P
Sbjct: 53  VLLYGPPGLGKTTLANIIANEMGV---NIRITSGPALEK-PGD----LAAILT---NLEP 101

Query: 184 A-IIFIDEV 191
             ++FIDE+
Sbjct: 102 GDVLFIDEI 110

The RuvB protein makes up part of the RuvABC revolvasome which catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalyzed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein. Length = 231

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

 Score = 42.7 bits (101), Expect = 5e-05
 Identities = 32/149 (21%), Positives = 51/149 (34%), Gaps = 39/149 (26%)

Query: 125 GVLLYGPPGTGKTMLAKAIAK----------------ESGAVFINVRISNLMSKWFGDAQ 168
           GVLL GPPGTGK+ LA+ +A                     +     I    + W     
Sbjct: 1   GVLLVGPPGTGKSELAERLAAALSNRPVFYVQLTRDTTEEDLKGRRNIDPGGASW--VDG 58

Query: 169 KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH---EALTNMKTEFMALWDGFTTDQ- 224
            LV A        +  I  +DE++      R +       L+ +    + L +G    + 
Sbjct: 59  PLVRAA------REGEIAVLDEIN------RANPDVLNSLLSLLDERRLLLPEGGELVKA 106

Query: 225 -NARVMVLAATNRP----SELDEAILRRL 248
                 ++A  N      +EL  A+  R 
Sbjct: 107 APDGFRLIATMNPLDRGLNELSPALRSRF 135

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

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

 Score = 44.7 bits (106), Expect = 5e-05
 Identities = 19/38 (50%), Positives = 26/38 (68%), Gaps = 2/38 (5%)

Query: 112 ELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA 149
           ++   GK+ G  +G+L+ GPPGTGKT LA  IA+E G 
Sbjct: 56  KMIKQGKMAG--RGILIVGPPGTGKTALAMGIARELGE 91

Length = 450

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

 Score = 45.0 bits (107), Expect = 5e-05
 Identities = 23/48 (47%), Positives = 26/48 (54%), Gaps = 4/48 (8%)

Query: 112 ELFSHGKLLGPQKG--VLLYGPPGTGKTMLAKAIAKESGAVFINVRIS 157
           E  +  KL G  KG  + L GPPG GKT L K+IAK     F  VR S
Sbjct: 334 EYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRKF--VRFS 379

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

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

 Score = 44.2 bits (105), Expect = 7e-05
 Identities = 21/38 (55%), Positives = 26/38 (68%), Gaps = 2/38 (5%)

Query: 112 ELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA 149
           E+   GK+ G  + VL+ GPPGTGKT LA AI+KE G 
Sbjct: 41  EMIKEGKIAG--RAVLIAGPPGTGKTALAIAISKELGE 76

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

>gnl|CDD|144046 pfam00308, Bac_DnaA, Bacterial dnaA protein

 Score = 42.3 bits (100), Expect = 1e-04
 Identities = 45/164 (27%), Positives = 69/164 (42%), Gaps = 28/164 (17%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAV-------FSLA 178
           + +YG  G GKT L  AI   +   F N+R+  L S+ F      V A+       F  +
Sbjct: 37  LFIYGGVGLGKTHLLHAIGNYALRNFPNLRVVYLTSEEF--LNDFVDALRDNKIEAFKKS 94

Query: 179 YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS 238
           Y+    ++ ID++  FL  +  +  E        F AL +      N + +VL +   P 
Sbjct: 95  YR-NVDLLLIDDI-QFLAGKEKTQEEFFHT----FNALHE------NNKQIVLTSDRPPK 142

Query: 239 ELDEAILRRLPQAFEIGM------PDRKERAQILKVILKGEKVE 276
           EL E    RL   FE G+      PD + R  IL+   + E + 
Sbjct: 143 EL-EGFEDRLRSRFEWGLIIAIEPPDLETRLAILRKKAEEENIN 185

Length = 219

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

 Score = 43.1 bits (102), Expect = 2e-04
 Identities = 33/178 (18%), Positives = 57/178 (32%), Gaps = 39/178 (21%)

Query: 126 VLLYGPPGTGKTMLAKAIAKE-------SGAVFINVRISNLMSKWFGD-AQKLV------ 171
           +++YGP GTGKT   K + +E          V+IN        +       KL       
Sbjct: 45  IIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLGKVPLTG 104

Query: 172 ---AAVFSLAYKLQPA-----IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD 223
                +    Y          I+ +DEVD  L  +      +L     E           
Sbjct: 105 DSSLEILKRLYDNLSKKGKTVIVILDEVD-ALVDKDGEVLYSLLRAPGEN---------- 153

Query: 224 QNARVMVLAATNRPSE---LDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEEN 278
              +V ++A +N       LD  +   L    EI  P      ++  ++ +  +   +
Sbjct: 154 -KVKVSIIAVSNDDKFLDYLDPRVKSSLGP-SEIVFPP-YTAEELYDILRERVEEGFS 208

Length = 366

>gnl|CDD|216270 pfam01057, Parvo_NS1, Parvovirus non-structural protein NS1

 Score = 42.3 bits (100), Expect = 2e-04
 Identities = 15/29 (51%), Positives = 17/29 (58%)

Query: 117 GKLLGPQKGVLLYGPPGTGKTMLAKAIAK 145
            K  G +  V  YGP  TGKT LA+AIA 
Sbjct: 107 SKQGGKRNTVWFYGPASTGKTNLAQAIAH 135

This family also contains the NS2 protein. Parvoviruses encode two non-structural proteins, NS1 and NS2. The mRNA for NS2 contains the coding sequence for the first 87 amino acids of NS1, then by an alternative splicing mechanism mRNA from a different reading frame, encoding the last 78 amino acids, makes up the full length of the NS2 mRNA. NS1, is the major non-structural protein. It is essential for DNA replication. It is an 83-kDa nuclear phosphoprotein. It has DNA helicase and ATPase activity. Length = 271

>gnl|CDD|144608 pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI

 Score = 41.7 bits (99), Expect = 2e-04
 Identities = 12/18 (66%), Positives = 16/18 (88%)

Query: 126 VLLYGPPGTGKTMLAKAI 143
           +L+ GPPG+GKTMLAK +
Sbjct: 25  LLMIGPPGSGKTMLAKRL 42

Magnesium-chelatase is a three-component enzyme that catalyzes the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. Due to this, it is thought that Mg-chelatase has an important role in channelling inter- mediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weight between 38-42 kDa. Length = 207

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

 Score = 40.3 bits (95), Expect = 2e-04
 Identities = 15/83 (18%), Positives = 32/83 (38%), Gaps = 16/83 (19%)

Query: 126 VLLYGPPGTGKTMLAKAIAKE---SGAVFINVR--------ISNLMSKW-----FGDAQK 169
            +L G  G+GKT L + +A++      V++           +  ++         G   +
Sbjct: 7   GVLTGESGSGKTTLLRRLARQLPNRRVVYVEAPSLGTPKDLLRKILRALGLPLSGGTTAE 66

Query: 170 LVAAVFSLAYKLQPAIIFIDEVD 192
           L+ A+     +    ++ IDE  
Sbjct: 67  LLEAILDALKRRGRPLLIIDEAQ 89

Length = 124

>gnl|CDD|235871 PRK06835, PRK06835, DNA replication protein DnaC; Validated

 Score = 41.8 bits (99), Expect = 4e-04
 Identities = 13/26 (50%), Positives = 16/26 (61%)

Query: 121 GPQKGVLLYGPPGTGKTMLAKAIAKE 146
              + +L YG  GTGKT L+  IAKE
Sbjct: 181 KNNENLLFYGNTGTGKTFLSNCIAKE 206

Length = 329

>gnl|CDD|236153 PRK08116, PRK08116, hypothetical protein; Validated

 Score = 41.5 bits (98), Expect = 4e-04
 Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 6/51 (11%)

Query: 125 GVLLYGPPGTGKTMLAKAIA-----KESGAVFINV-RISNLMSKWFGDAQK 169
           G+LL+G  GTGKT LA  IA     K    +F+N  ++ N +   +  + K
Sbjct: 116 GLLLWGSVGTGKTYLAACIANELIEKGVPVIFVNFPQLLNRIKSTYKSSGK 166

Length = 268

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

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 25/73 (34%), Positives = 37/73 (50%), Gaps = 12/73 (16%)

Query: 127 LLYGPPGTGKTMLAKAIAKESGAVFINVR-----ISNLMSKWFGDAQKLVAAVFSLAYKL 181
           +LYGPPG GKT LA+ IA  + A F ++      + +L +       ++  A   L    
Sbjct: 56  ILYGPPGVGKTTLARIIANHTRAHFSSLNAVLAGVKDLRA-------EVDRAKERLERHG 108

Query: 182 QPAIIFIDEVDSF 194
           +  I+FIDEV  F
Sbjct: 109 KRTILFIDEVHRF 121

Length = 725

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

 Score = 38.8 bits (91), Expect = 6e-04
 Identities = 22/83 (26%), Positives = 31/83 (37%), Gaps = 24/83 (28%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK------WFGDAQKLVAAVFSLAY 179
           + LYGPPG GK+ LAK +A+         +  ++ S+      W G             Y
Sbjct: 1   IWLYGPPGCGKSTLAKYLARALLKHLGLPKKDSVYSRNPDDDFWDG-------------Y 47

Query: 180 KLQPAIIFIDEVDSFLGQRRTSD 202
             QP +I  D      GQ     
Sbjct: 48  TGQPVVIIDD-----FGQNPDGP 65

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

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

 Score = 39.6 bits (93), Expect = 7e-04
 Identities = 35/154 (22%), Positives = 52/154 (33%), Gaps = 24/154 (15%)

Query: 100 LYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAK-------------- 145
             E +  P         G LL      LL G PGTGK+ LA  +A               
Sbjct: 11  SAEDLDAPPPPLRWLVKG-LLPRGGLTLLAGAPGTGKSTLALDLAAAVATGRPFLGPFPV 69

Query: 146 ESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEA 205
           E G V     +    S+  G  ++L A   +L     P ++ ID + S LG     +   
Sbjct: 70  EPGRVLY---LDGEDSEA-GLRRRLRALGEALEEIEGPDLVVIDPLASLLGGDENDNAAV 125

Query: 206 LTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE 239
                   +A  D       A V+++  T +   
Sbjct: 126 -----GALLAALDRLARRTGAAVLLVHHTGKAGG 154

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

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

 Score = 40.0 bits (94), Expect = 0.001
 Identities = 26/67 (38%), Positives = 38/67 (56%), Gaps = 10/67 (14%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPA- 184
           +LLYGPPG GKT LA  IA E G    N++I+   S    +    +AA+ +    L+   
Sbjct: 33  LLLYGPPGLGKTTLAHIIANEMGV---NLKIT---SGPALEKPGDLAAILTN---LEEGD 83

Query: 185 IIFIDEV 191
           ++FIDE+
Sbjct: 84  VLFIDEI 90

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

>gnl|CDD|221983 pfam13207, AAA_17, AAA domain

 Score = 38.0 bits (88), Expect = 0.001
 Identities = 20/88 (22%), Positives = 34/88 (38%), Gaps = 4/88 (4%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFIN----VRISNLMSKWFGDAQKLVAAVFSLAYKL 181
           +L+ GPPG+GK+ LAK +A++ G   I+    +R   L     G+   +   +  L   L
Sbjct: 2   ILITGPPGSGKSTLAKKLAEKLGIPVISLDDLLREEGLAELDDGELDDIDIDLELLEEIL 61

Query: 182 QPAIIFIDEVDSFLGQRRTSDHEALTNM 209
                    +D           E    +
Sbjct: 62  DELAKQEWVIDGVRESTLELRLEEADLV 89

Length = 114

>gnl|CDD|213179 cd00267, ABC_ATPase, ATP-binding cassette transporter nucleotide-binding domain

 Score = 38.0 bits (89), Expect = 0.002
 Identities = 31/139 (22%), Positives = 53/139 (38%), Gaps = 31/139 (22%)

Query: 126 VLLYGPPGTGKTMLAKAIA----KESGAVFINVRISNLMSKWFGDAQKLVAAVFSL---- 177
           V L GP G+GK+ L +AIA      SG + I+ +  ++      + ++ +  V  L    
Sbjct: 28  VALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGK--DIAKLPLEELRRRIGYVPQLSGGQ 85

Query: 178 --------AYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVM 229
                   A  L P ++ +DE  S L      D  +   +      L +   T       
Sbjct: 86  RQRVALARALLLNPDLLLLDEPTSGL------DPASRERLLELLRELAEEGRT------- 132

Query: 230 VLAATNRPSELDEAILRRL 248
           V+  T+ P   + A  R +
Sbjct: 133 VIIVTHDPELAELAADRVI 151

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. Length = 157

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

 Score = 38.9 bits (91), Expect = 0.002
 Identities = 26/90 (28%), Positives = 40/90 (44%), Gaps = 15/90 (16%)

Query: 123 QKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRISNLMSKW---FGDAQKLVAAVFS 176
            + ++L GPPG GKT LA AI  E   +G   + +   +L+SK    F + +     +  
Sbjct: 105 GENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLRE 164

Query: 177 LA-YKLQPAIIFIDEVDSFLGQRRTSDHEA 205
           L    L    + ID+    +G    S  EA
Sbjct: 165 LKKVDL----LIIDD----IGYEPFSQEEA 186

Length = 254

>gnl|CDD|219536 pfam07724, AAA_2, AAA domain (Cdc48 subfamily)

 Score = 37.9 bits (89), Expect = 0.003
 Identities = 22/85 (25%), Positives = 35/85 (41%), Gaps = 23/85 (27%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKW------------------FGDA 167
            L  GP G GKT LAKA+A+        +   + MS++                  + + 
Sbjct: 6   FLFLGPTGVGKTELAKALAELLFGDERALIRID-MSEYMEEHSVSRLIGAPPGYVGYEEG 64

Query: 168 QKLVAAVFSLAYKLQPAIIFIDEVD 192
            +L  AV    Y    +I+ IDE++
Sbjct: 65  GQLTEAVRRKPY----SIVLIDEIE 85

This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model. Length = 168

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

 Score = 38.8 bits (91), Expect = 0.003
 Identities = 42/158 (26%), Positives = 71/158 (44%), Gaps = 25/158 (15%)

Query: 127 LLYGP-PGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAI 185
           LL+ P PGTGKT +AKA+  E GA  + V  S+    +  +     A+  SL       +
Sbjct: 46  LLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSDCRIDFVRNRLTRFASTVSLTGG--GKV 103

Query: 186 IFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAIL 245
           I IDE D      R    +A  ++++ FM  +       N   ++    N  + + E + 
Sbjct: 104 IIIDEFD------RLGLADAQRHLRS-FMEAYSK-----NCSFII--TANNKNGIIEPLR 149

Query: 246 RRLPQAFEIGMPDRKERAQILK-------VILKGEKVE 276
            R     + G+P ++E+ +++K        IL+ E VE
Sbjct: 150 SRCRV-IDFGVPTKEEQIEMMKQMIVRCKGILEAEGVE 186

Length = 316

>gnl|CDD|116340 pfam07726, AAA_3, ATPase family associated with various cellular activities (AAA)

 Score = 37.1 bits (87), Expect = 0.004
 Identities = 13/26 (50%), Positives = 17/26 (65%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVF 151
           VLL G PG  KT+LA+ +A+  G  F
Sbjct: 2   VLLEGVPGLAKTLLARTLARSLGLDF 27

This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model. Length = 131

>gnl|CDD|224292 COG1373, COG1373, Predicted ATPase (AAA+ superfamily) [General function prediction only]

 Score = 38.9 bits (91), Expect = 0.004
 Identities = 17/69 (24%), Positives = 29/69 (42%), Gaps = 2/69 (2%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAI 185
           +L+ GP   GKT L K + K      I +   +L          L A  +    + + + 
Sbjct: 40  ILILGPRQVGKTTLLKLLIKGLLEEIIYINFDDLRLDRIELLDLLRA--YIELKEREKSY 97

Query: 186 IFIDEVDSF 194
           IF+DE+ + 
Sbjct: 98  IFLDEIQNV 106

Length = 398

>gnl|CDD|218685 pfam05673, DUF815, Protein of unknown function (DUF815)

 Score = 38.3 bits (90), Expect = 0.004
 Identities = 38/118 (32%), Positives = 54/118 (45%), Gaps = 23/118 (19%)

Query: 81  DHID-VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTML 139
            H D V+ + + G++  K+AL       LR  E F  G    P   VLL+G  GTGK+ L
Sbjct: 20  PHPDPVDLDDLVGIDRQKEAL-------LRNTEQFLAGL---PANNVLLWGARGTGKSSL 69

Query: 140 AKAIAKE---SGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSF 194
            KA+  E    G   I V   +L     GD   +V  +    Y+    I+F D++ SF
Sbjct: 70  VKALLNEYADQGLRLIEVDKDDL-----GDLPDIVDLLRGRPYRF---ILFCDDL-SF 118

This family consists of several bacterial proteins of unknown function. Length = 248

>gnl|CDD|237495 PRK13765, PRK13765, ATP-dependent protease Lon; Provisional

 Score = 38.8 bits (91), Expect = 0.004
 Identities = 13/19 (68%), Positives = 17/19 (89%)

Query: 126 VLLYGPPGTGKTMLAKAIA 144
           V++ G PGTGK+MLAKA+A
Sbjct: 53  VMMIGSPGTGKSMLAKAMA 71

Length = 637

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	396
KOG0737	386	consensus AAA+-type ATPase [Posttranslational modi	100.0
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	100.0
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	100.0
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	100.0
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	100.0
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	100.0
KOG0736	953	consensus Peroxisome assembly factor 2 containing	100.0
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	100.0
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	100.0
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	100.0
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	100.0
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	100.0
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	100.0
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	100.0
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	100.0
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	100.0
KOG0740	428	consensus AAA+-type ATPase [Posttranslational modi	100.0
KOG0726	440	consensus 26S proteasome regulatory complex, ATPas	100.0
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	100.0
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	100.0
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	100.0
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	100.0
PRK03992	389	proteasome-activating nucleotidase; Provisional	100.0
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	100.0
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	100.0
CHL00195	489	ycf46 Ycf46; Provisional	100.0
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	100.0
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	100.0
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	100.0
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	100.0
CHL00176	638	ftsH cell division protein; Validated	100.0
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	100.0
KOG0732	1080	consensus AAA+-type ATPase containing the bromodom	100.0
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	100.0
CHL00206	2281	ycf2 Ycf2; Provisional	99.98
KOG0736	953	consensus Peroxisome assembly factor 2 containing	99.97
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	99.97
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	99.97
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	99.96
CHL00181	287	cbbX CbbX; Provisional	99.92
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	99.9
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	99.9
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	99.9
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	99.89
KOG0742	630	consensus AAA+-type ATPase [Posttranslational modi	99.88
PF00004	132	AAA: ATPase family associated with various cellula	99.87
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	99.85
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	99.85
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	99.82
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.82
COG2256	436	MGS1 ATPase related to the helicase subunit of the	99.82
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.81
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.81
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	99.8
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	99.8
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	99.8
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	99.79
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	99.79
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.77
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	99.77
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	99.77
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	99.76
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	99.76
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	99.76
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	99.75
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	99.74
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.74
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	99.74
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	99.74
PRK04195	482	replication factor C large subunit; Provisional	99.74
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	99.73
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	99.72
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	99.72
PRK07940	394	DNA polymerase III subunit delta'; Validated	99.72
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	99.72
PRK13342	413	recombination factor protein RarA; Reviewed	99.72
PRK10865	857	protein disaggregation chaperone; Provisional	99.71
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	99.71
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	99.71
PLN03025	319	replication factor C subunit; Provisional	99.71
KOG2028	554	consensus ATPase related to the helicase subunit o	99.71
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	99.7
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	99.7
PRK00149	450	dnaA chromosomal replication initiation protein; R	99.7
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	99.7
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	99.69
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.69
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	99.69
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.69
CHL00095	821	clpC Clp protease ATP binding subunit	99.69
PRK12402	337	replication factor C small subunit 2; Reviewed	99.68
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	99.68
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	99.67
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	99.67
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	99.67
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	99.67
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	99.67
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	99.67
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	99.67
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	99.67
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	99.66
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	99.66
PHA02544	316	44 clamp loader, small subunit; Provisional	99.66
PRK13341	725	recombination factor protein RarA/unknown domain f	99.66
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	99.66
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	99.66
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	99.65
PRK14088	440	dnaA chromosomal replication initiation protein; P	99.65
PRK08084	235	DNA replication initiation factor; Provisional	99.65
PRK08903	227	DnaA regulatory inactivator Hda; Validated	99.65
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	99.65
PRK06893	229	DNA replication initiation factor; Validated	99.64
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.64
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	99.64
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	99.63
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	99.63
COG3829	560	RocR Transcriptional regulator containing PAS, AAA	99.62
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	99.62
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	99.62
PTZ00112	1164	origin recognition complex 1 protein; Provisional	99.61
PRK00440	319	rfc replication factor C small subunit; Reviewed	99.61
PRK08727	233	hypothetical protein; Validated	99.6
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	99.6
PRK14086	617	dnaA chromosomal replication initiation protein; P	99.6
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	99.59
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	99.58
COG2204	464	AtoC Response regulator containing CheY-like recei	99.57
TIGR00382	413	clpX endopeptidase Clp ATP-binding regulatory subu	99.57
PRK12422	445	chromosomal replication initiation protein; Provis	99.57
PRK05642	234	DNA replication initiation factor; Validated	99.57
PRK06620	214	hypothetical protein; Validated	99.57
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	99.57
PRK14087	450	dnaA chromosomal replication initiation protein; P	99.55
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	99.54
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	99.54
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	99.52
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	99.52
PRK13407	334	bchI magnesium chelatase subunit I; Provisional	99.51
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	99.51
PRK09112	351	DNA polymerase III subunit delta'; Validated	99.51
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	99.51
CHL00081	350	chlI Mg-protoporyphyrin IX chelatase	99.5
PRK09087	226	hypothetical protein; Validated	99.49
PHA02244	383	ATPase-like protein	99.48
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	99.48
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	99.47
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	99.47
COG3604	550	FhlA Transcriptional regulator containing GAF, AAA	99.47
PRK07471	365	DNA polymerase III subunit delta'; Validated	99.47
PRK05564	313	DNA polymerase III subunit delta'; Validated	99.47
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	99.46
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	99.45
COG0593	408	DnaA ATPase involved in DNA replication initiation	99.44
PRK11608	326	pspF phage shock protein operon transcriptional ac	99.44
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	99.42
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	99.42
PRK07399	314	DNA polymerase III subunit delta'; Validated	99.42
TIGR02329	526	propionate_PrpR propionate catabolism operon regul	99.41
TIGR02030	337	BchI-ChlI magnesium chelatase ATPase subunit I. Th	99.4
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	99.4
PRK15424	538	propionate catabolism operon regulatory protein Pr	99.4
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	99.4
TIGR02442	633	Cob-chelat-sub cobaltochelatase subunit. A number	99.39
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	99.39
PRK10865	857	protein disaggregation chaperone; Provisional	99.37
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	99.37
TIGR00368	499	Mg chelatase-related protein. The N-terminal end m	99.37
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	99.36
COG0714	329	MoxR-like ATPases [General function prediction onl	99.36
PRK05022	509	anaerobic nitric oxide reductase transcription reg	99.36
PRK05707	328	DNA polymerase III subunit delta'; Validated	99.35
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.34
COG1221	403	PspF Transcriptional regulators containing an AAA-	99.33
PRK08058	329	DNA polymerase III subunit delta'; Validated	99.33
CHL00095	821	clpC Clp protease ATP binding subunit	99.33
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	99.33
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	99.33
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	99.31
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	99.31
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	99.31
COG0606	490	Predicted ATPase with chaperone activity [Posttran	99.3
KOG1969	877	consensus DNA replication checkpoint protein CHL12	99.3
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.29
smart00350	509	MCM minichromosome maintenance proteins.	99.29
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	99.28
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	99.27
smart00382	148	AAA ATPases associated with a variety of cellular	99.27
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	99.26
PRK04132	846	replication factor C small subunit; Provisional	99.25
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	99.25
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	99.25
COG1220	444	HslU ATP-dependent protease HslVU (ClpYQ), ATPase	99.25
PRK06871	325	DNA polymerase III subunit delta'; Validated	99.22
TIGR02915	445	PEP_resp_reg putative PEP-CTERM system response re	99.21
COG1219	408	ClpX ATP-dependent protease Clp, ATPase subunit [P	99.21
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	99.19
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	99.19
PF07726	131	AAA_3: ATPase family associated with various cellu	99.18
KOG1942	456	consensus DNA helicase, TBP-interacting protein [R	99.17
PRK13531	498	regulatory ATPase RavA; Provisional	99.16
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	99.15
PRK09862	506	putative ATP-dependent protease; Provisional	99.14
PRK06964	342	DNA polymerase III subunit delta'; Validated	99.14
PRK07993	334	DNA polymerase III subunit delta'; Validated	99.13
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	99.13
PRK06090	319	DNA polymerase III subunit delta'; Validated	99.12
TIGR02031	589	BchD-ChlD magnesium chelatase ATPase subunit D. Th	99.12
PRK11361	457	acetoacetate metabolism regulatory protein AtoC; P	99.12
COG1239	423	ChlI Mg-chelatase subunit ChlI [Coenzyme metabolis	99.12
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	99.11
PRK08769	319	DNA polymerase III subunit delta'; Validated	99.11
KOG2680	454	consensus DNA helicase TIP49, TBP-interacting prot	99.08
PTZ00111	915	DNA replication licensing factor MCM4; Provisional	99.08
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	99.08
COG3283	511	TyrR Transcriptional regulator of aromatic amino a	99.08
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	99.07
PRK15115	444	response regulator GlrR; Provisional	99.07
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	99.06
PRK08116	268	hypothetical protein; Validated	99.05
PRK12377	248	putative replication protein; Provisional	99.05
PRK13765	637	ATP-dependent protease Lon; Provisional	99.01
PRK10365	441	transcriptional regulatory protein ZraR; Provision	99.01
KOG0478	804	consensus DNA replication licensing factor, MCM4 c	99.0
KOG1514	767	consensus Origin recognition complex, subunit 1, a	98.99
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	98.96
PRK08699	325	DNA polymerase III subunit delta'; Validated	98.93
COG1241	682	MCM2 Predicted ATPase involved in replication cont	98.92
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	98.9
PRK07952	244	DNA replication protein DnaC; Validated	98.89
PRK08181	269	transposase; Validated	98.87
KOG0745	564	consensus Putative ATP-dependent Clp-type protease	98.87
KOG0990	360	consensus Replication factor C, subunit RFC5 [Repl	98.86
PF13173	128	AAA_14: AAA domain	98.84
PRK13406	584	bchD magnesium chelatase subunit D; Provisional	98.77
KOG0480	764	consensus DNA replication licensing factor, MCM6 c	98.73
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.73
PRK06526	254	transposase; Provisional	98.71
PRK06835	329	DNA replication protein DnaC; Validated	98.7
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.66
PRK08939	306	primosomal protein DnaI; Reviewed	98.64
PRK09183	259	transposase/IS protein; Provisional	98.63
PF12774	231	AAA_6: Hydrolytic ATP binding site of dynein motor	98.63
PRK05917	290	DNA polymerase III subunit delta'; Validated	98.62
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	98.62
PRK07276	290	DNA polymerase III subunit delta'; Validated	98.61
KOG0482	721	consensus DNA replication licensing factor, MCM7 c	98.61
KOG0477	854	consensus DNA replication licensing factor, MCM2 c	98.6
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	98.6
PRK06921	266	hypothetical protein; Provisional	98.6
COG1484	254	DnaC DNA replication protein [DNA replication, rec	98.59
PRK05818	261	DNA polymerase III subunit delta'; Validated	98.59
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	98.56
COG3284	606	AcoR Transcriptional activator of acetoin/glycerol	98.52
PF05729	166	NACHT: NACHT domain	98.52
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	98.51
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	98.48
KOG0481	729	consensus DNA replication licensing factor, MCM5 c	98.44
PRK07132	299	DNA polymerase III subunit delta'; Validated	98.43
PF00493	331	MCM: MCM2/3/5 family This family extends the MCM d	98.43
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	98.4
COG4650	531	RtcR Sigma54-dependent transcription regulator con	98.39
PLN03210	1153	Resistant to P. syringae 6; Provisional	98.38
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	98.34
CHL00195	489	ycf46 Ycf46; Provisional	98.32
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	98.31
KOG2383	467	consensus Predicted ATPase [General function predi	98.29
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	98.29
TIGR02237	209	recomb_radB DNA repair and recombination protein R	98.28
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	98.22
PHA00729	226	NTP-binding motif containing protein	98.21
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	98.18
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.18
KOG1968	871	consensus Replication factor C, subunit RFC1 (larg	98.12
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	98.08
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	98.07
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	98.06
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	98.04
TIGR02688	449	conserved hypothetical protein TIGR02688. Members	98.03
PF14516	331	AAA_35: AAA-like domain	98.03
COG1485	367	Predicted ATPase [General function prediction only	98.01
PHA02624	647	large T antigen; Provisional	97.98
PRK08118	167	topology modulation protein; Reviewed	97.96
KOG0479	818	consensus DNA replication licensing factor, MCM3 c	97.96
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.95
PRK11823	446	DNA repair protein RadA; Provisional	97.94
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	97.93
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.91
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	97.9
PRK07261	171	topology modulation protein; Provisional	97.9
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.9
PRK00131	175	aroK shikimate kinase; Reviewed	97.87
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.83
PF05707	193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	97.82
PRK15455	644	PrkA family serine protein kinase; Provisional	97.81
PRK08533	230	flagellar accessory protein FlaH; Reviewed	97.78
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.78
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.74
PHA02774	613	E1; Provisional	97.74
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	97.73
PTZ00202	550	tuzin; Provisional	97.71
COG4619	223	ABC-type uncharacterized transport system, ATPase	97.71
PRK04841	903	transcriptional regulator MalT; Provisional	97.71
PRK03839	180	putative kinase; Provisional	97.71
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.7
PRK00625	173	shikimate kinase; Provisional	97.7
PRK04296	190	thymidine kinase; Provisional	97.7
PRK13947	171	shikimate kinase; Provisional	97.7
PRK06067	234	flagellar accessory protein FlaH; Validated	97.69
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	97.67
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	97.66
PRK06762	166	hypothetical protein; Provisional	97.66
PRK06581	263	DNA polymerase III subunit delta'; Validated	97.65
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	97.65
PRK13949	169	shikimate kinase; Provisional	97.64
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.64
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.64
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	97.64
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.64
PRK14532	188	adenylate kinase; Provisional	97.64
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.64
PRK13948	182	shikimate kinase; Provisional	97.62
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	97.62
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.61
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	97.61
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	97.6
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	97.6
PRK10536	262	hypothetical protein; Provisional	97.6
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.6
PRK09354	349	recA recombinase A; Provisional	97.6
PRK05973	237	replicative DNA helicase; Provisional	97.59
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.57
PRK14531	183	adenylate kinase; Provisional	97.57
PRK06217	183	hypothetical protein; Validated	97.56
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	97.54
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	97.53
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	97.52
COG5271	4600	MDN1 AAA ATPase containing von Willebrand factor t	97.52
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	97.52
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	97.51
PRK09376	416	rho transcription termination factor Rho; Provisio	97.51
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	97.51
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	97.51
PRK14530	215	adenylate kinase; Provisional	97.51
PRK08154	309	anaerobic benzoate catabolism transcriptional regu	97.5
PTZ00088	229	adenylate kinase 1; Provisional	97.49
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	97.49
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	97.49
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.49
PRK14974	336	cell division protein FtsY; Provisional	97.48
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.48
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.47
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	97.46
cd01128	249	rho_factor Transcription termination factor rho is	97.46
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	97.46
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	97.45
PF05272	198	VirE: Virulence-associated protein E; InterPro: IP	97.45
PRK06547	172	hypothetical protein; Provisional	97.45
PRK13695	174	putative NTPase; Provisional	97.45
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	97.45
PF08303	168	tRNA_lig_kinase: tRNA ligase kinase domain; InterP	97.44
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	97.43
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	97.42
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	97.42
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.42
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	97.42
PRK05057	172	aroK shikimate kinase I; Reviewed	97.41
TIGR02533	486	type_II_gspE general secretory pathway protein E.	97.41
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	97.4
PRK03731	171	aroL shikimate kinase II; Reviewed	97.39
COG2804	500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	97.39
PRK13946	184	shikimate kinase; Provisional	97.39
PF09848	352	DUF2075: Uncharacterized conserved protein (DUF207	97.39
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	97.39
PRK14528	186	adenylate kinase; Provisional	97.39
PLN02200	234	adenylate kinase family protein	97.39
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	97.39
PRK08233	182	hypothetical protein; Provisional	97.39
PRK13764	602	ATPase; Provisional	97.38
PRK04328	249	hypothetical protein; Provisional	97.38
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.37
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.35
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	97.35
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	97.35
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.35
cd03216	163	ABC_Carb_Monos_I This family represents the domain	97.35
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.33
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	97.33
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.33
PRK02496	184	adk adenylate kinase; Provisional	97.33
PRK10436	462	hypothetical protein; Provisional	97.32
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	97.32
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.31
PF13479	213	AAA_24: AAA domain	97.31
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	97.31
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	97.31
PRK13900	332	type IV secretion system ATPase VirB11; Provisiona	97.29
PRK00279	215	adk adenylate kinase; Reviewed	97.29
PRK14527	191	adenylate kinase; Provisional	97.29
PRK06696	223	uridine kinase; Validated	97.29
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	97.29
PRK04040	188	adenylate kinase; Provisional	97.28
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	97.27
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	97.26
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.25
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	97.25
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.25
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	97.25
TIGR00064	272	ftsY signal recognition particle-docking protein F	97.23
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	97.23
PF13245	76	AAA_19: Part of AAA domain	97.23
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	97.23
PLN02674	244	adenylate kinase	97.22
COG4178	604	ABC-type uncharacterized transport system, permeas	97.2
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.2
PLN02199	303	shikimate kinase	97.18
TIGR02538	564	type_IV_pilB type IV-A pilus assembly ATPase PilB.	97.17
COG5245	3164	DYN1 Dynein, heavy chain [Cytoskeleton]	97.17
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	97.17
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	97.17
PRK13833	323	conjugal transfer protein TrbB; Provisional	97.16
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.16
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.14
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	97.13
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	97.13
TIGR00767	415	rho transcription termination factor Rho. Members	97.13
PRK01184	184	hypothetical protein; Provisional	97.12
PRK10416	318	signal recognition particle-docking protein FtsY;	97.12
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.11
TIGR02236	310	recomb_radA DNA repair and recombination protein R	97.11
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	97.1
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	97.1
smart00487	201	DEXDc DEAD-like helicases superfamily.	97.1
PRK09519	790	recA DNA recombination protein RecA; Reviewed	97.1
PRK04301	317	radA DNA repair and recombination protein RadA; Va	97.08
PRK14526	211	adenylate kinase; Provisional	97.08
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	97.08
PRK00889	175	adenylylsulfate kinase; Provisional	97.07
PRK04182	180	cytidylate kinase; Provisional	97.06
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	97.06
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	97.06
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	97.06
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	97.05
PHA02530	300	pseT polynucleotide kinase; Provisional	97.04
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	97.04
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	97.04
PRK13851	344	type IV secretion system protein VirB11; Provision	97.03
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	97.02
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	97.02
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.02
COG2805	353	PilT Tfp pilus assembly protein, pilus retraction	97.01
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	97.01
PTZ00035	337	Rad51 protein; Provisional	97.0
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	97.0
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	97.0
KOG3928	461	consensus Mitochondrial ribosome small subunit com	96.99
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.99
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	96.98
PRK05541	176	adenylylsulfate kinase; Provisional	96.96
PRK13894	319	conjugal transfer ATPase TrbB; Provisional	96.96
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.96
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.96
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	96.96
cd03246	173	ABCC_Protease_Secretion This family represents the	96.96
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	96.96
TIGR01526	325	nadR_NMN_Atrans nicotinamide-nucleotide adenylyltr	96.95
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.93
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.92
PF01745	233	IPT: Isopentenyl transferase; InterPro: IPR002648	96.92
PLN02459	261	probable adenylate kinase	96.91
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.91
PRK14529	223	adenylate kinase; Provisional	96.9
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	96.89
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.89
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	96.88
PRK12339	197	2-phosphoglycerate kinase; Provisional	96.88
PRK10867	433	signal recognition particle protein; Provisional	96.88
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	96.88
cd03227	162	ABC_Class2 ABC-type Class 2 contains systems invol	96.87
COG2884	223	FtsE Predicted ATPase involved in cell division [C	96.87
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	96.84
PRK08099	399	bifunctional DNA-binding transcriptional repressor	96.84
PRK12608	380	transcription termination factor Rho; Provisional	96.84
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	96.83
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	96.83
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	96.83
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.82
PRK12338	319	hypothetical protein; Provisional	96.78
PRK05480	209	uridine/cytidine kinase; Provisional	96.78
PRK13808	333	adenylate kinase; Provisional	96.77
cd02022	179	DPCK Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.2	96.77
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	96.77
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.76
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	96.76
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	96.76
PRK00091	307	miaA tRNA delta(2)-isopentenylpyrophosphate transf	96.76
PLN02165	334	adenylate isopentenyltransferase	96.72
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	96.72
COG1855	604	ATPase (PilT family) [General function prediction	96.71
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	96.7
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.7

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

Probab=100.00  E-value=5.1e-59  Score=427.85  Aligned_cols=337  Identities=58%  Similarity=0.909  Sum_probs=316.4

Q ss_pred             CCCCCchHHHHHHHHHHHHHHHHHHHHHhhcccCCChHHHHHHHHhHHHHhHHhCC------CCCCCCccchhhhccccC
Q 016044            6 GNSSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGR------PLIQTNPYEDVIACDVIN   79 (396)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~   79 (396)
                      ++..+..++..++.+++..++++|...+.++.++|+.....++.....+..++++.      .++..++||..++++++.
T Consensus         4 ~~~~~~~~i~~~~~~i~~~A~~~~~~~~~~~~~d~~~~~~~eS~~~~~~~l~~~~~~~s~k~~~i~~ne~E~~i~s~~v~   83 (386)
T KOG0737|consen    4 SFTKDDVLITSLIRKIVAAAISHHLVHLLVPRLDPNLKASRESLEKTEELLKNLEAELSLKYRIIQKNEYEKRIASDVVP   83 (386)
T ss_pred             cccccchHHHHHHHHHHHHHHHHHHHhccccccChhhhhhHHHHHHHHHHHHhhhhccchhhhhhhhhHHHHHhhhcccc
Confidence            45678889999999999999999999999999999888888888888888888877      589999999999999999


Q ss_pred             CCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044           80 PDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus        80 ~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      |....++|+||+|++.+++++++.+..|+++|++|..++++++++|||||||||||||++|+++|++.|.+|+.+..+.+
T Consensus        84 p~~I~v~f~DIggLe~v~~~L~e~VilPlr~pelF~~g~Ll~p~kGiLL~GPpG~GKTmlAKA~Akeaga~fInv~~s~l  163 (386)
T KOG0737|consen   84 PSEIGVSFDDIGGLEEVKDALQELVILPLRRPELFAKGKLLRPPKGILLYGPPGTGKTMLAKAIAKEAGANFINVSVSNL  163 (386)
T ss_pred             hhhceeehhhccchHHHHHHHHHHHhhcccchhhhcccccccCCccceecCCCCchHHHHHHHHHHHcCCCcceeecccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCC
Q 016044          160 MSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE  239 (396)
Q Consensus       160 ~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~  239 (396)
                      .++|+|++++.+..+|..|.+.+|++|||||+|.+++.|+.+++++...+.++|+..|||+.+..+.+|+|+||||+|.+
T Consensus       164 t~KWfgE~eKlv~AvFslAsKl~P~iIFIDEvds~L~~R~s~dHEa~a~mK~eFM~~WDGl~s~~~~rVlVlgATNRP~D  243 (386)
T KOG0737|consen  164 TSKWFGEAQKLVKAVFSLASKLQPSIIFIDEVDSFLGQRRSTDHEATAMMKNEFMALWDGLSSKDSERVLVLGATNRPFD  243 (386)
T ss_pred             chhhHHHHHHHHHHHHhhhhhcCcceeehhhHHHHHhhcccchHHHHHHHHHHHHHHhccccCCCCceEEEEeCCCCCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999988888999999999999


Q ss_pred             CcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH----
Q 016044          240 LDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE----  315 (396)
Q Consensus       240 l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~----  315 (396)
                      +|++++||++.+++++.|+..+|.+||+.+++...+++++|+.++|..|+||||+||+++|+.|+..++++++...    
T Consensus       244 lDeAiiRR~p~rf~V~lP~~~qR~kILkviLk~e~~e~~vD~~~iA~~t~GySGSDLkelC~~Aa~~~ire~~~~~~~~~  323 (386)
T KOG0737|consen  244 LDEAIIRRLPRRFHVGLPDAEQRRKILKVILKKEKLEDDVDLDEIAQMTEGYSGSDLKELCRLAALRPIRELLVSETGLL  323 (386)
T ss_pred             HHHHHHHhCcceeeeCCCchhhHHHHHHHHhcccccCcccCHHHHHHhcCCCcHHHHHHHHHHHhHhHHHHHHHhcccch
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999998774    


Q ss_pred             -hcC-----CC------CCCCCCCCHHHHHHHHHhcccc
Q 016044          316 -RKG-----KP------AAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       316 -~~~-----~~------~~~~~~i~~~d~~~al~~~~~~  342 (396)
                       ...     ..      ....++++++||.++...+.++
T Consensus       324 d~d~~~~d~~~~~~~~~~~~~r~l~~eDf~~a~~~v~~~  362 (386)
T KOG0737|consen  324 DLDKAIADLKPTQAAASSCLLRPLEQEDFPKAINRVSAS  362 (386)
T ss_pred             hhhhhhhhccCCcccccccccCcccHHHHHHHHHhhhhH
Confidence             110     00      1126899999999999977655

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

Probab=100.00  E-value=4.8e-54  Score=392.77  Aligned_cols=246  Identities=42%  Similarity=0.706  Sum_probs=231.1

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.|+++++||+|++++++++++.+.+|+.+|++|...+ +.||+|||||||||||||+||||+|++.++.|+.+.+++|.
T Consensus       144 e~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~G-I~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtFIrvvgSElV  222 (406)
T COG1222         144 EKPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELG-IDPPKGVLLYGPPGTGKTLLAKAVANQTDATFIRVVGSELV  222 (406)
T ss_pred             cCCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcC-CCCCCceEeeCCCCCcHHHHHHHHHhccCceEEEeccHHHH
Confidence            56789999999999999999999999999999999976 89999999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCC---CchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRT---SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~---~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      .+|+|++.+.++.+|..|+..+||||||||||++.++|..   +...-..|.+.+|+.+|||+..  .++|-||+|||++
T Consensus       223 qKYiGEGaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~--~~nvKVI~ATNR~  300 (406)
T COG1222         223 QKYIGEGARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDP--RGNVKVIMATNRP  300 (406)
T ss_pred             HHHhccchHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCC--CCCeEEEEecCCc
Confidence            9999999999999999999999999999999999988753   3344556777799999999976  6789999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +.|||||+|  |||+.|+||+|+.+.|.+||+.+.+++.+..++|++.||+.++|+||+||+++|.+|.+.|+++--   
T Consensus       301 D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~e~la~~~~g~sGAdlkaictEAGm~AiR~~R---  377 (406)
T COG1222         301 DILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDLELLARLTEGFSGADLKAICTEAGMFAIRERR---  377 (406)
T ss_pred             cccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCHHHHHHhcCCCchHHHHHHHHHHhHHHHHhcc---
Confidence            999999999  999999999999999999999999999999999999999999999999999999999999999843   


Q ss_pred             hcCCCCCCCCCCCHHHHHHHHHhccc
Q 016044          316 RKGKPAAAPRPLSRLDLEKVLTTSRK  341 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al~~~~~  341 (396)
                               ..+|++||.+|..++-.
T Consensus       378 ---------~~Vt~~DF~~Av~KV~~  394 (406)
T COG1222         378 ---------DEVTMEDFLKAVEKVVK  394 (406)
T ss_pred             ---------CeecHHHHHHHHHHHHh
Confidence                     66999999999998754

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

Probab=100.00  E-value=7.9e-54  Score=412.24  Aligned_cols=301  Identities=31%  Similarity=0.559  Sum_probs=273.2

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      ..++++|++|+|+++...+|.+.+.. +++|+.|...+ +.||+|||||||||||||+||+++|.+++.||+.++++++.
T Consensus       183 ~~snv~f~diGG~d~~~~el~~li~~-i~~Pe~~~~lG-v~PprGvLlHGPPGCGKT~lA~AiAgel~vPf~~isApeiv  260 (802)
T KOG0733|consen  183 PESNVSFSDIGGLDKTLAELCELIIH-IKHPEVFSSLG-VRPPRGVLLHGPPGCGKTSLANAIAGELGVPFLSISAPEIV  260 (802)
T ss_pred             CCCCcchhhccChHHHHHHHHHHHHH-hcCchhHhhcC-CCCCCceeeeCCCCccHHHHHHHHhhhcCCceEeecchhhh
Confidence            34578999999999999999999988 99999999976 78999999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCC--CCcEEEEEecCCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQ--NARVMVLAATNRPS  238 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~--~~~v~vI~atn~~~  238 (396)
                      +.+.|++++.++.+|+.|+.+.|||+||||||.+.++|.....+.-+|+..+|+..||++....  +.+|+||||||+|+
T Consensus       261 SGvSGESEkkiRelF~~A~~~aPcivFiDeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVIgATnRPD  340 (802)
T KOG0733|consen  261 SGVSGESEKKIRELFDQAKSNAPCIVFIDEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKGDPVLVIGATNRPD  340 (802)
T ss_pred             cccCcccHHHHHHHHHHHhccCCeEEEeecccccccchhhHHHHHHHHHHHHHHHhhhcccccccCCCCeEEEecCCCCc
Confidence            9999999999999999999999999999999999999999888888999999999999987543  47899999999999


Q ss_pred             CCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHh
Q 016044          239 ELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEER  316 (396)
Q Consensus       239 ~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~  316 (396)
                      .||++|+|  ||++.|.+..|+..+|.+||+.++++..+..++++..||+.|.||.|+||.+||.+|+..|++|+.+...
T Consensus       341 slDpaLRRaGRFdrEI~l~vP~e~aR~~IL~~~~~~lrl~g~~d~~qlA~lTPGfVGADL~AL~~~Aa~vAikR~ld~~~  420 (802)
T KOG0733|consen  341 SLDPALRRAGRFDREICLGVPSETAREEILRIICRGLRLSGDFDFKQLAKLTPGFVGADLMALCREAAFVAIKRILDQSS  420 (802)
T ss_pred             ccCHHHhccccccceeeecCCchHHHHHHHHHHHhhCCCCCCcCHHHHHhcCCCccchhHHHHHHHHHHHHHHHHhhccc
Confidence            99999999  9999999999999999999999999999999999999999999999999999999999999999876332


Q ss_pred             c---------C--------CC---------------------------------CCCCCCCCHHHHHHHHHhcccchhhh
Q 016044          317 K---------G--------KP---------------------------------AAAPRPLSRLDLEKVLTTSRKTRVAA  346 (396)
Q Consensus       317 ~---------~--------~~---------------------------------~~~~~~i~~~d~~~al~~~~~~~~~~  346 (396)
                      .         +        ..                                 ....-.|+.+||+.|+..++|+  +.
T Consensus       421 ~p~~~~~~~ed~~~~~~~~d~S~i~~~~~~~~~~~ld~v~~~~i~~~~d~~S~E~~~~L~i~~eDF~~Al~~iQPS--ak  498 (802)
T KOG0733|consen  421 SPLTKVPISEDSSNKDAEEDQSSIKITSNAERPLELDRVVQDAILNNPDPLSKELLEGLSIKFEDFEEALSKIQPS--AK  498 (802)
T ss_pred             CccccCCccccccCCCccchhhhhhcCCcccccccHHHHHHHHHHhCCCCcChHHhccceecHHHHHHHHHhcCcc--hh
Confidence            1         0        00                                 0022457899999999999999  88


Q ss_pred             hhhhccCCCCCccccCCCccHhHHHHHHHHHHHHHHHHhccCCCCCCC
Q 016044          347 TEYTLNSQSSGWSRNNESNDYQVQAAISELSRLVVSQIMNIQSEPDTQ  394 (396)
Q Consensus       347 ~~~~~~~~~~~w~di~~~~~~~~~~~L~ei~~~~~~~~~~~~~~~~~~  394 (396)
                      ++....+|.|+|+|||+++  +++.+|       ..++.||.++|+.|
T Consensus       499 REGF~tVPdVtW~dIGaL~--~vR~eL-------~~aI~~PiK~pd~~  537 (802)
T KOG0733|consen  499 REGFATVPDVTWDDIGALE--EVRLEL-------NMAILAPIKRPDLF  537 (802)
T ss_pred             cccceecCCCChhhcccHH--HHHHHH-------HHHHhhhccCHHHH
Confidence            8999999999999999998  555544       44588999999876

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

Probab=100.00  E-value=1.3e-52  Score=409.31  Aligned_cols=250  Identities=37%  Similarity=0.670  Sum_probs=239.7

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.++++|+||+|++++|++|++.+.||+++|+.|.+.+ +.||+|||||||||||||++||++|++++++|+.+.+++++
T Consensus       427 e~p~v~W~dIGGlE~lK~elq~~V~~p~~~pe~F~r~G-i~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsvkgpEL~  505 (693)
T KOG0730|consen  427 EMPNVSWDDIGGLEELKRELQQAVEWPLKHPEKFARFG-ISPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSVKGPELF  505 (693)
T ss_pred             cCCCCChhhccCHHHHHHHHHHHHhhhhhchHHHHHhc-CCCCceEEEECCCCcchHHHHHHHhhhhcCCeeeccCHHHH
Confidence            56789999999999999999999999999999999976 88999999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSEL  240 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l  240 (396)
                      ++|+|++|+.++.+|+.|+...||||||||||++...|..+..++..|++++++.+|||+..  ..+|+|||+||+|+.|
T Consensus       506 sk~vGeSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~--~k~V~ViAATNRpd~I  583 (693)
T KOG0730|consen  506 SKYVGESERAIREVFRKARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEA--LKNVLVIAATNRPDMI  583 (693)
T ss_pred             HHhcCchHHHHHHHHHHHhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccc--cCcEEEEeccCChhhc
Confidence            99999999999999999999999999999999999999877778999999999999999986  4689999999999999


Q ss_pred             cHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 016044          241 DEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKG  318 (396)
Q Consensus       241 ~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~  318 (396)
                      |++++|  |||..+++|+|+.+.|.+|++.+++++++.+++|+++||+.|+||||+||.++|++|+..|+++.++.    
T Consensus       584 D~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp~~~~vdl~~La~~T~g~SGAel~~lCq~A~~~a~~e~i~a----  659 (693)
T KOG0730|consen  584 DPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMPFSEDVDLEELAQATEGYSGAEIVAVCQEAALLALRESIEA----  659 (693)
T ss_pred             CHHHcCCcccceeEeecCccHHHHHHHHHHHHhcCCCCccccHHHHHHHhccCChHHHHHHHHHHHHHHHHHhccc----
Confidence            999999  99999999999999999999999999999999999999999999999999999999999999998753    


Q ss_pred             CCCCCCCCCCHHHHHHHHHhcccch
Q 016044          319 KPAAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       319 ~~~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                            ..|+.+||++|++..+++.
T Consensus       660 ------~~i~~~hf~~al~~~r~s~  678 (693)
T KOG0730|consen  660 ------TEITWQHFEEALKAVRPSL  678 (693)
T ss_pred             ------ccccHHHHHHHHHhhcccC
Confidence                  5699999999999999874

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

Probab=100.00  E-value=3.7e-52  Score=382.54  Aligned_cols=268  Identities=38%  Similarity=0.643  Sum_probs=242.5

Q ss_pred             hccccCCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044           74 ACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus        74 ~~~~~~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      ..+++. ..|.+.|+||.|++++|+-|++.|+.|+..|+.|...  .+|.+|||++||||||||+||+|+|.+++..|+.
T Consensus       199 erdIl~-~np~ikW~DIagl~~AK~lL~EAVvlPi~mPe~F~Gi--rrPWkgvLm~GPPGTGKTlLAKAvATEc~tTFFN  275 (491)
T KOG0738|consen  199 ERDILQ-RNPNIKWDDIAGLHEAKKLLKEAVVLPIWMPEFFKGI--RRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFN  275 (491)
T ss_pred             HHHHhc-cCCCcChHhhcchHHHHHHHHHHHhhhhhhHHHHhhc--ccccceeeeeCCCCCcHHHHHHHHHHhhcCeEEE
Confidence            344444 5678999999999999999999999999999999875  6899999999999999999999999999999999


Q ss_pred             EecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCC-CCchHHHHhhHHHHHHHhhccCcCCC--CcEEE
Q 016044          154 VRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRR-TSDHEALTNMKTEFMALWDGFTTDQN--ARVMV  230 (396)
Q Consensus       154 i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~-~~~~~~~~~~~~~ll~~l~~~~~~~~--~~v~v  230 (396)
                      |+.+.+.++|.|++++.++-+|..|+.+.|++|||||||+|+++|. ++++++.+|++++|+.+|||+.....  ..|+|
T Consensus       276 VSsstltSKwRGeSEKlvRlLFemARfyAPStIFiDEIDslcs~RG~s~EHEaSRRvKsELLvQmDG~~~t~e~~k~VmV  355 (491)
T KOG0738|consen  276 VSSSTLTSKWRGESEKLVRLLFEMARFYAPSTIFIDEIDSLCSQRGGSSEHEASRRVKSELLVQMDGVQGTLENSKVVMV  355 (491)
T ss_pred             echhhhhhhhccchHHHHHHHHHHHHHhCCceeehhhHHHHHhcCCCccchhHHHHHHHHHHHHhhccccccccceeEEE
Confidence            9999999999999999999999999999999999999999998875 56789999999999999999875322  34889


Q ss_pred             EEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHH
Q 016044          231 LAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE  310 (396)
Q Consensus       231 I~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~  310 (396)
                      +++||.||+||++++|||.++|++|+|+.+.|..+++..++.....++++++.|++.++||||+||.++|++|.+.+++|
T Consensus       356 LAATN~PWdiDEAlrRRlEKRIyIPLP~~~~R~~Li~~~l~~~~~~~~~~~~~lae~~eGySGaDI~nvCreAsm~~mRR  435 (491)
T KOG0738|consen  356 LAATNFPWDIDEALRRRLEKRIYIPLPDAEARSALIKILLRSVELDDPVNLEDLAERSEGYSGADITNVCREASMMAMRR  435 (491)
T ss_pred             EeccCCCcchHHHHHHHHhhheeeeCCCHHHHHHHHHHhhccccCCCCccHHHHHHHhcCCChHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             HHHHHhc-----CCCCCCCCCCCHHHHHHHHHhcccchh
Q 016044          311 LLDEERK-----GKPAAAPRPLSRLDLEKVLTTSRKTRV  344 (396)
Q Consensus       311 ~~~~~~~-----~~~~~~~~~i~~~d~~~al~~~~~~~~  344 (396)
                      .+.....     .....-..|++++||+.|+++++|+..
T Consensus       436 ~i~g~~~~ei~~lakE~~~~pv~~~Dfe~Al~~v~pSvs  474 (491)
T KOG0738|consen  436 KIAGLTPREIRQLAKEEPKMPVTNEDFEEALRKVRPSVS  474 (491)
T ss_pred             HHhcCCcHHhhhhhhhccccccchhhHHHHHHHcCcCCC
Confidence            7653221     111223378999999999999999853

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

Probab=100.00  E-value=8.1e-52  Score=398.37  Aligned_cols=259  Identities=35%  Similarity=0.598  Sum_probs=241.2

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS  161 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~  161 (396)
                      .|+++|+||+|+++++.+|..++.+|+++|+.|...+ +.+|.|||||||||||||.+|+|+|++.|++|+.+.+++|++
T Consensus       505 VPdVtW~dIGaL~~vR~eL~~aI~~PiK~pd~~k~lG-i~~PsGvLL~GPPGCGKTLlAKAVANEag~NFisVKGPELlN  583 (802)
T KOG0733|consen  505 VPDVTWDDIGALEEVRLELNMAILAPIKRPDLFKALG-IDAPSGVLLCGPPGCGKTLLAKAVANEAGANFISVKGPELLN  583 (802)
T ss_pred             cCCCChhhcccHHHHHHHHHHHHhhhccCHHHHHHhC-CCCCCceEEeCCCCccHHHHHHHHhhhccCceEeecCHHHHH
Confidence            5789999999999999999999999999999999976 777999999999999999999999999999999999999999


Q ss_pred             hhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCc
Q 016044          162 KWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELD  241 (396)
Q Consensus       162 ~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~  241 (396)
                      +|+|++++.++.+|..|+...||||||||+|.|.+.|.........|++++|+.+|||+..  ..+|.||++||+|+.+|
T Consensus       584 kYVGESErAVR~vFqRAR~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~--R~gV~viaATNRPDiID  661 (802)
T KOG0733|consen  584 KYVGESERAVRQVFQRARASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEE--RRGVYVIAATNRPDIID  661 (802)
T ss_pred             HHhhhHHHHHHHHHHHhhcCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhccccc--ccceEEEeecCCCcccc
Confidence            9999999999999999999999999999999999999999999999999999999999975  66899999999999999


Q ss_pred             HHHHh--ccCCceEeCCCCHHHHHHHHHHHhc--CCCCCCCCCHHHHHHhCC--CCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          242 EAILR--RLPQAFEIGMPDRKERAQILKVILK--GEKVEENIDFDYLAGLCE--GFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       242 ~~l~~--R~~~~i~~~~P~~~er~~il~~~l~--~~~~~~~~~l~~la~~~~--g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      ++++|  ||++.+++++|+.++|..||+.+.+  +.++..++++++||+.+.  ||||+||..||++|.+.|+++.+...
T Consensus       662 pAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tkn~k~pl~~dVdl~eia~~~~c~gftGADLaaLvreAsi~AL~~~~~~~  741 (802)
T KOG0733|consen  662 PAILRPGRLDKLLYVGLPNAEERVAILKTITKNTKPPLSSDVDLDEIARNTKCEGFTGADLAALVREASILALRESLFEI  741 (802)
T ss_pred             hhhcCCCccCceeeecCCCHHHHHHHHHHHhccCCCCCCcccCHHHHhhcccccCCchhhHHHHHHHHHHHHHHHHHhhc
Confidence            99999  9999999999999999999999999  777889999999999877  99999999999999999999987654


Q ss_pred             hcCCCCC----CCCCCCHHHHHHHHHhcccch
Q 016044          316 RKGKPAA----APRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       316 ~~~~~~~----~~~~i~~~d~~~al~~~~~~~  343 (396)
                      .......    ....+++.||++|+++++|+.
T Consensus       742 ~~~~~~~~~~~~~~~~t~~hF~eA~~~i~pSv  773 (802)
T KOG0733|consen  742 DSSEDDVTVRSSTIIVTYKHFEEAFQRIRPSV  773 (802)
T ss_pred             cccCcccceeeeeeeecHHHHHHHHHhcCCCc
Confidence            4332211    245689999999999999984

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

Probab=100.00  E-value=4.4e-49  Score=388.08  Aligned_cols=268  Identities=32%  Similarity=0.580  Sum_probs=247.6

Q ss_pred             hccccCCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044           74 ACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus        74 ~~~~~~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      +..+-.|..|+++|+||+|++++|.++.+.+..|++||++|..+  +++..|||||||||||||.+|||+|.++...|++
T Consensus       658 s~aiGAPKIPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfssg--lrkRSGILLYGPPGTGKTLlAKAVATEcsL~FlS  735 (953)
T KOG0736|consen  658 SDAIGAPKIPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSSG--LRKRSGILLYGPPGTGKTLLAKAVATECSLNFLS  735 (953)
T ss_pred             hhhcCCCCCCccchhcccCHHHHHHHHHHHhcCcccChhhhhcc--ccccceeEEECCCCCchHHHHHHHHhhceeeEEe
Confidence            34455788899999999999999999999999999999999886  6778999999999999999999999999999999


Q ss_pred             EecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCC--CchHHHHhhHHHHHHHhhccCcCCCCcEEEE
Q 016044          154 VRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRT--SDHEALTNMKTEFMALWDGFTTDQNARVMVL  231 (396)
Q Consensus       154 i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~--~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI  231 (396)
                      +.++++.+.|+|++|++++.+|+.|+...|||||+||+|+++++|..  .....+.|+..+++.++||+.......|+||
T Consensus       736 VKGPELLNMYVGqSE~NVR~VFerAR~A~PCVIFFDELDSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s~~VFVi  815 (953)
T KOG0736|consen  736 VKGPELLNMYVGQSEENVREVFERARSAAPCVIFFDELDSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSSQDVFVI  815 (953)
T ss_pred             ecCHHHHHHHhcchHHHHHHHHHHhhccCCeEEEeccccccCccCCCCCCccccHHHHHHHHHHHhhcccCCCCCceEEE
Confidence            99999999999999999999999999999999999999999998854  3456889999999999999997678899999


Q ss_pred             EecCCCCCCcHHHHh--ccCCceEeCCC-CHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCC-CCcHHHHHHHHHHHHHHH
Q 016044          232 AATNRPSELDEAILR--RLPQAFEIGMP-DRKERAQILKVILKGEKVEENIDFDYLAGLCE-GFTGSDLLEVCKQAAYFS  307 (396)
Q Consensus       232 ~atn~~~~l~~~l~~--R~~~~i~~~~P-~~~er~~il~~~l~~~~~~~~~~l~~la~~~~-g~s~~di~~l~~~A~~~a  307 (396)
                      ||||+|+.||++|+|  |||+-++++++ +.+.+..+|+...+++.++.++++.++|+.+. .|||+|+..+|.+|++.|
T Consensus       816 GATNRPDLLDpALLRPGRFDKLvyvG~~~d~esk~~vL~AlTrkFkLdedVdL~eiAk~cp~~~TGADlYsLCSdA~l~A  895 (953)
T KOG0736|consen  816 GATNRPDLLDPALLRPGRFDKLVYVGPNEDAESKLRVLEALTRKFKLDEDVDLVEIAKKCPPNMTGADLYSLCSDAMLAA  895 (953)
T ss_pred             ecCCCccccChhhcCCCccceeEEecCCccHHHHHHHHHHHHHHccCCCCcCHHHHHhhCCcCCchhHHHHHHHHHHHHH
Confidence            999999999999999  99999999988 56778889999999999999999999999998 799999999999999999


Q ss_pred             HHHHHHHHhcC-----CCCCCCCCCCHHHHHHHHHhcccch
Q 016044          308 IRELLDEERKG-----KPAAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       308 ~~~~~~~~~~~-----~~~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                      ++|.++....+     ........|+++||.++.+++.|+.
T Consensus       896 ikR~i~~ie~g~~~~~e~~~~~v~V~~eDflks~~~l~PSv  936 (953)
T KOG0736|consen  896 IKRTIHDIESGTISEEEQESSSVRVTMEDFLKSAKRLQPSV  936 (953)
T ss_pred             HHHHHHHhhhccccccccCCceEEEEHHHHHHHHHhcCCcc
Confidence            99998877766     3445567799999999999999984

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

Probab=100.00  E-value=2.2e-47  Score=340.05  Aligned_cols=264  Identities=39%  Similarity=0.640  Sum_probs=240.3

Q ss_pred             ccCCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEec
Q 016044           77 VINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI  156 (396)
Q Consensus        77 ~~~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~  156 (396)
                      .|-.+.|++.|+|+.|++.+|++|++.+++|++.|++|...  ..|.+|+||||||||||+.||+++|.+.+..|++++.
T Consensus       122 AIv~EKPNVkWsDVAGLE~AKeALKEAVILPIKFPqlFtGk--R~PwrgiLLyGPPGTGKSYLAKAVATEAnSTFFSvSS  199 (439)
T KOG0739|consen  122 AIVREKPNVKWSDVAGLEGAKEALKEAVILPIKFPQLFTGK--RKPWRGILLYGPPGTGKSYLAKAVATEANSTFFSVSS  199 (439)
T ss_pred             hhhccCCCCchhhhccchhHHHHHHhheeecccchhhhcCC--CCcceeEEEeCCCCCcHHHHHHHHHhhcCCceEEeeh
Confidence            44557899999999999999999999999999999999876  5688999999999999999999999999999999999


Q ss_pred             ccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC
Q 016044          157 SNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR  236 (396)
Q Consensus       157 ~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~  236 (396)
                      +++.++|.|++++.+..+|..|+.++|+||||||||.+++.+..++.++.+|+..+|+-+|.|... ++..++|+++||-
T Consensus       200 SDLvSKWmGESEkLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~-d~~gvLVLgATNi  278 (439)
T KOG0739|consen  200 SDLVSKWMGESEKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGN-DNDGVLVLGATNI  278 (439)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhcccc-CCCceEEEecCCC
Confidence            999999999999999999999999999999999999999999999999999999999999999875 4678999999999


Q ss_pred             CCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          237 PSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       237 ~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      ||.||.+++|||.++|++|+|+...|..+++.++...+.. .+-|+.+|++.|+||||+||.-++++|.+..+++...+.
T Consensus       279 Pw~LDsAIRRRFekRIYIPLPe~~AR~~MF~lhlG~tp~~LT~~d~~eL~~kTeGySGsDisivVrDalmePvRkvqsAt  358 (439)
T KOG0739|consen  279 PWVLDSAIRRRFEKRIYIPLPEAHARARMFKLHLGDTPHVLTEQDFKELARKTEGYSGSDISIVVRDALMEPVRKVQSAT  358 (439)
T ss_pred             chhHHHHHHHHhhcceeccCCcHHHhhhhheeccCCCccccchhhHHHHHhhcCCCCcCceEEEehhhhhhhHHHhhhhh
Confidence            9999999999999999999999999999999999766544 567899999999999999999999999999999876542


Q ss_pred             hc----C-------C----------C-------------CCCCCCCCHHHHHHHHHhcccch
Q 016044          316 RK----G-------K----------P-------------AAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       316 ~~----~-------~----------~-------------~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                      +-    +       .          .             .--..++|+.||..+++..+|+.
T Consensus       359 hFk~v~~~s~~~~~~~lltpcspgd~ga~em~w~dv~~dkl~eP~vt~~D~~k~l~~tkPTv  420 (439)
T KOG0739|consen  359 HFKKVSGPSNPSEVDDLLTPCSPGDPGAIEMSWMDVPADKLLEPPVTMRDFLKSLSRTKPTV  420 (439)
T ss_pred             hhhccCCCCChhhhccccCCCCCCCcchhhhhhccCCHhhccCCCccHHHHHHHHhhcCCCC
Confidence            21    0       0          0             00246899999999999999985

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

Probab=100.00  E-value=3.5e-44  Score=340.87  Aligned_cols=242  Identities=34%  Similarity=0.513  Sum_probs=224.1

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS  161 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~  161 (396)
                      ..+++|+|+.|.+++|++|++.+.+ ++.|..|.+.+ -.-|+||||+||||||||+||||+|.+.+.||++..++++-.
T Consensus       298 ~~nv~F~dVkG~DEAK~ELeEiVef-LkdP~kftrLG-GKLPKGVLLvGPPGTGKTlLARAvAGEA~VPFF~~sGSEFdE  375 (752)
T KOG0734|consen  298 MKNVTFEDVKGVDEAKQELEEIVEF-LKDPTKFTRLG-GKLPKGVLLVGPPGTGKTLLARAVAGEAGVPFFYASGSEFDE  375 (752)
T ss_pred             hcccccccccChHHHHHHHHHHHHH-hcCcHHhhhcc-CcCCCceEEeCCCCCchhHHHHHhhcccCCCeEeccccchhh
Confidence            3478999999999999999998876 99999999854 245899999999999999999999999999999999999999


Q ss_pred             hhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCc
Q 016044          162 KWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELD  241 (396)
Q Consensus       162 ~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~  241 (396)
                      .++|...+.++.+|..|+...||||||||||.+.++|...........+++++..|||+..  +.+|+||++||.|+.||
T Consensus       376 m~VGvGArRVRdLF~aAk~~APcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~q--NeGiIvigATNfpe~LD  453 (752)
T KOG0734|consen  376 MFVGVGARRVRDLFAAAKARAPCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQ--NEGIIVIGATNFPEALD  453 (752)
T ss_pred             hhhcccHHHHHHHHHHHHhcCCeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCc--CCceEEEeccCChhhhh
Confidence            9999999999999999999999999999999999999988887888899999999999976  77899999999999999


Q ss_pred             HHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 016044          242 EAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGK  319 (396)
Q Consensus       242 ~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~  319 (396)
                      ++|.|  |||.++.+|.||...|.+||+.++.+..+..++|+.-||+-|.||+|+||.++++.|+..|..+..       
T Consensus       454 ~AL~RPGRFD~~v~Vp~PDv~GR~eIL~~yl~ki~~~~~VD~~iiARGT~GFsGAdLaNlVNqAAlkAa~dga-------  526 (752)
T KOG0734|consen  454 KALTRPGRFDRHVTVPLPDVRGRTEILKLYLSKIPLDEDVDPKIIARGTPGFSGADLANLVNQAALKAAVDGA-------  526 (752)
T ss_pred             HHhcCCCccceeEecCCCCcccHHHHHHHHHhcCCcccCCCHhHhccCCCCCchHHHHHHHHHHHHHHHhcCc-------
Confidence            99999  999999999999999999999999999999999999999999999999999999999998887643       


Q ss_pred             CCCCCCCCCHHHHHHHHHhc
Q 016044          320 PAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       320 ~~~~~~~i~~~d~~~al~~~  339 (396)
                           ..++|.|++.|-.++
T Consensus       527 -----~~VtM~~LE~akDrI  541 (752)
T KOG0734|consen  527 -----EMVTMKHLEFAKDRI  541 (752)
T ss_pred             -----ccccHHHHhhhhhhe
Confidence                 457888888776554

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

Probab=100.00  E-value=8.8e-43  Score=304.28  Aligned_cols=245  Identities=37%  Similarity=0.637  Sum_probs=227.6

Q ss_pred             CCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044           80 PDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus        80 ~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      .+.|++++.||+|++-.|+++++.+.+|+.+.++|...+ +.||+|||+||||||||||||+++|++..+.|+.+.++++
T Consensus       147 ~ekpdvsy~diggld~qkqeireavelplt~~~ly~qig-idpprgvllygppg~gktml~kava~~t~a~firvvgsef  225 (408)
T KOG0727|consen  147 DEKPDVSYADIGGLDVQKQEIREAVELPLTHADLYKQIG-IDPPRGVLLYGPPGTGKTMLAKAVANHTTAAFIRVVGSEF  225 (408)
T ss_pred             CCCCCccccccccchhhHHHHHHHHhccchHHHHHHHhC-CCCCcceEEeCCCCCcHHHHHHHHhhccchheeeeccHHH
Confidence            356789999999999999999999999999999999875 8899999999999999999999999999999999999999


Q ss_pred             cchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCC---CCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC
Q 016044          160 MSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRR---TSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR  236 (396)
Q Consensus       160 ~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~---~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~  236 (396)
                      ..+|.|+..+.++.+|+.|+.+.|+||||||+|.+..++.   .+......+++.+++++|||+..  ..++-+|.+||+
T Consensus       226 vqkylgegprmvrdvfrlakenapsiifideidaiatkrfdaqtgadrevqril~ellnqmdgfdq--~~nvkvimatnr  303 (408)
T KOG0727|consen  226 VQKYLGEGPRMVRDVFRLAKENAPSIIFIDEIDAIATKRFDAQTGADREVQRILIELLNQMDGFDQ--TTNVKVIMATNR  303 (408)
T ss_pred             HHHHhccCcHHHHHHHHHHhccCCcEEEeehhhhHhhhhccccccccHHHHHHHHHHHHhccCcCc--ccceEEEEecCc
Confidence            9999999999999999999999999999999999987764   34445567889999999999976  667999999999


Q ss_pred             CCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHH
Q 016044          237 PSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE  314 (396)
Q Consensus       237 ~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~  314 (396)
                      .+.+||+++|  |+++.|+||.|+..+++-++..+..++.+.+++|++.+..+-+..|++||..+|++|.+.|+++..  
T Consensus       304 adtldpallrpgrldrkiefplpdrrqkrlvf~titskm~ls~~vdle~~v~rpdkis~adi~aicqeagm~avr~nr--  381 (408)
T KOG0727|consen  304 ADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFSTITSKMNLSDEVDLEDLVARPDKISGADINAICQEAGMLAVRENR--  381 (408)
T ss_pred             ccccCHhhcCCccccccccCCCCchhhhhhhHHhhhhcccCCcccCHHHHhcCccccchhhHHHHHHHHhHHHHHhcc--
Confidence            9999999999  999999999999999999999999999999999999999999999999999999999999999742  


Q ss_pred             HhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          315 ERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       315 ~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                                ..+...||+++.+..
T Consensus       382 ----------yvvl~kd~e~ay~~~  396 (408)
T KOG0727|consen  382 ----------YVVLQKDFEKAYKTV  396 (408)
T ss_pred             ----------eeeeHHHHHHHHHhh
Confidence                      447789999998865

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

Probab=100.00  E-value=4.9e-43  Score=342.24  Aligned_cols=280  Identities=34%  Similarity=0.587  Sum_probs=261.7

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK  162 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~  162 (396)
                      ++++ ++++|.....+.+++.+.+|+.++..|...+ ..+|+++|+|||||||||++++++|++.++.++.+++++++.+
T Consensus       180 ~~~~-~~~gg~~~~~~~i~e~v~~pl~~~~~~~s~g-~~~prg~Ll~gppg~Gkt~l~~aVa~e~~a~~~~i~~peli~k  257 (693)
T KOG0730|consen  180 PEVG-DDIGGLKRQLSVIRELVELPLRHPALFKSIG-IKPPRGLLLYGPPGTGKTFLVRAVANEYGAFLFLINGPELISK  257 (693)
T ss_pred             cccc-cccchhHHHHHHHHHHHHhhhcchhhhhhcC-CCCCCCccccCCCCCChHHHHHHHHHHhCceeEecccHHHHHh
Confidence            4566 7999999999999999999999999998875 7899999999999999999999999999999999999999999


Q ss_pred             hhchHHHHHHHHHHHHHHhC-CcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCc
Q 016044          163 WFGDAQKLVAAVFSLAYKLQ-PAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELD  241 (396)
Q Consensus       163 ~~g~~~~~~~~~f~~a~~~~-p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~  241 (396)
                      +.|+++..++..|..+.+++ |++|||||+|.+++++..... ...++..+++.+++++..  ..+++++++||+|+.|+
T Consensus       258 ~~gEte~~LR~~f~~a~k~~~psii~IdEld~l~p~r~~~~~-~e~Rv~sqlltL~dg~~~--~~~vivl~atnrp~sld  334 (693)
T KOG0730|consen  258 FPGETESNLRKAFAEALKFQVPSIIFIDELDALCPKREGADD-VESRVVSQLLTLLDGLKP--DAKVIVLAATNRPDSLD  334 (693)
T ss_pred             cccchHHHHHHHHHHHhccCCCeeEeHHhHhhhCCcccccch-HHHHHHHHHHHHHhhCcC--cCcEEEEEecCCccccC
Confidence            99999999999999999999 999999999999998876555 678899999999999874  57899999999999999


Q ss_pred             HHHHh-ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 016044          242 EAILR-RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKP  320 (396)
Q Consensus       242 ~~l~~-R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~  320 (396)
                      ++++| ||+..+.+..|+..+|.+|++.+.+.++..++.++..+|..+.||+|+|+..+|++|.+.++++          
T Consensus       335 ~alRRgRfd~ev~IgiP~~~~RldIl~~l~k~~~~~~~~~l~~iA~~thGyvGaDL~~l~~ea~~~~~r~----------  404 (693)
T KOG0730|consen  335 PALRRGRFDREVEIGIPGSDGRLDILRVLTKKMNLLSDVDLEDIAVSTHGYVGADLAALCREASLQATRR----------  404 (693)
T ss_pred             hhhhcCCCcceeeecCCCchhHHHHHHHHHHhcCCcchhhHHHHHHHccchhHHHHHHHHHHHHHHHhhh----------
Confidence            99998 9999999999999999999999999999988899999999999999999999999999999987          


Q ss_pred             CCCCCCCCHHHHHHHHHhcccchhhhhhhhccCCCCCccccCCCccHhHHHHHHHHHHHHHHHHhccCCCCCCCC
Q 016044          321 AAAPRPLSRLDLEKVLTTSRKTRVAATEYTLNSQSSGWSRNNESNDYQVQAAISELSRLVVSQIMNIQSEPDTQD  395 (396)
Q Consensus       321 ~~~~~~i~~~d~~~al~~~~~~~~~~~~~~~~~~~~~w~di~~~~~~~~~~~L~ei~~~~~~~~~~~~~~~~~~~  395 (396)
                             ++++|..|+..++|+  +.++.....|+++|+||||++  ++|..|++.       |+||+.+|+.|.
T Consensus       405 -------~~~~~~~A~~~i~ps--a~Re~~ve~p~v~W~dIGGlE--~lK~elq~~-------V~~p~~~pe~F~  461 (693)
T KOG0730|consen  405 -------TLEIFQEALMGIRPS--ALREILVEMPNVSWDDIGGLE--ELKRELQQA-------VEWPLKHPEKFA  461 (693)
T ss_pred             -------hHHHHHHHHhcCCch--hhhheeccCCCCChhhccCHH--HHHHHHHHH-------HhhhhhchHHHH
Confidence                   678999999999999  778878889999999999999  999999888       788888888763

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

Probab=100.00  E-value=5.3e-42  Score=299.09  Aligned_cols=244  Identities=34%  Similarity=0.591  Sum_probs=226.0

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      ..|+.+++-++|++.+++++++.+.+|.+||++|...+ +..|+|+|||||||+|||.+|+++|++..+.|+.++++++.
T Consensus       140 KvPDStYeMiGgLd~QIkeIkEVIeLPvKHPELF~aLG-IaQPKGvlLygppgtGktLlaraVahht~c~firvsgselv  218 (404)
T KOG0728|consen  140 KVPDSTYEMIGGLDKQIKEIKEVIELPVKHPELFEALG-IAQPKGVLLYGPPGTGKTLLARAVAHHTDCTFIRVSGSELV  218 (404)
T ss_pred             hCCccHHHHhccHHHHHHHHHHHHhccccCHHHHHhcC-CCCCcceEEecCCCCchhHHHHHHHhhcceEEEEechHHHH
Confidence            45778899999999999999999999999999999976 77789999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCC---chHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS---DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      .+|+|+..+.++.+|-.|+.+.|+|||+||||++.+.+..+   ......|...++++++||+..  ..++-+|.+||+.
T Consensus       219 qk~igegsrmvrelfvmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfea--tknikvimatnri  296 (404)
T KOG0728|consen  219 QKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEA--TKNIKVIMATNRI  296 (404)
T ss_pred             HHHhhhhHHHHHHHHHHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhcccccc--ccceEEEEecccc
Confidence            99999999999999999999999999999999998776432   234455667789999999986  5679999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +-+|++++|  |+++.|+||+|+.+.|.+||+.+.+++++...+++..+|....|-||++++.+|.+|.+.|+++-.   
T Consensus       297 dild~allrpgridrkiefp~p~e~ar~~ilkihsrkmnl~rgi~l~kiaekm~gasgaevk~vcteagm~alrerr---  373 (404)
T KOG0728|consen  297 DILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRKMNLTRGINLRKIAEKMPGASGAEVKGVCTEAGMYALRERR---  373 (404)
T ss_pred             ccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhhhchhcccCHHHHHHhCCCCccchhhhhhhhhhHHHHHHhh---
Confidence            999999999  999999999999999999999999999999999999999999999999999999999999999743   


Q ss_pred             hcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          316 RKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                               ..+|.+||+-|..++
T Consensus       374 ---------vhvtqedfemav~kv  388 (404)
T KOG0728|consen  374 ---------VHVTQEDFEMAVAKV  388 (404)
T ss_pred             ---------ccccHHHHHHHHHHH
Confidence                     679999999998876

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

Probab=100.00  E-value=1.2e-41  Score=298.30  Aligned_cols=242  Identities=34%  Similarity=0.523  Sum_probs=215.5

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS  161 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~  161 (396)
                      .++++|+|++|++++|+..+-++ ..+.+|+.|...    .|++||||||||||||++|+++|++.+.|++.++..++.+
T Consensus       115 ~~~it~ddViGqEeAK~kcrli~-~yLenPe~Fg~W----APknVLFyGppGTGKTm~Akalane~kvp~l~vkat~liG  189 (368)
T COG1223         115 ISDITLDDVIGQEEAKRKCRLIM-EYLENPERFGDW----APKNVLFYGPPGTGKTMMAKALANEAKVPLLLVKATELIG  189 (368)
T ss_pred             hccccHhhhhchHHHHHHHHHHH-HHhhChHHhccc----CcceeEEECCCCccHHHHHHHHhcccCCceEEechHHHHH
Confidence            35789999999999999876544 459999999764    4899999999999999999999999999999999999999


Q ss_pred             hhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCC-CCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCC
Q 016044          162 KWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRR-TSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSEL  240 (396)
Q Consensus       162 ~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~-~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l  240 (396)
                      .++|+..+.++.++..|++..|||+||||+|.+.-.+. .........+.+.++..+||+..  +.+|+.||+||+|+.|
T Consensus       190 ehVGdgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~e--neGVvtIaaTN~p~~L  267 (368)
T COG1223         190 EHVGDGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKE--NEGVVTIAATNRPELL  267 (368)
T ss_pred             HHhhhHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCccc--CCceEEEeecCChhhc
Confidence            99999999999999999999999999999999876554 33344566788999999999974  7789999999999999


Q ss_pred             cHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHH-HHHHHHHHHHHHHHHHHhcCC
Q 016044          241 DEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLE-VCKQAAYFSIRELLDEERKGK  319 (396)
Q Consensus       241 ~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~-l~~~A~~~a~~~~~~~~~~~~  319 (396)
                      |+++++||...|+|.+|+.+||..|++.+++.+++.-+.++..+++.+.|+||+||.. ++..|...|+.+-.       
T Consensus       268 D~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~~~~~~~~~~t~g~SgRdikekvlK~aLh~Ai~ed~-------  340 (368)
T COG1223         268 DPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVDADLRYLAAKTKGMSGRDIKEKVLKTALHRAIAEDR-------  340 (368)
T ss_pred             CHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCccccCHHHHHHHhCCCCchhHHHHHHHHHHHHHHHhch-------
Confidence            9999999999999999999999999999999999998899999999999999999974 66666667776532       


Q ss_pred             CCCCCCCCCHHHHHHHHHhcccc
Q 016044          320 PAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       320 ~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                           ..|+.+|++.|+++.++.
T Consensus       341 -----e~v~~edie~al~k~r~~  358 (368)
T COG1223         341 -----EKVEREDIEKALKKERKR  358 (368)
T ss_pred             -----hhhhHHHHHHHHHhhccc
Confidence                 458999999999987665

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

Probab=100.00  E-value=7.3e-42  Score=299.82  Aligned_cols=247  Identities=34%  Similarity=0.591  Sum_probs=226.9

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.|.-+++||+|++..+++|.+.+++|+.|++.|...+ +.||+|+|+|||||||||++||+.|.+.+..|+.+.++.+.
T Consensus       164 ekPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lg-i~pPKGvLmYGPPGTGKTlmARAcAaqT~aTFLKLAgPQLV  242 (424)
T KOG0652|consen  164 EKPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLG-IRPPKGVLMYGPPGTGKTLMARACAAQTNATFLKLAGPQLV  242 (424)
T ss_pred             cCCcccccccccHHHHHHHHHHHhccccccHHHHHhcC-CCCCCceEeeCCCCCcHHHHHHHHHHhccchHHHhcchHHH
Confidence            45678999999999999999999999999999999975 88999999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCch---HHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH---EALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~---~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      ..|+|...+.++..|..|+...|+||||||+|.+..++..+..   ....|...++++++||+.+  +.++-||++||+.
T Consensus       243 QMfIGdGAkLVRDAFaLAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss--~~~vKviAATNRv  320 (424)
T KOG0652|consen  243 QMFIGDGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSS--DDRVKVIAATNRV  320 (424)
T ss_pred             hhhhcchHHHHHHHHHHhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCC--ccceEEEeecccc
Confidence            9999999999999999999999999999999999888754432   2334556688999999976  6789999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +-+||+++|  |+++.|+||.|+.+.|..|++.+.+++...+++++++||+.|++|.|++.+++|-+|.+.|+++..   
T Consensus       321 DiLDPALlRSGRLDRKIEfP~Pne~aRarIlQIHsRKMnv~~DvNfeELaRsTddFNGAQcKAVcVEAGMiALRr~a---  397 (424)
T KOG0652|consen  321 DILDPALLRSGRLDRKIEFPHPNEEARARILQIHSRKMNVSDDVNFEELARSTDDFNGAQCKAVCVEAGMIALRRGA---  397 (424)
T ss_pred             cccCHHHhhcccccccccCCCCChHHHHHHHHHhhhhcCCCCCCCHHHHhhcccccCchhheeeehhhhHHHHhccc---
Confidence            999999999  999999999999999999999999999999999999999999999999999999999999999843   


Q ss_pred             hcCCCCCCCCCCCHHHHHHHHHhcccc
Q 016044          316 RKGKPAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                               ..++.+||..++..++..
T Consensus       398 ---------tev~heDfmegI~eVqak  415 (424)
T KOG0652|consen  398 ---------TEVTHEDFMEGILEVQAK  415 (424)
T ss_pred             ---------ccccHHHHHHHHHHHHHh
Confidence                     558999999998877544

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

Probab=100.00  E-value=1.4e-40  Score=322.62  Aligned_cols=247  Identities=38%  Similarity=0.619  Sum_probs=223.8

Q ss_pred             CCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044           80 PDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus        80 ~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      .+.|+++|+||+|++.+|+++++.+.+|+.+++.|...+ +.+|+|+||+||||||||++|+++|++++.+|+.+.++++
T Consensus       137 ~~~p~v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~G-l~~pkgvLL~GppGTGKT~LAkalA~~l~~~fi~i~~s~l  215 (398)
T PTZ00454        137 SEKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIG-IDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEF  215 (398)
T ss_pred             cCCCCCCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcC-CCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHH
Confidence            356889999999999999999999999999999999865 6789999999999999999999999999999999999999


Q ss_pred             cchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCC---CchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC
Q 016044          160 MSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRT---SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR  236 (396)
Q Consensus       160 ~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~---~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~  236 (396)
                      ..++.|+++..++.+|..++..+|+||||||+|.++.++..   +......+.+.+++..++++..  ..++++|++||+
T Consensus       216 ~~k~~ge~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~--~~~v~VI~aTN~  293 (398)
T PTZ00454        216 VQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQ--TTNVKVIMATNR  293 (398)
T ss_pred             HHHhcchhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCC--CCCEEEEEecCC
Confidence            99999999999999999999999999999999999876532   2233455677888888888754  457899999999


Q ss_pred             CCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHH
Q 016044          237 PSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE  314 (396)
Q Consensus       237 ~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~  314 (396)
                      ++.+|++++|  ||+..|+|++|+.++|..||+.++.+..+..++++..++..++||||+||.++|++|.+.|+++..  
T Consensus       294 ~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~dvd~~~la~~t~g~sgaDI~~l~~eA~~~A~r~~~--  371 (398)
T PTZ00454        294 ADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVRKNR--  371 (398)
T ss_pred             chhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHcCC--
Confidence            9999999998  999999999999999999999999998888899999999999999999999999999999998731  


Q ss_pred             HhcCCCCCCCCCCCHHHHHHHHHhccc
Q 016044          315 ERKGKPAAAPRPLSRLDLEKVLTTSRK  341 (396)
Q Consensus       315 ~~~~~~~~~~~~i~~~d~~~al~~~~~  341 (396)
                                ..|+.+||.+|++.+..
T Consensus       372 ----------~~i~~~df~~A~~~v~~  388 (398)
T PTZ00454        372 ----------YVILPKDFEKGYKTVVR  388 (398)
T ss_pred             ----------CccCHHHHHHHHHHHHh
Confidence                      57999999999998643

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

Probab=100.00  E-value=2.8e-40  Score=323.29  Aligned_cols=230  Identities=36%  Similarity=0.587  Sum_probs=220.5

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchh
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKW  163 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~  163 (396)
                      .+.|+||+|+.++|+.+++.+.||.++|.+|...+ ++-+.|||||||||||||.+|.++|..++..|+++.++++.++|
T Consensus       663 gi~w~digg~~~~k~~l~~~i~~P~kyp~if~~~p-lr~~~giLLyGppGcGKT~la~a~a~~~~~~fisvKGPElL~Ky  741 (952)
T KOG0735|consen  663 GIRWEDIGGLFEAKKVLEEVIEWPSKYPQIFANCP-LRLRTGILLYGPPGCGKTLLASAIASNSNLRFISVKGPELLSKY  741 (952)
T ss_pred             CCCceecccHHHHHHHHHHHHhccccchHHHhhCC-cccccceEEECCCCCcHHHHHHHHHhhCCeeEEEecCHHHHHHH
Confidence            48999999999999999999999999999999986 67789999999999999999999999999999999999999999


Q ss_pred             hchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHH
Q 016044          164 FGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEA  243 (396)
Q Consensus       164 ~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~  243 (396)
                      +|.+++.++.+|..|+..+|||||+||+|+++++|.....+...|+.++++.+|||...  -.+|.|+++|.+|+.+|++
T Consensus       742 IGaSEq~vR~lF~rA~~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Eg--l~GV~i~aaTsRpdliDpA  819 (952)
T KOG0735|consen  742 IGASEQNVRDLFERAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEG--LDGVYILAATSRPDLIDPA  819 (952)
T ss_pred             hcccHHHHHHHHHHhhccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccc--cceEEEEEecCCccccCHh
Confidence            99999999999999999999999999999999999988889999999999999999875  5679999999999999999


Q ss_pred             HHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHh
Q 016044          244 ILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEER  316 (396)
Q Consensus       244 l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~  316 (396)
                      ++|  |+|+.++.+.|+..+|.+|++.+......+.++|++.+|..|+||||+||..++..|.+.|+++......
T Consensus       820 LLRpGRlD~~v~C~~P~~~eRl~il~~ls~s~~~~~~vdl~~~a~~T~g~tgADlq~ll~~A~l~avh~~l~~~~  894 (952)
T KOG0735|consen  820 LLRPGRLDKLVYCPLPDEPERLEILQVLSNSLLKDTDVDLECLAQKTDGFTGADLQSLLYNAQLAAVHEILKRED  894 (952)
T ss_pred             hcCCCccceeeeCCCCCcHHHHHHHHHHhhccCCccccchHHHhhhcCCCchhhHHHHHHHHHHHHHHHHHHhcC
Confidence            999  9999999999999999999999999888999999999999999999999999999999999999876544

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

Probab=100.00  E-value=1.3e-41  Score=323.98  Aligned_cols=261  Identities=44%  Similarity=0.699  Sum_probs=241.9

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      ...++.|+||.|++.+|+.+.+.+++|+.++++|...  ..+.+++||.||||+|||+|++++|.++++.|+.++++.+.
T Consensus       146 ~~~~v~~~di~gl~~~k~~l~e~vi~p~lr~d~F~gl--r~p~rglLLfGPpgtGKtmL~~aiAsE~~atff~iSassLt  223 (428)
T KOG0740|consen  146 TLRNVGWDDIAGLEDAKQSLKEAVILPLLRPDLFLGL--REPVRGLLLFGPPGTGKTMLAKAIATESGATFFNISASSLT  223 (428)
T ss_pred             cCCcccccCCcchhhHHHHhhhhhhhcccchHhhhcc--ccccchhheecCCCCchHHHHHHHHhhhcceEeeccHHHhh
Confidence            3457999999999999999999999999999999875  56789999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSEL  240 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l  240 (396)
                      ++|.|++++.++.+|..|+..+|+|+||||+|.++.++....++...++..+++..+++......++|++|||||+||.+
T Consensus       224 sK~~Ge~eK~vralf~vAr~~qPsvifidEidslls~Rs~~e~e~srr~ktefLiq~~~~~s~~~drvlvigaTN~P~e~  303 (428)
T KOG0740|consen  224 SKYVGESEKLVRALFKVARSLQPSVIFIDEIDSLLSKRSDNEHESSRRLKTEFLLQFDGKNSAPDDRVLVIGATNRPWEL  303 (428)
T ss_pred             hhccChHHHHHHHHHHHHHhcCCeEEEechhHHHHhhcCCcccccchhhhhHHHhhhccccCCCCCeEEEEecCCCchHH
Confidence            99999999999999999999999999999999999999999999999999999999999998888899999999999999


Q ss_pred             cHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHH-HhcC
Q 016044          241 DEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE-ERKG  318 (396)
Q Consensus       241 ~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~-~~~~  318 (396)
                      |++++|||..++++|+|+.+.|..+|+.++.+.+.. .+.+++.+++.|+||+++||.++|.+|++..++..... ....
T Consensus       304 Dea~~Rrf~kr~yiplPd~etr~~~~~~ll~~~~~~l~~~d~~~l~~~Tegysgsdi~~l~kea~~~p~r~~~~~~~~~~  383 (428)
T KOG0740|consen  304 DEAARRRFVKRLYIPLPDYETRSLLWKQLLKEQPNGLSDLDISLLAKVTEGYSGSDITALCKEAAMGPLRELGGTTDLEF  383 (428)
T ss_pred             HHHHHHHhhceeeecCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCcccccHHHHHHHhhcCchhhcccchhhhh
Confidence            999999999999999999999999999999877433 55789999999999999999999999999999887654 3333


Q ss_pred             CCCCCCCCCCHHHHHHHHHhcccch
Q 016044          319 KPAAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       319 ~~~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                      ......++++..||..+++.++++.
T Consensus       384 ~~~~~~r~i~~~df~~a~~~i~~~~  408 (428)
T KOG0740|consen  384 IDADKIRPITYPDFKNAFKNIKPSV  408 (428)
T ss_pred             cchhccCCCCcchHHHHHHhhcccc
Confidence            4556779999999999999999984

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

Probab=100.00  E-value=1.7e-41  Score=301.50  Aligned_cols=244  Identities=34%  Similarity=0.579  Sum_probs=224.5

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS  161 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~  161 (396)
                      .|.-+|+||+|++.+++++++.+.+|+.||+.|...+ +.||+||+|||+||||||.||+|+|+...+.|+.+-.+++..
T Consensus       179 aP~Ety~diGGle~QiQEiKEsvELPLthPE~YeemG-ikpPKGVIlyG~PGTGKTLLAKAVANqTSATFlRvvGseLiQ  257 (440)
T KOG0726|consen  179 APQETYADIGGLESQIQEIKESVELPLTHPEYYEEMG-IKPPKGVILYGEPGTGKTLLAKAVANQTSATFLRVVGSELIQ  257 (440)
T ss_pred             CchhhhcccccHHHHHHHHHHhhcCCCCCHHHHHHcC-CCCCCeeEEeCCCCCchhHHHHHHhcccchhhhhhhhHHHHH
Confidence            4567999999999999999999999999999999865 889999999999999999999999999999999999999999


Q ss_pred             hhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCC---CchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC
Q 016044          162 KWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRT---SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS  238 (396)
Q Consensus       162 ~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~---~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~  238 (396)
                      +|.|+..+.++.+|+.|..+.|+|+||||||.+..+|-.   +......|...++++++||+.+  .+.|-||.+||+.+
T Consensus       258 kylGdGpklvRqlF~vA~e~apSIvFiDEIdAiGtKRyds~SggerEiQrtmLELLNQldGFds--rgDvKvimATnrie  335 (440)
T KOG0726|consen  258 KYLGDGPKLVRELFRVAEEHAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDS--RGDVKVIMATNRIE  335 (440)
T ss_pred             HHhccchHHHHHHHHHHHhcCCceEEeehhhhhccccccCCCccHHHHHHHHHHHHHhccCccc--cCCeEEEEeccccc
Confidence            999999999999999999999999999999999887633   2233445556689999999986  67899999999999


Q ss_pred             CCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHh
Q 016044          239 ELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEER  316 (396)
Q Consensus       239 ~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~  316 (396)
                      .|||+|.|  |+++.|+|+.|+...++.|+..+..++.+..+++++.+...-+.+||+||+++|.+|.+.|+++..    
T Consensus       336 ~LDPaLiRPGrIDrKIef~~pDe~TkkkIf~IHTs~Mtl~~dVnle~li~~kddlSGAdIkAictEaGllAlRerR----  411 (440)
T KOG0726|consen  336 TLDPALIRPGRIDRKIEFPLPDEKTKKKIFQIHTSRMTLAEDVNLEELIMTKDDLSGADIKAICTEAGLLALRERR----  411 (440)
T ss_pred             ccCHhhcCCCccccccccCCCchhhhceeEEEeecccchhccccHHHHhhcccccccccHHHHHHHHhHHHHHHHH----
Confidence            99999999  999999999999999999999999999999999999999888899999999999999999999854    


Q ss_pred             cCCCCCCCCCCCHHHHHHHHHhcc
Q 016044          317 KGKPAAAPRPLSRLDLEKVLTTSR  340 (396)
Q Consensus       317 ~~~~~~~~~~i~~~d~~~al~~~~  340 (396)
                              ..++++||.+|.+.+-
T Consensus       412 --------m~vt~~DF~ka~e~V~  427 (440)
T KOG0726|consen  412 --------MKVTMEDFKKAKEKVL  427 (440)
T ss_pred             --------hhccHHHHHHHHHHHH
Confidence                    5699999999988763

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

Probab=100.00  E-value=2.2e-40  Score=291.35  Aligned_cols=246  Identities=38%  Similarity=0.646  Sum_probs=225.5

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.|+++++|++|..+.++.+++.+..|+.+|+.|...+ +.||+|||+|||||||||..||++|+..++.|+.+-.+++.
T Consensus       170 ekpdvty~dvggckeqieklrevve~pll~perfv~lg-idppkgvllygppgtgktl~aravanrtdacfirvigselv  248 (435)
T KOG0729|consen  170 EKPDVTYSDVGGCKEQIEKLREVVELPLLHPERFVNLG-IDPPKGVLLYGPPGTGKTLCARAVANRTDACFIRVIGSELV  248 (435)
T ss_pred             cCCCcccccccchHHHHHHHHHHHhccccCHHHHhhcC-CCCCCceEEeCCCCCchhHHHHHHhcccCceEEeehhHHHH
Confidence            56889999999999999999999999999999999975 88999999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCC---CchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRT---SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~---~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      .+|+|+..+.++.+|..|+..+.|+||+||+|.+.+.+..   +......+...+++.++||+..  .+++-|+.+||+|
T Consensus       249 qkyvgegarmvrelf~martkkaciiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdp--rgnikvlmatnrp  326 (435)
T KOG0729|consen  249 QKYVGEGARMVRELFEMARTKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDP--RGNIKVLMATNRP  326 (435)
T ss_pred             HHHhhhhHHHHHHHHHHhcccceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCC--CCCeEEEeecCCC
Confidence            9999999999999999999988999999999999887643   2334455666688899999975  6789999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +.||++|+|  |+++.++|.+|+.+.|..|++.+.+.+..+.++-++.+|+.|..-+|++|+.+|.+|.+.|++.-.   
T Consensus       327 dtldpallrpgrldrkvef~lpdlegrt~i~kihaksmsverdir~ellarlcpnstgaeirsvcteagmfairarr---  403 (435)
T KOG0729|consen  327 DTLDPALLRPGRLDRKVEFGLPDLEGRTHIFKIHAKSMSVERDIRFELLARLCPNSTGAEIRSVCTEAGMFAIRARR---  403 (435)
T ss_pred             CCcCHhhcCCcccccceeccCCcccccceeEEEeccccccccchhHHHHHhhCCCCcchHHHHHHHHhhHHHHHHHh---
Confidence            999999999  999999999999999999999999999999999999999999999999999999999999998643   


Q ss_pred             hcCCCCCCCCCCCHHHHHHHHHhccc
Q 016044          316 RKGKPAAAPRPLSRLDLEKVLTTSRK  341 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al~~~~~  341 (396)
                               ...|..||.+|+.++-.
T Consensus       404 ---------k~atekdfl~av~kvvk  420 (435)
T KOG0729|consen  404 ---------KVATEKDFLDAVNKVVK  420 (435)
T ss_pred             ---------hhhhHHHHHHHHHHHHH
Confidence                     44788899999887643

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

Probab=100.00  E-value=1e-39  Score=329.41  Aligned_cols=251  Identities=41%  Similarity=0.667  Sum_probs=233.0

Q ss_pred             CCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc
Q 016044           79 NPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN  158 (396)
Q Consensus        79 ~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~  158 (396)
                      ....+.++|++++|++.+|+.+++.+.+|+.+++.|... .+++++|+|||||||||||++|+++|++++.+|+.++.++
T Consensus       233 ~~~~~~v~~~diggl~~~k~~l~e~v~~~~~~~e~~~~~-~~~~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~  311 (494)
T COG0464         233 LFEDEDVTLDDIGGLEEAKEELKEAIETPLKRPELFRKL-GLRPPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSE  311 (494)
T ss_pred             ccCCCCcceehhhcHHHHHHHHHHHHHhHhhChHHHHhc-CCCCCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHH
Confidence            346678999999999999999999999999999998873 3678899999999999999999999999999999999999


Q ss_pred             ccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC
Q 016044          159 LMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS  238 (396)
Q Consensus       159 l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~  238 (396)
                      +.++|+|++++.++.+|..|+...||||||||+|.+.+.+.........++.++++..++++..  ..+|++|++||+|+
T Consensus       312 l~sk~vGesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~--~~~v~vi~aTN~p~  389 (494)
T COG0464         312 LLSKWVGESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEK--AEGVLVIAATNRPD  389 (494)
T ss_pred             HhccccchHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCc--cCceEEEecCCCcc
Confidence            9999999999999999999999999999999999999999887777778999999999999875  55699999999999


Q ss_pred             CCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCC--CCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHH
Q 016044          239 ELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKV--EENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE  314 (396)
Q Consensus       239 ~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~--~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~  314 (396)
                      .+|++++|  ||+..+++++|+..+|.++++.++.....  ..++++..+++.++||+|+||..+|++|++.++++..  
T Consensus       390 ~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~~~~~~~~~~~~~~~l~~~t~~~sgadi~~i~~ea~~~~~~~~~--  467 (494)
T COG0464         390 DLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLRDKKPPLAEDVDLEELAEITEGYSGADIAALVREAALEALREAR--  467 (494)
T ss_pred             ccCHhhcccCccceEeecCCCCHHHHHHHHHHHhcccCCcchhhhhHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHhc--
Confidence            99999999  99999999999999999999999985554  4789999999999999999999999999999999864  


Q ss_pred             HhcCCCCCCCCCCCHHHHHHHHHhcccch
Q 016044          315 ERKGKPAAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       315 ~~~~~~~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                               ...++.+||..|++..+|+.
T Consensus       468 ---------~~~~~~~~~~~a~~~~~p~~  487 (494)
T COG0464         468 ---------RREVTLDDFLDALKKIKPSV  487 (494)
T ss_pred             ---------cCCccHHHHHHHHHhcCCCC
Confidence                     36799999999999988873

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=100.00  E-value=1.5e-39  Score=341.45  Aligned_cols=259  Identities=38%  Similarity=0.636  Sum_probs=232.7

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS  161 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~  161 (396)
                      .+.++|++|+|++.+|+.|.+.+.+|+.+++.|...+ ..+++|+|||||||||||++|+++|++++.+|+.++++++.+
T Consensus       447 ~~~~~~~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g-~~~~~giLL~GppGtGKT~lakalA~e~~~~fi~v~~~~l~~  525 (733)
T TIGR01243       447 VPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMG-IRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILS  525 (733)
T ss_pred             ccccchhhcccHHHHHHHHHHHHHhhhhCHHHHHhcC-CCCCceEEEECCCCCCHHHHHHHHHHhcCCCEEEEehHHHhh
Confidence            4678999999999999999999999999999998865 678899999999999999999999999999999999999999


Q ss_pred             hhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCC-chHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCC
Q 016044          162 KWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS-DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSEL  240 (396)
Q Consensus       162 ~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l  240 (396)
                      +|+|++++.++.+|..|+...|+||||||+|.+++.+... ......+++++++..++++..  ..+++||+|||+|+.+
T Consensus       526 ~~vGese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~--~~~v~vI~aTn~~~~l  603 (733)
T TIGR01243       526 KWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQE--LSNVVVIAATNRPDIL  603 (733)
T ss_pred             cccCcHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccC--CCCEEEEEeCCChhhC
Confidence            9999999999999999999999999999999998877543 334567888999999999764  5679999999999999


Q ss_pred             cHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 016044          241 DEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKG  318 (396)
Q Consensus       241 ~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~  318 (396)
                      |++++|  ||+..+++++|+.++|.+||+.+.++..+..++++..+|+.|+||||+||.++|++|++.++++........
T Consensus       604 d~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~~~~l~~la~~t~g~sgadi~~~~~~A~~~a~~~~~~~~~~~  683 (733)
T TIGR01243       604 DPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAMAALRESIGSPAKE  683 (733)
T ss_pred             CHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHhhhccch
Confidence            999998  999999999999999999999999999888899999999999999999999999999999999875432110


Q ss_pred             ------CCCCCCCCCCHHHHHHHHHhcccch
Q 016044          319 ------KPAAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       319 ------~~~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                            .......+|+++||..|+++++|+.
T Consensus       684 ~~~~~~~~~~~~~~i~~~~f~~al~~~~ps~  714 (733)
T TIGR01243       684 KLEVGEEEFLKDLKVEMRHFLEALKKVKPSV  714 (733)
T ss_pred             hhhcccccccccCcccHHHHHHHHHHcCCCC
Confidence                  0112345899999999999999984

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.

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

Probab=100.00  E-value=1.4e-39  Score=327.23  Aligned_cols=243  Identities=41%  Similarity=0.649  Sum_probs=223.2

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      ....++|.|+.|.+++|++|.+++.. |++|+.|...+ ...|+|+||+||||||||.||+|+|.+.|.||+.++++++.
T Consensus       304 ~~t~V~FkDVAG~deAK~El~E~V~f-LKNP~~Y~~lG-AKiPkGvLL~GPPGTGKTLLAKAiAGEAgVPF~svSGSEFv  381 (774)
T KOG0731|consen  304 GNTGVKFKDVAGVDEAKEELMEFVKF-LKNPEQYQELG-AKIPKGVLLVGPPGTGKTLLAKAIAGEAGVPFFSVSGSEFV  381 (774)
T ss_pred             CCCCCccccccCcHHHHHHHHHHHHH-hcCHHHHHHcC-CcCcCceEEECCCCCcHHHHHHHHhcccCCceeeechHHHH
Confidence            45569999999999999999998876 99999999875 78899999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCC----CCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRR----TSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR  236 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~----~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~  236 (396)
                      ..+.|.....++.+|..|+.+.|||+||||||.+...+.    ...+..-...+++++..|||+..  ...|+++++||+
T Consensus       382 E~~~g~~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~--~~~vi~~a~tnr  459 (774)
T KOG0731|consen  382 EMFVGVGASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFET--SKGVIVLAATNR  459 (774)
T ss_pred             HHhcccchHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcC--CCcEEEEeccCC
Confidence            999999899999999999999999999999999998884    23444556678899999999986  477999999999


Q ss_pred             CCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHH
Q 016044          237 PSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLD  313 (396)
Q Consensus       237 ~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~  313 (396)
                      ++.+|++++|  |||+.+.++.|+..+|.+|++.+++...++ +++++..+|..|.||+|+||.++|++|+..|.++.. 
T Consensus       460 ~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~~a~~t~gf~gadl~n~~neaa~~a~r~~~-  538 (774)
T KOG0731|consen  460 PDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSKLASLTPGFSGADLANLCNEAALLAARKGL-  538 (774)
T ss_pred             ccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHHHHhcCCCCcHHHHHhhhhHHHHHHHHhcc-
Confidence            9999999999  999999999999999999999999998885 778899999999999999999999999999999743 


Q ss_pred             HHhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          314 EERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       314 ~~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                                 ..|+..||++|++++
T Consensus       539 -----------~~i~~~~~~~a~~Rv  553 (774)
T KOG0731|consen  539 -----------REIGTKDLEYAIERV  553 (774)
T ss_pred             -----------CccchhhHHHHHHHH
Confidence                       679999999999854

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=100.00  E-value=4.7e-39  Score=313.39  Aligned_cols=248  Identities=40%  Similarity=0.671  Sum_probs=222.3

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.|+++|++|+|++++++++.+.+..|+.+++.|...+ ..+|+++|||||||||||++|+++|++++.+|+.++++++.
T Consensus       124 ~~p~~~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g-~~~p~gvLL~GppGtGKT~lAkaia~~~~~~~i~v~~~~l~  202 (389)
T PRK03992        124 ESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVG-IEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELV  202 (389)
T ss_pred             CCCCCCHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcC-CCCCCceEEECCCCCChHHHHHHHHHHhCCCEEEeehHHHh
Confidence            34678999999999999999999999999999998765 67889999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCc---hHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD---HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~---~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      .++.|+.+..++.+|..+....|+||||||+|.+++.+....   .....+.+.+++..++++..  ..+++||+|||++
T Consensus       203 ~~~~g~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~--~~~v~VI~aTn~~  280 (389)
T PRK03992        203 QKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDP--RGNVKIIAATNRI  280 (389)
T ss_pred             HhhccchHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCC--CCCEEEEEecCCh
Confidence            999999999999999999999999999999999987654322   22344556677777777653  4579999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +.+|++++|  ||+..+++++|+.++|.+||+.++++..+..++++..++..|+||+|+||.++|++|.+.|+++.    
T Consensus       281 ~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~~~~~~la~~t~g~sgadl~~l~~eA~~~a~~~~----  356 (389)
T PRK03992        281 DILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEAGMFAIRDD----  356 (389)
T ss_pred             hhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCcCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHcC----
Confidence            999999998  99999999999999999999999999888888999999999999999999999999999998862    


Q ss_pred             hcCCCCCCCCCCCHHHHHHHHHhcccch
Q 016044          316 RKGKPAAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                              ...|+.+||.+|+..+++..
T Consensus       357 --------~~~i~~~d~~~A~~~~~~~~  376 (389)
T PRK03992        357 --------RTEVTMEDFLKAIEKVMGKE  376 (389)
T ss_pred             --------CCCcCHHHHHHHHHHHhccc
Confidence                    25699999999999998874

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=100.00  E-value=2.5e-38  Score=332.12  Aligned_cols=293  Identities=35%  Similarity=0.605  Sum_probs=256.2

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS  161 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~  161 (396)
                      .+.++|+||+|++.+++.+++.+.+|+.+++.|...+ +.+++++|||||||||||++|+++|++++.+++.++++++.+
T Consensus       172 ~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~g-i~~~~giLL~GppGtGKT~laraia~~~~~~~i~i~~~~i~~  250 (733)
T TIGR01243       172 VPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLG-IEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMS  250 (733)
T ss_pred             CCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcC-CCCCceEEEECCCCCChHHHHHHHHHHhCCeEEEEecHHHhc
Confidence            4679999999999999999999999999999998865 678899999999999999999999999999999999999999


Q ss_pred             hhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCc
Q 016044          162 KWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELD  241 (396)
Q Consensus       162 ~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~  241 (396)
                      ++.|+.+..++.+|..+....|+||||||+|.+.+++.....+...++..+++..++++..  ...+++|++||+++.+|
T Consensus       251 ~~~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~--~~~vivI~atn~~~~ld  328 (733)
T TIGR01243       251 KYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKG--RGRVIVIGATNRPDALD  328 (733)
T ss_pred             ccccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhcccc--CCCEEEEeecCChhhcC
Confidence            9999999999999999999999999999999998887655455556778889999988754  56799999999999999


Q ss_pred             HHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 016044          242 EAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGK  319 (396)
Q Consensus       242 ~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~  319 (396)
                      +++++  ||+..+.++.|+.++|.+||+.+.+...+..+.+++.++..+.||+++|+..+|+.|++.++++.........
T Consensus       329 ~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~d~~l~~la~~t~G~~gadl~~l~~~a~~~al~r~~~~~~~~~  408 (733)
T TIGR01243       329 PALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFIREGKINF  408 (733)
T ss_pred             HHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCccccCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHhhcccccc
Confidence            99998  9999999999999999999999999888888889999999999999999999999999999998765221110


Q ss_pred             -------CCCCCCCCCHHHHHHHHHhcccchhhhhhhhccCCCCCccccCCCccHhHHHHHHHHHHHHH
Q 016044          320 -------PAAAPRPLSRLDLEKVLTTSRKTRVAATEYTLNSQSSGWSRNNESNDYQVQAAISELSRLVV  381 (396)
Q Consensus       320 -------~~~~~~~i~~~d~~~al~~~~~~~~~~~~~~~~~~~~~w~di~~~~~~~~~~~L~ei~~~~~  381 (396)
                             .......++.+||..|++.++|+  .........|.+.|+|++|.+  +++..|.+.+.+++
T Consensus       409 ~~~~i~~~~~~~~~v~~~df~~Al~~v~ps--~~~~~~~~~~~~~~~di~g~~--~~k~~l~~~v~~~~  473 (733)
T TIGR01243       409 EAEEIPAEVLKELKVTMKDFMEALKMVEPS--AIREVLVEVPNVRWSDIGGLE--EVKQELREAVEWPL  473 (733)
T ss_pred             ccccccchhcccccccHHHHHHHHhhcccc--ccchhhccccccchhhcccHH--HHHHHHHHHHHhhh
Confidence                   11233568999999999999988  455556678899999999999  89988888744433

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.

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

Probab=100.00  E-value=3e-38  Score=307.99  Aligned_cols=246  Identities=35%  Similarity=0.581  Sum_probs=220.9

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      ..|.++|+||+|++..++++++.+..|+.+++.|...+ +.+++++|||||||||||++|+++|++++.+|+.+.++++.
T Consensus       176 ~~p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~g-i~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi~V~~seL~  254 (438)
T PTZ00361        176 KAPLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIG-IKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELI  254 (438)
T ss_pred             cCCCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcC-CCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEEEEecchhh
Confidence            34668999999999999999999999999999998865 67889999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCC---CchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRT---SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~---~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      .++.|+....++.+|..+....|+||||||+|.++.++..   +......+.+.+++..++++..  ..++.||+|||++
T Consensus       255 ~k~~Ge~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~--~~~V~VI~ATNr~  332 (438)
T PTZ00361        255 QKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDS--RGDVKVIMATNRI  332 (438)
T ss_pred             hhhcchHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcc--cCCeEEEEecCCh
Confidence            9999999999999999999999999999999999876642   2223345566788888888754  4578999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +.+|++++|  ||+..|+|++|+.++|.+||+.++.+..+..++++..++..++||||+||.++|++|++.|+++..   
T Consensus       333 d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~dvdl~~la~~t~g~sgAdI~~i~~eA~~~Alr~~r---  409 (438)
T PTZ00361        333 ESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALRERR---  409 (438)
T ss_pred             HHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcCcCHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcC---
Confidence            999999997  999999999999999999999999998888899999999999999999999999999999998732   


Q ss_pred             hcCCCCCCCCCCCHHHHHHHHHhccc
Q 016044          316 RKGKPAAAPRPLSRLDLEKVLTTSRK  341 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al~~~~~  341 (396)
                               ..|+.+||..|+.++..
T Consensus       410 ---------~~Vt~~D~~~A~~~v~~  426 (438)
T PTZ00361        410 ---------MKVTQADFRKAKEKVLY  426 (438)
T ss_pred             ---------CccCHHHHHHHHHHHHh
Confidence                     56999999999998744

>CHL00195 ycf46 Ycf46; Provisional

Probab=100.00  E-value=1.6e-37  Score=307.16  Aligned_cols=241  Identities=25%  Similarity=0.388  Sum_probs=207.7

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      ..++.+|++|+|++.+|+.+.+....+.   ..+... .+.+|+|+||+||||||||++|+++|++++.+++.++++.+.
T Consensus       221 ~~~~~~~~dvgGl~~lK~~l~~~~~~~~---~~~~~~-gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~~~l~~~~l~  296 (489)
T CHL00195        221 YSVNEKISDIGGLDNLKDWLKKRSTSFS---KQASNY-GLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLF  296 (489)
T ss_pred             cCCCCCHHHhcCHHHHHHHHHHHHHHhh---HHHHhc-CCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEEEhHHhc
Confidence            3457899999999999999987543221   222222 267789999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCC-CCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRR-TSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE  239 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~-~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~  239 (396)
                      +++.|+++..++.+|..+...+||||||||+|.++..+. .+......+++..++..++.    ...+++||+|||+++.
T Consensus       297 ~~~vGese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~----~~~~V~vIaTTN~~~~  372 (489)
T CHL00195        297 GGIVGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSE----KKSPVFVVATANNIDL  372 (489)
T ss_pred             ccccChHHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhc----CCCceEEEEecCChhh
Confidence            999999999999999999999999999999999877543 34455667788888887764    2457999999999999


Q ss_pred             CcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCC--CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          240 LDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVE--ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       240 l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~--~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +|++++|  ||+..++++.|+.++|.+||+.++.+....  .+.+++.+|+.|+||||+||+++|.+|+..|+.+     
T Consensus       373 Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~dl~~La~~T~GfSGAdI~~lv~eA~~~A~~~-----  447 (489)
T CHL00195        373 LPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYDIKKLSKLSNKFSGAEIEQSIIEAMYIAFYE-----  447 (489)
T ss_pred             CCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccCHHHHHhhcCCCCHHHHHHHHHHHHHHHHHc-----
Confidence            9999998  999999999999999999999999876433  4788999999999999999999999999888754     


Q ss_pred             hcCCCCCCCCCCCHHHHHHHHHhcccc
Q 016044          316 RKGKPAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                              .++++.+||..|++.+.|.
T Consensus       448 --------~~~lt~~dl~~a~~~~~Pl  466 (489)
T CHL00195        448 --------KREFTTDDILLALKQFIPL  466 (489)
T ss_pred             --------CCCcCHHHHHHHHHhcCCC
Confidence                    1679999999999999987

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

Probab=100.00  E-value=1.7e-37  Score=307.39  Aligned_cols=243  Identities=37%  Similarity=0.580  Sum_probs=222.6

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      ....++|.|+.|.+++|+++.+.+.. ++.|..|...+. .-|+|++|+||||||||++||++|.+.+.||++++.+++.
T Consensus       143 ~~~~v~F~DVAG~dEakeel~EiVdf-Lk~p~ky~~lGa-kiPkGvlLvGpPGTGKTLLAkAvAgEA~VPFf~iSGS~FV  220 (596)
T COG0465         143 DQVKVTFADVAGVDEAKEELSELVDF-LKNPKKYQALGA-KIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFV  220 (596)
T ss_pred             cccCcChhhhcCcHHHHHHHHHHHHH-HhCchhhHhccc-ccccceeEecCCCCCcHHHHHHHhcccCCCceeccchhhh
Confidence            45678999999999999999998875 999999988653 7799999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCC---CchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRT---SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~---~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      ..++|-....++.+|..|++++|||+||||+|.+..+|..   +.+..-+..+++++.+|||+..  +..|+++++||+|
T Consensus       221 emfVGvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~--~~gviviaaTNRp  298 (596)
T COG0465         221 EMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGG--NEGVIVIAATNRP  298 (596)
T ss_pred             hhhcCCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCC--CCceEEEecCCCc
Confidence            9999999999999999999999999999999999888753   3444555688999999999984  6789999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +-+|++|+|  ||++++.++.||...|.+|++.++++.++..++++..+|+.|.||+|+|+.+++++|+..+.++..   
T Consensus       299 dVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~Vdl~~iAr~tpGfsGAdL~nl~NEAal~aar~n~---  375 (596)
T COG0465         299 DVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAEDVDLKKIARGTPGFSGADLANLLNEAALLAARRNK---  375 (596)
T ss_pred             ccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCcCCHHHHhhhCCCcccchHhhhHHHHHHHHHHhcC---
Confidence            999999999  999999999999999999999999999999999999999999999999999999999999998743   


Q ss_pred             hcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          316 RKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                               ..+++.||.+|..++
T Consensus       376 ---------~~i~~~~i~ea~drv  390 (596)
T COG0465         376 ---------KEITMRDIEEAIDRV  390 (596)
T ss_pred             ---------eeEeccchHHHHHHH
Confidence                     568888888888775

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=100.00  E-value=1.8e-36  Score=304.96  Aligned_cols=246  Identities=36%  Similarity=0.576  Sum_probs=218.0

Q ss_pred             CCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc
Q 016044           79 NPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN  158 (396)
Q Consensus        79 ~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~  158 (396)
                      .++.+.++|+||+|++++|+++.+.+.. +.+++.|...+ ..+++|+||+||||||||++|+++|++++.+|+.+++++
T Consensus        46 ~~~~~~~~~~di~g~~~~k~~l~~~~~~-l~~~~~~~~~g-~~~~~giLL~GppGtGKT~la~alA~~~~~~~~~i~~~~  123 (495)
T TIGR01241        46 NEEKPKVTFKDVAGIDEAKEELMEIVDF-LKNPSKFTKLG-AKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSD  123 (495)
T ss_pred             cCCCCCCCHHHhCCHHHHHHHHHHHHHH-HHCHHHHHhcC-CCCCCcEEEECCCCCCHHHHHHHHHHHcCCCeeeccHHH
Confidence            4457789999999999999999998775 88888887754 567899999999999999999999999999999999999


Q ss_pred             ccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCC---chHHHHhhHHHHHHHhhccCcCCCCcEEEEEecC
Q 016044          159 LMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS---DHEALTNMKTEFMALWDGFTTDQNARVMVLAATN  235 (396)
Q Consensus       159 l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn  235 (396)
                      +...+.|...+.++.+|..++...|+||||||+|.+..++...   ......+.+++++..++++..  ..+++||+|||
T Consensus       124 ~~~~~~g~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~--~~~v~vI~aTn  201 (495)
T TIGR01241       124 FVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGT--NTGVIVIAATN  201 (495)
T ss_pred             HHHHHhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccC--CCCeEEEEecC
Confidence            9999999999999999999999999999999999998776542   234455778899999998764  45799999999


Q ss_pred             CCCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHH
Q 016044          236 RPSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLD  313 (396)
Q Consensus       236 ~~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~  313 (396)
                      +++.+|++++|  ||+..++++.|+.++|.+|++.+++......+.++..++..+.|||++||.++|++|+..+.++.  
T Consensus       202 ~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~~~~l~~la~~t~G~sgadl~~l~~eA~~~a~~~~--  279 (495)
T TIGR01241       202 RPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVARRTPGFSGADLANLLNEAALLAARKN--  279 (495)
T ss_pred             ChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCcchhHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcC--
Confidence            99999999998  99999999999999999999999998877778899999999999999999999999988876642  


Q ss_pred             HHhcCCCCCCCCCCCHHHHHHHHHhcc
Q 016044          314 EERKGKPAAAPRPLSRLDLEKVLTTSR  340 (396)
Q Consensus       314 ~~~~~~~~~~~~~i~~~d~~~al~~~~  340 (396)
                                ...|+.+||..|+....
T Consensus       280 ----------~~~i~~~~l~~a~~~~~  296 (495)
T TIGR01241       280 ----------KTEITMNDIEEAIDRVI  296 (495)
T ss_pred             ----------CCCCCHHHHHHHHHHHh
Confidence                      25699999999998763

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=100.00  E-value=1.1e-35  Score=288.73  Aligned_cols=244  Identities=42%  Similarity=0.693  Sum_probs=215.7

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.+.++|++|+|++++++++.+.+..|+.+++.|...+ ..+|+|+||+||||||||++|+++|++++.+|+.+.++++.
T Consensus       115 ~~p~~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g-~~~p~gvLL~GppGtGKT~lakaia~~l~~~~~~v~~~~l~  193 (364)
T TIGR01242       115 ERPNVSYEDIGGLEEQIREIREAVELPLKHPELFEEVG-IEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELV  193 (364)
T ss_pred             cCCCCCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcC-CCCCceEEEECCCCCCHHHHHHHHHHhCCCCEEecchHHHH
Confidence            45778999999999999999999999999999998765 67789999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCc---hHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD---HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~---~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      ..+.|+....++.+|..+....|+||||||+|.+...+....   .....+.+.+++..++++..  ..++.||+|||++
T Consensus       194 ~~~~g~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~--~~~v~vI~ttn~~  271 (364)
T TIGR01242       194 RKYIGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDP--RGNVKVIAATNRP  271 (364)
T ss_pred             HHhhhHHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCC--CCCEEEEEecCCh
Confidence            999999999999999999988999999999999976654321   22334455677777777643  4579999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +.+|+++++  ||+..++++.|+.++|.+|++.++.+..+..++++..++..+.||+|+||.++|++|.+.|+++.    
T Consensus       272 ~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~~~~~~la~~t~g~sg~dl~~l~~~A~~~a~~~~----  347 (364)
T TIGR01242       272 DILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAKMTEGASGADLKAICTEAGMFAIREE----  347 (364)
T ss_pred             hhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCccCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhC----
Confidence            999999998  99999999999999999999999988888778899999999999999999999999999998862    


Q ss_pred             hcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          316 RKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                              ...|+.+||..|++++
T Consensus       348 --------~~~i~~~d~~~a~~~~  363 (364)
T TIGR01242       348 --------RDYVTMDDFIKAVEKV  363 (364)
T ss_pred             --------CCccCHHHHHHHHHHh
Confidence                    1569999999999864

Many proteins may score above the trusted cutoff because an internal

>TIGR03689 pup_AAA proteasome ATPase

Probab=100.00  E-value=2.3e-35  Score=291.30  Aligned_cols=276  Identities=28%  Similarity=0.486  Sum_probs=220.4

Q ss_pred             cccCCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-----
Q 016044           76 DVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-----  150 (396)
Q Consensus        76 ~~~~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-----  150 (396)
                      .++....|+++|++|+|+++.++++++.+.+|+.+++.|...+ +.+|+|+|||||||||||++|+++|++++.+     
T Consensus       170 ~l~~~~~p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~g-l~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~  248 (512)
T TIGR03689       170 DLVLEEVPDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYD-LKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAET  248 (512)
T ss_pred             cceeecCCCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhcc-CCCCcceEEECCCCCcHHHHHHHHHHhhcccccccc
Confidence            4445577899999999999999999999999999999998865 7788999999999999999999999988543     


Q ss_pred             -----EEEEecccccchhhchHHHHHHHHHHHHHHh----CCcEEEEccccccccCCCCC-chHHHHhhHHHHHHHhhcc
Q 016044          151 -----FINVRISNLMSKWFGDAQKLVAAVFSLAYKL----QPAIIFIDEVDSFLGQRRTS-DHEALTNMKTEFMALWDGF  220 (396)
Q Consensus       151 -----~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~----~p~vl~iDEid~l~~~~~~~-~~~~~~~~~~~ll~~l~~~  220 (396)
                           |+.+..+++.+++.|++++.++.+|..++..    .|+||||||+|.++.++..+ ..+...+++++|+..++++
T Consensus       249 ~~~~~fl~v~~~eLl~kyvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl  328 (512)
T TIGR03689       249 GDKSYFLNIKGPELLNKYVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGV  328 (512)
T ss_pred             CCceeEEeccchhhcccccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhccc
Confidence                 6677788899999999999999999988764    68999999999998877543 2333456788999999998


Q ss_pred             CcCCCCcEEEEEecCCCCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcC-CCCC---------CCCCHHHHHH--
Q 016044          221 TTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKG-EKVE---------ENIDFDYLAG--  286 (396)
Q Consensus       221 ~~~~~~~v~vI~atn~~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~-~~~~---------~~~~l~~la~--  286 (396)
                      ..  ..++++|+|||+++.||++++|  ||+..|+|++|+.++|.+||+.++.. .++.         ...++..+++  
T Consensus       329 ~~--~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~~~l~l~~~l~~~~g~~~a~~~al~~~a  406 (512)
T TIGR03689       329 ES--LDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLTDSLPLDADLAEFDGDREATAAALIQRA  406 (512)
T ss_pred             cc--CCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhhccCCchHHHHHhcCCCHHHHHHHHHHH
Confidence            64  4579999999999999999999  99999999999999999999999864 2221         1112222222  


Q ss_pred             ---------------------------hCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          287 ---------------------------LCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       287 ---------------------------~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                                                 .++.+||++|.++|++|...|+++.+..        ....++.+|+..|+...
T Consensus       407 v~~~~a~~~~~~~l~~~~~~g~~~~l~~~d~~sGa~i~~iv~~a~~~ai~~~~~~--------~~~~~~~~~l~~a~~~e  478 (512)
T TIGR03689       407 VDHLYATSEENRYVEVTYANGSTEVLYFKDFVSGAMIANIVDRAKKRAIKDHITG--------GQVGLRIEHLLAAVLDE  478 (512)
T ss_pred             HHHHhhhhcccceeEEEecCCceeeEeecccccHHHHHHHHHHHHHHHHHHHHhc--------CCcCcCHHHHHHHHHHh
Confidence                                       2456899999999999999999887632        12579999999999864


Q ss_pred             ccchhhhhhhhccCCCCCccccCCCc
Q 016044          340 RKTRVAATEYTLNSQSSGWSRNNESN  365 (396)
Q Consensus       340 ~~~~~~~~~~~~~~~~~~w~di~~~~  365 (396)
                      -..   ....+.......|..|.|..
T Consensus       479 ~~~---~~~~~~~~~~~~w~~~~~~~  501 (512)
T TIGR03689       479 FRE---SEDLPNTTNPDDWARISGKK  501 (512)
T ss_pred             hcc---cccCCCCCCHHHHhhhhCCC
Confidence            322   22233333345598886654

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.

>CHL00176 ftsH cell division protein; Validated

Probab=100.00  E-value=1.2e-34  Score=295.22  Aligned_cols=243  Identities=33%  Similarity=0.556  Sum_probs=212.9

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      ....++|+|++|++++++++.+.+.. ++.++.|...+ ...++|+||+||||||||++|+++|.+.+.+|+.++++++.
T Consensus       176 ~~~~~~f~dv~G~~~~k~~l~eiv~~-lk~~~~~~~~g-~~~p~gVLL~GPpGTGKT~LAralA~e~~~p~i~is~s~f~  253 (638)
T CHL00176        176 ADTGITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVG-AKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFV  253 (638)
T ss_pred             cCCCCCHHhccChHHHHHHHHHHHHH-HhCHHHHhhcc-CCCCceEEEECCCCCCHHHHHHHHHHHhCCCeeeccHHHHH
Confidence            44568999999999999999988765 78888887654 56789999999999999999999999999999999999998


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCC---CchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRT---SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~---~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      ..+.|.....++.+|..+....||||||||+|.+...+..   .........++.++..++++..  +.+++||++||++
T Consensus       254 ~~~~g~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~--~~~ViVIaaTN~~  331 (638)
T CHL00176        254 EMFVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKG--NKGVIVIAATNRV  331 (638)
T ss_pred             HHhhhhhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccC--CCCeeEEEecCch
Confidence            8888888888999999999999999999999999866542   2234445677888888888754  5679999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +.+|++++|  ||+..+.+++|+.++|.+||+.+++......++++..+|..+.||+++||.++|++|+..+.++.    
T Consensus       332 ~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~~d~~l~~lA~~t~G~sgaDL~~lvneAal~a~r~~----  407 (638)
T CHL00176        332 DILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLNEAAILTARRK----  407 (638)
T ss_pred             HhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcccchhHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhC----
Confidence            999999998  99999999999999999999999998777788899999999999999999999999998887652    


Q ss_pred             hcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          316 RKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                              ...|+.+||+.|+.++
T Consensus       408 --------~~~It~~dl~~Ai~rv  423 (638)
T CHL00176        408 --------KATITMKEIDTAIDRV  423 (638)
T ss_pred             --------CCCcCHHHHHHHHHHH
Confidence                    1569999999999875

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

Probab=100.00  E-value=7.8e-36  Score=267.82  Aligned_cols=249  Identities=38%  Similarity=0.640  Sum_probs=222.2

Q ss_pred             ccCCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEec
Q 016044           77 VINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI  156 (396)
Q Consensus        77 ~~~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~  156 (396)
                      ....+.-+++|+.++|.-.+..++++.+..|+.+|++|.+.+ +.+|.+++||||||+|||.+|+++|..+|++|+.+..
T Consensus       121 m~~e~~~~~s~~~~ggl~~qirelre~ielpl~np~lf~rvg-Ik~Pkg~ll~GppGtGKTlla~~Vaa~mg~nfl~v~s  199 (388)
T KOG0651|consen  121 MSHEDPRNISFENVGGLFYQIRELREVIELPLTNPELFLRVG-IKPPKGLLLYGPPGTGKTLLARAVAATMGVNFLKVVS  199 (388)
T ss_pred             hhhcCccccCHHHhCChHHHHHHHHhheEeeccCchhccccC-CCCCceeEEeCCCCCchhHHHHHHHHhcCCceEEeeH
Confidence            334455578999999999999999999999999999999864 8899999999999999999999999999999999999


Q ss_pred             ccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCC---chHHHHhhHHHHHHHhhccCcCCCCcEEEEEe
Q 016044          157 SNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS---DHEALTNMKTEFMALWDGFTTDQNARVMVLAA  233 (396)
Q Consensus       157 ~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~a  233 (396)
                      +.+.+++.|++.+.++..|..|+...||+||+||||...+.+.+.   ......+.+.+++.+|+++..  ..+|-+|+|
T Consensus       200 s~lv~kyiGEsaRlIRemf~yA~~~~pciifmdeiDAigGRr~se~Ts~dreiqrTLMeLlnqmdgfd~--l~rVk~Ima  277 (388)
T KOG0651|consen  200 SALVDKYIGESARLIRDMFRYAREVIPCIIFMDEIDAIGGRRFSEGTSSDREIQRTLMELLNQMDGFDT--LHRVKTIMA  277 (388)
T ss_pred             hhhhhhhcccHHHHHHHHHHHHhhhCceEEeehhhhhhccEEeccccchhHHHHHHHHHHHHhhccchh--cccccEEEe
Confidence            999999999999999999999999999999999999998877432   233445556677778888765  678999999


Q ss_pred             cCCCCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHH
Q 016044          234 TNRPSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIREL  311 (396)
Q Consensus       234 tn~~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~  311 (396)
                      ||+|+.|+++|+|  |+++.+.+|.|+...|..|++.+.........++.+.+.+.++||.|+|+++.|.+|-+.++++.
T Consensus       278 tNrpdtLdpaLlRpGRldrk~~iPlpne~~r~~I~Kih~~~i~~~Geid~eaivK~~d~f~gad~rn~~tEag~Fa~~~~  357 (388)
T KOG0651|consen  278 TNRPDTLDPALLRPGRLDRKVEIPLPNEQARLGILKIHVQPIDFHGEIDDEAILKLVDGFNGADLRNVCTEAGMFAIPEE  357 (388)
T ss_pred             cCCccccchhhcCCccccceeccCCcchhhceeeEeeccccccccccccHHHHHHHHhccChHHHhhhcccccccccchh
Confidence            9999999999999  99999999999999999999999988888888999999999999999999999999999988764


Q ss_pred             HHHHhcCCCCCCCCCCCHHHHHHHHHhcc
Q 016044          312 LDEERKGKPAAAPRPLSRLDLEKVLTTSR  340 (396)
Q Consensus       312 ~~~~~~~~~~~~~~~i~~~d~~~al~~~~  340 (396)
                      .            ..+-.+||..+..+..
T Consensus       358 ~------------~~vl~Ed~~k~vrk~~  374 (388)
T KOG0651|consen  358 R------------DEVLHEDFMKLVRKQA  374 (388)
T ss_pred             h------------HHHhHHHHHHHHHHHH
Confidence            3            3466889999887754

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

Probab=100.00  E-value=1.6e-33  Score=290.35  Aligned_cols=260  Identities=32%  Similarity=0.541  Sum_probs=225.8

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEecc
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVRIS  157 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~~~  157 (396)
                      ..++|++|+|++.+++.|++.+..|+.+|+.|.+.. +.||+|+||+||||||||+.|+++|..+     ...|+.-++.
T Consensus       260 ~~v~fd~vggl~~~i~~LKEmVl~PLlyPE~f~~~~-itpPrgvL~~GppGTGkTl~araLa~~~s~~~~kisffmrkga  338 (1080)
T KOG0732|consen  260 SSVGFDSVGGLENYINQLKEMVLLPLLYPEFFDNFN-ITPPRGVLFHGPPGTGKTLMARALAAACSRGNRKISFFMRKGA  338 (1080)
T ss_pred             cccCccccccHHHHHHHHHHHHHhHhhhhhHhhhcc-cCCCcceeecCCCCCchhHHHHhhhhhhcccccccchhhhcCc
Confidence            468999999999999999999999999999999875 8899999999999999999999999976     3556777789


Q ss_pred             cccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       158 ~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      +..++|+|+.++.++.+|..|++.+|.|+|+||||-+.+.+..........+...++.+|+|+..  .+.|+||+|||+|
T Consensus       339 D~lskwvgEaERqlrllFeeA~k~qPSIIffdeIdGlapvrSskqEqih~SIvSTLLaLmdGlds--RgqVvvigATnRp  416 (1080)
T KOG0732|consen  339 DCLSKWVGEAERQLRLLFEEAQKTQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDS--RGQVVVIGATNRP  416 (1080)
T ss_pred             hhhccccCcHHHHHHHHHHHHhccCceEEeccccccccccccchHHHhhhhHHHHHHHhccCCCC--CCceEEEcccCCc
Confidence            99999999999999999999999999999999999999998777777777889999999999986  6789999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE  314 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~  314 (396)
                      +.++++++|  ||++.++|+.|+.+.|..|+..+-+..... ...-+..+|+.+.||.|+||+.+|.+|++.++++-.-.
T Consensus       417 da~dpaLRRPgrfdref~f~lp~~~ar~~Il~Ihtrkw~~~i~~~l~~~la~~t~gy~gaDlkaLCTeAal~~~~r~~Pq  496 (1080)
T KOG0732|consen  417 DAIDPALRRPGRFDREFYFPLPDVDARAKILDIHTRKWEPPISRELLLWLAEETSGYGGADLKALCTEAALIALRRSFPQ  496 (1080)
T ss_pred             cccchhhcCCcccceeEeeeCCchHHHHHHHHHhccCCCCCCCHHHHHHHHHhccccchHHHHHHHHHHhhhhhccccCe
Confidence            999999999  999999999999999999999998766533 23347789999999999999999999999999874322


Q ss_pred             Hh----cCCCCCCCCCCCHHHHHHHHHhcccchhh
Q 016044          315 ER----KGKPAAAPRPLSRLDLEKVLTTSRKTRVA  345 (396)
Q Consensus       315 ~~----~~~~~~~~~~i~~~d~~~al~~~~~~~~~  345 (396)
                      .-    ..........+...||..|+.+.-|+...
T Consensus       497 ~y~s~~kl~~d~~~ikV~~~~f~~A~~~i~ps~~R  531 (1080)
T KOG0732|consen  497 IYSSSDKLLIDVALIKVEVRDFVEAMSRITPSSRR  531 (1080)
T ss_pred             eecccccccccchhhhhhhHhhhhhhhccCCCCCc
Confidence            11    11112233448999999999998777433

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=100.00  E-value=1.2e-32  Score=283.72  Aligned_cols=247  Identities=37%  Similarity=0.559  Sum_probs=215.3

Q ss_pred             CCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc
Q 016044           79 NPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN  158 (396)
Q Consensus        79 ~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~  158 (396)
                      .+......|+++.|.+..++++.+.+.+ +..+..+...+ ...++|++|+||||||||+++++++.+++.+|+.+++++
T Consensus       143 ~~~~~~~~~~di~g~~~~~~~l~~i~~~-~~~~~~~~~~~-~~~~~gill~G~~G~GKt~~~~~~a~~~~~~f~~is~~~  220 (644)
T PRK10733        143 TEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLG-GKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSD  220 (644)
T ss_pred             CchhhhCcHHHHcCHHHHHHHHHHHHHH-hhCHHHHHhcC-CCCCCcEEEECCCCCCHHHHHHHHHHHcCCCEEEEehHH
Confidence            3445567899999999999999998876 56666665433 455789999999999999999999999999999999999


Q ss_pred             ccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCC---chHHHHhhHHHHHHHhhccCcCCCCcEEEEEecC
Q 016044          159 LMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS---DHEALTNMKTEFMALWDGFTTDQNARVMVLAATN  235 (396)
Q Consensus       159 l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn  235 (396)
                      +...+.+.....++.+|..+....||||||||+|.+...+...   ......+.+++++..++++..  +.++++|+|||
T Consensus       221 ~~~~~~g~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~--~~~vivIaaTN  298 (644)
T PRK10733        221 FVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG--NEGIIVIAATN  298 (644)
T ss_pred             hHHhhhcccHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccC--CCCeeEEEecC
Confidence            9999999989999999999999999999999999998776532   233445678889999998864  56799999999


Q ss_pred             CCCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHH
Q 016044          236 RPSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLD  313 (396)
Q Consensus       236 ~~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~  313 (396)
                      +|+.+|++++|  ||++.+.++.|+.++|.+||+.+++..++..++++..+|+.+.||||+||.++|++|+..|+++.  
T Consensus       299 ~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~~~~~l~~~~d~~~la~~t~G~sgadl~~l~~eAa~~a~r~~--  376 (644)
T PRK10733        299 RPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGN--  376 (644)
T ss_pred             ChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHhhcCCCCCcCCHHHHHhhCCCCCHHHHHHHHHHHHHHHHHcC--
Confidence            99999999998  99999999999999999999999999888888999999999999999999999999999988752  


Q ss_pred             HHhcCCCCCCCCCCCHHHHHHHHHhccc
Q 016044          314 EERKGKPAAAPRPLSRLDLEKVLTTSRK  341 (396)
Q Consensus       314 ~~~~~~~~~~~~~i~~~d~~~al~~~~~  341 (396)
                                ...|+++||+.|+.++.+
T Consensus       377 ----------~~~i~~~d~~~a~~~v~~  394 (644)
T PRK10733        377 ----------KRVVSMVEFEKAKDKIMM  394 (644)
T ss_pred             ----------CCcccHHHHHHHHHHHhc
Confidence                      256899999999876643

>CHL00206 ycf2 Ycf2; Provisional

Probab=99.98  E-value=1.2e-31  Score=287.18  Aligned_cols=202  Identities=19%  Similarity=0.290  Sum_probs=168.5

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchh------------------------------------
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKW------------------------------------  163 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~------------------------------------  163 (396)
                      ..+|+||||+||||||||++|+|+|.++++||+.++++++..++                                    
T Consensus      1627 l~pPKGILLiGPPGTGKTlLAKALA~es~VPFIsISgs~fl~~~~~~~~~d~i~iges~~~~~~~~~~~~~~~e~~e~~n 1706 (2281)
T CHL00206       1627 LSPSRGILVIGSIGTGRSYLVKYLATNSYVPFITVFLNKFLDNKPKGFLIDDIDIDDSDDIDDSDDIDRDLDTELLTMMN 1706 (2281)
T ss_pred             CCCCCceEEECCCCCCHHHHHHHHHHhcCCceEEEEHHHHhhcccccccccccccccccccccccccccccchhhhhhcc
Confidence            57899999999999999999999999999999999999988643                                    


Q ss_pred             -----hchHHH--HHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCc-CCCCcEEEEEecC
Q 016044          164 -----FGDAQK--LVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTT-DQNARVMVLAATN  235 (396)
Q Consensus       164 -----~g~~~~--~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~-~~~~~v~vI~atn  235 (396)
                           .+..+.  .++.+|+.|++.+||||||||||.+..+...      ...+.+++..|++... ....+|+||||||
T Consensus      1707 ~~~~~m~~~e~~~rIr~lFelARk~SPCIIFIDEIDaL~~~ds~------~ltL~qLLneLDg~~~~~s~~~VIVIAATN 1780 (2281)
T CHL00206       1707 ALTMDMMPKIDRFYITLQFELAKAMSPCIIWIPNIHDLNVNESN------YLSLGLLVNSLSRDCERCSTRNILVIASTH 1780 (2281)
T ss_pred             hhhhhhhhhhhHHHHHHHHHHHHHCCCeEEEEEchhhcCCCccc------eehHHHHHHHhccccccCCCCCEEEEEeCC
Confidence                 112222  3788999999999999999999999766321      1125678888887642 2356799999999


Q ss_pred             CCCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHh--cCCCCCC-CCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHH
Q 016044          236 RPSELDEAILR--RLPQAFEIGMPDRKERAQILKVIL--KGEKVEE-NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE  310 (396)
Q Consensus       236 ~~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l--~~~~~~~-~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~  310 (396)
                      +|+.+|||++|  ||++.|+++.|+..+|.+++..++  ++..+.. .++++.+|+.|.||||+||.++|++|+..|+++
T Consensus      1781 RPD~LDPALLRPGRFDR~I~Ir~Pd~p~R~kiL~ILl~tkg~~L~~~~vdl~~LA~~T~GfSGADLanLvNEAaliAirq 1860 (2281)
T CHL00206       1781 IPQKVDPALIAPNKLNTCIKIRRLLIPQQRKHFFTLSYTRGFHLEKKMFHTNGFGSITMGSNARDLVALTNEALSISITQ 1860 (2281)
T ss_pred             CcccCCHhHcCCCCCCeEEEeCCCCchhHHHHHHHHHhhcCCCCCcccccHHHHHHhCCCCCHHHHHHHHHHHHHHHHHc
Confidence            99999999999  999999999999999999888654  4444543 368999999999999999999999999999987


Q ss_pred             HHHHHhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          311 LLDEERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       311 ~~~~~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                      ..            ..|+++|++.|+.+.
T Consensus      1861 ~k------------s~Id~~~I~~Al~Rq 1877 (2281)
T CHL00206       1861 KK------------SIIDTNTIRSALHRQ 1877 (2281)
T ss_pred             CC------------CccCHHHHHHHHHHH
Confidence            32            458899999998875

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

Probab=99.97  E-value=1.1e-30  Score=258.33  Aligned_cols=257  Identities=21%  Similarity=0.308  Sum_probs=213.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD  202 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~  202 (396)
                      ...+||+|+||||||++++++|+++|.+++.++|.++.....+..+..+...|..|+.+.|+|||+-++|.+......+.
T Consensus       431 ~~~vLLhG~~g~GK~t~V~~vas~lg~h~~evdc~el~~~s~~~~etkl~~~f~~a~~~~pavifl~~~dvl~id~dgge  510 (953)
T KOG0736|consen  431 NPSVLLHGPPGSGKTTVVRAVASELGLHLLEVDCYELVAESASHTETKLQAIFSRARRCSPAVLFLRNLDVLGIDQDGGE  510 (953)
T ss_pred             ceEEEEeCCCCCChHHHHHHHHHHhCCceEeccHHHHhhcccchhHHHHHHHHHHHhhcCceEEEEeccceeeecCCCch
Confidence            45699999999999999999999999999999999999999999999999999999999999999999999986655544


Q ss_pred             hHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHH
Q 016044          203 HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFD  282 (396)
Q Consensus       203 ~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~  282 (396)
                      .-.+...+..++. .+ .......++++|++++..+.+++.+++-|...|.++.|+.++|.+||+.++....+..++.+.
T Consensus       511 d~rl~~~i~~~ls-~e-~~~~~~~~~ivv~t~~s~~~lp~~i~~~f~~ei~~~~lse~qRl~iLq~y~~~~~~n~~v~~k  588 (953)
T KOG0736|consen  511 DARLLKVIRHLLS-NE-DFKFSCPPVIVVATTSSIEDLPADIQSLFLHEIEVPALSEEQRLEILQWYLNHLPLNQDVNLK  588 (953)
T ss_pred             hHHHHHHHHHHHh-cc-cccCCCCceEEEEeccccccCCHHHHHhhhhhccCCCCCHHHHHHHHHHHHhccccchHHHHH
Confidence            3333333333333 12 222235679999999999999999999888999999999999999999999999999999999


Q ss_pred             HHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH--------hcCCCCCCCCCCCHHHHHHHHHhcccchhhhhhhhccCC
Q 016044          283 YLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE--------RKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEYTLNSQ  354 (396)
Q Consensus       283 ~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~--------~~~~~~~~~~~i~~~d~~~al~~~~~~~~~~~~~~~~~~  354 (396)
                      .++.++.||+.+++..++.++...+..+..+..        .++........++++||.+++.+++... +.....+..|
T Consensus       589 ~~a~~t~gfs~~~L~~l~~~~s~~~~~~i~~~~l~g~~~~~~~~~~~~~~~~l~~edf~kals~~~~~f-s~aiGAPKIP  667 (953)
T KOG0736|consen  589 QLARKTSGFSFGDLEALVAHSSLAAKTRIKNKGLAGGLQEEDEGELCAAGFLLTEEDFDKALSRLQKEF-SDAIGAPKIP  667 (953)
T ss_pred             HHHHhcCCCCHHHHHHHhcCchHHHHHHHHhhcccccchhccccccccccceecHHHHHHHHHHHHHhh-hhhcCCCCCC
Confidence            999999999999999999988555554443332        2233445668899999999999998874 5566677899


Q ss_pred             CCCccccCCCccHhHHHHHHHHHHHHHHHH
Q 016044          355 SSGWSRNNESNDYQVQAAISELSRLVVSQI  384 (396)
Q Consensus       355 ~~~w~di~~~~~~~~~~~L~ei~~~~~~~~  384 (396)
                      +|.|+||||++  ++|++|.|++++|++|.
T Consensus       668 nV~WdDVGGLe--evK~eIldTIqlPL~hp  695 (953)
T KOG0736|consen  668 NVSWDDVGGLE--EVKTEILDTIQLPLKHP  695 (953)
T ss_pred             ccchhcccCHH--HHHHHHHHHhcCcccCh
Confidence            99999999999  99999999965555443

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

Probab=99.97  E-value=9.4e-31  Score=243.81  Aligned_cols=219  Identities=20%  Similarity=0.272  Sum_probs=170.2

Q ss_pred             Ccccccc-cChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch
Q 016044           84 DVEFESI-GGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK  162 (396)
Q Consensus        84 ~~~~~~i-~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~  162 (396)
                      ..+|+++ +|+.-.+.-+.+.+....++   |-....+++|.+++||||||||||++|+++|+++|++++.++++++.++
T Consensus       111 ~~~f~~~~g~~~~~p~f~dk~~~hi~kn---~l~~~~ik~PlgllL~GPPGcGKTllAraiA~elg~~~i~vsa~eL~sk  187 (413)
T PLN00020        111 TRSFDNLVGGYYIAPAFMDKVAVHIAKN---FLALPNIKVPLILGIWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESE  187 (413)
T ss_pred             hcchhhhcCccccCHHHHHHHHHHHHhh---hhhccCCCCCeEEEeeCCCCCCHHHHHHHHHHHcCCCeEEEEHHHhhcC
Confidence            3577887 66666666665554332221   1111236889999999999999999999999999999999999999999


Q ss_pred             hhchHHHHHHHHHHHHHHh-----CCcEEEEccccccccCCCCCchHHHHhhH-HHHHHHhhcc----------CcCCCC
Q 016044          163 WFGDAQKLVAAVFSLAYKL-----QPAIIFIDEVDSFLGQRRTSDHEALTNMK-TEFMALWDGF----------TTDQNA  226 (396)
Q Consensus       163 ~~g~~~~~~~~~f~~a~~~-----~p~vl~iDEid~l~~~~~~~~~~~~~~~~-~~ll~~l~~~----------~~~~~~  226 (396)
                      |.|++++.++.+|..|...     +||||||||||.+++.+.........+++ .+|+.++|+.          ..+...
T Consensus       188 ~vGEsEk~IR~~F~~A~~~a~~~~aPcVLFIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~  267 (413)
T PLN00020        188 NAGEPGKLIRQRYREAADIIKKKGKMSCLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIP  267 (413)
T ss_pred             cCCcHHHHHHHHHHHHHHHhhccCCCeEEEEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCC
Confidence            9999999999999999753     69999999999999988755555545554 6899888863          123456


Q ss_pred             cEEEEEecCCCCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCC----CcHHHHHHHH
Q 016044          227 RVMVLAATNRPSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEG----FTGSDLLEVC  300 (396)
Q Consensus       227 ~v~vI~atn~~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g----~s~~di~~l~  300 (396)
                      +|+||+|||+|+.||++|+|  ||+..+  ..|+.++|.+||+.+++...+. ..++..|+..+.|    |.|+--..+.
T Consensus       268 ~V~VIaTTNrpd~LDpALlRpGRfDk~i--~lPd~e~R~eIL~~~~r~~~l~-~~dv~~Lv~~f~gq~~Df~GAlrar~y  344 (413)
T PLN00020        268 RVPIIVTGNDFSTLYAPLIRDGRMEKFY--WAPTREDRIGVVHGIFRDDGVS-REDVVKLVDTFPGQPLDFFGALRARVY  344 (413)
T ss_pred             CceEEEeCCCcccCCHhHcCCCCCCcee--CCCCHHHHHHHHHHHhccCCCC-HHHHHHHHHcCCCCCchhhhHHHHHHH
Confidence            79999999999999999999  998864  5899999999999999987664 4667777777766    4555444455


Q ss_pred             HHHHHHHH
Q 016044          301 KQAAYFSI  308 (396)
Q Consensus       301 ~~A~~~a~  308 (396)
                      +++...-+
T Consensus       345 d~~v~~~i  352 (413)
T PLN00020        345 DDEVRKWI  352 (413)
T ss_pred             HHHHHHHH
Confidence            55444433

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

Probab=99.97  E-value=1e-31  Score=255.86  Aligned_cols=298  Identities=30%  Similarity=0.438  Sum_probs=229.2

Q ss_pred             CCccccc--ccChHHHHHHHH-HHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-EEEEeccc
Q 016044           83 IDVEFES--IGGLETIKQALY-ELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-FINVRISN  158 (396)
Q Consensus        83 ~~~~~~~--i~G~~~~k~~l~-~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-~~~i~~~~  158 (396)
                      |+.+|++  |+|++.--..+- +....-.--|+...+.+ ...-+|+|||||||||||.+||.|.+-+++. --.+++++
T Consensus       214 Pdf~Fe~mGIGGLd~EFs~IFRRAFAsRvFpp~vie~lG-i~HVKGiLLyGPPGTGKTLiARqIGkMLNArePKIVNGPe  292 (744)
T KOG0741|consen  214 PDFNFESMGIGGLDKEFSDIFRRAFASRVFPPEVIEQLG-IKHVKGILLYGPPGTGKTLIARQIGKMLNAREPKIVNGPE  292 (744)
T ss_pred             CCCChhhcccccchHHHHHHHHHHHHhhcCCHHHHHHcC-ccceeeEEEECCCCCChhHHHHHHHHHhcCCCCcccCcHH
Confidence            3556766  689888666554 34443344456655554 6778999999999999999999999988753 34589999


Q ss_pred             ccchhhchHHHHHHHHHHHHHHhC--------CcEEEEccccccccCCCCCc--hHHHHhhHHHHHHHhhccCcCCCCcE
Q 016044          159 LMSKWFGDAQKLVAAVFSLAYKLQ--------PAIIFIDEVDSFLGQRRTSD--HEALTNMKTEFMALWDGFTTDQNARV  228 (396)
Q Consensus       159 l~~~~~g~~~~~~~~~f~~a~~~~--------p~vl~iDEid~l~~~~~~~~--~~~~~~~~~~ll~~l~~~~~~~~~~v  228 (396)
                      ++++|+|+++.+++.+|..|....        =-||++||||.++.+|.+..  ......+.++++..+||..+  -.++
T Consensus       293 IL~KYVGeSE~NvR~LFaDAEeE~r~~g~~SgLHIIIFDEiDAICKqRGS~~g~TGVhD~VVNQLLsKmDGVeq--LNNI  370 (744)
T KOG0741|consen  293 ILNKYVGESEENVRKLFADAEEEQRRLGANSGLHIIIFDEIDAICKQRGSMAGSTGVHDTVVNQLLSKMDGVEQ--LNNI  370 (744)
T ss_pred             HHHHhhcccHHHHHHHHHhHHHHHHhhCccCCceEEEehhhHHHHHhcCCCCCCCCccHHHHHHHHHhcccHHh--hhcE
Confidence            999999999999999999885431        14999999999998886433  45667789999999999876  4579


Q ss_pred             EEEEecCCCCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCC----CCCCCCCHHHHHHhCCCCcHHHHHHHHHH
Q 016044          229 MVLAATNRPSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGE----KVEENIDFDYLAGLCEGFTGSDLLEVCKQ  302 (396)
Q Consensus       229 ~vI~atn~~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~----~~~~~~~l~~la~~~~g~s~~di~~l~~~  302 (396)
                      +||+-||+++.+|+||+|  ||...+++.+||+..|.+|++.+.+++    .+..++|+++||..|..|||++|+.+++.
T Consensus       371 LVIGMTNR~DlIDEALLRPGRlEVqmEIsLPDE~gRlQIl~IHT~rMre~~~l~~dVdl~elA~lTKNfSGAEleglVks  450 (744)
T KOG0741|consen  371 LVIGMTNRKDLIDEALLRPGRLEVQMEISLPDEKGRLQILKIHTKRMRENNKLSADVDLKELAALTKNFSGAELEGLVKS  450 (744)
T ss_pred             EEEeccCchhhHHHHhcCCCceEEEEEEeCCCccCceEEEEhhhhhhhhcCCCCCCcCHHHHHHHhcCCchhHHHHHHHH
Confidence            999999999999999999  999999999999999999999887643    35689999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcC---CCCCCCCCCCHHHHHHHHHhcccchhhhhh-hhcc--CCCCCccccCCCccHhHHHHHHHH
Q 016044          303 AAYFSIRELLDEERKG---KPAAAPRPLSRLDLEKVLTTSRKTRVAATE-YTLN--SQSSGWSRNNESNDYQVQAAISEL  376 (396)
Q Consensus       303 A~~~a~~~~~~~~~~~---~~~~~~~~i~~~d~~~al~~~~~~~~~~~~-~~~~--~~~~~w~di~~~~~~~~~~~L~ei  376 (396)
                      |...|+.|.++.....   ........|+++||..||..++|..-...+ ....  ..-+-|.+        -...+.+=
T Consensus       451 A~S~A~nR~vk~~~~~~~~~~~~e~lkV~r~DFl~aL~dVkPAFG~see~l~~~~~~Gmi~~g~--------~v~~il~~  522 (744)
T KOG0741|consen  451 AQSFAMNRHVKAGGKVEVDPVAIENLKVTRGDFLNALEDVKPAFGISEEDLERFVMNGMINWGP--------PVTRILDD  522 (744)
T ss_pred             HHHHHHHhhhccCcceecCchhhhheeecHHHHHHHHHhcCcccCCCHHHHHHHHhCCceeecc--------cHHHHHhh
Confidence            9999999998765221   122344679999999999999998522222 2221  22244542        22334444


Q ss_pred             HHHHHHHHhccCCCC
Q 016044          377 SRLVVSQIMNIQSEP  391 (396)
Q Consensus       377 ~~~~~~~~~~~~~~~  391 (396)
                      -.++++++.++-+.|
T Consensus       523 G~llv~qvk~s~~s~  537 (744)
T KOG0741|consen  523 GKLLVQQVKNSERSP  537 (744)
T ss_pred             HHHHHHHhhccccCc
Confidence            556666676665554

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

Probab=99.96  E-value=1.5e-27  Score=234.34  Aligned_cols=277  Identities=21%  Similarity=0.257  Sum_probs=219.5

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEecccccchh
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVRISNLMSKW  163 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~~~l~~~~  163 (396)
                      .|++-....|++..+....|            .-.+.++||+||+|||||.|+++++.+.    .+++..++|+.+....
T Consensus       408 ~d~i~~~s~kke~~n~~~sp------------v~~~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~  475 (952)
T KOG0735|consen  408 HDFIQVPSYKKENANQELSP------------VFRHGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSS  475 (952)
T ss_pred             Cceeecchhhhhhhhhhccc------------ccccccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchh
Confidence            55666667777665533332            1224679999999999999999999976    4677889999999988


Q ss_pred             hchHHHHHHHHHHHHHHhCCcEEEEccccccccCCC--CCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCc
Q 016044          164 FGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRR--TSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELD  241 (396)
Q Consensus       164 ~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~--~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~  241 (396)
                      ....++.+..+|..+.+++|+||++|++|.+.+...  ++........+..++..+-......+..+.+|++.+....++
T Consensus       476 ~e~iQk~l~~vfse~~~~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~  555 (952)
T KOG0735|consen  476 LEKIQKFLNNVFSEALWYAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLN  555 (952)
T ss_pred             HHHHHHHHHHHHHHHHhhCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcC
Confidence            888999999999999999999999999999987332  222333334444555443333334566789999999999999


Q ss_pred             HHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 016044          242 EAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKG  318 (396)
Q Consensus       242 ~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~  318 (396)
                      +.|.+  +|..++.++.|+..+|.+||++.+.+.... ...|++-++..|+||...|+..++++|...++.+.+...   
T Consensus       556 ~~L~s~~~Fq~~~~L~ap~~~~R~~IL~~~~s~~~~~~~~~dLd~ls~~TEGy~~~DL~ifVeRai~~a~leris~~---  632 (952)
T KOG0735|consen  556 PLLVSPLLFQIVIALPAPAVTRRKEILTTIFSKNLSDITMDDLDFLSVKTEGYLATDLVIFVERAIHEAFLERISNG---  632 (952)
T ss_pred             hhhcCccceEEEEecCCcchhHHHHHHHHHHHhhhhhhhhHHHHHHHHhcCCccchhHHHHHHHHHHHHHHHHhccC---
Confidence            98887  788899999999999999999999765533 233566699999999999999999999999995544221   


Q ss_pred             CCCCCCCCCCHHHHHHHHHhcccchhhhhhhhccCCC-CCccccCCCccHhHHHHHHHHHHHHHHHHhccCCCCCCCC
Q 016044          319 KPAAAPRPLSRLDLEKVLTTSRKTRVAATEYTLNSQS-SGWSRNNESNDYQVQAAISELSRLVVSQIMNIQSEPDTQD  395 (396)
Q Consensus       319 ~~~~~~~~i~~~d~~~al~~~~~~~~~~~~~~~~~~~-~~w~di~~~~~~~~~~~L~ei~~~~~~~~~~~~~~~~~~~  395 (396)
                           ..-++.++|.++|+.+-|.  +.+.+....+. .+|+|+||..  ++++.|+|+       ++||.+||.+|.
T Consensus       633 -----~klltke~f~ksL~~F~P~--aLR~ik~~k~tgi~w~digg~~--~~k~~l~~~-------i~~P~kyp~if~  694 (952)
T KOG0735|consen  633 -----PKLLTKELFEKSLKDFVPL--ALRGIKLVKSTGIRWEDIGGLF--EAKKVLEEV-------IEWPSKYPQIFA  694 (952)
T ss_pred             -----cccchHHHHHHHHHhcChH--HhhhccccccCCCCceecccHH--HHHHHHHHH-------HhccccchHHHh
Confidence                 1369999999999999888  67777766444 9999999999  888888888       899999999884

>CHL00181 cbbX CbbX; Provisional

Probab=99.92  E-value=9.1e-24  Score=197.38  Aligned_cols=236  Identities=18%  Similarity=0.214  Sum_probs=166.2

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCC--CCceEEEECCCCCcHHHHHHHHHHHc-------CCcEEEEeccc
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAKAIAKES-------GAVFINVRISN  158 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~--~~~~vLL~GppGtGKT~la~ala~~~-------~~~~~~i~~~~  158 (396)
                      ++++|++++|+++.+++.+ +..+......+...  ++.+++|+||||||||++|+++|..+       ..+++.+++++
T Consensus        23 ~~l~Gl~~vK~~i~e~~~~-~~~~~~~~~~g~~~~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~  101 (287)
T CHL00181         23 EELVGLAPVKTRIREIAAL-LLIDRLRKNLGLTSSNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDD  101 (287)
T ss_pred             HhcCCcHHHHHHHHHHHHH-HHHHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHH
Confidence            4799999999999998876 33444444433222  23458999999999999999998864       23689999999


Q ss_pred             ccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC
Q 016044          159 LMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS  238 (396)
Q Consensus       159 l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~  238 (396)
                      +.+.+.|++......++..+   .++||||||+|.+...+...  .........++..++..    ..+++||++++...
T Consensus       102 l~~~~~g~~~~~~~~~l~~a---~ggVLfIDE~~~l~~~~~~~--~~~~e~~~~L~~~me~~----~~~~~vI~ag~~~~  172 (287)
T CHL00181        102 LVGQYIGHTAPKTKEVLKKA---MGGVLFIDEAYYLYKPDNER--DYGSEAIEILLQVMENQ----RDDLVVIFAGYKDR  172 (287)
T ss_pred             HHHHHhccchHHHHHHHHHc---cCCEEEEEccchhccCCCcc--chHHHHHHHHHHHHhcC----CCCEEEEEeCCcHH
Confidence            99999988777777777665   45899999999986543221  22344555667767642    34578888876422


Q ss_pred             -----CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCC-CCCHHHHHH----h--CCCCc-HHHHHHHHHHHHH
Q 016044          239 -----ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE-NIDFDYLAG----L--CEGFT-GSDLLEVCKQAAY  305 (396)
Q Consensus       239 -----~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~-~~~l~~la~----~--~~g~s-~~di~~l~~~A~~  305 (396)
                           .++|++++||+..+.|++++.+++.+|++.++.+....- +-....+..    .  ...|. +++++++++.|..
T Consensus       173 ~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~~~~~~l~~~~~~~L~~~i~~~~~~~~~GNaR~vrn~ve~~~~  252 (287)
T CHL00181        173 MDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIMLEEQQYQLTPEAEKALLDYIKKRMEQPLFANARSVRNALDRARM  252 (287)
T ss_pred             HHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHHHHhcCCCChhHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHHH
Confidence                 346999999999999999999999999999997654331 111222222    2  23455 7899999999999


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCCCHHHHH
Q 016044          306 FSIRELLDEERKGKPAAAPRPLSRLDLE  333 (396)
Q Consensus       306 ~a~~~~~~~~~~~~~~~~~~~i~~~d~~  333 (396)
                      ....|+...............++.+|+.
T Consensus       253 ~~~~r~~~~~~~~~~~~~l~~~~~~d~~  280 (287)
T CHL00181        253 RQANRIFESGGRVLTKADLVTIEAEDIL  280 (287)
T ss_pred             HHHHHHHcCCCCCCCHHHHhCCCHHHHh
Confidence            9888887653322222334456666654

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=99.90  E-value=1e-22  Score=190.43  Aligned_cols=236  Identities=17%  Similarity=0.209  Sum_probs=165.9

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCC--CCCceEEEECCCCCcHHHHHHHHHHHcC-------CcEEEEecccc
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLL--GPQKGVLLYGPPGTGKTMLAKAIAKESG-------AVFINVRISNL  159 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~--~~~~~vLL~GppGtGKT~la~ala~~~~-------~~~~~i~~~~l  159 (396)
                      +++|++++|+++.+++.+ +..++.+...+..  .+..+++|+||||||||++|++++..+.       .+++.++++++
T Consensus        23 ~l~Gl~~vk~~i~e~~~~-~~~~~~r~~~g~~~~~~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l  101 (284)
T TIGR02880        23 ELIGLKPVKTRIREIAAL-LLVERLRQRLGLASAAPTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDL  101 (284)
T ss_pred             hccCHHHHHHHHHHHHHH-HHHHHHHHHhCCCcCCCCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHH
Confidence            689999999999998887 4455555443322  2445899999999999999999988652       37999999999


Q ss_pred             cchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC--
Q 016044          160 MSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP--  237 (396)
Q Consensus       160 ~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~--  237 (396)
                      .+.+.|++...+..+|..+   .+++|||||++.+.+.+...  .........++..++..    ..++++|++++..  
T Consensus       102 ~~~~~g~~~~~~~~~~~~a---~~gvL~iDEi~~L~~~~~~~--~~~~~~~~~Ll~~le~~----~~~~~vI~a~~~~~~  172 (284)
T TIGR02880       102 VGQYIGHTAPKTKEILKRA---MGGVLFIDEAYYLYRPDNER--DYGQEAIEILLQVMENQ----RDDLVVILAGYKDRM  172 (284)
T ss_pred             hHhhcccchHHHHHHHHHc---cCcEEEEechhhhccCCCcc--chHHHHHHHHHHHHhcC----CCCEEEEEeCCcHHH
Confidence            8888888877777777765   45899999999986443221  22234455667767642    3567888887643  


Q ss_pred             C---CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCC-CCHHHHHHhC------CCC-cHHHHHHHHHHHHHH
Q 016044          238 S---ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEEN-IDFDYLAGLC------EGF-TGSDLLEVCKQAAYF  306 (396)
Q Consensus       238 ~---~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~-~~l~~la~~~------~g~-s~~di~~l~~~A~~~  306 (396)
                      +   .+++++.+||+..+.||+++.+++..|++.+++.....-+ -....+....      +.+ ++++++++++.+...
T Consensus       173 ~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~~~~~~l~~~a~~~L~~~l~~~~~~~~~GN~R~lrn~ve~~~~~  252 (284)
T TIGR02880       173 DSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLKEQQYRFSAEAEEAFADYIALRRTQPHFANARSIRNAIDRARLR  252 (284)
T ss_pred             HHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHHHhccccCHHHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHHH
Confidence            2   2489999999999999999999999999999987543311 1123333321      222 467999999999988


Q ss_pred             HHHHHHHHHhcCCCCCCCCCCCHHHHHH
Q 016044          307 SIRELLDEERKGKPAAAPRPLSRLDLEK  334 (396)
Q Consensus       307 a~~~~~~~~~~~~~~~~~~~i~~~d~~~  334 (396)
                      ...|+...............|+.+|+..
T Consensus       253 ~~~r~~~~~~~~~~~~~~~~~~~~d~~~  280 (284)
T TIGR02880       253 QANRLFCDLDRVLDKSDLETIDPEDLLA  280 (284)
T ss_pred             HHHHHhcCcCCCCCHHHHhCCCHHHHhh
Confidence            8888765432221222335566666543

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

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=99.90  E-value=1.5e-22  Score=187.82  Aligned_cols=219  Identities=17%  Similarity=0.194  Sum_probs=156.6

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCC-CCCCceEEEECCCCCcHHHHHHHHHHHc-------CCcEEEEecc
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKL-LGPQKGVLLYGPPGTGKTMLAKAIAKES-------GAVFINVRIS  157 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~-~~~~~~vLL~GppGtGKT~la~ala~~~-------~~~~~~i~~~  157 (396)
                      .+++++|++++|+.+++++.++.........+.. .....+++|+||||||||++|+++|+.+       ..+++.++++
T Consensus         4 ~l~~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~   83 (261)
T TIGR02881         4 ELSRMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERA   83 (261)
T ss_pred             HHHHhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHH
Confidence            4678999999999999998886555444433321 2234679999999999999999999864       2478899999


Q ss_pred             cccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       158 ~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      ++.+.+.|+....+..+|..+.   ++||||||+|.|......   ......+..++..++..    ..++++|+++...
T Consensus        84 ~l~~~~~g~~~~~~~~~~~~a~---~~VL~IDE~~~L~~~~~~---~~~~~~i~~Ll~~~e~~----~~~~~vila~~~~  153 (261)
T TIGR02881        84 DLVGEYIGHTAQKTREVIKKAL---GGVLFIDEAYSLARGGEK---DFGKEAIDTLVKGMEDN----RNEFVLILAGYSD  153 (261)
T ss_pred             HhhhhhccchHHHHHHHHHhcc---CCEEEEechhhhccCCcc---chHHHHHHHHHHHHhcc----CCCEEEEecCCcc
Confidence            9999999999888888887663   589999999998642211   11233445666666543    3456666665432


Q ss_pred             C-----CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhC-------C--CCcHHHHHHHHHH
Q 016044          238 S-----ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLC-------E--GFTGSDLLEVCKQ  302 (396)
Q Consensus       238 ~-----~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~-------~--g~s~~di~~l~~~  302 (396)
                      +     .+++++++||+..+.|+.++.+++.+|++.++...... ++-.+..++...       .  .-+++.++++++.
T Consensus       154 ~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~~~~gn~R~~~n~~e~  233 (261)
T TIGR02881       154 EMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVKEREYKLTEEAKWKLREHLYKVDQLSSREFSNARYVRNIIEK  233 (261)
T ss_pred             hhHHHHhcChHHHhccceEEEECCCCHHHHHHHHHHHHHHcCCccCHHHHHHHHHHHHHHHhccCCCCchHHHHHHHHHH
Confidence            2     36789999998899999999999999999999765433 111233443221       1  2356788899988


Q ss_pred             HHHHHHHHHHHH
Q 016044          303 AAYFSIRELLDE  314 (396)
Q Consensus       303 A~~~a~~~~~~~  314 (396)
                      |......+++..
T Consensus       234 a~~~~~~r~~~~  245 (261)
T TIGR02881       234 AIRRQAVRLLDK  245 (261)
T ss_pred             HHHHHHHHHhcc
Confidence            888777776543

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

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

Probab=99.90  E-value=4e-22  Score=201.47  Aligned_cols=262  Identities=31%  Similarity=0.476  Sum_probs=229.7

Q ss_pred             cccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEE
Q 016044          107 PLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAII  186 (396)
Q Consensus       107 ~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl  186 (396)
                      |+.+++.+.... ..++++++++||||+|||+++++++.+ +..+..++.+...+++.++++......|..+....|+++
T Consensus         3 ~~~~~~~~~~~~-~~~~~~v~~~g~~~~~~t~~~~~~a~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ii   80 (494)
T COG0464           3 PLKEPELFKKLG-IEPPKGVLLHGPPGTGKTLLARALANE-GAEFLSINGPEILSKYVGESELRLRELFEEAEKLAPSII   80 (494)
T ss_pred             CccCHHHHHHhC-CCCCCCceeeCCCCCchhHHHHHHHhc-cCcccccCcchhhhhhhhHHHHHHHHHHHHHHHhCCCeE
Confidence            456677777654 778899999999999999999999999 777788999999999999999999999999999999999


Q ss_pred             EEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHh--ccCCceEeCCCCHHHHHH
Q 016044          187 FIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDRKERAQ  264 (396)
Q Consensus       187 ~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~--R~~~~i~~~~P~~~er~~  264 (396)
                      ++||+|.+.+.+.........++..+++..++++.  ... +++++.+|++..+++++++  ||+..+.++.|+...+.+
T Consensus        81 ~~d~~~~~~~~~~~~~~~~~~~v~~~l~~~~d~~~--~~~-v~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~e  157 (494)
T COG0464          81 FIDEIDALAPKRSSDQGEVERRVVAQLLALMDGLK--RGQ-VIVIGATNRPDGLDPAKRRPGRFDREIEVNLPDEAGRLE  157 (494)
T ss_pred             eechhhhcccCccccccchhhHHHHHHHHhccccc--CCc-eEEEeecCCccccChhHhCccccceeeecCCCCHHHHHH
Confidence            99999999998877566677788899999999988  345 8899999999999999998  999999999999999999


Q ss_pred             HHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhcccchh
Q 016044          265 ILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKTRV  344 (396)
Q Consensus       265 il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~~~~~  344 (396)
                      ++...........+.+...++..+.|++++++..+|.++...++++..      ........++.+|+.++++.+.++  
T Consensus       158 i~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~r~~------~~~~~~~~~~~~~~~~~l~~~~~~--  229 (494)
T COG0464         158 ILQIHTRLMFLGPPGTGKTLAARTVGKSGADLGALAKEAALRELRRAI------DLVGEYIGVTEDDFEEALKKVLPS--  229 (494)
T ss_pred             HHHHHHhcCCCcccccHHHHHHhcCCccHHHHHHHHHHHHHHHHHhhh------ccCcccccccHHHHHHHHHhcCcc--
Confidence            999999888887788999999999999999999999999999998864      112233668999999999999886  


Q ss_pred             hhhhhhccCCCCCccccCCCccHhHHHHHHHHHHHHHHHHh
Q 016044          345 AATEYTLNSQSSGWSRNNESNDYQVQAAISELSRLVVSQIM  385 (396)
Q Consensus       345 ~~~~~~~~~~~~~w~di~~~~~~~~~~~L~ei~~~~~~~~~  385 (396)
                        .......+.++|+|+||++  +++..+.|++.++..+.+
T Consensus       230 --~~~~~~~~~v~~~diggl~--~~k~~l~e~v~~~~~~~e  266 (494)
T COG0464         230 --RGVLFEDEDVTLDDIGGLE--EAKEELKEAIETPLKRPE  266 (494)
T ss_pred             --cccccCCCCcceehhhcHH--HHHHHHHHHHHhHhhChH
Confidence              4556678999999999998  899999999666666555

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

Probab=99.89  E-value=8.8e-23  Score=184.82  Aligned_cols=237  Identities=26%  Similarity=0.340  Sum_probs=175.3

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC---------CcEEEEec
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG---------AVFINVRI  156 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~---------~~~~~i~~  156 (396)
                      -|+.++--..+|+++..++...+...+.-....++...+-+||+||||||||+|++++|+.+.         ...+++++
T Consensus       140 lWEsLiyds~lK~~ll~Ya~s~l~fsek~vntnlIt~NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEins  219 (423)
T KOG0744|consen  140 LWESLIYDSNLKERLLSYAASALLFSEKKVNTNLITWNRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINS  219 (423)
T ss_pred             hHHHHhhcccHHHHHHHHHHHHHHHHhcCCCCceeeeeeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEeh
Confidence            466677777889999888776655444433445566778899999999999999999999763         45789999


Q ss_pred             ccccchhhchHHHHHHHHHHHHHHh---CCc--EEEEccccccccCCC----CCchHHHHhhHHHHHHHhhccCcCCCCc
Q 016044          157 SNLMSKWFGDAQKLVAAVFSLAYKL---QPA--IIFIDEVDSFLGQRR----TSDHEALTNMKTEFMALWDGFTTDQNAR  227 (396)
Q Consensus       157 ~~l~~~~~g~~~~~~~~~f~~a~~~---~p~--vl~iDEid~l~~~~~----~~~~~~~~~~~~~ll~~l~~~~~~~~~~  227 (396)
                      ..++++|++++.+.+..+|+.....   ..+  .++|||++++...|.    .++....-|+.+.++.++|.+..  ..+
T Consensus       220 hsLFSKWFsESgKlV~kmF~kI~ELv~d~~~lVfvLIDEVESLa~aR~s~~S~~EpsDaIRvVNalLTQlDrlK~--~~N  297 (423)
T KOG0744|consen  220 HSLFSKWFSESGKLVAKMFQKIQELVEDRGNLVFVLIDEVESLAAARTSASSRNEPSDAIRVVNALLTQLDRLKR--YPN  297 (423)
T ss_pred             hHHHHHHHhhhhhHHHHHHHHHHHHHhCCCcEEEEEeHHHHHHHHHHHhhhcCCCCchHHHHHHHHHHHHHHhcc--CCC
Confidence            9999999999999999999987654   222  556999999976552    23333456789999999999876  567


Q ss_pred             EEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCC-----CCCC-------------CCHHHHHHh-C
Q 016044          228 VMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEK-----VEEN-------------IDFDYLAGL-C  288 (396)
Q Consensus       228 v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~-----~~~~-------------~~l~~la~~-~  288 (396)
                      |++++|+|-.+.+|.|+.+|-|.+.++++|+...|.+|++.++....     ....             .....+... +
T Consensus       298 vliL~TSNl~~siD~AfVDRADi~~yVG~Pt~~ai~~IlkscieEL~~~gIi~~~~~s~~~~~~i~~~~~~~~~~~~~~~  377 (423)
T KOG0744|consen  298 VLILATSNLTDSIDVAFVDRADIVFYVGPPTAEAIYEILKSCIEELISSGIILFHQRSTGVKEFIKYQKALRNILIELST  377 (423)
T ss_pred             EEEEeccchHHHHHHHhhhHhhheeecCCccHHHHHHHHHHHHHHHHhcCeeeeeccchhhhHHhHhhHhHHHHHHHHhh
Confidence            99999999999999999999999999999999999999998774211     1100             111222333 3


Q ss_pred             CCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHh
Q 016044          289 EGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTT  338 (396)
Q Consensus       289 ~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~  338 (396)
                      .|.||+-|+.|=--|    ..+.          ....+++.++|..|+..
T Consensus       378 ~gLSGRtlrkLP~La----ha~y----------~~~~~v~~~~fl~al~e  413 (423)
T KOG0744|consen  378 VGLSGRTLRKLPLLA----HAEY----------FRTFTVDLSNFLLALLE  413 (423)
T ss_pred             cCCccchHhhhhHHH----HHhc----------cCCCccChHHHHHHHHH
Confidence            678887777653222    1111          22367899999888754

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

Probab=99.88  E-value=9.8e-22  Score=182.91  Aligned_cols=208  Identities=27%  Similarity=0.457  Sum_probs=156.7

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchh
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKW  163 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~  163 (396)
                      ...|++++-...+.+.|+++....- +...     ...|-++||||||||||||++|+-+|...|..|-.+.+.++.-. 
T Consensus       351 k~pl~~ViL~psLe~Rie~lA~aTa-NTK~-----h~apfRNilfyGPPGTGKTm~ArelAr~SGlDYA~mTGGDVAPl-  423 (630)
T KOG0742|consen  351 KDPLEGVILHPSLEKRIEDLAIATA-NTKK-----HQAPFRNILFYGPPGTGKTMFARELARHSGLDYAIMTGGDVAPL-  423 (630)
T ss_pred             CCCcCCeecCHHHHHHHHHHHHHhc-cccc-----ccchhhheeeeCCCCCCchHHHHHHHhhcCCceehhcCCCcccc-
Confidence            4568899999999999988776421 1111     13456899999999999999999999999999988877765332 


Q ss_pred             hchHHHHHHHHHHHHHHhCC-cEEEEccccccccCCCCC-chHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCc
Q 016044          164 FGDAQKLVAAVFSLAYKLQP-AIIFIDEVDSFLGQRRTS-DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELD  241 (396)
Q Consensus       164 ~g~~~~~~~~~f~~a~~~~p-~vl~iDEid~l~~~~~~~-~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~  241 (396)
                      -.+.-..+..+|+-+.+... -+|||||.|.++..+... ..+..+..++.|+-- .|   +...+++++.+||+|+++|
T Consensus       424 G~qaVTkiH~lFDWakkS~rGLllFIDEADAFLceRnktymSEaqRsaLNAlLfR-TG---dqSrdivLvlAtNrpgdlD  499 (630)
T KOG0742|consen  424 GAQAVTKIHKLFDWAKKSRRGLLLFIDEADAFLCERNKTYMSEAQRSALNALLFR-TG---DQSRDIVLVLATNRPGDLD  499 (630)
T ss_pred             chHHHHHHHHHHHHHhhcccceEEEehhhHHHHHHhchhhhcHHHHHHHHHHHHH-hc---ccccceEEEeccCCccchh
Confidence            12334567889999987654 478899999998777543 344444455554432 12   2356799999999999999


Q ss_pred             HHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCC-----------------------CCC----HHHHHHhCCCCcHH
Q 016044          242 EAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE-----------------------NID----FDYLAGLCEGFTGS  294 (396)
Q Consensus       242 ~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~-----------------------~~~----l~~la~~~~g~s~~  294 (396)
                      .++-+|++..++||+|..+||..+|..++.++....                       +.+    +.+.|+.|+||||+
T Consensus       500 sAV~DRide~veFpLPGeEERfkll~lYlnkyi~~~~~~~~~~~~~~lfkk~sQ~i~l~~~~t~~~~~EaAkkTeGfSGR  579 (630)
T KOG0742|consen  500 SAVNDRIDEVVEFPLPGEEERFKLLNLYLNKYILKPATSGKPGKWSHLFKKESQRIKLAGFDTGRKCSEAAKKTEGFSGR  579 (630)
T ss_pred             HHHHhhhhheeecCCCChHHHHHHHHHHHHHHhcCcCCCCCCchhhHHHhhhhheeeeccchHHHHHHHHHHhccCCcHH
Confidence            999999999999999999999999999886433210                       111    46678999999999


Q ss_pred             HHHHHHHH
Q 016044          295 DLLEVCKQ  302 (396)
Q Consensus       295 di~~l~~~  302 (396)
                      +|..|+..
T Consensus       580 EiakLva~  587 (630)
T KOG0742|consen  580 EIAKLVAS  587 (630)
T ss_pred             HHHHHHHH
Confidence            99998743

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=99.87  E-value=1.8e-21  Score=161.24  Aligned_cols=130  Identities=36%  Similarity=0.627  Sum_probs=115.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHHHhC-CcEEEEccccccccCCCCCchH
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQ-PAIIFIDEVDSFLGQRRTSDHE  204 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~-p~vl~iDEid~l~~~~~~~~~~  204 (396)
                      |||+||||||||++|+.+|+.++.+++.++++.+.+.+.+...+.+..+|..+.... |+||||||+|.+..........
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~vl~iDe~d~l~~~~~~~~~~   80 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSAKPCVLFIDEIDKLFPKSQPSSSS   80 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTSTSEEEEEETGGGTSHHCSTSSSH
T ss_pred             CEEECcCCCCeeHHHHHHHhhcccccccccccccccccccccccccccccccccccccceeeeeccchhccccccccccc
Confidence            689999999999999999999999999999999998889999999999999998887 9999999999998887445555


Q ss_pred             HHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHH-hccCCceEeCC
Q 016044          205 ALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAIL-RRLPQAFEIGM  256 (396)
Q Consensus       205 ~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~-~R~~~~i~~~~  256 (396)
                      ........++..++..... ..++++|++||.++.++++++ +||+..+++|.
T Consensus        81 ~~~~~~~~L~~~l~~~~~~-~~~~~vI~ttn~~~~i~~~l~~~rf~~~i~~~~  132 (132)
T PF00004_consen   81 FEQRLLNQLLSLLDNPSSK-NSRVIVIATTNSPDKIDPALLRSRFDRRIEFPL  132 (132)
T ss_dssp             HHHHHHHHHHHHHHTTTTT-SSSEEEEEEESSGGGSCHHHHSTTSEEEEEE-S
T ss_pred             ccccccceeeecccccccc-cccceeEEeeCChhhCCHhHHhCCCcEEEEcCC
Confidence            6667778888888877643 467999999999999999999 99999998873

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

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

Probab=99.85  E-value=3.6e-20  Score=176.08  Aligned_cols=222  Identities=19%  Similarity=0.292  Sum_probs=168.2

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      ++| .+|+.++--.+.|+.|.+-+..+++..+-|.+-+ ..+.+|.|||||||||||+++.|+|+.++..++.++.++..
T Consensus       195 ~Hp-stF~TlaMd~~~K~~I~~Dl~~F~k~k~~YkrvG-kawKRGYLLYGPPGTGKSS~IaAmAn~L~ydIydLeLt~v~  272 (457)
T KOG0743|consen  195 PHP-STFETLAMDPDLKERIIDDLDDFIKGKDFYKRVG-KAWKRGYLLYGPPGTGKSSFIAAMANYLNYDIYDLELTEVK  272 (457)
T ss_pred             CCC-CCccccccChhHHHHHHHHHHHHHhcchHHHhcC-cchhccceeeCCCCCCHHHHHHHHHhhcCCceEEeeecccc
Confidence            344 8999999999999999999999999999998854 67789999999999999999999999999999988877654


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCC--CC----chH-HHHhhHHHHHHHhhccCcCCCCcEEEEEe
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRR--TS----DHE-ALTNMKTEFMALWDGFTTDQNARVMVLAA  233 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~--~~----~~~-~~~~~~~~ll~~l~~~~~~~~~~v~vI~a  233 (396)
                      ..    .+  ++.++....  ..+||+|.|||+-+..+.  ..    ... ...-.+..|++.+||+.+....--++|+|
T Consensus       273 ~n----~d--Lr~LL~~t~--~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFT  344 (457)
T KOG0743|consen  273 LD----SD--LRHLLLATP--NKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFT  344 (457)
T ss_pred             Cc----HH--HHHHHHhCC--CCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEe
Confidence            32    22  455444332  348999999999643221  11    110 11123567999999999877777889999


Q ss_pred             cCCCCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCC--CcHHHHHHH-HHH--HHHH
Q 016044          234 TNRPSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEG--FTGSDLLEV-CKQ--AAYF  306 (396)
Q Consensus       234 tn~~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g--~s~~di~~l-~~~--A~~~  306 (396)
                      ||.++.|||||+|  |+|..|+++..+...-+.+++.++....  +..-..++.+..++  .||+|+... ...  .+..
T Consensus       345 TNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~~~~--~h~L~~eie~l~~~~~~tPA~V~e~lm~~~~dad~  422 (457)
T KOG0743|consen  345 TNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLGIEE--DHRLFDEIERLIEETEVTPAQVAEELMKNKNDADV  422 (457)
T ss_pred             cCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhcCCCC--CcchhHHHHHHhhcCccCHHHHHHHHhhccccHHH
Confidence            9999999999999  9999999999999999999999997533  12224445444443  599998753 222  4556


Q ss_pred             HHHHHHHH
Q 016044          307 SIRELLDE  314 (396)
Q Consensus       307 a~~~~~~~  314 (396)
                      +++++++.
T Consensus       423 ~lk~Lv~~  430 (457)
T KOG0743|consen  423 ALKGLVEA  430 (457)
T ss_pred             HHHHHHHH
Confidence            66666543

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=99.85  E-value=5.4e-21  Score=167.92  Aligned_cols=190  Identities=23%  Similarity=0.303  Sum_probs=119.9

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchh
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKW  163 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~  163 (396)
                      +.+|+|++|+++++..+.-++.....+         -.+..+++||||||+||||+|+.+|++++.+|...+++.+... 
T Consensus        20 P~~L~efiGQ~~l~~~l~i~i~aa~~r---------~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~~~sg~~i~k~-   89 (233)
T PF05496_consen   20 PKSLDEFIGQEHLKGNLKILIRAAKKR---------GEALDHMLFYGPPGLGKTTLARIIANELGVNFKITSGPAIEKA-   89 (233)
T ss_dssp             -SSCCCS-S-HHHHHHHHHHHHHHHCT---------TS---EEEEESSTTSSHHHHHHHHHHHCT--EEEEECCC--SC-
T ss_pred             CCCHHHccCcHHHHhhhHHHHHHHHhc---------CCCcceEEEECCCccchhHHHHHHHhccCCCeEeccchhhhhH-
Confidence            568999999999999987665432111         1124679999999999999999999999999998887654221 


Q ss_pred             hchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCc-----C---------CCCcEE
Q 016044          164 FGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTT-----D---------QNARVM  229 (396)
Q Consensus       164 ~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~-----~---------~~~~v~  229 (396)
                       ++    +..++...  ....||||||||++....+           ..|+..|+....     .         +-.++.
T Consensus        90 -~d----l~~il~~l--~~~~ILFIDEIHRlnk~~q-----------e~LlpamEd~~idiiiG~g~~ar~~~~~l~~FT  151 (233)
T PF05496_consen   90 -GD----LAAILTNL--KEGDILFIDEIHRLNKAQQ-----------EILLPAMEDGKIDIIIGKGPNARSIRINLPPFT  151 (233)
T ss_dssp             -HH----HHHHHHT----TT-EEEECTCCC--HHHH-----------HHHHHHHHCSEEEEEBSSSSS-BEEEEE----E
T ss_pred             -HH----HHHHHHhc--CCCcEEEEechhhccHHHH-----------HHHHHHhccCeEEEEeccccccceeeccCCCce
Confidence             11    22222222  2457999999999833221           133444432211     0         013688


Q ss_pred             EEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHH
Q 016044          230 VLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQ  302 (396)
Q Consensus       230 vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~  302 (396)
                      +|+||++...+..++++||.....+..++.++..+|++.......+. .+....++|..+.| +|+--..+++.
T Consensus       152 ligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i~i~~~~~~~Ia~rsrG-tPRiAnrll~r  224 (233)
T PF05496_consen  152 LIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNIEIDEDAAEEIARRSRG-TPRIANRLLRR  224 (233)
T ss_dssp             EEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT-EE-HHHHHHHHHCTTT-SHHHHHHHHHH
T ss_pred             EeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHhcCC-ChHHHHHHHHH
Confidence            99999999999999999998778999999999999999888766655 23336789999998 66655555443

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=99.82  E-value=2e-19  Score=181.86  Aligned_cols=269  Identities=19%  Similarity=0.275  Sum_probs=166.3

Q ss_pred             HHHHHHHHHHHHHHhhcccCCChHHHHHHHHhHHHHhHHhCCCCCCCCccchhhhccccCCCCCCcccccccChHHHHHH
Q 016044           20 YAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIKQA   99 (396)
Q Consensus        20 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~G~~~~k~~   99 (396)
                      ..+..+....++|+.++....++-..++...++-+..+++..-.+ ..++.+         ...+.+|++++|++..++.
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~---------~~rp~~f~~iiGqs~~i~~   76 (531)
T TIGR02902         7 QIIFLIIIGLYFFNALKNQQTNKITIDKESKKELEKLNKMRAIRL-TEPLSE---------KTRPKSFDEIIGQEEGIKA   76 (531)
T ss_pred             HHHHHHHHHHHHHHHHHhhcCCeeeeehhhhHHHHHHHHhhhhhh-cchHHH---------hhCcCCHHHeeCcHHHHHH
Confidence            334445556667777777666554444444444334444321111 111222         2345789999999999999


Q ss_pred             HHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEEEecccc-------cch
Q 016044          100 LYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFINVRISNL-------MSK  162 (396)
Q Consensus       100 l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~i~~~~l-------~~~  162 (396)
                      ++..+.              ...+.++||+||||||||++|+++++.+          +.+|+.++|...       ...
T Consensus        77 l~~al~--------------~~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~s~~~~~~~fi~id~~~~~~~~~~~~~~  142 (531)
T TIGR02902        77 LKAALC--------------GPNPQHVIIYGPPGVGKTAAARLVLEEAKKNPASPFKEGAAFVEIDATTARFDERGIADP  142 (531)
T ss_pred             HHHHHh--------------CCCCceEEEECCCCCCHHHHHHHHHHHhhhccCCCcCCCCCEEEEccccccCCccccchh
Confidence            875432              1225789999999999999999998642          368999998642       111


Q ss_pred             hhchHHH-HHH--HHH----------HHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc---------
Q 016044          163 WFGDAQK-LVA--AVF----------SLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF---------  220 (396)
Q Consensus       163 ~~g~~~~-~~~--~~f----------~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~---------  220 (396)
                      .++.... ...  ..|          ........++|||||++.|....+    .       .++..++..         
T Consensus       143 li~~~~~p~~~~~~~~g~~g~~~~~~G~l~~a~gG~L~IdEI~~L~~~~q----~-------~LL~~Le~~~~~~~~~~~  211 (531)
T TIGR02902       143 LIGSVHDPIYQGAGPLGIAGIPQPKPGAVTRAHGGVLFIDEIGELHPVQM----N-------KLLKVLEDRKVFLDSAYY  211 (531)
T ss_pred             hcCCcccchhccccccccCCcccccCchhhccCCcEEEEechhhCCHHHH----H-------HHHHHHHhCeeeeccccc
Confidence            1111000 000  000          011223458999999999843321    1       222222110         


Q ss_pred             ---------------CcCCCCcEEEEE-ecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHH
Q 016044          221 ---------------TTDQNARVMVLA-ATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDY  283 (396)
Q Consensus       221 ---------------~~~~~~~v~vI~-atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~  283 (396)
                                     ....+.++.+|+ |++.++.+++++++|| ..+.|++++.+++.++++..+++.... ++..++.
T Consensus       212 ~~~~~~~~~~~~~~~~~~~~~d~rlI~ATt~~p~~L~paLrsR~-~~I~f~pL~~eei~~Il~~~a~k~~i~is~~al~~  290 (531)
T TIGR02902       212 NSENPNIPSHIHDIFQNGLPADFRLIGATTRNPEEIPPALRSRC-VEIFFRPLLDEEIKEIAKNAAEKIGINLEKHALEL  290 (531)
T ss_pred             cccCcccccchhhhcccCcccceEEEEEecCCcccCChHHhhhh-heeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHH
Confidence                           001123455555 4567999999999999 788999999999999999999876543 2222555


Q ss_pred             HHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHh
Q 016044          284 LAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTT  338 (396)
Q Consensus       284 la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~  338 (396)
                      ++..+  ++++++.++++.|+..+..+.            ...|+.+|++.++..
T Consensus       291 I~~y~--~n~Rel~nll~~Aa~~A~~~~------------~~~It~~dI~~vl~~  331 (531)
T TIGR02902       291 IVKYA--SNGREAVNIVQLAAGIALGEG------------RKRILAEDIEWVAEN  331 (531)
T ss_pred             HHHhh--hhHHHHHHHHHHHHHHHhhCC------------CcEEcHHHHHHHhCC
Confidence            66554  378999999999887665431            146999999999863

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

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

Probab=99.82  E-value=2.5e-19  Score=188.22  Aligned_cols=224  Identities=23%  Similarity=0.309  Sum_probs=156.8

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEE
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFIN  153 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~  153 (396)
                      +-.+++++|.++....+.+.+..              +...+++|+||||||||++|+++|..+          +..++.
T Consensus       178 ~~~l~~~igr~~ei~~~~~~L~~--------------~~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~  243 (731)
T TIGR02639       178 NGKIDPLIGREDELERTIQVLCR--------------RKKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYS  243 (731)
T ss_pred             cCCCCcccCcHHHHHHHHHHHhc--------------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEE
Confidence            35788999999998887655431              124689999999999999999999986          778999


Q ss_pred             Eeccccc--chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCch-HHHHhhHHHHHHHhhccCcCCCCcEEE
Q 016044          154 VRISNLM--SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH-EALTNMKTEFMALWDGFTTDQNARVMV  230 (396)
Q Consensus       154 i~~~~l~--~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~-~~~~~~~~~ll~~l~~~~~~~~~~v~v  230 (396)
                      ++++.+.  .++.|+.+..++.+|..+....++||||||+|.+.+....... .....   .+...+.      ++.+.+
T Consensus       244 ~~~~~l~a~~~~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~---~L~~~l~------~g~i~~  314 (731)
T TIGR02639       244 LDMGSLLAGTKYRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASN---LLKPALS------SGKLRC  314 (731)
T ss_pred             ecHHHHhhhccccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHH---HHHHHHh------CCCeEE
Confidence            9988887  4788999999999999988777899999999999866432211 11111   2222222      467899


Q ss_pred             EEecCCC-----CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-----CCCCHHHHHHhCCCCcHH-----H
Q 016044          231 LAATNRP-----SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-----ENIDFDYLAGLCEGFTGS-----D  295 (396)
Q Consensus       231 I~atn~~-----~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-----~~~~l~~la~~~~g~s~~-----d  295 (396)
                      |++||..     ...|+++.||| ..+.++.|+.+++.+|++.....+...     .+-.+..++..+..|-+.     -
T Consensus       315 IgaTt~~e~~~~~~~d~al~rRf-~~i~v~~p~~~~~~~il~~~~~~~e~~~~v~i~~~al~~~~~ls~ryi~~r~~P~k  393 (731)
T TIGR02639       315 IGSTTYEEYKNHFEKDRALSRRF-QKIDVGEPSIEETVKILKGLKEKYEEFHHVKYSDEALEAAVELSARYINDRFLPDK  393 (731)
T ss_pred             EEecCHHHHHHHhhhhHHHHHhC-ceEEeCCCCHHHHHHHHHHHHHHHHhccCcccCHHHHHHHHHhhhcccccccCCHH
Confidence            9999963     35799999999 589999999999999999776542211     222355566666655433     1


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          296 LLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       296 i~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                      --.++++|+....-+        ........|+.+|+..++...
T Consensus       394 ai~lld~a~a~~~~~--------~~~~~~~~v~~~~i~~~i~~~  429 (731)
T TIGR02639       394 AIDVIDEAGASFRLR--------PKAKKKANVSVKDIENVVAKM  429 (731)
T ss_pred             HHHHHHHhhhhhhcC--------cccccccccCHHHHHHHHHHH
Confidence            233444443211100        000123569999999999875

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

Probab=99.82  E-value=1e-18  Score=163.52  Aligned_cols=168  Identities=28%  Similarity=0.446  Sum_probs=122.9

Q ss_pred             CcccccccChHHHHH---HHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           84 DVEFESIGGLETIKQ---ALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~---~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.++++++|++.+.-   -|++.+.          .+    ...+++|||||||||||+|+.||...+.+|..++.... 
T Consensus        20 P~~lde~vGQ~HLlg~~~~lrr~v~----------~~----~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~~-   84 (436)
T COG2256          20 PKSLDEVVGQEHLLGEGKPLRRAVE----------AG----HLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVTS-   84 (436)
T ss_pred             CCCHHHhcChHhhhCCCchHHHHHh----------cC----CCceeEEECCCCCCHHHHHHHHHHhhCCceEEeccccc-
Confidence            568999999998863   3444443          12    24779999999999999999999999999999986443 


Q ss_pred             chhhchHHHHHHHHHHHHHHhC----CcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEec--
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQ----PAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAAT--  234 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~----p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~at--  234 (396)
                            +-+-++.+++.++...    ..|||+||||++....+.           .|+-.++      ++.+++||+|  
T Consensus        85 ------gvkdlr~i~e~a~~~~~~gr~tiLflDEIHRfnK~QQD-----------~lLp~vE------~G~iilIGATTE  141 (436)
T COG2256          85 ------GVKDLREIIEEARKNRLLGRRTILFLDEIHRFNKAQQD-----------ALLPHVE------NGTIILIGATTE  141 (436)
T ss_pred             ------cHHHHHHHHHHHHHHHhcCCceEEEEehhhhcChhhhh-----------hhhhhhc------CCeEEEEeccCC
Confidence                  3455777888775432    479999999998544332           3333333      5678888877  


Q ss_pred             CCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhc--CCCCC------CCCCHHHHHHhCCC
Q 016044          235 NRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILK--GEKVE------ENIDFDYLAGLCEG  290 (396)
Q Consensus       235 n~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~--~~~~~------~~~~l~~la~~~~g  290 (396)
                      |+...+.+++++|+ .++.+.+.+.++..++++..+.  ...+.      ++-..+.++..+.|
T Consensus       142 NPsF~ln~ALlSR~-~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~G  204 (436)
T COG2256         142 NPSFELNPALLSRA-RVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNG  204 (436)
T ss_pred             CCCeeecHHHhhhh-heeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCc
Confidence            55668999999999 9999999999999999998442  22222      11225566776665

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.81  E-value=8.6e-19  Score=166.55  Aligned_cols=220  Identities=23%  Similarity=0.212  Sum_probs=143.4

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhc
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFG  165 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g  165 (396)
                      +|++++|++++++.|..++......         ...+.+++|+||||||||++|+++|++++..+....++.....  +
T Consensus         2 ~~~~~iG~~~~~~~l~~~l~~~~~~---------~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~~~~~~~~~~~--~   70 (305)
T TIGR00635         2 LLAEFIGQEKVKEQLQLFIEAAKMR---------QEALDHLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEKP--G   70 (305)
T ss_pred             CHHHHcCHHHHHHHHHHHHHHHHhc---------CCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeccchhcCc--h
Confidence            6999999999999998877532111         1235679999999999999999999999988766654432211  1


Q ss_pred             hHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHH--hhc-cC----cCCCCcEEEEEecCCCC
Q 016044          166 DAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMAL--WDG-FT----TDQNARVMVLAATNRPS  238 (396)
Q Consensus       166 ~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~--l~~-~~----~~~~~~v~vI~atn~~~  238 (396)
                      .    +...+..  ...+.+|||||+|.+....    .+.+..++......  ++. ..    .....++.+|++||++.
T Consensus        71 ~----l~~~l~~--~~~~~vl~iDEi~~l~~~~----~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~li~~t~~~~  140 (305)
T TIGR00635        71 D----LAAILTN--LEEGDVLFIDEIHRLSPAV----EELLYPAMEDFRLDIVIGKGPSARSVRLDLPPFTLVGATTRAG  140 (305)
T ss_pred             h----HHHHHHh--cccCCEEEEehHhhhCHHH----HHHhhHHHhhhheeeeeccCccccceeecCCCeEEEEecCCcc
Confidence            1    1111221  1246899999999985432    11111111111000  000 00    00123478999999999


Q ss_pred             CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhc
Q 016044          239 ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERK  317 (396)
Q Consensus       239 ~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~  317 (396)
                      .+++++++||...+.+++|+.+++.++++..+...... ++-.++.+++.+.|.. +.+..+++.++..+...       
T Consensus       141 ~l~~~l~sR~~~~~~l~~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~p-R~~~~ll~~~~~~a~~~-------  212 (305)
T TIGR00635       141 MLTSPLRDRFGIILRLEFYTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTP-RIANRLLRRVRDFAQVR-------  212 (305)
T ss_pred             ccCHHHHhhcceEEEeCCCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCc-chHHHHHHHHHHHHHHc-------
Confidence            99999999998888999999999999999888754443 2223678889888854 66677777665443221       


Q ss_pred             CCCCCCCCCCCHHHHHHHHHhc
Q 016044          318 GKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       318 ~~~~~~~~~i~~~d~~~al~~~  339 (396)
                           ....++.+++..++..+
T Consensus       213 -----~~~~it~~~v~~~l~~l  229 (305)
T TIGR00635       213 -----GQKIINRDIALKALEML  229 (305)
T ss_pred             -----CCCCcCHHHHHHHHHHh
Confidence                 01346777777777653

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.81  E-value=1.1e-18  Score=167.25  Aligned_cols=218  Identities=21%  Similarity=0.202  Sum_probs=150.1

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK  162 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~  162 (396)
                      .+.+|++++|+++.++.+...+.....      .   -.++.+++|+||||||||++|+++|++++..+...+.+.+...
T Consensus        20 rP~~~~~~vG~~~~~~~l~~~l~~~~~------~---~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~~~~~~~~~~~   90 (328)
T PRK00080         20 RPKSLDEFIGQEKVKENLKIFIEAAKK------R---GEALDHVLLYGPPGLGKTTLANIIANEMGVNIRITSGPALEKP   90 (328)
T ss_pred             CcCCHHHhcCcHHHHHHHHHHHHHHHh------c---CCCCCcEEEECCCCccHHHHHHHHHHHhCCCeEEEecccccCh
Confidence            356899999999999999877753111      0   1245789999999999999999999999988877665543211


Q ss_pred             hhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-----c---------CCCCcE
Q 016044          163 WFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-----T---------DQNARV  228 (396)
Q Consensus       163 ~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-----~---------~~~~~v  228 (396)
                            ..+..++...  ..+++|||||+|.+....    .+.       +...++...     .         ..-.++
T Consensus        91 ------~~l~~~l~~l--~~~~vl~IDEi~~l~~~~----~e~-------l~~~~e~~~~~~~l~~~~~~~~~~~~l~~~  151 (328)
T PRK00080         91 ------GDLAAILTNL--EEGDVLFIDEIHRLSPVV----EEI-------LYPAMEDFRLDIMIGKGPAARSIRLDLPPF  151 (328)
T ss_pred             ------HHHHHHHHhc--ccCCEEEEecHhhcchHH----HHH-------HHHHHHhcceeeeeccCccccceeecCCCc
Confidence                  1222233222  346899999999984321    111       122222110     0         011347


Q ss_pred             EEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHH
Q 016044          229 MVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFS  307 (396)
Q Consensus       229 ~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a  307 (396)
                      .+|++||++..+++++++||...+.+++|+.+++.++++..+...... ++-.+..+++.+.|. ++.+..+++.+...+
T Consensus       152 ~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~-pR~a~~~l~~~~~~a  230 (328)
T PRK00080        152 TLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGT-PRIANRLLRRVRDFA  230 (328)
T ss_pred             eEEeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCC-chHHHHHHHHHHHHH
Confidence            899999999999999999998889999999999999999988765544 222367889999884 467777777665544


Q ss_pred             HHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhccc
Q 016044          308 IRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRK  341 (396)
Q Consensus       308 ~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~~  341 (396)
                      ..+            ....|+.+++..++..+..
T Consensus       231 ~~~------------~~~~I~~~~v~~~l~~~~~  252 (328)
T PRK00080        231 QVK------------GDGVITKEIADKALDMLGV  252 (328)
T ss_pred             HHc------------CCCCCCHHHHHHHHHHhCC
Confidence            432            1145777777777766543

>TIGR00763 lon ATP-dependent protease La

Probab=99.80  E-value=6.1e-19  Score=186.25  Aligned_cols=234  Identities=20%  Similarity=0.274  Sum_probs=150.4

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc--------
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM--------  160 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~--------  160 (396)
                      +++|++++|+.+.+++..+....        ......++|+||||||||++|+++|+.++.+|+.+++..+.        
T Consensus       321 ~~~G~~~~k~~i~~~~~~~~~~~--------~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~~~i~~~~~~~~~~i~g~  392 (775)
T TIGR00763       321 DHYGLKKVKERILEYLAVQKLRG--------KMKGPILCLVGPPGVGKTSLGKSIAKALNRKFVRFSLGGVRDEAEIRGH  392 (775)
T ss_pred             hcCChHHHHHHHHHHHHHHHhhc--------CCCCceEEEECCCCCCHHHHHHHHHHHhcCCeEEEeCCCcccHHHHcCC
Confidence            58999999999988776432111        11234799999999999999999999999999999875442        


Q ss_pred             -chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhc-----cC------cCCCCcE
Q 016044          161 -SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDG-----FT------TDQNARV  228 (396)
Q Consensus       161 -~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~-----~~------~~~~~~v  228 (396)
                       ..|.|.....+...|..+.... .|+||||||.+.+..+....       +.|+..++.     +.      ..+..++
T Consensus       393 ~~~~~g~~~g~i~~~l~~~~~~~-~villDEidk~~~~~~~~~~-------~aLl~~ld~~~~~~f~d~~~~~~~d~s~v  464 (775)
T TIGR00763       393 RRTYVGAMPGRIIQGLKKAKTKN-PLFLLDEIDKIGSSFRGDPA-------SALLEVLDPEQNNAFSDHYLDVPFDLSKV  464 (775)
T ss_pred             CCceeCCCCchHHHHHHHhCcCC-CEEEEechhhcCCccCCCHH-------HHHHHhcCHHhcCccccccCCceeccCCE
Confidence             2355555555666666665544 48999999999764332221       233333331     10      0112578


Q ss_pred             EEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhc-----CCCCC---CCCC---HHHHHH-hCCCCcHHHH
Q 016044          229 MVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILK-----GEKVE---ENID---FDYLAG-LCEGFTGSDL  296 (396)
Q Consensus       229 ~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~-----~~~~~---~~~~---l~~la~-~~~g~s~~di  296 (396)
                      ++|+|||..+.+++++++|| ..+.|+.|+.+++.+|++.++.     ...+.   -.++   +..+++ .+..+..++|
T Consensus       465 ~~I~TtN~~~~i~~~L~~R~-~vi~~~~~~~~e~~~I~~~~l~~~~~~~~~l~~~~~~~~~~~l~~i~~~~~~e~g~R~l  543 (775)
T TIGR00763       465 IFIATANSIDTIPRPLLDRM-EVIELSGYTEEEKLEIAKKYLIPKALEDHGLKPDELKITDEALLLLIKYYTREAGVRNL  543 (775)
T ss_pred             EEEEecCCchhCCHHHhCCe-eEEecCCCCHHHHHHHHHHHHHHHHHHHcCCCcceEEECHHHHHHHHHhcChhcCChHH
Confidence            99999999999999999999 6899999999999999988762     12221   1123   334443 2223334466


Q ss_pred             HHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          297 LEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       297 ~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                      +..+......+..++...........-...++.++++..+..-
T Consensus       544 ~r~i~~~~~~~~~~~~~~~~~~~~~~~~v~i~~~~~~~~lg~~  586 (775)
T TIGR00763       544 ERQIEKICRKAAVKLVEQGEKKKSEAESVVITPDNLKKYLGKP  586 (775)
T ss_pred             HHHHHHHHHHHHHHHHhccCcccCCcccccCCHHHHHHhcCcc
Confidence            6655555544444433211100001122578899988887643

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

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

Probab=99.80  E-value=1.3e-18  Score=155.87  Aligned_cols=192  Identities=22%  Similarity=0.241  Sum_probs=138.6

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS  161 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~  161 (396)
                      ..+..|++++|++++|..|.-++.....+.+         ..-++||+||||.||||||..+|+++|.++-..+++.+..
T Consensus        20 lRP~~l~efiGQ~~vk~~L~ifI~AAk~r~e---------~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~tsGp~leK   90 (332)
T COG2255          20 LRPKTLDEFIGQEKVKEQLQIFIKAAKKRGE---------ALDHVLLFGPPGLGKTTLAHIIANELGVNLKITSGPALEK   90 (332)
T ss_pred             cCcccHHHhcChHHHHHHHHHHHHHHHhcCC---------CcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEecccccccC
Confidence            3467899999999999999877765333322         3467999999999999999999999999988877666532


Q ss_pred             hhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCc--------------CCCCc
Q 016044          162 KWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTT--------------DQNAR  227 (396)
Q Consensus       162 ~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~--------------~~~~~  227 (396)
                      .      .-+..++....  ...||||||||++.+...+           -+...|+.+..              -+-.+
T Consensus        91 ~------gDlaaiLt~Le--~~DVLFIDEIHrl~~~vEE-----------~LYpaMEDf~lDI~IG~gp~Arsv~ldLpp  151 (332)
T COG2255          91 P------GDLAAILTNLE--EGDVLFIDEIHRLSPAVEE-----------VLYPAMEDFRLDIIIGKGPAARSIRLDLPP  151 (332)
T ss_pred             h------hhHHHHHhcCC--cCCeEEEehhhhcChhHHH-----------HhhhhhhheeEEEEEccCCccceEeccCCC
Confidence            2      11222332222  3489999999998543222           12222222110              01246


Q ss_pred             EEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHH
Q 016044          228 VMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQ  302 (396)
Q Consensus       228 v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~  302 (396)
                      +.+|+||.+...+...|+.||.....+..++.++..+|++.......+. .+-...++|+++.| +++--..|+++
T Consensus       152 FTLIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~i~i~~~~a~eIA~rSRG-TPRIAnRLLrR  226 (332)
T COG2255         152 FTLIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILGIEIDEEAALEIARRSRG-TPRIANRLLRR  226 (332)
T ss_pred             eeEeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhCCCCChHHHHHHHHhccC-CcHHHHHHHHH
Confidence            8899999999999999999999999999999999999999988766665 33346789999998 55544444444

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.80  E-value=1.1e-18  Score=174.80  Aligned_cols=192  Identities=20%  Similarity=0.264  Sum_probs=135.6

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-----------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-----------  150 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-----------  150 (396)
                      +.+.+|++|+|++.+++.|...+..          +   +.++.+||+||+|+|||++|+.+++.+++.           
T Consensus        10 YRPqtFddVIGQe~vv~~L~~al~~----------g---RLpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~~~   76 (700)
T PRK12323         10 WRPRDFTTLVGQEHVVRALTHALEQ----------Q---RLHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGITAQ   76 (700)
T ss_pred             hCCCcHHHHcCcHHHHHHHHHHHHh----------C---CCceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCCCC
Confidence            3467999999999999999877642          2   235778999999999999999999988761           


Q ss_pred             ------------------EEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHH
Q 016044          151 ------------------FINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTE  212 (396)
Q Consensus       151 ------------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~  212 (396)
                                        ++.++...  ...+.+....+..+..........|+||||+|.|..           ...+.
T Consensus        77 PCG~C~sC~~I~aG~hpDviEIdAas--~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~-----------~AaNA  143 (700)
T PRK12323         77 PCGQCRACTEIDAGRFVDYIEMDAAS--NRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTN-----------HAFNA  143 (700)
T ss_pred             CCcccHHHHHHHcCCCCcceEecccc--cCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCH-----------HHHHH
Confidence                              22222211  111222222232222222233457999999999832           22345


Q ss_pred             HHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCC-CCHHHHHHhCCCC
Q 016044          213 FMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEEN-IDFDYLAGLCEGF  291 (396)
Q Consensus       213 ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~-~~l~~la~~~~g~  291 (396)
                      |++.++.    .+.++++|++||.++.+.+.+++|| ..+.|..++.++..+.++.++....+..+ ..+..|++.+.| 
T Consensus       144 LLKTLEE----PP~~v~FILaTtep~kLlpTIrSRC-q~f~f~~ls~eei~~~L~~Il~~Egi~~d~eAL~~IA~~A~G-  217 (700)
T PRK12323        144 MLKTLEE----PPEHVKFILATTDPQKIPVTVLSRC-LQFNLKQMPPGHIVSHLDAILGEEGIAHEVNALRLLAQAAQG-  217 (700)
T ss_pred             HHHhhcc----CCCCceEEEEeCChHhhhhHHHHHH-HhcccCCCChHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-
Confidence            6665553    4667899999999999999999999 99999999999999999998876554422 225677888887 


Q ss_pred             cHHHHHHHHHHHHH
Q 016044          292 TGSDLLEVCKQAAY  305 (396)
Q Consensus       292 s~~di~~l~~~A~~  305 (396)
                      +.++..++++.+..
T Consensus       218 s~RdALsLLdQaia  231 (700)
T PRK12323        218 SMRDALSLTDQAIA  231 (700)
T ss_pred             CHHHHHHHHHHHHH
Confidence            67777777776553

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.79  E-value=3e-18  Score=167.65  Aligned_cols=187  Identities=19%  Similarity=0.222  Sum_probs=132.9

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-----------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-----------  150 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-----------  150 (396)
                      ..+.+|++++|++.+++.|...+..          +   +.++.+||+||||||||++|+.+|+.+++.           
T Consensus        12 yRP~~f~dvVGQe~iv~~L~~~i~~----------~---ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~~pCg~C   78 (484)
T PRK14956         12 YRPQFFRDVIHQDLAIGALQNALKS----------G---KIGHAYIFFGPRGVGKTTIARILAKRLNCENPIGNEPCNEC   78 (484)
T ss_pred             hCCCCHHHHhChHHHHHHHHHHHHc----------C---CCCeEEEEECCCCCCHHHHHHHHHHhcCcccccCccccCCC
Confidence            3467999999999999998876642          1   124678999999999999999999988753           


Q ss_pred             -------------EEEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHH
Q 016044          151 -------------FINVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEF  213 (396)
Q Consensus       151 -------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~l  213 (396)
                                   ++.++...      ...-..++.+...+.    .....|+||||+|.+..           ...+.|
T Consensus        79 ~sC~~i~~g~~~dviEIdaas------~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~-----------~A~NAL  141 (484)
T PRK14956         79 TSCLEITKGISSDVLEIDAAS------NRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTD-----------QSFNAL  141 (484)
T ss_pred             cHHHHHHccCCccceeechhh------cccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCH-----------HHHHHH
Confidence                         22222211      001122333332222    23456999999999832           123355


Q ss_pred             HHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCc
Q 016044          214 MALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFT  292 (396)
Q Consensus       214 l~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s  292 (396)
                      +..++    +++..+++|++|+.++.+.+++++|| ..+.|..++.++..+.++..+....+. .+-.+..+++.+.| +
T Consensus       142 LKtLE----EPp~~viFILaTte~~kI~~TI~SRC-q~~~f~~ls~~~i~~~L~~i~~~Egi~~e~eAL~~Ia~~S~G-d  215 (484)
T PRK14956        142 LKTLE----EPPAHIVFILATTEFHKIPETILSRC-QDFIFKKVPLSVLQDYSEKLCKIENVQYDQEGLFWIAKKGDG-S  215 (484)
T ss_pred             HHHhh----cCCCceEEEeecCChhhccHHHHhhh-heeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-h
Confidence            55554    34678899999999999999999999 889999999999999999998766554 33347788888887 5


Q ss_pred             HHHHHHHHHHHH
Q 016044          293 GSDLLEVCKQAA  304 (396)
Q Consensus       293 ~~di~~l~~~A~  304 (396)
                      .++.-++++.+.
T Consensus       216 ~RdAL~lLeq~i  227 (484)
T PRK14956        216 VRDMLSFMEQAI  227 (484)
T ss_pred             HHHHHHHHHHHH
Confidence            666666666544

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=99.79  E-value=4.9e-18  Score=172.14  Aligned_cols=188  Identities=22%  Similarity=0.292  Sum_probs=134.4

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-----------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-----------  150 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-----------  150 (396)
                      +.+.+|++|+|++.+++.|...+..          +   +.++.+||+||+|||||++++.+++.+++.           
T Consensus        10 YRPqtFdEVIGQe~Vv~~L~~aL~~----------g---RL~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C   76 (830)
T PRK07003         10 WRPKDFASLVGQEHVVRALTHALDG----------G---RLHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVC   76 (830)
T ss_pred             hCCCcHHHHcCcHHHHHHHHHHHhc----------C---CCCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCccc
Confidence            3467999999999999999877642          1   235678999999999999999999988652           


Q ss_pred             -------------EEEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHH
Q 016044          151 -------------FINVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEF  213 (396)
Q Consensus       151 -------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~l  213 (396)
                                   ++.++..+  ...+    ..++.++..+.    .....|+||||+|.|..           ...+.|
T Consensus        77 ~sCr~I~~G~h~DviEIDAas--~rgV----DdIReLIe~a~~~P~~gr~KVIIIDEah~LT~-----------~A~NAL  139 (830)
T PRK07003         77 RACREIDEGRFVDYVEMDAAS--NRGV----DEMAALLERAVYAPVDARFKVYMIDEVHMLTN-----------HAFNAM  139 (830)
T ss_pred             HHHHHHhcCCCceEEEecccc--cccH----HHHHHHHHHHHhccccCCceEEEEeChhhCCH-----------HHHHHH
Confidence                         22332221  0111    22333443332    22347999999999832           123355


Q ss_pred             HHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCc
Q 016044          214 MALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFT  292 (396)
Q Consensus       214 l~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s  292 (396)
                      ++.++.    .+.++.+|++||.++.|.+.+++|| ..+.|..++.++..+.|+.++..+.+. ++-.+..|++.+.| +
T Consensus       140 LKtLEE----PP~~v~FILaTtd~~KIp~TIrSRC-q~f~Fk~Ls~eeIv~~L~~Il~~EgI~id~eAL~lIA~~A~G-s  213 (830)
T PRK07003        140 LKTLEE----PPPHVKFILATTDPQKIPVTVLSRC-LQFNLKQMPAGHIVSHLERILGEERIAFEPQALRLLARAAQG-S  213 (830)
T ss_pred             HHHHHh----cCCCeEEEEEECChhhccchhhhhe-EEEecCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-C
Confidence            555553    3567899999999999999999999 899999999999999999999776654 23346778888887 5


Q ss_pred             HHHHHHHHHHHHH
Q 016044          293 GSDLLEVCKQAAY  305 (396)
Q Consensus       293 ~~di~~l~~~A~~  305 (396)
                      .++..+++.++..
T Consensus       214 mRdALsLLdQAia  226 (830)
T PRK07003        214 MRDALSLTDQAIA  226 (830)
T ss_pred             HHHHHHHHHHHHH
Confidence            5666677666553

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

Probab=99.77  E-value=9.4e-18  Score=174.56  Aligned_cols=224  Identities=20%  Similarity=0.313  Sum_probs=155.5

Q ss_pred             cccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEEE
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFINV  154 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~i  154 (396)
                      -.++.++|.++..+.+.+.+..              ....++||+||||||||++|++++...          +..++.+
T Consensus       183 g~~~~liGR~~ei~~~i~iL~r--------------~~~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l  248 (758)
T PRK11034        183 GGIDPLIGREKELERAIQVLCR--------------RRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL  248 (758)
T ss_pred             CCCCcCcCCCHHHHHHHHHHhc--------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec
Confidence            3566788988888888765531              124678999999999999999999863          4566666


Q ss_pred             eccccc--chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCC-CchHHHHhhHHHHHHHhhccCcCCCCcEEEE
Q 016044          155 RISNLM--SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRT-SDHEALTNMKTEFMALWDGFTTDQNARVMVL  231 (396)
Q Consensus       155 ~~~~l~--~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~-~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI  231 (396)
                      +...+.  .++.|+.+..++.++..+....++||||||+|.+.+.... .......+++..++   .      .+.+.+|
T Consensus       249 ~~~~llaG~~~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L---~------~g~i~vI  319 (758)
T PRK11034        249 DIGSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLL---S------SGKIRVI  319 (758)
T ss_pred             cHHHHhcccchhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHH---h------CCCeEEE
Confidence            666555  4577889999999999888888899999999999876542 22222222222222   1      5679999


Q ss_pred             EecCCCC-----CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCH-----HHHHHhCC-----CCcHHHH
Q 016044          232 AATNRPS-----ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDF-----DYLAGLCE-----GFTGSDL  296 (396)
Q Consensus       232 ~atn~~~-----~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l-----~~la~~~~-----g~s~~di  296 (396)
                      ++|+.++     ..|+++.||| ..|.++.|+.+++..||+.+...+....++.+     ...+..+.     .+-|...
T Consensus       320 gATt~~E~~~~~~~D~AL~rRF-q~I~v~ePs~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~r~lPdKa  398 (758)
T PRK11034        320 GSTTYQEFSNIFEKDRALARRF-QKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKA  398 (758)
T ss_pred             ecCChHHHHHHhhccHHHHhhC-cEEEeCCCCHHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccCccChHHH
Confidence            9999764     5799999999 68999999999999999988766555544443     22233333     3445567


Q ss_pred             HHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhcc
Q 016044          297 LEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSR  340 (396)
Q Consensus       297 ~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~  340 (396)
                      ..++++|+...-  .....      .....++.+|+.+.+....
T Consensus       399 idlldea~a~~~--~~~~~------~~~~~v~~~~i~~v~~~~t  434 (758)
T PRK11034        399 IDVIDEAGARAR--LMPVS------KRKKTVNVADIESVVARIA  434 (758)
T ss_pred             HHHHHHHHHhhc--cCccc------ccccccChhhHHHHHHHHh
Confidence            778888765321  10000      1123578888888776643

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.77  E-value=2.2e-17  Score=165.88  Aligned_cols=186  Identities=20%  Similarity=0.241  Sum_probs=132.8

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc------------
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV------------  150 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~------------  150 (396)
                      .+.+|++|+|++.+++.|...+..          +   +.++.+||+||+|+|||++|+++|+.+++.            
T Consensus        10 RPktFddVIGQe~vv~~L~~aI~~----------g---rl~HAyLF~GPpGvGKTTlAriLAK~LnC~~~~~~~pCg~C~   76 (702)
T PRK14960         10 RPRNFNELVGQNHVSRALSSALER----------G---RLHHAYLFTGTRGVGKTTIARILAKCLNCETGVTSTPCEVCA   76 (702)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc----------C---CCCeEEEEECCCCCCHHHHHHHHHHHhCCCcCCCCCCCccCH
Confidence            357999999999999999877642          2   235788999999999999999999988652            


Q ss_pred             ------------EEEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHH
Q 016044          151 ------------FINVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFM  214 (396)
Q Consensus       151 ------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll  214 (396)
                                  ++.++.++-  ..+    ..++.+...+.    ..+..|++|||+|.|...           ..+.++
T Consensus        77 sC~~I~~g~hpDviEIDAAs~--~~V----ddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~-----------A~NALL  139 (702)
T PRK14960         77 TCKAVNEGRFIDLIEIDAASR--TKV----EDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTH-----------SFNALL  139 (702)
T ss_pred             HHHHHhcCCCCceEEeccccc--CCH----HHHHHHHHHHhhhhhcCCcEEEEEechHhcCHH-----------HHHHHH
Confidence                        233333211  011    22333333221    234579999999998322           233555


Q ss_pred             HHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcH
Q 016044          215 ALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTG  293 (396)
Q Consensus       215 ~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~  293 (396)
                      +.++.    .+..+.+|++|+.+..++..+++|| ..+.|.+++.++....++..+...... .+..+..+++.+.| +.
T Consensus       140 KtLEE----PP~~v~FILaTtd~~kIp~TIlSRC-q~feFkpLs~eEI~k~L~~Il~kEgI~id~eAL~~IA~~S~G-dL  213 (702)
T PRK14960        140 KTLEE----PPEHVKFLFATTDPQKLPITVISRC-LQFTLRPLAVDEITKHLGAILEKEQIAADQDAIWQIAESAQG-SL  213 (702)
T ss_pred             HHHhc----CCCCcEEEEEECChHhhhHHHHHhh-heeeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Confidence            55553    3456788888888889999999999 899999999999999999999876654 23346778888876 66


Q ss_pred             HHHHHHHHHHH
Q 016044          294 SDLLEVCKQAA  304 (396)
Q Consensus       294 ~di~~l~~~A~  304 (396)
                      +++.+++..+.
T Consensus       214 RdALnLLDQaI  224 (702)
T PRK14960        214 RDALSLTDQAI  224 (702)
T ss_pred             HHHHHHHHHHH
Confidence            77777776654

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=99.77  E-value=1.9e-17  Score=168.40  Aligned_cols=190  Identities=25%  Similarity=0.318  Sum_probs=132.8

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc------------
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV------------  150 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~------------  150 (396)
                      .+.+|++|+|++.+++.|...+..          +   +-++.+||+||+|+|||++|+.+|+.+++.            
T Consensus        11 RP~~f~divGQe~vv~~L~~~l~~----------~---rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~   77 (647)
T PRK07994         11 RPQTFAEVVGQEHVLTALANALDL----------G---RLHHAYLFSGTRGVGKTTIARLLAKGLNCETGITATPCGECD   77 (647)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc----------C---CCCeEEEEECCCCCCHHHHHHHHHHhhhhccCCCCCCCCCCH
Confidence            357899999999999999876642          2   125668999999999999999999988663            


Q ss_pred             ------------EEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhh
Q 016044          151 ------------FINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWD  218 (396)
Q Consensus       151 ------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~  218 (396)
                                  ++.++...  ...+......+..+..........|+||||+|.|..           ...+.|++.++
T Consensus        78 ~C~~i~~g~~~D~ieidaas--~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~-----------~a~NALLKtLE  144 (647)
T PRK07994         78 NCREIEQGRFVDLIEIDAAS--RTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSR-----------HSFNALLKTLE  144 (647)
T ss_pred             HHHHHHcCCCCCceeecccc--cCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCH-----------HHHHHHHHHHH
Confidence                        22232221  001112222222221111223457999999999832           22345666665


Q ss_pred             ccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHH
Q 016044          219 GFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLL  297 (396)
Q Consensus       219 ~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~  297 (396)
                      .    ++..+.+|++|+.+..+.+.+++|| ..+.|..++.++....|+..+....+. .+..+..++..+.| +.++..
T Consensus       145 E----Pp~~v~FIL~Tt~~~kLl~TI~SRC-~~~~f~~Ls~~ei~~~L~~il~~e~i~~e~~aL~~Ia~~s~G-s~R~Al  218 (647)
T PRK07994        145 E----PPEHVKFLLATTDPQKLPVTILSRC-LQFHLKALDVEQIRQQLEHILQAEQIPFEPRALQLLARAADG-SMRDAL  218 (647)
T ss_pred             c----CCCCeEEEEecCCccccchHHHhhh-eEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHH
Confidence            3    4667888888999999999999998 999999999999999999988765543 22346678888887 667777


Q ss_pred             HHHHHHH
Q 016044          298 EVCKQAA  304 (396)
Q Consensus       298 ~l~~~A~  304 (396)
                      ++++.+.
T Consensus       219 ~lldqai  225 (647)
T PRK07994        219 SLTDQAI  225 (647)
T ss_pred             HHHHHHH
Confidence            7776654

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.76  E-value=1.6e-17  Score=166.67  Aligned_cols=188  Identities=22%  Similarity=0.237  Sum_probs=133.9

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-----------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-----------  150 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-----------  150 (396)
                      ..+.+|++|+|++.+++.|...+..          +   +.++.+||+||||||||++|+++|+.+++.           
T Consensus        10 yRP~~f~divGq~~v~~~L~~~~~~----------~---~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C   76 (509)
T PRK14958         10 WRPRCFQEVIGQAPVVRALSNALDQ----------Q---YLHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDC   76 (509)
T ss_pred             HCCCCHHHhcCCHHHHHHHHHHHHh----------C---CCCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCC
Confidence            3467999999999999999887742          1   235678999999999999999999988653           


Q ss_pred             -------------EEEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHH
Q 016044          151 -------------FINVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEF  213 (396)
Q Consensus       151 -------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~l  213 (396)
                                   ++.++...  ...+    ..++.+...+.    .....|++|||+|.|...           ..+.+
T Consensus        77 ~~C~~i~~g~~~d~~eidaas--~~~v----~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~-----------a~naL  139 (509)
T PRK14958         77 ENCREIDEGRFPDLFEVDAAS--RTKV----EDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGH-----------SFNAL  139 (509)
T ss_pred             HHHHHHhcCCCceEEEEcccc--cCCH----HHHHHHHHHHhhccccCCcEEEEEEChHhcCHH-----------HHHHH
Confidence                         33444321  1111    12333333322    223469999999998422           22355


Q ss_pred             HHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCc
Q 016044          214 MALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFT  292 (396)
Q Consensus       214 l~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s  292 (396)
                      ++.++.    .+..+.+|.+|+.+..+.+.+++|| ..+.|.+++.++....++..+...+.. .+..+..+++.+.| +
T Consensus       140 Lk~LEe----pp~~~~fIlattd~~kl~~tI~SRc-~~~~f~~l~~~~i~~~l~~il~~egi~~~~~al~~ia~~s~G-s  213 (509)
T PRK14958        140 LKTLEE----PPSHVKFILATTDHHKLPVTVLSRC-LQFHLAQLPPLQIAAHCQHLLKEENVEFENAALDLLARAANG-S  213 (509)
T ss_pred             HHHHhc----cCCCeEEEEEECChHhchHHHHHHh-hhhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-c
Confidence            555553    3567888888888999999999999 889999999999999999988766554 22346678888776 7


Q ss_pred             HHHHHHHHHHHHH
Q 016044          293 GSDLLEVCKQAAY  305 (396)
Q Consensus       293 ~~di~~l~~~A~~  305 (396)
                      .+++.++++.+..
T Consensus       214 lR~al~lLdq~ia  226 (509)
T PRK14958        214 VRDALSLLDQSIA  226 (509)
T ss_pred             HHHHHHHHHHHHh
Confidence            7788888876643

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.76  E-value=1.1e-16  Score=165.38  Aligned_cols=192  Identities=21%  Similarity=0.217  Sum_probs=132.0

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEE-------EE-
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFI-------NV-  154 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~-------~i-  154 (396)
                      .+.+|++|+|++.+++.|+..+..          +   +.++.+||+||||||||++|+++|+.+++...       .+ 
T Consensus        11 RP~tFddIIGQe~Iv~~LknaI~~----------~---rl~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~   77 (944)
T PRK14949         11 RPATFEQMVGQSHVLHALTNALTQ----------Q---RLHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCS   77 (944)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHh----------C---CCCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCch
Confidence            357999999999999999877642          1   22566899999999999999999998876410       00 


Q ss_pred             ecccccch-------hhc---hHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc
Q 016044          155 RISNLMSK-------WFG---DAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF  220 (396)
Q Consensus       155 ~~~~l~~~-------~~g---~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~  220 (396)
                      .|-.+...       +-+   ..-..++.+...+.    .....|+||||+|.|..           ...+.|++.++. 
T Consensus        78 sC~~i~~g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~-----------eAqNALLKtLEE-  145 (944)
T PRK14949         78 SCVEIAQGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSR-----------SSFNALLKTLEE-  145 (944)
T ss_pred             HHHHHhcCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCH-----------HHHHHHHHHHhc-
Confidence            00000000       000   01112333333222    23447999999999832           233355665553 


Q ss_pred             CcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHH
Q 016044          221 TTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEV  299 (396)
Q Consensus       221 ~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l  299 (396)
                         .+..+++|++|+.+..+.+.+++|| .++.|.+++.++....|+..+....+. .+-.+..|++.+.| +.+++.++
T Consensus       146 ---PP~~vrFILaTTe~~kLl~TIlSRC-q~f~fkpLs~eEI~~~L~~il~~EgI~~edeAL~lIA~~S~G-d~R~ALnL  220 (944)
T PRK14949        146 ---PPEHVKFLLATTDPQKLPVTVLSRC-LQFNLKSLTQDEIGTQLNHILTQEQLPFEAEALTLLAKAANG-SMRDALSL  220 (944)
T ss_pred             ---cCCCeEEEEECCCchhchHHHHHhh-eEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHH
Confidence               4567888888998999999999999 899999999999999999988765443 22236778888887 66788888


Q ss_pred             HHHHH
Q 016044          300 CKQAA  304 (396)
Q Consensus       300 ~~~A~  304 (396)
                      |..+.
T Consensus       221 LdQal  225 (944)
T PRK14949        221 TDQAI  225 (944)
T ss_pred             HHHHH
Confidence            87665

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.76  E-value=2.5e-17  Score=163.56  Aligned_cols=184  Identities=17%  Similarity=0.224  Sum_probs=124.5

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCC------------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA------------  149 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~------------  149 (396)
                      ..+.+|++++|++.+++.|...+..          +   ..++++||+||||||||++|+++|+.+++            
T Consensus         8 yRP~~~~divGq~~i~~~L~~~i~~----------~---~l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c   74 (472)
T PRK14962          8 YRPKTFSEVVGQDHVKKLIINALKK----------N---SISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNEC   74 (472)
T ss_pred             HCCCCHHHccCcHHHHHHHHHHHHc----------C---CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCccc
Confidence            3467999999999999988776542          1   23567999999999999999999998764            


Q ss_pred             ------------cEEEEecccccchhhchHHHHHHHHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHHHH
Q 016044          150 ------------VFINVRISNLMSKWFGDAQKLVAAVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEF  213 (396)
Q Consensus       150 ------------~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~l  213 (396)
                                  .++.++++.-  ..    -..++.+...+..    ....|++|||+|.+...           ....+
T Consensus        75 ~~c~~i~~g~~~dv~el~aa~~--~g----id~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~-----------a~~~L  137 (472)
T PRK14962         75 RACRSIDEGTFMDVIELDAASN--RG----IDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTKE-----------AFNAL  137 (472)
T ss_pred             HHHHHHhcCCCCccEEEeCccc--CC----HHHHHHHHHHHhhChhcCCeEEEEEEChHHhHHH-----------HHHHH
Confidence                        2444443211  11    1223333333321    23469999999998321           12344


Q ss_pred             HHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCc
Q 016044          214 MALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFT  292 (396)
Q Consensus       214 l~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s  292 (396)
                      +..++.    .+..+++|++|+.+..+++++.+|| ..+.|.+++.++...+++..+...... ++..+..|+..+.| +
T Consensus       138 Lk~LE~----p~~~vv~Ilattn~~kl~~~L~SR~-~vv~f~~l~~~el~~~L~~i~~~egi~i~~eal~~Ia~~s~G-d  211 (472)
T PRK14962        138 LKTLEE----PPSHVVFVLATTNLEKVPPTIISRC-QVIEFRNISDELIIKRLQEVAEAEGIEIDREALSFIAKRASG-G  211 (472)
T ss_pred             HHHHHh----CCCcEEEEEEeCChHhhhHHHhcCc-EEEEECCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCC-C
Confidence            454443    3456777877777889999999999 789999999999999999988655443 22336777777765 3


Q ss_pred             HHHHHHHHH
Q 016044          293 GSDLLEVCK  301 (396)
Q Consensus       293 ~~di~~l~~  301 (396)
                      .+++.+.++
T Consensus       212 lR~aln~Le  220 (472)
T PRK14962        212 LRDALTMLE  220 (472)
T ss_pred             HHHHHHHHH
Confidence            333333333

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.75  E-value=5.3e-17  Score=157.49  Aligned_cols=186  Identities=21%  Similarity=0.289  Sum_probs=128.2

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc------------
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV------------  150 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~------------  150 (396)
                      .+.+|++|+|++.+++.+...+..          +   +.++.+||+||||+|||++|+++|+.+++.            
T Consensus        11 rP~~~~~iiGq~~~~~~l~~~~~~----------~---~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~~~pc~~c~   77 (363)
T PRK14961         11 RPQYFRDIIGQKHIVTAISNGLSL----------G---RIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGITSNPCRKCI   77 (363)
T ss_pred             CCCchhhccChHHHHHHHHHHHHc----------C---CCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCH
Confidence            467999999999999999876642          1   235778999999999999999999987642            


Q ss_pred             ------------EEEEecccccchhhchHHHHHHHHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHHHHH
Q 016044          151 ------------FINVRISNLMSKWFGDAQKLVAAVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFM  214 (396)
Q Consensus       151 ------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll  214 (396)
                                  ++.++...      ...-..++.+...+..    ....|++|||+|.+..           ...+.++
T Consensus        78 ~c~~~~~~~~~d~~~~~~~~------~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~-----------~a~naLL  140 (363)
T PRK14961         78 ICKEIEKGLCLDLIEIDAAS------RTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSR-----------HSFNALL  140 (363)
T ss_pred             HHHHHhcCCCCceEEecccc------cCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCH-----------HHHHHHH
Confidence                        11222110      0111223344333321    1346999999998832           1122455


Q ss_pred             HHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcH
Q 016044          215 ALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTG  293 (396)
Q Consensus       215 ~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~  293 (396)
                      ..++.    .+..+.+|.+|+.++.+.+++++|+ ..+.|++|+.++..++++..++..+.. ++..+..++..+.| +.
T Consensus       141 k~lEe----~~~~~~fIl~t~~~~~l~~tI~SRc-~~~~~~~l~~~el~~~L~~~~~~~g~~i~~~al~~ia~~s~G-~~  214 (363)
T PRK14961        141 KTLEE----PPQHIKFILATTDVEKIPKTILSRC-LQFKLKIISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHG-SM  214 (363)
T ss_pred             HHHhc----CCCCeEEEEEcCChHhhhHHHHhhc-eEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Confidence            55443    3456777888888888999999999 889999999999999999988765543 22346677888876 66


Q ss_pred             HHHHHHHHHHH
Q 016044          294 SDLLEVCKQAA  304 (396)
Q Consensus       294 ~di~~l~~~A~  304 (396)
                      +++.++++.++
T Consensus       215 R~al~~l~~~~  225 (363)
T PRK14961        215 RDALNLLEHAI  225 (363)
T ss_pred             HHHHHHHHHHH
Confidence            77777766654

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=99.74  E-value=9e-17  Score=160.20  Aligned_cols=196  Identities=20%  Similarity=0.230  Sum_probs=135.0

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEE--------
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFI--------  152 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~--------  152 (396)
                      ...+.+|++++|++.+++.|...+..          +   +.++++||+||||||||++|+++|+.+++...        
T Consensus        14 kyRP~~f~dliGq~~vv~~L~~ai~~----------~---ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~   80 (507)
T PRK06645         14 KYRPSNFAELQGQEVLVKVLSYTILN----------D---RLAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIK   80 (507)
T ss_pred             hhCCCCHHHhcCcHHHHHHHHHHHHc----------C---CCCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcC
Confidence            34567999999999999998765531          1   23578999999999999999999998865210        


Q ss_pred             ----EEecccccch----------hhchHHHHHHHHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHHHHH
Q 016044          153 ----NVRISNLMSK----------WFGDAQKLVAAVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFM  214 (396)
Q Consensus       153 ----~i~~~~l~~~----------~~g~~~~~~~~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll  214 (396)
                          .-+|..+...          ........++.++..+..    ....|++|||+|.+..           ...+.|+
T Consensus        81 ~C~~C~~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~-----------~a~naLL  149 (507)
T PRK06645         81 TCEQCTNCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSK-----------GAFNALL  149 (507)
T ss_pred             CCCCChHHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCH-----------HHHHHHH
Confidence                0011111000          001122334455544432    2347999999998832           1223455


Q ss_pred             HHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcH
Q 016044          215 ALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTG  293 (396)
Q Consensus       215 ~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~  293 (396)
                      ..++.    .+..+++|++|+.++.+++++++|+ ..+.|..++.++...+++..++..+.. .+..+..++..+.| +.
T Consensus       150 k~LEe----pp~~~vfI~aTte~~kI~~tI~SRc-~~~ef~~ls~~el~~~L~~i~~~egi~ie~eAL~~Ia~~s~G-sl  223 (507)
T PRK06645        150 KTLEE----PPPHIIFIFATTEVQKIPATIISRC-QRYDLRRLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEG-SA  223 (507)
T ss_pred             HHHhh----cCCCEEEEEEeCChHHhhHHHHhcc-eEEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Confidence            54542    3567788888888889999999999 889999999999999999999876654 22336778888887 77


Q ss_pred             HHHHHHHHHHHHH
Q 016044          294 SDLLEVCKQAAYF  306 (396)
Q Consensus       294 ~di~~l~~~A~~~  306 (396)
                      +++.++++.+...
T Consensus       224 R~al~~Ldkai~~  236 (507)
T PRK06645        224 RDAVSILDQAASM  236 (507)
T ss_pred             HHHHHHHHHHHHh
Confidence            7777777776543

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.74  E-value=9.3e-17  Score=170.15  Aligned_cols=186  Identities=18%  Similarity=0.284  Sum_probs=136.2

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEE
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFIN  153 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~  153 (396)
                      +-.++.++|.++..+.+.+.+.              .+...+++|+||||||||++|+.+|..+          +..++.
T Consensus       183 ~~~ld~~iGr~~ei~~~i~~l~--------------r~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~  248 (852)
T TIGR03345       183 EGKIDPVLGRDDEIRQMIDILL--------------RRRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLS  248 (852)
T ss_pred             CCCCCcccCCHHHHHHHHHHHh--------------cCCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEE
Confidence            4578899999998777765442              1124678999999999999999999875          355777


Q ss_pred             Eeccccc--chhhchHHHHHHHHHHHHHH-hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEE
Q 016044          154 VRISNLM--SKWFGDAQKLVAAVFSLAYK-LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMV  230 (396)
Q Consensus       154 i~~~~l~--~~~~g~~~~~~~~~f~~a~~-~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~v  230 (396)
                      ++...+.  ..+.|+.+..++.++..+.. ..++||||||+|.+.+.+..........   -|...+.      ++.+.+
T Consensus       249 l~l~~l~ag~~~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n---~Lkp~l~------~G~l~~  319 (852)
T TIGR03345       249 LDLGLLQAGASVKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAAN---LLKPALA------RGELRT  319 (852)
T ss_pred             eehhhhhcccccchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHH---HhhHHhh------CCCeEE
Confidence            8877765  36789999999999998865 3578999999999987553222111111   1222222      567899


Q ss_pred             EEecCCCC-----CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-----CCCCHHHHHHhCCCCcH
Q 016044          231 LAATNRPS-----ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-----ENIDFDYLAGLCEGFTG  293 (396)
Q Consensus       231 I~atn~~~-----~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-----~~~~l~~la~~~~g~s~  293 (396)
                      ||||+..+     .+|++|.||| ..|.++.|+.+++..||+.+...+...     .+..+..++..+.+|.+
T Consensus       320 IgaTT~~e~~~~~~~d~AL~rRf-~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ryi~  391 (852)
T TIGR03345       320 IAATTWAEYKKYFEKDPALTRRF-QVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRYIP  391 (852)
T ss_pred             EEecCHHHHhhhhhccHHHHHhC-eEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccccc
Confidence            99998643     5899999999 789999999999999987776543322     23346677788887654

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=99.74  E-value=8.3e-17  Score=163.10  Aligned_cols=188  Identities=22%  Similarity=0.262  Sum_probs=135.3

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcE----------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVF----------  151 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~----------  151 (396)
                      +.+.+|++|+|++.+++.|...+..          +   +.++++||+||+|||||++|+++|+.+++.-          
T Consensus        10 YRP~tFddIIGQe~vv~~L~~ai~~----------~---rl~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C   76 (709)
T PRK08691         10 WRPKTFADLVGQEHVVKALQNALDE----------G---RLHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVC   76 (709)
T ss_pred             hCCCCHHHHcCcHHHHHHHHHHHHc----------C---CCCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCccc
Confidence            4467999999999999999887652          1   2367899999999999999999999876431          


Q ss_pred             --------------EEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHH
Q 016044          152 --------------INVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEF  213 (396)
Q Consensus       152 --------------~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~l  213 (396)
                                    +.++...      ...-..++.++..+.    .....|+||||+|.+..           ...+.|
T Consensus        77 ~sCr~i~~g~~~DvlEidaAs------~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~-----------~A~NAL  139 (709)
T PRK08691         77 QSCTQIDAGRYVDLLEIDAAS------NTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSK-----------SAFNAM  139 (709)
T ss_pred             HHHHHHhccCccceEEEeccc------cCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCH-----------HHHHHH
Confidence                          1222111      111223444444332    22447999999998732           123356


Q ss_pred             HHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCc
Q 016044          214 MALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFT  292 (396)
Q Consensus       214 l~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s  292 (396)
                      ++.++.    .+..+.+|++|+.+..+...+++|| ..+.|+.++.++....++..+...++. .+..+..|++.+.| +
T Consensus       140 LKtLEE----Pp~~v~fILaTtd~~kL~~TIrSRC-~~f~f~~Ls~eeI~~~L~~Il~kEgi~id~eAL~~Ia~~A~G-s  213 (709)
T PRK08691        140 LKTLEE----PPEHVKFILATTDPHKVPVTVLSRC-LQFVLRNMTAQQVADHLAHVLDSEKIAYEPPALQLLGRAAAG-S  213 (709)
T ss_pred             HHHHHh----CCCCcEEEEEeCCccccchHHHHHH-hhhhcCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHhCC-C
Confidence            666653    3456788888899999999999999 889999999999999999999876654 22336788888876 7


Q ss_pred             HHHHHHHHHHHHH
Q 016044          293 GSDLLEVCKQAAY  305 (396)
Q Consensus       293 ~~di~~l~~~A~~  305 (396)
                      .+++.++++.+..
T Consensus       214 lRdAlnLLDqaia  226 (709)
T PRK08691        214 MRDALSLLDQAIA  226 (709)
T ss_pred             HHHHHHHHHHHHH
Confidence            7888888877654

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.74  E-value=7.5e-17  Score=159.57  Aligned_cols=188  Identities=19%  Similarity=0.230  Sum_probs=134.7

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCC------------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA------------  149 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~------------  149 (396)
                      +.+.+|+|++|++.+++.|...+.          .+   +.++++||+||+|+|||++|+.+|+.+++            
T Consensus         7 yRP~~f~dliGQe~vv~~L~~a~~----------~~---ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C   73 (491)
T PRK14964          7 YRPSSFKDLVGQDVLVRILRNAFT----------LN---KIPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTC   73 (491)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHH----------cC---CCCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCcccc
Confidence            346799999999999999976553          22   23678999999999999999999986543            


Q ss_pred             ------------cEEEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHH
Q 016044          150 ------------VFINVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEF  213 (396)
Q Consensus       150 ------------~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~l  213 (396)
                                  .++.+++++-.      +-..++.+...+.    .....|++|||+|.+..           ...+.|
T Consensus        74 ~~C~~i~~~~~~Dv~eidaas~~------~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~-----------~A~NaL  136 (491)
T PRK14964         74 HNCISIKNSNHPDVIEIDAASNT------SVDDIKVILENSCYLPISSKFKVYIIDEVHMLSN-----------SAFNAL  136 (491)
T ss_pred             HHHHHHhccCCCCEEEEecccCC------CHHHHHHHHHHHHhccccCCceEEEEeChHhCCH-----------HHHHHH
Confidence                        23444443211      1122444444332    22457999999998832           123355


Q ss_pred             HHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCc
Q 016044          214 MALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFT  292 (396)
Q Consensus       214 l~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s  292 (396)
                      ++.++.    ++..+.+|++|+.++.+.+.+++|+ ..+.|.+++.++....++..+...+.. ++..+..+++.+.| +
T Consensus       137 LK~LEe----Pp~~v~fIlatte~~Kl~~tI~SRc-~~~~f~~l~~~el~~~L~~ia~~Egi~i~~eAL~lIa~~s~G-s  210 (491)
T PRK14964        137 LKTLEE----PAPHVKFILATTEVKKIPVTIISRC-QRFDLQKIPTDKLVEHLVDIAKKENIEHDEESLKLIAENSSG-S  210 (491)
T ss_pred             HHHHhC----CCCCeEEEEEeCChHHHHHHHHHhh-eeeecccccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-C
Confidence            555553    4567888888888889999999999 889999999999999999998876654 33346778888876 7


Q ss_pred             HHHHHHHHHHHHH
Q 016044          293 GSDLLEVCKQAAY  305 (396)
Q Consensus       293 ~~di~~l~~~A~~  305 (396)
                      .+++.++++.+..
T Consensus       211 lR~alslLdqli~  223 (491)
T PRK14964        211 MRNALFLLEQAAI  223 (491)
T ss_pred             HHHHHHHHHHHHH
Confidence            7777777776654

>PRK04195 replication factor C large subunit; Provisional

Probab=99.74  E-value=9.7e-17  Score=161.36  Aligned_cols=189  Identities=25%  Similarity=0.365  Sum_probs=132.7

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      .+.+.+|++|+|++++++.+..++..       +..+   .+++++||+||||||||++|+++|++++..++.+++++..
T Consensus         7 KyrP~~l~dlvg~~~~~~~l~~~l~~-------~~~g---~~~~~lLL~GppG~GKTtla~ala~el~~~~ielnasd~r   76 (482)
T PRK04195          7 KYRPKTLSDVVGNEKAKEQLREWIES-------WLKG---KPKKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQR   76 (482)
T ss_pred             hcCCCCHHHhcCCHHHHHHHHHHHHH-------HhcC---CCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEcccccc
Confidence            34577899999999999999998853       2222   2368899999999999999999999999999999988754


Q ss_pred             chhhchHHHHHHHHHHHHHH------hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEec
Q 016044          161 SKWFGDAQKLVAAVFSLAYK------LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAAT  234 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~------~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~at  234 (396)
                      ..      ..+..+...+..      ..+.+|+|||+|.+........       ...++..++.      .+..+|+++
T Consensus        77 ~~------~~i~~~i~~~~~~~sl~~~~~kvIiIDEaD~L~~~~d~~~-------~~aL~~~l~~------~~~~iIli~  137 (482)
T PRK04195         77 TA------DVIERVAGEAATSGSLFGARRKLILLDEVDGIHGNEDRGG-------ARAILELIKK------AKQPIILTA  137 (482)
T ss_pred             cH------HHHHHHHHHhhccCcccCCCCeEEEEecCcccccccchhH-------HHHHHHHHHc------CCCCEEEec
Confidence            32      122222222211      2467999999999865322111       2234444432      233567778


Q ss_pred             CCCCCCcH-HHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHH
Q 016044          235 NRPSELDE-AILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQA  303 (396)
Q Consensus       235 n~~~~l~~-~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A  303 (396)
                      |.+..+.. .+++|+ ..+.|++|+..+...+++.++....+. ++..++.|+..+.|    |++.+++..
T Consensus       138 n~~~~~~~k~Lrsr~-~~I~f~~~~~~~i~~~L~~i~~~egi~i~~eaL~~Ia~~s~G----DlR~ain~L  203 (482)
T PRK04195        138 NDPYDPSLRELRNAC-LMIEFKRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGG----DLRSAINDL  203 (482)
T ss_pred             cCccccchhhHhccc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC----CHHHHHHHH
Confidence            88888877 677777 889999999999999999999766554 22336677776654    666665543

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.73  E-value=1.1e-16  Score=162.45  Aligned_cols=187  Identities=20%  Similarity=0.258  Sum_probs=130.9

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc------------
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV------------  150 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~------------  150 (396)
                      .+.+|++|+|++.+++.|...+..          +   +-++.+||+||+|+|||++|+++|+.+++.            
T Consensus        11 RP~~f~dviGQe~vv~~L~~~l~~----------~---rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~~p   77 (618)
T PRK14951         11 RPRSFSEMVGQEHVVQALTNALTQ----------Q---RLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITATP   77 (618)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc----------C---CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCCCC
Confidence            357999999999999999877642          1   235778999999999999999999988652            


Q ss_pred             -----------------EEEEecccccchhhchHHHHHHHHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhh
Q 016044          151 -----------------FINVRISNLMSKWFGDAQKLVAAVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNM  209 (396)
Q Consensus       151 -----------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~  209 (396)
                                       ++.++...  .    ..-..++.+...+..    ....|++|||+|.|...           .
T Consensus        78 Cg~C~~C~~i~~g~h~D~~eldaas--~----~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~-----------a  140 (618)
T PRK14951         78 CGVCQACRDIDSGRFVDYTELDAAS--N----RGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNT-----------A  140 (618)
T ss_pred             CCccHHHHHHHcCCCCceeecCccc--c----cCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHH-----------H
Confidence                             22222111  0    011223444433321    22469999999998322           1


Q ss_pred             HHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhC
Q 016044          210 KTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLC  288 (396)
Q Consensus       210 ~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~  288 (396)
                      .+.+++.++    +.+..+.+|++|+.+..+...+++|| ..+.|..++.++....++..+...+.. .+..+..|++.+
T Consensus       141 ~NaLLKtLE----EPP~~~~fIL~Ttd~~kil~TIlSRc-~~~~f~~Ls~eei~~~L~~i~~~egi~ie~~AL~~La~~s  215 (618)
T PRK14951        141 FNAMLKTLE----EPPEYLKFVLATTDPQKVPVTVLSRC-LQFNLRPMAPETVLEHLTQVLAAENVPAEPQALRLLARAA  215 (618)
T ss_pred             HHHHHHhcc----cCCCCeEEEEEECCchhhhHHHHHhc-eeeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHc
Confidence            234555444    24567788888888889999999999 999999999999999999988766554 223367788888


Q ss_pred             CCCcHHHHHHHHHHHHH
Q 016044          289 EGFTGSDLLEVCKQAAY  305 (396)
Q Consensus       289 ~g~s~~di~~l~~~A~~  305 (396)
                      .| +.+++.++++.+..
T Consensus       216 ~G-slR~al~lLdq~ia  231 (618)
T PRK14951        216 RG-SMRDALSLTDQAIA  231 (618)
T ss_pred             CC-CHHHHHHHHHHHHH
Confidence            86 66777777665443

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

Probab=99.72  E-value=1.3e-16  Score=158.81  Aligned_cols=257  Identities=19%  Similarity=0.261  Sum_probs=161.6

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc--------
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM--------  160 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~--------  160 (396)
                      |-.|++++|.++.+++......+.    .    ...-++|+||||+|||+|+++||+.+|..|+.++...+.        
T Consensus       324 dHYGLekVKeRIlEyLAV~~l~~~----~----kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR~sLGGvrDEAEIRGH  395 (782)
T COG0466         324 DHYGLEKVKERILEYLAVQKLTKK----L----KGPILCLVGPPGVGKTSLGKSIAKALGRKFVRISLGGVRDEAEIRGH  395 (782)
T ss_pred             cccCchhHHHHHHHHHHHHHHhcc----C----CCcEEEEECCCCCCchhHHHHHHHHhCCCEEEEecCccccHHHhccc
Confidence            568999999999888754221111    1    124478999999999999999999999999999875553        


Q ss_pred             -chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHH--HHHHhhccCc--CCCCcEEEEEecC
Q 016044          161 -SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTE--FMALWDGFTT--DQNARVMVLAATN  235 (396)
Q Consensus       161 -~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~--ll~~l~~~~~--~~~~~v~vI~atn  235 (396)
                       ..|+|.....+-+-...+...+ .+++|||||.+..+-+.....++..++.-  -....|.+..  .+-++|++|+|+|
T Consensus       396 RRTYIGamPGrIiQ~mkka~~~N-Pv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTAN  474 (782)
T COG0466         396 RRTYIGAMPGKIIQGMKKAGVKN-PVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATAN  474 (782)
T ss_pred             cccccccCChHHHHHHHHhCCcC-CeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEEEeecC
Confidence             2477887777777677776655 48999999999776554444333322110  0001111111  1235799999999


Q ss_pred             CCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhc-----CCCCC-CCC--CHHHHHHhCCCCcH--------HHHHHH
Q 016044          236 RPSELDEAILRRLPQAFEIGMPDRKERAQILKVILK-----GEKVE-ENI--DFDYLAGLCEGFTG--------SDLLEV  299 (396)
Q Consensus       236 ~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~-----~~~~~-~~~--~l~~la~~~~g~s~--------~di~~l  299 (396)
                      ..+.++.+|++|+ .+|+++-++.+|..+|.+.++-     ...+. .++  .-+.|-.....|+.        ++|..+
T Consensus       475 sl~tIP~PLlDRM-EiI~lsgYt~~EKl~IAk~~LiPk~~~~~gL~~~el~i~d~ai~~iI~~YTREAGVR~LeR~i~ki  553 (782)
T COG0466         475 SLDTIPAPLLDRM-EVIRLSGYTEDEKLEIAKRHLIPKQLKEHGLKKGELTITDEAIKDIIRYYTREAGVRNLEREIAKI  553 (782)
T ss_pred             ccccCChHHhcce-eeeeecCCChHHHHHHHHHhcchHHHHHcCCCccceeecHHHHHHHHHHHhHhhhhhHHHHHHHHH
Confidence            9999999999999 9999999999999999998873     22332 111  11222222222221        133333


Q ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCC-CCCCHHHHHHHHHhcccchhhhhhhhcc--CCCCCccccCCCc
Q 016044          300 CKQAAYFSIRELLDEERKGKPAAAP-RPLSRLDLEKVLTTSRKTRVAATEYTLN--SQSSGWSRNNESN  365 (396)
Q Consensus       300 ~~~A~~~a~~~~~~~~~~~~~~~~~-~~i~~~d~~~al~~~~~~~~~~~~~~~~--~~~~~w~di~~~~  365 (396)
                      |+.++..-+.          ..... ..++..++.+-|...+-...........  ..-.+|..+||..
T Consensus       554 ~RK~~~~i~~----------~~~k~~~~i~~~~l~~yLG~~~f~~~~~~~~~~vGvVtGLAWT~vGGd~  612 (782)
T COG0466         554 CRKAAKKILL----------KKEKSIVKIDEKNLKKYLGVPVFRYGKAEEEDQVGVVTGLAWTEVGGDL  612 (782)
T ss_pred             HHHHHHHHHh----------cCcccceeeCHHHHHHHhCCcccCccccccCCCCeeEeeeeeecCCceE
Confidence            3333222221          11111 4688888888887654443222222222  3346799999853

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.72  E-value=1.8e-16  Score=160.05  Aligned_cols=187  Identities=21%  Similarity=0.253  Sum_probs=131.8

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc------------
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV------------  150 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~------------  150 (396)
                      .+.+|++|+|++.+++.|...+..             -+.++.+||+||||+|||++|+.+|+.+++.            
T Consensus        11 rP~~f~divGq~~v~~~L~~~i~~-------------~~~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~   77 (527)
T PRK14969         11 RPKSFSELVGQEHVVRALTNALEQ-------------QRLHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCS   77 (527)
T ss_pred             CCCcHHHhcCcHHHHHHHHHHHHc-------------CCCCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCH
Confidence            356999999999999999877642             1235778999999999999999999988652            


Q ss_pred             ------------EEEEecccccchhhchHHHHHHHHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHHHHH
Q 016044          151 ------------FINVRISNLMSKWFGDAQKLVAAVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFM  214 (396)
Q Consensus       151 ------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll  214 (396)
                                  ++.++.+.      ...-..++.+...+..    ....|++|||+|.+..           ...+.++
T Consensus        78 ~C~~i~~~~~~d~~ei~~~~------~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~-----------~a~naLL  140 (527)
T PRK14969         78 ACLEIDSGRFVDLIEVDAAS------NTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSK-----------SAFNAML  140 (527)
T ss_pred             HHHHHhcCCCCceeEeeccc------cCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCH-----------HHHHHHH
Confidence                        12222111      0112234444444422    2346999999998832           1233556


Q ss_pred             HHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcH
Q 016044          215 ALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTG  293 (396)
Q Consensus       215 ~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~  293 (396)
                      +.++.    .+..+.+|++|+.+..+.+.+++|| ..+.|..++.++....+...+...+.. .+..+..++..+.| +.
T Consensus       141 K~LEe----pp~~~~fIL~t~d~~kil~tI~SRc-~~~~f~~l~~~~i~~~L~~il~~egi~~~~~al~~la~~s~G-sl  214 (527)
T PRK14969        141 KTLEE----PPEHVKFILATTDPQKIPVTVLSRC-LQFNLKQMPPPLIVSHLQHILEQENIPFDATALQLLARAAAG-SM  214 (527)
T ss_pred             HHHhC----CCCCEEEEEEeCChhhCchhHHHHH-HHHhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Confidence            65553    3567888888888888888899999 999999999999999999988765544 22335677777776 66


Q ss_pred             HHHHHHHHHHHH
Q 016044          294 SDLLEVCKQAAY  305 (396)
Q Consensus       294 ~di~~l~~~A~~  305 (396)
                      +++.++++.+..
T Consensus       215 r~al~lldqai~  226 (527)
T PRK14969        215 RDALSLLDQAIA  226 (527)
T ss_pred             HHHHHHHHHHHH
Confidence            777777776643

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=99.72  E-value=2.2e-16  Score=153.36  Aligned_cols=187  Identities=17%  Similarity=0.181  Sum_probs=125.0

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcE--------------
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVF--------------  151 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~--------------  151 (396)
                      .|++|+|++.+++.|+..+......+..+.    ...++++||+||||+|||++|+++|+.+.+..              
T Consensus         3 ~f~~IiGq~~~~~~L~~~i~~~~~~~~~~~----~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~   78 (394)
T PRK07940          3 VWDDLVGQEAVVAELRAAARAARADVAAAG----SGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRT   78 (394)
T ss_pred             hhhhccChHHHHHHHHHHHHhccccccccC----CCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHH
Confidence            589999999999999999876543322221    12368899999999999999999999765431              


Q ss_pred             ---------EEEecccccchhhchHHHHHHHHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhh
Q 016044          152 ---------INVRISNLMSKWFGDAQKLVAAVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWD  218 (396)
Q Consensus       152 ---------~~i~~~~l~~~~~g~~~~~~~~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~  218 (396)
                               ..+.+..   ...  .-..++.++..+..    ....|++|||+|.+...           ..+.+++.++
T Consensus        79 ~~~~~hpD~~~i~~~~---~~i--~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~-----------aanaLLk~LE  142 (394)
T PRK07940         79 VLAGTHPDVRVVAPEG---LSI--GVDEVRELVTIAARRPSTGRWRIVVIEDADRLTER-----------AANALLKAVE  142 (394)
T ss_pred             HhcCCCCCEEEecccc---ccC--CHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHH-----------HHHHHHHHhh
Confidence                     1111110   111  11235555555543    23469999999998322           1235666665


Q ss_pred             ccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHH
Q 016044          219 GFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLE  298 (396)
Q Consensus       219 ~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~  298 (396)
                      .    ++.++++|.+|+.++.+.+++++|| ..+.|++|+.++..+++....   ... ......++..+.|..+..+.-
T Consensus       143 e----p~~~~~fIL~a~~~~~llpTIrSRc-~~i~f~~~~~~~i~~~L~~~~---~~~-~~~a~~la~~s~G~~~~A~~l  213 (394)
T PRK07940        143 E----PPPRTVWLLCAPSPEDVLPTIRSRC-RHVALRTPSVEAVAEVLVRRD---GVD-PETARRAARASQGHIGRARRL  213 (394)
T ss_pred             c----CCCCCeEEEEECChHHChHHHHhhC-eEEECCCCCHHHHHHHHHHhc---CCC-HHHHHHHHHHcCCCHHHHHHH
Confidence            3    3444555656666899999999999 899999999999888876422   222 223557888899977766555


Q ss_pred             HHH
Q 016044          299 VCK  301 (396)
Q Consensus       299 l~~  301 (396)
                      +.+
T Consensus       214 ~~~  216 (394)
T PRK07940        214 ATD  216 (394)
T ss_pred             hcC
Confidence            443

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.72  E-value=3.4e-16  Score=156.98  Aligned_cols=186  Identities=19%  Similarity=0.236  Sum_probs=128.3

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCC-------------
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA-------------  149 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~-------------  149 (396)
                      .+.+|++++|++.+++.|...+..          +   +.++.+||+||+|+|||++|+.+|+.+++             
T Consensus        11 RP~~f~diiGq~~~v~~L~~~i~~----------~---rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~   77 (546)
T PRK14957         11 RPQSFAEVAGQQHALNSLVHALET----------Q---KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCE   77 (546)
T ss_pred             CcCcHHHhcCcHHHHHHHHHHHHc----------C---CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccH
Confidence            357999999999999998876642          1   23567899999999999999999997764             


Q ss_pred             -----------cEEEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHH
Q 016044          150 -----------VFINVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFM  214 (396)
Q Consensus       150 -----------~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll  214 (396)
                                 .++.++...-  ..+.    .++.+...+.    .....|++|||+|.+..           ...+.|+
T Consensus        78 sC~~i~~~~~~dlieidaas~--~gvd----~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~-----------~a~naLL  140 (546)
T PRK14957         78 NCVAINNNSFIDLIEIDAASR--TGVE----ETKEILDNIQYMPSQGRYKVYLIDEVHMLSK-----------QSFNALL  140 (546)
T ss_pred             HHHHHhcCCCCceEEeecccc--cCHH----HHHHHHHHHHhhhhcCCcEEEEEechhhccH-----------HHHHHHH
Confidence                       1222222110  0111    2233333222    23457999999998832           1233555


Q ss_pred             HHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcH
Q 016044          215 ALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTG  293 (396)
Q Consensus       215 ~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~  293 (396)
                      ..++.    .+..+.+|++|+.+..+.+.+++|+ ..++|.+++.++....++..+...+.. .+..+..++..+.| +.
T Consensus       141 K~LEe----pp~~v~fIL~Ttd~~kil~tI~SRc-~~~~f~~Ls~~eI~~~L~~il~~egi~~e~~Al~~Ia~~s~G-dl  214 (546)
T PRK14957        141 KTLEE----PPEYVKFILATTDYHKIPVTILSRC-IQLHLKHISQADIKDQLKIILAKENINSDEQSLEYIAYHAKG-SL  214 (546)
T ss_pred             HHHhc----CCCCceEEEEECChhhhhhhHHHhe-eeEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Confidence            55553    3566778878888888888899999 999999999999999999988766544 22335677777765 66


Q ss_pred             HHHHHHHHHHH
Q 016044          294 SDLLEVCKQAA  304 (396)
Q Consensus       294 ~di~~l~~~A~  304 (396)
                      +++.++++.+.
T Consensus       215 R~alnlLek~i  225 (546)
T PRK14957        215 RDALSLLDQAI  225 (546)
T ss_pred             HHHHHHHHHHH
Confidence            66666666554

>PRK13342 recombination factor protein RarA; Reviewed

Probab=99.72  E-value=3.8e-16  Score=154.15  Aligned_cols=181  Identities=28%  Similarity=0.422  Sum_probs=122.8

Q ss_pred             CcccccccChHHHHHH---HHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           84 DVEFESIGGLETIKQA---LYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~---l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.+|++++|++.+...   +.+.+..              ....+++|+||||||||++|+++++..+..|+.+++....
T Consensus         8 P~~l~d~vGq~~~v~~~~~L~~~i~~--------------~~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~~l~a~~~~   73 (413)
T PRK13342          8 PKTLDEVVGQEHLLGPGKPLRRMIEA--------------GRLSSMILWGPPGTGKTTLARIIAGATDAPFEALSAVTSG   73 (413)
T ss_pred             CCCHHHhcCcHHHhCcchHHHHHHHc--------------CCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccc
Confidence            4689999999998665   7665531              1245799999999999999999999999999999876431


Q ss_pred             chhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEec--
Q 016044          161 SKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAAT--  234 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~at--  234 (396)
                             ...++.++..+.    .....+|||||+|.+....           ...++..++      ...+++|++|  
T Consensus        74 -------~~~ir~ii~~~~~~~~~g~~~vL~IDEi~~l~~~~-----------q~~LL~~le------~~~iilI~att~  129 (413)
T PRK13342         74 -------VKDLREVIEEARQRRSAGRRTILFIDEIHRFNKAQ-----------QDALLPHVE------DGTITLIGATTE  129 (413)
T ss_pred             -------HHHHHHHHHHHHHhhhcCCceEEEEechhhhCHHH-----------HHHHHHHhh------cCcEEEEEeCCC
Confidence                   122333444332    2256899999999873211           123333333      2346677665  


Q ss_pred             CCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCC--C-C-CCCCHHHHHHhCCCCcHHHHHHHHHHHH
Q 016044          235 NRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEK--V-E-ENIDFDYLAGLCEGFTGSDLLEVCKQAA  304 (396)
Q Consensus       235 n~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~--~-~-~~~~l~~la~~~~g~s~~di~~l~~~A~  304 (396)
                      |....+++++++|| ..+.+++++.++...+++..+....  . . .+..++.+++.+.| ..+.+.++++.++
T Consensus       130 n~~~~l~~aL~SR~-~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~G-d~R~aln~Le~~~  201 (413)
T PRK13342        130 NPSFEVNPALLSRA-QVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANG-DARRALNLLELAA  201 (413)
T ss_pred             ChhhhccHHHhccc-eeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            33457899999999 8899999999999999998875421  1 1 11225567777755 4445555555543

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.71  E-value=1.8e-16  Score=168.48  Aligned_cols=168  Identities=20%  Similarity=0.336  Sum_probs=127.5

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEE
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFIN  153 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~  153 (396)
                      +-.++.++|.++..+.+.+.+.              .+...+++|+||||||||++|+.+|...          +.+++.
T Consensus       174 ~~~l~~vigr~~ei~~~i~iL~--------------r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~  239 (857)
T PRK10865        174 QGKLDPVIGRDEEIRRTIQVLQ--------------RRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLA  239 (857)
T ss_pred             cCCCCcCCCCHHHHHHHHHHHh--------------cCCcCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEE
Confidence            3468899999998777765543              1224679999999999999999999987          678888


Q ss_pred             Eeccccc--chhhchHHHHHHHHHHHHHH-hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEE
Q 016044          154 VRISNLM--SKWFGDAQKLVAAVFSLAYK-LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMV  230 (396)
Q Consensus       154 i~~~~l~--~~~~g~~~~~~~~~f~~a~~-~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~v  230 (396)
                      ++...+.  .++.|+.+..++.+|..... ..++||||||+|.+.+............+   +...+      .++.+.+
T Consensus       240 l~l~~l~ag~~~~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~---lkp~l------~~g~l~~  310 (857)
T PRK10865        240 LDMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNM---LKPAL------ARGELHC  310 (857)
T ss_pred             EehhhhhhccchhhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHH---hcchh------hcCCCeE
Confidence            8888765  45789999999999987644 46789999999999866533222111222   11111      2567899


Q ss_pred             EEecCCCC-----CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCC
Q 016044          231 LAATNRPS-----ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKV  275 (396)
Q Consensus       231 I~atn~~~-----~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~  275 (396)
                      ||+|+..+     .+|+++.||| ..|.++.|+.+++..|++.+......
T Consensus       311 IgaTt~~e~r~~~~~d~al~rRf-~~i~v~eP~~~~~~~iL~~l~~~~e~  359 (857)
T PRK10865        311 VGATTLDEYRQYIEKDAALERRF-QKVFVAEPSVEDTIAILRGLKERYEL  359 (857)
T ss_pred             EEcCCCHHHHHHhhhcHHHHhhC-CEEEeCCCCHHHHHHHHHHHhhhhcc
Confidence            99999765     4799999999 57889999999999999887765443

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=99.71  E-value=4.2e-16  Score=158.39  Aligned_cols=187  Identities=25%  Similarity=0.322  Sum_probs=132.1

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-----------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-----------  150 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-----------  150 (396)
                      ..+.+|++++|++.+++.|+..+..             -+.++.+||+||+|||||++|+.+|+.+++.           
T Consensus        10 ~rP~~f~~viGq~~v~~~L~~~i~~-------------~~~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~~~pC~~C   76 (559)
T PRK05563         10 WRPQTFEDVVGQEHITKTLKNAIKQ-------------GKISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPDGEPCNEC   76 (559)
T ss_pred             hCCCcHHhccCcHHHHHHHHHHHHc-------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCcc
Confidence            3467999999999999999887652             1235778999999999999999999987532           


Q ss_pred             -------------EEEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHH
Q 016044          151 -------------FINVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEF  213 (396)
Q Consensus       151 -------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~l  213 (396)
                                   ++.++...      +..-..++.+...+.    .....|++|||+|.|..           ...+.|
T Consensus        77 ~~C~~i~~g~~~dv~eidaas------~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~-----------~a~naL  139 (559)
T PRK05563         77 EICKAITNGSLMDVIEIDAAS------NNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLST-----------GAFNAL  139 (559)
T ss_pred             HHHHHHhcCCCCCeEEeeccc------cCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCH-----------HHHHHH
Confidence                         23333211      111223444444433    22347999999998832           123355


Q ss_pred             HHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCc
Q 016044          214 MALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFT  292 (396)
Q Consensus       214 l~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s  292 (396)
                      +..++.    ++..+++|.+|+.++.+.+.+++|+ ..+.|++|+.++....++..+...++. ++..+..++..+.| +
T Consensus       140 LKtLEe----pp~~~ifIlatt~~~ki~~tI~SRc-~~~~f~~~~~~ei~~~L~~i~~~egi~i~~~al~~ia~~s~G-~  213 (559)
T PRK05563        140 LKTLEE----PPAHVIFILATTEPHKIPATILSRC-QRFDFKRISVEDIVERLKYILDKEGIEYEDEALRLIARAAEG-G  213 (559)
T ss_pred             HHHhcC----CCCCeEEEEEeCChhhCcHHHHhHh-eEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-C
Confidence            555543    3567788888888999999999999 789999999999999999998766554 22336677887776 6


Q ss_pred             HHHHHHHHHHHH
Q 016044          293 GSDLLEVCKQAA  304 (396)
Q Consensus       293 ~~di~~l~~~A~  304 (396)
                      .++..++++.+.
T Consensus       214 ~R~al~~Ldq~~  225 (559)
T PRK05563        214 MRDALSILDQAI  225 (559)
T ss_pred             HHHHHHHHHHHH
Confidence            666666666554

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.71  E-value=5.2e-16  Score=155.40  Aligned_cols=186  Identities=21%  Similarity=0.290  Sum_probs=127.8

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-----------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-----------  150 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-----------  150 (396)
                      +.+.+|++|+|++.+++.|...+..          +   ..++.+||+||||||||++|+++|+.+.+.           
T Consensus         8 yRP~~~~dvvGq~~v~~~L~~~i~~----------~---~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~   74 (504)
T PRK14963          8 ARPITFDEVVGQEHVKEVLLAALRQ----------G---RLGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECE   74 (504)
T ss_pred             hCCCCHHHhcChHHHHHHHHHHHHc----------C---CCCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcCh
Confidence            4467999999999999999887652          1   235668999999999999999999987531           


Q ss_pred             ------------EEEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHH
Q 016044          151 ------------FINVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFM  214 (396)
Q Consensus       151 ------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll  214 (396)
                                  ++.++.+.-  .    .-..++.+...+.    ...+.+++|||+|.+..           ...+.++
T Consensus        75 sc~~i~~~~h~dv~el~~~~~--~----~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~-----------~a~naLL  137 (504)
T PRK14963         75 SCLAVRRGAHPDVLEIDAASN--N----SVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSK-----------SAFNALL  137 (504)
T ss_pred             hhHHHhcCCCCceEEeccccc--C----CHHHHHHHHHHHhhccccCCCeEEEEECccccCH-----------HHHHHHH
Confidence                        333333210  1    1122333333222    23457999999997621           1233455


Q ss_pred             HHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcH
Q 016044          215 ALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTG  293 (396)
Q Consensus       215 ~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~  293 (396)
                      ..++.    .+..+++|.+++.+..+.+.+.+|+ ..+.|.+|+.++....++..+...+.. ++-.+..++..+.| +.
T Consensus       138 k~LEe----p~~~t~~Il~t~~~~kl~~~I~SRc-~~~~f~~ls~~el~~~L~~i~~~egi~i~~~Al~~ia~~s~G-dl  211 (504)
T PRK14963        138 KTLEE----PPEHVIFILATTEPEKMPPTILSRT-QHFRFRRLTEEEIAGKLRRLLEAEGREAEPEALQLVARLADG-AM  211 (504)
T ss_pred             HHHHh----CCCCEEEEEEcCChhhCChHHhcce-EEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Confidence            55543    2456778888888899999999999 789999999999999999998766554 22336677887776 44


Q ss_pred             HHHHHHHHHH
Q 016044          294 SDLLEVCKQA  303 (396)
Q Consensus       294 ~di~~l~~~A  303 (396)
                      +++.++++..
T Consensus       212 R~aln~Lekl  221 (504)
T PRK14963        212 RDAESLLERL  221 (504)
T ss_pred             HHHHHHHHHH
Confidence            5555555443

>PLN03025 replication factor C subunit; Provisional

Probab=99.71  E-value=3.1e-16  Score=149.68  Aligned_cols=177  Identities=20%  Similarity=0.217  Sum_probs=119.6

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC-----CcEEEEe
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG-----AVFINVR  155 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~-----~~~~~i~  155 (396)
                      .+.+.+|++++|++++++.|+.++..          +    ...++||+||||||||++|+++|+++.     ..++.++
T Consensus         6 kyrP~~l~~~~g~~~~~~~L~~~~~~----------~----~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln   71 (319)
T PLN03025          6 KYRPTKLDDIVGNEDAVSRLQVIARD----------G----NMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELN   71 (319)
T ss_pred             hcCCCCHHHhcCcHHHHHHHHHHHhc----------C----CCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeec
Confidence            34577999999999999999776531          1    124699999999999999999999872     2356666


Q ss_pred             cccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEE
Q 016044          156 ISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVL  231 (396)
Q Consensus       156 ~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI  231 (396)
                      .++..+.  ......+.. +....    ...+.+++|||+|.+....    +       +.++..++..    +....+|
T Consensus        72 ~sd~~~~--~~vr~~i~~-~~~~~~~~~~~~~kviiiDE~d~lt~~a----q-------~aL~~~lE~~----~~~t~~i  133 (319)
T PLN03025         72 ASDDRGI--DVVRNKIKM-FAQKKVTLPPGRHKIVILDEADSMTSGA----Q-------QALRRTMEIY----SNTTRFA  133 (319)
T ss_pred             ccccccH--HHHHHHHHH-HHhccccCCCCCeEEEEEechhhcCHHH----H-------HHHHHHHhcc----cCCceEE
Confidence            6543221  111111111 11110    1235799999999984321    1       1333333322    3345677


Q ss_pred             EecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCC
Q 016044          232 AATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEG  290 (396)
Q Consensus       232 ~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g  290 (396)
                      .+||.+..+.+++++|+ ..+.|++|+.++....++..++..+.. .+..+..++..+.|
T Consensus       134 l~~n~~~~i~~~L~SRc-~~i~f~~l~~~~l~~~L~~i~~~egi~i~~~~l~~i~~~~~g  192 (319)
T PLN03025        134 LACNTSSKIIEPIQSRC-AIVRFSRLSDQEILGRLMKVVEAEKVPYVPEGLEAIIFTADG  192 (319)
T ss_pred             EEeCCccccchhHHHhh-hcccCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Confidence            78888889999999999 789999999999999999998766554 23346677776665

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

Probab=99.71  E-value=3.8e-16  Score=144.03  Aligned_cols=211  Identities=26%  Similarity=0.358  Sum_probs=138.4

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc---EEEEeccccc
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV---FINVRISNLM  160 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~---~~~i~~~~l~  160 (396)
                      +.+++|.+|++.+..+ ..++.      .+...+    .-..++||||||||||++|+.|+.....+   |++++...- 
T Consensus       134 PktL~dyvGQ~hlv~q-~gllr------s~ieq~----~ipSmIlWGppG~GKTtlArlia~tsk~~SyrfvelSAt~a-  201 (554)
T KOG2028|consen  134 PKTLDDYVGQSHLVGQ-DGLLR------SLIEQN----RIPSMILWGPPGTGKTTLARLIASTSKKHSYRFVELSATNA-  201 (554)
T ss_pred             cchHHHhcchhhhcCc-chHHH------HHHHcC----CCCceEEecCCCCchHHHHHHHHhhcCCCceEEEEEecccc-
Confidence            5678888888876554 11111      111112    23679999999999999999999977654   666665432 


Q ss_pred             chhhchHHHHHHHHHHHHHHh-----CCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEec-
Q 016044          161 SKWFGDAQKLVAAVFSLAYKL-----QPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAAT-  234 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~-----~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~at-  234 (396)
                            .-+-++.+|+.++..     ...|||||||+++....+.           .|+-.+      .++.|.+|++| 
T Consensus       202 ------~t~dvR~ife~aq~~~~l~krkTilFiDEiHRFNksQQD-----------~fLP~V------E~G~I~lIGATT  258 (554)
T KOG2028|consen  202 ------KTNDVRDIFEQAQNEKSLTKRKTILFIDEIHRFNKSQQD-----------TFLPHV------ENGDITLIGATT  258 (554)
T ss_pred             ------chHHHHHHHHHHHHHHhhhcceeEEEeHHhhhhhhhhhh-----------ccccee------ccCceEEEeccc
Confidence                  234567777766543     3479999999998544332           222211      25678899887 


Q ss_pred             -CCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhc---C-----CCCCC------CCCHHHHHHhCCCCcHHHHHHH
Q 016044          235 -NRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILK---G-----EKVEE------NIDFDYLAGLCEGFTGSDLLEV  299 (396)
Q Consensus       235 -n~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~---~-----~~~~~------~~~l~~la~~~~g~s~~di~~l  299 (396)
                       |+.-.++.+|++|| .++.+...+.++...||.....   .     .++..      +--++.++..++|-....|..|
T Consensus       259 ENPSFqln~aLlSRC-~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDaR~aLN~L  337 (554)
T KOG2028|consen  259 ENPSFQLNAALLSRC-RVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDARAALNAL  337 (554)
T ss_pred             CCCccchhHHHHhcc-ceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchHHHHHHHH
Confidence             45568999999999 8899999999999999987443   1     11111      1126788888888666555554


Q ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          300 CKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       300 ~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                      --.+.+.+.+..         ......++.+|+.++|..-
T Consensus       338 ems~~m~~tr~g---------~~~~~~lSidDvke~lq~s  368 (554)
T KOG2028|consen  338 EMSLSMFCTRSG---------QSSRVLLSIDDVKEGLQRS  368 (554)
T ss_pred             HHHHHHHHhhcC---------CcccceecHHHHHHHHhhc
Confidence            433333333321         1234679999999998764

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.70  E-value=6.6e-16  Score=156.33  Aligned_cols=191  Identities=17%  Similarity=0.241  Sum_probs=129.8

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-----------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-----------  150 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-----------  150 (396)
                      +.+.+|++|+|++.+++.|+..+..          +   +.++.+||+||+|||||++|+++|+.+++.           
T Consensus         7 yRP~~f~eivGq~~i~~~L~~~i~~----------~---r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C   73 (584)
T PRK14952          7 YRPATFAEVVGQEHVTEPLSSALDA----------G---RINHAYLFSGPRGCGKTSSARILARSLNCAQGPTATPCGVC   73 (584)
T ss_pred             hCCCcHHHhcCcHHHHHHHHHHHHc----------C---CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCccccc
Confidence            3467999999999999999887642          1   235678999999999999999999987642           


Q ss_pred             ---------------EEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHH
Q 016044          151 ---------------FINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMA  215 (396)
Q Consensus       151 ---------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~  215 (396)
                                     ++.++.+..  ..+.+.......+..........|++|||+|.|...           ..+.|++
T Consensus        74 ~~C~~i~~~~~~~~dvieidaas~--~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~-----------A~NALLK  140 (584)
T PRK14952         74 ESCVALAPNGPGSIDVVELDAASH--GGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTA-----------GFNALLK  140 (584)
T ss_pred             HHHHHhhcccCCCceEEEeccccc--cCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHH-----------HHHHHHH
Confidence                           122222110  011222222222211112234479999999998322           2335566


Q ss_pred             HhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHH
Q 016044          216 LWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGS  294 (396)
Q Consensus       216 ~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~  294 (396)
                      .++.    .+..+++|++|+.++.+.+++++|+ ..+.|..++.++..+.++.++...+.. ++..+..++..+.| +.+
T Consensus       141 ~LEE----pp~~~~fIL~tte~~kll~TI~SRc-~~~~F~~l~~~~i~~~L~~i~~~egi~i~~~al~~Ia~~s~G-dlR  214 (584)
T PRK14952        141 IVEE----PPEHLIFIFATTEPEKVLPTIRSRT-HHYPFRLLPPRTMRALIARICEQEGVVVDDAVYPLVIRAGGG-SPR  214 (584)
T ss_pred             HHhc----CCCCeEEEEEeCChHhhHHHHHHhc-eEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHH
Confidence            5553    4567888888888899999999998 899999999999999999998866543 22235556666665 666


Q ss_pred             HHHHHHHHHH
Q 016044          295 DLLEVCKQAA  304 (396)
Q Consensus       295 di~~l~~~A~  304 (396)
                      ++.++++...
T Consensus       215 ~aln~Ldql~  224 (584)
T PRK14952        215 DTLSVLDQLL  224 (584)
T ss_pred             HHHHHHHHHH
Confidence            6666666544

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=99.70  E-value=1.9e-16  Score=157.02  Aligned_cols=173  Identities=20%  Similarity=0.313  Sum_probs=123.7

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc--------
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM--------  160 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~--------  160 (396)
                      |-.|++++|+++-+++-.-..        +.....+-++|+||||+|||+++++||+.+|..|+.++...+.        
T Consensus       412 DHYgm~dVKeRILEfiAV~kL--------rgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkFfRfSvGG~tDvAeIkGH  483 (906)
T KOG2004|consen  412 DHYGMEDVKERILEFIAVGKL--------RGSVQGKILCFVGPPGVGKTSIAKSIARALNRKFFRFSVGGMTDVAEIKGH  483 (906)
T ss_pred             cccchHHHHHHHHHHHHHHhh--------cccCCCcEEEEeCCCCCCcccHHHHHHHHhCCceEEEeccccccHHhhccc
Confidence            678999999999887653111        1112235588999999999999999999999999998875543        


Q ss_pred             -chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHH--HHHHHhhccCc--CCCCcEEEEEecC
Q 016044          161 -SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKT--EFMALWDGFTT--DQNARVMVLAATN  235 (396)
Q Consensus       161 -~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~--~ll~~l~~~~~--~~~~~v~vI~atn  235 (396)
                       ..|+|.....+-+.+......+ .+++|||+|.+.+.-+.....++..++.  +-.+.+|.+..  -+-++|++|||+|
T Consensus       484 RRTYVGAMPGkiIq~LK~v~t~N-PliLiDEvDKlG~g~qGDPasALLElLDPEQNanFlDHYLdVp~DLSkVLFicTAN  562 (906)
T KOG2004|consen  484 RRTYVGAMPGKIIQCLKKVKTEN-PLILIDEVDKLGSGHQGDPASALLELLDPEQNANFLDHYLDVPVDLSKVLFICTAN  562 (906)
T ss_pred             ceeeeccCChHHHHHHHhhCCCC-ceEEeehhhhhCCCCCCChHHHHHHhcChhhccchhhhccccccchhheEEEEecc
Confidence             2477777777666666665555 4888999999974433333322221110  00011222111  1235799999999


Q ss_pred             CCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhc
Q 016044          236 RPSELDEAILRRLPQAFEIGMPDRKERAQILKVILK  271 (396)
Q Consensus       236 ~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~  271 (396)
                      ..+.++++|++|+ ..|+++-+..+|...|.+.++-
T Consensus       563 ~idtIP~pLlDRM-EvIelsGYv~eEKv~IA~~yLi  597 (906)
T KOG2004|consen  563 VIDTIPPPLLDRM-EVIELSGYVAEEKVKIAERYLI  597 (906)
T ss_pred             ccccCChhhhhhh-heeeccCccHHHHHHHHHHhhh
Confidence            9999999999999 9999999999999999998873

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=99.70  E-value=3.8e-16  Score=155.94  Aligned_cols=198  Identities=21%  Similarity=0.346  Sum_probs=125.7

Q ss_pred             CCccccccc-C--hHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEE
Q 016044           83 IDVEFESIG-G--LETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINV  154 (396)
Q Consensus        83 ~~~~~~~i~-G--~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i  154 (396)
                      +..+|++++ |  +..+...+.++...|         +   ...++++||||||||||+|++++++++     +..++++
T Consensus       117 ~~~tfd~fv~g~~n~~a~~~~~~~~~~~---------~---~~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi  184 (450)
T PRK00149        117 PKYTFDNFVVGKSNRLAHAAALAVAENP---------G---KAYNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYV  184 (450)
T ss_pred             CCCcccccccCCCcHHHHHHHHHHHhCc---------C---ccCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEE
Confidence            456888854 4  233445554443321         0   123579999999999999999999976     5668889


Q ss_pred             ecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEec
Q 016044          155 RISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAAT  234 (396)
Q Consensus       155 ~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~at  234 (396)
                      ++.++...+...........|..... .+.+|+|||+|.+.++..         ...+++..++....  ....++|++.
T Consensus       185 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~dlLiiDDi~~l~~~~~---------~~~~l~~~~n~l~~--~~~~iiits~  252 (450)
T PRK00149        185 TSEKFTNDFVNALRNNTMEEFKEKYR-SVDVLLIDDIQFLAGKER---------TQEEFFHTFNALHE--AGKQIVLTSD  252 (450)
T ss_pred             EHHHHHHHHHHHHHcCcHHHHHHHHh-cCCEEEEehhhhhcCCHH---------HHHHHHHHHHHHHH--CCCcEEEECC
Confidence            98887665544332211122222222 468999999999854431         11234444444332  2234556555


Q ss_pred             CCCCC---CcHHHHhccC--CceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHH
Q 016044          235 NRPSE---LDEAILRRLP--QAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAY  305 (396)
Q Consensus       235 n~~~~---l~~~l~~R~~--~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~  305 (396)
                      ..|..   +++.+.+||.  ..+.+.+|+.++|..|++..+...... ++-.++.||..+.| +.++|..++.....
T Consensus       253 ~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~~~~~~~l~~e~l~~ia~~~~~-~~R~l~~~l~~l~~  328 (450)
T PRK00149        253 RPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAILKKKAEEEGIDLPDEVLEFIAKNITS-NVRELEGALNRLIA  328 (450)
T ss_pred             CCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHcCcCC-CHHHHHHHHHHHHH
Confidence            55554   6789999995  478999999999999999998754432 22237778887775 55666666555443

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.70  E-value=8.3e-16  Score=155.17  Aligned_cols=187  Identities=20%  Similarity=0.259  Sum_probs=125.8

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-----------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-----------  150 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-----------  150 (396)
                      +.+.+|++|+|++.+++.|...+..          +   +-++.+||+||+|||||++|+.+|+.+.+.           
T Consensus        10 yRP~sf~dIiGQe~v~~~L~~ai~~----------~---ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~~pCg~C   76 (624)
T PRK14959         10 YRPQTFAEVAGQETVKAILSRAAQE----------N---RVAPAYLFSGTRGVGKTTIARIFAKALNCETAPTGEPCNTC   76 (624)
T ss_pred             hCCCCHHHhcCCHHHHHHHHHHHHc----------C---CCCceEEEECCCCCCHHHHHHHHHHhccccCCCCCCCCccc
Confidence            3467999999999999999877642          1   124689999999999999999999988653           


Q ss_pred             -------------EEEEecccccchhhchHHHHHHHHHH-HHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHH
Q 016044          151 -------------FINVRISNLMSKWFGDAQKLVAAVFS-LAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMAL  216 (396)
Q Consensus       151 -------------~~~i~~~~l~~~~~g~~~~~~~~~f~-~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~  216 (396)
                                   ++.++...  ...+..... +...+. ........|+||||+|.|...           ..+.|+..
T Consensus        77 ~sC~~i~~g~hpDv~eId~a~--~~~Id~iR~-L~~~~~~~p~~g~~kVIIIDEad~Lt~~-----------a~naLLk~  142 (624)
T PRK14959         77 EQCRKVTQGMHVDVVEIDGAS--NRGIDDAKR-LKEAIGYAPMEGRYKVFIIDEAHMLTRE-----------AFNALLKT  142 (624)
T ss_pred             HHHHHHhcCCCCceEEEeccc--ccCHHHHHH-HHHHHHhhhhcCCceEEEEEChHhCCHH-----------HHHHHHHH
Confidence                         23333211  011112222 222222 112234579999999998321           23355555


Q ss_pred             hhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHH
Q 016044          217 WDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSD  295 (396)
Q Consensus       217 l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~d  295 (396)
                      ++.    ....+++|++|+.+..+.+.+++|+ ..+.|+.++.++...+|+..+...... ++..++.+++.+.| +.++
T Consensus       143 LEE----P~~~~ifILaTt~~~kll~TI~SRc-q~i~F~pLs~~eL~~~L~~il~~egi~id~eal~lIA~~s~G-dlR~  216 (624)
T PRK14959        143 LEE----PPARVTFVLATTEPHKFPVTIVSRC-QHFTFTRLSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAG-SVRD  216 (624)
T ss_pred             hhc----cCCCEEEEEecCChhhhhHHHHhhh-hccccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHH
Confidence            553    2456888888988889999999999 789999999999999999988765543 22336677777775 3344


Q ss_pred             HHHHHH
Q 016044          296 LLEVCK  301 (396)
Q Consensus       296 i~~l~~  301 (396)
                      +.++++
T Consensus       217 Al~lLe  222 (624)
T PRK14959        217 SMSLLG  222 (624)
T ss_pred             HHHHHH
Confidence            444444

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=99.69  E-value=1.3e-15  Score=155.86  Aligned_cols=193  Identities=21%  Similarity=0.268  Sum_probs=131.4

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEE---ecc-
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINV---RIS-  157 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i---~~~-  157 (396)
                      +.+.+|++|+|++.+++.|...+..          +   +.++.+||+||+|+|||++|+++|+.+.+.-...   .|. 
T Consensus        12 yRP~~f~dIiGQe~~v~~L~~aI~~----------~---rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~   78 (725)
T PRK07133         12 YRPKTFDDIVGQDHIVQTLKNIIKS----------N---KISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQE   78 (725)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHc----------C---CCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhH
Confidence            4577999999999999999887742          1   2357789999999999999999999876531100   010 


Q ss_pred             ---------cccc-hhhc-hHHHHHHHHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCc
Q 016044          158 ---------NLMS-KWFG-DAQKLVAAVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTT  222 (396)
Q Consensus       158 ---------~l~~-~~~g-~~~~~~~~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~  222 (396)
                               ++.. ...+ ..-..++.+...+..    ....|++|||+|.|...           ..+.|+..++.   
T Consensus        79 C~~~~~~~~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~-----------A~NALLKtLEE---  144 (725)
T PRK07133         79 CIENVNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKS-----------AFNALLKTLEE---  144 (725)
T ss_pred             HHHhhcCCCcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHH-----------HHHHHHHHhhc---
Confidence                     0000 0000 112234444444432    34479999999988421           23355655553   


Q ss_pred             CCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCC-CCCHHHHHHhCCCCcHHHHHHHHH
Q 016044          223 DQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE-NIDFDYLAGLCEGFTGSDLLEVCK  301 (396)
Q Consensus       223 ~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~-~~~l~~la~~~~g~s~~di~~l~~  301 (396)
                       ++..+++|++|+.++.+.+++++|| .++.|.+|+.++....++..+...+..- +..+..++..+.| +.+++..+++
T Consensus       145 -PP~~tifILaTte~~KLl~TI~SRc-q~ieF~~L~~eeI~~~L~~il~kegI~id~eAl~~LA~lS~G-slR~AlslLe  221 (725)
T PRK07133        145 -PPKHVIFILATTEVHKIPLTILSRV-QRFNFRRISEDEIVSRLEFILEKENISYEKNALKLIAKLSSG-SLRDALSIAE  221 (725)
T ss_pred             -CCCceEEEEEcCChhhhhHHHHhhc-eeEEccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHH
Confidence             4567888888888999999999999 7999999999999999998887655432 2236677877776 5566666665


Q ss_pred             HHH
Q 016044          302 QAA  304 (396)
Q Consensus       302 ~A~  304 (396)
                      .+.
T Consensus       222 kl~  224 (725)
T PRK07133        222 QVS  224 (725)
T ss_pred             HHH
Confidence            543

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.69  E-value=4.6e-15  Score=144.55  Aligned_cols=221  Identities=19%  Similarity=0.213  Sum_probs=141.1

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC---------CcEEEEeccc
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG---------AVFINVRISN  158 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~---------~~~~~i~~~~  158 (396)
                      ++++|.++.++.|...+...+      ..    ..+.+++|+||||||||++++++++++.         ..+++++|..
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~------~~----~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~   84 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPIL------RG----SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQI   84 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHH------cC----CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCC
Confidence            478999999999988765211      11    1246799999999999999999988652         5688888865


Q ss_pred             ccchh----------h--c--------hHHHHHHHHHHHHHH-hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHh
Q 016044          159 LMSKW----------F--G--------DAQKLVAAVFSLAYK-LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW  217 (396)
Q Consensus       159 l~~~~----------~--g--------~~~~~~~~~f~~a~~-~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l  217 (396)
                      ..+..          .  +        ........++..... ..+.||+|||+|.+.....        ..+..++...
T Consensus        85 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~--------~~L~~l~~~~  156 (365)
T TIGR02928        85 LDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDD--------DLLYQLSRAR  156 (365)
T ss_pred             CCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCc--------HHHHhHhccc
Confidence            43211          0  0        112223344443332 3457899999999963211        1222333221


Q ss_pred             hccCcCCCCcEEEEEecCCCC---CCcHHHHhccC-CceEeCCCCHHHHHHHHHHHhcCCCCC---CCCCHHHHHH---h
Q 016044          218 DGFTTDQNARVMVLAATNRPS---ELDEAILRRLP-QAFEIGMPDRKERAQILKVILKGEKVE---ENIDFDYLAG---L  287 (396)
Q Consensus       218 ~~~~~~~~~~v~vI~atn~~~---~l~~~l~~R~~-~~i~~~~P~~~er~~il~~~l~~~~~~---~~~~l~~la~---~  287 (396)
                      + .....+.++.+|+++|.++   .+++.+.+||. ..+.|++++.++..+|++..+......   .+..++.++.   .
T Consensus       157 ~-~~~~~~~~v~lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~  235 (365)
T TIGR02928       157 S-NGDLDNAKVGVIGISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQ  235 (365)
T ss_pred             c-ccCCCCCeEEEEEEECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHH
Confidence            1 1112246789999999875   57888888885 578999999999999999988521111   1111233333   3


Q ss_pred             CCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhcc
Q 016044          288 CEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSR  340 (396)
Q Consensus       288 ~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~  340 (396)
                      +.| ..+.+..+|+.|+..|..+.            ...|+.+|+..|+..+.
T Consensus       236 ~~G-d~R~al~~l~~a~~~a~~~~------------~~~it~~~v~~a~~~~~  275 (365)
T TIGR02928       236 EHG-DARKAIDLLRVAGEIAEREG------------AERVTEDHVEKAQEKIE  275 (365)
T ss_pred             hcC-CHHHHHHHHHHHHHHHHHcC------------CCCCCHHHHHHHHHHHH
Confidence            345 33455567778777665431            14699999999887764

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.

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.69  E-value=8.1e-16  Score=157.00  Aligned_cols=187  Identities=19%  Similarity=0.230  Sum_probs=131.0

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-----------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-----------  150 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-----------  150 (396)
                      ..+.+|++|+|++.+++.|...+..          +   ..++.+||+||+|+|||++|+++|+.+++.           
T Consensus        10 ~RP~~f~~iiGq~~v~~~L~~~i~~----------~---~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~~~c~~c   76 (576)
T PRK14965         10 YRPQTFSDLTGQEHVSRTLQNAIDT----------G---RVAHAFLFTGARGVGKTSTARILAKALNCEQGLTAEPCNVC   76 (576)
T ss_pred             hCCCCHHHccCcHHHHHHHHHHHHc----------C---CCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCCCCCCcc
Confidence            3467999999999999999887642          1   235778999999999999999999987642           


Q ss_pred             -------------EEEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHH
Q 016044          151 -------------FINVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEF  213 (396)
Q Consensus       151 -------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~l  213 (396)
                                   ++.++...-      ..-..++.+...+.    .....|++|||+|.|...           ..+.|
T Consensus        77 ~~c~~i~~g~~~d~~eid~~s~------~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~-----------a~naL  139 (576)
T PRK14965         77 PPCVEITEGRSVDVFEIDGASN------TGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTN-----------AFNAL  139 (576)
T ss_pred             HHHHHHhcCCCCCeeeeeccCc------cCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHH-----------HHHHH
Confidence                         222322110      01122344443332    123469999999988321           23355


Q ss_pred             HHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCc
Q 016044          214 MALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFT  292 (396)
Q Consensus       214 l~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s  292 (396)
                      ++.++.    ++..+++|++|+.++.+.+.+++|| ..+.|..++.++....+...++..++. ++..+..++..+.| +
T Consensus       140 Lk~LEe----pp~~~~fIl~t~~~~kl~~tI~SRc-~~~~f~~l~~~~i~~~L~~i~~~egi~i~~~al~~la~~a~G-~  213 (576)
T PRK14965        140 LKTLEE----PPPHVKFIFATTEPHKVPITILSRC-QRFDFRRIPLQKIVDRLRYIADQEGISISDAALALVARKGDG-S  213 (576)
T ss_pred             HHHHHc----CCCCeEEEEEeCChhhhhHHHHHhh-hhhhcCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCC-C
Confidence            665553    4567888888899999999999999 899999999999999999988766554 23346777888876 5


Q ss_pred             HHHHHHHHHHHH
Q 016044          293 GSDLLEVCKQAA  304 (396)
Q Consensus       293 ~~di~~l~~~A~  304 (396)
                      .+++.++++.+.
T Consensus       214 lr~al~~Ldqli  225 (576)
T PRK14965        214 MRDSLSTLDQVL  225 (576)
T ss_pred             HHHHHHHHHHHH
Confidence            556555555443

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.69  E-value=6.7e-16  Score=164.71  Aligned_cols=186  Identities=19%  Similarity=0.312  Sum_probs=135.4

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEE
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFIN  153 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~  153 (396)
                      +-.++.++|.++..+.+.+.+.              .+..++++|+||||||||++++.++...          +.+++.
T Consensus       169 ~~~~~~~igr~~ei~~~~~~l~--------------r~~~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~  234 (852)
T TIGR03346       169 EGKLDPVIGRDEEIRRTIQVLS--------------RRTKNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLA  234 (852)
T ss_pred             CCCCCcCCCcHHHHHHHHHHHh--------------cCCCCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEE
Confidence            3477889999998777766543              1224678999999999999999999875          677888


Q ss_pred             Eeccccc--chhhchHHHHHHHHHHHHHHh-CCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEE
Q 016044          154 VRISNLM--SKWFGDAQKLVAAVFSLAYKL-QPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMV  230 (396)
Q Consensus       154 i~~~~l~--~~~~g~~~~~~~~~f~~a~~~-~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~v  230 (396)
                      ++...+.  .++.|+.+..+..++..+... .+.||||||+|.+.+.........   ..+.+...+      ..+.+.+
T Consensus       235 l~~~~l~a~~~~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d---~~~~Lk~~l------~~g~i~~  305 (852)
T TIGR03346       235 LDMGALIAGAKYRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMD---AGNMLKPAL------ARGELHC  305 (852)
T ss_pred             eeHHHHhhcchhhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhH---HHHHhchhh------hcCceEE
Confidence            8887765  467889999999999988654 579999999999986443221111   111111111      2567899


Q ss_pred             EEecCCCC-----CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCC-----CHHHHHHhCCCCcH
Q 016044          231 LAATNRPS-----ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENI-----DFDYLAGLCEGFTG  293 (396)
Q Consensus       231 I~atn~~~-----~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~-----~l~~la~~~~g~s~  293 (396)
                      |++|+..+     .+|+++.||| ..+.++.|+.+++..|++.+...+.....+     .+...+..+.+|..
T Consensus       306 IgaTt~~e~r~~~~~d~al~rRf-~~i~v~~p~~~~~~~iL~~~~~~~e~~~~v~~~d~~i~~~~~ls~~yi~  377 (852)
T TIGR03346       306 IGATTLDEYRKYIEKDAALERRF-QPVFVDEPTVEDTISILRGLKERYEVHHGVRITDPAIVAAATLSHRYIT  377 (852)
T ss_pred             EEeCcHHHHHHHhhcCHHHHhcC-CEEEeCCCCHHHHHHHHHHHHHHhccccCCCCCHHHHHHHHHhcccccc
Confidence            99998753     5799999999 678999999999999999887665544332     34555666665543

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.69  E-value=2.5e-16  Score=167.49  Aligned_cols=185  Identities=21%  Similarity=0.333  Sum_probs=137.3

Q ss_pred             cccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEEE
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFINV  154 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~i  154 (396)
                      -.++.++|.++.++.+.+.+.              .+..++++|+||||||||++|+.+|...          +.+++.+
T Consensus       176 ~~~~~~igr~~ei~~~~~~L~--------------r~~~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l  241 (821)
T CHL00095        176 GNLDPVIGREKEIERVIQILG--------------RRTKNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITL  241 (821)
T ss_pred             CCCCCCCCcHHHHHHHHHHHc--------------ccccCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEe
Confidence            468899999999999887654              1235789999999999999999999975          4788999


Q ss_pred             eccccc--chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEE
Q 016044          155 RISNLM--SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLA  232 (396)
Q Consensus       155 ~~~~l~--~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~  232 (396)
                      +...+.  .++.|+.+..+..++..+....++||||||+|.+.+............   -|...+.      .+.+.+|+
T Consensus       242 ~~~~l~ag~~~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~---lLkp~l~------rg~l~~Ig  312 (821)
T CHL00095        242 DIGLLLAGTKYRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAAN---ILKPALA------RGELQCIG  312 (821)
T ss_pred             eHHHHhccCCCccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHH---HhHHHHh------CCCcEEEE
Confidence            988776  467899999999999999877789999999999987654322111111   2222222      56789999


Q ss_pred             ecCCCC-----CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcC----CCCC-CCCCHHHHHHhCCCCcH
Q 016044          233 ATNRPS-----ELDEAILRRLPQAFEIGMPDRKERAQILKVILKG----EKVE-ENIDFDYLAGLCEGFTG  293 (396)
Q Consensus       233 atn~~~-----~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~----~~~~-~~~~l~~la~~~~g~s~  293 (396)
                      +|+..+     ..++++.+|| ..+.++.|+.++...|++.....    ..+. .+-.+..++..+.+|.+
T Consensus       313 aTt~~ey~~~ie~D~aL~rRf-~~I~v~ep~~~e~~aILr~l~~~~e~~~~v~i~deal~~i~~ls~~yi~  382 (821)
T CHL00095        313 ATTLDEYRKHIEKDPALERRF-QPVYVGEPSVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLSDQYIA  382 (821)
T ss_pred             eCCHHHHHHHHhcCHHHHhcc-eEEecCCCCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCc
Confidence            998653     4689999999 67899999999999998865431    1221 22235666777777654

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=99.68  E-value=2.2e-15  Score=145.16  Aligned_cols=210  Identities=18%  Similarity=0.236  Sum_probs=133.1

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC-----CcEEEEe
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG-----AVFINVR  155 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~-----~~~~~i~  155 (396)
                      .+.+.+|++++|++.+++.+..++..          +    ...+++|+||||||||++|+++++++.     .+++.++
T Consensus         8 ky~P~~~~~~~g~~~~~~~L~~~~~~----------~----~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~   73 (337)
T PRK12402          8 KYRPALLEDILGQDEVVERLSRAVDS----------P----NLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFN   73 (337)
T ss_pred             hhCCCcHHHhcCCHHHHHHHHHHHhC----------C----CCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEec
Confidence            34567899999999999999876642          1    123699999999999999999999874     3567788


Q ss_pred             cccccchhh-------------ch-------HHHHHHHHHHHHHH-----hCCcEEEEccccccccCCCCCchHHHHhhH
Q 016044          156 ISNLMSKWF-------------GD-------AQKLVAAVFSLAYK-----LQPAIIFIDEVDSFLGQRRTSDHEALTNMK  210 (396)
Q Consensus       156 ~~~l~~~~~-------------g~-------~~~~~~~~f~~a~~-----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~  210 (396)
                      ++++.....             +.       ....++.+......     ..+.+|+|||+|.+...           ..
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~-----------~~  142 (337)
T PRK12402         74 VADFFDQGKKYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALRED-----------AQ  142 (337)
T ss_pred             hhhhhhcchhhhhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHH-----------HH
Confidence            776532210             00       01122222222222     23469999999987321           11


Q ss_pred             HHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCC
Q 016044          211 TEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCE  289 (396)
Q Consensus       211 ~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~  289 (396)
                      ..+...++..    +....+|.+++.+..+.+.+.+|+ ..+.+.+|+.++...+++..+...... ++..++.++..+.
T Consensus       143 ~~L~~~le~~----~~~~~~Il~~~~~~~~~~~L~sr~-~~v~~~~~~~~~~~~~l~~~~~~~~~~~~~~al~~l~~~~~  217 (337)
T PRK12402        143 QALRRIMEQY----SRTCRFIIATRQPSKLIPPIRSRC-LPLFFRAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAG  217 (337)
T ss_pred             HHHHHHHHhc----cCCCeEEEEeCChhhCchhhcCCc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcC
Confidence            1333344432    223455666666677888899998 789999999999999999988766554 2334666777664


Q ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHh
Q 016044          290 GFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTT  338 (396)
Q Consensus       290 g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~  338 (396)
                          ++++.+++.....+..              ...||.+++.+++..
T Consensus       218 ----gdlr~l~~~l~~~~~~--------------~~~It~~~v~~~~~~  248 (337)
T PRK12402        218 ----GDLRKAILTLQTAALA--------------AGEITMEAAYEALGD  248 (337)
T ss_pred             ----CCHHHHHHHHHHHHHc--------------CCCCCHHHHHHHhCC
Confidence                3555554433222110              124777777776654

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=99.68  E-value=1e-15  Score=151.00  Aligned_cols=171  Identities=23%  Similarity=0.380  Sum_probs=112.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQ  197 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~  197 (396)
                      .++++||||+|+|||+|++++++++     +..++++++.++...+...........|.... ..+.+|+|||+|.+.++
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~-~~~dlLiiDDi~~l~~~  214 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSSEKFTNDFVNALRNNKMEEFKEKY-RSVDLLLIDDIQFLAGK  214 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEHHHHHHHHHHHHHcCCHHHHHHHH-HhCCEEEEehhhhhcCC
Confidence            4679999999999999999999876     57788899887765543322211111122111 23579999999998544


Q ss_pred             CCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCC---CcHHHHhccCC--ceEeCCCCHHHHHHHHHHHhcC
Q 016044          198 RRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE---LDEAILRRLPQ--AFEIGMPDRKERAQILKVILKG  272 (396)
Q Consensus       198 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~---l~~~l~~R~~~--~i~~~~P~~~er~~il~~~l~~  272 (396)
                      ...         ..+++..++....  ....++|++...|..   +++.+++||..  .+.+++|+.++|..|++..+..
T Consensus       215 ~~~---------~~~l~~~~n~~~~--~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~~~~  283 (405)
T TIGR00362       215 ERT---------QEEFFHTFNALHE--NGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQKKAEE  283 (405)
T ss_pred             HHH---------HHHHHHHHHHHHH--CCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHHHHHH
Confidence            211         1134444443322  223355555555554   56889999964  6899999999999999999976


Q ss_pred             CCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHH
Q 016044          273 EKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYF  306 (396)
Q Consensus       273 ~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~  306 (396)
                      .... ++-.++.||....+ +.+++..++......
T Consensus       284 ~~~~l~~e~l~~ia~~~~~-~~r~l~~~l~~l~~~  317 (405)
T TIGR00362       284 EGLELPDEVLEFIAKNIRS-NVRELEGALNRLLAY  317 (405)
T ss_pred             cCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHHHHH
Confidence            5543 33347778888775 566776666554433

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).

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=99.67  E-value=1.7e-15  Score=152.26  Aligned_cols=185  Identities=22%  Similarity=0.290  Sum_probs=127.0

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCC------------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA------------  149 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~------------  149 (396)
                      ..+.+|++++|++.+++.+...+..          +   +.++++||+||+|+|||++|+++|+.+.+            
T Consensus        10 yRP~~F~dIIGQe~iv~~L~~aI~~----------~---rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~~~~~~~Cg~C   76 (605)
T PRK05896         10 YRPHNFKQIIGQELIKKILVNAILN----------N---KLTHAYIFSGPRGIGKTSIAKIFAKAINCLNPKDGDCCNSC   76 (605)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHc----------C---CCCceEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCccc
Confidence            3467999999999999999876531          1   23578999999999999999999998753            


Q ss_pred             ------------cEEEEecccccchhhchHHHHHHHHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHHHH
Q 016044          150 ------------VFINVRISNLMSKWFGDAQKLVAAVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEF  213 (396)
Q Consensus       150 ------------~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~l  213 (396)
                                  .++.+++...  ..+    ..++.+...+..    ....|++|||+|.+...           ..+.|
T Consensus        77 ~sCr~i~~~~h~DiieIdaas~--igV----d~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~-----------A~NaL  139 (605)
T PRK05896         77 SVCESINTNQSVDIVELDAASN--NGV----DEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTS-----------AWNAL  139 (605)
T ss_pred             HHHHHHHcCCCCceEEeccccc--cCH----HHHHHHHHHHHhchhhCCcEEEEEechHhCCHH-----------HHHHH
Confidence                        1222222110  111    223444333322    23469999999988321           12355


Q ss_pred             HHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCc
Q 016044          214 MALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFT  292 (396)
Q Consensus       214 l~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s  292 (396)
                      +..++.    ++..+++|++|+.+..+.+++++|| ..+.|++|+..+....++..+...+.. ++..+..++..+.| +
T Consensus       140 LKtLEE----Pp~~tvfIL~Tt~~~KLl~TI~SRc-q~ieF~~Ls~~eL~~~L~~il~kegi~Is~eal~~La~lS~G-d  213 (605)
T PRK05896        140 LKTLEE----PPKHVVFIFATTEFQKIPLTIISRC-QRYNFKKLNNSELQELLKSIAKKEKIKIEDNAIDKIADLADG-S  213 (605)
T ss_pred             HHHHHh----CCCcEEEEEECCChHhhhHHHHhhh-hhcccCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-c
Confidence            555553    3556788888888999999999999 789999999999999999988765532 22336677777776 5


Q ss_pred             HHHHHHHHHH
Q 016044          293 GSDLLEVCKQ  302 (396)
Q Consensus       293 ~~di~~l~~~  302 (396)
                      .+++.++++.
T Consensus       214 lR~AlnlLek  223 (605)
T PRK05896        214 LRDGLSILDQ  223 (605)
T ss_pred             HHHHHHHHHH
Confidence            5555555554

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

Probab=99.67  E-value=5e-16  Score=140.70  Aligned_cols=177  Identities=23%  Similarity=0.308  Sum_probs=125.3

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc------EEEE
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV------FINV  154 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~------~~~i  154 (396)
                      .+.+-+|+++.|++.+++.|...+..              +...++|||||||||||+.|+++|++++.+      +...
T Consensus        29 KYrPkt~de~~gQe~vV~~L~~a~~~--------------~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~l   94 (346)
T KOG0989|consen   29 KYRPKTFDELAGQEHVVQVLKNALLR--------------RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLEL   94 (346)
T ss_pred             HhCCCcHHhhcchHHHHHHHHHHHhh--------------cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhh
Confidence            45567999999999999999887641              123579999999999999999999988652      3334


Q ss_pred             ecccccchhhchHHHHHHHHHHHHHHh---------CC-cEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCC
Q 016044          155 RISNLMSKWFGDAQKLVAAVFSLAYKL---------QP-AIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQ  224 (396)
Q Consensus       155 ~~~~l~~~~~g~~~~~~~~~f~~a~~~---------~p-~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  224 (396)
                      +.++..+..++.  ..+. -|......         .| .|++|||.|.|....+    .       .+...++..    
T Consensus        95 naSderGisvvr--~Kik-~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq----~-------aLrr~mE~~----  156 (346)
T KOG0989|consen   95 NASDERGISVVR--EKIK-NFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQ----A-------ALRRTMEDF----  156 (346)
T ss_pred             cccccccccchh--hhhc-CHHHHhhccccccCCCCCcceEEEEechhhhhHHHH----H-------HHHHHHhcc----
Confidence            444444433211  1111 12212111         12 6999999999843322    2       344445542    


Q ss_pred             CCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCC-CCCHHHHHHhCCC
Q 016044          225 NARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE-NIDFDYLAGLCEG  290 (396)
Q Consensus       225 ~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~-~~~l~~la~~~~g  290 (396)
                      ...+++|..||..+.+...+.+|+ ..+.|+....+.....|+.++..+++.- +-.+..+++.++|
T Consensus       157 s~~trFiLIcnylsrii~pi~SRC-~KfrFk~L~d~~iv~rL~~Ia~~E~v~~d~~al~~I~~~S~G  222 (346)
T KOG0989|consen  157 SRTTRFILICNYLSRIIRPLVSRC-QKFRFKKLKDEDIVDRLEKIASKEGVDIDDDALKLIAKISDG  222 (346)
T ss_pred             ccceEEEEEcCChhhCChHHHhhH-HHhcCCCcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCC
Confidence            456889999999999999999999 8889999999999999999998887763 3336778887776

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=99.67  E-value=2.4e-15  Score=157.82  Aligned_cols=191  Identities=19%  Similarity=0.199  Sum_probs=129.7

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-----------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-----------  150 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-----------  150 (396)
                      +.+.+|++|+|++.+++.|...+..          +   +.++.+||+||+|||||++|+.+|+.++|.           
T Consensus         9 yRP~~f~eiiGqe~v~~~L~~~i~~----------~---ri~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C   75 (824)
T PRK07764          9 YRPATFAEVIGQEHVTEPLSTALDS----------G---RINHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGEC   75 (824)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHh----------C---CCCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCccc
Confidence            4467999999999999999877642          1   225678999999999999999999988652           


Q ss_pred             ---------------EEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHH
Q 016044          151 ---------------FINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMA  215 (396)
Q Consensus       151 ---------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~  215 (396)
                                     ++.++....  ..+.+.......++.........|+||||+|.|..           ...+.|++
T Consensus        76 ~sC~~~~~g~~~~~dv~eidaas~--~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~-----------~a~NaLLK  142 (824)
T PRK07764         76 DSCVALAPGGPGSLDVTEIDAASH--GGVDDARELRERAFFAPAESRYKIFIIDEAHMVTP-----------QGFNALLK  142 (824)
T ss_pred             HHHHHHHcCCCCCCcEEEeccccc--CCHHHHHHHHHHHHhchhcCCceEEEEechhhcCH-----------HHHHHHHH
Confidence                           122221110  01122222222222222233557999999999832           22335666


Q ss_pred             HhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCC-CCCHHHHHHhCCCCcHH
Q 016044          216 LWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE-NIDFDYLAGLCEGFTGS  294 (396)
Q Consensus       216 ~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~-~~~l~~la~~~~g~s~~  294 (396)
                      .++.    .+..+++|++|+.++.|.+.|++|+ ..+.|..++.++..++|+.++....+.- +..+..++..+.| +.+
T Consensus       143 ~LEE----pP~~~~fIl~tt~~~kLl~TIrSRc-~~v~F~~l~~~~l~~~L~~il~~EGv~id~eal~lLa~~sgG-dlR  216 (824)
T PRK07764        143 IVEE----PPEHLKFIFATTEPDKVIGTIRSRT-HHYPFRLVPPEVMRGYLERICAQEGVPVEPGVLPLVIRAGGG-SVR  216 (824)
T ss_pred             HHhC----CCCCeEEEEEeCChhhhhHHHHhhe-eEEEeeCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHH
Confidence            6654    3567788888888889999999999 8999999999999999999987666542 2235567777765 555


Q ss_pred             HHHHHHHHHH
Q 016044          295 DLLEVCKQAA  304 (396)
Q Consensus       295 di~~l~~~A~  304 (396)
                      ++.++++...
T Consensus       217 ~Al~eLEKLi  226 (824)
T PRK07764        217 DSLSVLDQLL  226 (824)
T ss_pred             HHHHHHHHHH
Confidence            6655555433

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=99.67  E-value=2.2e-15  Score=144.36  Aligned_cols=178  Identities=26%  Similarity=0.396  Sum_probs=126.2

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc-hhhc-h
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS-KWFG-D  166 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~-~~~g-~  166 (396)
                      -|+|++++|+.+...+.....+...........+|+++||+||||||||++|+++|..++.+|+.++++.+.. .|.| +
T Consensus        13 ~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat~~~e~g~vG~d   92 (441)
T TIGR00390        13 YIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRD   92 (441)
T ss_pred             hccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEEEeecceeecCCcccCC
Confidence            3899999999998777643222222111111234689999999999999999999999999999999887763 5655 4


Q ss_pred             HHHHHHHHHHHH--------------------------------------------------------------------
Q 016044          167 AQKLVAAVFSLA--------------------------------------------------------------------  178 (396)
Q Consensus       167 ~~~~~~~~f~~a--------------------------------------------------------------------  178 (396)
                      .+..++.+|..+                                                                    
T Consensus        93 vE~i~r~l~e~A~~~i~~d~i~~~r~~a~~~ae~riv~~Ll~~~~~~~~~~~~~~~~~~~r~~~~~~l~~g~ldd~~iei  172 (441)
T TIGR00390        93 VESMVRDLTDAAVKLVKEEAIEKVRDRAEELAEERIVDVLLPPAKNQWGQTEQQQEPESAREAFRKKLREGELDDKEIEI  172 (441)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhcCCccccccccccccchHHHHHHHHHHHhcCCccCcEEEE
Confidence            444444444333                                                                    


Q ss_pred             -----------------------------------------------------------------------HHhCCcEEE
Q 016044          179 -----------------------------------------------------------------------YKLQPAIIF  187 (396)
Q Consensus       179 -----------------------------------------------------------------------~~~~p~vl~  187 (396)
                                                                                             ...+.+|+|
T Consensus       173 ~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~ea~~~l~~~e~~~lid~~~v~~~a~~~~e~~GIVf  252 (441)
T TIGR00390       173 DVSAKMPSGIEIMAPPGMEEMTMQLQSLFQNLGGQKKKKRKLKIKDAKKALIAEEAAKLVDPEEIKQEAIDAVEQSGIIF  252 (441)
T ss_pred             eecCCCCCccccCCCcchhHHHhhHHHHHHhhcCCCCceEEeEHHHHHHHHHHHHHHhccChHHHHHHHHHHHHcCCEEE
Confidence                                                                                   012458999


Q ss_pred             EccccccccCCCCCchH-HHHhhHHHHHHHhhccCc------CCCCcEEEEEecC----CCCCCcHHHHhccCCceEeCC
Q 016044          188 IDEVDSFLGQRRTSDHE-ALTNMKTEFMALWDGFTT------DQNARVMVLAATN----RPSELDEAILRRLPQAFEIGM  256 (396)
Q Consensus       188 iDEid~l~~~~~~~~~~-~~~~~~~~ll~~l~~~~~------~~~~~v~vI~atn----~~~~l~~~l~~R~~~~i~~~~  256 (396)
                      |||||.++.+..+...+ +...+...|+..++|-..      -+..++++||+.-    .|+++-|.|.-||+.++.+..
T Consensus       253 iDEiDKIa~~~~~~~~DvS~eGVQ~~LLkilEGt~v~~k~~~v~T~~ILFI~~GAF~~~kp~DlIPEl~GR~Pi~v~L~~  332 (441)
T TIGR00390       253 IDEIDKIAKKGESSGADVSREGVQRDLLPIVEGSTVNTKYGMVKTDHILFIAAGAFQLAKPSDLIPELQGRFPIRVELQA  332 (441)
T ss_pred             EEchhhhcccCCCCCCCCCccchhccccccccCceeeecceeEECCceeEEecCCcCCCChhhccHHHhCccceEEECCC
Confidence            99999998765322222 222355577777776332      2245788888764    577788999999999999999


Q ss_pred             CCHHHHHHHH
Q 016044          257 PDRKERAQIL  266 (396)
Q Consensus       257 P~~~er~~il  266 (396)
                      ++.++...||
T Consensus       333 L~~edL~rIL  342 (441)
T TIGR00390       333 LTTDDFERIL  342 (441)
T ss_pred             CCHHHHHHHh
Confidence            9999999888

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=99.67  E-value=1.9e-15  Score=158.57  Aligned_cols=229  Identities=18%  Similarity=0.258  Sum_probs=147.2

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc-------
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS-------  161 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~-------  161 (396)
                      +..|++++|+++.+++......    .    ......++|+||||||||++++.+|..++.+|+.+++.....       
T Consensus       323 ~~~g~~~vK~~i~~~l~~~~~~----~----~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~i~~~~~~d~~~i~g~  394 (784)
T PRK10787        323 DHYGLERVKDRILEYLAVQSRV----N----KIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVRMALGGVRDEAEIRGH  394 (784)
T ss_pred             hccCHHHHHHHHHHHHHHHHhc----c----cCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEEcCCCCCHHHhccc
Confidence            4899999999998877632211    0    112346999999999999999999999999999888765432       


Q ss_pred             --hhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc---------C--cCCCCcE
Q 016044          162 --KWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF---------T--TDQNARV  228 (396)
Q Consensus       162 --~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~---------~--~~~~~~v  228 (396)
                        .+.|.....+...+..+.. ...|++|||+|.+....+....       ..|+..+|.-         .  ..+-+++
T Consensus       395 ~~~~~g~~~G~~~~~l~~~~~-~~~villDEidk~~~~~~g~~~-------~aLlevld~~~~~~~~d~~~~~~~dls~v  466 (784)
T PRK10787        395 RRTYIGSMPGKLIQKMAKVGV-KNPLFLLDEIDKMSSDMRGDPA-------SALLEVLDPEQNVAFSDHYLEVDYDLSDV  466 (784)
T ss_pred             hhccCCCCCcHHHHHHHhcCC-CCCEEEEEChhhcccccCCCHH-------HHHHHHhccccEEEEecccccccccCCce
Confidence              2344443344333443332 2359999999998655332211       2344444420         0  0123678


Q ss_pred             EEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcC-----CCCC---CCCC---HHHHHHh-CCCCcHHHH
Q 016044          229 MVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKG-----EKVE---ENID---FDYLAGL-CEGFTGSDL  296 (396)
Q Consensus       229 ~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~-----~~~~---~~~~---l~~la~~-~~g~s~~di  296 (396)
                      ++|+|+|.. .++++|++|| ..+.+..++.++..+|.+.++..     ..+.   -.++   +..+++. +..+-.+.|
T Consensus       467 ~~i~TaN~~-~i~~aLl~R~-~ii~~~~~t~eek~~Ia~~~L~~k~~~~~~l~~~~l~i~~~ai~~ii~~yt~e~GaR~L  544 (784)
T PRK10787        467 MFVATSNSM-NIPAPLLDRM-EVIRLSGYTEDEKLNIAKRHLLPKQIERNALKKGELTVDDSAIIGIIRYYTREAGVRSL  544 (784)
T ss_pred             EEEEcCCCC-CCCHHHhcce-eeeecCCCCHHHHHHHHHHhhhHHHHHHhCCCCCeEEECHHHHHHHHHhCCcccCCcHH
Confidence            999999987 5999999999 78999999999999999888831     1111   1122   3444432 223333467


Q ss_pred             HHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhcc
Q 016044          297 LEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSR  340 (396)
Q Consensus       297 ~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~  340 (396)
                      +..++..+...+.+.+..     .......|+.+++.+.+...+
T Consensus       545 eR~I~~i~r~~l~~~~~~-----~~~~~v~v~~~~~~~~lg~~~  583 (784)
T PRK10787        545 EREISKLCRKAVKQLLLD-----KSLKHIEINGDNLHDYLGVQR  583 (784)
T ss_pred             HHHHHHHHHHHHHHHHhc-----CCCceeeecHHHHHHHhCCCc
Confidence            777666555555543311     111235799999999887543

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=99.67  E-value=1.8e-15  Score=146.77  Aligned_cols=188  Identities=23%  Similarity=0.304  Sum_probs=127.9

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc----------
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV----------  150 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~----------  150 (396)
                      .+.+.+|++++|++.+++.+.+.+..          +   ..++.+||+||||+|||++|+++++.+.+.          
T Consensus         7 ~~rp~~~~~iig~~~~~~~l~~~~~~----------~---~~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~   73 (355)
T TIGR02397         7 KYRPQTFEDVIGQEHIVQTLKNAIKN----------G---RIAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNE   73 (355)
T ss_pred             HhCCCcHhhccCcHHHHHHHHHHHHc----------C---CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCC
Confidence            34568999999999999999876642          1   235678999999999999999999986432          


Q ss_pred             --------------EEEEecccccchhhchHHHHHHHHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHHH
Q 016044          151 --------------FINVRISNLMSKWFGDAQKLVAAVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTE  212 (396)
Q Consensus       151 --------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~  212 (396)
                                    ++.++....      .....++.++..+..    ....|++|||+|.+..           ...+.
T Consensus        74 c~~c~~~~~~~~~~~~~~~~~~~------~~~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~-----------~~~~~  136 (355)
T TIGR02397        74 CESCKEINSGSSLDVIEIDAASN------NGVDDIREILDNVKYAPSSGKYKVYIIDEVHMLSK-----------SAFNA  136 (355)
T ss_pred             CHHHHHHhcCCCCCEEEeecccc------CCHHHHHHHHHHHhcCcccCCceEEEEeChhhcCH-----------HHHHH
Confidence                          222322210      111234445444432    2346999999998732           12335


Q ss_pred             HHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCC
Q 016044          213 FMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGF  291 (396)
Q Consensus       213 ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~  291 (396)
                      ++..++.    .+..+++|++|+.++.+.+++++|+ ..+.+++|+.++...+++..++..+.. ++..+..++..+.| 
T Consensus       137 Ll~~le~----~~~~~~lIl~~~~~~~l~~~l~sr~-~~~~~~~~~~~~l~~~l~~~~~~~g~~i~~~a~~~l~~~~~g-  210 (355)
T TIGR02397       137 LLKTLEE----PPEHVVFILATTEPHKIPATILSRC-QRFDFKRIPLEDIVERLKKILDKEGIKIEDEALELIARAADG-  210 (355)
T ss_pred             HHHHHhC----CccceeEEEEeCCHHHHHHHHHhhe-eEEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-
Confidence            5555543    3456778888888888889999999 789999999999999999988766543 22335566777765 


Q ss_pred             cHHHHHHHHHHHH
Q 016044          292 TGSDLLEVCKQAA  304 (396)
Q Consensus       292 s~~di~~l~~~A~  304 (396)
                      +.+.+.+.++.+.
T Consensus       211 ~~~~a~~~lekl~  223 (355)
T TIGR02397       211 SLRDALSLLDQLI  223 (355)
T ss_pred             ChHHHHHHHHHHH
Confidence            5555555554443

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=99.67  E-value=3.5e-15  Score=149.01  Aligned_cols=190  Identities=22%  Similarity=0.237  Sum_probs=131.9

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCC------------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA------------  149 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~------------  149 (396)
                      +.+.+|++++|++.+++.|...+..          +   .-++.+|||||+|+|||++|+++++.+.+            
T Consensus         8 yRP~~fdeiiGqe~v~~~L~~~I~~----------g---rl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C   74 (535)
T PRK08451          8 YRPKHFDELIGQESVSKTLSLALDN----------N---RLAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTC   74 (535)
T ss_pred             HCCCCHHHccCcHHHHHHHHHHHHc----------C---CCCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCccc
Confidence            3467999999999999999876642          2   23567899999999999999999997632            


Q ss_pred             ------------cEEEEecccccchhhchHHHHHHHHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHHHH
Q 016044          150 ------------VFINVRISNLMSKWFGDAQKLVAAVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEF  213 (396)
Q Consensus       150 ------------~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~l  213 (396)
                                  .++.++...-  .    .-..++.+......    ....|++|||+|.+..           ...+.|
T Consensus        75 ~~C~~~~~~~h~dv~eldaas~--~----gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~-----------~A~NAL  137 (535)
T PRK08451         75 IQCQSALENRHIDIIEMDAASN--R----GIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTK-----------EAFNAL  137 (535)
T ss_pred             HHHHHHhhcCCCeEEEeccccc--c----CHHHHHHHHHHHhhCcccCCeEEEEEECcccCCH-----------HHHHHH
Confidence                        1222222110  0    11233333332211    1236999999998832           122355


Q ss_pred             HHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCc
Q 016044          214 MALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFT  292 (396)
Q Consensus       214 l~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s  292 (396)
                      +..++.    ++..+.+|.+|+.+..+.+++++|+ ..++|.+++.++....++..+...+.. .+..+..++..+.| +
T Consensus       138 LK~LEE----pp~~t~FIL~ttd~~kL~~tI~SRc-~~~~F~~Ls~~ei~~~L~~Il~~EGi~i~~~Al~~Ia~~s~G-d  211 (535)
T PRK08451        138 LKTLEE----PPSYVKFILATTDPLKLPATILSRT-QHFRFKQIPQNSIISHLKTILEKEGVSYEPEALEILARSGNG-S  211 (535)
T ss_pred             HHHHhh----cCCceEEEEEECChhhCchHHHhhc-eeEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-c
Confidence            555553    3456777778888899999999998 899999999999999999988766554 23346778887776 7


Q ss_pred             HHHHHHHHHHHHHHH
Q 016044          293 GSDLLEVCKQAAYFS  307 (396)
Q Consensus       293 ~~di~~l~~~A~~~a  307 (396)
                      .+++.++++.+...+
T Consensus       212 lR~alnlLdqai~~~  226 (535)
T PRK08451        212 LRDTLTLLDQAIIYC  226 (535)
T ss_pred             HHHHHHHHHHHHHhc
Confidence            778888887766543

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.67  E-value=3.4e-15  Score=149.04  Aligned_cols=193  Identities=23%  Similarity=0.254  Sum_probs=126.5

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-------EEE-
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-------FIN-  153 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-------~~~-  153 (396)
                      ..+.+|++++|++.+++.|...+..             -..++.+||+||+|+|||++|+.+|..+++.       +-. 
T Consensus        10 yRP~~f~diiGq~~i~~~L~~~i~~-------------~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c   76 (486)
T PRK14953         10 YRPKFFKEVIGQEIVVRILKNAVKL-------------QRVSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKC   76 (486)
T ss_pred             hCCCcHHHccChHHHHHHHHHHHHc-------------CCCCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCcc
Confidence            3467999999999999999877642             1235678999999999999999999987631       100 


Q ss_pred             Eecccccc----------hhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhc
Q 016044          154 VRISNLMS----------KWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDG  219 (396)
Q Consensus       154 i~~~~l~~----------~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~  219 (396)
                      .+|..+..          ......-..++.+...+.    ...+.|++|||+|.+...           ..+.++..++.
T Consensus        77 ~nc~~i~~g~~~d~~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~-----------a~naLLk~LEe  145 (486)
T PRK14953         77 ENCVEIDKGSFPDLIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKE-----------AFNALLKTLEE  145 (486)
T ss_pred             HHHHHHhcCCCCcEEEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHH-----------HHHHHHHHHhc
Confidence            01110000          000001112333333332    224479999999987321           22345555543


Q ss_pred             cCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHH
Q 016044          220 FTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLE  298 (396)
Q Consensus       220 ~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~  298 (396)
                          ++..+++|.+|+.++.+.+++.+|+ ..+.|++|+.++...++...++..++. ++..+..++..+.| +.+++.+
T Consensus       146 ----pp~~~v~Il~tt~~~kl~~tI~SRc-~~i~f~~ls~~el~~~L~~i~k~egi~id~~al~~La~~s~G-~lr~al~  219 (486)
T PRK14953        146 ----PPPRTIFILCTTEYDKIPPTILSRC-QRFIFSKPTKEQIKEYLKRICNEEKIEYEEKALDLLAQASEG-GMRDAAS  219 (486)
T ss_pred             ----CCCCeEEEEEECCHHHHHHHHHHhc-eEEEcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHH
Confidence                3445677777777888999999999 689999999999999999998866654 22335677777775 5566666


Q ss_pred             HHHHHH
Q 016044          299 VCKQAA  304 (396)
Q Consensus       299 l~~~A~  304 (396)
                      +++.+.
T Consensus       220 ~Ldkl~  225 (486)
T PRK14953        220 LLDQAS  225 (486)
T ss_pred             HHHHHH
Confidence            666554

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=99.66  E-value=2e-15  Score=149.04  Aligned_cols=195  Identities=23%  Similarity=0.276  Sum_probs=142.3

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcE-------EEE-
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVF-------INV-  154 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~-------~~i-  154 (396)
                      .+.+|++++|++.+.+.|...+..             -+-.++.||.||.|||||++||.+|+.+++.-       ..| 
T Consensus        11 RP~~F~evvGQe~v~~~L~nal~~-------------~ri~hAYlfsG~RGvGKTt~Ari~AkalNC~~~~~~ePC~~C~   77 (515)
T COG2812          11 RPKTFDDVVGQEHVVKTLSNALEN-------------GRIAHAYLFSGPRGVGKTTIARILAKALNCENGPTAEPCGKCI   77 (515)
T ss_pred             CcccHHHhcccHHHHHHHHHHHHh-------------CcchhhhhhcCCCCcCchhHHHHHHHHhcCCCCCCCCcchhhh
Confidence            467899999999999999887753             12357899999999999999999999886542       111 


Q ss_pred             eccccc--------------chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc
Q 016044          155 RISNLM--------------SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF  220 (396)
Q Consensus       155 ~~~~l~--------------~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~  220 (396)
                      .|..+.              ...+.+.+.....+........+.|++|||+|.|..           ...+.|++.++  
T Consensus        78 ~Ck~I~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~-----------~afNALLKTLE--  144 (515)
T COG2812          78 SCKEINEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSK-----------QAFNALLKTLE--  144 (515)
T ss_pred             hhHhhhcCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhH-----------HHHHHHhcccc--
Confidence            111111              111222223333222222333457999999998832           23335555444  


Q ss_pred             CcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCC-CCHHHHHHhCCCCcHHHHHHH
Q 016044          221 TTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEEN-IDFDYLAGLCEGFTGSDLLEV  299 (396)
Q Consensus       221 ~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~-~~l~~la~~~~g~s~~di~~l  299 (396)
                        +++..|.+|.+|..+.+++..+++|| .++.|...+.++....|..++....+..+ ..+..+|+.++| |.+|...+
T Consensus       145 --EPP~hV~FIlATTe~~Kip~TIlSRc-q~f~fkri~~~~I~~~L~~i~~~E~I~~e~~aL~~ia~~a~G-s~RDalsl  220 (515)
T COG2812         145 --EPPSHVKFILATTEPQKIPNTILSRC-QRFDFKRLDLEEIAKHLAAILDKEGINIEEDALSLIARAAEG-SLRDALSL  220 (515)
T ss_pred             --cCccCeEEEEecCCcCcCchhhhhcc-ccccccCCCHHHHHHHHHHHHHhcCCccCHHHHHHHHHHcCC-ChhhHHHH
Confidence              56889999999999999999999999 99999999999999999999988777633 347778888887 78899999


Q ss_pred             HHHHHHHH
Q 016044          300 CKQAAYFS  307 (396)
Q Consensus       300 ~~~A~~~a  307 (396)
                      .++|...+
T Consensus       221 LDq~i~~~  228 (515)
T COG2812         221 LDQAIAFG  228 (515)
T ss_pred             HHHHHHcc
Confidence            88887653

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=99.66  E-value=3.1e-15  Score=151.56  Aligned_cols=187  Identities=18%  Similarity=0.245  Sum_probs=129.4

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-----------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-----------  150 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-----------  150 (396)
                      ..+.+|++|+|++.+++.|...+..          +   ..++.+||+||+|+|||++|+++|+.+++.           
T Consensus        10 yRP~~f~diiGqe~iv~~L~~~i~~----------~---~i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~~pC~~C   76 (563)
T PRK06647         10 RRPRDFNSLEGQDFVVETLKHSIES----------N---KIANAYIFSGPRGVGKTSSARAFARCLNCVNGPTPMPCGEC   76 (563)
T ss_pred             hCCCCHHHccCcHHHHHHHHHHHHc----------C---CCCeEEEEECCCCCCHHHHHHHHHHhhccccCCCCCCCccc
Confidence            3467999999999999999877642          1   235679999999999999999999987642           


Q ss_pred             -------------EEEEecccccchhhchHHHHHHHHHHHH----HHhCCcEEEEccccccccCCCCCchHHHHhhHHHH
Q 016044          151 -------------FINVRISNLMSKWFGDAQKLVAAVFSLA----YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEF  213 (396)
Q Consensus       151 -------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a----~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~l  213 (396)
                                   ++.++...  .    ..-..++.+...+    ......|++|||+|.+...           ..+.|
T Consensus        77 ~~C~~i~~~~~~dv~~idgas--~----~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~-----------a~naL  139 (563)
T PRK06647         77 SSCKSIDNDNSLDVIEIDGAS--N----TSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNS-----------AFNAL  139 (563)
T ss_pred             hHHHHHHcCCCCCeEEecCcc--c----CCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHH-----------HHHHH
Confidence                         11121110  0    0112223333222    2234579999999988321           23355


Q ss_pred             HHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCc
Q 016044          214 MALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFT  292 (396)
Q Consensus       214 l~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s  292 (396)
                      +..++    .++..+++|++|+.+..+.+++++|+ ..+.|.+++.++...+++..+...... ++..+..++..+.| +
T Consensus       140 LK~LE----epp~~~vfI~~tte~~kL~~tI~SRc-~~~~f~~l~~~el~~~L~~i~~~egi~id~eAl~lLa~~s~G-d  213 (563)
T PRK06647        140 LKTIE----EPPPYIVFIFATTEVHKLPATIKSRC-QHFNFRLLSLEKIYNMLKKVCLEDQIKYEDEALKWIAYKSTG-S  213 (563)
T ss_pred             HHhhc----cCCCCEEEEEecCChHHhHHHHHHhc-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-C
Confidence            55554    34567888888888889999999999 789999999999999999988665543 23346677887776 6


Q ss_pred             HHHHHHHHHHHH
Q 016044          293 GSDLLEVCKQAA  304 (396)
Q Consensus       293 ~~di~~l~~~A~  304 (396)
                      .+++.++++.+.
T Consensus       214 lR~alslLdkli  225 (563)
T PRK06647        214 VRDAYTLFDQVV  225 (563)
T ss_pred             HHHHHHHHHHHH
Confidence            667777666543

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=99.66  E-value=2.2e-15  Score=143.90  Aligned_cols=159  Identities=19%  Similarity=0.263  Sum_probs=111.9

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      .+.+.+|++++|++++++.+..++.          .+   ..++.+||+||||+|||++|++++++.+.+++.+++++  
T Consensus        14 kyrP~~~~~~~~~~~~~~~l~~~~~----------~~---~~~~~lll~G~~G~GKT~la~~l~~~~~~~~~~i~~~~--   78 (316)
T PHA02544         14 KYRPSTIDECILPAADKETFKSIVK----------KG---RIPNMLLHSPSPGTGKTTVAKALCNEVGAEVLFVNGSD--   78 (316)
T ss_pred             ccCCCcHHHhcCcHHHHHHHHHHHh----------cC---CCCeEEEeeCcCCCCHHHHHHHHHHHhCccceEeccCc--
Confidence            4556899999999999999987764          11   12566777999999999999999999999999999876  


Q ss_pred             chhhchHHHHHHHHHHHHH-HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAY-KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE  239 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~-~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~  239 (396)
                      .. .......+........ ...+.+|+|||+|.+....       ..   ..+...++..    +.++.+|++||.+..
T Consensus        79 ~~-~~~i~~~l~~~~~~~~~~~~~~vliiDe~d~l~~~~-------~~---~~L~~~le~~----~~~~~~Ilt~n~~~~  143 (316)
T PHA02544         79 CR-IDFVRNRLTRFASTVSLTGGGKVIIIDEFDRLGLAD-------AQ---RHLRSFMEAY----SKNCSFIITANNKNG  143 (316)
T ss_pred             cc-HHHHHHHHHHHHHhhcccCCCeEEEEECcccccCHH-------HH---HHHHHHHHhc----CCCceEEEEcCChhh
Confidence            22 2222222222111111 1246899999999872111       11   1222333332    345688889999999


Q ss_pred             CcHHHHhccCCceEeCCCCHHHHHHHHHHHh
Q 016044          240 LDEAILRRLPQAFEIGMPDRKERAQILKVIL  270 (396)
Q Consensus       240 l~~~l~~R~~~~i~~~~P~~~er~~il~~~l  270 (396)
                      +.+++++|| ..+.++.|+.+++..+++.++
T Consensus       144 l~~~l~sR~-~~i~~~~p~~~~~~~il~~~~  173 (316)
T PHA02544        144 IIEPLRSRC-RVIDFGVPTKEEQIEMMKQMI  173 (316)
T ss_pred             chHHHHhhc-eEEEeCCCCHHHHHHHHHHHH
Confidence            999999999 789999999999998876543

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

Probab=99.66  E-value=2.8e-15  Score=155.51  Aligned_cols=181  Identities=27%  Similarity=0.357  Sum_probs=118.6

Q ss_pred             CcccccccChHHHHH---HHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           84 DVEFESIGGLETIKQ---ALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~---~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.+|++++|++.+..   .+++.+.          .+    ...+++|+||||||||++|+++++..+.+|+.+++....
T Consensus        24 P~tldd~vGQe~ii~~~~~L~~~i~----------~~----~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~~lna~~~~   89 (725)
T PRK13341         24 PRTLEEFVGQDHILGEGRLLRRAIK----------AD----RVGSLILYGPPGVGKTTLARIIANHTRAHFSSLNAVLAG   89 (725)
T ss_pred             CCcHHHhcCcHHHhhhhHHHHHHHh----------cC----CCceEEEECCCCCCHHHHHHHHHHHhcCcceeehhhhhh
Confidence            578999999999885   4544432          11    235799999999999999999999999999888875321


Q ss_pred             chhhchHHHHHHHHHHHHH-----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecC
Q 016044          161 SKWFGDAQKLVAAVFSLAY-----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATN  235 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~-----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn  235 (396)
                      .       +.++..+..+.     .....+|||||+|.+....    +       ..++..++      ...+++|++|+
T Consensus        90 i-------~dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~q----Q-------daLL~~lE------~g~IiLI~aTT  145 (725)
T PRK13341         90 V-------KDLRAEVDRAKERLERHGKRTILFIDEVHRFNKAQ----Q-------DALLPWVE------NGTITLIGATT  145 (725)
T ss_pred             h-------HHHHHHHHHHHHHhhhcCCceEEEEeChhhCCHHH----H-------HHHHHHhc------CceEEEEEecC
Confidence            1       11222222221     1245799999999983221    1       12333232      34577777664


Q ss_pred             --CCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcC-------CCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHH
Q 016044          236 --RPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKG-------EKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAA  304 (396)
Q Consensus       236 --~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~-------~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~  304 (396)
                        ....+++++++|+ ..+.|++++.+++..+++..+..       ..+. ++-.++.|++.+.| ..+.+.++++.+.
T Consensus       146 enp~~~l~~aL~SR~-~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~G-D~R~lln~Le~a~  222 (725)
T PRK13341        146 ENPYFEVNKALVSRS-RLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANG-DARSLLNALELAV  222 (725)
T ss_pred             CChHhhhhhHhhccc-cceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence              3356889999998 78999999999999999998862       2221 12235667776654 3445555555443

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=99.66  E-value=4.1e-15  Score=132.64  Aligned_cols=190  Identities=24%  Similarity=0.332  Sum_probs=132.7

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccc
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNL  159 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l  159 (396)
                      ..+.+++++|.+..|+.|.+..       ..|-.+.   |.+++||+|++|||||++++++..+.   |..++.+.-.++
T Consensus        22 ~~~~l~~L~Gie~Qk~~l~~Nt-------~~Fl~G~---pannvLL~G~rGtGKSSlVkall~~y~~~GLRlIev~k~~L   91 (249)
T PF05673_consen   22 DPIRLDDLIGIERQKEALIENT-------EQFLQGL---PANNVLLWGARGTGKSSLVKALLNEYADQGLRLIEVSKEDL   91 (249)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHH-------HHHHcCC---CCcceEEecCCCCCHHHHHHHHHHHHhhcCceEEEECHHHh
Confidence            3689999999999999996654       5555542   57899999999999999999998865   678888876555


Q ss_pred             cchhhchHHHHHHHHHHHHH-HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC
Q 016044          160 MSKWFGDAQKLVAAVFSLAY-KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS  238 (396)
Q Consensus       160 ~~~~~g~~~~~~~~~f~~a~-~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~  238 (396)
                      ..         +..++...+ ...+-|||+||+. +  ....       .-...|...++|.....+.+|++.+|+|+.+
T Consensus        92 ~~---------l~~l~~~l~~~~~kFIlf~DDLs-F--e~~d-------~~yk~LKs~LeGgle~~P~NvliyATSNRRH  152 (249)
T PF05673_consen   92 GD---------LPELLDLLRDRPYKFILFCDDLS-F--EEGD-------TEYKALKSVLEGGLEARPDNVLIYATSNRRH  152 (249)
T ss_pred             cc---------HHHHHHHHhcCCCCEEEEecCCC-C--CCCc-------HHHHHHHHHhcCccccCCCcEEEEEecchhh
Confidence            22         333344333 2234799999864 1  1111       1123777888988888899999999999633


Q ss_pred             CCc-----------------------HHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCC-CHH----HHHHhCCC
Q 016044          239 ELD-----------------------EAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENI-DFD----YLAGLCEG  290 (396)
Q Consensus       239 ~l~-----------------------~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~-~l~----~la~~~~g  290 (396)
                      .++                       -+|..||...+.|.+|+.++..+|+++++....+.-+. .+.    ..|..-.|
T Consensus       153 Lv~E~~~d~~~~~~~eih~~d~~eEklSLsDRFGL~l~F~~~~q~~YL~IV~~~~~~~g~~~~~e~l~~~Al~wa~~rg~  232 (249)
T PF05673_consen  153 LVPESFSDREDIQDDEIHPSDTIEEKLSLSDRFGLWLSFYPPDQEEYLAIVRHYAERYGLELDEEELRQEALQWALRRGG  232 (249)
T ss_pred             ccchhhhhccCCCccccCcchHHHHHHhHHHhCCcEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHcCC
Confidence            221                       14555999999999999999999999999866654221 111    22333445


Q ss_pred             CcHHHHHHHHH
Q 016044          291 FTGSDLLEVCK  301 (396)
Q Consensus       291 ~s~~di~~l~~  301 (396)
                      .||+--.+.++
T Consensus       233 RSGRtA~QF~~  243 (249)
T PF05673_consen  233 RSGRTARQFID  243 (249)
T ss_pred             CCHHHHHHHHH
Confidence            67765444443

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=99.66  E-value=5.4e-15  Score=150.51  Aligned_cols=193  Identities=19%  Similarity=0.183  Sum_probs=130.7

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVR------  155 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~------  155 (396)
                      +.+.+|++|+|++.+++.|...+.          .+   +.++.+||+||+|+|||++|+++|+.+++.....+      
T Consensus        18 yRP~~f~dliGq~~~v~~L~~~~~----------~g---ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~   84 (598)
T PRK09111         18 YRPQTFDDLIGQEAMVRTLTNAFE----------TG---RIAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTID   84 (598)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHH----------cC---CCCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccc
Confidence            446799999999999999987664          22   23678999999999999999999998865421111      


Q ss_pred             -------c--------ccccchh--hchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHH
Q 016044          156 -------I--------SNLMSKW--FGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFM  214 (396)
Q Consensus       156 -------~--------~~l~~~~--~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll  214 (396)
                             |        .++..-.  ....-..++.+...+.    .....|++|||+|.+..           ...+.|+
T Consensus        85 ~cg~c~~C~~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~-----------~a~naLL  153 (598)
T PRK09111         85 LCGVGEHCQAIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLST-----------AAFNALL  153 (598)
T ss_pred             cCcccHHHHHHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCH-----------HHHHHHH
Confidence                   1        0111000  0001123444444332    22347999999999832           1233555


Q ss_pred             HHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCC-CCCHHHHHHhCCCCcH
Q 016044          215 ALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE-NIDFDYLAGLCEGFTG  293 (396)
Q Consensus       215 ~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~-~~~l~~la~~~~g~s~  293 (396)
                      +.++.    .+..+.+|++|+.++.+.+.+++|| ..+.|..|+.++....++..+......- +..++.++..+.| +.
T Consensus       154 KtLEe----Pp~~~~fIl~tte~~kll~tI~SRc-q~~~f~~l~~~el~~~L~~i~~kegi~i~~eAl~lIa~~a~G-dl  227 (598)
T PRK09111        154 KTLEE----PPPHVKFIFATTEIRKVPVTVLSRC-QRFDLRRIEADVLAAHLSRIAAKEGVEVEDEALALIARAAEG-SV  227 (598)
T ss_pred             HHHHh----CCCCeEEEEEeCChhhhhHHHHhhe-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CH
Confidence            55553    3556778888888888989999999 7899999999999999999987665542 2335667777776 66


Q ss_pred             HHHHHHHHHHH
Q 016044          294 SDLLEVCKQAA  304 (396)
Q Consensus       294 ~di~~l~~~A~  304 (396)
                      +++.++++.+.
T Consensus       228 r~al~~Ldkli  238 (598)
T PRK09111        228 RDGLSLLDQAI  238 (598)
T ss_pred             HHHHHHHHHHH
Confidence            66666665543

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

Probab=99.65  E-value=6.5e-15  Score=143.81  Aligned_cols=249  Identities=19%  Similarity=0.270  Sum_probs=152.2

Q ss_pred             CCCCCccccc-ccChHHHHHHHHHHHHccccChhhhhc--CCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEec
Q 016044           80 PDHIDVEFES-IGGLETIKQALYELVILPLRRPELFSH--GKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI  156 (396)
Q Consensus        80 ~~~~~~~~~~-i~G~~~~k~~l~~~v~~~l~~~~~~~~--~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~  156 (396)
                      |......+++ |+|++.+|+.+...+..+.++-.....  .....+..++||+||||||||++|+++|..++.+|+.+++
T Consensus        62 p~~i~~~L~~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~~pf~~id~  141 (412)
T PRK05342         62 PKEIKAHLDQYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILDVPFAIADA  141 (412)
T ss_pred             HHHHHHHHhhHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhCCCceecch
Confidence            3333445554 899999999997776543332211000  0112245789999999999999999999999999999999


Q ss_pred             ccccc-hhhchH-HHHHHHHHHH----HHHhCCcEEEEccccccccCCCCC---chHHHHhhHHHHHHHhhccC------
Q 016044          157 SNLMS-KWFGDA-QKLVAAVFSL----AYKLQPAIIFIDEVDSFLGQRRTS---DHEALTNMKTEFMALWDGFT------  221 (396)
Q Consensus       157 ~~l~~-~~~g~~-~~~~~~~f~~----a~~~~p~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~------  221 (396)
                      +.+.. .|.|.. +..+..++..    .....++||||||||.+..+....   .......+...|+..+++..      
T Consensus       142 ~~l~~~gyvG~d~e~~l~~l~~~~~~~~~~a~~gIi~iDEIdkl~~~~~~~~~~~d~s~~~vQ~~LL~~Leg~~~~v~~~  221 (412)
T PRK05342        142 TTLTEAGYVGEDVENILLKLLQAADYDVEKAQRGIVYIDEIDKIARKSENPSITRDVSGEGVQQALLKILEGTVASVPPQ  221 (412)
T ss_pred             hhcccCCcccchHHHHHHHHHHhccccHHHcCCcEEEEechhhhccccCCCCcCCCcccHHHHHHHHHHHhcCeEEeCCC
Confidence            88754 466653 3334444332    223467999999999997653211   11111234557777777532      


Q ss_pred             ---cCCCCcEEEEEecCCCC----------------------------------------------------CCcHHHHh
Q 016044          222 ---TDQNARVMVLAATNRPS----------------------------------------------------ELDEAILR  246 (396)
Q Consensus       222 ---~~~~~~v~vI~atn~~~----------------------------------------------------~l~~~l~~  246 (396)
                         ..+..++++|.|+|-..                                                    -+.|+|+.
T Consensus       222 gg~~~~~~~~~~i~t~nilfi~~Gaf~g~~~~~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~dL~~~gf~PEflg  301 (412)
T PRK05342        222 GGRKHPQQEFIQVDTTNILFICGGAFDGLEKIIKQRLGKKGIGFGAEVKSKKEKRTEGELLKQVEPEDLIKFGLIPEFIG  301 (412)
T ss_pred             CCcCcCCCCeEEeccCCceeeecccccCcHHHHHHHHhhcccCCccccccccccchhHHHHHhcCHHHHHHHhhhHHHhC
Confidence               11112344555544300                                                    03567777


Q ss_pred             ccCCceEeCCCCHHHHHHHHHH----Hhc-------CCCCC---CCCCHHHHHHh--CCCCcHHHHHHHHHHHHHHHHHH
Q 016044          247 RLPQAFEIGMPDRKERAQILKV----ILK-------GEKVE---ENIDFDYLAGL--CEGFTGSDLLEVCKQAAYFSIRE  310 (396)
Q Consensus       247 R~~~~i~~~~P~~~er~~il~~----~l~-------~~~~~---~~~~l~~la~~--~~g~s~~di~~l~~~A~~~a~~~  310 (396)
                      |++.++.|.+.+.++..+|+..    .++       ...+.   .+-.++.|++.  ..++-.+.|+.+++......+.+
T Consensus       302 Rld~iv~f~~L~~~~L~~Il~~~~~~l~~q~~~~l~~~~i~L~~t~~al~~Ia~~~~~~~~GAR~Lrriie~~l~~~~~~  381 (412)
T PRK05342        302 RLPVVATLEELDEEALVRILTEPKNALVKQYQKLFEMDGVELEFTDEALEAIAKKAIERKTGARGLRSILEEILLDVMFE  381 (412)
T ss_pred             CCCeeeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCcEEEECHHHHHHHHHhCCCCCCCCchHHHHHHHHhHHHHHh
Confidence            9999999999999999999872    222       22222   22225667765  33555667888887777766665


Q ss_pred             HHHHHhcCCCCCCCCCCCHHHHH
Q 016044          311 LLDEERKGKPAAAPRPLSRLDLE  333 (396)
Q Consensus       311 ~~~~~~~~~~~~~~~~i~~~d~~  333 (396)
                      ....     .......|+.+++.
T Consensus       382 ~p~~-----~~~~~v~I~~~~v~  399 (412)
T PRK05342        382 LPSR-----EDVEKVVITKEVVE  399 (412)
T ss_pred             cccc-----CCCceEEECHHHhc
Confidence            4321     11123457777664

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=99.65  E-value=4.4e-15  Score=147.09  Aligned_cols=169  Identities=17%  Similarity=0.326  Sum_probs=108.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQ  197 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~  197 (396)
                      .++++||||+|+|||+|++++++++     +..++++++.++...+.......-..-|......++.+|+|||++.+.+.
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~~~f~~~~~~~~~~~~~~~f~~~~~~~~dvLlIDDi~~l~~~  209 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITSEKFLNDLVDSMKEGKLNEFREKYRKKVDVLLIDDVQFLIGK  209 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHhcccHHHHHHHHHhcCCEEEEechhhhcCc
Confidence            3569999999999999999999975     45788888887765543322111111233222335789999999988544


Q ss_pred             CCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCC---CcHHHHhccC--CceEeCCCCHHHHHHHHHHHhcC
Q 016044          198 RRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE---LDEAILRRLP--QAFEIGMPDRKERAQILKVILKG  272 (396)
Q Consensus       198 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~---l~~~l~~R~~--~~i~~~~P~~~er~~il~~~l~~  272 (396)
                      ...         ..+++..++.+..  ....+++++...|..   +.+.+.+||.  ..+.+.+|+.+.|..|++..+..
T Consensus       210 ~~~---------q~elf~~~n~l~~--~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~~~  278 (440)
T PRK14088        210 TGV---------QTELFHTFNELHD--SGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIARKMLEI  278 (440)
T ss_pred             HHH---------HHHHHHHHHHHHH--cCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHHHHHHh
Confidence            211         1133333333322  223455555566654   4578888883  36789999999999999999875


Q ss_pred             CCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHH
Q 016044          273 EKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQA  303 (396)
Q Consensus       273 ~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A  303 (396)
                      ..+. ++-.++.||....| +.++|..++..-
T Consensus       279 ~~~~l~~ev~~~Ia~~~~~-~~R~L~g~l~~l  309 (440)
T PRK14088        279 EHGELPEEVLNFVAENVDD-NLRRLRGAIIKL  309 (440)
T ss_pred             cCCCCCHHHHHHHHhcccc-CHHHHHHHHHHH
Confidence            4333 22236778887775 555666555543

>PRK08084 DNA replication initiation factor; Provisional

Probab=99.65  E-value=8.3e-15  Score=133.62  Aligned_cols=206  Identities=18%  Similarity=0.185  Sum_probs=124.1

Q ss_pred             CCccccccc--ChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC---CcEEEEecc
Q 016044           83 IDVEFESIG--GLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG---AVFINVRIS  157 (396)
Q Consensus        83 ~~~~~~~i~--G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~---~~~~~i~~~  157 (396)
                      +..+|++++  ++..+...+.++...              ....+++||||||||||+++++++++..   ..+.+++..
T Consensus        17 ~~~~fd~f~~~~n~~a~~~l~~~~~~--------------~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~   82 (235)
T PRK08084         17 DDETFASFYPGDNDSLLAALQNALRQ--------------EHSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLD   82 (235)
T ss_pred             CcCCccccccCccHHHHHHHHHHHhC--------------CCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHH
Confidence            356788876  456666666654321              1235799999999999999999998653   345555544


Q ss_pred             cccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCc-EEEEEecCC
Q 016044          158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNAR-VMVLAATNR  236 (396)
Q Consensus       158 ~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~-v~vI~atn~  236 (396)
                      .....        ...+.....  +..+|+|||++.+.+....  .       ..+...++....  .++ .+++++++.
T Consensus        83 ~~~~~--------~~~~~~~~~--~~dlliiDdi~~~~~~~~~--~-------~~lf~l~n~~~e--~g~~~li~ts~~~  141 (235)
T PRK08084         83 KRAWF--------VPEVLEGME--QLSLVCIDNIECIAGDELW--E-------MAIFDLYNRILE--SGRTRLLITGDRP  141 (235)
T ss_pred             HHhhh--------hHHHHHHhh--hCCEEEEeChhhhcCCHHH--H-------HHHHHHHHHHHH--cCCCeEEEeCCCC
Confidence            32111        111112111  1269999999988543211  1       123333332221  223 345555556


Q ss_pred             CCC---CcHHHHhccC--CceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHH
Q 016044          237 PSE---LDEAILRRLP--QAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE  310 (396)
Q Consensus       237 ~~~---l~~~l~~R~~--~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~  310 (396)
                      |..   +.+++++|+.  .++.+.+|+.+++.++++..+....+. ++--++.|++.+.| +.+.+..+++.....++. 
T Consensus       142 p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~~~~l~~~v~~~L~~~~~~-d~r~l~~~l~~l~~~~l~-  219 (235)
T PRK08084        142 PRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQLRARLRGFELPEDVGRFLLKRLDR-EMRTLFMTLDQLDRASIT-  219 (235)
T ss_pred             hHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhhcC-CHHHHHHHHHHHHHHHHh-
Confidence            555   5799999985  688999999999999999866544333 22337788888886 556666666553211111 


Q ss_pred             HHHHHhcCCCCCCCCCCCHHHHHHHHH
Q 016044          311 LLDEERKGKPAAAPRPLSRLDLEKVLT  337 (396)
Q Consensus       311 ~~~~~~~~~~~~~~~~i~~~d~~~al~  337 (396)
                                  ..++||.+.+++++.
T Consensus       220 ------------~~~~it~~~~k~~l~  234 (235)
T PRK08084        220 ------------AQRKLTIPFVKEILK  234 (235)
T ss_pred             ------------cCCCCCHHHHHHHHc
Confidence                        125688888777653

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=99.65  E-value=2.2e-14  Score=130.42  Aligned_cols=201  Identities=17%  Similarity=0.286  Sum_probs=126.3

Q ss_pred             CCccccccc--ChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044           83 IDVEFESIG--GLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus        83 ~~~~~~~i~--G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      .+.+|++++  +.+.+...++.+..           +  .....+++|+||+|||||++|++++++.   +.+++.+++.
T Consensus        13 ~~~~~d~f~~~~~~~~~~~l~~~~~-----------~--~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~   79 (227)
T PRK08903         13 PPPTFDNFVAGENAELVARLRELAA-----------G--PVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDAA   79 (227)
T ss_pred             ChhhhcccccCCcHHHHHHHHHHHh-----------c--cCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehH
Confidence            356788866  45666666665442           1  2235789999999999999999999865   6678888876


Q ss_pred             cccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCc-EEEEEecCC
Q 016044          158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNAR-VMVLAATNR  236 (396)
Q Consensus       158 ~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~-v~vI~atn~  236 (396)
                      .+...            +  .....+.+|+|||+|.+...    ...       .+...++....  ... +++++++..
T Consensus        80 ~~~~~------------~--~~~~~~~~liiDdi~~l~~~----~~~-------~L~~~~~~~~~--~~~~~vl~~~~~~  132 (227)
T PRK08903         80 SPLLA------------F--DFDPEAELYAVDDVERLDDA----QQI-------ALFNLFNRVRA--HGQGALLVAGPAA  132 (227)
T ss_pred             HhHHH------------H--hhcccCCEEEEeChhhcCch----HHH-------HHHHHHHHHHH--cCCcEEEEeCCCC
Confidence            64321            1  11224579999999987321    111       22333332221  223 344444433


Q ss_pred             CC--CCcHHHHhcc--CCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHH
Q 016044          237 PS--ELDEAILRRL--PQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIREL  311 (396)
Q Consensus       237 ~~--~l~~~l~~R~--~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~  311 (396)
                      +.  .+.+.+++||  ...+.+++|+.+++..+++..+....+. ++-.++.|++.+.| +..++..+++.-...+... 
T Consensus       133 ~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~~~~~~v~l~~~al~~L~~~~~g-n~~~l~~~l~~l~~~~~~~-  210 (227)
T PRK08903        133 PLALPLREDLRTRLGWGLVYELKPLSDADKIAALKAAAAERGLQLADEVPDYLLTHFRR-DMPSLMALLDALDRYSLEQ-  210 (227)
T ss_pred             HHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccC-CHHHHHHHHHHHHHHHHHh-
Confidence            32  3568888887  4688999999999999998877654443 22236667776655 6667777766533222221 


Q ss_pred             HHHHhcCCCCCCCCCCCHHHHHHHHH
Q 016044          312 LDEERKGKPAAAPRPLSRLDLEKVLT  337 (396)
Q Consensus       312 ~~~~~~~~~~~~~~~i~~~d~~~al~  337 (396)
                                  .++||...+.+++.
T Consensus       211 ------------~~~i~~~~~~~~l~  224 (227)
T PRK08903        211 ------------KRPVTLPLLREMLA  224 (227)
T ss_pred             ------------CCCCCHHHHHHHHh
Confidence                        16788888888775

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=99.65  E-value=1.5e-14  Score=131.25  Aligned_cols=204  Identities=20%  Similarity=0.266  Sum_probs=126.6

Q ss_pred             Cccccccc--ChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEeccc
Q 016044           84 DVEFESIG--GLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISN  158 (396)
Q Consensus        84 ~~~~~~i~--G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~  158 (396)
                      +.+|+++.  +.+.+++.+++++.              ...+.+++|+||+|||||++|+++++++   +.+++.++|+.
T Consensus        11 ~~~~~~~~~~~~~~~~~~l~~~~~--------------~~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~   76 (226)
T TIGR03420        11 DPTFDNFYAGGNAELLAALRQLAA--------------GKGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAE   76 (226)
T ss_pred             chhhcCcCcCCcHHHHHHHHHHHh--------------cCCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHH
Confidence            35677775  46677888876642              1235789999999999999999999865   56788899887


Q ss_pred             ccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC
Q 016044          159 LMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS  238 (396)
Q Consensus       159 l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~  238 (396)
                      +....        ..++...  ..+.+|+|||+|.+.....  ...       .+...++....  ....++++++..+.
T Consensus        77 ~~~~~--------~~~~~~~--~~~~lLvIDdi~~l~~~~~--~~~-------~L~~~l~~~~~--~~~~iIits~~~~~  135 (226)
T TIGR03420        77 LAQAD--------PEVLEGL--EQADLVCLDDVEAIAGQPE--WQE-------ALFHLYNRVRE--AGGRLLIAGRAAPA  135 (226)
T ss_pred             HHHhH--------HHHHhhc--ccCCEEEEeChhhhcCChH--HHH-------HHHHHHHHHHH--cCCeEEEECCCChH
Confidence            75432        1222222  1347999999998743210  011       22222322211  11234444443443


Q ss_pred             CC---cHHHHhccC--CceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHH
Q 016044          239 EL---DEAILRRLP--QAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELL  312 (396)
Q Consensus       239 ~l---~~~l~~R~~--~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~  312 (396)
                      .+   .+.+.+|+.  ..+.+++|+.+++..+++.++...... ++-.+..|+..+.| +.+++.++++.+...+..+. 
T Consensus       136 ~~~~~~~~L~~r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~l~~L~~~~~g-n~r~L~~~l~~~~~~~~~~~-  213 (226)
T TIGR03420       136 QLPLRLPDLRTRLAWGLVFQLPPLSDEEKIAALQSRAARRGLQLPDEVADYLLRHGSR-DMGSLMALLDALDRASLAAK-  213 (226)
T ss_pred             HCCcccHHHHHHHhcCeeEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccC-CHHHHHHHHHHHHHHHHHhC-
Confidence            33   278888873  688999999999999999877644332 22235667775544 67788888777654433321 


Q ss_pred             HHHhcCCCCCCCCCCCHHHHHHHH
Q 016044          313 DEERKGKPAAAPRPLSRLDLEKVL  336 (396)
Q Consensus       313 ~~~~~~~~~~~~~~i~~~d~~~al  336 (396)
                                  ..|+.+.+.+.+
T Consensus       214 ------------~~i~~~~~~~~~  225 (226)
T TIGR03420       214 ------------RKITIPFVKEVL  225 (226)
T ss_pred             ------------CCCCHHHHHHHh
Confidence                        457776665544

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

>PRK06893 DNA replication initiation factor; Validated

Probab=99.64  E-value=4.9e-15  Score=134.65  Aligned_cols=210  Identities=17%  Similarity=0.233  Sum_probs=122.3

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEeccc
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISN  158 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~  158 (396)
                      .++.+|++++|.+... .+..+.       ..+...    ....++||||||||||+|++++|++.   +....+++...
T Consensus        10 ~~~~~fd~f~~~~~~~-~~~~~~-------~~~~~~----~~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~   77 (229)
T PRK06893         10 IDDETLDNFYADNNLL-LLDSLR-------KNFIDL----QQPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSK   77 (229)
T ss_pred             CCcccccccccCChHH-HHHHHH-------HHhhcc----CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHH
Confidence            3467899998765432 111111       111111    12457999999999999999999875   33444444432


Q ss_pred             ccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC
Q 016044          159 LMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS  238 (396)
Q Consensus       159 l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~  238 (396)
                      .        ......++....  +..+|+|||++.+.+....         ...+...++.... .+..+++++++..|.
T Consensus        78 ~--------~~~~~~~~~~~~--~~dlLilDDi~~~~~~~~~---------~~~l~~l~n~~~~-~~~~illits~~~p~  137 (229)
T PRK06893         78 S--------QYFSPAVLENLE--QQDLVCLDDLQAVIGNEEW---------ELAIFDLFNRIKE-QGKTLLLISADCSPH  137 (229)
T ss_pred             h--------hhhhHHHHhhcc--cCCEEEEeChhhhcCChHH---------HHHHHHHHHHHHH-cCCcEEEEeCCCChH
Confidence            1        011112222222  4479999999988543211         1123333333321 122344555666676


Q ss_pred             CCc---HHHHhccC--CceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHH
Q 016044          239 ELD---EAILRRLP--QAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELL  312 (396)
Q Consensus       239 ~l~---~~l~~R~~--~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~  312 (396)
                      .++   +.+.+|+.  ..+.+++|+.++|.++++..+....+. ++..++.|++.+.| +.+.+..+++.....++.   
T Consensus       138 ~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a~~~~l~l~~~v~~~L~~~~~~-d~r~l~~~l~~l~~~~~~---  213 (229)
T PRK06893        138 ALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRNAYQRGIELSDEVANFLLKRLDR-DMHTLFDALDLLDKASLQ---  213 (229)
T ss_pred             HccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccC-CHHHHHHHHHHHHHHHHh---
Confidence            554   88999763  588899999999999999888644443 23336778888875 445555555432211111   


Q ss_pred             HHHhcCCCCCCCCCCCHHHHHHHHH
Q 016044          313 DEERKGKPAAAPRPLSRLDLEKVLT  337 (396)
Q Consensus       313 ~~~~~~~~~~~~~~i~~~d~~~al~  337 (396)
                                ..++||...+++++.
T Consensus       214 ----------~~~~it~~~v~~~L~  228 (229)
T PRK06893        214 ----------AQRKLTIPFVKEILG  228 (229)
T ss_pred             ----------cCCCCCHHHHHHHhc
Confidence                      125688888887653

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.64  E-value=2.3e-14  Score=141.11  Aligned_cols=224  Identities=19%  Similarity=0.241  Sum_probs=143.5

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEeccccc
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVRISNLM  160 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~~~~l~  160 (396)
                      ..+.++|.++..+.|...+...      ...    ..+.+++|+||||||||++++.+++++     +..+++++|....
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~------~~~----~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~   97 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPA------LRG----SRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDR   97 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHH------hCC----CCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCC
Confidence            4467899999999998776421      111    124679999999999999999999876     5778899986543


Q ss_pred             ch----------hhc--------hHHHHHHHHHHHHHH-hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC
Q 016044          161 SK----------WFG--------DAQKLVAAVFSLAYK-LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT  221 (396)
Q Consensus       161 ~~----------~~g--------~~~~~~~~~f~~a~~-~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~  221 (396)
                      +.          ..+        ........+...... ..+.||+|||+|.+......       ..+..++..++...
T Consensus        98 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~-------~~l~~l~~~~~~~~  170 (394)
T PRK00411         98 TRYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGN-------DVLYSLLRAHEEYP  170 (394)
T ss_pred             CHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCc-------hHHHHHHHhhhccC
Confidence            21          001        122233333333332 24579999999998622111       12234444343322


Q ss_pred             cCCCCcEEEEEecCCCC---CCcHHHHhccC-CceEeCCCCHHHHHHHHHHHhcCCC---CCCCCCHHHHHHhCCCCc--
Q 016044          222 TDQNARVMVLAATNRPS---ELDEAILRRLP-QAFEIGMPDRKERAQILKVILKGEK---VEENIDFDYLAGLCEGFT--  292 (396)
Q Consensus       222 ~~~~~~v~vI~atn~~~---~l~~~l~~R~~-~~i~~~~P~~~er~~il~~~l~~~~---~~~~~~l~~la~~~~g~s--  292 (396)
                         ..++.+|+++|..+   .+++.+.+|+. ..+.|++++.++..++++..+....   .-.+..++.+++.+.+.+  
T Consensus       171 ---~~~v~vI~i~~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd  247 (394)
T PRK00411        171 ---GARIGVIGISSDLTFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGD  247 (394)
T ss_pred             ---CCeEEEEEEECCcchhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCc
Confidence               33688888888653   56788888774 5689999999999999998875321   112223566676664322  


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhccc
Q 016044          293 GSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRK  341 (396)
Q Consensus       293 ~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~~  341 (396)
                      .+.+..+|..|+..|..+.            ...|+.+|+..|+..+..
T Consensus       248 ~r~a~~ll~~a~~~a~~~~------------~~~I~~~~v~~a~~~~~~  284 (394)
T PRK00411        248 ARVAIDLLRRAGLIAEREG------------SRKVTEEDVRKAYEKSEI  284 (394)
T ss_pred             HHHHHHHHHHHHHHHHHcC------------CCCcCHHHHHHHHHHHHH
Confidence            2344466777766655431            256999999999988743

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.64  E-value=1.1e-14  Score=142.03  Aligned_cols=188  Identities=19%  Similarity=0.227  Sum_probs=125.2

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcE----------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVF----------  151 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~----------  151 (396)
                      +.+.+|++++|++.+++.+...+..          +   ..++++|||||||+|||++|+++++.++++.          
T Consensus        11 ~rP~~~~~iig~~~~~~~l~~~i~~----------~---~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~   77 (367)
T PRK14970         11 YRPQTFDDVVGQSHITNTLLNAIEN----------N---HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSF   77 (367)
T ss_pred             HCCCcHHhcCCcHHHHHHHHHHHHc----------C---CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCc
Confidence            4467999999999999999877642          1   2357899999999999999999999875421          


Q ss_pred             EEEecccccchhhchHHHHHHHHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCc
Q 016044          152 INVRISNLMSKWFGDAQKLVAAVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNAR  227 (396)
Q Consensus       152 ~~i~~~~l~~~~~g~~~~~~~~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~  227 (396)
                      ..+.....    .......++.++..+..    ..+.+++|||+|.+...           ..+.++..++.    .+..
T Consensus        78 ~~~~l~~~----~~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~~-----------~~~~ll~~le~----~~~~  138 (367)
T PRK14970         78 NIFELDAA----SNNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLSSA-----------AFNAFLKTLEE----PPAH  138 (367)
T ss_pred             ceEEeccc----cCCCHHHHHHHHHHHhhccccCCcEEEEEeChhhcCHH-----------HHHHHHHHHhC----CCCc
Confidence            11111110    00112334444444322    23479999999987321           12344444443    2345


Q ss_pred             EEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHH
Q 016044          228 VMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQA  303 (396)
Q Consensus       228 v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A  303 (396)
                      .++|++++.+..+.+++.+|+ ..+.+++|+.++...++...+...+.. ++-.++.++..+.| +.+.+.+.++..
T Consensus       139 ~~~Il~~~~~~kl~~~l~sr~-~~v~~~~~~~~~l~~~l~~~~~~~g~~i~~~al~~l~~~~~g-dlr~~~~~lekl  213 (367)
T PRK14970        139 AIFILATTEKHKIIPTILSRC-QIFDFKRITIKDIKEHLAGIAVKEGIKFEDDALHIIAQKADG-ALRDALSIFDRV  213 (367)
T ss_pred             eEEEEEeCCcccCCHHHHhcc-eeEecCCccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            667777777888999999999 789999999999999999888766653 23346677777665 445555544443

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.63  E-value=1.1e-14  Score=143.02  Aligned_cols=186  Identities=18%  Similarity=0.206  Sum_probs=122.8

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-----------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-----------  150 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-----------  150 (396)
                      ..+.+|++|+|++.+++.|...+..          +   +.++.+||+||||+|||++|+++|+.+.+.           
T Consensus        10 ~RP~~~~eiiGq~~~~~~L~~~~~~----------~---~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~   76 (397)
T PRK14955         10 YRPKKFADITAQEHITRTIQNSLRM----------G---RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQE   76 (397)
T ss_pred             cCCCcHhhccChHHHHHHHHHHHHh----------C---CcceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCccccccc
Confidence            3467999999999999999876642          1   235779999999999999999999988652           


Q ss_pred             ---------------------EEEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHH
Q 016044          151 ---------------------FINVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEA  205 (396)
Q Consensus       151 ---------------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~  205 (396)
                                           ++.++....      ..-..++.+...+.    .....|++|||+|.+...        
T Consensus        77 ~~~~c~~c~~c~~~~~~~~~n~~~~~~~~~------~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~--------  142 (397)
T PRK14955         77 VTEPCGECESCRDFDAGTSLNISEFDAASN------NSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIA--------  142 (397)
T ss_pred             CCCCCCCCHHHHHHhcCCCCCeEeeccccc------CCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHH--------
Confidence                                 111111000      01122333333331    123369999999998321        


Q ss_pred             HHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHH
Q 016044          206 LTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYL  284 (396)
Q Consensus       206 ~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~l  284 (396)
                         ..+.++..++.    .+...++|.+|+.+..+.+++.+|+ ..+.|++++.++....++..++..... ++..++.+
T Consensus       143 ---~~~~LLk~LEe----p~~~t~~Il~t~~~~kl~~tl~sR~-~~v~f~~l~~~ei~~~l~~~~~~~g~~i~~~al~~l  214 (397)
T PRK14955        143 ---AFNAFLKTLEE----PPPHAIFIFATTELHKIPATIASRC-QRFNFKRIPLEEIQQQLQGICEAEGISVDADALQLI  214 (397)
T ss_pred             ---HHHHHHHHHhc----CCCCeEEEEEeCChHHhHHHHHHHH-HHhhcCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence               12244444442    3445677777777788889999999 789999999999999999888755432 22335667


Q ss_pred             HHhCCCCcHHHHHHHHHHH
Q 016044          285 AGLCEGFTGSDLLEVCKQA  303 (396)
Q Consensus       285 a~~~~g~s~~di~~l~~~A  303 (396)
                      +..+.| +.+.+.+.++.+
T Consensus       215 ~~~s~g-~lr~a~~~L~kl  232 (397)
T PRK14955        215 GRKAQG-SMRDAQSILDQV  232 (397)
T ss_pred             HHHcCC-CHHHHHHHHHHH
Confidence            777765 445555555443

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=99.63  E-value=1.7e-14  Score=143.21  Aligned_cols=188  Identities=20%  Similarity=0.212  Sum_probs=124.9

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc------------
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV------------  150 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~------------  150 (396)
                      .+.+|++|+|++.+++.|...+..          +   ..++.+||+||||+|||++|+++|+.+.+.            
T Consensus        12 RP~~~~diiGq~~~v~~L~~~i~~----------~---~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c   78 (451)
T PRK06305         12 RPQTFSEILGQDAVVAVLKNALRF----------N---RAAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQC   78 (451)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc----------C---CCceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCccc
Confidence            467999999999999999877642          1   235779999999999999999999977432            


Q ss_pred             -------------EEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHh
Q 016044          151 -------------FINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW  217 (396)
Q Consensus       151 -------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l  217 (396)
                                   ++.+++....  ...........+..........|++|||+|.+...           ..+.|+..+
T Consensus        79 ~~C~~i~~~~~~d~~~i~g~~~~--gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~-----------~~n~LLk~l  145 (451)
T PRK06305         79 ASCKEISSGTSLDVLEIDGASHR--GIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKE-----------AFNSLLKTL  145 (451)
T ss_pred             HHHHHHhcCCCCceEEeeccccC--CHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHH-----------HHHHHHHHh
Confidence                         2222221100  01111111111111112235689999999988321           223555555


Q ss_pred             hccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHH
Q 016044          218 DGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDL  296 (396)
Q Consensus       218 ~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di  296 (396)
                      +.    .+..+++|++|+.+..+.+++++|+ ..+.|+.++.++....+...++..+.. ++..++.++..+.| +.+++
T Consensus       146 Ee----p~~~~~~Il~t~~~~kl~~tI~sRc-~~v~f~~l~~~el~~~L~~~~~~eg~~i~~~al~~L~~~s~g-dlr~a  219 (451)
T PRK06305        146 EE----PPQHVKFFLATTEIHKIPGTILSRC-QKMHLKRIPEETIIDKLALIAKQEGIETSREALLPIARAAQG-SLRDA  219 (451)
T ss_pred             hc----CCCCceEEEEeCChHhcchHHHHhc-eEEeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHH
Confidence            53    3456788888888899999999999 789999999999999999888765543 22336677777765 44444


Q ss_pred             HHHHHH
Q 016044          297 LEVCKQ  302 (396)
Q Consensus       297 ~~l~~~  302 (396)
                      .++++.
T Consensus       220 ~~~Lek  225 (451)
T PRK06305        220 ESLYDY  225 (451)
T ss_pred             HHHHHH
Confidence            444443

>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]

Probab=99.62  E-value=1.1e-15  Score=148.81  Aligned_cols=231  Identities=22%  Similarity=0.245  Sum_probs=151.4

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEeccccc
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLM  160 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~  160 (396)
                      ..+|++|+|.+.....+.+.+.       .+     ...+..|||.|.+||||..+|++|.+.+   +.||+.+||..+.
T Consensus       241 ~y~f~~Iig~S~~m~~~~~~ak-------r~-----A~tdstVLi~GESGTGKElfA~~IH~~S~R~~~PFIaiNCaAiP  308 (560)
T COG3829         241 KYTFDDIIGESPAMLRVLELAK-------RI-----AKTDSTVLILGESGTGKELFARAIHNLSPRANGPFIAINCAAIP  308 (560)
T ss_pred             ccchhhhccCCHHHHHHHHHHH-------hh-----cCCCCcEEEecCCCccHHHHHHHHHhcCcccCCCeEEEecccCC
Confidence            4689999999998888876653       33     2346789999999999999999998865   6799999997664


Q ss_pred             chh-----hc--------hHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCc
Q 016044          161 SKW-----FG--------DAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNAR  227 (396)
Q Consensus       161 ~~~-----~g--------~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~  227 (396)
                      ...     +|        ....--...|+.|   +.+.||+|||..|.    -..+..+.|++.+-.-.--|-....+.+
T Consensus       309 e~LlESELFGye~GAFTGA~~~GK~GlfE~A---~gGTLFLDEIgemp----l~LQaKLLRVLQEkei~rvG~t~~~~vD  381 (560)
T COG3829         309 ETLLESELFGYEKGAFTGASKGGKPGLFELA---NGGTLFLDEIGEMP----LPLQAKLLRVLQEKEIERVGGTKPIPVD  381 (560)
T ss_pred             HHHHHHHHhCcCCccccccccCCCCcceeec---cCCeEEehhhccCC----HHHHHHHHHHHhhceEEecCCCCceeeE
Confidence            332     11        1111122344444   34899999999883    2223333333222111111223334568


Q ss_pred             EEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHH
Q 016044          228 VMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVC  300 (396)
Q Consensus       228 v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~  300 (396)
                      |.||+|||+.       ..+-.+|..|+ .++.+..|+..+|.+-+..+....--.   .-....+...|+++..+..|.
T Consensus       382 VRIIAATN~nL~~~i~~G~FReDLYYRL-NV~~i~iPPLReR~eDI~~L~~~Fl~k---~s~~~~~~v~~ls~~a~~~L~  457 (560)
T COG3829         382 VRIIAATNRNLEKMIAEGTFREDLYYRL-NVIPITIPPLRERKEDIPLLAEYFLDK---FSRRYGRNVKGLSPDALALLL  457 (560)
T ss_pred             EEEEeccCcCHHHHHhcCcchhhheeee-ceeeecCCCcccCcchHHHHHHHHHHH---HHHHcCCCcccCCHHHHHHHH
Confidence            9999999962       35567777798 889999999999988555444211000   001223345678999999999


Q ss_pred             HHHHHHHHHHHHHHHhcCCC-CCCCCCCCHHHHH-HHHH
Q 016044          301 KQAAYFSIRELLDEERKGKP-AAAPRPLSRLDLE-KVLT  337 (396)
Q Consensus       301 ~~A~~~a~~~~~~~~~~~~~-~~~~~~i~~~d~~-~al~  337 (396)
                      +++|..++|++.+...+... ......|+.+|+- .++.
T Consensus       458 ~y~WPGNVRELeNviER~v~~~~~~~~I~~~~lp~~~l~  496 (560)
T COG3829         458 RYDWPGNVRELENVIERAVNLVESDGLIDADDLPAFALE  496 (560)
T ss_pred             hCCCCchHHHHHHHHHHHHhccCCcceeehhhcchhhhc
Confidence            99999999999887766442 3344447777766 4443

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=99.62  E-value=3.6e-15  Score=143.04  Aligned_cols=179  Identities=25%  Similarity=0.401  Sum_probs=126.1

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc-hhhc-h
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS-KWFG-D  166 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~-~~~g-~  166 (396)
                      .|+|++++|+.+..++....++..+....+.-..++++||+||||||||++|+++|..++.+|+.++++.+.. .|.| +
T Consensus        16 ~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f~e~GyvG~d   95 (443)
T PRK05201         16 YIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRD   95 (443)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhhccCCcccCC
Confidence            3899999999998877643222222111111123689999999999999999999999999999999987774 4666 3


Q ss_pred             HHHHHHHHHHHH--------------------------------------------------------------------
Q 016044          167 AQKLVAAVFSLA--------------------------------------------------------------------  178 (396)
Q Consensus       167 ~~~~~~~~f~~a--------------------------------------------------------------------  178 (396)
                      .+..++.+|..|                                                                    
T Consensus        96 ~e~~ir~L~~~A~~~~~~~~~~~~~~~a~~~~e~ri~~~l~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~g~ldd~~iei  175 (443)
T PRK05201         96 VESIIRDLVEIAVKMVREEKREKVREKAEEAAEERILDALLPPAKNNWGEEEEKEEISATRQKFRKKLREGELDDKEIEI  175 (443)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhCCCccCCccccccchhhhHHHHHHHHHHHcCCcCCcEEEE
Confidence            344444444333                                                                    


Q ss_pred             --------------------------------------------------------------------H--HhCCcEEEE
Q 016044          179 --------------------------------------------------------------------Y--KLQPAIIFI  188 (396)
Q Consensus       179 --------------------------------------------------------------------~--~~~p~vl~i  188 (396)
                                                                                          .  ..+.+|+||
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~eA~~~l~~~e~~~lid~~~v~~~ai~~ae~~GIVfi  255 (443)
T PRK05201        176 EVAEAAPMMEIMGPPGMEEMTIQLQDMFGNLGPKKKKKRKLKVKEARKILIEEEAAKLIDMEEIKQEAIERVEQNGIVFI  255 (443)
T ss_pred             EecCCCCcccCCCCcchhHHHHHHHHHHHhhCCCCCceEEeEHHHHHHHHHHHHHHhccChHHHHHHHHHHHHcCCEEEE
Confidence                                                                                0  124589999


Q ss_pred             ccccccccCCCCCchH-HHHhhHHHHHHHhhccCc------CCCCcEEEEEecC----CCCCCcHHHHhccCCceEeCCC
Q 016044          189 DEVDSFLGQRRTSDHE-ALTNMKTEFMALWDGFTT------DQNARVMVLAATN----RPSELDEAILRRLPQAFEIGMP  257 (396)
Q Consensus       189 DEid~l~~~~~~~~~~-~~~~~~~~ll~~l~~~~~------~~~~~v~vI~atn----~~~~l~~~l~~R~~~~i~~~~P  257 (396)
                      ||||.++.+......+ +...+...|+..++|-..      -+..++++||+.-    .|+++-|.|.-||+.++.+..+
T Consensus       256 DEiDKIa~~~~~~~~DvS~eGVQ~~LLki~EG~~v~~k~~~i~T~~ILFI~~GAF~~~kp~DlIPEl~GR~Pi~v~L~~L  335 (443)
T PRK05201        256 DEIDKIAARGGSSGPDVSREGVQRDLLPLVEGSTVSTKYGMVKTDHILFIASGAFHVSKPSDLIPELQGRFPIRVELDAL  335 (443)
T ss_pred             EcchhhcccCCCCCCCCCccchhcccccccccceeeecceeEECCceeEEecCCcCCCChhhccHHHhCccceEEECCCC
Confidence            9999998764322212 223355677777776322      1245788888763    5777889999999999999999


Q ss_pred             CHHHHHHHHH
Q 016044          258 DRKERAQILK  267 (396)
Q Consensus       258 ~~~er~~il~  267 (396)
                      +.++...||.
T Consensus       336 ~~~dL~~ILt  345 (443)
T PRK05201        336 TEEDFVRILT  345 (443)
T ss_pred             CHHHHHHHhc
Confidence            9999998883

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.62  E-value=2.8e-14  Score=145.55  Aligned_cols=189  Identities=18%  Similarity=0.213  Sum_probs=123.5

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEE---------
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFIN---------  153 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~---------  153 (396)
                      .+.+|++|+|++.+++.|+..+..          +   +-++++||+||+|||||++|+.+|+.+.+.-..         
T Consensus        11 RP~~f~eivGQe~i~~~L~~~i~~----------~---ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~   77 (620)
T PRK14954         11 RPSKFADITAQEHITHTIQNSLRM----------D---RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEV   77 (620)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc----------C---CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCcccccccc
Confidence            467999999999999999876542          1   235779999999999999999999988762100         


Q ss_pred             -Eecc--------------cccchhhch---HHHHHHHHHHHH----HHhCCcEEEEccccccccCCCCCchHHHHhhHH
Q 016044          154 -VRIS--------------NLMSKWFGD---AQKLVAAVFSLA----YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKT  211 (396)
Q Consensus       154 -i~~~--------------~l~~~~~g~---~~~~~~~~f~~a----~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~  211 (396)
                       -.|.              ++. .+-+.   .-..++.+....    ......|++|||+|.+...           ..+
T Consensus        78 ~~~Cg~C~sC~~~~~g~~~n~~-~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~-----------a~n  145 (620)
T PRK14954         78 TEPCGECESCRDFDAGTSLNIS-EFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTA-----------AFN  145 (620)
T ss_pred             CCCCccCHHHHHHhccCCCCeE-EecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHH-----------HHH
Confidence             0010              000 00010   012233333322    1223479999999988321           123


Q ss_pred             HHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCC
Q 016044          212 EFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEG  290 (396)
Q Consensus       212 ~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g  290 (396)
                      .|+..++.    .+..+++|++|+.+..+.+++.+|+ ..+.|..++.++....+...+...... ++..++.++..+.|
T Consensus       146 aLLK~LEe----Pp~~tv~IL~t~~~~kLl~TI~SRc-~~vef~~l~~~ei~~~L~~i~~~egi~I~~eal~~La~~s~G  220 (620)
T PRK14954        146 AFLKTLEE----PPPHAIFIFATTELHKIPATIASRC-QRFNFKRIPLDEIQSQLQMICRAEGIQIDADALQLIARKAQG  220 (620)
T ss_pred             HHHHHHhC----CCCCeEEEEEeCChhhhhHHHHhhc-eEEecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCC
Confidence            55555553    3455677777777889999999999 899999999999999999888755432 23346677777775


Q ss_pred             CcHHHHHHHHHH
Q 016044          291 FTGSDLLEVCKQ  302 (396)
Q Consensus       291 ~s~~di~~l~~~  302 (396)
                       +.+++.+.++.
T Consensus       221 -dlr~al~eLeK  231 (620)
T PRK14954        221 -SMRDAQSILDQ  231 (620)
T ss_pred             -CHHHHHHHHHH
Confidence             44444444443

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=99.61  E-value=5e-14  Score=143.98  Aligned_cols=217  Identities=18%  Similarity=0.231  Sum_probs=137.8

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEEEecc
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFINVRIS  157 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~i~~~  157 (396)
                      +.|.|.++.+++|..++...+      ..   ..+...++|+|+||||||++++.+..++          ...+++++|.
T Consensus       755 D~LPhREeEIeeLasfL~paI------kg---sgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm  825 (1164)
T PTZ00112        755 KYLPCREKEIKEVHGFLESGI------KQ---SGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGM  825 (1164)
T ss_pred             CcCCChHHHHHHHHHHHHHHH------hc---CCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCC
Confidence            679999999999988776322      11   1122345799999999999999998765          2567899996


Q ss_pred             cccchhh-----------------chHHHHHHHHHHHHHH--hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhh
Q 016044          158 NLMSKWF-----------------GDAQKLVAAVFSLAYK--LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWD  218 (396)
Q Consensus       158 ~l~~~~~-----------------g~~~~~~~~~f~~a~~--~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~  218 (396)
                      .+...+.                 ......+..+|.....  ....||+|||||.|....    +    .+   |+.+++
T Consensus       826 ~Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~----Q----DV---LYnLFR  894 (1164)
T PTZ00112        826 NVVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKT----Q----KV---LFTLFD  894 (1164)
T ss_pred             ccCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccH----H----HH---HHHHHH
Confidence            5433210                 1123345555554421  224699999999996532    1    11   222222


Q ss_pred             ccCcCCCCcEEEEEecCC---CCCCcHHHHhccCC-ceEeCCCCHHHHHHHHHHHhcCCC-CCCCCCHHHHHHhCCCCcH
Q 016044          219 GFTTDQNARVMVLAATNR---PSELDEAILRRLPQ-AFEIGMPDRKERAQILKVILKGEK-VEENIDFDYLAGLCEGFTG  293 (396)
Q Consensus       219 ~~~~~~~~~v~vI~atn~---~~~l~~~l~~R~~~-~i~~~~P~~~er~~il~~~l~~~~-~~~~~~l~~la~~~~g~s~  293 (396)
                      ... ....++.|||++|.   ++.+++.+++||.. .+.|++++.+++.+||+..+.... .-.+..++.+|+.+...+ 
T Consensus       895 ~~~-~s~SKLiLIGISNdlDLperLdPRLRSRLg~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~S-  972 (1164)
T PTZ00112        895 WPT-KINSKLVLIAISNTMDLPERLIPRCRSRLAFGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVS-  972 (1164)
T ss_pred             Hhh-ccCCeEEEEEecCchhcchhhhhhhhhccccccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcC-
Confidence            211 23567999999986   55677888888854 488999999999999999987531 112222556666444322 


Q ss_pred             HHHHHH---HHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhccc
Q 016044          294 SDLLEV---CKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRK  341 (396)
Q Consensus       294 ~di~~l---~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~~  341 (396)
                      +|++.+   |+.|+..         .      ....|+.+|+.+|+..+..
T Consensus       973 GDARKALDILRrAgEi---------k------egskVT~eHVrkAleeiE~ 1008 (1164)
T PTZ00112        973 GDIRKALQICRKAFEN---------K------RGQKIVPRDITEATNQLFD 1008 (1164)
T ss_pred             CHHHHHHHHHHHHHhh---------c------CCCccCHHHHHHHHHHHHh
Confidence            355543   3333321         1      1136899999999877643

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=99.61  E-value=3.5e-14  Score=135.69  Aligned_cols=174  Identities=23%  Similarity=0.305  Sum_probs=116.9

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC-----CcEEEEe
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG-----AVFINVR  155 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~-----~~~~~i~  155 (396)
                      .+.+.+|++++|++++++.+..++..          +    ...+++|+||||||||++++++++++.     .+++.++
T Consensus        10 kyrP~~~~~~~g~~~~~~~l~~~i~~----------~----~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~~   75 (319)
T PRK00440         10 KYRPRTLDEIVGQEEIVERLKSYVKE----------K----NMPHLLFAGPPGTGKTTAALALARELYGEDWRENFLELN   75 (319)
T ss_pred             hhCCCcHHHhcCcHHHHHHHHHHHhC----------C----CCCeEEEECCCCCCHHHHHHHHHHHHcCCccccceEEec
Confidence            44567999999999999999877631          1    124589999999999999999999863     3455555


Q ss_pred             cccccchhhchHHHHHHH-HHHHHHH-----hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEE
Q 016044          156 ISNLMSKWFGDAQKLVAA-VFSLAYK-----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVM  229 (396)
Q Consensus       156 ~~~l~~~~~g~~~~~~~~-~f~~a~~-----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~  229 (396)
                      +++....      ..+.. +...+..     ..+.+++|||+|.+....           ...+...++..    +....
T Consensus        76 ~~~~~~~------~~~~~~i~~~~~~~~~~~~~~~vviiDe~~~l~~~~-----------~~~L~~~le~~----~~~~~  134 (319)
T PRK00440         76 ASDERGI------DVIRNKIKEFARTAPVGGAPFKIIFLDEADNLTSDA-----------QQALRRTMEMY----SQNTR  134 (319)
T ss_pred             cccccch------HHHHHHHHHHHhcCCCCCCCceEEEEeCcccCCHHH-----------HHHHHHHHhcC----CCCCe
Confidence            4432211      11111 1111211     234699999999883211           12344444432    23456


Q ss_pred             EEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCC
Q 016044          230 VLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEG  290 (396)
Q Consensus       230 vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g  290 (396)
                      +|.++|.+..+.+++.+|+ ..+.|++++.++...+++.++...... .+..++.++..+.|
T Consensus       135 lIl~~~~~~~l~~~l~sr~-~~~~~~~l~~~ei~~~l~~~~~~~~~~i~~~al~~l~~~~~g  195 (319)
T PRK00440        135 FILSCNYSSKIIDPIQSRC-AVFRFSPLKKEAVAERLRYIAENEGIEITDDALEAIYYVSEG  195 (319)
T ss_pred             EEEEeCCccccchhHHHHh-heeeeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Confidence            6777788888888899998 679999999999999999998766543 23346777777665

>PRK08727 hypothetical protein; Validated

Probab=99.60  E-value=8.6e-14  Score=126.78  Aligned_cols=179  Identities=20%  Similarity=0.252  Sum_probs=109.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRT  200 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~  200 (396)
                      ..++|+||+|||||++++++++++   +...++++..++..        .+...+...  .+..+|+|||++.+......
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~~~~--------~~~~~~~~l--~~~dlLiIDDi~~l~~~~~~  111 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQAAAG--------RLRDALEAL--EGRSLVALDGLESIAGQRED  111 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHHhhh--------hHHHHHHHH--hcCCEEEEeCcccccCChHH
Confidence            569999999999999999997754   55566666544322        222233322  24479999999988544321


Q ss_pred             CchHHHHhhHHHHHHHhhccCcCCCCcEEEEEec-CCCCCC---cHHHHhcc--CCceEeCCCCHHHHHHHHHHHhcCCC
Q 016044          201 SDHEALTNMKTEFMALWDGFTTDQNARVMVLAAT-NRPSEL---DEAILRRL--PQAFEIGMPDRKERAQILKVILKGEK  274 (396)
Q Consensus       201 ~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~at-n~~~~l---~~~l~~R~--~~~i~~~~P~~~er~~il~~~l~~~~  274 (396)
                        ..       .++..++....  . +..+|+|+ ..|..+   .+++++||  ...+.+++|+.+++.++++..+....
T Consensus       112 --~~-------~lf~l~n~~~~--~-~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~  179 (233)
T PRK08727        112 --EV-------ALFDFHNRARA--A-GITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRERAQRRG  179 (233)
T ss_pred             --HH-------HHHHHHHHHHH--c-CCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHHHHHHcC
Confidence              11       22333333221  1 22344444 456544   69999996  46789999999999999998775433


Q ss_pred             CC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHh
Q 016044          275 VE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTT  338 (396)
Q Consensus       275 ~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~  338 (396)
                      +. ++-.++.|+..+.| +.+.+.++++.....+...             .+.||.+.+++.+..
T Consensus       180 l~l~~e~~~~La~~~~r-d~r~~l~~L~~l~~~~~~~-------------~~~it~~~~~~~l~~  230 (233)
T PRK08727        180 LALDEAAIDWLLTHGER-ELAGLVALLDRLDRESLAA-------------KRRVTVPFLRRVLEE  230 (233)
T ss_pred             CCCCHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHh-------------CCCCCHHHHHHHHhh
Confidence            32 22336778887774 2233333343322212211             146898888887764

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.60  E-value=3.1e-14  Score=145.93  Aligned_cols=184  Identities=22%  Similarity=0.238  Sum_probs=126.9

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-----------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-----------  150 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-----------  150 (396)
                      +.+.+|++++|++.+++.|...+..          +   +-++++||+||+|+|||++|+++|+.+++.           
T Consensus        10 yRP~~f~~liGq~~i~~~L~~~l~~----------~---rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~~~~Cg   76 (620)
T PRK14948         10 YRPQRFDELVGQEAIATTLKNALIS----------N---RIAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPTPEPCG   76 (620)
T ss_pred             hCCCcHhhccChHHHHHHHHHHHHc----------C---CCCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCCCCCCc
Confidence            4467999999999999999887652          1   124679999999999999999999988652           


Q ss_pred             ---------------EEEEecccccchhhchHHHHHHHHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHH
Q 016044          151 ---------------FINVRISNLMSKWFGDAQKLVAAVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKT  211 (396)
Q Consensus       151 ---------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~  211 (396)
                                     ++.++..      ....-..++.+...+..    ....|++|||+|.|..           ...+
T Consensus        77 ~C~~C~~i~~g~h~D~~ei~~~------~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~-----------~a~n  139 (620)
T PRK14948         77 KCELCRAIAAGNALDVIEIDAA------SNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLST-----------AAFN  139 (620)
T ss_pred             ccHHHHHHhcCCCccEEEEecc------ccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCH-----------HHHH
Confidence                           1112111      11122345555554432    2346999999999832           1234


Q ss_pred             HHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCC
Q 016044          212 EFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEG  290 (396)
Q Consensus       212 ~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g  290 (396)
                      .|+..++.    .+..+++|++|+.+..+.+.+++|| ..+.|+.++.++....+..++...... ....+..+++.+.|
T Consensus       140 aLLK~LEe----Pp~~tvfIL~t~~~~~llpTIrSRc-~~~~f~~l~~~ei~~~L~~ia~kegi~is~~al~~La~~s~G  214 (620)
T PRK14948        140 ALLKTLEE----PPPRVVFVLATTDPQRVLPTIISRC-QRFDFRRIPLEAMVQHLSEIAEKESIEIEPEALTLVAQRSQG  214 (620)
T ss_pred             HHHHHHhc----CCcCeEEEEEeCChhhhhHHHHhhe-eEEEecCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCC
Confidence            56666653    3567888888888888999999999 889999999999888888887655433 12236677777776


Q ss_pred             CcHHHHHHHHH
Q 016044          291 FTGSDLLEVCK  301 (396)
Q Consensus       291 ~s~~di~~l~~  301 (396)
                      - .+++.++++
T Consensus       215 ~-lr~A~~lLe  224 (620)
T PRK14948        215 G-LRDAESLLD  224 (620)
T ss_pred             C-HHHHHHHHH
Confidence            3 344444443

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=99.60  E-value=3.5e-14  Score=142.82  Aligned_cols=166  Identities=18%  Similarity=0.324  Sum_probs=109.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQR  198 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~  198 (396)
                      +.++|||++|+|||+|++++++++     +..++++++.++...+...........|... ..+..+|+||||+.+.++.
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~~el~~al~~~~~~~f~~~-y~~~DLLlIDDIq~l~gke  393 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFTNEFINSIRDGKGDSFRRR-YREMDILLVDDIQFLEDKE  393 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHHHHHHHHHHhccHHHHHHH-hhcCCEEEEehhccccCCH
Confidence            559999999999999999999975     5678899998887665544332222233322 2246899999999986543


Q ss_pred             CCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC-CC---CCcHHHHhccC--CceEeCCCCHHHHHHHHHHHhcC
Q 016044          199 RTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR-PS---ELDEAILRRLP--QAFEIGMPDRKERAQILKVILKG  272 (396)
Q Consensus       199 ~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~-~~---~l~~~l~~R~~--~~i~~~~P~~~er~~il~~~l~~  272 (396)
                      ..         ..+|+..++.+..  ..+-+|| |+|. |.   .+++.|++||.  ..+.+..|+.+.|.+||+..+..
T Consensus       394 ~t---------qeeLF~l~N~l~e--~gk~III-TSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kka~~  461 (617)
T PRK14086        394 ST---------QEEFFHTFNTLHN--ANKQIVL-SSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRKKAVQ  461 (617)
T ss_pred             HH---------HHHHHHHHHHHHh--cCCCEEE-ecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHHHHh
Confidence            21         1134444444332  2223344 5554 33   46789999985  45588999999999999999876


Q ss_pred             CCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHH
Q 016044          273 EKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQA  303 (396)
Q Consensus       273 ~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A  303 (396)
                      ..+. ++--++.|+....+ +.++|..++..-
T Consensus       462 r~l~l~~eVi~yLa~r~~r-nvR~LegaL~rL  492 (617)
T PRK14086        462 EQLNAPPEVLEFIASRISR-NIRELEGALIRV  492 (617)
T ss_pred             cCCCCCHHHHHHHHHhccC-CHHHHHHHHHHH
Confidence            5554 22236777877764 455666555543

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=99.59  E-value=5.4e-14  Score=144.58  Aligned_cols=227  Identities=19%  Similarity=0.254  Sum_probs=136.2

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcE
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVF  151 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~  151 (396)
                      ..+.+|++++|++..++.+...+..              ..+.+++|+||||||||++|+++++..          +.+|
T Consensus       148 ~rp~~~~~iiGqs~~~~~l~~~ia~--------------~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~f  213 (615)
T TIGR02903       148 LRPRAFSEIVGQERAIKALLAKVAS--------------PFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPF  213 (615)
T ss_pred             cCcCcHHhceeCcHHHHHHHHHHhc--------------CCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCe
Confidence            3467999999999998887654421              124679999999999999999998654          4578


Q ss_pred             EEEecccccc-------hhhchHHHH----HHHHHH----------HHHHhCCcEEEEccccccccCCCCCchHHHHhhH
Q 016044          152 INVRISNLMS-------KWFGDAQKL----VAAVFS----------LAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMK  210 (396)
Q Consensus       152 ~~i~~~~l~~-------~~~g~~~~~----~~~~f~----------~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~  210 (396)
                      +.++|..+..       .+++.....    ....+.          .......++|||||++.|....    +.      
T Consensus       214 v~i~~~~l~~d~~~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~----Q~------  283 (615)
T TIGR02903       214 VEVDGTTLRWDPREVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLL----QN------  283 (615)
T ss_pred             EEEechhccCCHHHHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHH----HH------
Confidence            9999876521       111111000    000000          0112345899999999883322    11      


Q ss_pred             HHHHHHhhcc------------------------CcCCCCcEEEEEec-CCCCCCcHHHHhccCCceEeCCCCHHHHHHH
Q 016044          211 TEFMALWDGF------------------------TTDQNARVMVLAAT-NRPSELDEAILRRLPQAFEIGMPDRKERAQI  265 (396)
Q Consensus       211 ~~ll~~l~~~------------------------~~~~~~~v~vI~at-n~~~~l~~~l~~R~~~~i~~~~P~~~er~~i  265 (396)
                       .++..++..                        ....+..+++|++| +.++.+++++++|| ..+.+++++.++...|
T Consensus       284 -~Ll~~Le~~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~-~~i~~~pls~edi~~I  361 (615)
T TIGR02903       284 -KLLKVLEDKRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRC-AEVFFEPLTPEDIALI  361 (615)
T ss_pred             -HHHHHHhhCeEEeecceeccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHhce-eEEEeCCCCHHHHHHH
Confidence             222222110                        01123456676655 56788999999999 5788999999999999


Q ss_pred             HHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhcc
Q 016044          266 LKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSR  340 (396)
Q Consensus       266 l~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~  340 (396)
                      ++..+...... .+..++.|+..+.  .++...+.+..+...+..+......    ......|+.+|+++++..-+
T Consensus       362 l~~~a~~~~v~ls~eal~~L~~ys~--~gRraln~L~~~~~~~~~~~~~~~~----~~~~~~I~~edv~~~l~~~r  431 (615)
T TIGR02903       362 VLNAAEKINVHLAAGVEELIARYTI--EGRKAVNILADVYGYALYRAAEAGK----ENDKVTITQDDVYEVIQISR  431 (615)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHCCC--cHHHHHHHHHHHHHHHHHHHHHhcc----CCCCeeECHHHHHHHhCCCc
Confidence            99998765432 1112344554432  4444334444443333322210000    11235799999999998665

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.58  E-value=7.7e-14  Score=143.16  Aligned_cols=185  Identities=20%  Similarity=0.247  Sum_probs=124.2

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcE----------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVF----------  151 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~----------  151 (396)
                      +.+.+|++|+|++.+++.|...+..          +   +.++.+||+||+|+|||++|+.+|+.+++..          
T Consensus        10 yRP~~~~eiiGq~~~~~~L~~~i~~----------~---~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~~~~c~~   76 (585)
T PRK14950         10 WRSQTFAELVGQEHVVQTLRNAIAE----------G---RVAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPKGRPCGT   76 (585)
T ss_pred             hCCCCHHHhcCCHHHHHHHHHHHHh----------C---CCceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCcc
Confidence            4467999999999999999776642          1   1246789999999999999999999875422          


Q ss_pred             ---------------EEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHH
Q 016044          152 ---------------INVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTE  212 (396)
Q Consensus       152 ---------------~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~  212 (396)
                                     +.++.+..      ..-..++.+...+.    .....|++|||+|.|..           ...+.
T Consensus        77 c~~c~~i~~~~~~d~~~i~~~~~------~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~-----------~a~na  139 (585)
T PRK14950         77 CEMCRAIAEGSAVDVIEMDAASH------TSVDDAREIIERVQFRPALARYKVYIIDEVHMLST-----------AAFNA  139 (585)
T ss_pred             CHHHHHHhcCCCCeEEEEecccc------CCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCH-----------HHHHH
Confidence                           11221100      01112233332222    12347999999998832           12334


Q ss_pred             HHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCC
Q 016044          213 FMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGF  291 (396)
Q Consensus       213 ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~  291 (396)
                      |+..++.    .+..+++|++++..+.+.+.+++|+ ..+.|+.++..+...++...+...+.. ++-.+..++..+.| 
T Consensus       140 LLk~LEe----pp~~tv~Il~t~~~~kll~tI~SR~-~~i~f~~l~~~el~~~L~~~a~~egl~i~~eal~~La~~s~G-  213 (585)
T PRK14950        140 LLKTLEE----PPPHAIFILATTEVHKVPATILSRC-QRFDFHRHSVADMAAHLRKIAAAEGINLEPGALEAIARAATG-  213 (585)
T ss_pred             HHHHHhc----CCCCeEEEEEeCChhhhhHHHHhcc-ceeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-
Confidence            5555553    2345677777777888889999999 789999999999999999888765543 22236677777776 


Q ss_pred             cHHHHHHHHHH
Q 016044          292 TGSDLLEVCKQ  302 (396)
Q Consensus       292 s~~di~~l~~~  302 (396)
                      +..++.+.++.
T Consensus       214 dlr~al~~Lek  224 (585)
T PRK14950        214 SMRDAENLLQQ  224 (585)
T ss_pred             CHHHHHHHHHH
Confidence            66666655554

>COG2204 AtoC Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]

Probab=99.57  E-value=1.6e-15  Score=147.75  Aligned_cols=223  Identities=22%  Similarity=0.246  Sum_probs=147.1

Q ss_pred             cccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccc
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMS  161 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~  161 (396)
                      ..+.+++|.+..++++.+.+..       .     .....+|||+|++||||..+|++|....   +.||+.+||..+..
T Consensus       138 ~~~~~liG~S~am~~l~~~i~k-------v-----A~s~a~VLI~GESGtGKElvAr~IH~~S~R~~~PFVavNcaAip~  205 (464)
T COG2204         138 SLGGELVGESPAMQQLRRLIAK-------V-----APSDASVLITGESGTGKELVARAIHQASPRAKGPFIAVNCAAIPE  205 (464)
T ss_pred             cccCCceecCHHHHHHHHHHHH-------H-----hCCCCCEEEECCCCCcHHHHHHHHHhhCcccCCCceeeecccCCH
Confidence            4678899999999999887742       1     2335789999999999999999999866   46999999977643


Q ss_pred             hh-----hchHH-------HHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEE
Q 016044          162 KW-----FGDAQ-------KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVM  229 (396)
Q Consensus       162 ~~-----~g~~~-------~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~  229 (396)
                      ..     +|...       ......|+.|   ..++||||||..+....    +..+.|++.+-.-.--|-....+.+|.
T Consensus       206 ~l~ESELFGhekGAFTGA~~~r~G~fE~A---~GGTLfLDEI~~mpl~~----Q~kLLRvLqe~~~~rvG~~~~i~vdvR  278 (464)
T COG2204         206 NLLESELFGHEKGAFTGAITRRIGRFEQA---NGGTLFLDEIGEMPLEL----QVKLLRVLQEREFERVGGNKPIKVDVR  278 (464)
T ss_pred             HHHHHHhhcccccCcCCcccccCcceeEc---CCceEEeeccccCCHHH----HHHHHHHHHcCeeEecCCCcccceeeE
Confidence            32     11110       0111123333   45899999999883221    222222211100000111222345799


Q ss_pred             EEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHH----hCCCCcHHHHHH
Q 016044          230 VLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAG----LCEGFTGSDLLE  298 (396)
Q Consensus       230 vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~----~~~g~s~~di~~  298 (396)
                      ||++||..       ..+-+.|..|+ .++.+..|+..||.+-+-.++..+       +..+++    ...++++..+..
T Consensus       279 iIaaT~~dL~~~v~~G~FReDLyyRL-nV~~i~iPpLRER~EDIp~L~~hf-------l~~~~~~~~~~~~~~s~~a~~~  350 (464)
T COG2204         279 IIAATNRDLEEEVAAGRFREDLYYRL-NVVPLRLPPLRERKEDIPLLAEHF-------LKRFAAELGRPPKGFSPEALAA  350 (464)
T ss_pred             EEeecCcCHHHHHHcCCcHHHHHhhh-ccceecCCcccccchhHHHHHHHH-------HHHHHHHcCCCCCCCCHHHHHH
Confidence            99999963       35668888899 899999999999998544433211       112222    345789999999


Q ss_pred             HHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHH
Q 016044          299 VCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEK  334 (396)
Q Consensus       299 l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~  334 (396)
                      |..+.|..+++++.+...+.........++.+|+..
T Consensus       351 L~~y~WPGNVREL~N~ver~~il~~~~~i~~~~l~~  386 (464)
T COG2204         351 LLAYDWPGNVRELENVVERAVILSEGPEIEVEDLPL  386 (464)
T ss_pred             HHhCCCChHHHHHHHHHHHHHhcCCccccchhhccc
Confidence            999999999999988777655445555677666553

>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX)

Probab=99.57  E-value=1e-13  Score=134.80  Aligned_cols=227  Identities=20%  Similarity=0.283  Sum_probs=139.6

Q ss_pred             ccccc-ccChHHHHHHHHHHHHccccChhhhhcC----CCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044           85 VEFES-IGGLETIKQALYELVILPLRRPELFSHG----KLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus        85 ~~~~~-i~G~~~~k~~l~~~v~~~l~~~~~~~~~----~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      ..+++ |+|++++++.+...+....++-......    .......++||+||||||||++|+++|..++.+|..++++.+
T Consensus        73 ~~L~~~ViGQe~A~~~l~~av~~h~~~~~~~~~~~~~~~~~~~~~~iLL~GP~GsGKT~lAraLA~~l~~pf~~~da~~L  152 (413)
T TIGR00382        73 AHLDEYVIGQEQAKKVLSVAVYNHYKRLNFEKNKKSDNGVELSKSNILLIGPTGSGKTLLAQTLARILNVPFAIADATTL  152 (413)
T ss_pred             HHhcceecCHHHHHHHHHHHHHHHHhhhccccccccccccccCCceEEEECCCCcCHHHHHHHHHHhcCCCeEEechhhc
Confidence            34433 6999999999977664322221100000    001124689999999999999999999999999999998877


Q ss_pred             cc-hhhchH-HHHHHHHHHHH----HHhCCcEEEEccccccccCCCCCc---hHHHHhhHHHHHHHhhccCcC-------
Q 016044          160 MS-KWFGDA-QKLVAAVFSLA----YKLQPAIIFIDEVDSFLGQRRTSD---HEALTNMKTEFMALWDGFTTD-------  223 (396)
Q Consensus       160 ~~-~~~g~~-~~~~~~~f~~a----~~~~p~vl~iDEid~l~~~~~~~~---~~~~~~~~~~ll~~l~~~~~~-------  223 (396)
                      .. .|.|.. +..+...+..+    ....++||||||+|.+..+.....   ......+.+.|++.++|....       
T Consensus       153 ~~~gyvG~d~e~~L~~~~~~~~~~l~~a~~gIV~lDEIdkl~~~~~~~s~~~dvsg~~vq~~LL~iLeG~~~~v~~~~gr  232 (413)
T TIGR00382       153 TEAGYVGEDVENILLKLLQAADYDVEKAQKGIIYIDEIDKISRKSENPSITRDVSGEGVQQALLKIIEGTVANVPPQGGR  232 (413)
T ss_pred             cccccccccHHHHHHHHHHhCcccHHhcccceEEecccchhchhhccccccccccchhHHHHHHHHhhccceecccCCCc
Confidence            53 466653 34444443321    234678999999999976532211   111123555677777665321       


Q ss_pred             --CCCcEEEEEecCCC---------------------------C-----------------------CCcHHHHhccCCc
Q 016044          224 --QNARVMVLAATNRP---------------------------S-----------------------ELDEAILRRLPQA  251 (396)
Q Consensus       224 --~~~~v~vI~atn~~---------------------------~-----------------------~l~~~l~~R~~~~  251 (396)
                        +..++++|.|+|-.                           +                       -+.|+|+.|++.+
T Consensus       233 ~~~~~~~i~i~TsNilfi~~Gaf~g~~~i~~~r~~~~~~gf~~~~~~~~~~~~~~~~~~~~~dl~~~g~~PEflgRld~I  312 (413)
T TIGR00382       233 KHPYQEFIQIDTSNILFICGGAFVGLEKIIKKRTGKSSIGFGAEVKKKSKEKADLLRQVEPEDLVKFGLIPEFIGRLPVI  312 (413)
T ss_pred             cccCCCeEEEEcCCceeeecccccChHHHHHHHhhhccccccccccccchhhHHHHHHHHHHHHHHHhhHHHHhCCCCeE
Confidence              12356677776640                           0                       0346777799989


Q ss_pred             eEeCCCCHHHHHHHHHHH----hc-------CCCCC---CCCCHHHHHHhC--CCCcHHHHHHHHHHHHHHHHHHH
Q 016044          252 FEIGMPDRKERAQILKVI----LK-------GEKVE---ENIDFDYLAGLC--EGFTGSDLLEVCKQAAYFSIREL  311 (396)
Q Consensus       252 i~~~~P~~~er~~il~~~----l~-------~~~~~---~~~~l~~la~~~--~g~s~~di~~l~~~A~~~a~~~~  311 (396)
                      +.|.+.+.++..+|+...    ++       ...+.   .+-.++.|++.+  ..+-.+.|+.+++......+-+.
T Consensus       313 v~f~pL~~~~L~~Il~~~~n~l~kq~~~~l~~~gi~L~~t~~a~~~Ia~~~~~~~~GAR~Lr~iie~~l~~~m~e~  388 (413)
T TIGR00382       313 ATLEKLDEEALIAILTKPKNALVKQYQALFKMDNVELDFEEEALKAIAKKALERKTGARGLRSIVEGLLLDVMFDL  388 (413)
T ss_pred             eecCCCCHHHHHHHHHHHHHHHHHHHHHHhccCCeEEEECHHHHHHHHHhCCCCCCCchHHHHHHHHhhHHHHhhC
Confidence            999999999999988652    21       11221   112255666653  24555677777776666555543

A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=99.57  E-value=3.8e-14  Score=140.22  Aligned_cols=167  Identities=20%  Similarity=0.365  Sum_probs=105.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRR  199 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~  199 (396)
                      .++++||||+|+|||+|++++++++   +..++++++..+...+.......-...|.... ....+|+|||++.+.++..
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~~~f~~~~~~~l~~~~~~~f~~~~-~~~dvLiIDDiq~l~~k~~  219 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRSELFTEHLVSAIRSGEMQRFRQFY-RNVDALFIEDIEVFSGKGA  219 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeHHHHHHHHHHHHhcchHHHHHHHc-ccCCEEEEcchhhhcCChh
Confidence            3679999999999999999999865   67888888876655433222111111233222 2568999999999854332


Q ss_pred             CCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC---CCcHHHHhccC--CceEeCCCCHHHHHHHHHHHhcCCC
Q 016044          200 TSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS---ELDEAILRRLP--QAFEIGMPDRKERAQILKVILKGEK  274 (396)
Q Consensus       200 ~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~---~l~~~l~~R~~--~~i~~~~P~~~er~~il~~~l~~~~  274 (396)
                      .  +       .++...++.+..  .+..+|+++...|.   .+++++.+||.  ..+.+++|+.++|..|++..+....
T Consensus       220 ~--q-------eelf~l~N~l~~--~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~~~  288 (445)
T PRK12422        220 T--Q-------EEFFHTFNSLHT--EGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKAEALS  288 (445)
T ss_pred             h--H-------HHHHHHHHHHHH--CCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHHHHcC
Confidence            1  1       133333333321  22344555544454   46789999995  6778899999999999999887655


Q ss_pred             CC-CCCCHHHHHHhCCCCcHHHHHHHHHH
Q 016044          275 VE-ENIDFDYLAGLCEGFTGSDLLEVCKQ  302 (396)
Q Consensus       275 ~~-~~~~l~~la~~~~g~s~~di~~l~~~  302 (396)
                      +. ++-.++.++....+ +.++|...+..
T Consensus       289 ~~l~~evl~~la~~~~~-dir~L~g~l~~  316 (445)
T PRK12422        289 IRIEETALDFLIEALSS-NVKSLLHALTL  316 (445)
T ss_pred             CCCCHHHHHHHHHhcCC-CHHHHHHHHHH
Confidence            43 22225567776664 33444444433

>PRK05642 DNA replication initiation factor; Validated

Probab=99.57  E-value=1.2e-13  Score=125.88  Aligned_cols=180  Identities=17%  Similarity=0.278  Sum_probs=114.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRR  199 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~  199 (396)
                      .++++|+||+|||||+|++++++++   +..+++++..++....        ..+.....  +..+|+|||++.+.++..
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~~~~~~--------~~~~~~~~--~~d~LiiDDi~~~~~~~~  114 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAELLDRG--------PELLDNLE--QYELVCLDDLDVIAGKAD  114 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHHHHhhh--------HHHHHhhh--hCCEEEEechhhhcCChH
Confidence            3679999999999999999998754   5677788877664321        12222222  236999999998754422


Q ss_pred             CCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCC---CcHHHHhccC--CceEeCCCCHHHHHHHHHHHhcCCC
Q 016044          200 TSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE---LDEAILRRLP--QAFEIGMPDRKERAQILKVILKGEK  274 (396)
Q Consensus       200 ~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~---l~~~l~~R~~--~~i~~~~P~~~er~~il~~~l~~~~  274 (396)
                               ...++...++....  ++..++++++..|..   ..+.+++||.  ..+.+.+|+.+++..+++..+....
T Consensus       115 ---------~~~~Lf~l~n~~~~--~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka~~~~  183 (234)
T PRK05642        115 ---------WEEALFHLFNRLRD--SGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRASRRG  183 (234)
T ss_pred             ---------HHHHHHHHHHHHHh--cCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcC
Confidence                     11244444444332  345566766665543   3689999984  5667899999999999996664433


Q ss_pred             CC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHH
Q 016044          275 VE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLT  337 (396)
Q Consensus       275 ~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~  337 (396)
                      +. ++-.++.|++...+ +.+.+..+++.-...++.             ..++||..-++++|.
T Consensus       184 ~~l~~ev~~~L~~~~~~-d~r~l~~~l~~l~~~~l~-------------~~~~it~~~~~~~L~  233 (234)
T PRK05642        184 LHLTDEVGHFILTRGTR-SMSALFDLLERLDQASLQ-------------AQRKLTIPFLKETLG  233 (234)
T ss_pred             CCCCHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHH-------------cCCcCCHHHHHHHhc
Confidence            32 22336777887775 555665555543322221             115688777776653

>PRK06620 hypothetical protein; Validated

Probab=99.57  E-value=2.5e-13  Score=121.81  Aligned_cols=195  Identities=14%  Similarity=0.220  Sum_probs=117.1

Q ss_pred             CCCcccccccC---hHHHHHHHHHHHHccccChhhhhcCCCCCC-CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecc
Q 016044           82 HIDVEFESIGG---LETIKQALYELVILPLRRPELFSHGKLLGP-QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS  157 (396)
Q Consensus        82 ~~~~~~~~i~G---~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~-~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~  157 (396)
                      .+..+|++++-   ++.+...+.++...+          + ..+ .+.++||||||||||++++++++..+..++.  ..
T Consensus        10 ~~~~tfd~Fvvg~~N~~a~~~~~~~~~~~----------~-~~~~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~--~~   76 (214)
T PRK06620         10 SSKYHPDEFIVSSSNDQAYNIIKNWQCGF----------G-VNPYKFTLLIKGPSSSGKTYLTKIWQNLSNAYIIK--DI   76 (214)
T ss_pred             CCCCCchhhEecccHHHHHHHHHHHHHcc----------c-cCCCcceEEEECCCCCCHHHHHHHHHhccCCEEcc--hh
Confidence            34557888654   334555555443210          0 112 2679999999999999999999987754322  11


Q ss_pred             cccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       158 ~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      ..       .    ...+     ....+|+|||+|.+.       ..       .+...++.+..  .+..++++++..|
T Consensus        77 ~~-------~----~~~~-----~~~d~lliDdi~~~~-------~~-------~lf~l~N~~~e--~g~~ilits~~~p  124 (214)
T PRK06620         77 FF-------N----EEIL-----EKYNAFIIEDIENWQ-------EP-------ALLHIFNIINE--KQKYLLLTSSDKS  124 (214)
T ss_pred             hh-------c----hhHH-----hcCCEEEEeccccch-------HH-------HHHHHHHHHHh--cCCEEEEEcCCCc
Confidence            00       0    0111     133799999999541       11       33333333322  3456777777655


Q ss_pred             CC--CcHHHHhccCC--ceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SE--LDEAILRRLPQ--AFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELL  312 (396)
Q Consensus       238 ~~--l~~~l~~R~~~--~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~  312 (396)
                      ..  + +++++|+..  .+.+.+|+.+++..+++..+....+. ++-.++.|+..+.| +.+.+..+++.....+..   
T Consensus       125 ~~l~l-~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~~l~l~~ev~~~L~~~~~~-d~r~l~~~l~~l~~~~~~---  199 (214)
T PRK06620        125 RNFTL-PDLSSRIKSVLSILLNSPDDELIKILIFKHFSISSVTISRQIIDFLLVNLPR-EYSKIIEILENINYFALI---  199 (214)
T ss_pred             cccch-HHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccC-CHHHHHHHHHHHHHHHHH---
Confidence            54  5 889999842  68999999999999998888654433 23336778888775 455555555542211111   


Q ss_pred             HHHhcCCCCCCCCCCCHHHHHHHH
Q 016044          313 DEERKGKPAAAPRPLSRLDLEKVL  336 (396)
Q Consensus       313 ~~~~~~~~~~~~~~i~~~d~~~al  336 (396)
                                ..+.||...+++++
T Consensus       200 ----------~~~~it~~~~~~~l  213 (214)
T PRK06620        200 ----------SKRKITISLVKEVL  213 (214)
T ss_pred             ----------cCCCCCHHHHHHHh
Confidence                      11568888777765

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

Probab=99.57  E-value=7e-14  Score=145.81  Aligned_cols=207  Identities=18%  Similarity=0.224  Sum_probs=133.6

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc-----hh
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS-----KW  163 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~-----~~  163 (396)
                      .|+|++++++.+.+.+.....  .+   ....+|...+||+||||||||.+|+++|..++.+++.++|+++..     ..
T Consensus       459 ~ViGQ~~ai~~l~~~i~~~~~--gl---~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~~i~id~se~~~~~~~~~L  533 (758)
T PRK11034        459 LVFGQDKAIEALTEAIKMSRA--GL---GHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRL  533 (758)
T ss_pred             eEeCcHHHHHHHHHHHHHHhc--cc---cCCCCCcceEEEECCCCCCHHHHHHHHHHHhCCCcEEeechhhcccccHHHH
Confidence            489999999999888753211  00   000123456899999999999999999999999999999987643     22


Q ss_pred             hchHHHH-----HHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc-CcC------CCCcEEEE
Q 016044          164 FGDAQKL-----VAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF-TTD------QNARVMVL  231 (396)
Q Consensus       164 ~g~~~~~-----~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~-~~~------~~~~v~vI  231 (396)
                      +|.....     -..+....+....+||||||+|.+.+           .+.+.|+..++.. ..+      +-.++++|
T Consensus       534 iG~~~gyvg~~~~g~L~~~v~~~p~sVlllDEieka~~-----------~v~~~LLq~ld~G~ltd~~g~~vd~rn~iiI  602 (758)
T PRK11034        534 IGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHP-----------DVFNLLLQVMDNGTLTDNNGRKADFRNVVLV  602 (758)
T ss_pred             cCCCCCcccccccchHHHHHHhCCCcEEEeccHhhhhH-----------HHHHHHHHHHhcCeeecCCCceecCCCcEEE
Confidence            2211000     01122333444558999999999832           2444666666532 111      12467899


Q ss_pred             EecCCC-------------------------CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcC-------CCCCCCC
Q 016044          232 AATNRP-------------------------SELDEAILRRLPQAFEIGMPDRKERAQILKVILKG-------EKVEENI  279 (396)
Q Consensus       232 ~atn~~-------------------------~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~-------~~~~~~~  279 (396)
                      +|||.-                         ..+.|.++.|++.++.|++.+.++..+|+...+..       .++.-.+
T Consensus       603 ~TsN~g~~~~~~~~~g~~~~~~~~~~~~~~~~~f~pefl~Rid~ii~f~~L~~~~l~~I~~~~l~~~~~~l~~~~i~l~~  682 (758)
T PRK11034        603 MTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQAQLDQKGVSLEV  682 (758)
T ss_pred             EeCCcCHHHHhhcccCcccchhhHHHHHHHHHhcCHHHHccCCEEEEcCCCCHHHHHHHHHHHHHHHHHHHHHCCCCceE
Confidence            999831                         12568899999999999999999999999876641       2222122


Q ss_pred             C---HHHHHHhCC--CCcHHHHHHHHHHHHHHHHHHH
Q 016044          280 D---FDYLAGLCE--GFTGSDLLEVCKQAAYFSIREL  311 (396)
Q Consensus       280 ~---l~~la~~~~--g~s~~di~~l~~~A~~~a~~~~  311 (396)
                      +   ++.|+....  .|-.+.|+.+++.-....+.+.
T Consensus       683 ~~~~~~~l~~~~~~~~~GAR~l~r~i~~~l~~~la~~  719 (758)
T PRK11034        683 SQEARDWLAEKGYDRAMGARPMARVIQDNLKKPLANE  719 (758)
T ss_pred             CHHHHHHHHHhCCCCCCCCchHHHHHHHHHHHHHHHH
Confidence            2   445554322  3445577777777666666554

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=99.55  E-value=3e-13  Score=134.29  Aligned_cols=171  Identities=17%  Similarity=0.287  Sum_probs=111.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEecccccchhhchHHH---HHHHHHHHHHHhCCcEEEEcccccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVRISNLMSKWFGDAQK---LVAAVFSLAYKLQPAIIFIDEVDSF  194 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~~~~l~~~~~g~~~~---~~~~~f~~a~~~~p~vl~iDEid~l  194 (396)
                      .++++|||++|+|||+|++++++++     +..++++++.++...+......   .+......  .....+|+|||++.+
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~~~~~~~l~~~~~~~~~~~~~--~~~~dvLiIDDiq~l  218 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFARKAVDILQKTHKEIEQFKNE--ICQNDVLIIDDVQFL  218 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHHHHHHHHHHHhhhHHHHHHHH--hccCCEEEEeccccc
Confidence            3579999999999999999999854     4678889988877665543322   11111111  124579999999988


Q ss_pred             ccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecC-CCC---CCcHHHHhccC--CceEeCCCCHHHHHHHHHH
Q 016044          195 LGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATN-RPS---ELDEAILRRLP--QAFEIGMPDRKERAQILKV  268 (396)
Q Consensus       195 ~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn-~~~---~l~~~l~~R~~--~~i~~~~P~~~er~~il~~  268 (396)
                      .++..         ...+|...++....  .+. .+|.|++ .|.   .+++.+.+||.  ..+.+.+|+.++|.++++.
T Consensus       219 ~~k~~---------~~e~lf~l~N~~~~--~~k-~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~  286 (450)
T PRK14087        219 SYKEK---------TNEIFFTIFNNFIE--NDK-QLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKK  286 (450)
T ss_pred             cCCHH---------HHHHHHHHHHHHHH--cCC-cEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHH
Confidence            54321         11234444443332  222 3444544 444   35789999984  4667899999999999999


Q ss_pred             HhcCCCCC---CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHH
Q 016044          269 ILKGEKVE---ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSI  308 (396)
Q Consensus       269 ~l~~~~~~---~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~  308 (396)
                      .+....+.   ++-.++.|+..+.| +.+.+..+|......+.
T Consensus       287 ~~~~~gl~~~l~~evl~~Ia~~~~g-d~R~L~gaL~~l~~~a~  328 (450)
T PRK14087        287 EIKNQNIKQEVTEEAINFISNYYSD-DVRKIKGSVSRLNFWSQ  328 (450)
T ss_pred             HHHhcCCCCCCCHHHHHHHHHccCC-CHHHHHHHHHHHHHHHh
Confidence            98764431   22236678887776 66778888877654443

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=99.54  E-value=8.8e-14  Score=125.36  Aligned_cols=195  Identities=23%  Similarity=0.346  Sum_probs=114.7

Q ss_pred             CCccccccc-C--hHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEE
Q 016044           83 IDVEFESIG-G--LETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINV  154 (396)
Q Consensus        83 ~~~~~~~i~-G--~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i  154 (396)
                      +..+|++++ |  ++.+..........+            -....+++||||+|+|||+|+++++++.     +..++++
T Consensus         3 ~~~tFdnfv~g~~N~~a~~~~~~ia~~~------------~~~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~   70 (219)
T PF00308_consen    3 PKYTFDNFVVGESNELAYAAAKAIAENP------------GERYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYL   70 (219)
T ss_dssp             TT-SCCCS--TTTTHHHHHHHHHHHHST------------TTSSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEE
T ss_pred             CCCccccCCcCCcHHHHHHHHHHHHhcC------------CCCCCceEEECCCCCCHHHHHHHHHHHHHhccccccceee
Confidence            356888875 4  455555554443321            1123569999999999999999998864     5678899


Q ss_pred             ecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEec
Q 016044          155 RISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAAT  234 (396)
Q Consensus       155 ~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~at  234 (396)
                      ++.++...+..........-|.... ....+|+|||++.+.++.         .....+...++.+..  .++.+|+++.
T Consensus        71 ~~~~f~~~~~~~~~~~~~~~~~~~~-~~~DlL~iDDi~~l~~~~---------~~q~~lf~l~n~~~~--~~k~li~ts~  138 (219)
T PF00308_consen   71 SAEEFIREFADALRDGEIEEFKDRL-RSADLLIIDDIQFLAGKQ---------RTQEELFHLFNRLIE--SGKQLILTSD  138 (219)
T ss_dssp             EHHHHHHHHHHHHHTTSHHHHHHHH-CTSSEEEEETGGGGTTHH---------HHHHHHHHHHHHHHH--TTSEEEEEES
T ss_pred             cHHHHHHHHHHHHHcccchhhhhhh-hcCCEEEEecchhhcCch---------HHHHHHHHHHHHHHh--hCCeEEEEeC
Confidence            9888766544332221111122111 245899999999985331         122344444444432  3344555555


Q ss_pred             CCCCC---CcHHHHhccCC--ceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHH
Q 016044          235 NRPSE---LDEAILRRLPQ--AFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQ  302 (396)
Q Consensus       235 n~~~~---l~~~l~~R~~~--~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~  302 (396)
                      ..|..   +++.+.+||..  .+.+.+|+.++|.++++..+....+. ++--.+.|+....+ +.++|..+++.
T Consensus       139 ~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~~l~~~v~~~l~~~~~~-~~r~L~~~l~~  211 (219)
T PF00308_consen  139 RPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKERGIELPEEVIEYLARRFRR-DVRELEGALNR  211 (219)
T ss_dssp             S-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHHHHHHHHHTT--S-HHHHHHHHHHTTS-SHHHHHHHHHH
T ss_pred             CCCccccccChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHHhCCCCcHHHHHHHHHhhcC-CHHHHHHHHHH
Confidence            55554   56889998755  67889999999999999998765554 22225667777664 55666666554

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.

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=99.54  E-value=2.4e-13  Score=139.34  Aligned_cols=185  Identities=19%  Similarity=0.247  Sum_probs=127.4

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc------------
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV------------  150 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~------------  150 (396)
                      .+.+|++|+|++.+++.|...+..          +   ..++.+|||||+|+|||++|+.+|+.+.+.            
T Consensus        12 RP~~f~~viGq~~~~~~L~~~i~~----------~---~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C   78 (614)
T PRK14971         12 RPSTFESVVGQEALTTTLKNAIAT----------N---KLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNEC   78 (614)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHc----------C---CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcc
Confidence            357999999999999999877642          1   235779999999999999999999977532            


Q ss_pred             -------------EEEEecccccchhhchHHHHHHHHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHHHH
Q 016044          151 -------------FINVRISNLMSKWFGDAQKLVAAVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEF  213 (396)
Q Consensus       151 -------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~l  213 (396)
                                   ++.+++.+-      ..-..++.+...+..    ....|++|||+|.+..           ...+.|
T Consensus        79 ~sC~~~~~~~~~n~~~ld~~~~------~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~-----------~a~naL  141 (614)
T PRK14971         79 ESCVAFNEQRSYNIHELDAASN------NSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQ-----------AAFNAF  141 (614)
T ss_pred             hHHHHHhcCCCCceEEeccccc------CCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCH-----------HHHHHH
Confidence                         222222110      011233444433322    2346999999999832           123355


Q ss_pred             HHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCC-CCHHHHHHhCCCCc
Q 016044          214 MALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEEN-IDFDYLAGLCEGFT  292 (396)
Q Consensus       214 l~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~-~~l~~la~~~~g~s  292 (396)
                      +..++.    .+..+++|++|+.+..+.+++++|+ ..+.|.+++.++....++..+...++.-+ ..+..|+..+.| +
T Consensus       142 LK~LEe----pp~~tifIL~tt~~~kIl~tI~SRc-~iv~f~~ls~~ei~~~L~~ia~~egi~i~~~al~~La~~s~g-d  215 (614)
T PRK14971        142 LKTLEE----PPSYAIFILATTEKHKILPTILSRC-QIFDFNRIQVADIVNHLQYVASKEGITAEPEALNVIAQKADG-G  215 (614)
T ss_pred             HHHHhC----CCCCeEEEEEeCCchhchHHHHhhh-heeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-C
Confidence            555553    3456777888877889999999999 88999999999999999998877665422 236778887765 5


Q ss_pred             HHHHHHHHHHH
Q 016044          293 GSDLLEVCKQA  303 (396)
Q Consensus       293 ~~di~~l~~~A  303 (396)
                      .+++.++++..
T Consensus       216 lr~al~~Lekl  226 (614)
T PRK14971        216 MRDALSIFDQV  226 (614)
T ss_pred             HHHHHHHHHHH
Confidence            55555554443

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=99.52  E-value=1.1e-13  Score=128.29  Aligned_cols=135  Identities=23%  Similarity=0.321  Sum_probs=91.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc------ccchhhchHHH-HHH-------------------HHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN------LMSKWFGDAQK-LVA-------------------AVFS  176 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~------l~~~~~g~~~~-~~~-------------------~~f~  176 (396)
                      ..++||+||||||||++|+++|+.+|.+++.++|..      +.+.+.+.... ...                   ..+.
T Consensus        21 g~~vLL~G~~GtGKT~lA~~la~~lg~~~~~i~~~~~~~~~dllg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~l~  100 (262)
T TIGR02640        21 GYPVHLRGPAGTGKTTLAMHVARKRDRPVMLINGDAELTTSDLVGSYAGYTRKKVHDQFIHNVVKLEDIVRQNWVDNRLT  100 (262)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHhCCCEEEEeCCccCCHHHHhhhhcccchhhHHHHHHHHhhhhhcccceeecCchHH
Confidence            467999999999999999999999999999998754      22222211111 111                   1112


Q ss_pred             HHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-------c-----CCCCcEEEEEecCCCC-----C
Q 016044          177 LAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-------T-----DQNARVMVLAATNRPS-----E  239 (396)
Q Consensus       177 ~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-------~-----~~~~~v~vI~atn~~~-----~  239 (396)
                      .|.. .+++|+|||++.+.+.           ..+.|+..++...       .     ..+.++.+|+|+|+..     .
T Consensus       101 ~A~~-~g~~lllDEi~r~~~~-----------~q~~Ll~~Le~~~~~i~~~~~~~~~i~~~~~frvIaTsN~~~~~g~~~  168 (262)
T TIGR02640       101 LAVR-EGFTLVYDEFTRSKPE-----------TNNVLLSVFEEGVLELPGKRGTSRYVDVHPEFRVIFTSNPVEYAGVHE  168 (262)
T ss_pred             HHHH-cCCEEEEcchhhCCHH-----------HHHHHHHHhcCCeEEccCCCCCCceEecCCCCEEEEeeCCccccceec
Confidence            2222 4579999999987322           1223333332211       0     0234678999999753     5


Q ss_pred             CcHHHHhccCCceEeCCCCHHHHHHHHHHHh
Q 016044          240 LDEAILRRLPQAFEIGMPDRKERAQILKVIL  270 (396)
Q Consensus       240 l~~~l~~R~~~~i~~~~P~~~er~~il~~~l  270 (396)
                      +++++++|| ..+.++.|+.++..+|++...
T Consensus       169 l~~aL~~R~-~~i~i~~P~~~~e~~Il~~~~  198 (262)
T TIGR02640       169 TQDALLDRL-ITIFMDYPDIDTETAILRAKT  198 (262)
T ss_pred             ccHHHHhhc-EEEECCCCCHHHHHHHHHHhh
Confidence            689999999 789999999999999998865

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=99.52  E-value=7.1e-15  Score=128.55  Aligned_cols=145  Identities=28%  Similarity=0.371  Sum_probs=65.5

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC-----------------
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG-----------------  148 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~-----------------  148 (396)
                      +|++|+|++.+|+++.-..           .+     .+++||+|||||||||+|+++..-+.                 
T Consensus         1 Df~dI~GQe~aKrAL~iAA-----------aG-----~h~lLl~GppGtGKTmlA~~l~~lLP~l~~~e~le~~~i~s~~   64 (206)
T PF01078_consen    1 DFSDIVGQEEAKRALEIAA-----------AG-----GHHLLLIGPPGTGKTMLARRLPSLLPPLTEEEALEVSKIYSVA   64 (206)
T ss_dssp             -TCCSSSTHHHHHHHHHHH-----------HC-----C--EEEES-CCCTHHHHHHHHHHCS--CCEECCESS--S-TT-
T ss_pred             ChhhhcCcHHHHHHHHHHH-----------cC-----CCCeEEECCCCCCHHHHHHHHHHhCCCCchHHHhhhccccccc
Confidence            4899999999999995433           33     47999999999999999999988331                 


Q ss_pred             -----------CcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHh
Q 016044          149 -----------AVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW  217 (396)
Q Consensus       149 -----------~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l  217 (396)
                                 .||...+.+.-....+|.........+..|   ..+|||+||+..+.           .+++..+..-+
T Consensus        65 ~~~~~~~~~~~~Pfr~phhs~s~~~liGgg~~~~PGeislA---h~GVLflDE~~ef~-----------~~vld~Lr~pl  130 (206)
T PF01078_consen   65 GLGPDEGLIRQRPFRAPHHSASEAALIGGGRPPRPGEISLA---HRGVLFLDELNEFD-----------RSVLDALRQPL  130 (206)
T ss_dssp             --S---EEEE---EEEE-TT--HHHHHEEGGGEEE-CGGGG---TTSEEEECETTTS------------HHHHHHHHHHH
T ss_pred             cCCCCCceecCCCcccCCCCcCHHHHhCCCcCCCcCHHHHh---cCCEEEechhhhcC-----------HHHHHHHHHHH
Confidence                       233333332222222222111001112222   34899999998872           22333444433


Q ss_pred             hc---------cCcCCCCcEEEEEecCCC-----------------------CCCcHHHHhccCCceEeCCCCHH
Q 016044          218 DG---------FTTDQNARVMVLAATNRP-----------------------SELDEAILRRLPQAFEIGMPDRK  260 (396)
Q Consensus       218 ~~---------~~~~~~~~v~vI~atn~~-----------------------~~l~~~l~~R~~~~i~~~~P~~~  260 (396)
                      +.         .....+.++++|+|+|+-                       ..+...+++|||..+.++..+.+
T Consensus       131 e~g~v~i~R~~~~~~~Pa~f~lv~a~NPcpCG~~~~~~~~C~Cs~~~~~~Y~~rlsgpllDRiDi~v~~~~~~~~  205 (206)
T PF01078_consen  131 EDGEVTISRAGGSVTYPARFLLVAAMNPCPCGYYGDPDNRCRCSPRQIRRYQSRLSGPLLDRIDIHVEVPRVSYE  205 (206)
T ss_dssp             HHSBEEEEETTEEEEEB--EEEEEEE-S-----------------------------------------------
T ss_pred             HCCeEEEEECCceEEEecccEEEEEeccccccccccccccccccccccccccccccccccccccccccccccccC
Confidence            32         112235689999999952                       14556777788777777665544

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PRK13407 bchI magnesium chelatase subunit I; Provisional

Probab=99.51  E-value=1.8e-13  Score=129.91  Aligned_cols=163  Identities=23%  Similarity=0.350  Sum_probs=101.7

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc-------CCc--EEEE
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES-------GAV--FINV  154 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~-------~~~--~~~i  154 (396)
                      +.+|++|+|++++++.+.-.+..              ...+++||+|+||||||++|++++.-+       +++  +..+
T Consensus         4 ~~~f~~i~Gq~~~~~~l~~~~~~--------------~~~~~vLl~G~pG~gKT~lar~la~llP~~~~~e~~~~~~~~~   69 (334)
T PRK13407          4 PFPFSAIVGQEEMKQAMVLTAID--------------PGIGGVLVFGDRGTGKSTAVRALAALLPLIKAVEGCPVNSARP   69 (334)
T ss_pred             CCCHHHhCCHHHHHHHHHHHHhc--------------cCCCcEEEEcCCCCCHHHHHHHHHHHCCCcchhcccccccCcc
Confidence            56899999999999988543321              112679999999999999999999977       321  1111


Q ss_pred             ec-ccc--------c---------------chhhchH--HHHH-HH--HHH--HHHHhCCcEEEEccccccccCCCCCch
Q 016044          155 RI-SNL--------M---------------SKWFGDA--QKLV-AA--VFS--LAYKLQPAIIFIDEVDSFLGQRRTSDH  203 (396)
Q Consensus       155 ~~-~~l--------~---------------~~~~g~~--~~~~-~~--~f~--~a~~~~p~vl~iDEid~l~~~~~~~~~  203 (396)
                      .+ .++        .               ...+|..  +..+ ..  .|.  .......++||+||++.+..+.     
T Consensus        70 ~~~~~~~~~~~~~~~~~~~p~~~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~l~~A~~GiL~lDEInrl~~~~-----  144 (334)
T PRK13407         70 EDCPEWAHVSSTTMIERPTPVVDLPLGVTEDRVVGALDIERALTRGEKAFEPGLLARANRGYLYIDEVNLLEDHI-----  144 (334)
T ss_pred             cCCcccccccCCcccccCCccccCCCCCCcceeecchhhhhhhhcCCeeecCCceEEcCCCeEEecChHhCCHHH-----
Confidence            10 000        0               0011110  0000 00  011  0011234799999999983322     


Q ss_pred             HHHHhhHHHHHHHhh---------ccCcCCCCcEEEEEecCCCC-CCcHHHHhccCCceEeCCCCH-HHHHHHHHHHhc
Q 016044          204 EALTNMKTEFMALWD---------GFTTDQNARVMVLAATNRPS-ELDEAILRRLPQAFEIGMPDR-KERAQILKVILK  271 (396)
Q Consensus       204 ~~~~~~~~~ll~~l~---------~~~~~~~~~v~vI~atn~~~-~l~~~l~~R~~~~i~~~~P~~-~er~~il~~~l~  271 (396)
                            ...++..++         |.....+.++++++++|..+ .++++++.||...+.+++|.. ++|.++++....
T Consensus       145 ------q~~Lle~mee~~v~v~r~G~~~~~p~rfiviAt~NP~e~~l~~aLldRF~~~v~v~~~~~~~e~~~il~~~~~  217 (334)
T PRK13407        145 ------VDLLLDVAQSGENVVEREGLSIRHPARFVLVGSGNPEEGELRPQLLDRFGLSVEVRSPRDVETRVEVIRRRDA  217 (334)
T ss_pred             ------HHHHHHHHHcCCeEEEECCeEEecCCCEEEEecCCcccCCCCHHHHhhcceEEEcCCCCcHHHHHHHHHHhhc
Confidence                  223333332         22223456899999999755 689999999999999988866 999999988543

>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.51  E-value=1e-12  Score=121.38  Aligned_cols=128  Identities=21%  Similarity=0.294  Sum_probs=87.3

Q ss_pred             CcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC------------CCCCcHHHHhccCC
Q 016044          183 PAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR------------PSELDEAILRRLPQ  250 (396)
Q Consensus       183 p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~------------~~~l~~~l~~R~~~  250 (396)
                      |+||||||+|.|.    -...       ..+...++.     .-.-++|.+||+            |+-++..|++|+ .
T Consensus       292 pGVLFIDEvHmLD----IE~F-------sFlnrAlEs-----e~aPIii~AtNRG~~kiRGTd~~sPhGIP~DlLDRl-l  354 (450)
T COG1224         292 PGVLFIDEVHMLD----IECF-------SFLNRALES-----ELAPIIILATNRGMTKIRGTDIESPHGIPLDLLDRL-L  354 (450)
T ss_pred             cceEEEechhhhh----HHHH-------HHHHHHhhc-----ccCcEEEEEcCCceeeecccCCcCCCCCCHhhhhhe-e
Confidence            6899999988771    1111       122222322     112366777774            778999999999 8


Q ss_pred             ceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCH
Q 016044          251 AFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSR  329 (396)
Q Consensus       251 ~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~  329 (396)
                      ++...+.+.++.++|++..+....+. ++-.++.|+.....-|-+.--+|+.-|...|-++.            ...+..
T Consensus       355 II~t~py~~~EireIi~iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg------------~~~V~~  422 (450)
T COG1224         355 IISTRPYSREEIREIIRIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRG------------SKRVEV  422 (450)
T ss_pred             EEecCCCCHHHHHHHHHHhhhhhccccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhC------------CCeeeh
Confidence            89999999999999999999877665 33447777777665555555566666665655542            156888


Q ss_pred             HHHHHHHHhc
Q 016044          330 LDLEKVLTTS  339 (396)
Q Consensus       330 ~d~~~al~~~  339 (396)
                      +|++.|-.-+
T Consensus       423 ~dVe~a~~lF  432 (450)
T COG1224         423 EDVERAKELF  432 (450)
T ss_pred             hHHHHHHHHH
Confidence            9998887655

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=99.51  E-value=1.2e-12  Score=125.63  Aligned_cols=193  Identities=18%  Similarity=0.150  Sum_probs=122.9

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-------EEEE
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-------FINV  154 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-------~~~i  154 (396)
                      ..+..+++|+|++.+++.+...+.          .+   +-++.+||+||+|+|||++|+.+|+.+.+.       ....
T Consensus        17 ~~P~~~~~l~Gh~~a~~~L~~a~~----------~g---rl~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~   83 (351)
T PRK09112         17 PSPSENTRLFGHEEAEAFLAQAYR----------EG---KLHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLA   83 (351)
T ss_pred             CCCCchhhccCcHHHHHHHHHHHH----------cC---CCCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccC
Confidence            456799999999999999987654          22   236789999999999999999999987541       1000


Q ss_pred             ----ec-----------cccc--chhhch---------HHHHHHHHHHHH----HHhCCcEEEEccccccccCCCCCchH
Q 016044          155 ----RI-----------SNLM--SKWFGD---------AQKLVAAVFSLA----YKLQPAIIFIDEVDSFLGQRRTSDHE  204 (396)
Q Consensus       155 ----~~-----------~~l~--~~~~g~---------~~~~~~~~f~~a----~~~~p~vl~iDEid~l~~~~~~~~~~  204 (396)
                          .|           +++.  ....++         .-..++.+....    ......|++|||+|.+...       
T Consensus        84 ~~~~~c~~c~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~-------  156 (351)
T PRK09112         84 DPDPASPVWRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRN-------  156 (351)
T ss_pred             CCCCCCHHHHHHHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHH-------
Confidence                11           1111  000000         011222222221    2234579999999998321       


Q ss_pred             HHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHH
Q 016044          205 ALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYL  284 (396)
Q Consensus       205 ~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~l  284 (396)
                          ..+.+++.++.    ++.+.++|..|+.++.+.+.+++|| ..+.|++|+.++...+++........+ +.....+
T Consensus       157 ----aanaLLk~LEE----pp~~~~fiLit~~~~~llptIrSRc-~~i~l~pl~~~~~~~~L~~~~~~~~~~-~~~~~~i  226 (351)
T PRK09112        157 ----AANAILKTLEE----PPARALFILISHSSGRLLPTIRSRC-QPISLKPLDDDELKKALSHLGSSQGSD-GEITEAL  226 (351)
T ss_pred             ----HHHHHHHHHhc----CCCCceEEEEECChhhccHHHHhhc-cEEEecCCCHHHHHHHHHHhhcccCCC-HHHHHHH
Confidence                22356666654    3455666777788899999999999 899999999999999999854322211 1225567


Q ss_pred             HHhCCCCcHHHHHHHHHHHHH
Q 016044          285 AGLCEGFTGSDLLEVCKQAAY  305 (396)
Q Consensus       285 a~~~~g~s~~di~~l~~~A~~  305 (396)
                      +..+.| ++....++......
T Consensus       227 ~~~s~G-~pr~Al~ll~~~~~  246 (351)
T PRK09112        227 LQRSKG-SVRKALLLLNYGGL  246 (351)
T ss_pred             HHHcCC-CHHHHHHHHhcCcH
Confidence            777776 44444455544443

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=99.51  E-value=9.7e-13  Score=115.55  Aligned_cols=167  Identities=25%  Similarity=0.364  Sum_probs=125.1

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      ....+.+.+|+|.+.++..|.+       +...|..|.   |.++|||+|..|||||+++||+.++.   +..+++++-.
T Consensus        53 ~~~~i~L~~l~Gvd~qk~~L~~-------NT~~F~~G~---pANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVEV~k~  122 (287)
T COG2607          53 DPDPIDLADLVGVDRQKEALVR-------NTEQFAEGL---PANNVLLWGARGTGKSSLVKALLNEYADEGLRLVEVDKE  122 (287)
T ss_pred             CCCCcCHHHHhCchHHHHHHHH-------HHHHHHcCC---cccceEEecCCCCChHHHHHHHHHHHHhcCCeEEEEcHH
Confidence            4556899999999999999944       456777653   56889999999999999999998866   5678888876


Q ss_pred             cccchhhchHHHHHHHHHHHHHHh-CCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC
Q 016044          158 NLMSKWFGDAQKLVAAVFSLAYKL-QPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR  236 (396)
Q Consensus       158 ~l~~~~~g~~~~~~~~~f~~a~~~-~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~  236 (396)
                      ++..         +..++...+.. ..-|||+||+--   ..   .    ......+...++|-....+.+|++.+|+|+
T Consensus       123 dl~~---------Lp~l~~~Lr~~~~kFIlFcDDLSF---e~---g----d~~yK~LKs~LeG~ve~rP~NVl~YATSNR  183 (287)
T COG2607         123 DLAT---------LPDLVELLRARPEKFILFCDDLSF---EE---G----DDAYKALKSALEGGVEGRPANVLFYATSNR  183 (287)
T ss_pred             HHhh---------HHHHHHHHhcCCceEEEEecCCCC---CC---C----chHHHHHHHHhcCCcccCCCeEEEEEecCC
Confidence            6532         23344444322 346999999731   11   1    112235667788888888999999999998


Q ss_pred             CCCCcH----------------------HHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC
Q 016044          237 PSELDE----------------------AILRRLPQAFEIGMPDRKERAQILKVILKGEKVE  276 (396)
Q Consensus       237 ~~~l~~----------------------~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~  276 (396)
                      ...+++                      .+-.||...+.|.+++.++..+++.++++...++
T Consensus       184 RHLl~e~~~dn~~~~~eih~~eaveEKlSlSDRFGLwL~F~~~~Q~~YL~~V~~~a~~~~l~  245 (287)
T COG2607         184 RHLLPEDMKDNEGSTGEIHPSEAVEEKLSLSDRFGLWLSFYPCDQDEYLKIVDHYAKHFGLD  245 (287)
T ss_pred             cccccHhhhhCCCcccccChhHHHHHhhchhhhcceeecccCCCHHHHHHHHHHHHHHcCCC
Confidence            654431                      2334999999999999999999999999887776

>CHL00081 chlI Mg-protoporyphyrin IX chelatase

Probab=99.50  E-value=5.2e-13  Score=127.10  Aligned_cols=163  Identities=23%  Similarity=0.287  Sum_probs=104.4

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC-------CcEEEE
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG-------AVFINV  154 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~-------~~~~~i  154 (396)
                      .+...|++|+|++++|+.|.-.++.|              ...|+||.|++|||||++||+++..+.       .+|. .
T Consensus        11 ~~~~pf~~ivGq~~~k~al~~~~~~p--------------~~~~vli~G~~GtGKs~~ar~~~~~l~~~~~~~~~pf~-~   75 (350)
T CHL00081         11 RPVFPFTAIVGQEEMKLALILNVIDP--------------KIGGVMIMGDRGTGKSTTIRALVDLLPEIEVVKDDPFN-S   75 (350)
T ss_pred             CCCCCHHHHhChHHHHHHHHHhccCC--------------CCCeEEEEcCCCCCHHHHHHHHHHHHhhcCccCCCCCC-C
Confidence            34568999999999999997655432              236899999999999999999977542       2232 0


Q ss_pred             ec-------ccccchh-------------------hchHHHHH------HHHHHH---------HHHhCCcEEEEccccc
Q 016044          155 RI-------SNLMSKW-------------------FGDAQKLV------AAVFSL---------AYKLQPAIIFIDEVDS  193 (396)
Q Consensus       155 ~~-------~~l~~~~-------------------~g~~~~~~------~~~f~~---------a~~~~p~vl~iDEid~  193 (396)
                      ++       +.+....                   .+.++..+      ...+..         ......++||+||++.
T Consensus        76 ~p~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~lp~~~ted~l~G~iD~~~al~~g~~~~~~GlL~~A~~GiL~lDEInr  155 (350)
T CHL00081         76 HPSDPELMSDEVREAIQNGETIETEKIKIPMVDLPLGATEDRVCGTIDIEKALTEGVKAFEPGLLAKANRGILYVDEVNL  155 (350)
T ss_pred             CCCChhhhchhhhhhhcccccccceeccccceecCCCCchhhccCcccHHHHhhcCcccccCCeeeecCCCEEEecChHh
Confidence            00       0000000                   01111110      001110         0122358999999999


Q ss_pred             cccCCCCCchHHHHhhHHHHHHHhh---------ccCcCCCCcEEEEEecCCCC-CCcHHHHhccCCceEeCCCC-HHHH
Q 016044          194 FLGQRRTSDHEALTNMKTEFMALWD---------GFTTDQNARVMVLAATNRPS-ELDEAILRRLPQAFEIGMPD-RKER  262 (396)
Q Consensus       194 l~~~~~~~~~~~~~~~~~~ll~~l~---------~~~~~~~~~v~vI~atn~~~-~l~~~l~~R~~~~i~~~~P~-~~er  262 (396)
                      +....+.           .++..++         |.....+.++++|++.|..+ .+++++++||...+.+..|+ .+++
T Consensus       156 L~~~~Q~-----------~LLeam~e~~~~ier~G~s~~~p~rfiviaT~np~eg~l~~~LldRf~l~i~l~~~~~~~~e  224 (350)
T CHL00081        156 LDDHLVD-----------ILLDSAASGWNTVEREGISIRHPARFVLVGSGNPEEGELRPQLLDRFGMHAEIRTVKDPELR  224 (350)
T ss_pred             CCHHHHH-----------HHHHHHHhCCeEEeeCCeeeecCCCEEEEeccCcccCCCCHHHHHHhCceeecCCCCChHHH
Confidence            8433221           2333332         22223456889999999765 69999999999999999997 6999


Q ss_pred             HHHHHHHh
Q 016044          263 AQILKVIL  270 (396)
Q Consensus       263 ~~il~~~l  270 (396)
                      .+|++...
T Consensus       225 ~~il~~~~  232 (350)
T CHL00081        225 VKIVEQRT  232 (350)
T ss_pred             HHHHHhhh
Confidence            99998864

>PRK09087 hypothetical protein; Validated

Probab=99.49  E-value=1.5e-12  Score=117.88  Aligned_cols=172  Identities=20%  Similarity=0.255  Sum_probs=107.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCch
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH  203 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~  203 (396)
                      +.++|+||+|||||+|++++++..+..++..  ..+...           .+...   ...+|+|||++.+..     ..
T Consensus        45 ~~l~l~G~~GsGKThLl~~~~~~~~~~~i~~--~~~~~~-----------~~~~~---~~~~l~iDDi~~~~~-----~~  103 (226)
T PRK09087         45 PVVVLAGPVGSGKTHLASIWREKSDALLIHP--NEIGSD-----------AANAA---AEGPVLIEDIDAGGF-----DE  103 (226)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhcCCEEecH--HHcchH-----------HHHhh---hcCeEEEECCCCCCC-----CH
Confidence            4599999999999999999998876654433  222111           11111   125899999997621     11


Q ss_pred             HHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCC---CcHHHHhccC--CceEeCCCCHHHHHHHHHHHhcCCCCC-C
Q 016044          204 EALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE---LDEAILRRLP--QAFEIGMPDRKERAQILKVILKGEKVE-E  277 (396)
Q Consensus       204 ~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~---l~~~l~~R~~--~~i~~~~P~~~er~~il~~~l~~~~~~-~  277 (396)
                      +       ++...++....  .+..++++++..|..   ..+++++||.  ..+.+.+|+.++|.++++..+....+. +
T Consensus       104 ~-------~lf~l~n~~~~--~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~~~~~~l~  174 (226)
T PRK09087        104 T-------GLFHLINSVRQ--AGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLFADRQLYVD  174 (226)
T ss_pred             H-------HHHHHHHHHHh--CCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHHHHcCCCCC
Confidence            1       33344433332  334566666655542   3688999884  678999999999999999999765443 2


Q ss_pred             CCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          278 NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       278 ~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                      +-.++.|++...| +.+.+..+++.-...+..             ..+++|...++++++.+
T Consensus       175 ~ev~~~La~~~~r-~~~~l~~~l~~L~~~~~~-------------~~~~it~~~~~~~l~~~  222 (226)
T PRK09087        175 PHVVYYLVSRMER-SLFAAQTIVDRLDRLALE-------------RKSRITRALAAEVLNEM  222 (226)
T ss_pred             HHHHHHHHHHhhh-hHHHHHHHHHHHHHHHHH-------------hCCCCCHHHHHHHHHhh
Confidence            3336777877774 333333333332222221             12678999999988764

>PHA02244 ATPase-like protein

Probab=99.48  E-value=4e-13  Score=127.17  Aligned_cols=133  Identities=22%  Similarity=0.284  Sum_probs=81.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhh---chHHHHHHHHHHHHHHhCCcEEEEccccccccCCC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWF---GDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRR  199 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~---g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~  199 (396)
                      ..+|||+||||||||++|+++|..++.+|+.++...-.....   .........-+..+. ..+++|+|||++.+.+...
T Consensus       119 ~~PVLL~GppGtGKTtLA~aLA~~lg~pfv~In~l~d~~~L~G~i~~~g~~~dgpLl~A~-~~GgvLiLDEId~a~p~vq  197 (383)
T PHA02244        119 NIPVFLKGGAGSGKNHIAEQIAEALDLDFYFMNAIMDEFELKGFIDANGKFHETPFYEAF-KKGGLFFIDEIDASIPEAL  197 (383)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHhCCCEEEEecChHHHhhcccccccccccchHHHHHh-hcCCEEEEeCcCcCCHHHH
Confidence            467999999999999999999999999999987421000001   111111112233333 2568999999998743221


Q ss_pred             CCchHHHHhhHH-HHHHHhhccCcCCCCcEEEEEecCCC-----------CCCcHHHHhccCCceEeCCCCHHHH
Q 016044          200 TSDHEALTNMKT-EFMALWDGFTTDQNARVMVLAATNRP-----------SELDEAILRRLPQAFEIGMPDRKER  262 (396)
Q Consensus       200 ~~~~~~~~~~~~-~ll~~l~~~~~~~~~~v~vI~atn~~-----------~~l~~~l~~R~~~~i~~~~P~~~er  262 (396)
                      .    .+...+. .++...++. ...+.++.+|+|+|.+           ..+++++++|| ..++++.|+..|.
T Consensus       198 ~----~L~~lLd~r~l~l~g~~-i~~h~~FRlIATsN~~~~G~~~~y~G~k~L~~AllDRF-v~I~~dyp~~~E~  266 (383)
T PHA02244        198 I----IINSAIANKFFDFADER-VTAHEDFRVISAGNTLGKGADHIYVARNKIDGATLDRF-APIEFDYDEKIEH  266 (383)
T ss_pred             H----HHHHHhccCeEEecCcE-EecCCCEEEEEeeCCCccCcccccCCCcccCHHHHhhc-EEeeCCCCcHHHH
Confidence            1    1111110 011111111 1124678999999973           46799999999 6899999984333

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

Probab=99.48  E-value=1.3e-12  Score=109.24  Aligned_cols=139  Identities=40%  Similarity=0.574  Sum_probs=90.5

Q ss_pred             ChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhhchHH
Q 016044           92 GLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWFGDAQ  168 (396)
Q Consensus        92 G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~g~~~  168 (396)
                      |.+...+.+...+..              ...++++++||||||||++++.+++.+   +.+++.+++............
T Consensus         2 ~~~~~~~~i~~~~~~--------------~~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~   67 (151)
T cd00009           2 GQEEAIEALREALEL--------------PPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAEL   67 (151)
T ss_pred             chHHHHHHHHHHHhC--------------CCCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHH
Confidence            556666666554431              124689999999999999999999988   888999998776554332221


Q ss_pred             HH---HHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcC--CCCcEEEEEecCCCC--CCc
Q 016044          169 KL---VAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD--QNARVMVLAATNRPS--ELD  241 (396)
Q Consensus       169 ~~---~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~--~~~~v~vI~atn~~~--~l~  241 (396)
                      ..   ............+.+|++||++.+...           ....+...+......  .+.++.+|+++|...  .++
T Consensus        68 ~~~~~~~~~~~~~~~~~~~~lilDe~~~~~~~-----------~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~~~~~~  136 (151)
T cd00009          68 FGHFLVRLLFELAEKAKPGVLFIDEIDSLSRG-----------AQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLD  136 (151)
T ss_pred             hhhhhHhHHHHhhccCCCeEEEEeChhhhhHH-----------HHHHHHHHHHhcCceeccCCCeEEEEecCccccCCcC
Confidence            11   112223334456799999999986111           111333333332211  135688889988776  788


Q ss_pred             HHHHhccCCceEeC
Q 016044          242 EAILRRLPQAFEIG  255 (396)
Q Consensus       242 ~~l~~R~~~~i~~~  255 (396)
                      +.+.+||+..+.++
T Consensus       137 ~~~~~r~~~~i~~~  150 (151)
T cd00009         137 RALYDRLDIRIVIP  150 (151)
T ss_pred             hhHHhhhccEeecC
Confidence            89999998777665

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.

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

Probab=99.47  E-value=2.1e-12  Score=136.12  Aligned_cols=205  Identities=19%  Similarity=0.236  Sum_probs=133.1

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCC---CCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch--
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKL---LGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK--  162 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~---~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~--  162 (396)
                      ..|+|++++++.+...+...        +.+.   .+|...+||+||||||||++|+++|..++.+++.++++++...  
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~--------~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~~~~~~d~se~~~~~~  525 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRS--------RAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGVHLERFDMSEYMEKHT  525 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHH--------hcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcCCeEEEeCchhhhccc
Confidence            35789999998887776421        1111   1233458999999999999999999999999999999876432  


Q ss_pred             ---hhchHH-----HHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcC-------CCCc
Q 016044          163 ---WFGDAQ-----KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD-------QNAR  227 (396)
Q Consensus       163 ---~~g~~~-----~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~-------~~~~  227 (396)
                         ..|...     .....+....+....+||+|||+|.+.+           .+.+.|++.++.....       +-.+
T Consensus       526 ~~~lig~~~gyvg~~~~~~l~~~~~~~p~~VvllDEieka~~-----------~~~~~Ll~~ld~g~~~d~~g~~vd~~~  594 (731)
T TIGR02639       526 VSRLIGAPPGYVGFEQGGLLTEAVRKHPHCVLLLDEIEKAHP-----------DIYNILLQVMDYATLTDNNGRKADFRN  594 (731)
T ss_pred             HHHHhcCCCCCcccchhhHHHHHHHhCCCeEEEEechhhcCH-----------HHHHHHHHhhccCeeecCCCcccCCCC
Confidence               111110     0111233334445568999999998732           2334566666543111       1235


Q ss_pred             EEEEEecCCCC-------------------------CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCC-------CC
Q 016044          228 VMVLAATNRPS-------------------------ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGE-------KV  275 (396)
Q Consensus       228 v~vI~atn~~~-------------------------~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~-------~~  275 (396)
                      +++|+|||...                         .+.|.++.|++.++.|.+.+.++..+|++..+...       .+
T Consensus       595 ~iii~Tsn~g~~~~~~~~~~f~~~~~~~~~~~~~~~~f~pef~~Rid~Vi~F~pLs~e~l~~Iv~~~L~~l~~~l~~~~~  674 (731)
T TIGR02639       595 VILIMTSNAGASEMSKPPIGFGSENVESKSDKAIKKLFSPEFRNRLDAIIHFNPLSEEVLEKIVQKFVDELSKQLNEKNI  674 (731)
T ss_pred             CEEEECCCcchhhhhhccCCcchhhhHHHHHHHHHhhcChHHHhcCCeEEEcCCCCHHHHHHHHHHHHHHHHHHHHhCCC
Confidence            78999998521                         25678889999999999999999999998887521       11


Q ss_pred             C---CCCCHHHHHHh--CCCCcHHHHHHHHHHHHHHHHHHH
Q 016044          276 E---ENIDFDYLAGL--CEGFTGSDLLEVCKQAAYFSIREL  311 (396)
Q Consensus       276 ~---~~~~l~~la~~--~~g~s~~di~~l~~~A~~~a~~~~  311 (396)
                      .   ++-..+.|+..  ...+..+.|+.+++.-...++.+.
T Consensus       675 ~l~i~~~a~~~La~~~~~~~~GaR~l~r~i~~~~~~~l~~~  715 (731)
T TIGR02639       675 KLELTDDAKKYLAEKGYDEEFGARPLARVIQEEIKKPLSDE  715 (731)
T ss_pred             eEEeCHHHHHHHHHhCCCcccCchHHHHHHHHHhHHHHHHH
Confidence            1   11124456654  234556677777777666666553

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

Probab=99.47  E-value=8.4e-12  Score=120.32  Aligned_cols=218  Identities=17%  Similarity=0.241  Sum_probs=141.0

Q ss_pred             ccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-----EEEEecccccchhh
Q 016044           90 IGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-----FINVRISNLMSKWF  164 (396)
Q Consensus        90 i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-----~~~i~~~~l~~~~~  164 (396)
                      +.+.+..++.+...+..      .+..    ..|.++++|||||||||.+++.+++++...     ++++||....+.+.
T Consensus        19 l~~Re~ei~~l~~~l~~------~~~~----~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~   88 (366)
T COG1474          19 LPHREEEINQLASFLAP------ALRG----ERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQ   88 (366)
T ss_pred             ccccHHHHHHHHHHHHH------HhcC----CCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHH
Confidence            89999999999877542      2222    235679999999999999999999977433     89999966543321


Q ss_pred             ---------------c-hHHHHHHHHHHHHHH-hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCc
Q 016044          165 ---------------G-DAQKLVAAVFSLAYK-LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNAR  227 (396)
Q Consensus       165 ---------------g-~~~~~~~~~f~~a~~-~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~  227 (396)
                                     | ........+++.... ...-|+++||+|.|.....        ..+-.++....    ....+
T Consensus        89 i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~--------~~LY~L~r~~~----~~~~~  156 (366)
T COG1474          89 VLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDG--------EVLYSLLRAPG----ENKVK  156 (366)
T ss_pred             HHHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccc--------hHHHHHHhhcc----cccee
Confidence                           1 122223333333333 2456899999999976654        22223333222    22567


Q ss_pred             EEEEEecCCCC---CCcHHHHhccC-CceEeCCCCHHHHHHHHHHHhcCCCCC---CCCCHHHHHHhCCCC--cHHHHHH
Q 016044          228 VMVLAATNRPS---ELDEAILRRLP-QAFEIGMPDRKERAQILKVILKGEKVE---ENIDFDYLAGLCEGF--TGSDLLE  298 (396)
Q Consensus       228 v~vI~atn~~~---~l~~~l~~R~~-~~i~~~~P~~~er~~il~~~l~~~~~~---~~~~l~~la~~~~g~--s~~di~~  298 (396)
                      +.+|+.+|..+   .+++.+.+++. ..|.|++.+.+|...|++......-..   .+.-++.+|......  ..+---.
T Consensus       157 v~vi~i~n~~~~~~~ld~rv~s~l~~~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aid  236 (366)
T COG1474         157 VSIIAVSNDDKFLDYLDPRVKSSLGPSEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAID  236 (366)
T ss_pred             EEEEEEeccHHHHHHhhhhhhhccCcceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHH
Confidence            88999999764   67888988653 457899999999999999988643222   122233344333322  3334446


Q ss_pred             HHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhccc
Q 016044          299 VCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRK  341 (396)
Q Consensus       299 l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~~  341 (396)
                      +|+.|+..|-++..            ..++.+++..|...+..
T Consensus       237 ilr~A~eiAe~~~~------------~~v~~~~v~~a~~~~~~  267 (366)
T COG1474         237 ILRRAGEIAEREGS------------RKVSEDHVREAQEEIER  267 (366)
T ss_pred             HHHHHHHHHHhhCC------------CCcCHHHHHHHHHHhhH
Confidence            78888877776532            56888888888555443

>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]

Probab=99.47  E-value=1.2e-13  Score=132.96  Aligned_cols=164  Identities=24%  Similarity=0.308  Sum_probs=107.6

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEeccccc
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLM  160 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~  160 (396)
                      ...+..|+|.+..+.++.+.+.       ..+     .....|||.|.+||||..+||+|.+..   +.||+.+||..+.
T Consensus       219 ~~~~~~iIG~S~am~~ll~~i~-------~VA-----~Sd~tVLi~GETGtGKElvAraIH~~S~R~~kPfV~~NCAAlP  286 (550)
T COG3604         219 VLEVGGIIGRSPAMRQLLKEIE-------VVA-----KSDSTVLIRGETGTGKELVARAIHQLSPRRDKPFVKLNCAALP  286 (550)
T ss_pred             hcccccceecCHHHHHHHHHHH-------HHh-----cCCCeEEEecCCCccHHHHHHHHHhhCcccCCCceeeeccccc
Confidence            5678899999999999887774       222     335789999999999999999999866   5799999997764


Q ss_pred             chhhc-hHHHHHHHHHHHHHH--------hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEE
Q 016044          161 SKWFG-DAQKLVAAVFSLAYK--------LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVL  231 (396)
Q Consensus       161 ~~~~g-~~~~~~~~~f~~a~~--------~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI  231 (396)
                      ..... +.-...+..|.-|..        .+.+.||+|||..+.    -..+..+.|++.+---+--|....-..+|.||
T Consensus       287 esLlESELFGHeKGAFTGA~~~r~GrFElAdGGTLFLDEIGelP----L~lQaKLLRvLQegEieRvG~~r~ikVDVRiI  362 (550)
T COG3604         287 ESLLESELFGHEKGAFTGAINTRRGRFELADGGTLFLDEIGELP----LALQAKLLRVLQEGEIERVGGDRTIKVDVRVI  362 (550)
T ss_pred             hHHHHHHHhcccccccccchhccCcceeecCCCeEechhhccCC----HHHHHHHHHHHhhcceeecCCCceeEEEEEEE
Confidence            43211 011112222322221        145899999999883    23333444433321111112122224578999


Q ss_pred             EecCC-------CCCCcHHHHhccCCceEeCCCCHHHHHH
Q 016044          232 AATNR-------PSELDEAILRRLPQAFEIGMPDRKERAQ  264 (396)
Q Consensus       232 ~atn~-------~~~l~~~l~~R~~~~i~~~~P~~~er~~  264 (396)
                      +|||+       ...+-..|..|+ .++.+..|+..||..
T Consensus       363 AATNRDL~~~V~~G~FRaDLYyRL-sV~Pl~lPPLRER~~  401 (550)
T COG3604         363 AATNRDLEEMVRDGEFRADLYYRL-SVFPLELPPLRERPE  401 (550)
T ss_pred             eccchhHHHHHHcCcchhhhhhcc-cccccCCCCcccCCc
Confidence            99996       234556677788 788889999999876

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=99.47  E-value=3.2e-12  Score=123.41  Aligned_cols=186  Identities=19%  Similarity=0.168  Sum_probs=119.5

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEE---------
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFI---------  152 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~---------  152 (396)
                      ..+.++++|+|++.+++.|...+..          +   +-++.+||+||+|+||+++|.++|+.+-+.--         
T Consensus        13 ~~P~~~~~iiGq~~~~~~L~~~~~~----------~---rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~   79 (365)
T PRK07471         13 PHPRETTALFGHAAAEAALLDAYRS----------G---RLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPP   79 (365)
T ss_pred             CCCCchhhccChHHHHHHHHHHHHc----------C---CCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccc
Confidence            4567899999999999999876642          2   23678999999999999999999996632110         


Q ss_pred             ------EEec-----------ccccchhh---ch--------HHHHHHHHHHHH----HHhCCcEEEEccccccccCCCC
Q 016044          153 ------NVRI-----------SNLMSKWF---GD--------AQKLVAAVFSLA----YKLQPAIIFIDEVDSFLGQRRT  200 (396)
Q Consensus       153 ------~i~~-----------~~l~~~~~---g~--------~~~~~~~~f~~a----~~~~p~vl~iDEid~l~~~~~~  200 (396)
                            .-.|           +++..-..   +.        .-..++.+...+    ....+.|++|||+|.+..    
T Consensus        80 ~~~l~~~~~c~~c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~----  155 (365)
T PRK07471         80 PTSLAIDPDHPVARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNA----  155 (365)
T ss_pred             cccccCCCCChHHHHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCH----
Confidence                  0001           11100000   00        011233333222    233567999999998822    


Q ss_pred             CchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCC
Q 016044          201 SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENID  280 (396)
Q Consensus       201 ~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~  280 (396)
                             ...+.+++.++.    .+.+.++|.+|+.++.+.+.+++|+ ..+.|++|+.++..+++.......   .+..
T Consensus       156 -------~aanaLLK~LEe----pp~~~~~IL~t~~~~~llpti~SRc-~~i~l~~l~~~~i~~~L~~~~~~~---~~~~  220 (365)
T PRK07471        156 -------NAANALLKVLEE----PPARSLFLLVSHAPARLLPTIRSRC-RKLRLRPLAPEDVIDALAAAGPDL---PDDP  220 (365)
T ss_pred             -------HHHHHHHHHHhc----CCCCeEEEEEECCchhchHHhhccc-eEEECCCCCHHHHHHHHHHhcccC---CHHH
Confidence                   223356665553    3456778888888999999999999 899999999999999998764221   1111


Q ss_pred             HHHHHHhCCCCcHHHHHHHH
Q 016044          281 FDYLAGLCEGFTGSDLLEVC  300 (396)
Q Consensus       281 l~~la~~~~g~s~~di~~l~  300 (396)
                      +..++..+.| ++.....++
T Consensus       221 ~~~l~~~s~G-sp~~Al~ll  239 (365)
T PRK07471        221 RAALAALAEG-SVGRALRLA  239 (365)
T ss_pred             HHHHHHHcCC-CHHHHHHHh
Confidence            2466777776 444434443

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=99.47  E-value=2.9e-12  Score=122.16  Aligned_cols=171  Identities=17%  Similarity=0.265  Sum_probs=113.9

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc--------EEEEecc
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV--------FINVRIS  157 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~--------~~~i~~~  157 (396)
                      +|++|+|++.+++.+...+..          +   +.++.+||+||+|+|||++|+++|+.+.+.        +..+...
T Consensus         2 ~~~~i~g~~~~~~~l~~~~~~----------~---~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~   68 (313)
T PRK05564          2 SFHTIIGHENIKNRIKNSIIK----------N---RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPI   68 (313)
T ss_pred             ChhhccCcHHHHHHHHHHHHc----------C---CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccc
Confidence            699999999999999876631          2   235778999999999999999999976432        2222221


Q ss_pred             cccchhhchHHHHHHHHHHHH----HHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEe
Q 016044          158 NLMSKWFGDAQKLVAAVFSLA----YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAA  233 (396)
Q Consensus       158 ~l~~~~~g~~~~~~~~~f~~a----~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~a  233 (396)
                        .++..+  -..++.+...+    ...+..|++||++|.+..           ...+.+++.++    +++.++++|.+
T Consensus        69 --~~~~i~--v~~ir~~~~~~~~~p~~~~~kv~iI~~ad~m~~-----------~a~naLLK~LE----epp~~t~~il~  129 (313)
T PRK05564         69 --NKKSIG--VDDIRNIIEEVNKKPYEGDKKVIIIYNSEKMTE-----------QAQNAFLKTIE----EPPKGVFIILL  129 (313)
T ss_pred             --cCCCCC--HHHHHHHHHHHhcCcccCCceEEEEechhhcCH-----------HHHHHHHHHhc----CCCCCeEEEEE
Confidence              111111  11233333322    223447999999988721           12335666555    34566777777


Q ss_pred             cCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCc
Q 016044          234 TNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFT  292 (396)
Q Consensus       234 tn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s  292 (396)
                      |+.++.+.+++++|+ ..+.|++|+.++....+.....+.   +......++..+.|-.
T Consensus       130 ~~~~~~ll~TI~SRc-~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~~~l~~~~~g~~  184 (313)
T PRK05564        130 CENLEQILDTIKSRC-QIYKLNRLSKEEIEKFISYKYNDI---KEEEKKSAIAFSDGIP  184 (313)
T ss_pred             eCChHhCcHHHHhhc-eeeeCCCcCHHHHHHHHHHHhcCC---CHHHHHHHHHHcCCCH
Confidence            788899999999999 899999999999988887665421   1122445666666633

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=99.46  E-value=3.4e-13  Score=128.81  Aligned_cols=194  Identities=19%  Similarity=0.213  Sum_probs=122.0

Q ss_pred             ccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhh--
Q 016044           90 IGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWF--  164 (396)
Q Consensus        90 i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~--  164 (396)
                      |+|.+...+.+.+.+..       .+     ....+|||+|++||||+++|++|....   +.+|+.++|..+.....  
T Consensus         1 liG~S~~m~~~~~~~~~-------~a-----~~~~pVLI~GE~GtGK~~lAr~iH~~s~r~~~pfv~vnc~~~~~~~l~~   68 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSR-------LA-----PLDRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLLDS   68 (329)
T ss_pred             CCcCCHHHHHHHHHHHH-------Hh-----CCCCCEEEECCCCChHHHHHHHHHHhcCccCCCeEEEeCCCCChHHHHH
Confidence            45667777776665532       11     224779999999999999999998755   47999999987643221  


Q ss_pred             ---chHH-------HHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc-------CcCCCCc
Q 016044          165 ---GDAQ-------KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF-------TTDQNAR  227 (396)
Q Consensus       165 ---g~~~-------~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~-------~~~~~~~  227 (396)
                         |...       ......|.   ...+++||||||+.|....+           ..++..++..       ....+.+
T Consensus        69 ~lfG~~~g~~~ga~~~~~G~~~---~a~gGtL~Ldei~~L~~~~Q-----------~~Ll~~l~~~~~~~~g~~~~~~~~  134 (329)
T TIGR02974        69 ELFGHEAGAFTGAQKRHQGRFE---RADGGTLFLDELATASLLVQ-----------EKLLRVIEYGEFERVGGSQTLQVD  134 (329)
T ss_pred             HHhccccccccCcccccCCchh---hCCCCEEEeCChHhCCHHHH-----------HHHHHHHHcCcEEecCCCceeccc
Confidence               1000       00011122   22468999999999843221           1333333221       1112356


Q ss_pred             EEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHH----hC-CCCcHHH
Q 016044          228 VMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAG----LC-EGFTGSD  295 (396)
Q Consensus       228 v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~----~~-~g~s~~d  295 (396)
                      +.+|++|+..       ..+.+.|..|+ ..+.+..|+..+|.+-+..++..+       +..++.    .. .++++..
T Consensus       135 ~RiI~at~~~l~~~~~~g~fr~dL~~rl-~~~~i~lPpLReR~eDI~~L~~~f-------l~~~~~~~~~~~~~~ls~~a  206 (329)
T TIGR02974       135 VRLVCATNADLPALAAEGRFRADLLDRL-AFDVITLPPLRERQEDIMLLAEHF-------AIRMARELGLPLFPGFTPQA  206 (329)
T ss_pred             eEEEEechhhHHHHhhcCchHHHHHHHh-cchhcCCCchhhhhhhHHHHHHHH-------HHHHHHHhCCCCCCCcCHHH
Confidence            8999999853       34667888888 567788888888887555444311       111221    12 4688888


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhc
Q 016044          296 LLEVCKQAAYFSIRELLDEERK  317 (396)
Q Consensus       296 i~~l~~~A~~~a~~~~~~~~~~  317 (396)
                      +..|.++.|..+++++.+....
T Consensus       207 ~~~L~~y~WPGNvrEL~n~i~~  228 (329)
T TIGR02974       207 REQLLEYHWPGNVRELKNVVER  228 (329)
T ss_pred             HHHHHhCCCCchHHHHHHHHHH
Confidence            8888888888888888765544

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=99.45  E-value=9.8e-13  Score=114.89  Aligned_cols=177  Identities=21%  Similarity=0.289  Sum_probs=117.8

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc-C----CcEEEEe
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES-G----AVFINVR  155 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~-~----~~~~~i~  155 (396)
                      .+.+..+.||+|+++....+.-.           .+.+   .-.+++|.|||||||||-+.++|+++ |    --+++++
T Consensus        20 KYrP~~l~dIVGNe~tv~rl~vi-----------a~~g---nmP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELN   85 (333)
T KOG0991|consen   20 KYRPSVLQDIVGNEDTVERLSVI-----------AKEG---NMPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELN   85 (333)
T ss_pred             hhCchHHHHhhCCHHHHHHHHHH-----------HHcC---CCCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhcc
Confidence            44567899999999999998543           3322   24679999999999999999999976 3    2355666


Q ss_pred             cccccchhhchHHHHHHHHHHHHHH-hCC---cEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEE
Q 016044          156 ISNLMSKWFGDAQKLVAAVFSLAYK-LQP---AIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVL  231 (396)
Q Consensus       156 ~~~l~~~~~g~~~~~~~~~f~~a~~-~~p---~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI  231 (396)
                      .++-.+-  ......+. .|..-+- ..|   .|+++||.|++    ..+.+++++|...-       +    .....+.
T Consensus        86 ASdeRGI--DvVRn~IK-~FAQ~kv~lp~grhKIiILDEADSM----T~gAQQAlRRtMEi-------y----S~ttRFa  147 (333)
T KOG0991|consen   86 ASDERGI--DVVRNKIK-MFAQKKVTLPPGRHKIIILDEADSM----TAGAQQALRRTMEI-------Y----SNTTRFA  147 (333)
T ss_pred             Ccccccc--HHHHHHHH-HHHHhhccCCCCceeEEEeeccchh----hhHHHHHHHHHHHH-------H----cccchhh
Confidence            6653221  11222222 2322221 122   59999999998    33445555543321       1    2235788


Q ss_pred             EecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCC
Q 016044          232 AATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEG  290 (396)
Q Consensus       232 ~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g  290 (396)
                      .+||..+++-+.+.+|| ..+.+...+..+...-+....+.+.+. .+..++.+.-.++|
T Consensus       148 laCN~s~KIiEPIQSRC-AiLRysklsd~qiL~Rl~~v~k~Ekv~yt~dgLeaiifta~G  206 (333)
T KOG0991|consen  148 LACNQSEKIIEPIQSRC-AILRYSKLSDQQILKRLLEVAKAEKVNYTDDGLEAIIFTAQG  206 (333)
T ss_pred             hhhcchhhhhhhHHhhh-HhhhhcccCHHHHHHHHHHHHHHhCCCCCcchHHHhhhhccc
Confidence            89999999999999999 888888888888887777777666655 22335555554554

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

Probab=99.44  E-value=3.2e-12  Score=122.99  Aligned_cols=172  Identities=23%  Similarity=0.403  Sum_probs=114.8

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEcccccccc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~  196 (396)
                      +.+.++||||+|+|||+|++|++++.     +..+++++...+...++......-..-|..-.  +-.+++|||++.+.+
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~se~f~~~~v~a~~~~~~~~Fk~~y--~~dlllIDDiq~l~g  189 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLTSEDFTNDFVKALRDNEMEKFKEKY--SLDLLLIDDIQFLAG  189 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEeccHHHHHHHHHHHHHhhhHHHHHHhh--ccCeeeechHhHhcC
Confidence            35679999999999999999999865     34688888888776665554443333455444  447999999999876


Q ss_pred             CCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCC---cHHHHhccCC--ceEeCCCCHHHHHHHHHHHhc
Q 016044          197 QRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSEL---DEAILRRLPQ--AFEIGMPDRKERAQILKVILK  271 (396)
Q Consensus       197 ~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l---~~~l~~R~~~--~i~~~~P~~~er~~il~~~l~  271 (396)
                      +...         ..+|....+.+..  .++-+++.+-..|..+   .+.|++||..  .+.+.+|+.+.|..+|+..+.
T Consensus       190 k~~~---------qeefFh~FN~l~~--~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~  258 (408)
T COG0593         190 KERT---------QEEFFHTFNALLE--NGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILRKKAE  258 (408)
T ss_pred             ChhH---------HHHHHHHHHHHHh--cCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHHH
Confidence            6433         1244444444432  3334555554556654   5899999865  457899999999999999776


Q ss_pred             CCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHH
Q 016044          272 GEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFS  307 (396)
Q Consensus       272 ~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a  307 (396)
                      ...+. ++--...++..... +.+++..+++.....+
T Consensus       259 ~~~~~i~~ev~~~la~~~~~-nvReLegaL~~l~~~a  294 (408)
T COG0593         259 DRGIEIPDEVLEFLAKRLDR-NVRELEGALNRLDAFA  294 (408)
T ss_pred             hcCCCCCHHHHHHHHHHhhc-cHHHHHHHHHHHHHHH
Confidence            55554 23336677777663 5556655554444333

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=99.44  E-value=6.1e-13  Score=127.14  Aligned_cols=198  Identities=20%  Similarity=0.210  Sum_probs=126.0

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK  162 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~  162 (396)
                      -+++++|.+...+.+.+.+..       .+     ....+|||+|++||||+++|+++....   +.+|+.++|..+...
T Consensus         4 ~~~~liG~S~~~~~~~~~i~~-------~a-----~~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~~~~~   71 (326)
T PRK11608          4 YKDNLLGEANSFLEVLEQVSR-------LA-----PLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNEN   71 (326)
T ss_pred             ccCccEECCHHHHHHHHHHHH-------Hh-----CCCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCCCCHH
Confidence            367789999988888776642       22     225789999999999999999998755   469999999886422


Q ss_pred             -----hhchHH-------HHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-------cC
Q 016044          163 -----WFGDAQ-------KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-------TD  223 (396)
Q Consensus       163 -----~~g~~~-------~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-------~~  223 (396)
                           ++|...       ......+   .....++|||||++.+....           ...++..++...       ..
T Consensus        72 ~~~~~lfg~~~~~~~g~~~~~~g~l---~~a~gGtL~l~~i~~L~~~~-----------Q~~L~~~l~~~~~~~~g~~~~  137 (326)
T PRK11608         72 LLDSELFGHEAGAFTGAQKRHPGRF---ERADGGTLFLDELATAPMLV-----------QEKLLRVIEYGELERVGGSQP  137 (326)
T ss_pred             HHHHHHccccccccCCcccccCCch---hccCCCeEEeCChhhCCHHH-----------HHHHHHHHhcCcEEeCCCCce
Confidence                 111100       0001112   22356899999999984322           113333332211       11


Q ss_pred             CCCcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHh-----CCCC
Q 016044          224 QNARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGL-----CEGF  291 (396)
Q Consensus       224 ~~~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~-----~~g~  291 (396)
                      .+.++.+|++|+..       ..+.+.|..|| ..+.+..|+..+|.+-+..++..+       +..++..     ..++
T Consensus       138 ~~~~~RiI~~s~~~l~~l~~~g~f~~dL~~~l-~~~~i~lPpLReR~eDI~~L~~~f-------l~~~~~~~~~~~~~~~  209 (326)
T PRK11608        138 LQVNVRLVCATNADLPAMVAEGKFRADLLDRL-AFDVVQLPPLRERQSDIMLMAEHF-------AIQMCRELGLPLFPGF  209 (326)
T ss_pred             eeccEEEEEeCchhHHHHHHcCCchHHHHHhc-CCCEEECCChhhhhhhHHHHHHHH-------HHHHHHHhCCCCCCCC
Confidence            12358899988753       35678888898 667788889888877444433211       1111211     1467


Q ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhc
Q 016044          292 TGSDLLEVCKQAAYFSIRELLDEERK  317 (396)
Q Consensus       292 s~~di~~l~~~A~~~a~~~~~~~~~~  317 (396)
                      ++..+..|.++.|..+++++.+....
T Consensus       210 s~~al~~L~~y~WPGNvrEL~~vl~~  235 (326)
T PRK11608        210 TERARETLLNYRWPGNIRELKNVVER  235 (326)
T ss_pred             CHHHHHHHHhCCCCcHHHHHHHHHHH
Confidence            88888888888888888887665443

>TIGR01817 nifA Nif-specific regulatory protein

Probab=99.42  E-value=5.7e-13  Score=136.04  Aligned_cols=212  Identities=20%  Similarity=0.215  Sum_probs=135.1

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEeccccc
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLM  160 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~  160 (396)
                      ..+|++++|.+...+.+.+.+..       +.     ....+|||+|++||||+++|++|+...   +.+|+.++|..+.
T Consensus       192 ~~~~~~liG~s~~~~~~~~~~~~-------~a-----~~~~pvli~Ge~GtGK~~lA~~ih~~s~r~~~pfv~i~c~~~~  259 (534)
T TIGR01817       192 SGKEDGIIGKSPAMRQVVDQARV-------VA-----RSNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALS  259 (534)
T ss_pred             cCccCceEECCHHHHHHHHHHHH-------Hh-----CcCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeecCCCC
Confidence            46789999999999988776642       21     235679999999999999999999865   5799999998874


Q ss_pred             chhhchHHHHHHHHHHH---------------HHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC----
Q 016044          161 SKWFGDAQKLVAAVFSL---------------AYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT----  221 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~---------------a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~----  221 (396)
                      .....      ..+|..               .....+++|||||++.+....           ...++..++...    
T Consensus       260 ~~~~~------~~lfg~~~~~~~~~~~~~~g~~~~a~~GtL~ldei~~L~~~~-----------Q~~Ll~~l~~~~~~~~  322 (534)
T TIGR01817       260 ETLLE------SELFGHEKGAFTGAIAQRKGRFELADGGTLFLDEIGEISPAF-----------QAKLLRVLQEGEFERV  322 (534)
T ss_pred             HHHHH------HHHcCCCCCccCCCCcCCCCcccccCCCeEEEechhhCCHHH-----------HHHHHHHHhcCcEEEC
Confidence            32211      111110               112245899999999984322           113333333211    


Q ss_pred             ---cCCCCcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHHH----HHHHhcCCCCCCCCCHHHHHHh
Q 016044          222 ---TDQNARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQI----LKVILKGEKVEENIDFDYLAGL  287 (396)
Q Consensus       222 ---~~~~~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~i----l~~~l~~~~~~~~~~l~~la~~  287 (396)
                         ...+.++.+|++|+..       ..+.+.|..|+ ..+.+..|+..+|.+-    +.+++.....       .....
T Consensus       323 ~~~~~~~~~~riI~~s~~~l~~~~~~~~f~~~L~~rl-~~~~i~lPpLreR~eDi~~L~~~~l~~~~~-------~~~~~  394 (534)
T TIGR01817       323 GGNRTLKVDVRLVAATNRDLEEAVAKGEFRADLYYRI-NVVPIFLPPLRERREDIPLLAEAFLEKFNR-------ENGRP  394 (534)
T ss_pred             CCCceEeecEEEEEeCCCCHHHHHHcCCCCHHHHHHh-cCCeeeCCCcccccccHHHHHHHHHHHHHH-------HcCCC
Confidence               0112357899988753       34667888888 6677778887777653    3444432110       00011


Q ss_pred             CCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHH
Q 016044          288 CEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLE  333 (396)
Q Consensus       288 ~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~  333 (396)
                       .++++..+..|.++.|..+++++.+.............|+.+|+.
T Consensus       395 -~~~s~~a~~~L~~~~WPGNvrEL~~v~~~a~~~~~~~~I~~~~l~  439 (534)
T TIGR01817       395 -LTITPSAIRVLMSCKWPGNVRELENCLERTATLSRSGTITRSDFS  439 (534)
T ss_pred             -CCCCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCCCCcccHHHCc
Confidence             357777888888888888888776655543333344568888875

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=99.42  E-value=3.8e-13  Score=126.04  Aligned_cols=141  Identities=17%  Similarity=0.245  Sum_probs=95.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch--hhchHH----------HHHHHHHHHHHHhCCcEEEEcc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK--WFGDAQ----------KLVAAVFSLAYKLQPAIIFIDE  190 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~--~~g~~~----------~~~~~~f~~a~~~~p~vl~iDE  190 (396)
                      .+++||.||||||||++++.+|..++.+++.+++..-...  ..|...          ......+..|.. .++++++||
T Consensus        64 ~~~ilL~G~pGtGKTtla~~lA~~l~~~~~rV~~~~~l~~~DliG~~~~~l~~g~~~~~f~~GpL~~A~~-~g~illlDE  142 (327)
T TIGR01650        64 DRRVMVQGYHGTGKSTHIEQIAARLNWPCVRVNLDSHVSRIDLVGKDAIVLKDGKQITEFRDGILPWALQ-HNVALCFDE  142 (327)
T ss_pred             CCcEEEEeCCCChHHHHHHHHHHHHCCCeEEEEecCCCChhhcCCCceeeccCCcceeEEecCcchhHHh-CCeEEEech
Confidence            4679999999999999999999999999999988655443  233211          111122333433 458899999


Q ss_pred             ccccccCCCCCchHHHHhhHHHHHHH-----h-h-ccCcCCCCcEEEEEecCCCC------------CCcHHHHhccCCc
Q 016044          191 VDSFLGQRRTSDHEALTNMKTEFMAL-----W-D-GFTTDQNARVMVLAATNRPS------------ELDEAILRRLPQA  251 (396)
Q Consensus       191 id~l~~~~~~~~~~~~~~~~~~ll~~-----l-~-~~~~~~~~~v~vI~atn~~~------------~l~~~l~~R~~~~  251 (396)
                      +|...+...    ..+    +.++..     + + +........+++|+|+|..+            .+++++++||...
T Consensus       143 in~a~p~~~----~~L----~~lLE~~~~l~i~~~~~~i~~hp~FrviAT~Np~g~Gd~~G~y~Gt~~l~~A~lDRF~i~  214 (327)
T TIGR01650       143 YDAGRPDVM----FVI----QRVLEAGGKLTLLDQNRVIRAHPAFRLFATANTIGLGDTTGLYHGTQQINQAQMDRWSIV  214 (327)
T ss_pred             hhccCHHHH----HHH----HHHhccCCeEEECCCceEecCCCCeEEEEeeCCCCcCCCCcceeeeecCCHHHHhheeeE
Confidence            998733221    111    122221     0 1 01112345799999999854            4689999999767


Q ss_pred             eEeCCCCHHHHHHHHHHHhcC
Q 016044          252 FEIGMPDRKERAQILKVILKG  272 (396)
Q Consensus       252 i~~~~P~~~er~~il~~~l~~  272 (396)
                      +.++.|+.++..+|+.....+
T Consensus       215 ~~~~Yp~~e~E~~Il~~~~~~  235 (327)
T TIGR01650       215 TTLNYLEHDNEAAIVLAKAKG  235 (327)
T ss_pred             eeCCCCCHHHHHHHHHhhccC
Confidence            899999999999999876543

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=99.42  E-value=3.8e-12  Score=120.53  Aligned_cols=183  Identities=15%  Similarity=0.209  Sum_probs=120.1

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc----------EEEEe
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV----------FINVR  155 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~----------~~~i~  155 (396)
                      .|++|+|++.+++.+.+.+..          +   +-++.+||+||+|+||+++|.++|+.+-+.          +...+
T Consensus         2 ~f~~iiGq~~~~~~L~~~i~~----------~---rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~   68 (314)
T PRK07399          2 LFANLIGQPLAIELLTAAIKQ----------N---RIAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGN   68 (314)
T ss_pred             cHHHhCCHHHHHHHHHHHHHh----------C---CCCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCC
Confidence            589999999999999887642          2   236789999999999999999999875321          11112


Q ss_pred             ccccc---------chh--------hc-------h-HHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHH
Q 016044          156 ISNLM---------SKW--------FG-------D-AQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEAL  206 (396)
Q Consensus       156 ~~~l~---------~~~--------~g-------~-~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~  206 (396)
                      .+++.         ++.        .|       . .-..++.+...+.    .....|++||++|.+..          
T Consensus        69 hPDl~~i~p~~~~~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~----------  138 (314)
T PRK07399         69 HPDLLWVEPTYQHQGKLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNE----------  138 (314)
T ss_pred             CCCEEEEeccccccccccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCH----------
Confidence            22221         000        00       0 0012334433332    23457999999998822          


Q ss_pred             HhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHH
Q 016044          207 TNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAG  286 (396)
Q Consensus       207 ~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~  286 (396)
                       ...+.+++.++.    ++ +.++|..|+.++.+.+++++|+ ..+.|++|+.++..++++........  +.+...++.
T Consensus       139 -~aaNaLLK~LEE----Pp-~~~fILi~~~~~~Ll~TI~SRc-q~i~f~~l~~~~~~~~L~~~~~~~~~--~~~~~~l~~  209 (314)
T PRK07399        139 -AAANALLKTLEE----PG-NGTLILIAPSPESLLPTIVSRC-QIIPFYRLSDEQLEQVLKRLGDEEIL--NINFPELLA  209 (314)
T ss_pred             -HHHHHHHHHHhC----CC-CCeEEEEECChHhCcHHHHhhc-eEEecCCCCHHHHHHHHHHhhccccc--hhHHHHHHH
Confidence             123356666653    33 5577778888999999999999 99999999999999999987542221  122467888


Q ss_pred             hCCCCcHHHHHHHHH
Q 016044          287 LCEGFTGSDLLEVCK  301 (396)
Q Consensus       287 ~~~g~s~~di~~l~~  301 (396)
                      .+.| +++...++++
T Consensus       210 ~a~G-s~~~al~~l~  223 (314)
T PRK07399        210 LAQG-SPGAAIANIE  223 (314)
T ss_pred             HcCC-CHHHHHHHHH
Confidence            8887 4444444443

>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR

Probab=99.41  E-value=5.8e-13  Score=134.08  Aligned_cols=214  Identities=19%  Similarity=0.229  Sum_probs=133.3

Q ss_pred             cccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccc
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMS  161 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~  161 (396)
                      .+|++|+|.+...+.+.+.+.       .++.     ...+|||+|++||||+++|+++.+..   +.||+.++|..+..
T Consensus       209 ~~f~~iiG~S~~m~~~~~~i~-------~~A~-----~~~pVLI~GE~GTGKe~lA~~IH~~S~r~~~pfv~inC~~l~e  276 (526)
T TIGR02329       209 YRLDDLLGASAPMEQVRALVR-------LYAR-----SDATVLILGESGTGKELVAQAIHQLSGRRDFPFVAINCGAIAE  276 (526)
T ss_pred             cchhheeeCCHHHHHHHHHHH-------HHhC-----CCCcEEEECCCCcCHHHHHHHHHHhcCcCCCCEEEeccccCCh
Confidence            578999999999998877764       2222     24789999999999999999998754   57999999987743


Q ss_pred             hhh-----chHH--------HHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc-------C
Q 016044          162 KWF-----GDAQ--------KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF-------T  221 (396)
Q Consensus       162 ~~~-----g~~~--------~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~-------~  221 (396)
                      ...     |..+        .....+|..+   ..++|||||++.|....    +.       .++..+...       .
T Consensus       277 ~lleseLFG~~~gaftga~~~~~~Gl~e~A---~gGTLfLdeI~~Lp~~~----Q~-------~Ll~~L~~~~~~r~g~~  342 (526)
T TIGR02329       277 SLLEAELFGYEEGAFTGARRGGRTGLIEAA---HRGTLFLDEIGEMPLPL----QT-------RLLRVLEEREVVRVGGT  342 (526)
T ss_pred             hHHHHHhcCCcccccccccccccccchhhc---CCceEEecChHhCCHHH----HH-------HHHHHHhcCcEEecCCC
Confidence            221     1100        0011223322   45899999999984322    11       333333211       1


Q ss_pred             cCCCCcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHHHHH----HHhcCCCCCCCCCHHHHHHhCCC
Q 016044          222 TDQNARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQILK----VILKGEKVEENIDFDYLAGLCEG  290 (396)
Q Consensus       222 ~~~~~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~il~----~~l~~~~~~~~~~l~~la~~~~g  290 (396)
                      ...+.++.+|++|+..       ..+.+.+..|+ ..+.+..|+..+|.+-+.    +++.....          ....+
T Consensus       343 ~~~~~dvRiIaat~~~l~~~v~~g~fr~dL~~rL-~~~~I~lPPLReR~eDI~~L~~~fl~~~~~----------~~~~~  411 (526)
T TIGR02329       343 EPVPVDVRVVAATHCALTTAVQQGRFRRDLFYRL-SILRIALPPLRERPGDILPLAAEYLVQAAA----------ALRLP  411 (526)
T ss_pred             ceeeecceEEeccCCCHHHHhhhcchhHHHHHhc-CCcEEeCCCchhchhHHHHHHHHHHHHHHH----------HcCCC
Confidence            1113456899998854       23455666677 678888999988887444    33332110          01124


Q ss_pred             CcHHHHHH-------HHHHHHHHHHHHHHHHHhcCCCC---CCCCCCCHHHHHHH
Q 016044          291 FTGSDLLE-------VCKQAAYFSIRELLDEERKGKPA---AAPRPLSRLDLEKV  335 (396)
Q Consensus       291 ~s~~di~~-------l~~~A~~~a~~~~~~~~~~~~~~---~~~~~i~~~d~~~a  335 (396)
                      +++..+..       |.++.|..+++++.+........   .....|+.+|+...
T Consensus       412 ~~~~a~~~~~~~~~~L~~y~WPGNvrEL~nvier~~i~~~~~~~~~I~~~~l~~~  466 (526)
T TIGR02329       412 DSEAAAQVLAGVADPLQRYPWPGNVRELRNLVERLALELSAMPAGALTPDVLRAL  466 (526)
T ss_pred             CCHHHHHHhHHHHHHHHhCCCCchHHHHHHHHHHHHHhcccCCCCccCHHHhhhh
Confidence            66666666       78888888888876655442211   12346788876543

At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.

>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I

Probab=99.40  E-value=4.2e-12  Score=120.92  Aligned_cols=160  Identities=26%  Similarity=0.363  Sum_probs=99.8

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc-------CCcEE------
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES-------GAVFI------  152 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~-------~~~~~------  152 (396)
                      .|+.|+|++++|..|.-.+..|              ...+++|.|+||+|||+++++++..+       ++++-      
T Consensus         2 pf~~ivgq~~~~~al~~~~~~~--------------~~g~vli~G~~G~gKttl~r~~~~~~~~~~~~~~~~~~~~~~~~   67 (337)
T TIGR02030         2 PFTAIVGQDEMKLALLLNVIDP--------------KIGGVMVMGDRGTGKSTAVRALAALLPEIKAVAGCPFNSSPSDP   67 (337)
T ss_pred             CccccccHHHHHHHHHHHhcCC--------------CCCeEEEEcCCCCCHHHHHHHHHHhhcccccccCCCCCCCCCCc
Confidence            5889999999999985544321              13679999999999999999999865       22221      


Q ss_pred             ---EEecc-------------------cccc-----hhhchHH--HHHH-H--HHH--HHHHhCCcEEEEccccccccCC
Q 016044          153 ---NVRIS-------------------NLMS-----KWFGDAQ--KLVA-A--VFS--LAYKLQPAIIFIDEVDSFLGQR  198 (396)
Q Consensus       153 ---~i~~~-------------------~l~~-----~~~g~~~--~~~~-~--~f~--~a~~~~p~vl~iDEid~l~~~~  198 (396)
                         ..+|.                   ++..     ...|...  ..+. .  .|.  ...+..+++||+||++.+....
T Consensus        68 ~~~~~~~r~~~~~~~~~~~~~~~~~~~~lP~~~t~d~l~G~~d~~~~l~~g~~~~~~GlL~~A~~GvL~lDEi~~L~~~~  147 (337)
T TIGR02030        68 EMMCEEVRIRVDSQEPLSIIKKPVPVVDLPLGATEDRVCGTLDIERALTEGVKAFEPGLLARANRGILYIDEVNLLEDHL  147 (337)
T ss_pred             cccChHHhhhhhcccccccccCCCCcCCCCCCCcccceecchhHhhHhhcCCEEeecCcceeccCCEEEecChHhCCHHH
Confidence               00011                   1100     1112110  0000 0  000  1112245899999999983321


Q ss_pred             CCCchHHHHhhHHHHHHHhh---------ccCcCCCCcEEEEEecCCCC-CCcHHHHhccCCceEeCCCCH-HHHHHHHH
Q 016044          199 RTSDHEALTNMKTEFMALWD---------GFTTDQNARVMVLAATNRPS-ELDEAILRRLPQAFEIGMPDR-KERAQILK  267 (396)
Q Consensus       199 ~~~~~~~~~~~~~~ll~~l~---------~~~~~~~~~v~vI~atn~~~-~l~~~l~~R~~~~i~~~~P~~-~er~~il~  267 (396)
                                 ...++..++         |.....+.++++|+++|..+ .+++++++||...+.++.|.. ++|.+|++
T Consensus       148 -----------Q~~Ll~~l~~g~~~v~r~G~~~~~~~r~iviat~np~eg~l~~~LldRf~l~i~l~~p~~~eer~eIL~  216 (337)
T TIGR02030       148 -----------VDVLLDVAASGWNVVEREGISIRHPARFVLVGSGNPEEGELRPQLLDRFGLHAEIRTVRDVELRVEIVE  216 (337)
T ss_pred             -----------HHHHHHHHHhCCeEEEECCEEEEcCCCEEEEeccccccCCCCHHHHhhcceEEECCCCCCHHHHHHHHH
Confidence                       123333332         22222356789999998655 689999999999999998875 88999998


Q ss_pred             HHh
Q 016044          268 VIL  270 (396)
Q Consensus       268 ~~l  270 (396)
                      ...
T Consensus       217 ~~~  219 (337)
T TIGR02030       217 RRT  219 (337)
T ss_pred             hhh
Confidence            754

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=99.40  E-value=1.3e-12  Score=136.15  Aligned_cols=220  Identities=18%  Similarity=0.185  Sum_probs=137.3

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEeccccc
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLM  160 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~  160 (396)
                      ..+|++++|.+...+.+.+.+..       +.     ....+|||+|++||||+++|+++.+..   +.+|+.++|..+.
T Consensus       321 ~~~~~~l~g~s~~~~~~~~~~~~-------~a-----~~~~pvli~Ge~GtGK~~~A~~ih~~s~r~~~pfv~vnc~~~~  388 (638)
T PRK11388        321 SHTFDHMPQDSPQMRRLIHFGRQ-------AA-----KSSFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYP  388 (638)
T ss_pred             cccccceEECCHHHHHHHHHHHH-------Hh-----CcCCCEEEECCCCcCHHHHHHHHHHhCCccCCCeEEEECCCCC
Confidence            34789999998888877665542       22     224679999999999999999998865   4799999998774


Q ss_pred             ch-----hhchH----HHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCc-------CC
Q 016044          161 SK-----WFGDA----QKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTT-------DQ  224 (396)
Q Consensus       161 ~~-----~~g~~----~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~-------~~  224 (396)
                      ..     .+|..    .......|.   ...+++||||||+.+....+           ..++..++.-..       ..
T Consensus       389 ~~~~~~elfg~~~~~~~~~~~g~~~---~a~~GtL~ldei~~l~~~~Q-----------~~Ll~~l~~~~~~~~~~~~~~  454 (638)
T PRK11388        389 DEALAEEFLGSDRTDSENGRLSKFE---LAHGGTLFLEKVEYLSPELQ-----------SALLQVLKTGVITRLDSRRLI  454 (638)
T ss_pred             hHHHHHHhcCCCCcCccCCCCCcee---ECCCCEEEEcChhhCCHHHH-----------HHHHHHHhcCcEEeCCCCceE
Confidence            32     11210    000000122   23468999999999843221           133333332110       01


Q ss_pred             CCcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHh---CCCCcHH
Q 016044          225 NARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGL---CEGFTGS  294 (396)
Q Consensus       225 ~~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~---~~g~s~~  294 (396)
                      +.++.+|+||+..       ..+.+.|..|+ ..+.+..|+..+|.+-+..++..+       +..++..   ..++++.
T Consensus       455 ~~~~riI~~t~~~l~~~~~~~~f~~dL~~~l-~~~~i~lPpLreR~~Di~~L~~~~-------l~~~~~~~~~~~~~s~~  526 (638)
T PRK11388        455 PVDVRVIATTTADLAMLVEQNRFSRQLYYAL-HAFEITIPPLRMRREDIPALVNNK-------LRSLEKRFSTRLKIDDD  526 (638)
T ss_pred             EeeEEEEEeccCCHHHHHhcCCChHHHhhhh-ceeEEeCCChhhhhhHHHHHHHHH-------HHHHHHHhCCCCCcCHH
Confidence            2367899998863       34566777788 778899999999976444333211       1112211   1257777


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHH
Q 016044          295 DLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLT  337 (396)
Q Consensus       295 di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~  337 (396)
                      .+..|.++.|..+++++.+.............|+.+|+...+.
T Consensus       527 a~~~L~~y~WPGNvreL~~~l~~~~~~~~~~~i~~~~lp~~~~  569 (638)
T PRK11388        527 ALARLVSYRWPGNDFELRSVIENLALSSDNGRIRLSDLPEHLF  569 (638)
T ss_pred             HHHHHHcCCCCChHHHHHHHHHHHHHhCCCCeecHHHCchhhh
Confidence            8888888888888887776655433333445688888766653

>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional

Probab=99.40  E-value=6.8e-13  Score=133.48  Aligned_cols=155  Identities=20%  Similarity=0.354  Sum_probs=102.6

Q ss_pred             cccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHH-----------cCCcEEE
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKE-----------SGAVFIN  153 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~-----------~~~~~~~  153 (396)
                      .+|++|+|.+...+.+.+.+.       .++.     ...+|||+|++||||+++|+++...           .+.||+.
T Consensus       216 ~~f~~iiG~S~~m~~~~~~i~-------~~A~-----s~~pVLI~GE~GTGKe~~A~~IH~~~~~~~~~~S~r~~~pfv~  283 (538)
T PRK15424        216 YVLGDLLGQSPQMEQVRQTIL-------LYAR-----SSAAVLIQGETGTGKELAAQAIHREYFARHDARQGKKSHPFVA  283 (538)
T ss_pred             cchhheeeCCHHHHHHHHHHH-------HHhC-----CCCcEEEECCCCCCHHHHHHHHHHhhcccccccCccCCCCeEE
Confidence            468999999999998887764       2222     2468999999999999999999887           3579999


Q ss_pred             Eecccccchhh-----chHHH--------HHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc
Q 016044          154 VRISNLMSKWF-----GDAQK--------LVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF  220 (396)
Q Consensus       154 i~~~~l~~~~~-----g~~~~--------~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~  220 (396)
                      ++|..+.....     |..+.        .-..+|..+   ..++||||||+.|....    +.       .++..+...
T Consensus       284 inCaal~e~lleseLFG~~~gaftga~~~~~~Gl~e~A---~gGTLfLdeI~~Lp~~~----Q~-------kLl~~L~e~  349 (538)
T PRK15424        284 VNCGAIAESLLEAELFGYEEGAFTGSRRGGRAGLFEIA---HGGTLFLDEIGEMPLPL----QT-------RLLRVLEEK  349 (538)
T ss_pred             eecccCChhhHHHHhcCCccccccCccccccCCchhcc---CCCEEEEcChHhCCHHH----HH-------HHHhhhhcC
Confidence            99987743321     11000        011233333   45899999999984322    11       333333211


Q ss_pred             -------CcCCCCcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHHHH
Q 016044          221 -------TTDQNARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQIL  266 (396)
Q Consensus       221 -------~~~~~~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~il  266 (396)
                             ....+.++.+|++||..       ..+.+.+..|+ ..+.+..|+..+|.+-+
T Consensus       350 ~~~r~G~~~~~~~dvRiIaat~~~L~~~v~~g~Fr~dL~yrL-~~~~I~lPPLReR~eDI  408 (538)
T PRK15424        350 EVTRVGGHQPVPVDVRVISATHCDLEEDVRQGRFRRDLFYRL-SILRLQLPPLRERVADI  408 (538)
T ss_pred             eEEecCCCceeccceEEEEecCCCHHHHHhcccchHHHHHHh-cCCeecCCChhhchhHH
Confidence                   11123467899999853       23445677787 77889999999888633

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=99.40  E-value=1.8e-12  Score=131.37  Aligned_cols=216  Identities=17%  Similarity=0.204  Sum_probs=130.0

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccc
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNL  159 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l  159 (396)
                      ...+|++++|.+...+.+.+.+.       .++.     ...+|||+|++||||+++|+++....   +.+|+.++|..+
T Consensus       199 ~~~~f~~~ig~s~~~~~~~~~~~-------~~A~-----~~~pvlI~GE~GtGK~~lA~aiH~~s~r~~~pfv~inca~~  266 (520)
T PRK10820        199 DDSAFSQIVAVSPKMRQVVEQAR-------KLAM-----LDAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASI  266 (520)
T ss_pred             ccccccceeECCHHHHHHHHHHH-------HHhC-----CCCCEEEECCCCccHHHHHHHHHHhCCCCCCCeEEeccccC
Confidence            35689999999988777766553       1222     24679999999999999999997654   468999999887


Q ss_pred             cchhh-----chHH-------HHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc-------
Q 016044          160 MSKWF-----GDAQ-------KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF-------  220 (396)
Q Consensus       160 ~~~~~-----g~~~-------~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~-------  220 (396)
                      .....     |...       .....+|..   ...++|||||++.+....+           ..++..+...       
T Consensus       267 ~~~~~e~elFG~~~~~~~~~~~~~~g~~e~---a~~GtL~LdeI~~L~~~~Q-----------~~Ll~~l~~~~~~~~g~  332 (520)
T PRK10820        267 PDDVVESELFGHAPGAYPNALEGKKGFFEQ---ANGGSVLLDEIGEMSPRMQ-----------AKLLRFLNDGTFRRVGE  332 (520)
T ss_pred             CHHHHHHHhcCCCCCCcCCcccCCCChhhh---cCCCEEEEeChhhCCHHHH-----------HHHHHHHhcCCcccCCC
Confidence            53211     1100       000112332   2458999999999843321           1333333221       


Q ss_pred             CcCCCCcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHh----CC
Q 016044          221 TTDQNARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGL----CE  289 (396)
Q Consensus       221 ~~~~~~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~----~~  289 (396)
                      ......++.+|++|+.+       ..+.+.|..|+ ..+.+..|+..+|.+-+..++..+       +..++..    ..
T Consensus       333 ~~~~~~~vRiI~st~~~l~~l~~~g~f~~dL~~rL-~~~~i~lPpLreR~~Di~~L~~~f-------l~~~~~~~g~~~~  404 (520)
T PRK10820        333 DHEVHVDVRVICATQKNLVELVQKGEFREDLYYRL-NVLTLNLPPLRDRPQDIMPLTELF-------VARFADEQGVPRP  404 (520)
T ss_pred             CcceeeeeEEEEecCCCHHHHHHcCCccHHHHhhc-CeeEEeCCCcccChhHHHHHHHHH-------HHHHHHHcCCCCC
Confidence            01113467899988753       24667788888 668888999888886433322110       1111111    12


Q ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHH
Q 016044          290 GFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDL  332 (396)
Q Consensus       290 g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~  332 (396)
                      ++++..+..|.++.|..+++++.+.............|+.+|+
T Consensus       405 ~ls~~a~~~L~~y~WPGNvreL~nvl~~a~~~~~~~~i~~~~~  447 (520)
T PRK10820        405 KLAADLNTVLTRYGWPGNVRQLKNAIYRALTQLEGYELRPQDI  447 (520)
T ss_pred             CcCHHHHHHHhcCCCCCHHHHHHHHHHHHHHhCCCCcccHHHc
Confidence            4666677777777777777776554443322233345777775

>TIGR02442 Cob-chelat-sub cobaltochelatase subunit

Probab=99.39  E-value=3e-12  Score=132.60  Aligned_cols=160  Identities=24%  Similarity=0.409  Sum_probs=103.9

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc------------------
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES------------------  147 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~------------------  147 (396)
                      .|.+|+|++.++..+.-....|              ...+|||.|++|||||++|+++++.+                  
T Consensus         2 pf~~ivGq~~~~~al~~~av~~--------------~~g~vli~G~~GtgKs~lar~l~~~lp~~~~~~~~~~~c~p~~~   67 (633)
T TIGR02442         2 PFTAIVGQEDLKLALLLNAVDP--------------RIGGVLIRGEKGTAKSTAARGLAALLPPIDVVAGCPFSCDPDDP   67 (633)
T ss_pred             CcchhcChHHHHHHHHHHhhCC--------------CCCeEEEEcCCCCcHHHHHHHHHHhCCCceeccCCcCCCCCCCc
Confidence            4889999999999886544321              12579999999999999999999877                  


Q ss_pred             -----------------CCcEEEEecccccchhhchH--HHHHHH---HHH--HHHHhCCcEEEEccccccccCCCCCch
Q 016044          148 -----------------GAVFINVRISNLMSKWFGDA--QKLVAA---VFS--LAYKLQPAIIFIDEVDSFLGQRRTSDH  203 (396)
Q Consensus       148 -----------------~~~~~~i~~~~l~~~~~g~~--~~~~~~---~f~--~a~~~~p~vl~iDEid~l~~~~~~~~~  203 (396)
                                       ..+|+.+.++......+|..  +..+..   .+.  .......++|||||++.+...      
T Consensus        68 ~~~~~~~~~~~~~~~~~~~pfv~~p~~~t~~~l~G~~d~~~~l~~g~~~~~~G~L~~A~~GiL~lDEi~~l~~~------  141 (633)
T TIGR02442        68 EEWCEECRRKYRPSEQRPVPFVNLPLGATEDRVVGSLDIERALREGEKAFQPGLLAEAHRGILYIDEVNLLDDH------  141 (633)
T ss_pred             cccChhhhhcccccccCCCCeeeCCCCCcHHHcCCcccHHHHhhcCCeeecCcceeecCCCeEEeChhhhCCHH------
Confidence                             24666665554333333321  111100   000  011123479999999998432      


Q ss_pred             HHHHhhHHHHHHHhh---------ccCcCCCCcEEEEEecCCC-CCCcHHHHhccCCceEeCCCC-HHHHHHHHHHHh
Q 016044          204 EALTNMKTEFMALWD---------GFTTDQNARVMVLAATNRP-SELDEAILRRLPQAFEIGMPD-RKERAQILKVIL  270 (396)
Q Consensus       204 ~~~~~~~~~ll~~l~---------~~~~~~~~~v~vI~atn~~-~~l~~~l~~R~~~~i~~~~P~-~~er~~il~~~l  270 (396)
                           ....|+..++         +.....+.++++|+|+|.. ..+.++|++||+..+.++.|. .+++.++++...
T Consensus       142 -----~q~~Ll~~le~g~~~v~r~g~~~~~~~~~~lIat~np~eg~l~~~L~dR~~l~i~v~~~~~~~~~~~il~~~~  214 (633)
T TIGR02442       142 -----LVDVLLDAAAMGVNRVEREGLSVSHPARFVLIGTMNPEEGDLRPQLLDRFGLCVDVAAPRDPEERVEIIRRRL  214 (633)
T ss_pred             -----HHHHHHHHHhcCCEEEEECCceeeecCCeEEEEecCCCCCCCCHHHHhhcceEEEccCCCchHHHHHHHHHHH
Confidence                 2223444443         1122234678999999964 468899999999888887764 678888887654

A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=99.39  E-value=1.4e-11  Score=130.99  Aligned_cols=204  Identities=19%  Similarity=0.219  Sum_probs=130.5

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCce-EEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch-
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKG-VLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK-  162 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~-vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~-  162 (396)
                      ..|+|++.+++.+.+.+....      .....-..|.+ +||+||||||||.+|+++|..+   ...++.++++++... 
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~------~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~~~  639 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTAR------AGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEAH  639 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHh------cCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhhhh
Confidence            368999999999988875321      11100112444 7999999999999999999987   457889998776432 


Q ss_pred             -----------hhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-cCC------
Q 016044          163 -----------WFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-TDQ------  224 (396)
Q Consensus       163 -----------~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-~~~------  224 (396)
                                 |+|..+.  ..+....+...++||+|||++.+.+           .+.+.|+..++... .+.      
T Consensus       640 ~~~~l~g~~~gyvg~~~~--g~L~~~v~~~p~svvllDEieka~~-----------~v~~~Llq~ld~g~l~d~~Gr~vd  706 (852)
T TIGR03345       640 TVSRLKGSPPGYVGYGEG--GVLTEAVRRKPYSVVLLDEVEKAHP-----------DVLELFYQVFDKGVMEDGEGREID  706 (852)
T ss_pred             hhccccCCCCCccccccc--chHHHHHHhCCCcEEEEechhhcCH-----------HHHHHHHHHhhcceeecCCCcEEe
Confidence                       2222111  1123334456679999999987622           23334555554322 111      


Q ss_pred             CCcEEEEEecCCCC-----------------------------CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCC--
Q 016044          225 NARVMVLAATNRPS-----------------------------ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGE--  273 (396)
Q Consensus       225 ~~~v~vI~atn~~~-----------------------------~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~--  273 (396)
                      -.+.++|+|||...                             .+.|++++|++ ++.|.+.+.++..+|+...+...  
T Consensus       707 ~~n~iiI~TSNlg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEflnRi~-iI~F~pLs~e~l~~Iv~~~L~~l~~  785 (852)
T TIGR03345       707 FKNTVILLTSNAGSDLIMALCADPETAPDPEALLEALRPELLKVFKPAFLGRMT-VIPYLPLDDDVLAAIVRLKLDRIAR  785 (852)
T ss_pred             ccccEEEEeCCCchHHHHHhccCcccCcchHHHHHHHHHHHHHhccHHHhccee-EEEeCCCCHHHHHHHHHHHHHHHHH
Confidence            14678899988411                             14578888995 89999999999999998776431  


Q ss_pred             ------CCC---CCCCHHHHHHhCCC--CcHHHHHHHHHHHHHHHHHHH
Q 016044          274 ------KVE---ENIDFDYLAGLCEG--FTGSDLLEVCKQAAYFSIREL  311 (396)
Q Consensus       274 ------~~~---~~~~l~~la~~~~g--~s~~di~~l~~~A~~~a~~~~  311 (396)
                            .+.   ++-..+.|+..+.+  |-.+.++.+++.-...++.+.
T Consensus       786 rl~~~~gi~l~i~d~a~~~La~~g~~~~~GAR~L~r~Ie~~i~~~la~~  834 (852)
T TIGR03345       786 RLKENHGAELVYSEALVEHIVARCTEVESGARNIDAILNQTLLPELSRQ  834 (852)
T ss_pred             HHHHhcCceEEECHHHHHHHHHHcCCCCCChHHHHHHHHHHHHHHHHHH
Confidence                  222   11225566766543  456678888877666666553

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK10865 protein disaggregation chaperone; Provisional

Probab=99.37  E-value=3.4e-11  Score=128.44  Aligned_cols=206  Identities=18%  Similarity=0.221  Sum_probs=125.6

Q ss_pred             cccccChHHHHHHHHHHHHccccChhhhhcC-CCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch
Q 016044           87 FESIGGLETIKQALYELVILPLRRPELFSHG-KLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK  162 (396)
Q Consensus        87 ~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~-~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~  162 (396)
                      ...++|++.+++.+...+...      .... ...+|...++|+||+|||||++|++++..+   +.+++.++|+++...
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~------~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~se~~~~  640 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRS------RAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMSEFMEK  640 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHH------HhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhHHhhhh
Confidence            456899999999998877531      1100 001122468999999999999999999876   457899999876432


Q ss_pred             h-----hchHHH-----HHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-cC------CC
Q 016044          163 W-----FGDAQK-----LVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-TD------QN  225 (396)
Q Consensus       163 ~-----~g~~~~-----~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-~~------~~  225 (396)
                      .     +|....     .-..+....+....+||+|||++.+.+           .+.+.++..++... ..      +-
T Consensus       641 ~~~~~LiG~~pgy~g~~~~g~l~~~v~~~p~~vLllDEieka~~-----------~v~~~Ll~ile~g~l~d~~gr~vd~  709 (857)
T PRK10865        641 HSVSRLVGAPPGYVGYEEGGYLTEAVRRRPYSVILLDEVEKAHP-----------DVFNILLQVLDDGRLTDGQGRTVDF  709 (857)
T ss_pred             hhHHHHhCCCCcccccchhHHHHHHHHhCCCCeEEEeehhhCCH-----------HHHHHHHHHHhhCceecCCceEEee
Confidence            1     111000     001122222333448999999997632           22334555554211 11      12


Q ss_pred             CcEEEEEecCCC-------------------------CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCC-------
Q 016044          226 ARVMVLAATNRP-------------------------SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGE-------  273 (396)
Q Consensus       226 ~~v~vI~atn~~-------------------------~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~-------  273 (396)
                      .+.++|+|||..                         ..+.|+|+.|++.++.|.+++.++...|++..+...       
T Consensus       710 rn~iiI~TSN~g~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PELlnRld~iivF~PL~~edl~~Iv~~~L~~l~~rl~~~  789 (857)
T PRK10865        710 RNTVVIMTSNLGSDLIQERFGELDYAHMKELVLGVVSHNFRPEFINRIDEVVVFHPLGEQHIASIAQIQLQRLYKRLEER  789 (857)
T ss_pred             cccEEEEeCCcchHHHHHhccccchHHHHHHHHHHHcccccHHHHHhCCeeEecCCCCHHHHHHHHHHHHHHHHHHHHhC
Confidence            345688899862                         124578999999999999999999999988777532       


Q ss_pred             CCCCCCC---HHHHHHhCCCCc----HHHHHHHHHHHHHHHHHHH
Q 016044          274 KVEENID---FDYLAGLCEGFT----GSDLLEVCKQAAYFSIREL  311 (396)
Q Consensus       274 ~~~~~~~---l~~la~~~~g~s----~~di~~l~~~A~~~a~~~~  311 (396)
                      ...-.++   ++.|+..  ||+    .+.|+.+++.-....+.+.
T Consensus       790 gi~l~is~~al~~L~~~--gy~~~~GARpL~r~I~~~i~~~la~~  832 (857)
T PRK10865        790 GYEIHISDEALKLLSEN--GYDPVYGARPLKRAIQQQIENPLAQQ  832 (857)
T ss_pred             CCcCcCCHHHHHHHHHc--CCCccCChHHHHHHHHHHHHHHHHHH
Confidence            2222233   3334432  343    4577777776666555543

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=99.37  E-value=1.3e-11  Score=129.55  Aligned_cols=200  Identities=22%  Similarity=0.309  Sum_probs=125.7

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEeccccc
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLM  160 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~  160 (396)
                      +.+|++++|.+..++.+.+.+..       ++.     ...+|||+|++|||||++|++++...   +.+|+.++|..+.
T Consensus       372 n~~~~~liG~S~~~~~~~~~~~~-------~a~-----~~~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~~~  439 (686)
T PRK15429        372 DSEFGEIIGRSEAMYSVLKQVEM-------VAQ-----SDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMP  439 (686)
T ss_pred             cccccceeecCHHHHHHHHHHHH-------HhC-----CCCCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEecccCC
Confidence            34788999999999888776642       222     24689999999999999999998854   5799999998764


Q ss_pred             ch-----hhchHH-------HHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-------
Q 016044          161 SK-----WFGDAQ-------KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-------  221 (396)
Q Consensus       161 ~~-----~~g~~~-------~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-------  221 (396)
                      ..     .+|...       ......+.   ...+++|||||++.+....           ...++..++...       
T Consensus       440 ~~~~~~~lfg~~~~~~~g~~~~~~g~le---~a~~GtL~Ldei~~L~~~~-----------Q~~L~~~l~~~~~~~~g~~  505 (686)
T PRK15429        440 AGLLESDLFGHERGAFTGASAQRIGRFE---LADKSSLFLDEVGDMPLEL-----------QPKLLRVLQEQEFERLGSN  505 (686)
T ss_pred             hhHhhhhhcCcccccccccccchhhHHH---hcCCCeEEEechhhCCHHH-----------HHHHHHHHHhCCEEeCCCC
Confidence            32     112100       01111222   3346899999999984322           113333332211       


Q ss_pred             cCCCCcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHH----hCCC
Q 016044          222 TDQNARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAG----LCEG  290 (396)
Q Consensus       222 ~~~~~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~----~~~g  290 (396)
                      ...+.++.+|++|+..       ..+...+..|+ ..+.+..|+..+|.+-+..+...+       +..++.    ...+
T Consensus       506 ~~~~~~~RiI~~t~~~l~~~~~~~~f~~~L~~~l-~~~~i~lPpLreR~~Di~~L~~~~-------l~~~~~~~~~~~~~  577 (686)
T PRK15429        506 KIIQTDVRLIAATNRDLKKMVADREFRSDLYYRL-NVFPIHLPPLRERPEDIPLLVKAF-------TFKIARRMGRNIDS  577 (686)
T ss_pred             CcccceEEEEEeCCCCHHHHHHcCcccHHHHhcc-CeeEEeCCChhhhHhHHHHHHHHH-------HHHHHHHcCCCCCC
Confidence            1113568899999863       23556677777 678899999999987544333211       111221    1235


Q ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHHhc
Q 016044          291 FTGSDLLEVCKQAAYFSIRELLDEERK  317 (396)
Q Consensus       291 ~s~~di~~l~~~A~~~a~~~~~~~~~~  317 (396)
                      +++..+..|.++.|..+++++.+....
T Consensus       578 ~s~~al~~L~~y~WPGNvrEL~~~i~~  604 (686)
T PRK15429        578 IPAETLRTLSNMEWPGNVRELENVIER  604 (686)
T ss_pred             cCHHHHHHHHhCCCCCcHHHHHHHHHH
Confidence            677777777777777777776655443

>TIGR00368 Mg chelatase-related protein

Probab=99.37  E-value=1.5e-11  Score=123.07  Aligned_cols=147  Identities=25%  Similarity=0.341  Sum_probs=92.2

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------------
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------------  147 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------------  147 (396)
                      ..+|+++.|++.+++.+.-.+                ...++++|.||||||||+++++++..+                
T Consensus       188 ~~d~~dv~Gq~~~~~al~~aa----------------~~g~~vlliG~pGsGKTtlar~l~~llp~~~~~~~le~~~i~s  251 (499)
T TIGR00368       188 DLDLKDIKGQQHAKRALEIAA----------------AGGHNLLLFGPPGSGKTMLASRLQGILPPLTNEEAIETARIWS  251 (499)
T ss_pred             CCCHHHhcCcHHHHhhhhhhc----------------cCCCEEEEEecCCCCHHHHHHHHhcccCCCCCcEEEecccccc
Confidence            348999999999988874322                124789999999999999999998632                


Q ss_pred             ------------CCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHH
Q 016044          148 ------------GAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMA  215 (396)
Q Consensus       148 ------------~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~  215 (396)
                                  ..||...+++......+|.........+..|   ..++|||||++.+...           ....+..
T Consensus       252 ~~g~~~~~~~~~~~Pf~~p~~s~s~~~~~ggg~~~~pG~i~lA---~~GvLfLDEi~e~~~~-----------~~~~L~~  317 (499)
T TIGR00368       252 LVGKLIDRKQIKQRPFRSPHHSASKPALVGGGPIPLPGEISLA---HNGVLFLDELPEFKRS-----------VLDALRE  317 (499)
T ss_pred             chhhhccccccccCCccccccccchhhhhCCccccchhhhhcc---CCCeEecCChhhCCHH-----------HHHHHHH
Confidence                        1234444433322222222211111223333   4589999999987321           1223333


Q ss_pred             Hhhcc---------CcCCCCcEEEEEecCCC-----C------------------CCcHHHHhccCCceEeCCCCHH
Q 016044          216 LWDGF---------TTDQNARVMVLAATNRP-----S------------------ELDEAILRRLPQAFEIGMPDRK  260 (396)
Q Consensus       216 ~l~~~---------~~~~~~~v~vI~atn~~-----~------------------~l~~~l~~R~~~~i~~~~P~~~  260 (396)
                      .++..         ....+.++.+|+++|+.     .                  .+..++++||+..+.++.++..
T Consensus       318 ~LE~~~v~i~r~g~~~~~pa~frlIaa~Npcpcg~~~~~~~~c~c~~~~~~~y~~~is~pllDR~dl~~~~~~~~~~  394 (499)
T TIGR00368       318 PIEDGSISISRASAKIFYPARFQLVAAMNPCPCGHYGGKNTHCRCSPQQISRYWNKLSGPFLDRIDLSVEVPLLPPE  394 (499)
T ss_pred             HHHcCcEEEEecCcceeccCCeEEEEecCCcccCcCCCCcccccCCHHHHHHHhhhccHhHHhhCCEEEEEcCCCHH
Confidence            33211         11224679999999963     1                  4788999999999999887654

The N-terminal end matches very strongly a pfam Mg_chelatase domain.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=99.36  E-value=4.8e-11  Score=127.72  Aligned_cols=208  Identities=19%  Similarity=0.251  Sum_probs=131.4

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcC-CCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchh
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHG-KLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKW  163 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~-~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~  163 (396)
                      ..|+|++.+++.+.+.+...      .... ...+|...+||+||+|||||++|+++|..+   +.+++.++++.+....
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~------~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~~~~~~  638 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRS------RAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYMEKH  638 (852)
T ss_pred             cccCCChHHHHHHHHHHHHH------hccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechhhcccc
Confidence            46999999999998877531      1110 011234568999999999999999999976   4689999988764421


Q ss_pred             -----hchHHH-----HHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-cC------CCC
Q 016044          164 -----FGDAQK-----LVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-TD------QNA  226 (396)
Q Consensus       164 -----~g~~~~-----~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-~~------~~~  226 (396)
                           .|....     .-..+....+....+||+|||++.+.+           .+.+.|+..++... ..      +-.
T Consensus       639 ~~~~l~g~~~g~~g~~~~g~l~~~v~~~p~~vlllDeieka~~-----------~v~~~Ll~~l~~g~l~d~~g~~vd~r  707 (852)
T TIGR03346       639 SVARLIGAPPGYVGYEEGGQLTEAVRRKPYSVVLFDEVEKAHP-----------DVFNVLLQVLDDGRLTDGQGRTVDFR  707 (852)
T ss_pred             hHHHhcCCCCCccCcccccHHHHHHHcCCCcEEEEeccccCCH-----------HHHHHHHHHHhcCceecCCCeEEecC
Confidence                 111000     011223333444457999999998732           23335555554221 11      124


Q ss_pred             cEEEEEecCCCC-------------------------CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcC-------CC
Q 016044          227 RVMVLAATNRPS-------------------------ELDEAILRRLPQAFEIGMPDRKERAQILKVILKG-------EK  274 (396)
Q Consensus       227 ~v~vI~atn~~~-------------------------~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~-------~~  274 (396)
                      +.+||+|||...                         .+.|.|+.|++.++.|.+++.++..+|+...+..       ..
T Consensus       708 n~iiI~TSn~g~~~~~~~~~~~~~~~~~~~~~~~~~~~F~pel~~Rid~IivF~PL~~e~l~~I~~l~L~~l~~~l~~~~  787 (852)
T TIGR03346       708 NTVIIMTSNLGSQFIQELAGGDDYEEMREAVMEVLRAHFRPEFLNRIDEIVVFHPLGREQIARIVEIQLGRLRKRLAERK  787 (852)
T ss_pred             CcEEEEeCCcchHhHhhhcccccHHHHHHHHHHHHHhhcCHHHhcCcCeEEecCCcCHHHHHHHHHHHHHHHHHHHHHCC
Confidence            567999999621                         1346788899999999999999999998876642       11


Q ss_pred             CCCCCC---HHHHHHhCC--CCcHHHHHHHHHHHHHHHHHHHH
Q 016044          275 VEENID---FDYLAGLCE--GFTGSDLLEVCKQAAYFSIRELL  312 (396)
Q Consensus       275 ~~~~~~---l~~la~~~~--g~s~~di~~l~~~A~~~a~~~~~  312 (396)
                      +.-.++   .+.|++..-  .+..+.|+.+++......+.+.+
T Consensus       788 ~~l~i~~~a~~~L~~~~~~~~~gaR~L~~~i~~~i~~~l~~~~  830 (852)
T TIGR03346       788 ITLELSDAALDFLAEAGYDPVYGARPLKRAIQREIENPLAKKI  830 (852)
T ss_pred             CeecCCHHHHHHHHHhCCCCCCCchhHHHHHHHHHHHHHHHHH
Confidence            112223   445555422  35566888888887777766543

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=99.36  E-value=2.7e-12  Score=123.20  Aligned_cols=154  Identities=24%  Similarity=0.374  Sum_probs=97.3

Q ss_pred             ccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchh--hchH
Q 016044           90 IGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKW--FGDA  167 (396)
Q Consensus        90 i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~--~g~~  167 (396)
                      ++|.++++..+...+.                ...++||.||||||||++|+++|..++.+|+.+.|...+...  .|..
T Consensus        26 ~~g~~~~~~~~l~a~~----------------~~~~vll~G~PG~gKT~la~~lA~~l~~~~~~i~~t~~l~p~d~~G~~   89 (329)
T COG0714          26 VVGDEEVIELALLALL----------------AGGHVLLEGPPGVGKTLLARALARALGLPFVRIQCTPDLLPSDLLGTY   89 (329)
T ss_pred             eeccHHHHHHHHHHHH----------------cCCCEEEECCCCccHHHHHHHHHHHhCCCeEEEecCCCCCHHHhcCch
Confidence            6777777776644332                136799999999999999999999999999999996543321  1111


Q ss_pred             HHHH----HHHHHHHH--HhCC--cEEEEccccccccCCCCCchHHHHhhHHHHHHHhh-------ccC-cCCCCcEEEE
Q 016044          168 QKLV----AAVFSLAY--KLQP--AIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWD-------GFT-TDQNARVMVL  231 (396)
Q Consensus       168 ~~~~----~~~f~~a~--~~~p--~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~-------~~~-~~~~~~v~vI  231 (396)
                      .-..    ...|....  -...  +++++|||+...+.-+           +.++..++       +.. ..-+.++++|
T Consensus        90 ~~~~~~~~~~~~~~~~gpl~~~~~~ill~DEInra~p~~q-----------~aLl~~l~e~~vtv~~~~~~~~~~~f~vi  158 (329)
T COG0714          90 AYAALLLEPGEFRFVPGPLFAAVRVILLLDEINRAPPEVQ-----------NALLEALEERQVTVPGLTTIRLPPPFIVI  158 (329)
T ss_pred             hHhhhhccCCeEEEecCCcccccceEEEEeccccCCHHHH-----------HHHHHHHhCcEEEECCcCCcCCCCCCEEE
Confidence            1000    00000000  0000  3999999998743221           23333332       222 3345778999


Q ss_pred             EecCC-----CCCCcHHHHhccCCceEeCCC-CHHHHHHHHHHHh
Q 016044          232 AATNR-----PSELDEAILRRLPQAFEIGMP-DRKERAQILKVIL  270 (396)
Q Consensus       232 ~atn~-----~~~l~~~l~~R~~~~i~~~~P-~~~er~~il~~~l  270 (396)
                      +|+|+     ...+++++++||...+.++.| +..+...++....
T Consensus       159 aT~Np~e~~g~~~l~eA~ldRf~~~~~v~yp~~~~e~~~i~~~~~  203 (329)
T COG0714         159 ATQNPGEYEGTYPLPEALLDRFLLRIYVDYPDSEEEERIILARVG  203 (329)
T ss_pred             EccCccccCCCcCCCHHHHhhEEEEEecCCCCchHHHHHHHHhCc
Confidence            99993     446899999999989999999 5555555554444

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=99.36  E-value=4.6e-12  Score=128.36  Aligned_cols=198  Identities=18%  Similarity=0.217  Sum_probs=126.6

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK  162 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~  162 (396)
                      ++.+++|.+..++.+.+.+..       .+     ..+.+|||+|++||||+++|+++....   +.+|+.++|..+...
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~-------~a-----~~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~~~~  252 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEV-------VA-----ASDLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPES  252 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHH-------Hh-----CCCCcEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccCChH
Confidence            467899999999888877642       22     235789999999999999999999864   579999999887432


Q ss_pred             hh-----chHHHH-------HHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-------cC
Q 016044          163 WF-----GDAQKL-------VAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-------TD  223 (396)
Q Consensus       163 ~~-----g~~~~~-------~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-------~~  223 (396)
                      ..     |.....       ....|.   ...+++|||||||.|....           ...++..++...       ..
T Consensus       253 ~~e~~lfG~~~g~~~ga~~~~~g~~~---~a~gGtL~ldeI~~L~~~~-----------Q~~Ll~~l~~~~~~~~g~~~~  318 (509)
T PRK05022        253 LAESELFGHVKGAFTGAISNRSGKFE---LADGGTLFLDEIGELPLAL-----------QAKLLRVLQYGEIQRVGSDRS  318 (509)
T ss_pred             HHHHHhcCccccccCCCcccCCcchh---hcCCCEEEecChhhCCHHH-----------HHHHHHHHhcCCEeeCCCCcc
Confidence            11     110000       001222   2356899999999984222           113333332211       11


Q ss_pred             CCCcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHH----hCCCCc
Q 016044          224 QNARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAG----LCEGFT  292 (396)
Q Consensus       224 ~~~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~----~~~g~s  292 (396)
                      ...++.+|++||..       ..+.+.|..|+ ..+.+..|+..+|.+-+..+...+       +..++.    ...+++
T Consensus       319 ~~~~~RiI~~t~~~l~~~~~~~~f~~dL~~rl-~~~~i~lPpLreR~eDI~~L~~~f-------l~~~~~~~~~~~~~~s  390 (509)
T PRK05022        319 LRVDVRVIAATNRDLREEVRAGRFRADLYHRL-SVFPLSVPPLRERGDDVLLLAGYF-------LEQNRARLGLRSLRLS  390 (509)
T ss_pred             eecceEEEEecCCCHHHHHHcCCccHHHHhcc-cccEeeCCCchhchhhHHHHHHHH-------HHHHHHHcCCCCCCCC
Confidence            23468999999863       34677888888 678889999999877444333210       111221    223577


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhc
Q 016044          293 GSDLLEVCKQAAYFSIRELLDEERK  317 (396)
Q Consensus       293 ~~di~~l~~~A~~~a~~~~~~~~~~  317 (396)
                      +..+..|.++.|..+++++.+....
T Consensus       391 ~~a~~~L~~y~WPGNvrEL~~~i~r  415 (509)
T PRK05022        391 PAAQAALLAYDWPGNVRELEHVISR  415 (509)
T ss_pred             HHHHHHHHhCCCCCcHHHHHHHHHH
Confidence            7777788888887777777654443

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=99.35  E-value=2.7e-11  Score=115.37  Aligned_cols=148  Identities=20%  Similarity=0.230  Sum_probs=98.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc------------------------EEEEecccccchhhchHHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAV------------------------FINVRISNLMSKWFGDAQKLVAAVFSLA  178 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~------------------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a  178 (396)
                      ++.+||+||+|+|||++|+++|+.+.+.                        ++.+....- ++..  .-..++.+...+
T Consensus        22 ~ha~Lf~G~~G~GK~~~A~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~~~~~-~~~i--~id~iR~l~~~~   98 (328)
T PRK05707         22 PHAYLLHGPAGIGKRALAERLAAALLCEAPQGGGACGSCKGCQLLRAGSHPDNFVLEPEEA-DKTI--KVDQVRELVSFV   98 (328)
T ss_pred             ceeeeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEeccCC-CCCC--CHHHHHHHHHHH
Confidence            6789999999999999999999976442                        122211100 0001  112333333333


Q ss_pred             ----HHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEe
Q 016044          179 ----YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEI  254 (396)
Q Consensus       179 ----~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~  254 (396)
                          ......|++||++|.+..           ...+.+++.++.    ++.++++|.+|+.++.+.+.+++|+ ..+.|
T Consensus        99 ~~~~~~~~~kv~iI~~a~~m~~-----------~aaNaLLK~LEE----Pp~~~~fiL~t~~~~~ll~TI~SRc-~~~~~  162 (328)
T PRK05707         99 VQTAQLGGRKVVLIEPAEAMNR-----------NAANALLKSLEE----PSGDTVLLLISHQPSRLLPTIKSRC-QQQAC  162 (328)
T ss_pred             hhccccCCCeEEEECChhhCCH-----------HHHHHHHHHHhC----CCCCeEEEEEECChhhCcHHHHhhc-eeeeC
Confidence                233457999999999832           233466666653    4677899999999999999999999 78999


Q ss_pred             CCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCc
Q 016044          255 GMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFT  292 (396)
Q Consensus       255 ~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s  292 (396)
                      ++|+.++..+.+.......   .+.+...++..+.|-.
T Consensus       163 ~~~~~~~~~~~L~~~~~~~---~~~~~~~~l~la~Gsp  197 (328)
T PRK05707        163 PLPSNEESLQWLQQALPES---DERERIELLTLAGGSP  197 (328)
T ss_pred             CCcCHHHHHHHHHHhcccC---ChHHHHHHHHHcCCCH
Confidence            9999999998887654211   1222345666677633

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

Probab=99.34  E-value=1.4e-11  Score=126.56  Aligned_cols=169  Identities=21%  Similarity=0.339  Sum_probs=129.1

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEE
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFIN  153 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~  153 (396)
                      .-.++-++|.++-++++.+.+.              .+..++-+|.|+||+|||.++.-+|...          +..++.
T Consensus       166 ~gklDPvIGRd~EI~r~iqIL~--------------RR~KNNPvLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~s  231 (786)
T COG0542         166 EGKLDPVIGRDEEIRRTIQILS--------------RRTKNNPVLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYS  231 (786)
T ss_pred             cCCCCCCcChHHHHHHHHHHHh--------------ccCCCCCeEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEE
Confidence            3567779999998888877664              2234667999999999999999999853          567888


Q ss_pred             Eeccccc--chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCch-HHHHhhHHHHHHHhhccCcCCCCcEEE
Q 016044          154 VRISNLM--SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH-EALTNMKTEFMALWDGFTTDQNARVMV  230 (396)
Q Consensus       154 i~~~~l~--~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~-~~~~~~~~~ll~~l~~~~~~~~~~v~v  230 (396)
                      ++...+.  .+|.|+.+..++.+........+.||||||+|.+.+....... ....+++...+.         .+.+.+
T Consensus       232 LD~g~LvAGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLA---------RGeL~~  302 (786)
T COG0542         232 LDLGSLVAGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALA---------RGELRC  302 (786)
T ss_pred             ecHHHHhccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHh---------cCCeEE
Confidence            8887775  4688999999999999999888899999999999877654331 112222222222         556888


Q ss_pred             EEecCCCC-----CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC
Q 016044          231 LAATNRPS-----ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE  276 (396)
Q Consensus       231 I~atn~~~-----~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~  276 (396)
                      ||+|...+     .-|+||-||| ..+.+..|+.++-..||+.+-..+...
T Consensus       303 IGATT~~EYRk~iEKD~AL~RRF-Q~V~V~EPs~e~ti~ILrGlk~~yE~h  352 (786)
T COG0542         303 IGATTLDEYRKYIEKDAALERRF-QKVLVDEPSVEDTIAILRGLKERYEAH  352 (786)
T ss_pred             EEeccHHHHHHHhhhchHHHhcC-ceeeCCCCCHHHHHHHHHHHHHHHHHc
Confidence            99887432     3489999999 899999999999999998876544433

>COG1221 PspF Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=99.33  E-value=2.7e-12  Score=123.12  Aligned_cols=199  Identities=21%  Similarity=0.262  Sum_probs=119.6

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHH----cCCcEEEEecc
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKE----SGAVFINVRIS  157 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~----~~~~~~~i~~~  157 (396)
                      .....+++++|.+...+++.+.+..       +.     ....+||++|++||||+.+|++|+..    .+.||+.+||.
T Consensus        72 ~~~~~~~~LIG~~~~~~~~~eqik~-------~a-----p~~~~vLi~GetGtGKel~A~~iH~~s~r~~~~PFI~~NCa  139 (403)
T COG1221          72 LKSEALDDLIGESPSLQELREQIKA-------YA-----PSGLPVLIIGETGTGKELFARLIHALSARRAEAPFIAFNCA  139 (403)
T ss_pred             ccchhhhhhhccCHHHHHHHHHHHh-------hC-----CCCCcEEEecCCCccHHHHHHHHHHhhhcccCCCEEEEEHH
Confidence            4457889999999988888776642       22     22478999999999999999999753    36799999998


Q ss_pred             cccchhhc-----h-------HHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc-----
Q 016044          158 NLMSKWFG-----D-------AQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF-----  220 (396)
Q Consensus       158 ~l~~~~~g-----~-------~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~-----  220 (396)
                      .+......     .       ....-..+|..|   ..++||+|||+.+....    ++       .++..++..     
T Consensus       140 ~~~en~~~~eLFG~~kGaftGa~~~k~Glfe~A---~GGtLfLDEI~~LP~~~----Q~-------kLl~~le~g~~~rv  205 (403)
T COG1221         140 AYSENLQEAELFGHEKGAFTGAQGGKAGLFEQA---NGGTLFLDEIHRLPPEG----QE-------KLLRVLEEGEYRRV  205 (403)
T ss_pred             HhCcCHHHHHHhccccceeecccCCcCchheec---CCCEEehhhhhhCCHhH----HH-------HHHHHHHcCceEec
Confidence            77544221     1       111122233333   45899999999984332    22       333333321     


Q ss_pred             --CcCCCCcEEEEEecCC--CCCCcH--HHHhccCCceEeCCCCHHHHHH----HHHHHh----cCCCCCCCCCH----H
Q 016044          221 --TTDQNARVMVLAATNR--PSELDE--AILRRLPQAFEIGMPDRKERAQ----ILKVIL----KGEKVEENIDF----D  282 (396)
Q Consensus       221 --~~~~~~~v~vI~atn~--~~~l~~--~l~~R~~~~i~~~~P~~~er~~----il~~~l----~~~~~~~~~~l----~  282 (396)
                        ....+.+|.+|+||+.  .+.+-.  .+.+|. ..+.+..|+.+||..    ++++++    +........+.    .
T Consensus       206 G~~~~~~~dVRli~AT~~~l~~~~~~g~dl~~rl-~~~~I~LPpLrER~~Di~~L~e~Fl~~~~~~l~~~~~~~~~~a~~  284 (403)
T COG1221         206 GGSQPRPVDVRLICATTEDLEEAVLAGADLTRRL-NILTITLPPLRERKEDILLLAEHFLKSEARRLGLPLSVDSPEALR  284 (403)
T ss_pred             CCCCCcCCCceeeeccccCHHHHHHhhcchhhhh-cCceecCCChhhchhhHHHHHHHHHHHHHHHcCCCCCCCCHHHHH
Confidence              2234568999999984  223333  555555 556677777777765    333333    33333322221    1


Q ss_pred             HHH-HhCCCCcHHHHHHHHHHHHHHHH
Q 016044          283 YLA-GLCEGFTGSDLLEVCKQAAYFSI  308 (396)
Q Consensus       283 ~la-~~~~g~s~~di~~l~~~A~~~a~  308 (396)
                      .+- ....| +-+++++++..++..+-
T Consensus       285 ~L~~y~~pG-NirELkN~Ve~~~~~~~  310 (403)
T COG1221         285 ALLAYDWPG-NIRELKNLVERAVAQAS  310 (403)
T ss_pred             HHHhCCCCC-cHHHHHHHHHHHHHHhc
Confidence            111 11223 33577777777666553

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=99.33  E-value=5e-11  Score=114.10  Aligned_cols=149  Identities=15%  Similarity=0.156  Sum_probs=101.9

Q ss_pred             ccccccC-hHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc--------------
Q 016044           86 EFESIGG-LETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV--------------  150 (396)
Q Consensus        86 ~~~~i~G-~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~--------------  150 (396)
                      .|++|.| ++.+++.+...+.          .+   +.++.+||+||+|+||+++|+++++.+.+.              
T Consensus         3 ~~~~i~~~q~~~~~~L~~~~~----------~~---~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~cg~C~~c   69 (329)
T PRK08058          3 TWEQLTALQPVVVKMLQNSIA----------KN---RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEPCGTCTNC   69 (329)
T ss_pred             cHHHHHhhHHHHHHHHHHHHH----------cC---CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCcCHHH
Confidence            4788888 8889999877653          12   236778999999999999999999876332              


Q ss_pred             ----------EEEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHH
Q 016044          151 ----------FINVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMAL  216 (396)
Q Consensus       151 ----------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~  216 (396)
                                +..+...   ++..  .-..++.+.....    .....|++|||+|.+..           ...+.|++.
T Consensus        70 ~~~~~~~hpD~~~i~~~---~~~i--~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~-----------~a~NaLLK~  133 (329)
T PRK08058         70 KRIDSGNHPDVHLVAPD---GQSI--KKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTA-----------SAANSLLKF  133 (329)
T ss_pred             HHHhcCCCCCEEEeccc---cccC--CHHHHHHHHHHHhhCCcccCceEEEeehHhhhCH-----------HHHHHHHHH
Confidence                      1111111   0100  1122333332222    22346999999998732           123356665


Q ss_pred             hhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHH
Q 016044          217 WDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKV  268 (396)
Q Consensus       217 l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~  268 (396)
                      ++    +++..+++|.+|+.+..+.+++++|+ ..++|++|+.++..+.++.
T Consensus       134 LE----EPp~~~~~Il~t~~~~~ll~TIrSRc-~~i~~~~~~~~~~~~~L~~  180 (329)
T PRK08058        134 LE----EPSGGTTAILLTENKHQILPTILSRC-QVVEFRPLPPESLIQRLQE  180 (329)
T ss_pred             hc----CCCCCceEEEEeCChHhCcHHHHhhc-eeeeCCCCCHHHHHHHHHH
Confidence            55    34667888888888999999999999 9999999999998777764

>CHL00095 clpC Clp protease ATP binding subunit

Probab=99.33  E-value=4.2e-11  Score=127.79  Aligned_cols=208  Identities=18%  Similarity=0.200  Sum_probs=128.1

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch--
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK--  162 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~--  162 (396)
                      +.|+|++.+++.+...+....     ..-....+|...+||+||+|||||++|+++|+.+   +.+++.++++++...  
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~-----~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~~~~  583 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRAR-----VGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYMEKHT  583 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHh-----hcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhcccccc
Confidence            458999999999988775311     0000112233457999999999999999999986   467888988776432  


Q ss_pred             ---hhchHHH-----HHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-cC------CCCc
Q 016044          163 ---WFGDAQK-----LVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-TD------QNAR  227 (396)
Q Consensus       163 ---~~g~~~~-----~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-~~------~~~~  227 (396)
                         ..|....     ....+....+....+|++|||+|.+.+           .+.+.|++.++... .+      +-.+
T Consensus       584 ~~~l~g~~~gyvg~~~~~~l~~~~~~~p~~VvllDeieka~~-----------~v~~~Llq~le~g~~~d~~g~~v~~~~  652 (821)
T CHL00095        584 VSKLIGSPPGYVGYNEGGQLTEAVRKKPYTVVLFDEIEKAHP-----------DIFNLLLQILDDGRLTDSKGRTIDFKN  652 (821)
T ss_pred             HHHhcCCCCcccCcCccchHHHHHHhCCCeEEEECChhhCCH-----------HHHHHHHHHhccCceecCCCcEEecCc
Confidence               1111100     011233444444458999999998732           23445666665321 11      1246


Q ss_pred             EEEEEecCCCCC-------------------------------------CcHHHHhccCCceEeCCCCHHHHHHHHHHHh
Q 016044          228 VMVLAATNRPSE-------------------------------------LDEAILRRLPQAFEIGMPDRKERAQILKVIL  270 (396)
Q Consensus       228 v~vI~atn~~~~-------------------------------------l~~~l~~R~~~~i~~~~P~~~er~~il~~~l  270 (396)
                      .++|+|||....                                     +.|.++.|++.++.|.+.+.++..+|++..+
T Consensus       653 ~i~I~Tsn~g~~~i~~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~f~peflnRid~ii~F~pL~~~~l~~Iv~~~l  732 (821)
T CHL00095        653 TLIIMTSNLGSKVIETNSGGLGFELSENQLSEKQYKRLSNLVNEELKQFFRPEFLNRLDEIIVFRQLTKNDVWEIAEIML  732 (821)
T ss_pred             eEEEEeCCcchHHHHhhccccCCcccccccccccHHHHHHHHHHHHHHhcCHHHhccCCeEEEeCCCCHHHHHHHHHHHH
Confidence            789999884210                                     2357888999999999999999999988777


Q ss_pred             cCC-------CCCCCCC---HHHHHHhC--CCCcHHHHHHHHHHHHHHHHHHH
Q 016044          271 KGE-------KVEENID---FDYLAGLC--EGFTGSDLLEVCKQAAYFSIREL  311 (396)
Q Consensus       271 ~~~-------~~~~~~~---l~~la~~~--~g~s~~di~~l~~~A~~~a~~~~  311 (396)
                      ...       .+.-.++   .+.|+...  ..|-.+.|+.+++.-....+.+.
T Consensus       733 ~~l~~rl~~~~i~l~~~~~~~~~La~~~~~~~~GAR~l~r~i~~~i~~~l~~~  785 (821)
T CHL00095        733 KNLFKRLNEQGIQLEVTERIKTLLIEEGYNPLYGARPLRRAIMRLLEDPLAEE  785 (821)
T ss_pred             HHHHHHHHHCCcEEEECHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHHHHHH
Confidence            531       1111111   44555542  13445566666666555555443

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

Probab=99.33  E-value=3.6e-11  Score=123.55  Aligned_cols=205  Identities=20%  Similarity=0.287  Sum_probs=133.4

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC---CcEEEEecccccch--
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG---AVFINVRISNLMSK--  162 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~---~~~~~i~~~~l~~~--  162 (396)
                      ..++|++++...+.+.+..  .+..+   ....+|...+||.||+|+|||-+|+++|..+.   ..++.+|+|+++.+  
T Consensus       491 ~rViGQd~AV~avs~aIrr--aRaGL---~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~EkHs  565 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRR--ARAGL---GDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKHS  565 (786)
T ss_pred             cceeChHHHHHHHHHHHHH--HhcCC---CCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHHHHH
Confidence            3589999999999888752  11111   11123445678899999999999999999886   78999999988654  


Q ss_pred             ----------hhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-cCCC------
Q 016044          163 ----------WFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-TDQN------  225 (396)
Q Consensus       163 ----------~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-~~~~------  225 (396)
                                |+|..+.  ..+....++..++||+||||+..           ..++.+-|++.+|... ++..      
T Consensus       566 VSrLIGaPPGYVGyeeG--G~LTEaVRr~PySViLlDEIEKA-----------HpdV~nilLQVlDdGrLTD~~Gr~VdF  632 (786)
T COG0542         566 VSRLIGAPPGYVGYEEG--GQLTEAVRRKPYSVILLDEIEKA-----------HPDVFNLLLQVLDDGRLTDGQGRTVDF  632 (786)
T ss_pred             HHHHhCCCCCCceeccc--cchhHhhhcCCCeEEEechhhhc-----------CHHHHHHHHHHhcCCeeecCCCCEEec
Confidence                      2332221  11233334444589999999985           2346667777776432 2222      


Q ss_pred             CcEEEEEecCCCC----------------------------CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCC----
Q 016044          226 ARVMVLAATNRPS----------------------------ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGE----  273 (396)
Q Consensus       226 ~~v~vI~atn~~~----------------------------~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~----  273 (396)
                      .+.+||+|||--.                            .+.|+++.|++.+|.|.+.+.+...+|+...+...    
T Consensus       633 rNtiIImTSN~Gs~~i~~~~~~~~~~~~~~~~~~v~~~l~~~F~PEFLNRid~II~F~~L~~~~l~~Iv~~~L~~l~~~L  712 (786)
T COG0542         633 RNTIIIMTSNAGSEEILRDADGDDFADKEALKEAVMEELKKHFRPEFLNRIDEIIPFNPLSKEVLERIVDLQLNRLAKRL  712 (786)
T ss_pred             ceeEEEEecccchHHHHhhccccccchhhhHHHHHHHHHHhhCCHHHHhhcccEEeccCCCHHHHHHHHHHHHHHHHHHH
Confidence            3678999998310                            23578888999999999999999999998777421    


Q ss_pred             ---CCC---CCCCHHHHHHhCC--CCcHHHHHHHHHHHHHHHHHH
Q 016044          274 ---KVE---ENIDFDYLAGLCE--GFTGSDLLEVCKQAAYFSIRE  310 (396)
Q Consensus       274 ---~~~---~~~~l~~la~~~~--g~s~~di~~l~~~A~~~a~~~  310 (396)
                         .+.   .+...+.++..+.  .|-++-|+.++++-....+.+
T Consensus       713 ~~~~i~l~~s~~a~~~l~~~gyd~~~GARpL~R~Iq~~i~~~La~  757 (786)
T COG0542         713 AERGITLELSDEAKDFLAEKGYDPEYGARPLRRAIQQEIEDPLAD  757 (786)
T ss_pred             HhCCceEEECHHHHHHHHHhccCCCcCchHHHHHHHHHHHHHHHH
Confidence               222   1112345555443  344556666665555444443

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=99.33  E-value=2e-11  Score=107.64  Aligned_cols=142  Identities=17%  Similarity=0.217  Sum_probs=93.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc------------------------EEEEecccccchhhchHHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAV------------------------FINVRISNLMSKWFGDAQKLVAAVFSLA  178 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~------------------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a  178 (396)
                      ++.+||+||+|+|||++|+.+++.+...                        +..+....   ...  .-..++.+...+
T Consensus        14 ~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~---~~~--~~~~i~~i~~~~   88 (188)
T TIGR00678        14 AHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEG---QSI--KVDQVRELVEFL   88 (188)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEecccc---CcC--CHHHHHHHHHHH
Confidence            5779999999999999999999986432                        12221110   001  112333344433


Q ss_pred             HH----hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEe
Q 016044          179 YK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEI  254 (396)
Q Consensus       179 ~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~  254 (396)
                      ..    ....|++|||+|.+...           ..+.++..++.    .+....+|.+++.+..+.+++++|+ ..+.|
T Consensus        89 ~~~~~~~~~kviiide~~~l~~~-----------~~~~Ll~~le~----~~~~~~~il~~~~~~~l~~~i~sr~-~~~~~  152 (188)
T TIGR00678        89 SRTPQESGRRVVIIEDAERMNEA-----------AANALLKTLEE----PPPNTLFILITPSPEKLLPTIRSRC-QVLPF  152 (188)
T ss_pred             ccCcccCCeEEEEEechhhhCHH-----------HHHHHHHHhcC----CCCCeEEEEEECChHhChHHHHhhc-EEeeC
Confidence            32    34579999999998321           12345555543    2445677777777889999999999 79999


Q ss_pred             CCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCC
Q 016044          255 GMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEG  290 (396)
Q Consensus       255 ~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g  290 (396)
                      ++|+.++..++++..    ..+ +..++.++..+.|
T Consensus       153 ~~~~~~~~~~~l~~~----gi~-~~~~~~i~~~~~g  183 (188)
T TIGR00678       153 PPLSEEALLQWLIRQ----GIS-EEAAELLLALAGG  183 (188)
T ss_pred             CCCCHHHHHHHHHHc----CCC-HHHHHHHHHHcCC
Confidence            999999999988876    122 2235555665554

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins

Probab=99.31  E-value=1.9e-11  Score=114.86  Aligned_cols=68  Identities=38%  Similarity=0.534  Sum_probs=46.8

Q ss_pred             cccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC--CcEEEEecccccc
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG--AVFINVRISNLMS  161 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~--~~~~~i~~~~l~~  161 (396)
                      ...+.++|+.+++++.--.+.       +...++  -..+++||.||||||||.+|-++|+++|  .||..++++++++
T Consensus        21 ~~~~GlVGQ~~AReAagiiv~-------mIk~~K--~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~~isgSEiyS   90 (398)
T PF06068_consen   21 YIADGLVGQEKAREAAGIIVD-------MIKEGK--IAGRAILIAGPPGTGKTALAMAIAKELGEDVPFVSISGSEIYS   90 (398)
T ss_dssp             SEETTEES-HHHHHHHHHHHH-------HHHTT----TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EEEEEGGGG-B
T ss_pred             eccccccChHHHHHHHHHHHH-------HHhccc--ccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCeeEcccceeee
Confidence            345789999999998754443       222221  1358999999999999999999999997  7888887766533

The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.

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

Probab=99.31  E-value=3.6e-11  Score=116.99  Aligned_cols=143  Identities=20%  Similarity=0.269  Sum_probs=86.1

Q ss_pred             cccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-------EEEEec---
Q 016044           87 FESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-------FINVRI---  156 (396)
Q Consensus        87 ~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-------~~~i~~---  156 (396)
                      ++++.+.+...+.+...+.                ..++++|+||||||||++|+++|..++..       .+.++.   
T Consensus       174 l~d~~i~e~~le~l~~~L~----------------~~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsyS  237 (459)
T PRK11331        174 LNDLFIPETTIETILKRLT----------------IKKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYS  237 (459)
T ss_pred             hhcccCCHHHHHHHHHHHh----------------cCCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeeccccc
Confidence            5667777777666644332                24789999999999999999999977431       222322   


Q ss_pred             -ccccchhh--chH----HHHHHHHHHHHHHh--CCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhh---------
Q 016044          157 -SNLMSKWF--GDA----QKLVAAVFSLAYKL--QPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWD---------  218 (396)
Q Consensus       157 -~~l~~~~~--g~~----~~~~~~~f~~a~~~--~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~---------  218 (396)
                       .++...+.  +..    ......+...|...  .|.+|||||+++....+          +..+++..++         
T Consensus       238 YeDFI~G~rP~~vgy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani~k----------iFGel~~lLE~~~rg~~~~  307 (459)
T PRK11331        238 YEDFIQGYRPNGVGFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANLSK----------VFGEVMMLMEHDKRGENWS  307 (459)
T ss_pred             HHHHhcccCCCCCCeEecCchHHHHHHHHHhcccCCcEEEEehhhccCHHH----------hhhhhhhhccccccccccc
Confidence             12221110  000    11222233445432  57899999999863222          1112222221         


Q ss_pred             ---------ccCcCCCCcEEEEEecCCCC----CCcHHHHhccCCceEeCC
Q 016044          219 ---------GFTTDQNARVMVLAATNRPS----ELDEAILRRLPQAFEIGM  256 (396)
Q Consensus       219 ---------~~~~~~~~~v~vI~atn~~~----~l~~~l~~R~~~~i~~~~  256 (396)
                               +-....+.++.||||+|..+    .+|.|++||| ..+++.+
T Consensus       308 v~l~y~e~d~e~f~iP~Nl~IIgTMNt~Drs~~~lD~AlrRRF-~fi~i~p  357 (459)
T PRK11331        308 VPLTYSENDEERFYVPENVYIIGLMNTADRSLAVVDYALRRRF-SFIDIEP  357 (459)
T ss_pred             eeeeccccccccccCCCCeEEEEecCccccchhhccHHHHhhh-heEEecC
Confidence                     00112367899999999877    6899999999 6677764

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=99.31  E-value=2.2e-11  Score=116.56  Aligned_cols=149  Identities=23%  Similarity=0.289  Sum_probs=102.4

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC--------------------
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG--------------------  148 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~--------------------  148 (396)
                      +++|.+.+...+..++..         .+   .-++.+||+||||+|||++|.++|+++.                    
T Consensus         2 ~~~~~~~~~~~l~~~~~~---------~~---~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~   69 (325)
T COG0470           2 ELVPWQEAVKRLLVQALE---------SG---RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIP   69 (325)
T ss_pred             CcccchhHHHHHHHHHHh---------cC---CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHh
Confidence            567777777777665542         11   1245699999999999999999999876                    


Q ss_pred             ----CcEEEEecccccchhhchHHHHHHHHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc
Q 016044          149 ----AVFINVRISNLMSKWFGDAQKLVAAVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF  220 (396)
Q Consensus       149 ----~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~  220 (396)
                          ..++.++.++.....  -....++.+......    .+..|++|||+|.+..           ...+.++..+.  
T Consensus        70 ~~~~~d~lel~~s~~~~~~--i~~~~vr~~~~~~~~~~~~~~~kviiidead~mt~-----------~A~nallk~lE--  134 (325)
T COG0470          70 AGNHPDFLELNPSDLRKID--IIVEQVRELAEFLSESPLEGGYKVVIIDEADKLTE-----------DAANALLKTLE--  134 (325)
T ss_pred             hcCCCceEEecccccCCCc--chHHHHHHHHHHhccCCCCCCceEEEeCcHHHHhH-----------HHHHHHHHHhc--
Confidence                456777776654431  122334443333322    2347999999999843           22234444444  


Q ss_pred             CcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHH
Q 016044          221 TTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILK  267 (396)
Q Consensus       221 ~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~  267 (396)
                        .++.+..+|.+||.++.+-+.+++|| ..+.|++|+..+.....+
T Consensus       135 --ep~~~~~~il~~n~~~~il~tI~SRc-~~i~f~~~~~~~~i~~~e  178 (325)
T COG0470         135 --EPPKNTRFILITNDPSKILPTIRSRC-QRIRFKPPSRLEAIAWLE  178 (325)
T ss_pred             --cCCCCeEEEEEcCChhhccchhhhcc-eeeecCCchHHHHHHHhh
Confidence              34677899999999999999999999 889998876666655554

>COG0606 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]

Probab=99.30  E-value=7.4e-13  Score=127.54  Aligned_cols=46  Identities=43%  Similarity=0.678  Sum_probs=39.3

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHH
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..+|.||.|++..|+.+.-           .+.+     .+++|++|||||||||+|+.+..
T Consensus       175 ~~D~~DV~GQ~~AKrAlei-----------AAAG-----gHnLl~~GpPGtGKTmla~Rl~~  220 (490)
T COG0606         175 APDFKDVKGQEQAKRALEI-----------AAAG-----GHNLLLVGPPGTGKTMLASRLPG  220 (490)
T ss_pred             CcchhhhcCcHHHHHHHHH-----------HHhc-----CCcEEEecCCCCchHHhhhhhcc
Confidence            4589999999999999943           3334     48999999999999999999876

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.30  E-value=3.6e-11  Score=120.29  Aligned_cols=215  Identities=19%  Similarity=0.243  Sum_probs=133.7

Q ss_pred             CCCCCcccccccChHHHHHHHHHHHHcc----cc-------------ChhhhhcC--CCCCCC-ceEEEECCCCCcHHHH
Q 016044           80 PDHIDVEFESIGGLETIKQALYELVILP----LR-------------RPELFSHG--KLLGPQ-KGVLLYGPPGTGKTML  139 (396)
Q Consensus        80 ~~~~~~~~~~i~G~~~~k~~l~~~v~~~----l~-------------~~~~~~~~--~~~~~~-~~vLL~GppGtGKT~l  139 (396)
                      ....+-.|.|+.|-+.+=+.+-.|+...    +.             ..+++...  ..-+|+ +-+||+||||-|||||
T Consensus       263 dky~Pk~FtdLLsDe~tNR~~L~WLK~WD~~VFg~~vsrl~~s~~~~~ke~~~~~~~~s~RP~kKilLL~GppGlGKTTL  342 (877)
T KOG1969|consen  263 DKYRPKKFTDLLSDEKTNRRMLGWLKQWDPCVFGQKVSRLLASKGPTEKEVLDMELDPSKRPPKKILLLCGPPGLGKTTL  342 (877)
T ss_pred             cccChhHHHHHhcchhHHHHHHHHHHhhcHHhhcchHhhhccccccchhhhhhcccCccCCCccceEEeecCCCCChhHH
Confidence            3455678999999999888776665421    00             11222211  112233 4578999999999999


Q ss_pred             HHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHH
Q 016044          140 AKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMA  215 (396)
Q Consensus       140 a~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~  215 (396)
                      |+.+|+++|..++.+++++-.+..  .....+..+...-.    ..+|.+|+|||||--.       ... -+++..++.
T Consensus       343 AHViAkqaGYsVvEINASDeRt~~--~v~~kI~~avq~~s~l~adsrP~CLViDEIDGa~-------~~~-Vdvilslv~  412 (877)
T KOG1969|consen  343 AHVIAKQAGYSVVEINASDERTAP--MVKEKIENAVQNHSVLDADSRPVCLVIDEIDGAP-------RAA-VDVILSLVK  412 (877)
T ss_pred             HHHHHHhcCceEEEecccccccHH--HHHHHHHHHHhhccccccCCCcceEEEecccCCc-------HHH-HHHHHHHHH
Confidence            999999999999999998854432  22233333322222    1468999999999642       111 111112211


Q ss_pred             ----HhhccCcCC----------CCcEEEEEecCCCCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCC
Q 016044          216 ----LWDGFTTDQ----------NARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENI  279 (396)
Q Consensus       216 ----~l~~~~~~~----------~~~v~vI~atn~~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~  279 (396)
                          +..|-....          .-.-.|||.||..-  -|+|+.  -+..++.|.+|......+-|+.++..+++.  .
T Consensus       413 a~~k~~~Gkq~~~~~~rkkkr~~~L~RPIICICNdLY--aPaLR~Lr~~A~ii~f~~p~~s~Lv~RL~~IC~rE~mr--~  488 (877)
T KOG1969|consen  413 ATNKQATGKQAKKDKKRKKKRSKLLTRPIICICNDLY--APALRPLRPFAEIIAFVPPSQSRLVERLNEICHRENMR--A  488 (877)
T ss_pred             hhcchhhcCcccchhhhhhhccccccCCEEEEecCcc--chhhhhcccceEEEEecCCChhHHHHHHHHHHhhhcCC--C
Confidence                111111000          01124889999643  466654  577899999999999999999999887775  3


Q ss_pred             CHHHHHHhCCCCcHHHHHHHHHHHHHHHHH
Q 016044          280 DFDYLAGLCEGFTGSDLLEVCKQAAYFSIR  309 (396)
Q Consensus       280 ~l~~la~~~~g~s~~di~~l~~~A~~~a~~  309 (396)
                      +...|+..|+ ++.+||+..++.-...+.+
T Consensus       489 d~~aL~~L~e-l~~~DIRsCINtLQfLa~~  517 (877)
T KOG1969|consen  489 DSKALNALCE-LTQNDIRSCINTLQFLASN  517 (877)
T ss_pred             CHHHHHHHHH-HhcchHHHHHHHHHHHHHh
Confidence            4445555555 4557999888876666553

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

Probab=99.29  E-value=4.8e-10  Score=104.46  Aligned_cols=192  Identities=18%  Similarity=0.276  Sum_probs=114.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCC-cEEEE---ec----ccccch---hhc-----h-HHHHHHHH----HHHHHHhC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGA-VFINV---RI----SNLMSK---WFG-----D-AQKLVAAV----FSLAYKLQ  182 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~-~~~~i---~~----~~l~~~---~~g-----~-~~~~~~~~----f~~a~~~~  182 (396)
                      ..++|+||+|+|||++++.+++.+.. .+..+   ++    .++...   ..|     . .......+    ........
T Consensus        44 ~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~~~~~~  123 (269)
T TIGR03015        44 GFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIEQFAAGK  123 (269)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHhCCC
Confidence            45889999999999999999998752 22211   11    011000   001     0 01111111    12223446


Q ss_pred             CcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC--CCCC----cHHHHhccCCceEeCC
Q 016044          183 PAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR--PSEL----DEAILRRLPQAFEIGM  256 (396)
Q Consensus       183 p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~--~~~l----~~~l~~R~~~~i~~~~  256 (396)
                      +.+|+|||+|.+...       ..    ..+ ..+-.........+.++.+...  .+.+    ...+.+|+...+.+++
T Consensus       124 ~~vliiDe~~~l~~~-------~~----~~l-~~l~~~~~~~~~~~~vvl~g~~~~~~~l~~~~~~~l~~r~~~~~~l~~  191 (269)
T TIGR03015       124 RALLVVDEAQNLTPE-------LL----EEL-RMLSNFQTDNAKLLQIFLVGQPEFRETLQSPQLQQLRQRIIASCHLGP  191 (269)
T ss_pred             CeEEEEECcccCCHH-------HH----HHH-HHHhCcccCCCCeEEEEEcCCHHHHHHHcCchhHHHHhheeeeeeCCC
Confidence            689999999987321       11    111 1222212112223333443332  1111    2356678878899999


Q ss_pred             CCHHHHHHHHHHHhcCCCCC-----CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHH
Q 016044          257 PDRKERAQILKVILKGEKVE-----ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLD  331 (396)
Q Consensus       257 P~~~er~~il~~~l~~~~~~-----~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d  331 (396)
                      .+.++..+++...+......     .+-.++.+++.+.|.. ..|..+|..++..+..+.            ...|+.++
T Consensus       192 l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p-~~i~~l~~~~~~~a~~~~------------~~~i~~~~  258 (269)
T TIGR03015       192 LDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIP-RLINILCDRLLLSAFLEE------------KREIGGEE  258 (269)
T ss_pred             CCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcc-cHHHHHHHHHHHHHHHcC------------CCCCCHHH
Confidence            99999999999888643321     2234677889999975 569999999988877652            25699999


Q ss_pred             HHHHHHhcc
Q 016044          332 LEKVLTTSR  340 (396)
Q Consensus       332 ~~~al~~~~  340 (396)
                      ++.++..+.
T Consensus       259 v~~~~~~~~  267 (269)
T TIGR03015       259 VREVIAEID  267 (269)
T ss_pred             HHHHHHHhh
Confidence            999988753

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.

>smart00350 MCM minichromosome maintenance proteins

Probab=99.29  E-value=2.4e-11  Score=122.89  Aligned_cols=167  Identities=27%  Similarity=0.335  Sum_probs=99.4

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc-EEE---Eecccccchhh
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV-FIN---VRISNLMSKWF  164 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~-~~~---i~~~~l~~~~~  164 (396)
                      +|.|++.+|..+.-.+..-  .......+...+...+|||+|+||||||++|+++++..... |..   .++..+.....
T Consensus       204 ~i~G~~~~k~~l~l~l~gg--~~~~~~~~~~~r~~~~vLL~G~pGtGKs~lar~l~~~~~r~~~~~~~~~~~~~l~~~~~  281 (509)
T smart00350      204 SIYGHEDIKKAILLLLFGG--VHKNLPDGMKIRGDINILLLGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTAAVT  281 (509)
T ss_pred             cccCcHHHHHHHHHHHhCC--CccccCCCccccccceEEEeCCCChhHHHHHHHHHHHcCcceEcCCCCCCcCCccccce
Confidence            5889999988875443220  00001111112334579999999999999999999976433 322   12222211110


Q ss_pred             ch---HHHHH-HHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhh---------ccCcCCCCcEEEE
Q 016044          165 GD---AQKLV-AAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWD---------GFTTDQNARVMVL  231 (396)
Q Consensus       165 g~---~~~~~-~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~---------~~~~~~~~~v~vI  231 (396)
                      ..   .+..+ ...+   .....++++|||+|.+....+.           .++..|+         |....-+.++.+|
T Consensus       282 ~~~~~g~~~~~~G~l---~~A~~Gil~iDEi~~l~~~~q~-----------~L~e~me~~~i~i~k~G~~~~l~~~~~vi  347 (509)
T smart00350      282 RDPETREFTLEGGAL---VLADNGVCCIDEFDKMDDSDRT-----------AIHEAMEQQTISIAKAGITTTLNARCSVL  347 (509)
T ss_pred             EccCcceEEecCccE---EecCCCEEEEechhhCCHHHHH-----------HHHHHHhcCEEEEEeCCEEEEecCCcEEE
Confidence            00   00000 0011   1224589999999998433221           2222222         2222335678999


Q ss_pred             EecCCCC-------------CCcHHHHhccCCceE-eCCCCHHHHHHHHHHHhc
Q 016044          232 AATNRPS-------------ELDEAILRRLPQAFE-IGMPDRKERAQILKVILK  271 (396)
Q Consensus       232 ~atn~~~-------------~l~~~l~~R~~~~i~-~~~P~~~er~~il~~~l~  271 (396)
                      +|+|+.+             .+++++++||+..+. .+.|+.+...+|.++.+.
T Consensus       348 Aa~NP~~g~y~~~~~~~~n~~l~~~lLsRFdLi~~~~d~~~~~~d~~i~~~i~~  401 (509)
T smart00350      348 AAANPIGGRYDPKLTPEENIDLPAPILSRFDLLFVVLDEVDEERDRELAKHVVD  401 (509)
T ss_pred             EEeCCCCcccCCCcChhhccCCChHHhCceeeEEEecCCCChHHHHHHHHHHHH
Confidence            9999753             589999999987654 478999999999998764

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

Probab=99.28  E-value=2e-10  Score=105.91  Aligned_cols=216  Identities=20%  Similarity=0.250  Sum_probs=131.7

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---------CCcEEEEecccc
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---------GAVFINVRISNL  159 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---------~~~~~~i~~~~l  159 (396)
                      -.+|+..+++.+..+-.       ++...+ .....++||+|++|.|||++++.++...         .+|++.+.++.-
T Consensus        35 rWIgY~~A~~~L~~L~~-------Ll~~P~-~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~  106 (302)
T PF05621_consen   35 RWIGYPRAKEALDRLEE-------LLEYPK-RHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPE  106 (302)
T ss_pred             CeecCHHHHHHHHHHHH-------HHhCCc-ccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCC
Confidence            45788888777765442       222211 2224679999999999999999998744         246666665322


Q ss_pred             cch--------------h--hchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcC
Q 016044          160 MSK--------------W--FGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD  223 (396)
Q Consensus       160 ~~~--------------~--~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  223 (396)
                      .+.              +  .....+.-..+....+..+..+|+|||+|.++.......        .++++.+..+..+
T Consensus       107 p~~~~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~q--------r~~Ln~LK~L~Ne  178 (302)
T PF05621_consen  107 PDERRFYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQ--------REFLNALKFLGNE  178 (302)
T ss_pred             CChHHHHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHH--------HHHHHHHHHHhhc
Confidence            111              0  012233333445566677889999999999754432221        1344444433333


Q ss_pred             CCCcEEEEEecCCCC--CCcHHHHhccCCceEeCCCC-HHHHHHHHHHHhcCCCCC--CCCCH----HHHHHhCCCCcHH
Q 016044          224 QNARVMVLAATNRPS--ELDEAILRRLPQAFEIGMPD-RKERAQILKVILKGEKVE--ENIDF----DYLAGLCEGFTGS  294 (396)
Q Consensus       224 ~~~~v~vI~atn~~~--~l~~~l~~R~~~~i~~~~P~-~~er~~il~~~l~~~~~~--~~~~l----~~la~~~~g~s~~  294 (396)
                      -.-.++.+|+..-..  .-|+.+.+|| ..+.+|.-. -++...++..+-...++.  +++..    ..+-..++|..| 
T Consensus       179 L~ipiV~vGt~~A~~al~~D~QLa~RF-~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG-  256 (302)
T PF05621_consen  179 LQIPIVGVGTREAYRALRTDPQLASRF-EPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIG-  256 (302)
T ss_pred             cCCCeEEeccHHHHHHhccCHHHHhcc-CCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchH-
Confidence            344455555543222  3478899999 667776643 345556676666655554  33332    456678888775 


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHH
Q 016044          295 DLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEK  334 (396)
Q Consensus       295 di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~  334 (396)
                      ++..++..|+..|++...            ..|+.+.+..
T Consensus       257 ~l~~ll~~aA~~AI~sG~------------E~It~~~l~~  284 (302)
T PF05621_consen  257 ELSRLLNAAAIAAIRSGE------------ERITREILDK  284 (302)
T ss_pred             HHHHHHHHHHHHHHhcCC------------ceecHHHHhh
Confidence            899999999999997632            4477766654

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

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=99.27  E-value=1.7e-12  Score=108.60  Aligned_cols=112  Identities=27%  Similarity=0.406  Sum_probs=67.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch------hhch--HHHHHHHHHHHHHHhCCcEEEEcccccccc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK------WFGD--AQKLVAAVFSLAYKLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~------~~g~--~~~~~~~~f~~a~~~~p~vl~iDEid~l~~  196 (396)
                      +|+|+||||||||++|+.+|+.++.+++.++++.....      +.-.  ........+..+.. .+++++|||++....
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~~~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~l~~a~~-~~~il~lDEin~a~~   79 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALLGRPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGPLVRAMR-KGGILVLDEINRAPP   79 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHTCEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-CCCTTHH-EEEEEEESSCGG--H
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhhcceEEEEeccccccccceeeeeeccccccccccccccccc-ceeEEEECCcccCCH
Confidence            58999999999999999999999999999988654322      1100  00000000001111 458999999998621


Q ss_pred             CCCCCchHHHHhhHHHHHHHhhccC----------cCCCC-----cEEEEEecCCCC----CCcHHHHhcc
Q 016044          197 QRRTSDHEALTNMKTEFMALWDGFT----------TDQNA-----RVMVLAATNRPS----ELDEAILRRL  248 (396)
Q Consensus       197 ~~~~~~~~~~~~~~~~ll~~l~~~~----------~~~~~-----~v~vI~atn~~~----~l~~~l~~R~  248 (396)
                                 .+...++..++.-.          ...+.     ++.+|+|+|+.+    .+++++++||
T Consensus        80 -----------~v~~~L~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~t~N~~~~~~~~l~~al~~Rf  139 (139)
T PF07728_consen   80 -----------EVLESLLSLLEERRIQLPEGGEEIKEPNNDLASPNFRIIATMNPRDKGRKELSPALLDRF  139 (139)
T ss_dssp             -----------HHHHTTHHHHSSSEEEE-TSSSEEE--TT------EEEEEEESSST--TTTTCHHHHTT-
T ss_pred             -----------HHHHHHHHHHhhCcccccCCCcEEecCcccccccceEEEEEEcCCCCCcCcCCHHHHhhC
Confidence                       12223333332211          00111     489999999988    8999999998

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=99.27  E-value=2.7e-11  Score=100.33  Aligned_cols=128  Identities=25%  Similarity=0.405  Sum_probs=82.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc---EEEEecccccchh--------------hchHHHHHHHHHHHHHHhCCcE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAV---FINVRISNLMSKW--------------FGDAQKLVAAVFSLAYKLQPAI  185 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~---~~~i~~~~l~~~~--------------~g~~~~~~~~~f~~a~~~~p~v  185 (396)
                      +..++|+||||||||++++.++..+...   ++.++++......              ...........+..+....+.+
T Consensus         2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v   81 (148)
T smart00382        2 GEVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKLKPDV   81 (148)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHHhhhhhccCCCCCHHHHHHHHHHHHHhcCCCE
Confidence            4679999999999999999999988765   7888876544321              1234556667788888777899


Q ss_pred             EEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC-CCCCcHHHHhccCCceEeCCC
Q 016044          186 IFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR-PSELDEAILRRLPQAFEIGMP  257 (396)
Q Consensus       186 l~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~-~~~l~~~l~~R~~~~i~~~~P  257 (396)
                      |++||++.+..............  .......     .......+|+++|. ....+..+.+|++..+.+..+
T Consensus        82 iiiDei~~~~~~~~~~~~~~~~~--~~~~~~~-----~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (148)
T smart00382       82 LILDEITSLLDAEQEALLLLLEE--LRLLLLL-----KSEKNLTVILTTNDEKDLGPALLRRRFDRRIVLLLI  147 (148)
T ss_pred             EEEECCcccCCHHHHHHHHhhhh--hHHHHHH-----HhcCCCEEEEEeCCCccCchhhhhhccceEEEecCC
Confidence            99999999854432111000000  0000000     11345688888886 444556666688777776554

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.

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=99.26  E-value=3.7e-11  Score=103.55  Aligned_cols=133  Identities=23%  Similarity=0.343  Sum_probs=77.8

Q ss_pred             ccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchh---
Q 016044           90 IGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKW---  163 (396)
Q Consensus        90 i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~---  163 (396)
                      |+|.+...+.+.+.+..       +     ...+.+|||+|++||||+++|++|.+..   +.||+.++|+.+....   
T Consensus         1 liG~s~~m~~~~~~~~~-------~-----a~~~~pVlI~GE~GtGK~~lA~~IH~~s~r~~~pfi~vnc~~~~~~~~e~   68 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKR-------A-----ASSDLPVLITGETGTGKELLARAIHNNSPRKNGPFISVNCAALPEELLES   68 (168)
T ss_dssp             SS--SHHHHHHHHHHHH-------H-----TTSTS-EEEECSTTSSHHHHHHHHHHCSTTTTS-EEEEETTTS-HHHHHH
T ss_pred             CEeCCHHHHHHHHHHHH-------H-----hCCCCCEEEEcCCCCcHHHHHHHHHHhhhcccCCeEEEehhhhhcchhhh
Confidence            46777777777666542       2     2235789999999999999999999865   4799999998874331   


Q ss_pred             --hchHH-------HHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-------cCCCCc
Q 016044          164 --FGDAQ-------KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-------TDQNAR  227 (396)
Q Consensus       164 --~g~~~-------~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-------~~~~~~  227 (396)
                        +|...       .....++..   ...++||||||+.|....           ...++..++.-.       ...+.+
T Consensus        69 ~LFG~~~~~~~~~~~~~~G~l~~---A~~GtL~Ld~I~~L~~~~-----------Q~~Ll~~l~~~~~~~~g~~~~~~~~  134 (168)
T PF00158_consen   69 ELFGHEKGAFTGARSDKKGLLEQ---ANGGTLFLDEIEDLPPEL-----------QAKLLRVLEEGKFTRLGSDKPVPVD  134 (168)
T ss_dssp             HHHEBCSSSSTTTSSEBEHHHHH---TTTSEEEEETGGGS-HHH-----------HHHHHHHHHHSEEECCTSSSEEE--
T ss_pred             hhhccccccccccccccCCceee---ccceEEeecchhhhHHHH-----------HHHHHHHHhhchhcccccccccccc
Confidence              11100       001123333   355999999999984322           224444443211       112347


Q ss_pred             EEEEEecCCC-------CCCcHHHHhcc
Q 016044          228 VMVLAATNRP-------SELDEAILRRL  248 (396)
Q Consensus       228 v~vI~atn~~-------~~l~~~l~~R~  248 (396)
                      +.+|++|+.+       ..+.++|..|+
T Consensus       135 ~RiI~st~~~l~~~v~~g~fr~dLy~rL  162 (168)
T PF00158_consen  135 VRIIASTSKDLEELVEQGRFREDLYYRL  162 (168)
T ss_dssp             EEEEEEESS-HHHHHHTTSS-HHHHHHH
T ss_pred             ceEEeecCcCHHHHHHcCCChHHHHHHh
Confidence            8999999863       35566666666

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>PRK04132 replication factor C small subunit; Provisional

Probab=99.25  E-value=7.1e-11  Score=123.68  Aligned_cols=144  Identities=20%  Similarity=0.230  Sum_probs=106.9

Q ss_pred             eEEEEC--CCCCcHHHHHHHHHHHc-----CCcEEEEecccccchhhchHHHHHHHHHHHHHHh------CCcEEEEccc
Q 016044          125 GVLLYG--PPGTGKTMLAKAIAKES-----GAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKL------QPAIIFIDEV  191 (396)
Q Consensus       125 ~vLL~G--ppGtGKT~la~ala~~~-----~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~------~p~vl~iDEi  191 (396)
                      .-+..|  |++.||||+|+++|+++     +.+++.+|+++..+.      ..++.+...+...      ...|++|||+
T Consensus       566 ~~~~~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgi------d~IR~iIk~~a~~~~~~~~~~KVvIIDEa  639 (846)
T PRK04132        566 HNFIGGNLPTVLHNTTAALALARELFGENWRHNFLELNASDERGI------NVIREKVKEFARTKPIGGASFKIIFLDEA  639 (846)
T ss_pred             hhhhcCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccH------HHHHHHHHHHHhcCCcCCCCCEEEEEECc
Confidence            346678  99999999999999997     568999999875322      2344443333222      1259999999


Q ss_pred             cccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhc
Q 016044          192 DSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILK  271 (396)
Q Consensus       192 d~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~  271 (396)
                      |.|...           ..+.|+..++.    .+.++.+|++||.++.+.+++++|| ..+.|++|+.++....++..+.
T Consensus       640 D~Lt~~-----------AQnALLk~lEe----p~~~~~FILi~N~~~kIi~tIrSRC-~~i~F~~ls~~~i~~~L~~I~~  703 (846)
T PRK04132        640 DALTQD-----------AQQALRRTMEM----FSSNVRFILSCNYSSKIIEPIQSRC-AIFRFRPLRDEDIAKRLRYIAE  703 (846)
T ss_pred             ccCCHH-----------HHHHHHHHhhC----CCCCeEEEEEeCChhhCchHHhhhc-eEEeCCCCCHHHHHHHHHHHHH
Confidence            998421           12245555543    3567899999999999999999999 9999999999999999999887


Q ss_pred             CCCCC-CCCCHHHHHHhCCC
Q 016044          272 GEKVE-ENIDFDYLAGLCEG  290 (396)
Q Consensus       272 ~~~~~-~~~~l~~la~~~~g  290 (396)
                      ...+. ++..+..++..+.|
T Consensus       704 ~Egi~i~~e~L~~Ia~~s~G  723 (846)
T PRK04132        704 NEGLELTEEGLQAILYIAEG  723 (846)
T ss_pred             hcCCCCCHHHHHHHHHHcCC
Confidence            65543 33357788888887

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=99.25  E-value=5.5e-11  Score=122.12  Aligned_cols=54  Identities=30%  Similarity=0.370  Sum_probs=44.5

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV  150 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~  150 (396)
                      +.|..-|++++|++++++.++..+..                +++++|+||||||||++++++++.++..
T Consensus        11 ~~~~~~~~~viG~~~a~~~l~~a~~~----------------~~~~ll~G~pG~GKT~la~~la~~l~~~   64 (608)
T TIGR00764        11 PVPERLIDQVIGQEEAVEIIKKAAKQ----------------KRNVLLIGEPGVGKSMLAKAMAELLPDE   64 (608)
T ss_pred             CcchhhHhhccCHHHHHHHHHHHHHc----------------CCCEEEECCCCCCHHHHHHHHHHHcCch
Confidence            34556789999999999988776642                2579999999999999999999987644

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=99.25  E-value=4.8e-11  Score=103.13  Aligned_cols=115  Identities=22%  Similarity=0.329  Sum_probs=77.0

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCC----cEEEEecccccchhhchHHHHHHHHHH----HHHHhCCcEEEEccccc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGA----VFINVRISNLMSKWFGDAQKLVAAVFS----LAYKLQPAIIFIDEVDS  193 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~----~~~~i~~~~l~~~~~g~~~~~~~~~f~----~a~~~~p~vl~iDEid~  193 (396)
                      |-..++|.||+|||||.+|+++|..+..    +++.++++.+....  +.+..+.....    .......+||||||||.
T Consensus         2 p~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~~~--~~~~~~~~l~~~~~~~v~~~~~gVVllDEidK   79 (171)
T PF07724_consen    2 PKSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSEGD--DVESSVSKLLGSPPGYVGAEEGGVVLLDEIDK   79 (171)
T ss_dssp             -SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCSHH--HCSCHCHHHHHHTTCHHHHHHHTEEEEETGGG
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccccc--hHHhhhhhhhhcccceeeccchhhhhhHHHhh
Confidence            3467899999999999999999999996    99999999887610  00111111111    11111226999999999


Q ss_pred             cccCCCCCchHHHHhhHHHHHHHhhccCcC-------CCCcEEEEEecCCCC
Q 016044          194 FLGQRRTSDHEALTNMKTEFMALWDGFTTD-------QNARVMVLAATNRPS  238 (396)
Q Consensus       194 l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~-------~~~~v~vI~atn~~~  238 (396)
                      ..++...........+.+.|+..+++-...       +-.++++|+|+|--.
T Consensus        80 a~~~~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~~~  131 (171)
T PF07724_consen   80 AHPSNSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNFGA  131 (171)
T ss_dssp             CSHTTTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESSST
T ss_pred             ccccccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEeccccc
Confidence            987654455555556777888888654321       124789999999543

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>COG1220 HslU ATP-dependent protease HslVU (ClpYQ), ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.25  E-value=7.2e-11  Score=108.60  Aligned_cols=86  Identities=22%  Similarity=0.433  Sum_probs=61.9

Q ss_pred             CCcEEEEccccccccCCCCCchHHHH-hhHHHHHHHhhccCc------CCCCcEEEEEec----CCCCCCcHHHHhccCC
Q 016044          182 QPAIIFIDEVDSFLGQRRTSDHEALT-NMKTEFMALWDGFTT------DQNARVMVLAAT----NRPSELDEAILRRLPQ  250 (396)
Q Consensus       182 ~p~vl~iDEid~l~~~~~~~~~~~~~-~~~~~ll~~l~~~~~------~~~~~v~vI~at----n~~~~l~~~l~~R~~~  250 (396)
                      +.+|+||||||.++.+...+..+..+ .+...++-+++|...      -....+++|++.    ..|++|-|.|.-||+.
T Consensus       250 ~~GIvFIDEIDKIa~~~~~g~~dvSREGVQRDlLPlvEGstV~TKyG~VkTdHILFIasGAFh~sKPSDLiPELQGRfPI  329 (444)
T COG1220         250 QNGIVFIDEIDKIAKRGGSGGPDVSREGVQRDLLPLVEGSTVSTKYGPVKTDHILFIASGAFHVAKPSDLIPELQGRFPI  329 (444)
T ss_pred             hcCeEEEehhhHHHhcCCCCCCCcchhhhcccccccccCceeeccccccccceEEEEecCceecCChhhcChhhcCCCce
Confidence            34899999999998776533322222 234466666665432      224568888876    3688999999999999


Q ss_pred             ceEeCCCCHHHHHHHHH
Q 016044          251 AFEIGMPDRKERAQILK  267 (396)
Q Consensus       251 ~i~~~~P~~~er~~il~  267 (396)
                      ++++...+.+.-..||.
T Consensus       330 RVEL~~Lt~~Df~rILt  346 (444)
T COG1220         330 RVELDALTKEDFERILT  346 (444)
T ss_pred             EEEcccCCHHHHHHHHc
Confidence            99999999999888774

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=99.22  E-value=8.5e-10  Score=104.50  Aligned_cols=146  Identities=14%  Similarity=0.149  Sum_probs=96.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc------------------------EEEEecccccchhhchHHHHHHHHHHH-
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAV------------------------FINVRISNLMSKWFGDAQKLVAAVFSL-  177 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~------------------------~~~i~~~~l~~~~~g~~~~~~~~~f~~-  177 (396)
                      ++++||+||+|+||+++|+++|+.+.+.                        ++.+...  .++..  .-..++.+... 
T Consensus        24 ~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~--~~~~I--~id~iR~l~~~~   99 (325)
T PRK06871         24 HHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHILEPI--DNKDI--GVDQVREINEKV   99 (325)
T ss_pred             ceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEccc--cCCCC--CHHHHHHHHHHH
Confidence            6889999999999999999999965331                        1112111  01111  11223333332 


Q ss_pred             ---HHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEe
Q 016044          178 ---AYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEI  254 (396)
Q Consensus       178 ---a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~  254 (396)
                         .......|++||++|.|..           ...+.+++.++    +++.++++|.+|+.++.+.+.+++|+ ..+.|
T Consensus       100 ~~~~~~g~~KV~iI~~a~~m~~-----------~AaNaLLKtLE----EPp~~~~fiL~t~~~~~llpTI~SRC-~~~~~  163 (325)
T PRK06871        100 SQHAQQGGNKVVYIQGAERLTE-----------AAANALLKTLE----EPRPNTYFLLQADLSAALLPTIYSRC-QTWLI  163 (325)
T ss_pred             hhccccCCceEEEEechhhhCH-----------HHHHHHHHHhc----CCCCCeEEEEEECChHhCchHHHhhc-eEEeC
Confidence               2233447999999999832           23346666665    46788999999999999999999999 89999


Q ss_pred             CCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCc
Q 016044          255 GMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFT  292 (396)
Q Consensus       255 ~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s  292 (396)
                      ++|+.++..+.|......    .......++..+.|-.
T Consensus       164 ~~~~~~~~~~~L~~~~~~----~~~~~~~~~~l~~g~p  197 (325)
T PRK06871        164 HPPEEQQALDWLQAQSSA----EISEILTALRINYGRP  197 (325)
T ss_pred             CCCCHHHHHHHHHHHhcc----ChHHHHHHHHHcCCCH
Confidence            999999998888765421    1112334455566533

>TIGR02915 PEP_resp_reg putative PEP-CTERM system response regulator

Probab=99.21  E-value=2.4e-11  Score=121.65  Aligned_cols=210  Identities=19%  Similarity=0.261  Sum_probs=130.0

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK  162 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~  162 (396)
                      .+.+++|.+...+.+.+.+..       .     .....+++++|++||||+++|+++....   +.+|+.++|..+...
T Consensus       137 ~~~~lig~s~~~~~l~~~i~~-------~-----a~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~v~v~c~~~~~~  204 (445)
T TIGR02915       137 ALRGLITSSPGMQKICRTIEK-------I-----APSDITVLLLGESGTGKEVLARALHQLSDRKDKRFVAINCAAIPEN  204 (445)
T ss_pred             cccceeecCHHHHHHHHHHHH-------H-----hCCCCCEEEECCCCcCHHHHHHHHHHhCCcCCCCeEEEECCCCChH
Confidence            455678877777776665431       1     1224679999999999999999998865   468999999887432


Q ss_pred             hhchHHHHHHHHHH---------------HHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc-------
Q 016044          163 WFGDAQKLVAAVFS---------------LAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF-------  220 (396)
Q Consensus       163 ~~g~~~~~~~~~f~---------------~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~-------  220 (396)
                      ...      ..+|.               ......+++|||||++.|....+           ..++..+...       
T Consensus       205 ~~~------~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l~~i~~l~~~~q-----------~~l~~~l~~~~~~~~~~  267 (445)
T TIGR02915       205 LLE------SELFGYEKGAFTGAVKQTLGKIEYAHGGTLFLDEIGDLPLNLQ-----------AKLLRFLQERVIERLGG  267 (445)
T ss_pred             HHH------HHhcCCCCCCcCCCccCCCCceeECCCCEEEEechhhCCHHHH-----------HHHHHHHhhCeEEeCCC
Confidence            211      11111               01123468999999999843221           1333333211       


Q ss_pred             CcCCCCcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHH----hCC
Q 016044          221 TTDQNARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAG----LCE  289 (396)
Q Consensus       221 ~~~~~~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~----~~~  289 (396)
                      ....+.++.+|++|+..       ..+.+.|..|+ ..+.+..|+..+|.+-+..++..+       +..++.    ...
T Consensus       268 ~~~~~~~~rii~~~~~~l~~~~~~~~~~~~L~~~l-~~~~i~lPpLr~R~~Di~~l~~~~-------l~~~~~~~~~~~~  339 (445)
T TIGR02915       268 REEIPVDVRIVCATNQDLKRMIAEGTFREDLFYRI-AEISITIPPLRSRDGDAVLLANAF-------LERFARELKRKTK  339 (445)
T ss_pred             CceeeeceEEEEecCCCHHHHHHcCCccHHHHHHh-ccceecCCCchhchhhHHHHHHHH-------HHHHHHHhCCCCC
Confidence            11123468899998864       45667788888 778899999999987444333211       112221    123


Q ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHH
Q 016044          290 GFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDL  332 (396)
Q Consensus       290 g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~  332 (396)
                      ++++..+..|..+.|..+++++.+.............|+.+|+
T Consensus       340 ~~~~~a~~~L~~~~wpgNvreL~~~i~~a~~~~~~~~i~~~~l  382 (445)
T TIGR02915       340 GFTDDALRALEAHAWPGNVRELENKVKRAVIMAEGNQITAEDL  382 (445)
T ss_pred             CCCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCCCCcccHHHc
Confidence            5777777777777777777777665554333333455666665

Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC. These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158).

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]

Probab=99.21  E-value=1e-10  Score=106.82  Aligned_cols=130  Identities=22%  Similarity=0.368  Sum_probs=86.7

Q ss_pred             ccChHHHHHHHHHHHHccccChhhhhc---CCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc-hhhc
Q 016044           90 IGGLETIKQALYELVILPLRRPELFSH---GKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS-KWFG  165 (396)
Q Consensus        90 i~G~~~~k~~l~~~v~~~l~~~~~~~~---~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~-~~~g  165 (396)
                      ++|++.+|+.|.-.+...  +..+...   ....-...++||.||+|||||.||+.+|+.++.||-..++..+.. .|+|
T Consensus        63 VIGQe~AKKvLsVAVYNH--YKRl~~~~~~~dvEL~KSNILLiGPTGsGKTlLAqTLAk~LnVPFaiADATtLTEAGYVG  140 (408)
T COG1219          63 VIGQEQAKKVLSVAVYNH--YKRLNNKEDNDDVELSKSNILLIGPTGSGKTLLAQTLAKILNVPFAIADATTLTEAGYVG  140 (408)
T ss_pred             eecchhhhceeeeeehhH--HHHHhccCCCCceeeeeccEEEECCCCCcHHHHHHHHHHHhCCCeeeccccchhhccccc
Confidence            789999998875544422  1122111   111123468999999999999999999999999999999988865 4666


Q ss_pred             h-HHHHHHHHHHHH----HHhCCcEEEEccccccccCCCCCc---hHHHHhhHHHHHHHhhccC
Q 016044          166 D-AQKLVAAVFSLA----YKLQPAIIFIDEVDSFLGQRRTSD---HEALTNMKTEFMALWDGFT  221 (396)
Q Consensus       166 ~-~~~~~~~~f~~a----~~~~p~vl~iDEid~l~~~~~~~~---~~~~~~~~~~ll~~l~~~~  221 (396)
                      + .+..+..++..+    .+...+|+||||||.+.++..+..   .-+.+.+...+++.++|..
T Consensus       141 EDVENillkLlqaadydV~rAerGIIyIDEIDKIarkSeN~SITRDVSGEGVQQALLKiiEGTv  204 (408)
T COG1219         141 EDVENILLKLLQAADYDVERAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKIIEGTV  204 (408)
T ss_pred             hhHHHHHHHHHHHcccCHHHHhCCeEEEechhhhhccCCCCCcccccCchHHHHHHHHHHcCce
Confidence            5 345555554433    233559999999999987653211   1122334557778777653

>PRK10923 glnG nitrogen regulation protein NR(I); Provisional

Probab=99.19  E-value=4.9e-11  Score=120.17  Aligned_cols=214  Identities=19%  Similarity=0.240  Sum_probs=136.9

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK  162 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~  162 (396)
                      .+.+++|.....+.+.+.+..       .     .....++++.|++|||||++|++++...   +.+|+.++|..+...
T Consensus       136 ~~~~lig~s~~~~~l~~~~~~-------~-----~~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~i~i~c~~~~~~  203 (469)
T PRK10923        136 PTTDIIGEAPAMQDVFRIIGR-------L-----SRSSISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKD  203 (469)
T ss_pred             ccccceecCHHHHHHHHHHHH-------H-----hccCCeEEEEeCCCCcHHHHHHHHHhcCCCCCCCeEeeeCCCCCHH
Confidence            456788887777776655431       1     2234679999999999999999999875   479999999887332


Q ss_pred             hhchHHHHHHHHHHH---------------HHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC------
Q 016044          163 WFGDAQKLVAAVFSL---------------AYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT------  221 (396)
Q Consensus       163 ~~g~~~~~~~~~f~~---------------a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~------  221 (396)
                      ..      -..+|..               .....+++|||||++.+....+           ..++..++...      
T Consensus       204 ~~------~~~lfg~~~g~~~~~~~~~~g~~~~a~~Gtl~l~~i~~l~~~~q-----------~~L~~~l~~~~~~~~~~  266 (469)
T PRK10923        204 LI------ESELFGHEKGAFTGANTIRQGRFEQADGGTLFLDEIGDMPLDVQ-----------TRLLRVLADGQFYRVGG  266 (469)
T ss_pred             HH------HHHhcCCCCCCCCCCCcCCCCCeeECCCCEEEEeccccCCHHHH-----------HHHHHHHhcCcEEeCCC
Confidence            11      1112211               1122458999999999843221           13333333211      


Q ss_pred             -cCCCCcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHH----hCC
Q 016044          222 -TDQNARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAG----LCE  289 (396)
Q Consensus       222 -~~~~~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~----~~~  289 (396)
                       .....++.+|++|+..       ..+.+.|..|+ ..+.+..|+..+|.+-+..++..+       +..++.    ...
T Consensus       267 ~~~~~~~~rii~~~~~~l~~~~~~~~~~~~L~~~l-~~~~i~~PpLreR~~Di~~l~~~~-------l~~~~~~~~~~~~  338 (469)
T PRK10923        267 YAPVKVDVRIIAATHQNLEQRVQEGKFREDLFHRL-NVIRVHLPPLRERREDIPRLARHF-------LQVAARELGVEAK  338 (469)
T ss_pred             CCeEEeeEEEEEeCCCCHHHHHHcCCchHHHHHHh-cceeecCCCcccchhhHHHHHHHH-------HHHHHHHcCCCCC
Confidence             0112457899998753       35668888888 678888888888877444433211       111222    223


Q ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHH
Q 016044          290 GFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVL  336 (396)
Q Consensus       290 g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al  336 (396)
                      ++++..+..|+++.|..+++++.+.............|+.+|+...+
T Consensus       339 ~~~~~a~~~L~~~~wpgNv~eL~~~i~~~~~~~~~~~i~~~~l~~~~  385 (469)
T PRK10923        339 LLHPETEAALTRLAWPGNVRQLENTCRWLTVMAAGQEVLIQDLPGEL  385 (469)
T ss_pred             CcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCCCCcccHHHCcHhh
Confidence            68888888888888888888887766654444445678888875544

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

Probab=99.19  E-value=7.2e-10  Score=107.40  Aligned_cols=245  Identities=21%  Similarity=0.275  Sum_probs=139.2

Q ss_pred             cccCCCCCchHHHHHHHHHHHHHHHHHHHHHhhcccCCChHHHHHHHHhHHHHhHHhC--CC--CCCCCccchhhhcccc
Q 016044            3 KRMGNSSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEHKKEISKRLG--RP--LIQTNPYEDVIACDVI   78 (396)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~--~~~~~~~~~~~~~~~~   78 (396)
                      ++....+.|+-+.+|+..|.+.++.-.+...+-..++|....+-+-.  .......+.  .|  .+...+++..+...++
T Consensus       433 A~lTKNfSGAEleglVksA~S~A~nR~vk~~~~~~~~~~~~e~lkV~--r~DFl~aL~dVkPAFG~see~l~~~~~~Gmi  510 (744)
T KOG0741|consen  433 AALTKNFSGAELEGLVKSAQSFAMNRHVKAGGKVEVDPVAIENLKVT--RGDFLNALEDVKPAFGISEEDLERFVMNGMI  510 (744)
T ss_pred             HHHhcCCchhHHHHHHHHHHHHHHHhhhccCcceecCchhhhheeec--HHHHHHHHHhcCcccCCCHHHHHHHHhCCce
Confidence            45678899999999999998887776665554455555433221110  001111111  01  1112223333333333


Q ss_pred             CCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEE-ecc
Q 016044           79 NPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINV-RIS  157 (396)
Q Consensus        79 ~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i-~~~  157 (396)
                      +-..+   +..|  +++-+.-+.     ..+.++       ..+-..+||+||||+|||.||..+|...+.||+.+ ++.
T Consensus       511 ~~g~~---v~~i--l~~G~llv~-----qvk~s~-------~s~lvSvLl~Gp~~sGKTaLAA~iA~~S~FPFvKiiSpe  573 (744)
T KOG0741|consen  511 NWGPP---VTRI--LDDGKLLVQ-----QVKNSE-------RSPLVSVLLEGPPGSGKTALAAKIALSSDFPFVKIISPE  573 (744)
T ss_pred             eeccc---HHHH--HhhHHHHHH-----Hhhccc-------cCcceEEEEecCCCCChHHHHHHHHhhcCCCeEEEeChH
Confidence            21111   1111  111111111     122222       22346799999999999999999999999999985 444


Q ss_pred             cccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       158 ~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      ++.+-.-...-..+..+|..|++..-+||++|+++.|..--.-+. .....++..++-++..... ...+.+|++||.+.
T Consensus       574 ~miG~sEsaKc~~i~k~F~DAYkS~lsiivvDdiErLiD~vpIGP-RfSN~vlQaL~VllK~~pp-kg~kLli~~TTS~~  651 (744)
T KOG0741|consen  574 DMIGLSESAKCAHIKKIFEDAYKSPLSIIVVDDIERLLDYVPIGP-RFSNLVLQALLVLLKKQPP-KGRKLLIFGTTSRR  651 (744)
T ss_pred             HccCccHHHHHHHHHHHHHHhhcCcceEEEEcchhhhhcccccCc-hhhHHHHHHHHHHhccCCC-CCceEEEEecccHH
Confidence            444433333445788899999998889999999999864332211 1222334445555554332 23467888888865


Q ss_pred             CCCc-HHHHhccCCceEeCCCCH-HHHHHHHHH
Q 016044          238 SELD-EAILRRLPQAFEIGMPDR-KERAQILKV  268 (396)
Q Consensus       238 ~~l~-~~l~~R~~~~i~~~~P~~-~er~~il~~  268 (396)
                      +-+. -.+...|+..+.+|..+. ++..+++..
T Consensus       652 ~vL~~m~i~~~F~~~i~Vpnl~~~~~~~~vl~~  684 (744)
T KOG0741|consen  652 EVLQEMGILDCFSSTIHVPNLTTGEQLLEVLEE  684 (744)
T ss_pred             HHHHHcCHHHhhhheeecCccCchHHHHHHHHH
Confidence            5442 355667888888876654 455555443

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=99.18  E-value=2.7e-12  Score=103.26  Aligned_cols=115  Identities=31%  Similarity=0.429  Sum_probs=57.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEecc-cccc-hhhch----HHHHHHHHHHHHHHhC---CcEEEEccccccc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS-NLMS-KWFGD----AQKLVAAVFSLAYKLQ---PAIIFIDEVDSFL  195 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~-~l~~-~~~g~----~~~~~~~~f~~a~~~~---p~vl~iDEid~l~  195 (396)
                      ++||+|+||+|||++|+++|+.++..|..+.+. ++.- ...|.    .+.   ..|..  ...   ..|+++|||++..
T Consensus         1 HvLleg~PG~GKT~la~~lA~~~~~~f~RIq~tpdllPsDi~G~~v~~~~~---~~f~~--~~GPif~~ill~DEiNrap   75 (131)
T PF07726_consen    1 HVLLEGVPGVGKTTLAKALARSLGLSFKRIQFTPDLLPSDILGFPVYDQET---GEFEF--RPGPIFTNILLADEINRAP   75 (131)
T ss_dssp             -EEEES---HHHHHHHHHHHHHTT--EEEEE--TT--HHHHHEEEEEETTT---TEEEE--EE-TT-SSEEEEETGGGS-
T ss_pred             CEeeECCCccHHHHHHHHHHHHcCCceeEEEecCCCCcccceeeeeeccCC---CeeEe--ecChhhhceeeecccccCC
Confidence            589999999999999999999999999988774 3321 11110    000   00000  001   1699999999875


Q ss_pred             cCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC-----CCcHHHHhcc
Q 016044          196 GQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS-----ELDEAILRRL  248 (396)
Q Consensus       196 ~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~-----~l~~~l~~R~  248 (396)
                      ++.++    ++.+.+.+-.-.+++....-+.+++||+|.|+.+     .+++++++||
T Consensus        76 pktQs----AlLeam~Er~Vt~~g~~~~lp~pf~ViATqNp~e~~Gty~Lpea~~DRF  129 (131)
T PF07726_consen   76 PKTQS----ALLEAMEERQVTIDGQTYPLPDPFFVIATQNPVEQEGTYPLPEAQLDRF  129 (131)
T ss_dssp             HHHHH----HHHHHHHHSEEEETTEEEE--SS-EEEEEE-TT--S------HHHHTTS
T ss_pred             HHHHH----HHHHHHHcCeEEeCCEEEECCCcEEEEEecCccccCceecCCHHHhccc
Confidence            44322    1111111111112233334467799999999866     6889999998

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>KOG1942 consensus DNA helicase, TBP-interacting protein [Replication, recombination and repair]

Probab=99.17  E-value=1.1e-09  Score=99.09  Aligned_cols=94  Identities=27%  Similarity=0.327  Sum_probs=61.3

Q ss_pred             CCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC-------------CCCCcHHHHhcc
Q 016044          182 QPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR-------------PSELDEAILRRL  248 (396)
Q Consensus       182 ~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~-------------~~~l~~~l~~R~  248 (396)
                      -|+||||||++.|.       -    .....+...++.     +-.-++|+++|+             |.-+++.+++|+
T Consensus       296 vPGVLFIDEVhMLD-------i----EcFTyL~kalES-----~iaPivifAsNrG~~~irGt~d~~sPhGip~dllDRl  359 (456)
T KOG1942|consen  296 VPGVLFIDEVHMLD-------I----ECFTYLHKALES-----PIAPIVIFASNRGMCTIRGTEDILSPHGIPPDLLDRL  359 (456)
T ss_pred             cCcceEeeehhhhh-------h----HHHHHHHHHhcC-----CCCceEEEecCCcceeecCCcCCCCCCCCCHHHhhhe
Confidence            57899999998771       1    111123333332     222366777774             667899999999


Q ss_pred             CCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCc
Q 016044          249 PQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFT  292 (396)
Q Consensus       249 ~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s  292 (396)
                       .++..-+.+.++.++|++...+...+. .+-.+..++.....-|
T Consensus       360 -~Iirt~~y~~~e~r~Ii~~Ra~~E~l~~~e~a~~~l~~~gt~ts  403 (456)
T KOG1942|consen  360 -LIIRTLPYDEEEIRQIIKIRAQVEGLQVEEEALDLLAEIGTSTS  403 (456)
T ss_pred             -eEEeeccCCHHHHHHHHHHHHhhhcceecHHHHHHHHhhccchh
Confidence             788888889999999999998876665 2223455555444333

>PRK13531 regulatory ATPase RavA; Provisional

Probab=99.16  E-value=8.2e-11  Score=115.42  Aligned_cols=153  Identities=14%  Similarity=0.175  Sum_probs=88.1

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCC--cEEEEeccc-ccchhhc
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA--VFINVRISN-LMSKWFG  165 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~--~~~~i~~~~-l~~~~~g  165 (396)
                      .|+|.+++++.+...+.                ...++||+||||||||++|++++...+.  +|....+.- .....+|
T Consensus        21 ~i~gre~vI~lll~aal----------------ag~hVLL~GpPGTGKT~LAraLa~~~~~~~~F~~~~~~fttp~DLfG   84 (498)
T PRK13531         21 GLYERSHAIRLCLLAAL----------------SGESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFG   84 (498)
T ss_pred             hccCcHHHHHHHHHHHc----------------cCCCEEEECCCChhHHHHHHHHHHHhcccCcceeeeeeecCcHHhcC
Confidence            47899998888755442                2467999999999999999999997643  444443321 1122222


Q ss_pred             hH-HHHH--HHHHHHHHHh---CCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc-------CcCCCCcEEEEE
Q 016044          166 DA-QKLV--AAVFSLAYKL---QPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF-------TTDQNARVMVLA  232 (396)
Q Consensus       166 ~~-~~~~--~~~f~~a~~~---~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~-------~~~~~~~v~vI~  232 (396)
                      .. -...  ..-|......   ...++|+|||+.+.++           ..+.++..+..-       ....+.+++ ++
T Consensus        85 ~l~i~~~~~~g~f~r~~~G~L~~A~lLfLDEI~rasp~-----------~QsaLLeam~Er~~t~g~~~~~lp~rfi-v~  152 (498)
T PRK13531         85 PLSIQALKDEGRYQRLTSGYLPEAEIVFLDEIWKAGPA-----------ILNTLLTAINERRFRNGAHEEKIPMRLL-VT  152 (498)
T ss_pred             cHHHhhhhhcCchhhhcCCccccccEEeecccccCCHH-----------HHHHHHHHHHhCeEecCCeEEeCCCcEE-EE
Confidence            21 0000  1112111110   1249999999876332           223444444211       111123344 44


Q ss_pred             ecCCCC---CCcHHHHhccCCceEeCCCC-HHHHHHHHHHH
Q 016044          233 ATNRPS---ELDEAILRRLPQAFEIGMPD-RKERAQILKVI  269 (396)
Q Consensus       233 atn~~~---~l~~~l~~R~~~~i~~~~P~-~~er~~il~~~  269 (396)
                      |||...   ...++++.||...+.+|+|+ .++..+++...
T Consensus       153 ATN~LPE~g~~leAL~DRFliri~vp~l~~~~~e~~lL~~~  193 (498)
T PRK13531        153 ASNELPEADSSLEALYDRMLIRLWLDKVQDKANFRSMLTSQ  193 (498)
T ss_pred             ECCCCcccCCchHHhHhhEEEEEECCCCCchHHHHHHHHcc
Confidence            456422   23469999998889999997 46667777654

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=99.15  E-value=5.5e-10  Score=95.86  Aligned_cols=134  Identities=22%  Similarity=0.321  Sum_probs=84.1

Q ss_pred             ChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCC----------------------
Q 016044           92 GLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA----------------------  149 (396)
Q Consensus        92 G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~----------------------  149 (396)
                      |++.+++.|...+.          .+   +-++.+||+||+|+||+++|+++|+.+-+                      
T Consensus         1 gq~~~~~~L~~~~~----------~~---~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~   67 (162)
T PF13177_consen    1 GQEEIIELLKNLIK----------SG---RLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNH   67 (162)
T ss_dssp             S-HHHHHHHHHHHH----------CT---C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-C
T ss_pred             CcHHHHHHHHHHHH----------cC---CcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccC
Confidence            78888888876654          22   23678999999999999999999996522                      


Q ss_pred             -cEEEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCC
Q 016044          150 -VFINVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQ  224 (396)
Q Consensus       150 -~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~  224 (396)
                       .++.++...-... .  .-..++.+.....    .....|++|||+|.|.           ....+.|++.++    ++
T Consensus        68 ~d~~~~~~~~~~~~-i--~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l~-----------~~a~NaLLK~LE----ep  129 (162)
T PF13177_consen   68 PDFIIIKPDKKKKS-I--KIDQIREIIEFLSLSPSEGKYKVIIIDEADKLT-----------EEAQNALLKTLE----EP  129 (162)
T ss_dssp             TTEEEEETTTSSSS-B--SHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS------------HHHHHHHHHHHH----ST
T ss_pred             cceEEEecccccch-h--hHHHHHHHHHHHHHHHhcCCceEEEeehHhhhh-----------HHHHHHHHHHhc----CC
Confidence             2333332221000 0  1123333333222    2245799999999983           223446666666    35


Q ss_pred             CCcEEEEEecCCCCCCcHHHHhccCCceEeCCC
Q 016044          225 NARVMVLAATNRPSELDEAILRRLPQAFEIGMP  257 (396)
Q Consensus       225 ~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P  257 (396)
                      +.++.+|.+|+.++.+.+.+++|+ ..+.|++.
T Consensus       130 p~~~~fiL~t~~~~~il~TI~SRc-~~i~~~~l  161 (162)
T PF13177_consen  130 PENTYFILITNNPSKILPTIRSRC-QVIRFRPL  161 (162)
T ss_dssp             TTTEEEEEEES-GGGS-HHHHTTS-EEEEE---
T ss_pred             CCCEEEEEEECChHHChHHHHhhc-eEEecCCC
Confidence            678999999999999999999999 77777654

...

>PRK09862 putative ATP-dependent protease; Provisional

Probab=99.14  E-value=3e-10  Score=113.28  Aligned_cols=146  Identities=27%  Similarity=0.331  Sum_probs=88.9

Q ss_pred             cccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC----------------
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG----------------  148 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~----------------  148 (396)
                      .+|.++.|++.+++.+.-           .     ....++++|+||||||||++++.++..+.                
T Consensus       188 ~d~~~v~Gq~~~~~al~l-----------a-----a~~G~~llliG~~GsGKTtLak~L~gllpp~~g~e~le~~~i~s~  251 (506)
T PRK09862        188 HDLSDVIGQEQGKRGLEI-----------T-----AAGGHNLLLIGPPGTGKTMLASRINGLLPDLSNEEALESAAILSL  251 (506)
T ss_pred             cCeEEEECcHHHHhhhhe-----------e-----ccCCcEEEEECCCCCcHHHHHHHHhccCCCCCCcEEEecchhhhh
Confidence            488899999888877631           1     12247899999999999999999987432                


Q ss_pred             ------------CcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHH
Q 016044          149 ------------AVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMAL  216 (396)
Q Consensus       149 ------------~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~  216 (396)
                                  .||...+.+.-....+|.....-...+..|   ..++||+||++.+...           ....+...
T Consensus       252 ~g~~~~~~~~~~rPfr~ph~~~s~~~l~GGg~~~~pG~l~~A---~gGvLfLDEi~e~~~~-----------~~~~L~~~  317 (506)
T PRK09862        252 VNAESVQKQWRQRPFRSPHHSASLTAMVGGGAIPGPGEISLA---HNGVLFLDELPEFERR-----------TLDALREP  317 (506)
T ss_pred             hccccccCCcCCCCccCCCccchHHHHhCCCceehhhHhhhc---cCCEEecCCchhCCHH-----------HHHHHHHH
Confidence                        111111111111112222111112233333   4589999999887321           12233333


Q ss_pred             hhc---------cCcCCCCcEEEEEecCCCC---------------------CCcHHHHhccCCceEeCCCCHH
Q 016044          217 WDG---------FTTDQNARVMVLAATNRPS---------------------ELDEAILRRLPQAFEIGMPDRK  260 (396)
Q Consensus       217 l~~---------~~~~~~~~v~vI~atn~~~---------------------~l~~~l~~R~~~~i~~~~P~~~  260 (396)
                      ++.         .....+.++.+|+|+|+..                     .++.++++||+..+.++.|+.+
T Consensus       318 LE~g~v~I~r~g~~~~~pa~f~lIAa~NP~pcG~~~~~~c~c~~~~~~~Y~~~ls~plLDRfdL~v~v~~~~~~  391 (506)
T PRK09862        318 IESGQIHLSRTRAKITYPARFQLVAAMNPSPTGHYQGNHNRCTPEQTLRYLNRLSGPFLDRFDLSLEIPLPPPG  391 (506)
T ss_pred             HHcCcEEEecCCcceeccCCEEEEEeecCccceecCCCCCCcCHHHHHHHHhhCCHhHHhhccEEEEeCCCCHH
Confidence            321         1112356799999999742                     4778999999999999988654

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=99.14  E-value=4.3e-10  Score=107.21  Aligned_cols=132  Identities=18%  Similarity=0.184  Sum_probs=90.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCcE-------------------------EEEeccccc----------------
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGAVF-------------------------INVRISNLM----------------  160 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~~~-------------------------~~i~~~~l~----------------  160 (396)
                      -++++||+||+|+||+++|+++|+.+.+..                         ..+......                
T Consensus        20 l~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~~~~~~~~Cg~C~~C~~~~~~~HPD~~~i~p~~~~~~~~~~~~~~~~~~~~   99 (342)
T PRK06964         20 LPHALLLHGQAGIGKLDFAQHLAQGLLCETPQPDGEPCGTCAACNWFAQGNHPDYRIVRPEALAAEAPGAADEAKEADAD   99 (342)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccccccccccccchhh
Confidence            478999999999999999999998764421                         111111000                


Q ss_pred             --ch----h-hchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEE
Q 016044          161 --SK----W-FGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVM  229 (396)
Q Consensus       161 --~~----~-~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~  229 (396)
                        ++    . ..-.-..++.+...+.    .....|++||++|.+..           ...+.|++.++    +++.+++
T Consensus       100 ~~~~k~~~~~~~I~idqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~-----------~AaNaLLKtLE----EPp~~t~  164 (342)
T PRK06964        100 EGGKKTKAPSKEIKIEQVRALLDFCGVGTHRGGARVVVLYPAEALNV-----------AAANALLKTLE----EPPPGTV  164 (342)
T ss_pred             cccccccccccccCHHHHHHHHHHhccCCccCCceEEEEechhhcCH-----------HHHHHHHHHhc----CCCcCcE
Confidence              00    0 0001122333333222    22346999999999832           23346777666    4678899


Q ss_pred             EEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHH
Q 016044          230 VLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVI  269 (396)
Q Consensus       230 vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~  269 (396)
                      +|.+|++++.+.+.++||| ..+.|++|+.++..+.|...
T Consensus       165 fiL~t~~~~~LLpTI~SRc-q~i~~~~~~~~~~~~~L~~~  203 (342)
T PRK06964        165 FLLVSARIDRLLPTILSRC-RQFPMTVPAPEAAAAWLAAQ  203 (342)
T ss_pred             EEEEECChhhCcHHHHhcC-EEEEecCCCHHHHHHHHHHc
Confidence            9999999999999999999 89999999999999888764

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=99.13  E-value=1.7e-09  Score=103.30  Aligned_cols=152  Identities=11%  Similarity=0.146  Sum_probs=98.8

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCc------------------------EEEEecccc-cchhhchHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGAV------------------------FINVRISNL-MSKWFGDAQKLVAAVFS  176 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~~------------------------~~~i~~~~l-~~~~~g~~~~~~~~~f~  176 (396)
                      -++.+||+||+|+||+++|.++|+.+-+.                        +..+....- ..-.+.+.......+..
T Consensus        23 l~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~  102 (334)
T PRK07993         23 GHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLTPEKGKSSLGVDAVREVTEKLYE  102 (334)
T ss_pred             cceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecccccccCCHHHHHHHHHHHhh
Confidence            36889999999999999999999865321                        111211100 00112222333333333


Q ss_pred             HHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCC
Q 016044          177 LAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGM  256 (396)
Q Consensus       177 ~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~  256 (396)
                      ........|++||++|.|..           ...+.|++.++    +++.++++|..|+.++.+.+.++||+ ..+.|++
T Consensus       103 ~~~~g~~kV~iI~~ae~m~~-----------~AaNaLLKtLE----EPp~~t~fiL~t~~~~~lLpTIrSRC-q~~~~~~  166 (334)
T PRK07993        103 HARLGGAKVVWLPDAALLTD-----------AAANALLKTLE----EPPENTWFFLACREPARLLATLRSRC-RLHYLAP  166 (334)
T ss_pred             ccccCCceEEEEcchHhhCH-----------HHHHHHHHHhc----CCCCCeEEEEEECChhhChHHHHhcc-ccccCCC
Confidence            33334557999999999832           23346666666    46788999999999999999999999 7889999


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcH
Q 016044          257 PDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTG  293 (396)
Q Consensus       257 P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~  293 (396)
                      |+.++..+.|....   ..+ ......++..+.|-.+
T Consensus       167 ~~~~~~~~~L~~~~---~~~-~~~a~~~~~la~G~~~  199 (334)
T PRK07993        167 PPEQYALTWLSREV---TMS-QDALLAALRLSAGAPG  199 (334)
T ss_pred             CCHHHHHHHHHHcc---CCC-HHHHHHHHHHcCCCHH
Confidence            99998888776432   121 1123355666666443

>TIGR00602 rad24 checkpoint protein rad24

Probab=99.13  E-value=1.4e-09  Score=111.25  Aligned_cols=201  Identities=15%  Similarity=0.200  Sum_probs=115.0

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEE-Ee---c
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFIN-VR---I  156 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~-i~---~  156 (396)
                      ...+.++++++|+++.++.+..++...     .+.    ..+.+.++|+||||||||++++.+|.+++..++. .+   |
T Consensus        77 KyrP~~ldel~~~~~ki~~l~~~l~~~-----~~~----~~~~~illL~GP~GsGKTTl~~~la~~l~~~~~Ew~npv~~  147 (637)
T TIGR00602        77 KYKPETQHELAVHKKKIEEVETWLKAQ-----VLE----NAPKRILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLP  147 (637)
T ss_pred             HhCCCCHHHhcCcHHHHHHHHHHHHhc-----ccc----cCCCcEEEEECCCCCCHHHHHHHHHHHhhhHHHHHhhhhhh
Confidence            445789999999999999998876531     110    1223458999999999999999999988765433 11   1


Q ss_pred             ccccchh------------hchHHHHHHHHHHHHHH----------hCCcEEEEccccccccCCCCCchHHHHhhHHHHH
Q 016044          157 SNLMSKW------------FGDAQKLVAAVFSLAYK----------LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFM  214 (396)
Q Consensus       157 ~~l~~~~------------~g~~~~~~~~~f~~a~~----------~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll  214 (396)
                      ......+            +......+..++..+..          ....||+|||++.+....    .....    .++
T Consensus       148 ~~~~~~~~~~~s~~~~~~~~~s~~~~F~~fl~~a~~~~~~~g~~~~~~~~IILIDEiPn~~~r~----~~~lq----~lL  219 (637)
T TIGR00602       148 DFQKNDHKVTLSLESCFSNFQSQIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFYRD----TRALH----EIL  219 (637)
T ss_pred             cccccccccchhhhhccccccchHHHHHHHHHHHHhhhcccccccCCceeEEEeecchhhchhh----HHHHH----HHH
Confidence            1100000            01112223333333331          234699999999875321    11122    222


Q ss_pred             H-HhhccCcCCCCcEEEEEecC-CCC--------------CCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCC
Q 016044          215 A-LWDGFTTDQNARVMVLAATN-RPS--------------ELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVE  276 (396)
Q Consensus       215 ~-~l~~~~~~~~~~v~vI~atn-~~~--------------~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~  276 (396)
                      . ...   .  ...+.+|++++ .+.              .+.+++++  |+ .+|.|++.+.....+.|+.++......
T Consensus       220 r~~~~---e--~~~~pLI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv-~~I~FnPia~t~l~K~L~rIl~~E~~~  293 (637)
T TIGR00602       220 RWKYV---S--IGRCPLVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRV-SNISFNPIAPTIMKKFLNRIVTIEAKK  293 (637)
T ss_pred             HHHhh---c--CCCceEEEEecCCccccccccccccchhcccCHhHhcccce-eEEEeCCCCHHHHHHHHHHHHHhhhhc
Confidence            2 111   1  22334444433 111              13378876  55 679999999999888888888653221


Q ss_pred             --CC--C----CHHHHHHhCCCCcHHHHHHHHHHHHHHHH
Q 016044          277 --EN--I----DFDYLAGLCEGFTGSDLLEVCKQAAYFSI  308 (396)
Q Consensus       277 --~~--~----~l~~la~~~~g~s~~di~~l~~~A~~~a~  308 (396)
                        .+  +    .+..|+..+.    +|++.++..--..+.
T Consensus       294 ~~~~~~~p~~~~l~~I~~~s~----GDiRsAIn~LQf~~~  329 (637)
T TIGR00602       294 NGEKIKVPKKTSVELLCQGCS----GDIRSAINSLQFSSS  329 (637)
T ss_pred             cccccccCCHHHHHHHHHhCC----ChHHHHHHHHHHHHh
Confidence              11  1    3445555444    577777665444433

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=99.12  E-value=4.5e-09  Score=99.34  Aligned_cols=128  Identities=16%  Similarity=0.173  Sum_probs=88.8

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCc-----------------------EEEEecccccchhhchHHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGAV-----------------------FINVRISNLMSKWFGDAQKLVAAVFSLA  178 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~~-----------------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a  178 (396)
                      -++.+||+||.|+||+++|+++|+.+-+.                       ++.+.... .++.+  .-..++.+...+
T Consensus        24 l~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i~p~~-~~~~I--~vdqiR~l~~~~  100 (319)
T PRK06090         24 IPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVIKPEK-EGKSI--TVEQIRQCNRLA  100 (319)
T ss_pred             cceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEEecCc-CCCcC--CHHHHHHHHHHH
Confidence            36889999999999999999999865321                       22222110 01111  112233333322


Q ss_pred             ----HHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEe
Q 016044          179 ----YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEI  254 (396)
Q Consensus       179 ----~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~  254 (396)
                          ...+..|++||++|.+..           ...+.+++.++    +++.++++|..|+.++.+.+.++||+ ..+.|
T Consensus       101 ~~~~~~~~~kV~iI~~ae~m~~-----------~AaNaLLKtLE----EPp~~t~fiL~t~~~~~lLpTI~SRC-q~~~~  164 (319)
T PRK06090        101 QESSQLNGYRLFVIEPADAMNE-----------SASNALLKTLE----EPAPNCLFLLVTHNQKRLLPTIVSRC-QQWVV  164 (319)
T ss_pred             hhCcccCCceEEEecchhhhCH-----------HHHHHHHHHhc----CCCCCeEEEEEECChhhChHHHHhcc-eeEeC
Confidence                223347999999999832           23346666665    46778999999999999999999999 89999


Q ss_pred             CCCCHHHHHHHHHH
Q 016044          255 GMPDRKERAQILKV  268 (396)
Q Consensus       255 ~~P~~~er~~il~~  268 (396)
                      ++|+.++..+.+..
T Consensus       165 ~~~~~~~~~~~L~~  178 (319)
T PRK06090        165 TPPSTAQAMQWLKG  178 (319)
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999998888765

>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D

Probab=99.12  E-value=1.2e-09  Score=112.24  Aligned_cols=137  Identities=20%  Similarity=0.316  Sum_probs=90.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCC--cEEEEecccccchhhchHH--HHHH-H--HHH--HHHHhCCcEEEEcccccc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGA--VFINVRISNLMSKWFGDAQ--KLVA-A--VFS--LAYKLQPAIIFIDEVDSF  194 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~--~~~~i~~~~l~~~~~g~~~--~~~~-~--~f~--~a~~~~p~vl~iDEid~l  194 (396)
                      .+|||.|+||||||++|++++..++.  +|+.+.+.......+|...  ..+. .  .|.  .......++||+||++.+
T Consensus        17 g~vLl~G~~GtgKs~lar~l~~~~~~~~pfv~i~~~~t~d~L~G~idl~~~~~~g~~~~~~G~L~~A~~GvL~lDEi~rl   96 (589)
T TIGR02031        17 GGVAIRARAGTGKTALARALAEILPPIMPFVELPLGVTEDRLIGGIDVEESLAGGQRVTQPGLLDEAPRGVLYVDMANLL   96 (589)
T ss_pred             ceEEEEcCCCcHHHHHHHHHHHhCCcCCCeEecCcccchhhcccchhhhhhhhcCcccCCCCCeeeCCCCcEeccchhhC
Confidence            57999999999999999999998753  5888875433333333321  0000 0  000  011123479999999998


Q ss_pred             ccCCCCCchHHHHhhHHHHHHHhh---------ccCcCCCCcEEEEEecCCCC---CCcHHHHhccCCceEeC-CCCHHH
Q 016044          195 LGQRRTSDHEALTNMKTEFMALWD---------GFTTDQNARVMVLAATNRPS---ELDEAILRRLPQAFEIG-MPDRKE  261 (396)
Q Consensus       195 ~~~~~~~~~~~~~~~~~~ll~~l~---------~~~~~~~~~v~vI~atn~~~---~l~~~l~~R~~~~i~~~-~P~~~e  261 (396)
                      ....           ...++..|+         |.....+.++.+|+|+|..+   .+++++++||...+.+. .|+.++
T Consensus        97 ~~~~-----------q~~Ll~al~~g~v~i~r~G~~~~~p~~f~lIAt~np~e~~g~L~~~LldRf~l~v~~~~~~~~~e  165 (589)
T TIGR02031        97 DDGL-----------SNRLLQALDEGVVIVEREGISVVHPAKFALIATYDPAEGGGGLPDHLLDRLALHVSLEDVASQDL  165 (589)
T ss_pred             CHHH-----------HHHHHHHHHcCCeEEEECCCceeecCceEEEEecCCccccCCCCHHHHHhccCeeecCCCCCHHH
Confidence            4322           223444443         22222346789999999765   78999999998877665 567888


Q ss_pred             HHHHHHHHhc
Q 016044          262 RAQILKVILK  271 (396)
Q Consensus       262 r~~il~~~l~  271 (396)
                      |.+|++....
T Consensus       166 r~eil~~~~~  175 (589)
T TIGR02031       166 RVEIVRRERC  175 (589)
T ss_pred             HHHHHHHHHH
Confidence            9999988763

This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.

>PRK11361 acetoacetate metabolism regulatory protein AtoC; Provisional

Probab=99.12  E-value=2.9e-10  Score=114.19  Aligned_cols=214  Identities=17%  Similarity=0.209  Sum_probs=130.2

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK  162 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~  162 (396)
                      .+..++|.+...+.+.+.+..       +     .....+++++|++||||+++|+++....   +.+|+.++|..+...
T Consensus       141 ~~~~ii~~S~~~~~~~~~~~~-------~-----a~~~~~vli~Ge~GtGK~~lA~~ih~~s~~~~~~~~~i~c~~~~~~  208 (457)
T PRK11361        141 QWGHILTNSPAMMDICKDTAK-------I-----ALSQASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAALPES  208 (457)
T ss_pred             cccceecccHHHhHHHHHHHH-------H-----cCCCcEEEEEcCCCccHHHHHHHHHHhCCCCCCCeEEEECCCCCHH
Confidence            344577766665555443321       1     2224679999999999999999998764   579999999887432


Q ss_pred             hhchHHHHHHHHHH---------------HHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc-------
Q 016044          163 WFGDAQKLVAAVFS---------------LAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF-------  220 (396)
Q Consensus       163 ~~g~~~~~~~~~f~---------------~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~-------  220 (396)
                      ..      -..+|.               .......++|||||++.+....           ...++..++..       
T Consensus       209 ~~------~~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~ld~i~~l~~~~-----------q~~L~~~l~~~~~~~~~~  271 (457)
T PRK11361        209 LL------ESELFGHEKGAFTGAQTLRQGLFERANEGTLLLDEIGEMPLVL-----------QAKLLRILQEREFERIGG  271 (457)
T ss_pred             HH------HHHhcCCCCCCCCCCCCCCCCceEECCCCEEEEechhhCCHHH-----------HHHHHHHHhcCcEEeCCC
Confidence            21      111111               1112245899999999984332           11333333221       


Q ss_pred             CcCCCCcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHH----hCC
Q 016044          221 TTDQNARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAG----LCE  289 (396)
Q Consensus       221 ~~~~~~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~----~~~  289 (396)
                      ....+.++.+|++|+..       ..+.+.+..|+ ..+.+..|+..+|.+-+..+....       +..++.    ...
T Consensus       272 ~~~~~~~~rii~~t~~~l~~~~~~g~~~~~l~~~l-~~~~i~~ppLreR~~di~~l~~~~-------l~~~~~~~~~~~~  343 (457)
T PRK11361        272 HQTIKVDIRIIAATNRDLQAMVKEGTFREDLFYRL-NVIHLILPPLRDRREDISLLANHF-------LQKFSSENQRDII  343 (457)
T ss_pred             CceeeeceEEEEeCCCCHHHHHHcCCchHHHHHHh-ccceecCCChhhchhhHHHHHHHH-------HHHHHHHcCCCCC
Confidence            11113458899999854       34667777788 668899999999877444333211       112222    123


Q ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHH
Q 016044          290 GFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVL  336 (396)
Q Consensus       290 g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al  336 (396)
                      ++++..+..|..+.|..+++++.+.............|+.+|+...+
T Consensus       344 ~~~~~a~~~L~~~~wpgNv~eL~~~~~~~~~~~~~~~i~~~~l~~~~  390 (457)
T PRK11361        344 DIDPMAMSLLTAWSWPGNIRELSNVIERAVVMNSGPIIFSEDLPPQI  390 (457)
T ss_pred             CcCHHHHHHHHcCCCCCcHHHHHHHHHHHHHhCCCCcccHHHChHhh
Confidence            67777777777777777777776655543333334568888876544

>COG1239 ChlI Mg-chelatase subunit ChlI [Coenzyme metabolism]

Probab=99.12  E-value=5.3e-10  Score=106.62  Aligned_cols=171  Identities=25%  Similarity=0.357  Sum_probs=107.6

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEec-------
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI-------  156 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~-------  156 (396)
                      ...|.-++|++..|..|--..+              ...-.|+||-|+.|+||||++|+++.-+.-.-+...|       
T Consensus        13 ~~pf~aivGqd~lk~aL~l~av--------------~P~iggvLI~G~kGtaKSt~~Rala~LLp~~~~V~gc~f~cdP~   78 (423)
T COG1239          13 NLPFTAIVGQDPLKLALGLNAV--------------DPQIGGALIAGEKGTAKSTLARALADLLPEIEVVIGCPFNCDPD   78 (423)
T ss_pred             ccchhhhcCchHHHHHHhhhhc--------------ccccceeEEecCCCccHHHHHHHHHHhCCccceecCCCCCCCCC
Confidence            3578899999999998843222              1223689999999999999999999965321111111       


Q ss_pred             ------c-------------------cccchhhchHHH-HHHHH------------HH--HHHHhCCcEEEEcccccccc
Q 016044          157 ------S-------------------NLMSKWFGDAQK-LVAAV------------FS--LAYKLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       157 ------~-------------------~l~~~~~g~~~~-~~~~~------------f~--~a~~~~p~vl~iDEid~l~~  196 (396)
                            .                   .+...-.+.++. .+..+            |.  ...+.+.+|+|+||++.|..
T Consensus        79 ~P~~~c~~c~~k~~e~~~~~~~~r~v~~v~lPl~ateDrvvGslDi~ka~~~g~~af~PGlLa~AnRGIlYvDEvnlL~d  158 (423)
T COG1239          79 DPEEMCDECRAKGDELEWLPREKRKVPFVALPLGATEDRLVGSLDIEKALEEGPKAFQPGLLARANRGILYVDEVNLLDD  158 (423)
T ss_pred             ChhhhhHHHHhhccccccccccceecceecCCCccchhhhccccCHHHHHhcCccccCCcchhhccCCEEEEeccccccH
Confidence                  0                   011111233333 11111            10  11122348999999998832


Q ss_pred             CCCCCchHHHHhhHHH--HHHHhhccCcCCCCcEEEEEecCCC-CCCcHHHHhccCCceEeCCC-CHHHHHHHHHHHhcC
Q 016044          197 QRRTSDHEALTNMKTE--FMALWDGFTTDQNARVMVLAATNRP-SELDEAILRRLPQAFEIGMP-DRKERAQILKVILKG  272 (396)
Q Consensus       197 ~~~~~~~~~~~~~~~~--ll~~l~~~~~~~~~~v~vI~atn~~-~~l~~~l~~R~~~~i~~~~P-~~~er~~il~~~l~~  272 (396)
                      .    ....+..+..+  -.-+.+|+....+.++++|+|+|+- ..|-+.|+.||...+.+..| +.++|.+|.+..+..
T Consensus       159 ~----lvd~LLd~aaeG~n~vereGisi~hpa~fvligTmNPEeGeLrpqLlDRfg~~v~~~~~~~~~~rv~Ii~r~~~f  234 (423)
T COG1239         159 H----LVDALLDVAAEGVNDVEREGISIRHPARFLLIGTMNPEEGELRPQLLDRFGLEVDTHYPLDLEERVEIIRRRLAF  234 (423)
T ss_pred             H----HHHHHHHHHHhCCceeeeCceeeccCccEEEEeecCccccccchhhHhhhcceeeccCCCCHHHHHHHHHHHHHh
Confidence            2    22222222211  1122456666678899999999975 47899999999999988665 789999999887764

>smart00763 AAA_PrkA PrkA AAA domain

Probab=99.11  E-value=7.5e-10  Score=105.13  Aligned_cols=63  Identities=19%  Similarity=0.278  Sum_probs=47.7

Q ss_pred             ccc-cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCC-------cEEEEec
Q 016044           86 EFE-SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA-------VFINVRI  156 (396)
Q Consensus        86 ~~~-~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~-------~~~~i~~  156 (396)
                      -|+ ++.|+++++.++.+++....       .+ .-...+.++|+||||||||++|+++++.++.       +++.+..
T Consensus        48 ~F~~~~~G~~~~i~~lv~~l~~~a-------~g-~~~~r~il~L~GPPGsGKStla~~La~~l~~ys~t~eG~~Y~~~~  118 (361)
T smart00763       48 FFDHDFFGMEEAIERFVNYFKSAA-------QG-LEERKQILYLLGPVGGGKSSLVECLKRGLEEYSKTPEGRRYTFKW  118 (361)
T ss_pred             ccchhccCcHHHHHHHHHHHHHHH-------hc-CCCCCcEEEEECCCCCCHHHHHHHHHHHHhhhcccccCceEEEEe
Confidence            455 89999999999887765321       21 1223577899999999999999999998865       6776654

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=99.11  E-value=2.2e-09  Score=101.51  Aligned_cols=153  Identities=18%  Similarity=0.189  Sum_probs=97.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEE----EE---------ecccccch-----hhc------hHHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFI----NV---------RISNLMSK-----WFG------DAQKLVAAVFSLA  178 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~----~i---------~~~~l~~~-----~~g------~~~~~~~~~f~~a  178 (396)
                      ++.+||+||+|+||+++|.++|+.+.+.-.    .+         +.+++.--     ..|      -.-..++.+...+
T Consensus        26 ~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~~~k~~~~I~idqIR~l~~~~  105 (319)
T PRK08769         26 GHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRTGDKLRTEIVIEQVREISQKL  105 (319)
T ss_pred             ceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcccccccccccHHHHHHHHHHH
Confidence            678999999999999999999986532100    00         01111100     000      0122334443333


Q ss_pred             HH----hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEe
Q 016044          179 YK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEI  254 (396)
Q Consensus       179 ~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~  254 (396)
                      ..    ....|++||++|.|..           ...+.+++.++    +++.++++|.+|+.++.+.+.+++|| ..+.|
T Consensus       106 ~~~p~~g~~kV~iI~~ae~m~~-----------~AaNaLLKtLE----EPp~~~~fiL~~~~~~~lLpTIrSRC-q~i~~  169 (319)
T PRK08769        106 ALTPQYGIAQVVIVDPADAINR-----------AACNALLKTLE----EPSPGRYLWLISAQPARLPATIRSRC-QRLEF  169 (319)
T ss_pred             hhCcccCCcEEEEeccHhhhCH-----------HHHHHHHHHhh----CCCCCCeEEEEECChhhCchHHHhhh-eEeeC
Confidence            22    2336999999999822           23346666665    35677888889999999999999999 89999


Q ss_pred             CCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHH
Q 016044          255 GMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDL  296 (396)
Q Consensus       255 ~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di  296 (396)
                      ++|+.++-.+.|...    ..+ ..+...++..+.|-.+..+
T Consensus       170 ~~~~~~~~~~~L~~~----~~~-~~~a~~~~~l~~G~p~~A~  206 (319)
T PRK08769        170 KLPPAHEALAWLLAQ----GVS-ERAAQEALDAARGHPGLAA  206 (319)
T ss_pred             CCcCHHHHHHHHHHc----CCC-hHHHHHHHHHcCCCHHHHH
Confidence            999999888877642    121 1123356677777544443

>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]

Probab=99.08  E-value=4.9e-09  Score=95.19  Aligned_cols=132  Identities=20%  Similarity=0.280  Sum_probs=88.7

Q ss_pred             CCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC------------CCCCcHHHHhccC
Q 016044          182 QPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR------------PSELDEAILRRLP  249 (396)
Q Consensus       182 ~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~------------~~~l~~~l~~R~~  249 (396)
                      -|+||||||+|.|    .-.....+.+       .+++    .-.+ +++.+||+            |.-+|-.++.|+ 
T Consensus       288 vpGVLFIDEvHML----DIEcFsFlNr-------AlE~----d~~P-iiimaTNrgit~iRGTn~~SphGiP~D~lDR~-  350 (454)
T KOG2680|consen  288 VPGVLFIDEVHML----DIECFSFLNR-------ALEN----DMAP-IIIMATNRGITRIRGTNYRSPHGIPIDLLDRM-  350 (454)
T ss_pred             ccceEEEeeehhh----hhHHHHHHHH-------Hhhh----ccCc-EEEEEcCCceEEeecCCCCCCCCCcHHHhhhh-
Confidence            4789999998877    1111222221       2221    1223 45556663            678899999999 


Q ss_pred             CceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q 016044          250 QAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLS  328 (396)
Q Consensus       250 ~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~  328 (396)
                      .+|.-.+.+.++.++||+..+....+. .+..++.|......-|-+.--+|+..|.+.|.++..            ..+.
T Consensus       351 lII~t~py~~~d~~~IL~iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk~------------~~v~  418 (454)
T KOG2680|consen  351 LIISTQPYTEEDIKKILRIRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRKG------------KVVE  418 (454)
T ss_pred             heeecccCcHHHHHHHHHhhhhhhccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhcC------------ceee
Confidence            888888999999999999999876665 222355566655555556666788888888887732            5688


Q ss_pred             HHHHHHHHHhcccc
Q 016044          329 RLDLEKVLTTSRKT  342 (396)
Q Consensus       329 ~~d~~~al~~~~~~  342 (396)
                      .+|+..+.+-+-..
T Consensus       419 ~~di~r~y~LFlD~  432 (454)
T KOG2680|consen  419 VDDIERVYRLFLDE  432 (454)
T ss_pred             hhHHHHHHHHHhhh
Confidence            88999888765433

>PTZ00111 DNA replication licensing factor MCM4; Provisional

Probab=99.08  E-value=1.6e-09  Score=113.26  Aligned_cols=171  Identities=18%  Similarity=0.183  Sum_probs=96.5

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhh---cC----CCCCCCceEEEECCCCCcHHHHHHHHHHHcC-------CcEEEE
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFS---HG----KLLGPQKGVLLYGPPGTGKTMLAKAIAKESG-------AVFINV  154 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~---~~----~~~~~~~~vLL~GppGtGKT~la~ala~~~~-------~~~~~i  154 (396)
                      .|.|++.+|+.+.-.+..-......+.   .+    ..++...+|||+|+||||||++|+++++...       .++..+
T Consensus       451 ~I~G~e~vK~ailL~L~gG~~k~~~~~~~~dg~~~~~~iRgdihVLLvGDPGTGKSqLAr~Ih~lspR~~ytsG~~~s~v  530 (915)
T PTZ00111        451 SIKARNNVKIGLLCQLFSGNKNSSDFNKSPDACYKVDNFRGIINVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSSV  530 (915)
T ss_pred             eEECCHHHHHHHHHHHhcCCccccccccccccccccccccCCceEEEeCCCCccHHHHHHHHHHhCCccccCCCCCCccc
Confidence            589999999988443322111000000   00    1134456899999999999999999998542       344444


Q ss_pred             ecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhh---------ccCcCCC
Q 016044          155 RISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWD---------GFTTDQN  225 (396)
Q Consensus       155 ~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~---------~~~~~~~  225 (396)
                      ++...... .+........--........+++||||++.+....+.           .++..|+         |....-+
T Consensus       531 gLTa~~~~-~d~~tG~~~le~GaLvlAdgGtL~IDEidkms~~~Q~-----------aLlEaMEqqtIsI~KaGi~~tL~  598 (915)
T PTZ00111        531 GLTASIKF-NESDNGRAMIQPGAVVLANGGVCCIDELDKCHNESRL-----------SLYEVMEQQTVTIAKAGIVATLK  598 (915)
T ss_pred             cccchhhh-cccccCcccccCCcEEEcCCCeEEecchhhCCHHHHH-----------HHHHHHhCCEEEEecCCcceecC
Confidence            44332110 0000000000000011124589999999998433221           2333332         2223335


Q ss_pred             CcEEEEEecCCCC-------------CCcHHHHhccCCceE-eCCCCHHHHHHHHHHHhc
Q 016044          226 ARVMVLAATNRPS-------------ELDEAILRRLPQAFE-IGMPDRKERAQILKVILK  271 (396)
Q Consensus       226 ~~v~vI~atn~~~-------------~l~~~l~~R~~~~i~-~~~P~~~er~~il~~~l~  271 (396)
                      .++.||||+|+.+             .+++++++|||.++. ++.|+.+.=..|..++++
T Consensus       599 ar~rVIAAaNP~~gryd~~~s~~eni~Lp~~LLSRFDLIf~l~D~~d~~~D~~lA~hI~~  658 (915)
T PTZ00111        599 AETAILASCNPINSRYNKNKAVIENINISPSLFTRFDLIYLVLDHIDQDTDQLISLSIAK  658 (915)
T ss_pred             CCeEEEEEcCCcccccCcccCcccccCCChHHhhhhcEEEEecCCCChHHHHHHHHHHHH
Confidence            6899999999742             478999999987764 477777766666665553

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

Probab=99.08  E-value=1e-08  Score=98.57  Aligned_cols=232  Identities=18%  Similarity=0.224  Sum_probs=148.0

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC-----CcEEEEecccccch
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG-----AVFINVRISNLMSK  162 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~-----~~~~~i~~~~l~~~  162 (396)
                      ..+.|.+.-+..+++++..++.          ...+..+++.|.||+|||.+...+.....     ...++++|..+...
T Consensus       150 ~~l~gRe~e~~~v~~F~~~hle----------~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~  219 (529)
T KOG2227|consen  150 GTLKGRELEMDIVREFFSLHLE----------LNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEA  219 (529)
T ss_pred             CCccchHHHHHHHHHHHHhhhh----------cccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccch
Confidence            5688999999999888765332          23357799999999999999887765442     24578888764322


Q ss_pred             ------hhc---------hHHHHHHHHHHHHH-Hh-CCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCC
Q 016044          163 ------WFG---------DAQKLVAAVFSLAY-KL-QPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQN  225 (396)
Q Consensus       163 ------~~g---------~~~~~~~~~f~~a~-~~-~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  225 (396)
                            ..+         ..+......|.... .. .+-++++||+|.|..+.+...            ..+..+..-.+
T Consensus       220 ~aiF~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vL------------y~lFewp~lp~  287 (529)
T KOG2227|consen  220 SAIFKKIFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVL------------YTLFEWPKLPN  287 (529)
T ss_pred             HHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhccccee------------eeehhcccCCc
Confidence                  111         11112222233222 22 256999999999975544322            22233333457


Q ss_pred             CcEEEEEecCCCCCCcHHHHh---c---cCCceEeCCCCHHHHHHHHHHHhcCCCCCCC--CCHHHHHHhCCCCcHHHHH
Q 016044          226 ARVMVLAATNRPSELDEAILR---R---LPQAFEIGMPDRKERAQILKVILKGEKVEEN--IDFDYLAGLCEGFTGSDLL  297 (396)
Q Consensus       226 ~~v~vI~atn~~~~l~~~l~~---R---~~~~i~~~~P~~~er~~il~~~l~~~~~~~~--~~l~~la~~~~g~s~~di~  297 (396)
                      .++++||.+|..+.-|..|-+   |   -+..+.|++++.++..+|+...+........  ..++..|+...|.|| |++
T Consensus       288 sr~iLiGiANslDlTdR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SG-DlR  366 (529)
T KOG2227|consen  288 SRIILIGIANSLDLTDRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSG-DLR  366 (529)
T ss_pred             ceeeeeeehhhhhHHHHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCch-hHH
Confidence            789999999987755544433   2   3567899999999999999999987766533  346778888888886 666


Q ss_pred             H---HHHHHHHHHHHHHHHHHhc----CCCCCCCCCCCHHHHHHHHHhcccc
Q 016044          298 E---VCKQAAYFSIRELLDEERK----GKPAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       298 ~---l~~~A~~~a~~~~~~~~~~----~~~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                      .   +|+.|...+-.+.-.....    +........|..+++..++.++-.+
T Consensus       367 kaLdv~R~aiEI~E~e~r~~~~~~l~~~~~p~~~~~v~~~~va~viSk~~~s  418 (529)
T KOG2227|consen  367 KALDVCRRAIEIAEIEKRKILDDPLSPGTSPEKKKKVGVEHVAAVISKVDGS  418 (529)
T ss_pred             HHHHHHHHHHHHHHHHHhhccccCCCCCCCcccccccchHHHHHHhhhhccC
Confidence            4   4666655544433221111    1122233567788998888877554

>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]

Probab=99.08  E-value=4.9e-10  Score=103.88  Aligned_cols=155  Identities=24%  Similarity=0.364  Sum_probs=102.7

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccc
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNL  159 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l  159 (396)
                      ....|+.|+|.+...+.+.+-.       ..++..     ..++||.|.+||||.++|++....+   ..+|+.++|..+
T Consensus       199 ~~~~F~~~v~~S~~mk~~v~qA-------~k~Aml-----DAPLLI~GeTGTGKdLlAkaCH~~S~R~~~pFlalNCA~l  266 (511)
T COG3283         199 DVSGFEQIVAVSPKMKHVVEQA-------QKLAML-----DAPLLITGETGTGKDLLAKACHLASPRHSKPFLALNCASL  266 (511)
T ss_pred             cccchHHHhhccHHHHHHHHHH-------HHhhcc-----CCCeEEecCCCchHHHHHHHHhhcCcccCCCeeEeecCCC
Confidence            4567888988887776664432       223322     3569999999999999999987644   679999999777


Q ss_pred             cchh-----hchH--HHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHh-hcc------CcCCC
Q 016044          160 MSKW-----FGDA--QKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALW-DGF------TTDQN  225 (396)
Q Consensus       160 ~~~~-----~g~~--~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l-~~~------~~~~~  225 (396)
                      ....     +|..  ......+|+.|   ..+.+|+|||..+.+.-           ...++..+ ||.      ..+-.
T Consensus       267 Pe~~aEsElFG~apg~~gk~GffE~A---ngGTVlLDeIgEmSp~l-----------QaKLLRFL~DGtFRRVGee~Ev~  332 (511)
T COG3283         267 PEDAAESELFGHAPGDEGKKGFFEQA---NGGTVLLDEIGEMSPRL-----------QAKLLRFLNDGTFRRVGEDHEVH  332 (511)
T ss_pred             chhHhHHHHhcCCCCCCCccchhhhc---cCCeEEeehhhhcCHHH-----------HHHHHHHhcCCceeecCCcceEE
Confidence            4432     1111  12233455555   44899999999884332           22333333 221      11123


Q ss_pred             CcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHH
Q 016044          226 ARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQ  264 (396)
Q Consensus       226 ~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~  264 (396)
                      .+|.|||||..+       ..+-+.+..|+ .++.+..|...||..
T Consensus       333 vdVRVIcatq~nL~~lv~~g~fReDLfyRL-NVLtl~~PpLRer~~  377 (511)
T COG3283         333 VDVRVICATQVNLVELVQKGKFREDLFYRL-NVLTLNLPPLRERPQ  377 (511)
T ss_pred             EEEEEEecccccHHHHHhcCchHHHHHHHh-heeeecCCccccCcc
Confidence            578999999753       35667788899 889999999988875

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=99.07  E-value=4e-10  Score=113.38  Aligned_cols=214  Identities=19%  Similarity=0.224  Sum_probs=129.6

Q ss_pred             cccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchh
Q 016044           87 FESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKW  163 (396)
Q Consensus        87 ~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~  163 (396)
                      +..++|.....+.+.+.+..       .     .....++++.|++||||+++|+++....   +.+|+.++|..+...+
T Consensus       133 ~~~lig~s~~~~~v~~~i~~-------~-----a~~~~~vli~Ge~GtGK~~~A~~ih~~~~~~~~~~~~~~c~~~~~~~  200 (463)
T TIGR01818       133 SAELIGEAPAMQEVFRAIGR-------L-----SRSDITVLINGESGTGKELVARALHRHSPRANGPFIALNMAAIPKDL  200 (463)
T ss_pred             ccceeecCHHHHHHHHHHHH-------H-----hCcCCeEEEECCCCCCHHHHHHHHHHhCCCCCCCeEEEeCCCCCHHH
Confidence            34577777766666554431       1     1224679999999999999999998864   5799999998874332


Q ss_pred             hchHHHHHHHHHH---------------HHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-------
Q 016044          164 FGDAQKLVAAVFS---------------LAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-------  221 (396)
Q Consensus       164 ~g~~~~~~~~~f~---------------~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-------  221 (396)
                      ..      ..+|.               ......+++|||||++.+....           ...++..++...       
T Consensus       201 ~~------~~lfg~~~~~~~~~~~~~~g~~~~a~~gtl~l~ei~~l~~~~-----------q~~ll~~l~~~~~~~~~~~  263 (463)
T TIGR01818       201 IE------SELFGHEKGAFTGANTRRQGRFEQADGGTLFLDEIGDMPLDA-----------QTRLLRVLADGEFYRVGGR  263 (463)
T ss_pred             HH------HHhcCCCCCCCCCcccCCCCcEEECCCCeEEEEchhhCCHHH-----------HHHHHHHHhcCcEEECCCC
Confidence            11      11111               0112246899999999984322           113333332211       


Q ss_pred             cCCCCcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHh----CCC
Q 016044          222 TDQNARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGL----CEG  290 (396)
Q Consensus       222 ~~~~~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~----~~g  290 (396)
                      .....++.+|++|+..       ..+.+.+..|+ ..+.+..|+..+|.+-+..+....       +..++..    ..+
T Consensus       264 ~~~~~~~rii~~~~~~l~~~~~~~~f~~~L~~rl-~~~~i~lPpLr~R~~Di~~l~~~~-------l~~~~~~~~~~~~~  335 (463)
T TIGR01818       264 TPIKVDVRIVAATHQNLEALVRQGKFREDLFHRL-NVIRIHLPPLRERREDIPRLARHF-------LALAARELDVEPKL  335 (463)
T ss_pred             ceeeeeeEEEEeCCCCHHHHHHcCCcHHHHHHHh-CcceecCCCcccchhhHHHHHHHH-------HHHHHHHhCCCCCC
Confidence            1112367888888753       35567888888 567777788777765444333211       1112221    246


Q ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHH
Q 016044          291 FTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLT  337 (396)
Q Consensus       291 ~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~  337 (396)
                      +++..+..|..+.|..+++++.+.............|+.+|+...+.
T Consensus       336 ~~~~a~~~L~~~~wpgNvreL~~~~~~~~~~~~~~~i~~~~l~~~~~  382 (463)
T TIGR01818       336 LDPEALERLKQLRWPGNVRQLENLCRWLTVMASGDEVLVSDLPAELA  382 (463)
T ss_pred             cCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCCCCcccHHhchHHHh
Confidence            77777778887777777777766555433333345688888865553

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>PRK15115 response regulator GlrR; Provisional

Probab=99.07  E-value=7.4e-10  Score=110.84  Aligned_cols=189  Identities=20%  Similarity=0.321  Sum_probs=116.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhhchHHHHHHHHHHH---------------HHHhCCc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWFGDAQKLVAAVFSL---------------AYKLQPA  184 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~---------------a~~~~p~  184 (396)
                      ...++++|++|||||++|+++....   +.+|+.++|..+......      ..+|..               .....++
T Consensus       157 ~~~vli~Ge~GtGk~~lA~~ih~~s~r~~~~f~~i~c~~~~~~~~~------~~lfg~~~~~~~~~~~~~~g~~~~a~~g  230 (444)
T PRK15115        157 DVSVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGALPEQLLE------SELFGHARGAFTGAVSNREGLFQAAEGG  230 (444)
T ss_pred             CCeEEEEcCCcchHHHHHHHHHHhcCCCCCCeEEEeCCCCCHHHHH------HHhcCCCcCCCCCCccCCCCcEEECCCC
Confidence            4579999999999999999998864   479999999887432211      112211               1122458


Q ss_pred             EEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-------cCCCCcEEEEEecCCC-------CCCcHHHHhccCC
Q 016044          185 IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-------TDQNARVMVLAATNRP-------SELDEAILRRLPQ  250 (396)
Q Consensus       185 vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-------~~~~~~v~vI~atn~~-------~~l~~~l~~R~~~  250 (396)
                      +|||||+|.|....+           ..++..++...       .....++.+|++|+..       ..+.+.+..|+ .
T Consensus       231 tl~l~~i~~l~~~~q-----------~~L~~~l~~~~~~~~g~~~~~~~~~rii~~~~~~l~~~~~~~~f~~~l~~~l-~  298 (444)
T PRK15115        231 TLFLDEIGDMPAPLQ-----------VKLLRVLQERKVRPLGSNRDIDIDVRIISATHRDLPKAMARGEFREDLYYRL-N  298 (444)
T ss_pred             EEEEEccccCCHHHH-----------HHHHHHHhhCCEEeCCCCceeeeeEEEEEeCCCCHHHHHHcCCccHHHHHhh-c
Confidence            999999999843321           13333332111       1112367899998853       24456666677 6


Q ss_pred             ceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHH----hCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCC
Q 016044          251 AFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAG----LCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRP  326 (396)
Q Consensus       251 ~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~----~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~  326 (396)
                      .+.+..|+..+|.+-+..++...       +..++.    ...++++..+..|..+.|..+++++.+.............
T Consensus       299 ~~~i~lPpLr~R~eDi~~l~~~~-------l~~~~~~~~~~~~~~~~~a~~~L~~~~WpgNvreL~~~i~~~~~~~~~~~  371 (444)
T PRK15115        299 VVSLKIPALAERTEDIPLLANHL-------LRQAAERHKPFVRAFSTDAMKRLMTASWPGNVRQLVNVIEQCVALTSSPV  371 (444)
T ss_pred             eeeecCCChHhccccHHHHHHHH-------HHHHHHHhCCCCCCcCHHHHHHHHhCCCCChHHHHHHHHHHHHHhCCCCc
Confidence            77889999999976443332210       111121    1235778888888888888888887766554333333456


Q ss_pred             CCHHHHHHHH
Q 016044          327 LSRLDLEKVL  336 (396)
Q Consensus       327 i~~~d~~~al  336 (396)
                      |+.+++...+
T Consensus       372 i~~~~l~~~~  381 (444)
T PRK15115        372 ISDALVEQAL  381 (444)
T ss_pred             cChhhhhhhh
Confidence            7777765443

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=99.06  E-value=5.1e-09  Score=94.17  Aligned_cols=173  Identities=19%  Similarity=0.285  Sum_probs=116.4

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc-C--Cc---------
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES-G--AV---------  150 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~-~--~~---------  150 (396)
                      .+-+++.+.+.++....+..+..              -..-.++++|||+|+||.|.+.++.+++ |  ..         
T Consensus         8 rpksl~~l~~~~e~~~~Lksl~~--------------~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~   73 (351)
T KOG2035|consen    8 RPKSLDELIYHEELANLLKSLSS--------------TGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTF   73 (351)
T ss_pred             CcchhhhcccHHHHHHHHHHhcc--------------cCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEE
Confidence            34577888999999888876442              1113579999999999999999998865 2  11         


Q ss_pred             -----------------EEEEecccccchhhchHH-HHHHHHHHHHHHhCC---------cEEEEccccccccCCCCCch
Q 016044          151 -----------------FINVRISNLMSKWFGDAQ-KLVAAVFSLAYKLQP---------AIIFIDEVDSFLGQRRTSDH  203 (396)
Q Consensus       151 -----------------~~~i~~~~l~~~~~g~~~-~~~~~~f~~a~~~~p---------~vl~iDEid~l~~~~~~~~~  203 (396)
                                       .+++++++.     |... -.+..+.....+.++         .+++|.|+|.|....    +
T Consensus        74 ~tpS~kklEistvsS~yHlEitPSDa-----G~~DRvViQellKevAQt~qie~~~qr~fKvvvi~ead~LT~dA----Q  144 (351)
T KOG2035|consen   74 TTPSKKKLEISTVSSNYHLEITPSDA-----GNYDRVVIQELLKEVAQTQQIETQGQRPFKVVVINEADELTRDA----Q  144 (351)
T ss_pred             ecCCCceEEEEEecccceEEeChhhc-----CcccHHHHHHHHHHHHhhcchhhccccceEEEEEechHhhhHHH----H
Confidence                             122222222     2222 233344433333222         599999999984433    2


Q ss_pred             HHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCC-CCHH
Q 016044          204 EALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEEN-IDFD  282 (396)
Q Consensus       204 ~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~-~~l~  282 (396)
                      .+++|       .|+.+    ..++.+|..+|....+-+++++|+ ..+.+|.|+.++...++...+.+..+.-. --+.
T Consensus       145 ~aLRR-------TMEkY----s~~~RlIl~cns~SriIepIrSRC-l~iRvpaps~eeI~~vl~~v~~kE~l~lp~~~l~  212 (351)
T KOG2035|consen  145 HALRR-------TMEKY----SSNCRLILVCNSTSRIIEPIRSRC-LFIRVPAPSDEEITSVLSKVLKKEGLQLPKELLK  212 (351)
T ss_pred             HHHHH-------HHHHH----hcCceEEEEecCcccchhHHhhhe-eEEeCCCCCHHHHHHHHHHHHHHhcccCcHHHHH
Confidence            23333       33333    345788889999999999999999 88999999999999999999988776522 2255


Q ss_pred             HHHHhCCC
Q 016044          283 YLAGLCEG  290 (396)
Q Consensus       283 ~la~~~~g  290 (396)
                      .+|+.+.|
T Consensus       213 rIa~kS~~  220 (351)
T KOG2035|consen  213 RIAEKSNR  220 (351)
T ss_pred             HHHHHhcc
Confidence            66666664

>PRK08116 hypothetical protein; Validated

Probab=99.05  E-value=1.2e-09  Score=101.52  Aligned_cols=160  Identities=19%  Similarity=0.227  Sum_probs=88.1

Q ss_pred             ccCCCCCCcccccccChHH---HHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCc
Q 016044           77 VINPDHIDVEFESIGGLET---IKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAV  150 (396)
Q Consensus        77 ~~~~~~~~~~~~~i~G~~~---~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~  150 (396)
                      .+++.....+|+++.-.+.   ++....+++.       .|...  ...+.|++|+|++|||||+||.++++++   +.+
T Consensus        74 ~i~~~~~~~tFdnf~~~~~~~~a~~~a~~y~~-------~~~~~--~~~~~gl~l~G~~GtGKThLa~aia~~l~~~~~~  144 (268)
T PRK08116         74 LLDEKFRNSTFENFLFDKGSEKAYKIARKYVK-------KFEEM--KKENVGLLLWGSVGTGKTYLAACIANELIEKGVP  144 (268)
T ss_pred             CCCHHHHhcchhcccCChHHHHHHHHHHHHHH-------HHHhh--ccCCceEEEECCCCCCHHHHHHHHHHHHHHcCCe
Confidence            3444555567777653333   3334443332       22211  1224679999999999999999999975   778


Q ss_pred             EEEEecccccchhhchH----HHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCC
Q 016044          151 FINVRISNLMSKWFGDA----QKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNA  226 (396)
Q Consensus       151 ~~~i~~~~l~~~~~g~~----~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  226 (396)
                      ++.++.+++........    ......++...  ....+|+|||++.-..    .  +.   ....+...++....   .
T Consensus       145 v~~~~~~~ll~~i~~~~~~~~~~~~~~~~~~l--~~~dlLviDDlg~e~~----t--~~---~~~~l~~iin~r~~---~  210 (268)
T PRK08116        145 VIFVNFPQLLNRIKSTYKSSGKEDENEIIRSL--VNADLLILDDLGAERD----T--EW---AREKVYNIIDSRYR---K  210 (268)
T ss_pred             EEEEEHHHHHHHHHHHHhccccccHHHHHHHh--cCCCEEEEecccCCCC----C--HH---HHHHHHHHHHHHHH---C
Confidence            88888877655432211    11111222222  2347999999964211    1  11   12244444444321   1


Q ss_pred             cEEEEEecCCC-CC----CcHHHHhcc---CCceEeCCCCH
Q 016044          227 RVMVLAATNRP-SE----LDEAILRRL---PQAFEIGMPDR  259 (396)
Q Consensus       227 ~v~vI~atn~~-~~----l~~~l~~R~---~~~i~~~~P~~  259 (396)
                      +..+|.|||.+ ..    ++..+.+|+   ...+.+.-|+.
T Consensus       211 ~~~~IiTsN~~~~eL~~~~~~ri~sRl~e~~~~v~~~g~d~  251 (268)
T PRK08116        211 GLPTIVTTNLSLEELKNQYGKRIYDRILEMCTPVENEGKSY  251 (268)
T ss_pred             CCCEEEECCCCHHHHHHHHhHHHHHHHHHcCEEEEeeCcCh
Confidence            23467777754 33    456777774   34456666654

>PRK12377 putative replication protein; Provisional

Probab=99.05  E-value=1e-09  Score=100.27  Aligned_cols=103  Identities=21%  Similarity=0.283  Sum_probs=63.2

Q ss_pred             cCCCCCCccccccc----ChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCc
Q 016044           78 INPDHIDVEFESIG----GLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAV  150 (396)
Q Consensus        78 ~~~~~~~~~~~~i~----G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~  150 (396)
                      +.+...+.+|+++.    |+..++.....++.       .|..     ...+++|+||||||||+||.++++.+   |..
T Consensus        64 i~~~~~~~tFdnf~~~~~~~~~a~~~a~~~a~-------~~~~-----~~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~  131 (248)
T PRK12377         64 IQPLHRKCSFANYQVQNDGQRYALSQAKSIAD-------ELMT-----GCTNFVFSGKPGTGKNHLAAAIGNRLLAKGRS  131 (248)
T ss_pred             CCcccccCCcCCcccCChhHHHHHHHHHHHHH-------HHHh-----cCCeEEEECCCCCCHHHHHHHHHHHHHHcCCC
Confidence            34455566788774    33334454444432       2221     13689999999999999999999876   667


Q ss_pred             EEEEecccccchhhchHH--HHHHHHHHHHHHhCCcEEEEcccccc
Q 016044          151 FINVRISNLMSKWFGDAQ--KLVAAVFSLAYKLQPAIIFIDEVDSF  194 (396)
Q Consensus       151 ~~~i~~~~l~~~~~g~~~--~~~~~~f~~a~~~~p~vl~iDEid~l  194 (396)
                      ++.++.+++.........  .....++...  ....+|+|||++..
T Consensus       132 v~~i~~~~l~~~l~~~~~~~~~~~~~l~~l--~~~dLLiIDDlg~~  175 (248)
T PRK12377        132 VIVVTVPDVMSRLHESYDNGQSGEKFLQEL--CKVDLLVLDEIGIQ  175 (248)
T ss_pred             eEEEEHHHHHHHHHHHHhccchHHHHHHHh--cCCCEEEEcCCCCC
Confidence            777877776554321110  0011222222  35589999999765

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=99.01  E-value=1.7e-09  Score=110.86  Aligned_cols=52  Identities=29%  Similarity=0.419  Sum_probs=42.9

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +.++..|++++|+++++..|...+..                +++++|+||||||||++++++++.+.
T Consensus        24 ~~~~~~~~~vigq~~a~~~L~~~~~~----------------~~~~l~~G~~G~GKttla~~l~~~l~   75 (637)
T PRK13765         24 EVPERLIDQVIGQEHAVEVIKKAAKQ----------------RRHVMMIGSPGTGKSMLAKAMAELLP   75 (637)
T ss_pred             ccCcccHHHcCChHHHHHHHHHHHHh----------------CCeEEEECCCCCcHHHHHHHHHHHcC
Confidence            34567999999999999998765541                24799999999999999999998543

>PRK10365 transcriptional regulatory protein ZraR; Provisional

Probab=99.01  E-value=1.5e-09  Score=108.54  Aligned_cols=188  Identities=19%  Similarity=0.263  Sum_probs=118.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhhchHHHHHHHHHH---------------HHHHhCCc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWFGDAQKLVAAVFS---------------LAYKLQPA  184 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~g~~~~~~~~~f~---------------~a~~~~p~  184 (396)
                      ...++++|.+||||+++|+++....   +.+|+.++|..+......      ..+|.               ......++
T Consensus       162 ~~~vli~ge~g~gk~~~a~~ih~~s~~~~~~~i~~~c~~~~~~~~~------~~lfg~~~~~~~~~~~~~~g~~~~a~~g  235 (441)
T PRK10365        162 EATVLIHGDSGTGKELVARAIHASSARSEKPLVTLNCAALNESLLE------SELFGHEKGAFTGADKRREGRFVEADGG  235 (441)
T ss_pred             CCeEEEEecCCCCHHHHHHHHHHcCCCCCCCeeeeeCCCCCHHHHH------HHhcCCCCCCcCCCCcCCCCceeECCCC
Confidence            4779999999999999999998754   478999999876433211      11111               11223568


Q ss_pred             EEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-------cCCCCcEEEEEecCCC-------CCCcHHHHhccCC
Q 016044          185 IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-------TDQNARVMVLAATNRP-------SELDEAILRRLPQ  250 (396)
Q Consensus       185 vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-------~~~~~~v~vI~atn~~-------~~l~~~l~~R~~~  250 (396)
                      +|||||++.|....+           ..++..++...       ...+.++.+|++|+.+       ..+.+.+..|+ .
T Consensus       236 tl~ldei~~l~~~~q-----------~~l~~~l~~~~~~~~~~~~~~~~~~rii~~t~~~~~~~~~~~~~~~~l~~~l-~  303 (441)
T PRK10365        236 TLFLDEIGDISPMMQ-----------VRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAAEVNAGRFRQDLYYRL-N  303 (441)
T ss_pred             EEEEeccccCCHHHH-----------HHHHHHHccCcEEeCCCCceeeeceEEEEeCCCCHHHHHHcCCchHHHHHHh-c
Confidence            999999999843321           13333332211       1112357788888753       24566677777 6


Q ss_pred             ceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHH----hCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCC
Q 016044          251 AFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAG----LCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRP  326 (396)
Q Consensus       251 ~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~----~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~  326 (396)
                      .+.+..|+..+|.+-+..+....       +..++.    ...++++..+..|+.+.|..+++++.+..+..........
T Consensus       304 ~~~i~~ppLreR~~Di~~l~~~~-------l~~~~~~~~~~~~~~~~~a~~~L~~~~wpgN~reL~~~~~~~~~~~~~~~  376 (441)
T PRK10365        304 VVAIEVPSLRQRREDIPLLAGHF-------LQRFAERNRKAVKGFTPQAMDLLIHYDWPGNIRELENAVERAVVLLTGEY  376 (441)
T ss_pred             cceecCCChhhcchhHHHHHHHH-------HHHHHHHhCCCCCCcCHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCCc
Confidence            78889999998877444433211       112222    1235888888888888888888888766555333334456


Q ss_pred             CCHHHHHHH
Q 016044          327 LSRLDLEKV  335 (396)
Q Consensus       327 i~~~d~~~a  335 (396)
                      |+.+|+...
T Consensus       377 i~~~~l~~~  385 (441)
T PRK10365        377 ISERELPLA  385 (441)
T ss_pred             cchHhCchh
Confidence            777777543

>KOG0478 consensus DNA replication licensing factor, MCM4 component [Replication, recombination and repair]

Probab=99.00  E-value=3.4e-09  Score=105.58  Aligned_cols=177  Identities=24%  Similarity=0.251  Sum_probs=101.7

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEE-Eecccccch--h--
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFIN-VRISNLMSK--W--  163 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~-i~~~~l~~~--~--  163 (396)
                      +|.|++++|+.|--.+.  =.....+..++..+..-+|||+|.||||||.+.+.+++-...-.+. -..+.-.+.  +  
T Consensus       430 sIye~edvKkglLLqLf--GGt~k~~~~~~~~R~~INILL~GDPGtsKSqlLqyv~~l~pRg~yTSGkGsSavGLTayVt  507 (804)
T KOG0478|consen  430 SIYELEDVKKGLLLQLF--GGTRKEDEKSGRFRGDINILLVGDPGTSKSQLLQYCHRLLPRGVYTSGKGSSAVGLTAYVT  507 (804)
T ss_pred             hhhcccchhhhHHHHHh--cCCcccccccccccccceEEEecCCCcCHHHHHHHHHHhCCcceeecCCccchhcceeeEE
Confidence            58899999998732221  1222223333224445689999999999999999999855321111 111100000  0  


Q ss_pred             -hchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC----
Q 016044          164 -FGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS----  238 (396)
Q Consensus       164 -~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~----  238 (396)
                       -+++.+.+-.- ...-....++.+|||||.+..+..+..++.++..  ++--...|+...-+.+.-|+|++|+..    
T Consensus       508 rd~dtkqlVLes-GALVLSD~GiCCIDEFDKM~dStrSvLhEvMEQQ--TvSIAKAGII~sLNAR~SVLAaANP~~skyn  584 (804)
T KOG0478|consen  508 KDPDTRQLVLES-GALVLSDNGICCIDEFDKMSDSTRSVLHEVMEQQ--TLSIAKAGIIASLNARCSVLAAANPIRSKYN  584 (804)
T ss_pred             ecCccceeeeec-CcEEEcCCceEEchhhhhhhHHHHHHHHHHHHHh--hhhHhhcceeeeccccceeeeeeccccccCC
Confidence             00111111000 0001125589999999999655555555555432  222233566556677889999999532    


Q ss_pred             ---------CCcHHHHhccCCce-EeCCCCHHHHHHHHHHHh
Q 016044          239 ---------ELDEAILRRLPQAF-EIGMPDRKERAQILKVIL  270 (396)
Q Consensus       239 ---------~l~~~l~~R~~~~i-~~~~P~~~er~~il~~~l  270 (396)
                               .|++.|++||+.++ -+..||+..=+.+-.++.
T Consensus       585 p~k~i~eNI~LpptLLSRFDLIylllD~~DE~~Dr~La~Hiv  626 (804)
T KOG0478|consen  585 PNKSIIENINLPPTLLSRFDLIFLLLDKPDERSDRRLADHIV  626 (804)
T ss_pred             CCCchhhccCCChhhhhhhcEEEEEecCcchhHHHHHHHHHH
Confidence                     57899999998776 457777764445555444

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=98.99  E-value=1.2e-08  Score=102.40  Aligned_cols=202  Identities=19%  Similarity=0.265  Sum_probs=130.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc----------CCcEEEEecccccch----------hhchH------HHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES----------GAVFINVRISNLMSK----------WFGDA------QKLVAAVFSL  177 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~----------~~~~~~i~~~~l~~~----------~~g~~------~~~~~~~f~~  177 (396)
                      ..+++.|-||||||.+++.+..++          ...|+.+|+-.+.+.          +.|+.      -..+..-|..
T Consensus       423 ~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~~I~~~lsg~~~~~~~al~~L~~~f~~  502 (767)
T KOG1514|consen  423 SCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYEKIWEALSGERVTWDAALEALNFRFTV  502 (767)
T ss_pred             eeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHHHHHHhcccCcccHHHHHHHHHHhhcc
Confidence            468999999999999999997744          356788887665442          11111      1111112221


Q ss_pred             H-HHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCC----cHHHHhccC-Cc
Q 016044          178 A-YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSEL----DEAILRRLP-QA  251 (396)
Q Consensus       178 a-~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l----~~~l~~R~~-~~  251 (396)
                      . ....++||+|||+|.|....+            ..+..+-.+....+.+++||+.+|..+..    ...+-+|++ .+
T Consensus       503 ~k~~~~~~VvLiDElD~Lvtr~Q------------dVlYn~fdWpt~~~sKLvvi~IaNTmdlPEr~l~nrvsSRlg~tR  570 (767)
T KOG1514|consen  503 PKPKRSTTVVLIDELDILVTRSQ------------DVLYNIFDWPTLKNSKLVVIAIANTMDLPERLLMNRVSSRLGLTR  570 (767)
T ss_pred             CCCCCCCEEEEeccHHHHhcccH------------HHHHHHhcCCcCCCCceEEEEecccccCHHHHhccchhhhcccee
Confidence            1 122468999999999976553            23333344555667889999998875532    223333543 57


Q ss_pred             eEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHH--HHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCH
Q 016044          252 FEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGS--DLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSR  329 (396)
Q Consensus       252 i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~--di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~  329 (396)
                      +.|.+.+..+..+|+...+.+...-.+...+-+|+.....||.  .-..+|++|...|-.+....     .......|+.
T Consensus       571 i~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGDaRraldic~RA~Eia~~~~~~~-----k~~~~q~v~~  645 (767)
T KOG1514|consen  571 ICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGDARRALDICRRAAEIAEERNVKG-----KLAVSQLVGI  645 (767)
T ss_pred             eecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhccccHHHHHHHHHHHHHHhhhhcccc-----cccccceeeh
Confidence            7899999999999999999877443333455556655555553  34467888888777765411     2233467889


Q ss_pred             HHHHHHHHhcccc
Q 016044          330 LDLEKVLTTSRKT  342 (396)
Q Consensus       330 ~d~~~al~~~~~~  342 (396)
                      .|+.+|+..+..+
T Consensus       646 ~~v~~Ai~em~~~  658 (767)
T KOG1514|consen  646 LHVMEAINEMLAS  658 (767)
T ss_pred             HHHHHHHHHHhhh
Confidence            9999999887543

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=98.96  E-value=3.1e-09  Score=88.74  Aligned_cols=127  Identities=22%  Similarity=0.407  Sum_probs=75.1

Q ss_pred             cChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC---CcEEEEecccccchhhchH
Q 016044           91 GGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG---AVFINVRISNLMSKWFGDA  167 (396)
Q Consensus        91 ~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~---~~~~~i~~~~l~~~~~g~~  167 (396)
                      +|.....+.+++.+.       .+..     ...+|+|+|++||||+++|++++...+   .+|+.++|..+.       
T Consensus         1 vG~S~~~~~l~~~l~-------~~a~-----~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~~~~~~~-------   61 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLE-------RLAK-----SSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVIDCASLP-------   61 (138)
T ss_dssp             --SCHHHHHHHHHHH-------HHHC-----SSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCCCHHCTC-------
T ss_pred             CCCCHHHHHHHHHHH-------HHhC-----CCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEechhhCc-------
Confidence            355566666665553       2222     247799999999999999999998764   466777776643       


Q ss_pred             HHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC-C------CC
Q 016044          168 QKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP-S------EL  240 (396)
Q Consensus       168 ~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~-~------~l  240 (396)
                          ..++..   ..+++|||+|+|.+....           ...++..+....   ..++.+|+++..+ .      .+
T Consensus        62 ----~~~l~~---a~~gtL~l~~i~~L~~~~-----------Q~~L~~~l~~~~---~~~~RlI~ss~~~l~~l~~~~~~  120 (138)
T PF14532_consen   62 ----AELLEQ---AKGGTLYLKNIDRLSPEA-----------QRRLLDLLKRQE---RSNVRLIASSSQDLEELVEEGRF  120 (138)
T ss_dssp             ----HHHHHH---CTTSEEEEECGCCS-HHH-----------HHHHHHHHHHCT---TTTSEEEEEECC-CCCHHHHSTH
T ss_pred             ----HHHHHH---cCCCEEEECChHHCCHHH-----------HHHHHHHHHhcC---CCCeEEEEEeCCCHHHHhhccch
Confidence                222332   366999999999983321           113334343322   3445677666532 2      46


Q ss_pred             cHHHHhccCCceEeCCCC
Q 016044          241 DEAILRRLPQAFEIGMPD  258 (396)
Q Consensus       241 ~~~l~~R~~~~i~~~~P~  258 (396)
                      ++.|..|+ ..+.+..|+
T Consensus       121 ~~~L~~~l-~~~~i~lPp  137 (138)
T PF14532_consen  121 SPDLYYRL-SQLEIHLPP  137 (138)
T ss_dssp             HHHHHHHC-STCEEEE--
T ss_pred             hHHHHHHh-CCCEEeCCC
Confidence            67888888 444555553

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=98.93  E-value=9.9e-09  Score=97.75  Aligned_cols=131  Identities=17%  Similarity=0.180  Sum_probs=85.4

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCC-------------------------cEEEEecccc---cchh-hchHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGA-------------------------VFINVRISNL---MSKW-FGDAQKLVA  172 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~-------------------------~~~~i~~~~l---~~~~-~g~~~~~~~  172 (396)
                      -++.+||+||+|+|||++|+.+|+.+.+                         .|+.+.+..-   .++. ..-.-..++
T Consensus        20 ~~hA~Lf~G~~G~GK~~la~~~a~~llC~~~~~~~~~Cg~C~~C~~~~~~~HpD~~~~~p~~~~~~~g~~~~~I~id~iR   99 (325)
T PRK08699         20 RPNAWLFAGKKGIGKTAFARFAAQALLCETPAPGHKPCGECMSCHLFGQGSHPDFYEITPLSDEPENGRKLLQIKIDAVR   99 (325)
T ss_pred             cceEEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHhcCCCCCEEEEecccccccccccCCCcCHHHHH
Confidence            3688999999999999999999997532                         1233322110   0000 000122344


Q ss_pred             HHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhcc
Q 016044          173 AVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRL  248 (396)
Q Consensus       173 ~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~  248 (396)
                      .+...+..    ....|++||+++.+...           ..+.+++.++..    +..+.+|.+|+.++.+.+.+.+|+
T Consensus       100 ~l~~~~~~~p~~~~~kV~iiEp~~~Ld~~-----------a~naLLk~LEep----~~~~~~Ilvth~~~~ll~ti~SRc  164 (325)
T PRK08699        100 EIIDNVYLTSVRGGLRVILIHPAESMNLQ-----------AANSLLKVLEEP----PPQVVFLLVSHAADKVLPTIKSRC  164 (325)
T ss_pred             HHHHHHhhCcccCCceEEEEechhhCCHH-----------HHHHHHHHHHhC----cCCCEEEEEeCChHhChHHHHHHh
Confidence            44444432    23469999999988322           223455555543    234567778888899999999999


Q ss_pred             CCceEeCCCCHHHHHHHHHH
Q 016044          249 PQAFEIGMPDRKERAQILKV  268 (396)
Q Consensus       249 ~~~i~~~~P~~~er~~il~~  268 (396)
                       ..+.|++|+.++..+.|..
T Consensus       165 -~~~~~~~~~~~~~~~~L~~  183 (325)
T PRK08699        165 -RKMVLPAPSHEEALAYLRE  183 (325)
T ss_pred             -hhhcCCCCCHHHHHHHHHh
Confidence             8999999999998887765

>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]

Probab=98.92  E-value=2e-09  Score=109.79  Aligned_cols=172  Identities=28%  Similarity=0.334  Sum_probs=98.3

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEE-EEecccc-------
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFI-NVRISNL-------  159 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~-~i~~~~l-------  159 (396)
                      -.|.|++.+|+.+--.+..  .-+.....+..++.--+|||.|.||+|||.|.+.+++-+...++ +..++.-       
T Consensus       286 PsIyG~e~VKkAilLqLfg--Gv~k~~~~g~~iRGDInILLvGDPgtaKSqlLk~v~~~aPr~vytsgkgss~~GLTAav  363 (682)
T COG1241         286 PSIYGHEDVKKAILLQLFG--GVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAPRGVYTSGKGSSAAGLTAAV  363 (682)
T ss_pred             ccccCcHHHHHHHHHHhcC--CCcccCCCCcccccceeEEEcCCCchhHHHHHHHHHhhCCceEEEccccccccCceeEE
Confidence            3589999999988433221  11111111222333467999999999999999999986543222 2222111       


Q ss_pred             -----cchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEec
Q 016044          160 -----MSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAAT  234 (396)
Q Consensus       160 -----~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~at  234 (396)
                           .+.|.-+...        .-...++|++|||+|.+........++++.+..-..  .-.|+...-+.+.-|+||+
T Consensus       364 ~rd~~tge~~LeaGA--------LVlAD~Gv~cIDEfdKm~~~dr~aihEaMEQQtIsI--aKAGI~atLnARcsvLAAa  433 (682)
T COG1241         364 VRDKVTGEWVLEAGA--------LVLADGGVCCIDEFDKMNEEDRVAIHEAMEQQTISI--AKAGITATLNARCSVLAAA  433 (682)
T ss_pred             EEccCCCeEEEeCCE--------EEEecCCEEEEEeccCCChHHHHHHHHHHHhcEeee--cccceeeecchhhhhhhhh
Confidence                 1111111100        112256999999999985444333333333211111  0123333345677899999


Q ss_pred             CCCC-------------CCcHHHHhccCCceEe-CCCCHHHHHHHHHHHhc
Q 016044          235 NRPS-------------ELDEAILRRLPQAFEI-GMPDRKERAQILKVILK  271 (396)
Q Consensus       235 n~~~-------------~l~~~l~~R~~~~i~~-~~P~~~er~~il~~~l~  271 (396)
                      |+..             .+++++++|||..+.+ ..|+.+.=..+.++.+.
T Consensus       434 NP~~Gryd~~~~~~enI~l~~~lLSRFDLifvl~D~~d~~~D~~ia~hil~  484 (682)
T COG1241         434 NPKFGRYDPKKTVAENINLPAPLLSRFDLIFVLKDDPDEEKDEEIAEHILD  484 (682)
T ss_pred             CCCCCcCCCCCCHHHhcCCChhHHhhCCeeEEecCCCCccchHHHHHHHHH
Confidence            9754             5788999999987755 55777656666666554

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=98.90  E-value=2.9e-08  Score=99.81  Aligned_cols=203  Identities=16%  Similarity=0.222  Sum_probs=117.7

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc-
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL-  159 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l-  159 (396)
                      .+.+.+.+|++-+.+-.++++.++...      +..   ..+.+-+||+||||||||++++.+|+++|..+.+...+.. 
T Consensus        12 ky~P~~~~eLavhkkKv~eV~~wl~~~------~~~---~~~~~iLlLtGP~G~GKtttv~~La~elg~~v~Ew~np~~~   82 (519)
T PF03215_consen   12 KYAPKTLDELAVHKKKVEEVRSWLEEM------FSG---SSPKRILLLTGPSGCGKTTTVKVLAKELGFEVQEWINPVSF   82 (519)
T ss_pred             hcCCCCHHHhhccHHHHHHHHHHHHHH------hcc---CCCcceEEEECCCCCCHHHHHHHHHHHhCCeeEEecCCCCc
Confidence            455678899999988888888888632      211   1223467889999999999999999999988877532211 


Q ss_pred             c------chhhch---HH---HH---HHHH-HHHHHH-----------hCCcEEEEccccccccCCCCCchHHHHhhHHH
Q 016044          160 M------SKWFGD---AQ---KL---VAAV-FSLAYK-----------LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTE  212 (396)
Q Consensus       160 ~------~~~~g~---~~---~~---~~~~-f~~a~~-----------~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~  212 (396)
                      .      ..+.+.   ..   ..   .... +..++.           ..+.||+|+|+-.++....    ......+.+
T Consensus        83 ~~~~~~~~d~~s~~~~~~~f~sq~~~F~~f~l~~s~y~~l~~~g~~~~~~~kvILVEDlPN~~~~~~----~~f~~~L~~  158 (519)
T PF03215_consen   83 RESDNQEDDFESDFNKFDEFLSQSDKFSEFLLRASKYSSLSMSGSNSSSNKKVILVEDLPNVFHRDT----SRFREALRQ  158 (519)
T ss_pred             cccccccccccccccccccccchhhhhccccccccccccccccCCCcCCCceEEEeeccccccchhH----HHHHHHHHH
Confidence            0      001100   00   00   1111 111111           2357999999986543322    222222222


Q ss_pred             HHHHhhccCcCCCC-cEEEEEe-cC------CC--------CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCC-
Q 016044          213 FMALWDGFTTDQNA-RVMVLAA-TN------RP--------SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGE-  273 (396)
Q Consensus       213 ll~~l~~~~~~~~~-~v~vI~a-tn------~~--------~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~-  273 (396)
                      ++   .    .... ++++|.+ ++      ..        ..+++.++.  ++ ..|.|.+-...-.+..|+.++..+ 
T Consensus       159 ~l---~----~~~~~PlV~iiSe~~~~~~~~~~~~~~~t~~~L~~~~il~~~~i-~~I~FNpIa~T~mkKaL~rI~~~E~  230 (519)
T PF03215_consen  159 YL---R----SSRCLPLVFIISETESLSGDNSYRSNSFTAERLFPKEILNHPGI-TRIKFNPIAPTFMKKALKRILKKEA  230 (519)
T ss_pred             HH---H----cCCCCCEEEEEecccccCCCCcccccchhhhhccCHHHHhCCCc-eEEEecCCCHHHHHHHHHHHHHHHh
Confidence            22   2    1223 6666666 11      11        135667766  34 778999888888777777776543 


Q ss_pred             -------CCCCCCC-HHHHHHhCCCCcHHHHHHHHHHHHHHHH
Q 016044          274 -------KVEENID-FDYLAGLCEGFTGSDLLEVCKQAAYFSI  308 (396)
Q Consensus       274 -------~~~~~~~-l~~la~~~~g~s~~di~~l~~~A~~~a~  308 (396)
                             ......+ ++.|+..+.    +||+.++..-.+.+.
T Consensus       231 ~~~~~~~~~p~~~~~l~~I~~~s~----GDIRsAIn~LQf~~~  269 (519)
T PF03215_consen  231 RSSSGKNKVPDKQSVLDSIAESSN----GDIRSAINNLQFWCL  269 (519)
T ss_pred             hhhcCCccCCChHHHHHHHHHhcC----chHHHHHHHHHHHhc
Confidence                   1111122 556666555    599988877666666

>PRK07952 DNA replication protein DnaC; Validated

Probab=98.89  E-value=7.6e-09  Score=94.30  Aligned_cols=69  Identities=25%  Similarity=0.379  Sum_probs=49.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhhchH---HHHHHHHHHHHHHhCCcEEEEcccccc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWFGDA---QKLVAAVFSLAYKLQPAIIFIDEVDSF  194 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~g~~---~~~~~~~f~~a~~~~p~vl~iDEid~l  194 (396)
                      .+++|+|+||||||+|+.++++++   |..++.++..++........   ......++...  ....+|+|||++..
T Consensus       100 ~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~~~l~~~l~~~~~~~~~~~~~~l~~l--~~~dlLvIDDig~~  174 (244)
T PRK07952        100 ASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITVADIMSAMKDTFSNSETSEEQLLNDL--SNVDLLVIDEIGVQ  174 (244)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEHHHHHHHHHHHHhhccccHHHHHHHh--ccCCEEEEeCCCCC
Confidence            589999999999999999999977   67888888877765433221   11112233332  24689999999875

>PRK08181 transposase; Validated

Probab=98.87  E-value=2.5e-08  Score=92.23  Aligned_cols=71  Identities=24%  Similarity=0.369  Sum_probs=49.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhhchH-HHHHHHHHHHHHHhCCcEEEEccccccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWFGDA-QKLVAAVFSLAYKLQPAIIFIDEVDSFL  195 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~g~~-~~~~~~~f~~a~~~~p~vl~iDEid~l~  195 (396)
                      ..+++|+||||||||+||.+++.++   |..++.++..++........ .......+...  ..+.+|+|||++...
T Consensus       106 ~~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l--~~~dLLIIDDlg~~~  180 (269)
T PRK08181        106 GANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRTTDLVQKLQVARRELQLESAIAKL--DKFDLLILDDLAYVT  180 (269)
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeHHHHHHHHHHHHhCCcHHHHHHHH--hcCCEEEEecccccc
Confidence            4689999999999999999998744   77788888777766542211 11122223322  245899999998764

>KOG0745 consensus Putative ATP-dependent Clp-type protease (AAA+ ATPase superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.87  E-value=7.1e-09  Score=98.47  Aligned_cols=98  Identities=27%  Similarity=0.498  Sum_probs=69.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch-hhch-HHHHHHHHHHHH----HHhCCcEEEEcccccccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK-WFGD-AQKLVAAVFSLA----YKLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~-~~g~-~~~~~~~~f~~a----~~~~p~vl~iDEid~l~~  196 (396)
                      ..+|||.||+|+|||.||+.+|+-++.||..++|..+... |+|+ .+..+..++..|    .+.+.+|+||||+|.+..
T Consensus       226 KSNvLllGPtGsGKTllaqTLAr~ldVPfaIcDcTtLTQAGYVGeDVEsvi~KLl~~A~~nVekAQqGIVflDEvDKi~~  305 (564)
T KOG0745|consen  226 KSNVLLLGPTGSGKTLLAQTLARVLDVPFAICDCTTLTQAGYVGEDVESVIQKLLQEAEYNVEKAQQGIVFLDEVDKITK  305 (564)
T ss_pred             cccEEEECCCCCchhHHHHHHHHHhCCCeEEecccchhhcccccccHHHHHHHHHHHccCCHHHHhcCeEEEehhhhhcc
Confidence            3689999999999999999999999999999999998754 5554 445555555544    334569999999999973


Q ss_pred             CCCCC--chH-HHHhhHHHHHHHhhcc
Q 016044          197 QRRTS--DHE-ALTNMKTEFMALWDGF  220 (396)
Q Consensus       197 ~~~~~--~~~-~~~~~~~~ll~~l~~~  220 (396)
                      +...-  ..+ ..+.+...++++++|.
T Consensus       306 ~~~~i~~~RDVsGEGVQQaLLKllEGt  332 (564)
T KOG0745|consen  306 KAESIHTSRDVSGEGVQQALLKLLEGT  332 (564)
T ss_pred             cCccccccccccchhHHHHHHHHhccc
Confidence            32211  111 1223445677777654

>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]

Probab=98.86  E-value=8.4e-09  Score=94.67  Aligned_cols=163  Identities=18%  Similarity=0.207  Sum_probs=108.3

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc------EEEE
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV------FINV  154 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~------~~~i  154 (396)
                      ...+-...++++++++...+.++...              ..-.+.|+|||||+|||+...+.|..+-.+      +..+
T Consensus        34 kyrP~~l~dv~~~~ei~st~~~~~~~--------------~~lPh~L~YgPPGtGktsti~a~a~~ly~~~~~~~m~lel   99 (360)
T KOG0990|consen   34 KYRPPFLGIVIKQEPIWSTENRYSGM--------------PGLPHLLFYGPPGTGKTSTILANARDFYSPHPTTSMLLEL   99 (360)
T ss_pred             CCCCchhhhHhcCCchhhHHHHhccC--------------CCCCcccccCCCCCCCCCchhhhhhhhcCCCCchhHHHHh
Confidence            55677889999999999888765321              112389999999999999999999987543      1112


Q ss_pred             ecccccchhhchHHHHHHHHHHHHHH-------hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCc
Q 016044          155 RISNLMSKWFGDAQKLVAAVFSLAYK-------LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNAR  227 (396)
Q Consensus       155 ~~~~l~~~~~g~~~~~~~~~f~~a~~-------~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~  227 (396)
                      +.++-.+.  +-.. .-...|...+.       ..+..+++||.|.+....    +.+++|++       ..+    ..+
T Consensus       100 naSd~rgi--d~vr-~qi~~fast~~~~~fst~~~fKlvILDEADaMT~~A----QnALRRvi-------ek~----t~n  161 (360)
T KOG0990|consen  100 NASDDRGI--DPVR-QQIHLFASTQQPTTYSTHAAFKLVILDEADAMTRDA----QNALRRVI-------EKY----TAN  161 (360)
T ss_pred             hccCccCC--cchH-HHHHHHHhhccceeccccCceeEEEecchhHhhHHH----HHHHHHHH-------HHh----ccc
Confidence            22221111  1111 11122333331       245799999999984433    22333322       222    446


Q ss_pred             EEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC
Q 016044          228 VMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE  276 (396)
Q Consensus       228 v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~  276 (396)
                      +.++..+|.+..+.+++++|| ..+.|.+.+...-...+.+++......
T Consensus       162 ~rF~ii~n~~~ki~pa~qsRc-trfrf~pl~~~~~~~r~shi~e~e~~~  209 (360)
T KOG0990|consen  162 TRFATISNPPQKIHPAQQSRC-TRFRFAPLTMAQQTERQSHIRESEQKE  209 (360)
T ss_pred             eEEEEeccChhhcCchhhccc-ccCCCCCCChhhhhhHHHHHHhcchhh
Confidence            677788899999999999999 888898888888888888888765544

>PF13173 AAA_14: AAA domain

Probab=98.84  E-value=1.3e-08  Score=83.74  Aligned_cols=118  Identities=24%  Similarity=0.367  Sum_probs=69.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC--CcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESG--AVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS  201 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~--~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~  201 (396)
                      +.++|+||+|||||++++.+++.+.  ..++.+++.+.........+ ....+.+. ...++.+|||||++.+.      
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~~~~~~~yi~~~~~~~~~~~~~~-~~~~~~~~-~~~~~~~i~iDEiq~~~------   74 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLLPPENILYINFDDPRDRRLADPD-LLEYFLEL-IKPGKKYIFIDEIQYLP------   74 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhcccccceeeccCCHHHHHHhhhh-hHHHHHHh-hccCCcEEEEehhhhhc------
Confidence            5689999999999999999998876  77788887765443211111 11222222 22256899999999871      


Q ss_pred             chHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC----CCcHHHHhccCCceEeCCCCHHH
Q 016044          202 DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS----ELDEAILRRLPQAFEIGMPDRKE  261 (396)
Q Consensus       202 ~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~----~l~~~l~~R~~~~i~~~~P~~~e  261 (396)
                            .+...+....+.     ..++.+|.|+....    .....+..|. ..+++.+.+..|
T Consensus        75 ------~~~~~lk~l~d~-----~~~~~ii~tgS~~~~l~~~~~~~l~gr~-~~~~l~Plsf~E  126 (128)
T PF13173_consen   75 ------DWEDALKFLVDN-----GPNIKIILTGSSSSLLSKDIAESLAGRV-IEIELYPLSFRE  126 (128)
T ss_pred             ------cHHHHHHHHHHh-----ccCceEEEEccchHHHhhcccccCCCeE-EEEEECCCCHHH
Confidence                  111122222332     12344454444332    2334455576 577788877766

>PRK13406 bchD magnesium chelatase subunit D; Provisional

Probab=98.77  E-value=1.7e-08  Score=102.96  Aligned_cols=125  Identities=12%  Similarity=0.140  Sum_probs=85.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC--CcEEEEecccccchhhchH--HHHH--------HHHHHHHHHhCCcEEEEccc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESG--AVFINVRISNLMSKWFGDA--QKLV--------AAVFSLAYKLQPAIIFIDEV  191 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~--~~~~~i~~~~l~~~~~g~~--~~~~--------~~~f~~a~~~~p~vl~iDEi  191 (396)
                      .||+|.|++|+||++++++++.-+.  .+|+.++.+--....+|..  +..+        ..++..   ...+|||+||+
T Consensus        26 gGv~i~g~~G~~ks~~~r~l~~llp~~~p~r~~p~~~t~~~L~Gg~Dl~~~l~~g~~~~~pGlla~---Ah~GvL~lDe~  102 (584)
T PRK13406         26 GGVVLRARAGPVRDRWLAALRALLPAGTPLRRLPPGIADDRLLGGLDLAATLRAGRPVAQRGLLAE---ADGGVLVLAMA  102 (584)
T ss_pred             ceEEEEcCCCcHHHHHHHHHHHhcCCCCCcccCCCCCcHHHccCCchHHhHhhcCCcCCCCCceee---ccCCEEEecCc
Confidence            6899999999999999999999875  4888887765555555543  1111        111222   23489999999


Q ss_pred             cccccCCCCCchHHHHhhHHHHHHHh---------hccCcCCCCcEEEEEecCCC---CCCcHHHHhccCCceEeCCCCH
Q 016044          192 DSFLGQRRTSDHEALTNMKTEFMALW---------DGFTTDQNARVMVLAATNRP---SELDEAILRRLPQAFEIGMPDR  259 (396)
Q Consensus       192 d~l~~~~~~~~~~~~~~~~~~ll~~l---------~~~~~~~~~~v~vI~atn~~---~~l~~~l~~R~~~~i~~~~P~~  259 (396)
                      ..+..+           +...++..+         ++.....+.++++|++.|..   ..++++++.||+..+.++.|+.
T Consensus       103 n~~~~~-----------~~~aLleame~G~vtIeR~G~s~~~Pa~F~LIat~~~~~~~~~L~~~lLDRf~l~v~v~~~~~  171 (584)
T PRK13406        103 ERLEPG-----------TAARLAAALDTGEVRLERDGLALRLPARFGLVALDEGAEEDERAPAALADRLAFHLDLDGLAL  171 (584)
T ss_pred             ccCCHH-----------HHHHHHHHHhCCcEEEEECCcEEecCCCcEEEecCCChhcccCCCHHhHhheEEEEEcCCCCh
Confidence            988332           222344433         33344456789999985532   3589999999999999998876


Q ss_pred             HHH
Q 016044          260 KER  262 (396)
Q Consensus       260 ~er  262 (396)
                      .+.
T Consensus       172 ~~~  174 (584)
T PRK13406        172 RDA  174 (584)
T ss_pred             HHh
Confidence            543

>KOG0480 consensus DNA replication licensing factor, MCM6 component [Replication, recombination and repair]

Probab=98.73  E-value=1e-07  Score=94.53  Aligned_cols=201  Identities=22%  Similarity=0.225  Sum_probs=116.5

Q ss_pred             cccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEE-ecc---cc---
Q 016044           87 FESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINV-RIS---NL---  159 (396)
Q Consensus        87 ~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i-~~~---~l---  159 (396)
                      |..|.|++.+|.-+--.+.-=.  ......+-.++..-+|++.|.||+||+.+.++.+.-+....+.. +.+   .|   
T Consensus       344 ~PsIyGhe~VK~GilL~LfGGv--~K~a~eg~~lRGDinv~iVGDPgt~KSQfLk~v~~fsPR~vYtsGkaSSaAGLTaa  421 (764)
T KOG0480|consen  344 FPSIYGHELVKAGILLSLFGGV--HKSAGEGTSLRGDINVCIVGDPGTGKSQFLKAVCAFSPRSVYTSGKASSAAGLTAA  421 (764)
T ss_pred             CccccchHHHHhhHHHHHhCCc--cccCCCCccccCCceEEEeCCCCccHHHHHHHHhccCCcceEecCcccccccceEE
Confidence            5679999999998743222100  01111111234446799999999999999999998553332221 111   11   


Q ss_pred             ------cchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEe
Q 016044          160 ------MSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAA  233 (396)
Q Consensus       160 ------~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~a  233 (396)
                            .+.|.-+...        .--...+|.+|||+|.+.-+.+...+++++.....+.  -.|+...-+.+.-|+||
T Consensus       422 VvkD~esgdf~iEAGA--------LmLADnGICCIDEFDKMd~~dqvAihEAMEQQtISIa--KAGv~aTLnARtSIlAA  491 (764)
T KOG0480|consen  422 VVKDEESGDFTIEAGA--------LMLADNGICCIDEFDKMDVKDQVAIHEAMEQQTISIA--KAGVVATLNARTSILAA  491 (764)
T ss_pred             EEecCCCCceeeecCc--------EEEccCceEEechhcccChHhHHHHHHHHHhheehhe--ecceEEeecchhhhhhh
Confidence                  1111111100        0112458999999999955444434444433211111  12333344667779999


Q ss_pred             cCCCC-------------CCcHHHHhccCCce-EeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHH
Q 016044          234 TNRPS-------------ELDEAILRRLPQAF-EIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEV  299 (396)
Q Consensus       234 tn~~~-------------~l~~~l~~R~~~~i-~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l  299 (396)
                      +|+..             .++.++++|||..+ .+.-|++..=..|-++++..+..-.+.     ......|+-.+++..
T Consensus       492 ANPv~GhYdR~ktl~eNi~msApimSRFDL~FiLlD~~nE~~D~~ia~hIld~h~~i~~~-----~~~~~~~~~e~vrkY  566 (764)
T KOG0480|consen  492 ANPVGGHYDRKKTLRENINMSAPIMSRFDLFFILLDDCNEVVDYAIARHILDLHRGIDDA-----TERVCVYTLEQVRKY  566 (764)
T ss_pred             cCCcCCccccccchhhhcCCCchhhhhhcEEEEEecCCchHHHHHHHHHHHHHhcccccc-----ccccccccHHHHHHH
Confidence            99743             46789999998766 568899988888888888643322111     111145777777776


Q ss_pred             HHHHH
Q 016044          300 CKQAA  304 (396)
Q Consensus       300 ~~~A~  304 (396)
                      ++.|.
T Consensus       567 i~yAR  571 (764)
T KOG0480|consen  567 IRYAR  571 (764)
T ss_pred             HHHHH
Confidence            66654

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=98.73  E-value=4.8e-08  Score=88.44  Aligned_cols=178  Identities=22%  Similarity=0.343  Sum_probs=89.8

Q ss_pred             cChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCC---cEEEEec-ccccc----h
Q 016044           91 GGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA---VFINVRI-SNLMS----K  162 (396)
Q Consensus        91 ~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~---~~~~i~~-~~l~~----~  162 (396)
                      +|.++-.+.|.+++..              .+...++|+||+|+|||++++.+......   ..+.+.+ .....    .
T Consensus         2 ~gR~~el~~l~~~l~~--------------~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~   67 (234)
T PF01637_consen    2 FGREKELEKLKELLES--------------GPSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNESSLRS   67 (234)
T ss_dssp             -S-HHHHHHHHHCHHH----------------SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh--------------hcCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhhHHHH
Confidence            5666666777654431              12467999999999999999999997732   1111111 00000    0


Q ss_pred             h------------------------------hchHHHHHHHHHHHHHHh-CCcEEEEccccccc-cCCCCCchHHHHhhH
Q 016044          163 W------------------------------FGDAQKLVAAVFSLAYKL-QPAIIFIDEVDSFL-GQRRTSDHEALTNMK  210 (396)
Q Consensus       163 ~------------------------------~g~~~~~~~~~f~~a~~~-~p~vl~iDEid~l~-~~~~~~~~~~~~~~~  210 (396)
                      .                              .......+..++...... ...+|+|||++.+. ...  ..    ....
T Consensus        68 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~--~~----~~~~  141 (234)
T PF01637_consen   68 FIEETSLADELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASE--ED----KDFL  141 (234)
T ss_dssp             HHHHHHHHCHCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTT--TT----HHHH
T ss_pred             HHHHHHHHHHHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhccc--ch----HHHH
Confidence            0                              011223344444444433 34899999999997 211  11    1223


Q ss_pred             HHHHHHhhccCcCCCCcEEEEEecCCCC------CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC---CCCCH
Q 016044          211 TEFMALWDGFTTDQNARVMVLAATNRPS------ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE---ENIDF  281 (396)
Q Consensus       211 ~~ll~~l~~~~~~~~~~v~vI~atn~~~------~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~---~~~~l  281 (396)
                      ..+...++....  ..++.+|.++....      .-...+..|+.. +.+++.+.++..++++..+... ..   ++.++
T Consensus       142 ~~l~~~~~~~~~--~~~~~~v~~~S~~~~~~~~~~~~~~~~~~~~~-~~l~~l~~~e~~~~~~~~~~~~-~~~~~~~~~~  217 (234)
T PF01637_consen  142 KSLRSLLDSLLS--QQNVSIVITGSSDSLMEEFLDDKSPLFGRFSH-IELKPLSKEEAREFLKELFKEL-IKLPFSDEDI  217 (234)
T ss_dssp             HHHHHHHHH------TTEEEEEEESSHHHHHHTT-TTSTTTT---E-EEE----HHHHHHHHHHHHHCC-------HHHH
T ss_pred             HHHHHHHhhccc--cCCceEEEECCchHHHHHhhcccCccccccce-EEEeeCCHHHHHHHHHHHHHHh-hcccCCHHHH
Confidence            344455554332  22333333332211      122345567755 9999999999999999987665 21   34456


Q ss_pred             HHHHHhCCCCc
Q 016044          282 DYLAGLCEGFT  292 (396)
Q Consensus       282 ~~la~~~~g~s  292 (396)
                      +.+...+.|..
T Consensus       218 ~~i~~~~gG~P  228 (234)
T PF01637_consen  218 EEIYSLTGGNP  228 (234)
T ss_dssp             HHHHHHHTT-H
T ss_pred             HHHHHHhCCCH
Confidence            77777777743

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

>PRK06526 transposase; Provisional

Probab=98.71  E-value=5.8e-08  Score=89.33  Aligned_cols=73  Identities=22%  Similarity=0.324  Sum_probs=46.8

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhhchH-HHHHHHHHHHHHHhCCcEEEEccccccc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWFGDA-QKLVAAVFSLAYKLQPAIIFIDEVDSFL  195 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~g~~-~~~~~~~f~~a~~~~p~vl~iDEid~l~  195 (396)
                      ..+.+++|+||||||||++|.+++.++   |..+..++++++........ .......+..  ...+.+|+|||++.+.
T Consensus        96 ~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~~v~f~t~~~l~~~l~~~~~~~~~~~~l~~--l~~~dlLIIDD~g~~~  172 (254)
T PRK06526         96 TGKENVVFLGPPGTGKTHLAIGLGIRACQAGHRVLFATAAQWVARLAAAHHAGRLQAELVK--LGRYPLLIVDEVGYIP  172 (254)
T ss_pred             hcCceEEEEeCCCCchHHHHHHHHHHHHHCCCchhhhhHHHHHHHHHHHHhcCcHHHHHHH--hccCCEEEEcccccCC
Confidence            345789999999999999999998764   56666666665544332110 0111111211  2346899999999763

>PRK06835 DNA replication protein DnaC; Validated

Probab=98.70  E-value=4.7e-08  Score=93.07  Aligned_cols=112  Identities=28%  Similarity=0.360  Sum_probs=66.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhhchH---HHHHHHHHHHHHHhCCcEEEEcccccccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWFGDA---QKLVAAVFSLAYKLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~g~~---~~~~~~~f~~a~~~~p~vl~iDEid~l~~  196 (396)
                      ..+++|+||+|+|||+|+.++|+++   |..++.++..++........   .......+...  ....+|+|||+.....
T Consensus       183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~l--~~~DLLIIDDlG~e~~  260 (329)
T PRK06835        183 NENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTADELIEILREIRFNNDKELEEVYDLL--INCDLLIIDDLGTEKI  260 (329)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEHHHHHHHHHHHHhccchhHHHHHHHh--ccCCEEEEeccCCCCC
Confidence            3789999999999999999999975   77888888877765432210   00111112222  2447999999977522


Q ss_pred             CCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC-CCC----CcHHHHhcc
Q 016044          197 QRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR-PSE----LDEAILRRL  248 (396)
Q Consensus       197 ~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~-~~~----l~~~l~~R~  248 (396)
                      ..      .   ....+...++....  . +-.+|.|||. +..    +++.+.+|+
T Consensus       261 t~------~---~~~~Lf~iin~R~~--~-~k~tIiTSNl~~~el~~~~~eri~SRL  305 (329)
T PRK06835        261 TE------F---SKSELFNLINKRLL--R-QKKMIISTNLSLEELLKTYSERISSRL  305 (329)
T ss_pred             CH------H---HHHHHHHHHHHHHH--C-CCCEEEECCCCHHHHHHHHhHHHHHHH
Confidence            11      1   11234444443321  1 1235667774 333    456777775

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

Probab=98.66  E-value=8.8e-08  Score=78.85  Aligned_cols=73  Identities=25%  Similarity=0.409  Sum_probs=47.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc--------CCcEEEEecccccch--h------------h--chHHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES--------GAVFINVRISNLMSK--W------------F--GDAQKLVAAVFSLA  178 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~--------~~~~~~i~~~~l~~~--~------------~--g~~~~~~~~~f~~a  178 (396)
                      .+.++++||||+|||++++.++...        +.+++.++++...+.  +            .  .........+....
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l   83 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDAL   83 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHH
Confidence            4668999999999999999999977        677888887544311  0            0  12334444444555


Q ss_pred             HHhCCcEEEEccccccc
Q 016044          179 YKLQPAIIFIDEVDSFL  195 (396)
Q Consensus       179 ~~~~p~vl~iDEid~l~  195 (396)
                      ......+|+|||+|.+.
T Consensus        84 ~~~~~~~lviDe~~~l~  100 (131)
T PF13401_consen   84 DRRRVVLLVIDEADHLF  100 (131)
T ss_dssp             HHCTEEEEEEETTHHHH
T ss_pred             HhcCCeEEEEeChHhcC
Confidence            55444599999999974

>PRK08939 primosomal protein DnaI; Reviewed

Probab=98.64  E-value=2.6e-07  Score=87.29  Aligned_cols=70  Identities=23%  Similarity=0.372  Sum_probs=48.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhhchHH-HHHHHHHHHHHHhCCcEEEEcccccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWFGDAQ-KLVAAVFSLAYKLQPAIIFIDEVDSF  194 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~g~~~-~~~~~~f~~a~~~~p~vl~iDEid~l  194 (396)
                      .+|++|+||+|||||+|+.++|+++   |..+..++.+++......... ......+...  ....+|+|||+..-
T Consensus       156 ~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~~~~l~~~lk~~~~~~~~~~~l~~l--~~~dlLiIDDiG~e  229 (306)
T PRK08939        156 VKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPEFIRELKNSISDGSVKEKIDAV--KEAPVLMLDDIGAE  229 (306)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEEHHHHHHHHHHHHhcCcHHHHHHHh--cCCCEEEEecCCCc
Confidence            5799999999999999999999977   677788887776554322111 1122222222  24589999999763

>PRK09183 transposase/IS protein; Provisional

Probab=98.63  E-value=3e-07  Score=84.99  Aligned_cols=72  Identities=25%  Similarity=0.399  Sum_probs=48.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEecccccchhhch-HHHHHHHHHHHHHHhCCcEEEEcccccc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRISNLMSKWFGD-AQKLVAAVFSLAYKLQPAIIFIDEVDSF  194 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~~~l~~~~~g~-~~~~~~~~f~~a~~~~p~vl~iDEid~l  194 (396)
                      ...+++|+||||||||+++.+++..   .|..+..+++.++....... ....+...+... ...+.+++|||++..
T Consensus       101 ~~~~v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~~~~l~~~l~~a~~~~~~~~~~~~~-~~~~dlLiiDdlg~~  176 (259)
T PRK09183        101 RNENIVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTTAADLLLQLSTAQRQGRYKTTLQRG-VMAPRLLIIDEIGYL  176 (259)
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeHHHHHHHHHHHHHCCcHHHHHHHH-hcCCCEEEEcccccC
Confidence            3578999999999999999999765   36677777776665433211 111223333332 235689999999875

>PF12774 AAA_6: Hydrolytic ATP binding site of dynein motor region D1; PDB: 3VKH_A 3VKG_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A

Probab=98.63  E-value=6.4e-07  Score=81.09  Aligned_cols=133  Identities=21%  Similarity=0.235  Sum_probs=76.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD  202 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~  202 (396)
                      ..+-.++||+|||||.+++.+|+.+|.+++.++|++.++.      ..+..++.-+... .+-+++||++.+...    .
T Consensus        32 ~~~~~~~GpagtGKtetik~La~~lG~~~~vfnc~~~~~~------~~l~ril~G~~~~-GaW~cfdefnrl~~~----v  100 (231)
T PF12774_consen   32 NLGGALSGPAGTGKTETIKDLARALGRFVVVFNCSEQMDY------QSLSRILKGLAQS-GAWLCFDEFNRLSEE----V  100 (231)
T ss_dssp             TTEEEEESSTTSSHHHHHHHHHHCTT--EEEEETTSSS-H------HHHHHHHHHHHHH-T-EEEEETCCCSSHH----H
T ss_pred             CCCCCCcCCCCCCchhHHHHHHHHhCCeEEEecccccccH------HHHHHHHHHHhhc-CchhhhhhhhhhhHH----H
Confidence            3567899999999999999999999999999999886542      3444555444333 489999999998321    2


Q ss_pred             hHHHHhhHHHHHHHhhccC---------cCCCCcEEEEEecCC----CCCCcHHHHhccCCceEeCCCCHHHHHHHHH
Q 016044          203 HEALTNMKTEFMALWDGFT---------TDQNARVMVLAATNR----PSELDEAILRRLPQAFEIGMPDRKERAQILK  267 (396)
Q Consensus       203 ~~~~~~~~~~ll~~l~~~~---------~~~~~~v~vI~atn~----~~~l~~~l~~R~~~~i~~~~P~~~er~~il~  267 (396)
                      ...+...+..+...+..-.         ..-+..+-++.|.|+    ...+|+.++.-| +.+.+..||..-..+++-
T Consensus       101 LS~i~~~i~~i~~al~~~~~~~~~~g~~i~l~~~~~iFiT~np~y~gr~~LP~nLk~lF-Rpvam~~PD~~~I~ei~L  177 (231)
T PF12774_consen  101 LSVISQQIQSIQDALRAKQKSFTLEGQEIKLNPNCGIFITMNPGYAGRSELPENLKALF-RPVAMMVPDLSLIAEILL  177 (231)
T ss_dssp             HHHHHHHHHHHHHHHHCTSSEEEETTCEEE--TT-EEEEEE-B-CCCC--S-HHHCTTE-EEEE--S--HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhcccccccccCCCEEEEccceeEEEeeccccCCcccCCHhHHHHh-heeEEeCCCHHHHHHHHH
Confidence            2222222222222222111         011223456667773    347889998878 888999999877666543

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=98.62  E-value=2.6e-07  Score=85.86  Aligned_cols=119  Identities=15%  Similarity=0.148  Sum_probs=76.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEE--------EEecccccchh-hc----hHHHHHHHHHHHHH----HhCCcE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFI--------NVRISNLMSKW-FG----DAQKLVAAVFSLAY----KLQPAI  185 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~--------~i~~~~l~~~~-~g----~~~~~~~~~f~~a~----~~~p~v  185 (396)
                      ++.+||+||+|+||+.+|.++|..+-+.--        .-..+++..-. .+    -.-..++.+...+.    .....|
T Consensus        19 ~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~p~e~~~kv   98 (290)
T PRK05917         19 PSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKGRLHSIETPRAIKKQIWIHPYESPYKI   98 (290)
T ss_pred             CeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCCCcCcHHHHHHHHHHHhhCccCCCceE
Confidence            688999999999999999999987643210        00111211000 00    01122333333332    223469


Q ss_pred             EEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCC
Q 016044          186 IFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMP  257 (396)
Q Consensus       186 l~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P  257 (396)
                      ++||++|.+..           ...+.+++.++    +++.++++|..|+.++.+.+.+++|| ..+.|+++
T Consensus        99 ~ii~~ad~mt~-----------~AaNaLLK~LE----EPp~~~~fiL~~~~~~~ll~TI~SRc-q~~~~~~~  154 (290)
T PRK05917         99 YIIHEADRMTL-----------DAISAFLKVLE----DPPQHGVIILTSAKPQRLPPTIRSRS-LSIHIPME  154 (290)
T ss_pred             EEEechhhcCH-----------HHHHHHHHHhh----cCCCCeEEEEEeCChhhCcHHHHhcc-eEEEccch
Confidence            99999999832           22336666665    45778899999999999999999999 78888765

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=98.62  E-value=3.3e-08  Score=91.97  Aligned_cols=140  Identities=20%  Similarity=0.342  Sum_probs=78.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCC-c--EEEEecccccchhhchHHHHHHHHHHHH----H-------HhCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGA-V--FINVRISNLMSKWFGDAQKLVAAVFSLA----Y-------KLQPAIIFI  188 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~-~--~~~i~~~~l~~~~~g~~~~~~~~~f~~a----~-------~~~p~vl~i  188 (396)
                      .+++||+||+|||||++++.+-+.+.. .  ...++++...      +...+..+.+..    +       ..+..|+||
T Consensus        33 ~~pvLl~G~~GtGKT~li~~~l~~l~~~~~~~~~~~~s~~T------ts~~~q~~ie~~l~k~~~~~~gP~~~k~lv~fi  106 (272)
T PF12775_consen   33 GRPVLLVGPSGTGKTSLIQNFLSSLDSDKYLVITINFSAQT------TSNQLQKIIESKLEKRRGRVYGPPGGKKLVLFI  106 (272)
T ss_dssp             TEEEEEESSTTSSHHHHHHHHHHCSTTCCEEEEEEES-TTH------HHHHHHHCCCTTECECTTEEEEEESSSEEEEEE
T ss_pred             CCcEEEECCCCCchhHHHHhhhccCCccccceeEeeccCCC------CHHHHHHHHhhcEEcCCCCCCCCCCCcEEEEEe
Confidence            478999999999999999998776542 2  2334443321      112222221110    0       112369999


Q ss_pred             ccccccccCCCCCchHHHHhhHHHHHHHhhccCcCC------CCcEEEEEecCCCC---CCcHHHHhccCCceEeCCCCH
Q 016044          189 DEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQ------NARVMVLAATNRPS---ELDEAILRRLPQAFEIGMPDR  259 (396)
Q Consensus       189 DEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~------~~~v~vI~atn~~~---~l~~~l~~R~~~~i~~~~P~~  259 (396)
                      ||++.-.... -+.+.. ...+.+++.. .|+....      -.++.++||++++.   .+++.+.|.| .++.++.|+.
T Consensus       107 DDlN~p~~d~-ygtq~~-iElLRQ~i~~-~g~yd~~~~~~~~i~~i~~vaa~~p~~Gr~~is~R~~r~f-~i~~~~~p~~  182 (272)
T PF12775_consen  107 DDLNMPQPDK-YGTQPP-IELLRQLIDY-GGFYDRKKLEWKSIEDIQFVAAMNPTGGRNPISPRFLRHF-NILNIPYPSD  182 (272)
T ss_dssp             ETTT-S---T-TS--HH-HHHHHHHHHC-SEEECTTTTEEEEECSEEEEEEESSTTT--SHHHHHHTTE-EEEE----TC
T ss_pred             cccCCCCCCC-CCCcCH-HHHHHHHHHh-cCcccCCCcEEEEEeeeEEEEecCCCCCCCCCChHHhhhe-EEEEecCCCh
Confidence            9998643332 122222 2233333331 2332211      13578899988643   4788899888 8899999999


Q ss_pred             HHHHHHHHHHhcC
Q 016044          260 KERAQILKVILKG  272 (396)
Q Consensus       260 ~er~~il~~~l~~  272 (396)
                      +....|+..++..
T Consensus       183 ~sl~~If~~il~~  195 (272)
T PF12775_consen  183 ESLNTIFSSILQS  195 (272)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh
Confidence            9999998887753

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=98.61  E-value=2.9e-06  Score=79.19  Aligned_cols=155  Identities=12%  Similarity=0.106  Sum_probs=90.5

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCcE-------EE---------Eecccccchhh-ch--HHHHHHHHHHHHH---
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGAVF-------IN---------VRISNLMSKWF-GD--AQKLVAAVFSLAY---  179 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~~~-------~~---------i~~~~l~~~~~-g~--~~~~~~~~f~~a~---  179 (396)
                      -++.+||+||  +||+++|+++|..+-+.-       -.         -+.+++.--.. |.  .-..++.+...+.   
T Consensus        23 l~hAyLf~G~--~G~~~~A~~~A~~llC~~~~~~~~Cg~C~~C~~i~~~~HPD~~~i~p~~~~I~idqIR~l~~~~~~~p  100 (290)
T PRK07276         23 LNHAYLFSGD--FASFEMALFLAQSLFCEQKEGVLPCGHCRSCRLIEQGEFSDVTVIEPQGQVIKTDTIRELVKNFSQSG  100 (290)
T ss_pred             cceeeeeeCC--ccHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCeeeecCCCCcCCHHHHHHHHHHHhhCc
Confidence            3688999996  689999999998653211       00         01122211000 10  1123333333322   


Q ss_pred             -HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCC
Q 016044          180 -KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPD  258 (396)
Q Consensus       180 -~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~  258 (396)
                       .....|++||++|.+..           ...+.+++.++    +++.++++|.+|+.++.+.+.+++|+ ..+.|+. +
T Consensus       101 ~~~~~kV~II~~ad~m~~-----------~AaNaLLKtLE----EPp~~t~~iL~t~~~~~lLpTI~SRc-q~i~f~~-~  163 (290)
T PRK07276        101 YEGKQQVFIIKDADKMHV-----------NAANSLLKVIE----EPQSEIYIFLLTNDENKVLPTIKSRT-QIFHFPK-N  163 (290)
T ss_pred             ccCCcEEEEeehhhhcCH-----------HHHHHHHHHhc----CCCCCeEEEEEECChhhCchHHHHcc-eeeeCCC-c
Confidence             22347999999999832           22346666665    45667899999999999999999999 8888966 5


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHH
Q 016044          259 RKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQ  302 (396)
Q Consensus       259 ~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~  302 (396)
                      .++..+++..    .++..  +...++....| +++....+...
T Consensus       164 ~~~~~~~L~~----~g~~~--~~a~~la~~~~-s~~~A~~l~~~  200 (290)
T PRK07276        164 EAYLIQLLEQ----KGLLK--TQAELLAKLAQ-STSEAEKLAQN  200 (290)
T ss_pred             HHHHHHHHHH----cCCCh--HHHHHHHHHCC-CHHHHHHHhCC
Confidence            5555555542    22221  22333434445 56665555543

>KOG0482 consensus DNA replication licensing factor, MCM7 component [Replication, recombination and repair]

Probab=98.61  E-value=2.2e-07  Score=89.92  Aligned_cols=212  Identities=25%  Similarity=0.245  Sum_probs=121.5

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhh-cCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe-cccccchhhch
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFS-HGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVR-ISNLMSKWFGD  166 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~-~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~-~~~l~~~~~g~  166 (396)
                      +|.|++++|+.|--+++.   -++.-. .|..++..-+|+|.|.||+.||.|.+.+.+-.....+.-. ++.    .+|-
T Consensus       343 EIyGheDVKKaLLLlLVG---gvd~~~~dGMKIRGdINicLmGDPGVAKSQLLkyi~rlapRgvYTTGrGSS----GVGL  415 (721)
T KOG0482|consen  343 EIYGHEDVKKALLLLLVG---GVDKSPGDGMKIRGDINICLMGDPGVAKSQLLKYISRLAPRGVYTTGRGSS----GVGL  415 (721)
T ss_pred             hhccchHHHHHHHHHhhC---CCCCCCCCCceeecceeEEecCCCchhHHHHHHHHHhcCcccceecCCCCC----cccc
Confidence            589999999998655442   122111 2222444567999999999999999999885433222211 111    0111


Q ss_pred             HHHHHHHHH-H-------HHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC
Q 016044          167 AQKLVAAVF-S-------LAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS  238 (396)
Q Consensus       167 ~~~~~~~~f-~-------~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~  238 (396)
                      +....+.-. .       ..-....+|.+|||+|.+........++.++.....+.  -.|+.+.-+.+..|++++|+.+
T Consensus       416 TAAVmkDpvTgEM~LEGGALVLAD~GICCIDEfDKM~e~DRtAIHEVMEQQTISIa--KAGI~TtLNAR~sILaAANPay  493 (721)
T KOG0482|consen  416 TAAVMKDPVTGEMVLEGGALVLADGGICCIDEFDKMDESDRTAIHEVMEQQTISIA--KAGINTTLNARTSILAAANPAY  493 (721)
T ss_pred             chhhhcCCCCCeeEeccceEEEccCceEeehhhhhhhhhhhHHHHHHHHhhhhhhh--hhccccchhhhHHhhhhcCccc
Confidence            111110000 0       00011458999999999977766666666554322222  2455555577888999999633


Q ss_pred             -------------CCcHHHHhccCCceEe-CCCCHHHHHHHHHHHhc----CCCCC---CCCCHHH------HHHhCCCC
Q 016044          239 -------------ELDEAILRRLPQAFEI-GMPDRKERAQILKVILK----GEKVE---ENIDFDY------LAGLCEGF  291 (396)
Q Consensus       239 -------------~l~~~l~~R~~~~i~~-~~P~~~er~~il~~~l~----~~~~~---~~~~l~~------la~~~~g~  291 (396)
                                   .|+.+|++||+..+.+ ..|+.+.=..+.+++.-    .....   ..++.+.      +++...-+
T Consensus       494 GRYnprrs~e~NI~LPaALLSRFDll~Li~D~pdrd~D~~LA~HiTyVH~H~~qp~~~fepl~~~~mR~yI~~ak~~~P~  573 (721)
T KOG0482|consen  494 GRYNPRRSPEQNINLPAALLSRFDLLWLIQDRPDRDNDLRLAQHITYVHQHEEQPPLDFEPLDPNLMRRYISLAKRKNPV  573 (721)
T ss_pred             cccCcccChhHhcCCcHHHHHhhhhhhhhccCCcccchHHHHHHhHhhhccCCCCCccCCCCCHHHHHHHHHHHhhcCCC
Confidence                         5789999999876644 67887776666666542    11111   1133222      24444445


Q ss_pred             cHHHHHHHHHHHHHHHHH
Q 016044          292 TGSDLLEVCKQAAYFSIR  309 (396)
Q Consensus       292 s~~di~~l~~~A~~~a~~  309 (396)
                      .+.++...+..|....-+
T Consensus       574 vp~~l~dyi~~AYv~~Rr  591 (721)
T KOG0482|consen  574 VPEALADYITGAYVELRR  591 (721)
T ss_pred             CCHHHHHHHHHHHHHHHH
Confidence            666776666655544333

>KOG0477 consensus DNA replication licensing factor, MCM2 component [Replication, recombination and repair]

Probab=98.60  E-value=1.7e-07  Score=92.76  Aligned_cols=173  Identities=27%  Similarity=0.325  Sum_probs=96.9

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe---------cc--
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVR---------IS--  157 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~---------~~--  157 (396)
                      +|.|++++|.++.-.+..=.  +.--..+..++.--++||+|.|||||+.+.|.+++-....++...         +.  
T Consensus       450 sIyGh~~VK~AvAlaLfGGv--~kn~~~khkvRGDinvLL~GDPGTaKSQFLKY~eK~s~RAV~tTGqGASavGLTa~v~  527 (854)
T KOG0477|consen  450 SIYGHEDVKRAVALALFGGV--PKNPGGKHKVRGDINVLLLGDPGTAKSQFLKYAEKTSPRAVFTTGQGASAVGLTAYVR  527 (854)
T ss_pred             hhhchHHHHHHHHHHHhcCC--ccCCCCCceeccceeEEEecCCCccHHHHHHHHHhcCcceeEeccCCccccceeEEEe
Confidence            58999999999865443211  111111111333457999999999999999999986554443321         11  


Q ss_pred             --cccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecC
Q 016044          158 --NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATN  235 (396)
Q Consensus       158 --~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn  235 (396)
                        -+...|.-+....     -   ....+|++|||+|.+......+.+++++..-..+-+  .|+...-..+..+|+|+|
T Consensus       528 KdPvtrEWTLEaGAL-----V---LADkGvClIDEFDKMndqDRtSIHEAMEQQSISISK--AGIVtsLqArctvIAAan  597 (854)
T KOG0477|consen  528 KDPVTREWTLEAGAL-----V---LADKGVCLIDEFDKMNDQDRTSIHEAMEQQSISISK--AGIVTSLQARCTVIAAAN  597 (854)
T ss_pred             eCCccceeeeccCeE-----E---EccCceEEeehhhhhcccccchHHHHHHhcchhhhh--hhHHHHHHhhhhhheecC
Confidence              1111121111111     0   124589999999999877777777776642211111  111112245678999999


Q ss_pred             CCC-------------CCcHHHHhccCCceEeC---CCCHHHHHH--HHHHHhcCC
Q 016044          236 RPS-------------ELDEAILRRLPQAFEIG---MPDRKERAQ--ILKVILKGE  273 (396)
Q Consensus       236 ~~~-------------~l~~~l~~R~~~~i~~~---~P~~~er~~--il~~~l~~~  273 (396)
                      +..             ++.+.+++||+..-.+.   -|-.+|+..  ++..+.+..
T Consensus       598 PigGRY~~s~tFaqNV~ltePIlSRFDiLcVvkD~vd~~~De~lA~fVV~Sh~r~h  653 (854)
T KOG0477|consen  598 PIGGRYNPSLTFAQNVDLTEPILSRFDILCVVKDTVDPVQDEKLAKFVVGSHVRHH  653 (854)
T ss_pred             CCCCccCCccchhhccccccchhhhcceeeeeecccCchhHHHHHHHHHHhHhhcC
Confidence            732             45678999996433332   233444332  445555433

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=98.60  E-value=1.9e-06  Score=84.65  Aligned_cols=207  Identities=17%  Similarity=0.224  Sum_probs=107.2

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEec-----
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI-----  156 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~-----  156 (396)
                      ..+-+.+++.=+.+-+.++++++.    +...+...   ...+-+||+||+||||||.++.+++++|..++...-     
T Consensus        76 y~P~t~eeLAVHkkKI~eVk~WL~----~~~~~~~~---l~~~iLLltGPsGcGKSTtvkvLskelg~~~~Ew~Npi~~~  148 (634)
T KOG1970|consen   76 YKPRTLEELAVHKKKISEVKQWLK----QVAEFTPK---LGSRILLLTGPSGCGKSTTVKVLSKELGYQLIEWSNPINLK  148 (634)
T ss_pred             cCcccHHHHhhhHHhHHHHHHHHH----HHHHhccC---CCceEEEEeCCCCCCchhHHHHHHHhhCceeeeecCCcccc
Confidence            345566777666655666666654    11222211   123557899999999999999999999988887541     


Q ss_pred             --ccc------cchhhchHHHHHHHHHHHHHH------------hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHH
Q 016044          157 --SNL------MSKWFGDAQKLVAAVFSLAYK------------LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMAL  216 (396)
Q Consensus       157 --~~l------~~~~~g~~~~~~~~~f~~a~~------------~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~  216 (396)
                        ..+      ....+...-.........+.+            .++.+|++||+-..+...   ..+...    +.+.+
T Consensus       149 ~~~~~h~~t~~~~~~~~s~L~~fesFler~~kyg~l~~~g~~~~~~~~liLveDLPn~~~~d---~~~~f~----evL~~  221 (634)
T KOG1970|consen  149 EPENLHNETSFLMFPYQSQLAVFESFLLRATKYGSLQMSGDDLRTDKKLILVEDLPNQFYRD---DSETFR----EVLRL  221 (634)
T ss_pred             ccccccccchhcccchhhHHHHHHHHHHHHHhhchhhhcccccccCceEEEeeccchhhhhh---hHHHHH----HHHHH
Confidence              111      110111100111111111211            134589999997764432   122222    22222


Q ss_pred             hhccCcCCCCcEEE-EEecCCCCCCcHHHH------h--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCC----CCHHH
Q 016044          217 WDGFTTDQNARVMV-LAATNRPSELDEAIL------R--RLPQAFEIGMPDRKERAQILKVILKGEKVEEN----IDFDY  283 (396)
Q Consensus       217 l~~~~~~~~~~v~v-I~atn~~~~l~~~l~------~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~----~~l~~  283 (396)
                      +-...   ..++++ |.-++.++..++..+      -  |+ ..|.|.+-...--+..|+.++........    -+...
T Consensus       222 y~s~g---~~PlIf~iTd~~~~g~nnq~rlf~~d~q~~~ri-~~IsFNPIa~T~MKK~L~ric~~e~~~~s~~k~~~~~~  297 (634)
T KOG1970|consen  222 YVSIG---RCPLIFIITDSLSNGNNNQDRLFPKDIQEEPRI-SNISFNPIAPTIMKKFLKRICRIEANKKSGIKVPDTAE  297 (634)
T ss_pred             HHhcC---CCcEEEEEeccccCCCcchhhhchhhhhhccCc-ceEeecCCcHHHHHHHHHHHHHHhcccccCCcCchhHH
Confidence            22222   222333 332333343332221      1  56 67889888888888888888864433211    11223


Q ss_pred             HHHhCCCCcHHHHHHHHHHHHHHH
Q 016044          284 LAGLCEGFTGSDLLEVCKQAAYFS  307 (396)
Q Consensus       284 la~~~~g~s~~di~~l~~~A~~~a  307 (396)
                      +-..+.| +++||+.++..-.+.+
T Consensus       298 v~~i~~~-s~GDIRsAInsLQlss  320 (634)
T KOG1970|consen  298 VELICQG-SGGDIRSAINSLQLSS  320 (634)
T ss_pred             HHHHHHh-cCccHHHHHhHhhhhc
Confidence            3333333 4458888777655554

>PRK06921 hypothetical protein; Provisional

Probab=98.60  E-value=1.9e-07  Score=86.63  Aligned_cols=68  Identities=26%  Similarity=0.391  Sum_probs=44.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDS  193 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~  193 (396)
                      ..+++|+||||+|||+|+.++|+++    |..++++...++........ ......+..  .....+|+|||++.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~~~l~~~l~~~~-~~~~~~~~~--~~~~dlLiIDDl~~  188 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPFVEGFGDLKDDF-DLLEAKLNR--MKKVEVLFIDDLFK  188 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEHHHHHHHHHHHH-HHHHHHHHH--hcCCCEEEEecccc
Confidence            4789999999999999999999865    56677777655544321111 111111121  22458999999954

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=98.59  E-value=1.7e-07  Score=86.35  Aligned_cols=70  Identities=27%  Similarity=0.430  Sum_probs=49.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhhchHHH-HHH-HHHHHHHHhCCcEEEEcccccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWFGDAQK-LVA-AVFSLAYKLQPAIIFIDEVDSF  194 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~g~~~~-~~~-~~f~~a~~~~p~vl~iDEid~l  194 (396)
                      +.+++|+||||+|||+||-|+++++   |..++.++.++++......... ... .+....  ....+|+|||+...
T Consensus       105 ~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~~el~~~Lk~~~~~~~~~~~l~~~l--~~~dlLIiDDlG~~  179 (254)
T COG1484         105 GENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITAPDLLSKLKAAFDEGRLEEKLLREL--KKVDLLIIDDIGYE  179 (254)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEHHHHHHHHHHHHhcCchHHHHHHHh--hcCCEEEEecccCc
Confidence            5789999999999999999998866   7888889988887664332221 111 111112  24479999999775

>PRK05818 DNA polymerase III subunit delta'; Validated

Probab=98.59  E-value=1.4e-06  Score=79.31  Aligned_cols=121  Identities=11%  Similarity=0.072  Sum_probs=78.2

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCCcE--------------EEEecccccc-------hhhchHHHHHHHHHHHHH
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKESGAVF--------------INVRISNLMS-------KWFGDAQKLVAAVFSLAY  179 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~~~~~--------------~~i~~~~l~~-------~~~g~~~~~~~~~f~~a~  179 (396)
                      .+++.+||+||+|+||..+|.++|+.+-+.-              ..-..+++.-       -...+.....+.+...+.
T Consensus         5 ~~~HA~Lf~G~~G~G~~~lA~~~A~~llC~~~~~~Cg~C~sC~~i~~~~HPDl~~i~p~~~~I~id~ir~l~~~l~~~s~   84 (261)
T PRK05818          5 NKTHPLLLIERKGSFLKPFLYEYLTSIVCTKANGFCKTCESCLKILNGKYNDFYLIFDQKNPIKKEDALSIINKLNRPSV   84 (261)
T ss_pred             CCCcceeeeCCCCCcHHHHHHHHHHHHcCCCCCCCCCCCHHHHHHhcCCCCCEEEecCCcccCCHHHHHHHHHHHccCch
Confidence            4578999999999999999999998653210              0001122211       011122222222221121


Q ss_pred             H-hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCC
Q 016044          180 K-LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMP  257 (396)
Q Consensus       180 ~-~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P  257 (396)
                      . .+..|++|+++|.+..           ...+.+++.++    +++.++++|..|+.++.+.+.+++|+ ..+.++.+
T Consensus        85 e~~~~KV~II~~ae~m~~-----------~AaNaLLK~LE----EPp~~t~fiLit~~~~~lLpTI~SRC-q~~~~~~~  147 (261)
T PRK05818         85 ESNGKKIYIIYGIEKLNK-----------QSANSLLKLIE----EPPKNTYGIFTTRNENNILNTILSRC-VQYVVLSK  147 (261)
T ss_pred             hcCCCEEEEeccHhhhCH-----------HHHHHHHHhhc----CCCCCeEEEEEECChHhCchHhhhhe-eeeecCCh
Confidence            2 2357999999999832           23346666665    46788999999999999999999999 77788776

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=98.56  E-value=6.2e-07  Score=86.52  Aligned_cols=102  Identities=22%  Similarity=0.290  Sum_probs=57.6

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCC-cEEEEecccccchhhchHHH------HHHHHHHHHHHhCCcEEEEcccc
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKESGA-VFINVRISNLMSKWFGDAQK------LVAAVFSLAYKLQPAIIFIDEVD  192 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~~~-~~~~i~~~~l~~~~~g~~~~------~~~~~f~~a~~~~p~vl~iDEid  192 (396)
                      ..+++|++||||+|+|||+|+-.+...+.. .-..++...++........+      .+..+.... .....+|+|||++
T Consensus        59 ~~~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh~Fm~~vh~~l~~~~~~~~~l~~va~~l-~~~~~lLcfDEF~  137 (362)
T PF03969_consen   59 PPPPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFHEFMLDVHSRLHQLRGQDDPLPQVADEL-AKESRLLCFDEFQ  137 (362)
T ss_pred             CCCCceEEEECCCCCchhHHHHHHHHhCCccccccccccHHHHHHHHHHHHHhCCCccHHHHHHHH-HhcCCEEEEeeee
Confidence            457899999999999999999999887654 22223333333221111111      111222211 1233599999998


Q ss_pred             ccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC
Q 016044          193 SFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR  236 (396)
Q Consensus       193 ~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~  236 (396)
                      .-    +-.+    ..++..++..+-      ..++++|+|+|.
T Consensus       138 V~----DiaD----Amil~rLf~~l~------~~gvvlVaTSN~  167 (362)
T PF03969_consen  138 VT----DIAD----AMILKRLFEALF------KRGVVLVATSNR  167 (362)
T ss_pred             cc----chhH----HHHHHHHHHHHH------HCCCEEEecCCC
Confidence            63    1112    223334443332      346899999996

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]

Probab=98.52  E-value=9e-08  Score=95.59  Aligned_cols=140  Identities=31%  Similarity=0.411  Sum_probs=86.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc--CCcEEEEecccccchh-----hchHH--------HHHHHHHHHHHHhCCcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES--GAVFINVRISNLMSKW-----FGDAQ--------KLVAAVFSLAYKLQPAIIF  187 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~--~~~~~~i~~~~l~~~~-----~g~~~--------~~~~~~f~~a~~~~p~vl~  187 (396)
                      .-++++.|.|||||..+++++....  ..+|+.++|..+....     +|...        +.....+.   ....+.+|
T Consensus       336 ~~pvll~GEtGtGKe~laraiH~~s~~~gpfvAvNCaAip~~liesELFGy~~GafTga~~kG~~g~~~---~A~gGtlF  412 (606)
T COG3284         336 DLPVLLQGETGTGKEVLARAIHQNSEAAGPFVAVNCAAIPEALIESELFGYVAGAFTGARRKGYKGKLE---QADGGTLF  412 (606)
T ss_pred             CCCeEecCCcchhHHHHHHHHHhcccccCCeEEEEeccchHHhhhHHHhccCccccccchhccccccce---ecCCCccH
Confidence            4679999999999999999998755  4689999997664332     11111        11111122   22348999


Q ss_pred             EccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHH
Q 016044          188 IDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRK  260 (396)
Q Consensus       188 iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~  260 (396)
                      +|||..+.    -..+..+.+++.+-.-.--|... .+-+|.||+||+++       ..+.+.|..|+ ..+.+..|+..
T Consensus       413 ldeIgd~p----~~~Qs~LLrVl~e~~v~p~g~~~-~~vdirvi~ath~dl~~lv~~g~fredLyyrL-~~~~i~lP~lr  486 (606)
T COG3284         413 LDEIGDMP----LALQSRLLRVLQEGVVTPLGGTR-IKVDIRVIAATHRDLAQLVEQGRFREDLYYRL-NAFVITLPPLR  486 (606)
T ss_pred             HHHhhhch----HHHHHHHHHHHhhCceeccCCcc-eeEEEEEEeccCcCHHHHHHcCCchHHHHHHh-cCeeeccCchh
Confidence            99998873    22222222222221111111122 35678999999863       35667888888 78888899888


Q ss_pred             HHHH---HHHHHhc
Q 016044          261 ERAQ---ILKVILK  271 (396)
Q Consensus       261 er~~---il~~~l~  271 (396)
                      +|.+   +|.+++.
T Consensus       487 ~R~d~~~~l~~~~~  500 (606)
T COG3284         487 ERSDRIPLLDRILK  500 (606)
T ss_pred             cccccHHHHHHHHH
Confidence            8775   4444443

>PF05729 NACHT: NACHT domain

Probab=98.52  E-value=1.2e-06  Score=74.84  Aligned_cols=140  Identities=15%  Similarity=0.269  Sum_probs=73.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcC---------CcEEEEecccccchh------------hchHHHHHHH-HHHHHHHhC
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESG---------AVFINVRISNLMSKW------------FGDAQKLVAA-VFSLAYKLQ  182 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~---------~~~~~i~~~~l~~~~------------~g~~~~~~~~-~f~~a~~~~  182 (396)
                      -++|+|+||+|||++++.++..+.         ...+.+.+.......            .......... .........
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   81 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEELLQELLEKNK   81 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHHHHHHHHHcCC
Confidence            478999999999999999987541         112233333222110            0011111111 112223445


Q ss_pred             CcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccC--CceEeCCCCHH
Q 016044          183 PAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLP--QAFEIGMPDRK  260 (396)
Q Consensus       183 p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~--~~i~~~~P~~~  260 (396)
                      ..+++||.+|.+...............+..+   +...   ...++.++.++.+ ..... +.+++.  ..+.++..+.+
T Consensus        82 ~~llilDglDE~~~~~~~~~~~~~~~~l~~l---~~~~---~~~~~~liit~r~-~~~~~-~~~~~~~~~~~~l~~~~~~  153 (166)
T PF05729_consen   82 RVLLILDGLDELEEQDQSQERQRLLDLLSQL---LPQA---LPPGVKLIITSRP-RAFPD-LRRRLKQAQILELEPFSEE  153 (166)
T ss_pred             ceEEEEechHhcccchhhhHHHHHHHHHHHH---hhhc---cCCCCeEEEEEcC-ChHHH-HHHhcCCCcEEEECCCCHH
Confidence            6799999999986543321111122222222   2221   1233445555442 22222 444332  45889999999


Q ss_pred             HHHHHHHHHhcC
Q 016044          261 ERAQILKVILKG  272 (396)
Q Consensus       261 er~~il~~~l~~  272 (396)
                      ++.++++.+++.
T Consensus       154 ~~~~~~~~~f~~  165 (166)
T PF05729_consen  154 DIKQYLRKYFSN  165 (166)
T ss_pred             HHHHHHHHHhhc
Confidence            999999988753

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=98.51  E-value=7.3e-07  Score=82.63  Aligned_cols=161  Identities=22%  Similarity=0.360  Sum_probs=97.2

Q ss_pred             ccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHH-H--HHcCCcEEEEecccccch----
Q 016044           90 IGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI-A--KESGAVFINVRISNLMSK----  162 (396)
Q Consensus        90 i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~al-a--~~~~~~~~~i~~~~l~~~----  162 (396)
                      +.|..+-.+.+.+++.....          .+..+.+++.||.|+|||++.... +  ++.|-+|+.+........    
T Consensus        26 l~g~~~~~~~l~~~lkqt~~----------~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~a   95 (408)
T KOG2228|consen   26 LFGVQDEQKHLSELLKQTIL----------HGESNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIA   95 (408)
T ss_pred             eeehHHHHHHHHHHHHHHHH----------hcCCCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHH
Confidence            56777777777766643211          233578999999999999877554 3  367888888776544322    


Q ss_pred             -----------------hhchHHHHHHHHHHHHHHh----C-CcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc
Q 016044          163 -----------------WFGDAQKLVAAVFSLAYKL----Q-PAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF  220 (396)
Q Consensus       163 -----------------~~g~~~~~~~~~f~~a~~~----~-p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~  220 (396)
                                       ..|.....+..+.......    + +-|.++||||.+++.....          -+.+..|-.
T Consensus        96 l~~I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQt----------llYnlfDis  165 (408)
T KOG2228|consen   96 LKGITRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQT----------LLYNLFDIS  165 (408)
T ss_pred             HHHHHHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhH----------HHHHHHHHH
Confidence                             1122222222232222211    1 2344578999986543221          222333322


Q ss_pred             CcCCCCcEEEEEecCCCCC---CcHHHHhccCCc-eEe-CCCCHHHHHHHHHHHhc
Q 016044          221 TTDQNARVMVLAATNRPSE---LDEAILRRLPQA-FEI-GMPDRKERAQILKVILK  271 (396)
Q Consensus       221 ~~~~~~~v~vI~atn~~~~---l~~~l~~R~~~~-i~~-~~P~~~er~~il~~~l~  271 (396)
                       .....++.+||.|.+.+.   +...+.+||... |.+ |..+..+...+++..+.
T Consensus       166 -qs~r~Piciig~Ttrld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll~  220 (408)
T KOG2228|consen  166 -QSARAPICIIGVTTRLDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLLS  220 (408)
T ss_pred             -hhcCCCeEEEEeeccccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHhc
Confidence             234668999999988664   457888899877 444 33468888889888873

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

Probab=98.48  E-value=1.4e-06  Score=91.33  Aligned_cols=127  Identities=19%  Similarity=0.280  Sum_probs=85.1

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCC--CCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccc--
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLL--GPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMS--  161 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~--~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~--  161 (396)
                      .|+|++++...+.+.+.....        ++.  .+...++|.||.|+|||-+|+++|..+   .-.++.++++++..  
T Consensus       563 ~V~gQ~eAv~aIa~AI~~sr~--------gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriDmse~~evs  634 (898)
T KOG1051|consen  563 RVIGQDEAVAAIAAAIRRSRA--------GLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLDMSEFQEVS  634 (898)
T ss_pred             hccchHHHHHHHHHHHHhhhc--------ccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEechhhhhhhh
Confidence            488999999999888864211        112  245678999999999999999999976   45789999886322  


Q ss_pred             -------hhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCC-------CCc
Q 016044          162 -------KWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQ-------NAR  227 (396)
Q Consensus       162 -------~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~-------~~~  227 (396)
                             .|.|..+  ...+....++...+||+|||||...           ..+.+.+++.+|.....+       -.+
T Consensus       635 kligsp~gyvG~e~--gg~LteavrrrP~sVVLfdeIEkAh-----------~~v~n~llq~lD~GrltDs~Gr~Vd~kN  701 (898)
T KOG1051|consen  635 KLIGSPPGYVGKEE--GGQLTEAVKRRPYSVVLFEEIEKAH-----------PDVLNILLQLLDRGRLTDSHGREVDFKN  701 (898)
T ss_pred             hccCCCcccccchh--HHHHHHHHhcCCceEEEEechhhcC-----------HHHHHHHHHHHhcCccccCCCcEeeccc
Confidence                   2333322  2345555556566999999999852           223445555565432211       246


Q ss_pred             EEEEEecCC
Q 016044          228 VMVLAATNR  236 (396)
Q Consensus       228 v~vI~atn~  236 (396)
                      ++||.|+|.
T Consensus       702 ~I~IMTsn~  710 (898)
T KOG1051|consen  702 AIFIMTSNV  710 (898)
T ss_pred             eEEEEeccc
Confidence            889999874

>KOG0481 consensus DNA replication licensing factor, MCM5 component [Replication, recombination and repair]

Probab=98.44  E-value=5e-06  Score=80.86  Aligned_cols=170  Identities=29%  Similarity=0.341  Sum_probs=96.4

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEE-ecc---cccc---
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINV-RIS---NLMS---  161 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i-~~~---~l~~---  161 (396)
                      .|.|.+++|+++.-++..  ........+-.++..-+|||.|.|||.|+.+.+-+-.-.-.-++.- .++   .|..   
T Consensus       332 SIfG~~DiKkAiaClLFg--GsrK~LpDg~~lRGDINVLLLGDPgtAKSQlLKFvEkvsPIaVYTSGKGSSAAGLTASV~  409 (729)
T KOG0481|consen  332 SIFGHEDIKKAIACLLFG--GSRKRLPDGVTLRGDINVLLLGDPGTAKSQLLKFVEKVSPIAVYTSGKGSSAAGLTASVI  409 (729)
T ss_pred             hhcCchhHHHHHHHHhhc--CccccCCCcceeccceeEEEecCCchhHHHHHHHHHhcCceEEEecCCCcccccceeeEE
Confidence            589999999998664431  1111122221123345799999999999999998866433222210 000   0000   


Q ss_pred             ------hhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecC
Q 016044          162 ------KWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATN  235 (396)
Q Consensus       162 ------~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn  235 (396)
                            .++-+...        .-...++|++|||+|.+-....-..+++++.....  -.-.|+...-+.+.-|++++|
T Consensus       410 RD~~tReFylEGGA--------MVLADgGVvCIDEFDKMre~DRVAIHEAMEQQTIS--IAKAGITT~LNSRtSVLAAAN  479 (729)
T KOG0481|consen  410 RDPSTREFYLEGGA--------MVLADGGVVCIDEFDKMREDDRVAIHEAMEQQTIS--IAKAGITTTLNSRTSVLAAAN  479 (729)
T ss_pred             ecCCcceEEEecce--------EEEecCCEEEeehhhccCchhhhHHHHHHHhhhHH--HhhhcceeeecchhhhhhhcC
Confidence                  00000000        00124589999999998554444445555443222  223455555577888999999


Q ss_pred             CCC-------------CCcHHHHhccCCceEeCCCCHHHH-HHHHHHHh
Q 016044          236 RPS-------------ELDEAILRRLPQAFEIGMPDRKER-AQILKVIL  270 (396)
Q Consensus       236 ~~~-------------~l~~~l~~R~~~~i~~~~P~~~er-~~il~~~l  270 (396)
                      ++.             ++-+.+++|||.++-+.--..++| ..|.++.+
T Consensus       480 pvfGRyDd~Kt~~dNIDf~~TILSRFDmIFIVKD~h~~~~D~~lAkHVI  528 (729)
T KOG0481|consen  480 PVFGRYDDTKTGEDNIDFMPTILSRFDMIFIVKDEHDEERDITLAKHVI  528 (729)
T ss_pred             CccccccccCCcccccchhhhHhhhccEEEEEeccCcchhhhHHHHHhh
Confidence            632             233899999998887765443333 34445544

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=98.43  E-value=4.6e-06  Score=78.40  Aligned_cols=126  Identities=14%  Similarity=0.148  Sum_probs=84.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCC-------------cEEEEecccccchhhchHHHHHHHHHHHHH-----HhCCc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGA-------------VFINVRISNLMSKWFGDAQKLVAAVFSLAY-----KLQPA  184 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~-------------~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~-----~~~p~  184 (396)
                      ++.+||+|+.|.||+++++.+++.+-+             .+..++..   +...+  -..++.+.....     .....
T Consensus        18 ~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~---g~~i~--vd~Ir~l~~~~~~~~~~~~~~K   92 (299)
T PRK07132         18 SHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIF---DKDLS--KSEFLSAINKLYFSSFVQSQKK   92 (299)
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccC---CCcCC--HHHHHHHHHHhccCCcccCCce
Confidence            567889999999999999999987622             12222210   11111  112333322221     12457


Q ss_pred             EEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHH
Q 016044          185 IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQ  264 (396)
Q Consensus       185 vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~  264 (396)
                      |++||++|.+..           ...+.+++.++    +++..+++|.+|+.++.+-+++++|+ ..+.|.+|+.++..+
T Consensus        93 vvII~~~e~m~~-----------~a~NaLLK~LE----EPp~~t~~il~~~~~~kll~TI~SRc-~~~~f~~l~~~~l~~  156 (299)
T PRK07132         93 ILIIKNIEKTSN-----------SLLNALLKTIE----EPPKDTYFLLTTKNINKVLPTIVSRC-QVFNVKEPDQQKILA  156 (299)
T ss_pred             EEEEecccccCH-----------HHHHHHHHHhh----CCCCCeEEEEEeCChHhChHHHHhCe-EEEECCCCCHHHHHH
Confidence            999999988721           12335566555    35677888888878899999999999 899999999999887


Q ss_pred             HHHHH
Q 016044          265 ILKVI  269 (396)
Q Consensus       265 il~~~  269 (396)
                      .+...
T Consensus       157 ~l~~~  161 (299)
T PRK07132        157 KLLSK  161 (299)
T ss_pred             HHHHc
Confidence            77653

>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite

Probab=98.43  E-value=1.1e-07  Score=91.20  Aligned_cols=163  Identities=28%  Similarity=0.360  Sum_probs=82.0

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc-----c----
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN-----L----  159 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~-----l----  159 (396)
                      +|.|.+.+|..+--.+......  ....+...+..-++||.|.||+|||.+.+.+++-.... ++.++..     +    
T Consensus        25 ~i~g~~~iK~aill~L~~~~~~--~~~~~~~~r~~ihiLlvGdpg~gKS~ll~~~~~~~pr~-v~~~g~~~s~~gLta~~  101 (331)
T PF00493_consen   25 SIYGHEDIKKAILLQLFGGVEK--NDPDGTRIRGNIHILLVGDPGTGKSQLLKYVAKLAPRS-VYTSGKGSSAAGLTASV  101 (331)
T ss_dssp             TTTT-HHHHHHHCCCCTT--SC--CCCT-TEE--S--EEEECSCHHCHHHHHHCCCCT-SSE-EEEECCGSTCCCCCEEE
T ss_pred             cCcCcHHHHHHHHHHHHhcccc--ccccccccccccceeeccchhhhHHHHHHHHHhhCCce-EEECCCCcccCCcccee
Confidence            5889999998873211110000  00000112334579999999999999999886543322 2222211     1    


Q ss_pred             -----cchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhc---------cCcCCC
Q 016044          160 -----MSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDG---------FTTDQN  225 (396)
Q Consensus       160 -----~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~---------~~~~~~  225 (396)
                           .+.|.-+..     .+-   ....+|++|||+|.+....           ...++..|+.         +...-+
T Consensus       102 ~~d~~~~~~~leaG-----alv---lad~GiccIDe~dk~~~~~-----------~~~l~eaMEqq~isi~kagi~~~l~  162 (331)
T PF00493_consen  102 SRDPVTGEWVLEAG-----ALV---LADGGICCIDEFDKMKEDD-----------RDALHEAMEQQTISIAKAGIVTTLN  162 (331)
T ss_dssp             CCCGGTSSECEEE------HHH---HCTTSEEEECTTTT--CHH-----------HHHHHHHHHCSCEEECTSSSEEEEE
T ss_pred             ccccccceeEEeCC-----chh---cccCceeeecccccccchH-----------HHHHHHHHHcCeeccchhhhccccc
Confidence                 111211111     111   2255999999999983321           1233344432         112224


Q ss_pred             CcEEEEEecCCCC-------------CCcHHHHhccCCceEe-CCCCHHHHHHHHHHHhcCC
Q 016044          226 ARVMVLAATNRPS-------------ELDEAILRRLPQAFEI-GMPDRKERAQILKVILKGE  273 (396)
Q Consensus       226 ~~v~vI~atn~~~-------------~l~~~l~~R~~~~i~~-~~P~~~er~~il~~~l~~~  273 (396)
                      .+.-|++++|+..             .+++.+++|||..+.+ ..|+.+.-..+.++.+...
T Consensus       163 ar~svlaa~NP~~g~~~~~~~~~~ni~l~~~LLSRFDLif~l~D~~d~~~D~~la~~il~~~  224 (331)
T PF00493_consen  163 ARCSVLAAANPKFGRYDPNKSLSENINLPPPLLSRFDLIFLLRDKPDEEEDERLAEHILDSH  224 (331)
T ss_dssp             ---EEEEEE--TT--S-TTS-CGCCT-S-CCCHCC-SEEECC--TTT-HHHHHHHHHHHTTT
T ss_pred             chhhhHHHHhhhhhhcchhhhhHHhcccchhhHhhcCEEEEeccccccccccccceEEEecc
Confidence            5678999999754             4678999999988764 6777777777777777644

; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=98.40  E-value=2.2e-06  Score=72.87  Aligned_cols=72  Identities=26%  Similarity=0.424  Sum_probs=46.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchh------------------------hchHHHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKW------------------------FGDAQKLVAAVFSLA  178 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~------------------------~g~~~~~~~~~f~~a  178 (396)
                      ++++||||+|||+++..++...   +.+++.+++.......                        ..............+
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIVFATADDPAAARLLSKAERLR   81 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHHHHHHHhhhhhccccccEEEEEcCCCCCcHHHHHHHHHHHH
Confidence            6899999999999999998865   4566666553322110                        011111222234445


Q ss_pred             HHhCCcEEEEccccccccC
Q 016044          179 YKLQPAIIFIDEVDSFLGQ  197 (396)
Q Consensus       179 ~~~~p~vl~iDEid~l~~~  197 (396)
                      ....+.+++|||+..+...
T Consensus        82 ~~~~~~~lviDe~~~~~~~  100 (165)
T cd01120          82 ERGGDDLIILDELTRLVRA  100 (165)
T ss_pred             hCCCCEEEEEEcHHHHHHH
Confidence            5667899999999987543

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.

>COG4650 RtcR Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]

Probab=98.39  E-value=5e-07  Score=82.20  Aligned_cols=131  Identities=21%  Similarity=0.391  Sum_probs=79.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH------HcCCcEEEEecccccchhh-chHHHHHHHHHH--------HHHHhCCcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK------ESGAVFINVRISNLMSKWF-GDAQKLVAAVFS--------LAYKLQPAIIF  187 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~------~~~~~~~~i~~~~l~~~~~-g~~~~~~~~~f~--------~a~~~~p~vl~  187 (396)
                      ..++||.||.|.||+.+|+.+..      ++..+|+.++|..+.+... ...-..+...|.        ..+....+++|
T Consensus       208 r~p~ll~gptgagksflarriyelk~arhq~sg~fvevncatlrgd~amsalfghvkgaftga~~~r~gllrsadggmlf  287 (531)
T COG4650         208 RAPILLNGPTGAGKSFLARRIYELKQARHQFSGAFVEVNCATLRGDTAMSALFGHVKGAFTGARESREGLLRSADGGMLF  287 (531)
T ss_pred             cCCeEeecCCCcchhHHHHHHHHHHHHHHhcCCceEEEeeeeecCchHHHHHHhhhccccccchhhhhhhhccCCCceEe
Confidence            46799999999999999999865      5678999999987754321 001111222222        12334568999


Q ss_pred             EccccccccCCCCCchHHHHhhHHHHHHHhh-------ccCcCCCCcEEEEEecCC-------CCCCcHHHHhccCCceE
Q 016044          188 IDEVDSFLGQRRTSDHEALTNMKTEFMALWD-------GFTTDQNARVMVLAATNR-------PSELDEAILRRLPQAFE  253 (396)
Q Consensus       188 iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~-------~~~~~~~~~v~vI~atn~-------~~~l~~~l~~R~~~~i~  253 (396)
                      +|||..+....+.           .+++.++       |........+.+|+.|-+       .....+.+.-|+ ....
T Consensus       288 ldeigelgadeqa-----------mllkaieekrf~pfgsdr~v~sdfqliagtvrdlrq~vaeg~fredl~ari-nlwt  355 (531)
T COG4650         288 LDEIGELGADEQA-----------MLLKAIEEKRFYPFGSDRQVSSDFQLIAGTVRDLRQLVAEGKFREDLYARI-NLWT  355 (531)
T ss_pred             hHhhhhcCccHHH-----------HHHHHHHhhccCCCCCccccccchHHhhhhHHHHHHHHhccchHHHHHHhh-heee
Confidence            9999998543322           2222222       111122345566666543       223445666677 6677


Q ss_pred             eCCCCHHHHHHH
Q 016044          254 IGMPDRKERAQI  265 (396)
Q Consensus       254 ~~~P~~~er~~i  265 (396)
                      |..|...+|.+-
T Consensus       356 f~lpgl~qr~ed  367 (531)
T COG4650         356 FTLPGLRQRQED  367 (531)
T ss_pred             eeccccccCccc
Confidence            888888777653

>PLN03210 Resistant to P

Probab=98.38  E-value=6.2e-06  Score=91.88  Aligned_cols=176  Identities=17%  Similarity=0.236  Sum_probs=97.5

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcE---EEEecc--
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVF---INVRIS--  157 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~---~~i~~~--  157 (396)
                      +...+++++|.+...+++..++..-            ....+-+-|+|++|+||||+|+++++.....|   +.++..  
T Consensus       179 ~~~~~~~~vG~~~~l~~l~~lL~l~------------~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~~~v  246 (1153)
T PLN03210        179 PSNDFEDFVGIEDHIAKMSSLLHLE------------SEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFI  246 (1153)
T ss_pred             cCcccccccchHHHHHHHHHHHccc------------cCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeecccc
Confidence            3457899999999999998766320            12246688999999999999999988764332   111110  


Q ss_pred             ----cccch-----h---hchHHHHHHH-------------HHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHH
Q 016044          158 ----NLMSK-----W---FGDAQKLVAA-------------VFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTE  212 (396)
Q Consensus       158 ----~l~~~-----~---~g~~~~~~~~-------------~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~  212 (396)
                          .....     +   ..-....+..             ........++.+|+|||++..                 .
T Consensus       247 ~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~~~~~~~~~~~~L~~krvLLVLDdv~~~-----------------~  309 (1153)
T PLN03210        247 SKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHRKVLIFIDDLDDQ-----------------D  309 (1153)
T ss_pred             ccchhhcccccccccchhHHHHHHHHHHHhCCCCcccCCHHHHHHHHhCCeEEEEEeCCCCH-----------------H
Confidence                00000     0   0000011111             111112335578999998753                 1


Q ss_pred             HHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCC----HHHHHH
Q 016044          213 FMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENID----FDYLAG  286 (396)
Q Consensus       213 ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~----l~~la~  286 (396)
                      .+..+.+.......+..||.||...     .+.+  ..+..+.++.|+.++-.+++..++.+..... .+    ..++++
T Consensus       310 ~l~~L~~~~~~~~~GsrIIiTTrd~-----~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~-~~~~~l~~~iv~  383 (1153)
T PLN03210        310 VLDALAGQTQWFGSGSRIIVITKDK-----HFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPP-DGFMELASEVAL  383 (1153)
T ss_pred             HHHHHHhhCccCCCCcEEEEEeCcH-----HHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCc-HHHHHHHHHHHH
Confidence            1111211111112234556666643     2332  3567789999999999999988875433221 12    234667


Q ss_pred             hCCCCcH
Q 016044          287 LCEGFTG  293 (396)
Q Consensus       287 ~~~g~s~  293 (396)
                      .+.|..-
T Consensus       384 ~c~GLPL  390 (1153)
T PLN03210        384 RAGNLPL  390 (1153)
T ss_pred             HhCCCcH
Confidence            7777553

syringae 6; Provisional

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=98.34  E-value=4e-07  Score=79.30  Aligned_cols=72  Identities=28%  Similarity=0.445  Sum_probs=46.4

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhhchHH-HHHHHHHHHHHHhCCcEEEEcccccc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWFGDAQ-KLVAAVFSLAYKLQPAIIFIDEVDSF  194 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~g~~~-~~~~~~f~~a~~~~p~vl~iDEid~l  194 (396)
                      ....+++|+||||||||++|.++++++   |..+..++.+++......... ......+...  ....+|+|||+...
T Consensus        45 ~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l--~~~dlLilDDlG~~  120 (178)
T PF01695_consen   45 ENGENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRL--KRVDLLILDDLGYE  120 (178)
T ss_dssp             SC--EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHH--HTSSCEEEETCTSS
T ss_pred             ccCeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEeecCceeccccccccccchhhhcCcc--ccccEeccccccee
Confidence            345899999999999999999998854   788888888877655332110 1112222222  24589999999653

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.

>CHL00195 ycf46 Ycf46; Provisional

Probab=98.32  E-value=6.1e-05  Score=75.64  Aligned_cols=164  Identities=11%  Similarity=0.234  Sum_probs=106.8

Q ss_pred             CcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHH
Q 016044          183 PAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKER  262 (396)
Q Consensus       183 p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er  262 (396)
                      |+++++.|+|.++..      ....+.+..+......     ..+.+|+.+.+  ..+++.|.+-+ .++.+|+|+.+|+
T Consensus        82 ~~~~vl~d~h~~~~~------~~~~r~l~~l~~~~~~-----~~~~~i~~~~~--~~~p~el~~~~-~~~~~~lP~~~ei  147 (489)
T CHL00195         82 PALFLLKDFNRFLND------ISISRKLRNLSRILKT-----QPKTIIIIASE--LNIPKELKDLI-TVLEFPLPTESEI  147 (489)
T ss_pred             CcEEEEecchhhhcc------hHHHHHHHHHHHHHHh-----CCCEEEEEcCC--CCCCHHHHhce-eEEeecCcCHHHH
Confidence            689999999998732      1233444444443332     22344444432  45777776654 7889999999999


Q ss_pred             HHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhccc
Q 016044          263 AQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRK  341 (396)
Q Consensus       263 ~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~~  341 (396)
                      .++++.+....... ++.+++.+++.+.|+|..+++.++..+..    .             ...++.+++...++..+.
T Consensus       148 ~~~l~~~~~~~~~~~~~~~~~~l~~~~~gls~~~~~~~~~~~~~----~-------------~~~~~~~~~~~i~~~k~q  210 (489)
T CHL00195        148 KKELTRLIKSLNIKIDSELLENLTRACQGLSLERIRRVLSKIIA----T-------------YKTIDENSIPLILEEKKQ  210 (489)
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCHHHHHHHHHHHHH----H-------------cCCCChhhHHHHHHHHHH
Confidence            99998887644333 44557899999999999999998876332    1             033566665555543332


Q ss_pred             chhhhhhhhccCCCCCccccCCCccHhHHHHHHHHHHH
Q 016044          342 TRVAATEYTLNSQSSGWSRNNESNDYQVQAAISELSRL  379 (396)
Q Consensus       342 ~~~~~~~~~~~~~~~~w~di~~~~~~~~~~~L~ei~~~  379 (396)
                      ............+.++|+|+||.+  .+|+.|.+....
T Consensus       211 ~~~~~~~le~~~~~~~~~dvgGl~--~lK~~l~~~~~~  246 (489)
T CHL00195        211 IISQTEILEFYSVNEKISDIGGLD--NLKDWLKKRSTS  246 (489)
T ss_pred             HHhhhccccccCCCCCHHHhcCHH--HHHHHHHHHHHH
Confidence            211111223335778999999999  899888876443

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=98.31  E-value=2.5e-05  Score=70.15  Aligned_cols=173  Identities=15%  Similarity=0.210  Sum_probs=101.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCC---cEEEEeccccc-----chhhc------------hHHHHHHHHHHHHHHh-CC
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGA---VFINVRISNLM-----SKWFG------------DAQKLVAAVFSLAYKL-QP  183 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~---~~~~i~~~~l~-----~~~~g------------~~~~~~~~~f~~a~~~-~p  183 (396)
                      -+.++|+.|+|||+++|++...++.   ..+.++...+.     ..++.            ..++.-+.+.....+. .|
T Consensus        53 ~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~al~~~g~r~  132 (269)
T COG3267          53 ILAVTGEVGSGKTVLRRALLASLNEDQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAALVKKGKRP  132 (269)
T ss_pred             eEEEEecCCCchhHHHHHHHHhcCCCceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHHHHHhCCCC
Confidence            4678999999999999988776642   22334332221     11111            1222333333344443 35


Q ss_pred             cEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCc--EEEEEecCCCCCCc----HHHHhccCCceEeCCC
Q 016044          184 AIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNAR--VMVLAATNRPSELD----EAILRRLPQAFEIGMP  257 (396)
Q Consensus       184 ~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~--v~vI~atn~~~~l~----~~l~~R~~~~i~~~~P  257 (396)
                      -++++||.+.+..+.    .+.        +..+.....+....  ++++|-..-...+-    ..+..|++.+|.+++.
T Consensus       133 v~l~vdEah~L~~~~----le~--------Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~  200 (269)
T COG3267         133 VVLMVDEAHDLNDSA----LEA--------LRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPL  200 (269)
T ss_pred             eEEeehhHhhhChhH----HHH--------HHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCc
Confidence            899999999883322    111        12222222222333  55555432211111    2333488777899999


Q ss_pred             CHHHHHHHHHHHhcCCCCC----CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHH
Q 016044          258 DRKERAQILKVILKGEKVE----ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE  310 (396)
Q Consensus       258 ~~~er~~il~~~l~~~~~~----~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~  310 (396)
                      +.++-...+++.+.+....    ++-.+..+...+.| .|..|.++|..|...+...
T Consensus       201 ~~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg-~P~lin~~~~~Al~~a~~a  256 (269)
T COG3267         201 TEAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQG-IPRLINNLATLALDAAYSA  256 (269)
T ss_pred             ChHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhcc-chHHHHHHHHHHHHHHHHc
Confidence            9999999999998755433    34446778888888 5678889988887777653

>KOG2383 consensus Predicted ATPase [General function prediction only]

Probab=98.29  E-value=1e-05  Score=76.80  Aligned_cols=162  Identities=23%  Similarity=0.264  Sum_probs=83.9

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCCcE--EEEecccccchhhch---------------HH----HHHHHHHHHH
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKESGAVF--INVRISNLMSKWFGD---------------AQ----KLVAAVFSLA  178 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~~~~~--~~i~~~~l~~~~~g~---------------~~----~~~~~~f~~a  178 (396)
                      ..+|+|++|||..|||||||.-.+...+....  -.++..+++......               +.    ..+.-+-...
T Consensus       111 ~~~PkGlYlYG~VGcGKTmLMDlFy~~~~~i~rkqRvHFh~fM~~VH~r~H~~k~~~~~~~~~~a~~~~~Dpl~~vA~eI  190 (467)
T KOG2383|consen  111 PGPPKGLYLYGSVGCGKTMLMDLFYDALPPIWRKQRVHFHGFMLSVHKRMHELKQEQGAEKPGYAKSWEIDPLPVVADEI  190 (467)
T ss_pred             CCCCceEEEecccCcchhHHHHHHhhcCCchhhhhhhhHHHHHHHHHHHHHHHHHhccccCccccccccCCccHHHHHHH
Confidence            45699999999999999999998875432100  011222221110000               00    0011111111


Q ss_pred             HHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC-CCCCcHHHHhccCCceEeCCC
Q 016044          179 YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR-PSELDEAILRRLPQAFEIGMP  257 (396)
Q Consensus       179 ~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~-~~~l~~~l~~R~~~~i~~~~P  257 (396)
                      . ....+|++||+..-    +-    +-..+++.+...+-      ..++++++|+|+ |++|-..=+.|-   ..+|  
T Consensus       191 a-~ea~lLCFDEfQVT----DV----ADAmiL~rLf~~Lf------~~GvVlvATSNR~P~dLYknGlQR~---~F~P--  250 (467)
T KOG2383|consen  191 A-EEAILLCFDEFQVT----DV----ADAMILKRLFEHLF------KNGVVLVATSNRAPEDLYKNGLQRE---NFIP--  250 (467)
T ss_pred             h-hhceeeeechhhhh----hH----HHHHHHHHHHHHHH------hCCeEEEEeCCCChHHHhhcchhhh---hhhh--
Confidence            1 12379999999753    11    11122333333222      236899999997 455543222221   1111  


Q ss_pred             CHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCC-C--CcHH-HHHHHHHHHHH
Q 016044          258 DRKERAQILKVILKGEKVEENIDFDYLAGLCE-G--FTGS-DLLEVCKQAAY  305 (396)
Q Consensus       258 ~~~er~~il~~~l~~~~~~~~~~l~~la~~~~-g--~s~~-di~~l~~~A~~  305 (396)
                          -..+|+..+.-..+.+.+|....++-.+ +  |.+. |...++++-..
T Consensus       251 ----fI~~L~~rc~vi~ldS~vDYR~~~~~~~~~~yf~~~~d~~~~l~~~fk  298 (467)
T KOG2383|consen  251 ----FIALLEERCKVIQLDSGVDYRRKAKSAGENYYFISETDVETVLKEWFK  298 (467)
T ss_pred             ----HHHHHHHhheEEecCCccchhhccCCCCceeEecChhhHHHHHHHHHH
Confidence                2467788888777778888874433222 1  4444 77777766443

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=98.29  E-value=4.3e-06  Score=78.54  Aligned_cols=157  Identities=20%  Similarity=0.179  Sum_probs=82.3

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHH--cCCcE---EEEecccccc------h-------------hhchHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKE--SGAVF---INVRISNLMS------K-------------WFGDAQKLVAAVFSL  177 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~--~~~~~---~~i~~~~l~~------~-------------~~g~~~~~~~~~f~~  177 (396)
                      ..+-|.|+|++|+|||++|+.+++.  ....|   +.++.+.-..      .             .....+.....+.. 
T Consensus        18 ~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~-   96 (287)
T PF00931_consen   18 EVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSISDPKDIEELQDQLRE-   96 (287)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STSSCCSSHHHHHHHHHH-
T ss_pred             CeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccccccccccccccccchh-
Confidence            3567899999999999999999976  33222   2233321110      0             00112333333333 


Q ss_pred             HHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCC
Q 016044          178 AYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMP  257 (396)
Q Consensus       178 a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P  257 (396)
                      .....+++|+||+++...         ..    ..+...+..    ...+..+|.||.... +....... ...+.++..
T Consensus        97 ~L~~~~~LlVlDdv~~~~---------~~----~~l~~~~~~----~~~~~kilvTTR~~~-v~~~~~~~-~~~~~l~~L  157 (287)
T PF00931_consen   97 LLKDKRCLLVLDDVWDEE---------DL----EELREPLPS----FSSGSKILVTTRDRS-VAGSLGGT-DKVIELEPL  157 (287)
T ss_dssp             HHCCTSEEEEEEEE-SHH---------HH-----------HC----HHSS-EEEEEESCGG-GGTTHHSC-EEEEECSS-
T ss_pred             hhccccceeeeeeecccc---------cc----ccccccccc----ccccccccccccccc-cccccccc-ccccccccc
Confidence            333457999999998652         11    111111111    122345666766433 22212111 367899999


Q ss_pred             CHHHHHHHHHHHhcCCCC---C-CCCCHHHHHHhCCCCcHHHHHHH
Q 016044          258 DRKERAQILKVILKGEKV---E-ENIDFDYLAGLCEGFTGSDLLEV  299 (396)
Q Consensus       258 ~~~er~~il~~~l~~~~~---~-~~~~l~~la~~~~g~s~~di~~l  299 (396)
                      +.++-.+++.........   . .......+++.+.|. |-.|..+
T Consensus       158 ~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~gl-PLal~~~  202 (287)
T PF00931_consen  158 SEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGL-PLALKLI  202 (287)
T ss_dssp             -HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT--HHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccc-ccccccc
Confidence            999999999998764431   1 122256788888874 4445444

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=98.28  E-value=7e-06  Score=73.45  Aligned_cols=78  Identities=17%  Similarity=0.331  Sum_probs=51.2

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEecccccchhh-----------------------chHHHHHH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRISNLMSKWF-----------------------GDAQKLVA  172 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~~~l~~~~~-----------------------g~~~~~~~  172 (396)
                      ++....-++++||||||||+++..++..   .+...++++...+....+                       .+....+.
T Consensus         8 Gi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~~~~~rl~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~   87 (209)
T TIGR02237         8 GVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEGLSPERFKQIAEDRPERALSNFIVFEVFDFDEQGVAIQ   87 (209)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCCHHHHHHHHHhChHHHhcCEEEEECCCHHHHHHHHH
Confidence            3666677899999999999999998764   356777777765211100                       01111233


Q ss_pred             HHHHHHHHhCCcEEEEcccccccc
Q 016044          173 AVFSLAYKLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       173 ~~f~~a~~~~p~vl~iDEid~l~~  196 (396)
                      .+...+....+++|+||-+..+..
T Consensus        88 ~l~~~~~~~~~~lvVIDSis~l~~  111 (209)
T TIGR02237        88 KTSKFIDRDSASLVVVDSFTALYR  111 (209)
T ss_pred             HHHHHHhhcCccEEEEeCcHHHhH
Confidence            334444445789999999998754

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=98.22  E-value=1.8e-06  Score=93.47  Aligned_cols=146  Identities=21%  Similarity=0.321  Sum_probs=93.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc------chhh-ch--HH-HHHHHHHHHHHHhCCcEEEEcccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM------SKWF-GD--AQ-KLVAAVFSLAYKLQPAIIFIDEVD  192 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~------~~~~-g~--~~-~~~~~~f~~a~~~~p~vl~iDEid  192 (396)
                      .+++||.|.||+|||++..++|+..|-.++.++.++-.      +.+. ++  .+ .....-|-.|.+ +++-+++||++
T Consensus      1543 ~kpilLEGsPGVGKTSlItaLAr~tG~kliRINLSeQTdL~DLfGsd~Pve~~Gef~w~dapfL~amr-~G~WVlLDEiN 1621 (4600)
T COG5271        1543 GKPILLEGSPGVGKTSLITALARKTGKKLIRINLSEQTDLCDLFGSDLPVEEGGEFRWMDAPFLHAMR-DGGWVLLDEIN 1621 (4600)
T ss_pred             CCceeecCCCCccHHHHHHHHHHHhcCceEEeeccccchHHHHhCCCCCcccCceeEecccHHHHHhh-cCCEEEeehhh
Confidence            47899999999999999999999999999999986532      2111 11  11 122233444443 45899999998


Q ss_pred             ccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC------CCcHHHHhccCCceEeCCCCHHHHHHHH
Q 016044          193 SFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS------ELDEAILRRLPQAFEIGMPDRKERAQIL  266 (396)
Q Consensus       193 ~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~------~l~~~l~~R~~~~i~~~~P~~~er~~il  266 (396)
                      ....+.-.+....+......++-.+|... +...++.|+||.|+.+      .++..+..|| .++.+...+.++...|.
T Consensus      1622 LaSQSVlEGLNacLDhR~eayIPEld~~f-~~HpnfrVFAaqNPq~qggGRKgLPkSF~nRF-svV~~d~lt~dDi~~Ia 1699 (4600)
T COG5271        1622 LASQSVLEGLNACLDHRREAYIPELDKTF-DVHPNFRVFAAQNPQDQGGGRKGLPKSFLNRF-SVVKMDGLTTDDITHIA 1699 (4600)
T ss_pred             hhHHHHHHHHHHHHhhcccccccccccee-eccCCeeeeeecCchhcCCCcccCCHHHhhhh-heEEecccccchHHHHH
Confidence            65322222222222221122222233222 2356789999998754      5899999999 88888888777777777


Q ss_pred             HHHhc
Q 016044          267 KVILK  271 (396)
Q Consensus       267 ~~~l~  271 (396)
                      .....
T Consensus      1700 ~~~yp 1704 (4600)
T COG5271        1700 NKMYP 1704 (4600)
T ss_pred             HhhCC
Confidence            66554

>PHA00729 NTP-binding motif containing protein

Probab=98.21  E-value=6e-06  Score=73.87  Aligned_cols=25  Identities=28%  Similarity=0.517  Sum_probs=23.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      .+++|+|+||||||++|.+++..++
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5799999999999999999999875

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=98.18  E-value=6.3e-06  Score=65.53  Aligned_cols=23  Identities=52%  Similarity=0.951  Sum_probs=20.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcC
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~  148 (396)
                      |+|+||||+|||++|+.+++.+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~   23 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLL   23 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHH
Confidence            58999999999999999988664

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.18  E-value=4.6e-05  Score=63.69  Aligned_cols=25  Identities=36%  Similarity=0.577  Sum_probs=22.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ...+.++|+||+||||++..++..+
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L   29 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKL   29 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHH
Confidence            4568999999999999999999755

>KOG1968 consensus Replication factor C, subunit RFC1 (large subunit) [Replication, recombination and repair]

Probab=98.12  E-value=4.1e-06  Score=88.52  Aligned_cols=207  Identities=18%  Similarity=0.237  Sum_probs=124.0

Q ss_pred             CCCcccccccChHHHHHHHHHHHHcccc-ChhhhhcCCCCCCCc-eEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLR-RPELFSHGKLLGPQK-GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~-~~~~~~~~~~~~~~~-~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      +.+.+..++.|.......+..++...-. .+..|.......... .++++||||+|||+.+...|.++|..++..|.++.
T Consensus       314 ~~p~~~k~~~~~~~~~~~~~~~l~~~k~~~~~sy~~~~~~ss~~~~~l~~G~pGigKT~~~h~~~k~~g~~v~E~Nas~~  393 (871)
T KOG1968|consen  314 YQPTSSKALEGNASSSKKASKWLAKSKDKEKSSYKENEPDSSKKKALLLSGPPGIGKTTAAHKAAKELGFKVVEKNASDV  393 (871)
T ss_pred             cccccHHhhhcccchhhhhhhHHHhhhccccccccccCcchhhHHHHHhcCCCCCCchhhHhhhhhhcccceeecCcccc
Confidence            3445556777776666666555543211 111222221111122 36899999999999999999999999999999877


Q ss_pred             cchhhc-----h--HHHHHHHHH---HHH--HHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCc
Q 016044          160 MSKWFG-----D--AQKLVAAVF---SLA--YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNAR  227 (396)
Q Consensus       160 ~~~~~g-----~--~~~~~~~~f---~~a--~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~  227 (396)
                      .++...     +  ....+...+   ...  ......||++||+|.+.... .+...       .+.....      ...
T Consensus       394 RSk~~l~~~~~~~~~s~si~~~~~~~~~~~~~~~~~~vil~devD~~~~~d-Rg~v~-------~l~~l~~------ks~  459 (871)
T KOG1968|consen  394 RSKKELLNKLGNATSSHSIKGSKKKKGNRQSLNSDHFLILMDEVDGMFGED-RGGVS-------KLSSLCK------KSS  459 (871)
T ss_pred             ccccHHHhhhhccccccchhhhhcccccccccccceeEEEEeccccccchh-hhhHH-------HHHHHHH------hcc
Confidence            655321     1  011111112   000  00112499999999986622 21211       2222222      223


Q ss_pred             EEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHH
Q 016044          228 VMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYF  306 (396)
Q Consensus       228 v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~  306 (396)
                      .-+|+++|...........|.+..++|+.|+...+..-+..++...... .+-.++++.+.+    ++||++.+..-.+.
T Consensus       460 ~Piv~~cndr~~p~sr~~~~~~~~l~f~kP~~~~i~~ri~si~~se~~ki~~~~l~~~s~~~----~~DiR~~i~~lq~~  535 (871)
T KOG1968|consen  460 RPLVCTCNDRNLPKSRALSRACSDLRFSKPSSELIRSRIMSICKSEGIKISDDVLEEISKLS----GGDIRQIIMQLQFW  535 (871)
T ss_pred             CCeEEEecCCCCccccchhhhcceeeecCCcHHHHHhhhhhhhcccceecCcHHHHHHHHhc----ccCHHHHHHHHhhh
Confidence            4678888877666554555555789999999999999888888765554 233355666544    67888887665444

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

Probab=98.08  E-value=4.5e-05  Score=80.34  Aligned_cols=139  Identities=19%  Similarity=0.276  Sum_probs=96.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc----------CCcEEEEecccc--cchhhchHHHHHHHHHHHHHHh-CCcEEEEcc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES----------GAVFINVRISNL--MSKWFGDAQKLVAAVFSLAYKL-QPAIIFIDE  190 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~----------~~~~~~i~~~~l--~~~~~g~~~~~~~~~f~~a~~~-~p~vl~iDE  190 (396)
                      ++-+|.|.||+|||.++.-+++..          +..++.++...+  ..++.|+.+..+..+...+... .+.||||||
T Consensus       209 ~NPvLVG~~gvgktaiv~gla~ri~~G~vp~~l~~~~l~~l~~g~l~aGa~~rge~E~rlk~l~k~v~~~~~gvILfige  288 (898)
T KOG1051|consen  209 NNPVLVGEPGVGKTAIVEGLAQRIATGDVPETLKDKKLIALDFGSLVAGAKRRGEFEERLKELLKEVESGGGGVILFLGE  288 (898)
T ss_pred             CCceEEecCCCCchhHHHHHHHHhhcCCCCccccccceEEEEhhhcccCcccchHHHHHHHHHHHHHhcCCCcEEEEecc
Confidence            677999999999999999998843          345566665533  3456788999999999888743 456889999


Q ss_pred             ccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC-----CCCcHHHHhccCCceEeCCCCHHHHHHH
Q 016044          191 VDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP-----SELDEAILRRLPQAFEIGMPDRKERAQI  265 (396)
Q Consensus       191 id~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~-----~~l~~~l~~R~~~~i~~~~P~~~er~~i  265 (396)
                      ++-+.+......   ..... .++..+-.     .+.+.+||||...     -.-+|++-+|| ..+.++.|+.+.-..+
T Consensus       289 lh~lvg~g~~~~---~~d~~-nlLkp~L~-----rg~l~~IGatT~e~Y~k~iekdPalErrw-~l~~v~~pS~~~~~~i  358 (898)
T KOG1051|consen  289 LHWLVGSGSNYG---AIDAA-NLLKPLLA-----RGGLWCIGATTLETYRKCIEKDPALERRW-QLVLVPIPSVENLSLI  358 (898)
T ss_pred             eeeeecCCCcch---HHHHH-HhhHHHHh-----cCCeEEEecccHHHHHHHHhhCcchhhCc-ceeEeccCcccchhhh
Confidence            999987765421   11112 22222211     3348899887632     23478999999 6778999998876666


Q ss_pred             HHHHhcC
Q 016044          266 LKVILKG  272 (396)
Q Consensus       266 l~~~l~~  272 (396)
                      |......
T Consensus       359 L~~l~~~  365 (898)
T KOG1051|consen  359 LPGLSER  365 (898)
T ss_pred             hhhhhhh
Confidence            6665543

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=98.07  E-value=9.1e-06  Score=72.82  Aligned_cols=22  Identities=45%  Similarity=0.700  Sum_probs=20.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIA  144 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala  144 (396)
                      +..+||||+||+|||++|+.++
T Consensus        12 ~~~~liyG~~G~GKtt~a~~~~   33 (220)
T TIGR01618        12 PNMYLIYGKPGTGKTSTIKYLP   33 (220)
T ss_pred             CcEEEEECCCCCCHHHHHHhcC
Confidence            5679999999999999999996

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.

>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=98.06  E-value=3.8e-06  Score=68.11  Aligned_cols=31  Identities=39%  Similarity=0.717  Sum_probs=27.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEEec
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRI  156 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i~~  156 (396)
                      |+|.|||||||||+|+.+++.+|.+++.++.
T Consensus         2 I~I~G~~gsGKST~a~~La~~~~~~~i~~d~   32 (121)
T PF13207_consen    2 IIISGPPGSGKSTLAKELAERLGFPVISMDD   32 (121)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTCEEEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEEEecc
Confidence            6899999999999999999999988776653

...

>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=98.04  E-value=6.1e-05  Score=65.90  Aligned_cols=71  Identities=24%  Similarity=0.315  Sum_probs=44.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchh-------------------------------hchHH---
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKW-------------------------------FGDAQ---  168 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~-------------------------------~g~~~---  168 (396)
                      ++++||||||||+++..++.+.   |.+++.++..+-....                               .+...   
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~~~~~~~~~~~~~g~~~~~l~~~g~l~~~d~~~~~~s~~~~~~~~   81 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEESPEELIENAESLGWDLERLEDEGLLAIVDADPDEIGPAESSLRL   81 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHcCCChHHHHhcCCeEEEecCccccchhhhhhhH
Confidence            6899999999999999886643   5566555542211100                               00000   


Q ss_pred             HHHHHHHHHHHHhCCcEEEEcccccccc
Q 016044          169 KLVAAVFSLAYKLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       169 ~~~~~~f~~a~~~~p~vl~iDEid~l~~  196 (396)
                      .....+...+...+|.+++||++..+..
T Consensus        82 ~~~~~i~~~~~~~~~~~lviD~~~~~~~  109 (187)
T cd01124          82 ELIQRLKDAIEEFKAKRVVIDSVSGLLL  109 (187)
T ss_pred             HHHHHHHHHHHHhCCCEEEEeCcHHHhh
Confidence            1123344444566889999999998754

A related protein is found in archaea.

>TIGR02688 conserved hypothetical protein TIGR02688

Probab=98.03  E-value=4.5e-05  Score=74.00  Aligned_cols=65  Identities=22%  Similarity=0.347  Sum_probs=40.3

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHH----cCCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccc
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKE----SGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFL  195 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~----~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~  195 (396)
                      .....++++.||+|||||+++.+++..    .|   -.++...+...    ...   .....  -....+|+|||+..+.
T Consensus       206 ve~~~Nli~lGp~GTGKThla~~l~~~~a~~sG---~f~T~a~Lf~~----L~~---~~lg~--v~~~DlLI~DEvgylp  273 (449)
T TIGR02688       206 VEPNYNLIELGPKGTGKSYIYNNLSPYVILISG---GTITVAKLFYN----IST---RQIGL--VGRWDVVAFDEVATLK  273 (449)
T ss_pred             HhcCCcEEEECCCCCCHHHHHHHHhHHHHHHcC---CcCcHHHHHHH----HHH---HHHhh--hccCCEEEEEcCCCCc
Confidence            445678999999999999999998765    23   12222222211    111   11111  2245899999999864


Q ss_pred             c
Q 016044          196 G  196 (396)
Q Consensus       196 ~  196 (396)
                      -
T Consensus       274 ~  274 (449)
T TIGR02688       274 F  274 (449)
T ss_pred             C
Confidence            3

Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.

>PF14516 AAA_35: AAA-like domain

Probab=98.03  E-value=0.00012  Score=70.27  Aligned_cols=171  Identities=16%  Similarity=0.209  Sum_probs=94.8

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhhch-------------------------------H
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWFGD-------------------------------A  167 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~g~-------------------------------~  167 (396)
                      ++..+.+.||..+|||++...+.+.+   |...+.+++..+.......                               .
T Consensus        30 ~G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~f~~~~~~~i~~~L~l~~~l~~~w~~~~~~  109 (331)
T PF14516_consen   30 PGSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQFLRWFCEEISRQLKLDEKLDEYWDEEIGS  109 (331)
T ss_pred             CCCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHHHHHHHHHHHHHHcCCChhHHHHHHHhcCC
Confidence            35678999999999999998886644   7788888886653211100                               0


Q ss_pred             HHHHHHHHHHH---HHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcC-----CCCcEEEEEecCCCCC
Q 016044          168 QKLVAAVFSLA---YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD-----QNARVMVLAATNRPSE  239 (396)
Q Consensus       168 ~~~~~~~f~~a---~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~-----~~~~v~vI~atn~~~~  239 (396)
                      .......|...   ...+|-||+|||+|.++....         +...|+..+..+...     ...++.+|.+...+..
T Consensus       110 ~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~---------~~~dF~~~LR~~~~~~~~~~~~~~L~li~~~~t~~~  180 (331)
T PF14516_consen  110 KISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQ---------IADDFFGLLRSWYEQRKNNPIWQKLRLILAGSTEDY  180 (331)
T ss_pred             hhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcc---------hHHHHHHHHHHHHHhcccCcccceEEEEEecCcccc
Confidence            01111122221   123578999999999865321         112333333332211     1123444444332221


Q ss_pred             CcHHH-Hh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHH
Q 016044          240 LDEAI-LR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAY  305 (396)
Q Consensus       240 l~~~l-~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~  305 (396)
                      +.... .+  .+...+.++..+.+|...+++.+-..  ... ..++.+-..+.|. |-=+..+|...+.
T Consensus       181 ~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~--~~~-~~~~~l~~~tgGh-P~Lv~~~~~~l~~  245 (331)
T PF14516_consen  181 IILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE--FSQ-EQLEQLMDWTGGH-PYLVQKACYLLVE  245 (331)
T ss_pred             cccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc--CCH-HHHHHHHHHHCCC-HHHHHHHHHHHHH
Confidence            21111 11  34456778888999998888776432  221 2278888888884 4455666655544

>COG1485 Predicted ATPase [General function prediction only]

Probab=98.01  E-value=1.9e-05  Score=74.11  Aligned_cols=104  Identities=19%  Similarity=0.332  Sum_probs=57.7

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCCcE-EEEecccccchhh-------chHHHHHHHHHHHHHHhCCcEEEEccc
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKESGAVF-INVRISNLMSKWF-------GDAQKLVAAVFSLAYKLQPAIIFIDEV  191 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~~~~~-~~i~~~~l~~~~~-------g~~~~~~~~~f~~a~~~~p~vl~iDEi  191 (396)
                      ..+++|++|||+-|+|||+|.-.+...+..+- ..++.-.++....       |++ ..+..+-... ..+..||+|||+
T Consensus        62 ~~~~~GlYl~GgVGrGKT~LMD~Fy~~lp~~~k~R~HFh~FM~~vH~~l~~l~g~~-dpl~~iA~~~-~~~~~vLCfDEF  139 (367)
T COG1485          62 HGPVRGLYLWGGVGRGKTMLMDLFYESLPGERKRRLHFHRFMARVHQRLHTLQGQT-DPLPPIADEL-AAETRVLCFDEF  139 (367)
T ss_pred             CCCCceEEEECCCCccHHHHHHHHHhhCCccccccccHHHHHHHHHHHHHHHcCCC-CccHHHHHHH-HhcCCEEEeeee
Confidence            34689999999999999999999988764322 2233223322111       211 1111111111 113379999999


Q ss_pred             cccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC-CCC
Q 016044          192 DSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR-PSE  239 (396)
Q Consensus       192 d~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~-~~~  239 (396)
                      ..-    +-.+..    ++..|+..+-      ..+|++++|+|. |+.
T Consensus       140 ~Vt----DI~DAM----iL~rL~~~Lf------~~GV~lvaTSN~~P~~  174 (367)
T COG1485         140 EVT----DIADAM----ILGRLLEALF------ARGVVLVATSNTAPDN  174 (367)
T ss_pred             eec----ChHHHH----HHHHHHHHHH------HCCcEEEEeCCCChHH
Confidence            752    222222    3334443332      246899999995 443

>PHA02624 large T antigen; Provisional

Probab=97.98  E-value=6.1e-05  Score=76.01  Aligned_cols=122  Identities=16%  Similarity=0.213  Sum_probs=71.6

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCC
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRR  199 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~  199 (396)
                      .+..+.++|+||||||||+++.++++.++...+.++++.-.+.          ..+..+.  ...+.+|||+-.-.....
T Consensus       428 iPKk~~il~~GPpnTGKTtf~~sLl~~L~G~vlsVNsPt~ks~----------FwL~pl~--D~~~~l~dD~t~~~~~~~  495 (647)
T PHA02624        428 VPKRRYWLFKGPVNSGKTTLAAALLDLCGGKSLNVNCPPDKLN----------FELGCAI--DQFMVVFEDVKGQPADNK  495 (647)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHcCCeEEEeeCCcchhH----------HHhhhhh--hceEEEeeeccccccccc
Confidence            3445689999999999999999999999777777875542211          1111121  225888999864322110


Q ss_pred             --CCchHHHHhhHHHHHHHhhcc-CcC----CCCc-----EEEEEecCCCCCCcHHHHhccCCceEeCC
Q 016044          200 --TSDHEALTNMKTEFMALWDGF-TTD----QNAR-----VMVLAATNRPSELDEAILRRLPQAFEIGM  256 (396)
Q Consensus       200 --~~~~~~~~~~~~~ll~~l~~~-~~~----~~~~-----v~vI~atn~~~~l~~~l~~R~~~~i~~~~  256 (396)
                        .... .+. -+..+-..+||. ...    ....     -.+|.|||. ..++..+.-||..++.|..
T Consensus       496 ~Lp~G~-~~d-Nl~~lRn~LDG~V~v~ld~KH~n~~q~~~PPlliT~Ne-y~iP~T~~~Rf~~~~~F~~  561 (647)
T PHA02624        496 DLPSGQ-GMN-NLDNLRDYLDGSVPVNLEKKHLNKRSQIFPPGIVTMNE-YLIPQTVKARFAKVLDFKP  561 (647)
T ss_pred             cCCccc-ccc-hhhHHHhhcCCCCccccchhccCchhccCCCeEEeecC-cccchhHHHHHHHhccccc
Confidence              0000 000 012445556665 110    0000     125667774 4678888889988888854

>PRK08118 topology modulation protein; Reviewed

Probab=97.96  E-value=1.6e-05  Score=68.55  Aligned_cols=32  Identities=22%  Similarity=0.443  Sum_probs=29.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEec
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRI  156 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~~  156 (396)
                      .|+++||||+||||+|+.+++.++.+++.++.
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~   34 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDA   34 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecch
Confidence            58999999999999999999999999888774

>KOG0479 consensus DNA replication licensing factor, MCM3 component [Replication, recombination and repair]

Probab=97.96  E-value=1.2e-05  Score=79.53  Aligned_cols=173  Identities=23%  Similarity=0.306  Sum_probs=97.6

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcE---------EEEecccc
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVF---------INVRISNL  159 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~---------~~i~~~~l  159 (396)
                      .|.|.+.+|+.+--++..  .......+|..++..-+||+.|.|.+.|+.|.|.+.+......         +-+.+.-.
T Consensus       302 SI~GH~~vKkAillLLlG--GvEk~L~NGshlRGDINiLlvGDPSvAKSQLLRyVLntAplAI~TTGRGSSGVGLTAAVT  379 (818)
T KOG0479|consen  302 SIYGHDYVKKAILLLLLG--GVEKNLENGSHLRGDINILLVGDPSVAKSQLLRYVLNTAPLAIATTGRGSSGVGLTAAVT  379 (818)
T ss_pred             ccccHHHHHHHHHHHHhc--cceeccCCCceeccceeEEEecCchHHHHHHHHHHHhcccccccccCCCCCCccceeEEe
Confidence            589999999998654432  1112223333345556799999999999999999977432111         00111111


Q ss_pred             cchhhchHHHHHHH-HHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC
Q 016044          160 MSKWFGDAQKLVAA-VFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS  238 (396)
Q Consensus       160 ~~~~~g~~~~~~~~-~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~  238 (396)
                      ..+  ...++.+.. ..-.   ...+|++|||||.+..-.....++.++...-.+  .-.|+...-+.++-|++++|+.+
T Consensus       380 tD~--eTGERRLEAGAMVL---ADRGVVCIDEFDKMsDiDRvAIHEVMEQqtVTI--aKAGIHasLNARCSVlAAANPvy  452 (818)
T KOG0479|consen  380 TDQ--ETGERRLEAGAMVL---ADRGVVCIDEFDKMSDIDRVAIHEVMEQQTVTI--AKAGIHASLNARCSVLAAANPVY  452 (818)
T ss_pred             ecc--ccchhhhhcCceEE---ccCceEEehhcccccchhHHHHHHHHhcceEEe--EeccchhhhccceeeeeecCccc
Confidence            111  223333321 1111   245899999999985444333333333211111  11244445578899999999743


Q ss_pred             -------------CCcHHHHhccCCceEe-CCCCHHHHHHHHHHHh
Q 016044          239 -------------ELDEAILRRLPQAFEI-GMPDRKERAQILKVIL  270 (396)
Q Consensus       239 -------------~l~~~l~~R~~~~i~~-~~P~~~er~~il~~~l  270 (396)
                                   .|++.|++||+..+-+ .--+...=..|-.+.+
T Consensus       453 G~Yd~~k~P~eNIgLpDSLLSRFDLlFv~lD~~d~~~D~~iSeHVL  498 (818)
T KOG0479|consen  453 GQYDQSKTPMENIGLPDSLLSRFDLLFVVLDDIDADIDRMISEHVL  498 (818)
T ss_pred             cccCCCCChhhccCCcHHHHhhhcEEEEEeccccchHHHHHHHHHH
Confidence                         4788999999876643 4444444444444444

>TIGR02012 tigrfam_recA protein RecA

Probab=97.95  E-value=7.2e-05  Score=70.84  Aligned_cols=79  Identities=20%  Similarity=0.251  Sum_probs=52.2

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch----------------hhchHHHHHHHHHHHHH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK----------------WFGDAQKLVAAVFSLAY  179 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~----------------~~g~~~~~~~~~f~~a~  179 (396)
                      .+...+-++++||||||||+||-.++.+.   |.+++.++.......                .....+..+..+....+
T Consensus        51 Glp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~~~~~li~  130 (321)
T TIGR02012        51 GLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYARKLGVDIDNLLVSQPDTGEQALEIAETLVR  130 (321)
T ss_pred             CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhh
Confidence            46666778999999999999998876543   566667665432211                11223344444444445


Q ss_pred             HhCCcEEEEccccccccC
Q 016044          180 KLQPAIIFIDEVDSFLGQ  197 (396)
Q Consensus       180 ~~~p~vl~iDEid~l~~~  197 (396)
                      ...+.+|+||-+..+.+.
T Consensus       131 ~~~~~lIVIDSv~al~~~  148 (321)
T TIGR02012       131 SGAVDIIVVDSVAALVPK  148 (321)
T ss_pred             ccCCcEEEEcchhhhccc
Confidence            567899999999998753

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.

>PRK11823 DNA repair protein RadA; Provisional

Probab=97.94  E-value=7.6e-05  Score=74.47  Aligned_cols=79  Identities=25%  Similarity=0.344  Sum_probs=54.2

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhh------ch--------HHHHHHHHHHHHHHh
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWF------GD--------AQKLVAAVFSLAYKL  181 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~------g~--------~~~~~~~~f~~a~~~  181 (396)
                      .+.+..-++|+|+||+|||+++..++...   +.++++++..+......      +.        .+..+..++......
T Consensus        76 Gi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees~~qi~~ra~rlg~~~~~l~~~~e~~l~~i~~~i~~~  155 (446)
T PRK11823         76 GLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEESASQIKLRAERLGLPSDNLYLLAETNLEAILATIEEE  155 (446)
T ss_pred             CccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccccHHHHHHHHHHcCCChhcEEEeCCCCHHHHHHHHHhh
Confidence            36666778999999999999999998754   56777777654332211      00        111234455556667


Q ss_pred             CCcEEEEccccccccC
Q 016044          182 QPAIIFIDEVDSFLGQ  197 (396)
Q Consensus       182 ~p~vl~iDEid~l~~~  197 (396)
                      +|.+++||++..+...
T Consensus       156 ~~~lVVIDSIq~l~~~  171 (446)
T PRK11823        156 KPDLVVIDSIQTMYSP  171 (446)
T ss_pred             CCCEEEEechhhhccc
Confidence            8899999999988654

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=97.93  E-value=0.0001  Score=67.75  Aligned_cols=96  Identities=22%  Similarity=0.297  Sum_probs=58.9

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CC--cEEE-----Eeccc
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GA--VFIN-----VRISN  158 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~--~~~~-----i~~~~  158 (396)
                      .+.|+.-+++.+-..+...+..+.       -+.|--+-|+|++||||..+++.||+.+   |.  +++.     .+++.
T Consensus        83 ~lfGQHla~~~Vv~alk~~~~n~~-------p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl~S~~V~~fvat~hFP~  155 (344)
T KOG2170|consen   83 ALFGQHLAKQLVVNALKSHWANPN-------PRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGLRSPFVHHFVATLHFPH  155 (344)
T ss_pred             HhhchHHHHHHHHHHHHHHhcCCC-------CCCCeEEEecCCCCCchhHHHHHHHHHHHhccccchhHHHhhhhccCCC
Confidence            378888888887776654332221       1223445689999999999999999854   21  1111     11111


Q ss_pred             --ccchhhchHHHHHHHHHHHHHHhCCcEEEEcccccc
Q 016044          159 --LMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSF  194 (396)
Q Consensus       159 --l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l  194 (396)
                        -...|   .++.-..+.+.+..++.+++++||+|.|
T Consensus       156 ~~~ie~Y---k~eL~~~v~~~v~~C~rslFIFDE~DKm  190 (344)
T KOG2170|consen  156 ASKIEDY---KEELKNRVRGTVQACQRSLFIFDEVDKL  190 (344)
T ss_pred             hHHHHHH---HHHHHHHHHHHHHhcCCceEEechhhhc
Confidence              01111   2233344555666778899999999998

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

Probab=97.91  E-value=4.2e-05  Score=66.63  Aligned_cols=59  Identities=25%  Similarity=0.348  Sum_probs=36.9

Q ss_pred             ccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc---EEEEecccc
Q 016044           90 IGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV---FINVRISNL  159 (396)
Q Consensus        90 i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~---~~~i~~~~l  159 (396)
                      ++|.++..+++...+.       ...    ...++.++++|++|+|||++++++...+...   ++.+++...
T Consensus         2 fvgR~~e~~~l~~~l~-------~~~----~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~~~~~~~~~~~~~   63 (185)
T PF13191_consen    2 FVGREEEIERLRDLLD-------AAQ----SGSPRNLLLTGESGSGKTSLLRALLDRLAERGGYVISINCDDS   63 (185)
T ss_dssp             -TT-HHHHHHHHHTTG-------GTS----S-----EEE-B-TTSSHHHHHHHHHHHHHHHT--EEEEEEETT
T ss_pred             CCCHHHHHHHHHHHHH-------HHH----cCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEEEecc
Confidence            6788999998877552       111    2335789999999999999999987765333   777777655

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=97.90  E-value=7.5e-05  Score=72.54  Aligned_cols=79  Identities=23%  Similarity=0.363  Sum_probs=52.8

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchh------hc--------hHHHHHHHHHHHHHHh
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKW------FG--------DAQKLVAAVFSLAYKL  181 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~------~g--------~~~~~~~~~f~~a~~~  181 (396)
                      .+.+..-++++|+||+|||+++..++...   +.++++++..+-....      ++        ..+..+..+.......
T Consensus        78 Gi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs~~qi~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~~  157 (372)
T cd01121          78 GLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEESPEQIKLRADRLGISTENLYLLAETNLEDILASIEEL  157 (372)
T ss_pred             CccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcCHHHHHHHHHHcCCCcccEEEEccCcHHHHHHHHHhc
Confidence            36666778999999999999999998754   3466676654322111      00        0112234455556667


Q ss_pred             CCcEEEEccccccccC
Q 016044          182 QPAIIFIDEVDSFLGQ  197 (396)
Q Consensus       182 ~p~vl~iDEid~l~~~  197 (396)
                      +|.+|+||++..+...
T Consensus       158 ~~~lVVIDSIq~l~~~  173 (372)
T cd01121         158 KPDLVIIDSIQTVYSS  173 (372)
T ss_pred             CCcEEEEcchHHhhcc
Confidence            8999999999998644

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.

>PRK07261 topology modulation protein; Provisional

Probab=97.90  E-value=2.8e-05  Score=67.33  Aligned_cols=33  Identities=18%  Similarity=0.407  Sum_probs=29.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEecc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS  157 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~  157 (396)
                      -|+++|+||+||||+|+.++..++.+++..+.-
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~   34 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTL   34 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCE
Confidence            379999999999999999999999888876643

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

Probab=97.90  E-value=0.0001  Score=69.83  Aligned_cols=79  Identities=19%  Similarity=0.227  Sum_probs=52.1

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEecccccch----------------hhchHHHHHHHHHHHHH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRISNLMSK----------------WFGDAQKLVAAVFSLAY  179 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~~~l~~~----------------~~g~~~~~~~~~f~~a~  179 (396)
                      .++..+-+.++||||||||++|-.++.+   .|...+.++...-...                .....+..+..+-...+
T Consensus        51 Glp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~~a~~lGvd~~~l~v~~p~~~eq~l~i~~~li~  130 (325)
T cd00983          51 GYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPVYAKKLGVDLDNLLISQPDTGEQALEIADSLVR  130 (325)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHHHHHHcCCCHHHheecCCCCHHHHHHHHHHHHh
Confidence            3556667899999999999999988753   3667777766332111                11123333443434445


Q ss_pred             HhCCcEEEEccccccccC
Q 016044          180 KLQPAIIFIDEVDSFLGQ  197 (396)
Q Consensus       180 ~~~p~vl~iDEid~l~~~  197 (396)
                      ...+.+|+||-+..+.+.
T Consensus       131 s~~~~lIVIDSvaal~~~  148 (325)
T cd00983         131 SGAVDLIVVDSVAALVPK  148 (325)
T ss_pred             ccCCCEEEEcchHhhccc
Confidence            567899999999998753

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=97.87  E-value=1.6e-05  Score=68.66  Aligned_cols=34  Identities=29%  Similarity=0.497  Sum_probs=30.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      ++..++|+|+||||||++|+.+|..++.+++..+
T Consensus         3 ~~~~i~l~G~~GsGKstla~~La~~l~~~~~d~d   36 (175)
T PRK00131          3 KGPNIVLIGFMGAGKSTIGRLLAKRLGYDFIDTD   36 (175)
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            4578999999999999999999999998888543

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.83  E-value=0.00019  Score=65.01  Aligned_cols=38  Identities=32%  Similarity=0.551  Sum_probs=31.1

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      +....-++++||||+|||++|..++.+.   +...+.+++.
T Consensus        20 i~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e   60 (225)
T PRK09361         20 FERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE   60 (225)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence            5566778999999999999999998743   6777777776

>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot)

Probab=97.82  E-value=3.7e-05  Score=67.95  Aligned_cols=121  Identities=19%  Similarity=0.238  Sum_probs=55.6

Q ss_pred             EEEECCCCCcHHHHHHHH-HHH---cCCcEEEEecccccchhhch----HHH--H-----------HHHHHHHHHHhCCc
Q 016044          126 VLLYGPPGTGKTMLAKAI-AKE---SGAVFINVRISNLMSKWFGD----AQK--L-----------VAAVFSLAYKLQPA  184 (396)
Q Consensus       126 vLL~GppGtGKT~la~al-a~~---~~~~~~~i~~~~l~~~~~g~----~~~--~-----------~~~~f~~a~~~~p~  184 (396)
                      .+++|.||+|||+.|-.. ...   .|.+++. +...+.-.....    .-.  .           ......-.....++
T Consensus         3 ~~~~G~pGsGKS~~av~~~i~~~l~~gr~V~t-ni~gL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (193)
T PF05707_consen    3 YLITGKPGSGKSYYAVSYVIIPALKKGRPVYT-NIPGLNIEKIQPVLGYDIPTRLIDLSDPDFEEDWDDPDDWRKLPKGS   81 (193)
T ss_dssp             EEEE--TTSSHHHHHHHHHHH-GGGS---EEE---TTB-S--EEEE--TTT-S-----S--SSSEEGGGHHHHTTSGTT-
T ss_pred             EEEEcCCCCcHhHHHHHHHHHHHHhCCCEEEE-ccCCcchhhhhhhccccccccccccccccchhhhhhhhhhcccCCCc
Confidence            578999999999887555 332   2555554 443221111100    000  0           00111111111468


Q ss_pred             EEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeC
Q 016044          185 IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIG  255 (396)
Q Consensus       185 vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~  255 (396)
                      +++|||++.+.+.+....... .    .....+..   ....++-++.+|..+..+++.+++.....+.+.
T Consensus        82 liviDEa~~~~~~r~~~~~~~-~----~~~~~l~~---hRh~g~diiliTQ~~~~id~~ir~lve~~~~~~  144 (193)
T PF05707_consen   82 LIVIDEAQNFFPSRSWKGKKV-P----EIIEFLAQ---HRHYGWDIILITQSPSQIDKFIRDLVEYHYHCR  144 (193)
T ss_dssp             EEEETTGGGTSB---T-T---------HHHHGGGG---CCCTT-EEEEEES-GGGB-HHHHCCEEEEEEEE
T ss_pred             EEEEECChhhcCCCccccccc-h----HHHHHHHH---hCcCCcEEEEEeCCHHHHhHHHHHHHheEEEEE
Confidence            999999999988876521111 1    22222222   224567889999999999999988666555554

Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=97.81  E-value=3.1e-05  Score=77.79  Aligned_cols=62  Identities=21%  Similarity=0.244  Sum_probs=44.7

Q ss_pred             cccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC-CcEEEE
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG-AVFINV  154 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~-~~~~~i  154 (396)
                      .-|+|+.|++++++.+.+.+..      ....  +-....-++|.||||+|||+||++|++.+. .+++.+
T Consensus        73 ~fF~d~yGlee~ieriv~~l~~------Aa~g--l~~~~~IL~LvGPpG~GKSsLa~~la~~le~~~~Y~~  135 (644)
T PRK15455         73 PAFEEFYGMEEAIEQIVSYFRH------AAQG--LEEKKQILYLLGPVGGGKSSLAERLKSLMERVPIYVL  135 (644)
T ss_pred             cchhcccCcHHHHHHHHHHHHH------HHHh--cCCCCceEEEecCCCCCchHHHHHHHHHHHhCcceee
Confidence            4688999999999999776632      1111  122345688999999999999999998652 344444

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=97.78  E-value=0.00045  Score=62.75  Aligned_cols=76  Identities=18%  Similarity=0.298  Sum_probs=46.5

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchh-----------------------------h--c
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKW-----------------------------F--G  165 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~-----------------------------~--g  165 (396)
                      +.+..-+++.||||||||+++..++...   |...++++..+-....                             .  .
T Consensus        21 i~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~~~~~~~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~  100 (230)
T PRK08533         21 IPAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQLTTTEFIKQMMSLGYDINKKLISGKLLYIPVYPLLSGNS  100 (230)
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHhCCchHHHhhcCcEEEEEecccccChH
Confidence            5556779999999999999986665432   4555555542111000                             0  0


Q ss_pred             hHHHHHHHHHHHHHHhCCcEEEEccccccc
Q 016044          166 DAQKLVAAVFSLAYKLQPAIIFIDEVDSFL  195 (396)
Q Consensus       166 ~~~~~~~~~f~~a~~~~p~vl~iDEid~l~  195 (396)
                      +.+..+..+........|.++++||+-.+.
T Consensus       101 ~~~~~l~~il~~~~~~~~~~lVIDe~t~~l  130 (230)
T PRK08533        101 EKRKFLKKLMNTRRFYEKDVIIIDSLSSLI  130 (230)
T ss_pred             HHHHHHHHHHHHHHhcCCCEEEEECccHHh
Confidence            112333444444445578999999998864

>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=97.78  E-value=6.4e-05  Score=62.67  Aligned_cols=32  Identities=47%  Similarity=0.868  Sum_probs=25.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      |+++|||||||||+|+.++..++..+  ++...+
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~~~~~--i~~D~~   33 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRLGAVV--ISQDEI   33 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHSTEEE--EEHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHCCCEE--EeHHHH
Confidence            68999999999999999999988444  444333

...

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.74  E-value=0.0021  Score=63.68  Aligned_cols=198  Identities=19%  Similarity=0.243  Sum_probs=97.6

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch---------------hhc-----hHHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK---------------WFG-----DAQKLVAAVFSLA  178 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~---------------~~g-----~~~~~~~~~f~~a  178 (396)
                      +|..++|+|++|+||||++..+|..+   |..+..+++..+...               ..+     .....+......+
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~~  173 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKF  173 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHHh
Confidence            46789999999999999999998865   455555555433111               000     1112223333333


Q ss_pred             HHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCC-----ceE
Q 016044          179 YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQ-----AFE  253 (396)
Q Consensus       179 ~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~-----~i~  253 (396)
                      ..  ..+|+||....+..     ..    ..+.++........  +...++++-++...+.++.  .++|..     .+-
T Consensus       174 ~~--~DvVIIDTAGr~~~-----d~----~lm~El~~l~~~~~--pdevlLVvda~~gq~av~~--a~~F~~~l~i~gvI  238 (437)
T PRK00771        174 KK--ADVIIVDTAGRHAL-----EE----DLIEEMKEIKEAVK--PDEVLLVIDATIGQQAKNQ--AKAFHEAVGIGGII  238 (437)
T ss_pred             hc--CCEEEEECCCcccc-----hH----HHHHHHHHHHHHhc--ccceeEEEeccccHHHHHH--HHHHHhcCCCCEEE
Confidence            33  37999998765411     11    12222222222111  1223344444333222221  122321     223


Q ss_pred             eCCCCHHHHHH-HHHHHh----------cCCCCC--CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHH----HHHHHHHh
Q 016044          254 IGMPDRKERAQ-ILKVIL----------KGEKVE--ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSI----RELLDEER  316 (396)
Q Consensus       254 ~~~P~~~er~~-il~~~l----------~~~~~~--~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~----~~~~~~~~  316 (396)
                      +...|...+-- ++....          .+..++  ...+.+.++.+.-|+  +|+..|++.|...--    .+..+...
T Consensus       239 lTKlD~~a~~G~~ls~~~~~~~Pi~fig~Ge~v~Dle~f~~~~~~~~ilgm--gd~~~l~e~~~~~~~~~~~~~~~~~~~  316 (437)
T PRK00771        239 ITKLDGTAKGGGALSAVAETGAPIKFIGTGEKIDDLERFDPDRFISRLLGM--GDLESLLEKVEEALDEEEEEKDVEKMM  316 (437)
T ss_pred             EecccCCCcccHHHHHHHHHCcCEEEEecCCCcccCCcCCHHHHHHHHhCC--CChHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            44444433332 222111          122221  234567777766554  588888887654311    11111111


Q ss_pred             cCCCCCCCCCCCHHHHHHHHHhcccch
Q 016044          317 KGKPAAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       317 ~~~~~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                      .       ...+.+||..-++.++.--
T Consensus       317 ~-------~~f~l~d~~~q~~~~~kmG  336 (437)
T PRK00771        317 K-------GKFTLKDMYKQLEAMNKMG  336 (437)
T ss_pred             c-------CCcCHHHHHHHHHHHHhcC
Confidence            1       3588999999888877653

>PHA02774 E1; Provisional

Probab=97.74  E-value=0.00018  Score=72.35  Aligned_cols=109  Identities=20%  Similarity=0.343  Sum_probs=60.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEE-EecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFIN-VRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS  201 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~-i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~  201 (396)
                      .++++|+||||||||++|.+|++.++...+. ++...   .+.          +..+.  ...+++|||+-.-       
T Consensus       434 knciv~~GPP~TGKS~fa~sL~~~L~G~vi~fvN~~s---~Fw----------Lqpl~--d~ki~vlDD~t~~-------  491 (613)
T PHA02774        434 KNCLVIYGPPDTGKSMFCMSLIKFLKGKVISFVNSKS---HFW----------LQPLA--DAKIALLDDATHP-------  491 (613)
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHhCCCEEEEEECcc---ccc----------cchhc--cCCEEEEecCcch-------
Confidence            4689999999999999999999998654443 55321   110          12222  2269999998211       


Q ss_pred             chHHHHhhHHHHHHHhhccCcC----CC-----CcEEEEEecCCCCCCc---HHHHhccCCceEeCCC
Q 016044          202 DHEALTNMKTEFMALWDGFTTD----QN-----ARVMVLAATNRPSELD---EAILRRLPQAFEIGMP  257 (396)
Q Consensus       202 ~~~~~~~~~~~ll~~l~~~~~~----~~-----~~v~vI~atn~~~~l~---~~l~~R~~~~i~~~~P  257 (396)
                      -...   +-..+...++|-...    ..     ..-.+|.|||..-.-+   ..|.+|+ ..++|+.|
T Consensus       492 ~w~y---~d~~Lrn~LdG~~v~lD~Khk~~~q~k~pPlIITSN~d~~~~~~~~yL~sRi-~~f~F~n~  555 (613)
T PHA02774        492 CWDY---IDTYLRNALDGNPVSIDCKHKAPVQIKCPPLLITSNIDVKAEDRYKYLHSRI-TVFEFPNP  555 (613)
T ss_pred             HHHH---HHHHHHHHcCCCcceeeecccCcccccCCCEEEecCCCcccchhhHHhhhhE-EEEECCCC
Confidence            0011   111344556654100    00     1124677888432222   4566687 66666543

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=97.73  E-value=2.8e-05  Score=63.93  Aligned_cols=33  Identities=36%  Similarity=0.757  Sum_probs=29.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      ..+||++|-|||||||++..+|...+.+++.+.
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~~~~~~i~is   39 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEKTGLEYIEIS   39 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHHhCCceEehh
Confidence            367999999999999999999999998887764

>PTZ00202 tuzin; Provisional

Probab=97.71  E-value=0.0057  Score=59.87  Aligned_cols=63  Identities=14%  Similarity=0.136  Sum_probs=48.0

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecc
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS  157 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~  157 (396)
                      +..-.+++|.+....+|.+.+..          . ....+.-+.|.||+|||||++++.+....+.+.+.++..
T Consensus       258 Pa~~~~FVGReaEla~Lr~VL~~----------~-d~~~privvLtG~~G~GKTTLlR~~~~~l~~~qL~vNpr  320 (550)
T PTZ00202        258 PAVIRQFVSREAEESWVRQVLRR----------L-DTAHPRIVVFTGFRGCGKSSLCRSAVRKEGMPAVFVDVR  320 (550)
T ss_pred             CCCccCCCCcHHHHHHHHHHHhc----------c-CCCCceEEEEECCCCCCHHHHHHHHHhcCCceEEEECCC
Confidence            44567899999999999876642          0 122345678999999999999999999888776666654

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=97.71  E-value=0.00017  Score=60.79  Aligned_cols=25  Identities=32%  Similarity=0.525  Sum_probs=22.2

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHH
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~  145 (396)
                      .+.-.+++.||+|||||++.|++|.
T Consensus        27 ~~Ge~iaitGPSG~GKStllk~va~   51 (223)
T COG4619          27 RAGEFIAITGPSGCGKSTLLKIVAS   51 (223)
T ss_pred             cCCceEEEeCCCCccHHHHHHHHHh
Confidence            3456699999999999999999998

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.71  E-value=0.00058  Score=74.57  Aligned_cols=155  Identities=22%  Similarity=0.256  Sum_probs=82.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch---h----h--------c---------------hHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK---W----F--------G---------------DAQKLVA  172 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~---~----~--------g---------------~~~~~~~  172 (396)
                      .+-++++||+|.|||+++...+...+ ++..+++..-.+.   +    .        +               .....+.
T Consensus        32 ~~~~~v~apaG~GKTtl~~~~~~~~~-~~~w~~l~~~d~~~~~f~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (903)
T PRK04841         32 YRLVLVTSPAGYGKTTLISQWAAGKN-NLGWYSLDESDNQPERFASYLIAALQQATNGHCSKSEALAQKRQYASLSSLFA  110 (903)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhCC-CeEEEecCcccCCHHHHHHHHHHHHHHhcCcccchhhhhhccCCcCCHHHHHH
Confidence            35689999999999999999887766 5544443211000   0    0        0               0011122


Q ss_pred             HHHHHHHH-hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCc
Q 016044          173 AVFSLAYK-LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQA  251 (396)
Q Consensus       173 ~~f~~a~~-~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~  251 (396)
                      .++..... ..|.+|+|||++.+...       .....+..++   ...    +.++.+|.++.....++-.-++.-+..
T Consensus       111 ~~~~~l~~~~~~~~lvlDD~h~~~~~-------~~~~~l~~l~---~~~----~~~~~lv~~sR~~~~~~~~~l~~~~~~  176 (903)
T PRK04841        111 QLFIELADWHQPLYLVIDDYHLITNP-------EIHEAMRFFL---RHQ----PENLTLVVLSRNLPPLGIANLRVRDQL  176 (903)
T ss_pred             HHHHHHhcCCCCEEEEEeCcCcCCCh-------HHHHHHHHHH---HhC----CCCeEEEEEeCCCCCCchHhHHhcCcc
Confidence            23332222 46789999999987211       1122222332   221    334455445543222221111111223


Q ss_pred             eEeC----CCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHH
Q 016044          252 FEIG----MPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGS  294 (396)
Q Consensus       252 i~~~----~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~  294 (396)
                      +.+.    ..+.+|-.+++...+... + +..+...+.+.|+|+..+
T Consensus       177 ~~l~~~~l~f~~~e~~~ll~~~~~~~-~-~~~~~~~l~~~t~Gwp~~  221 (903)
T PRK04841        177 LEIGSQQLAFDHQEAQQFFDQRLSSP-I-EAAESSRLCDDVEGWATA  221 (903)
T ss_pred             eecCHHhCCCCHHHHHHHHHhccCCC-C-CHHHHHHHHHHhCChHHH
Confidence            4444    668899999887765432 2 223467788899987643

>PRK03839 putative kinase; Provisional

Probab=97.71  E-value=3.3e-05  Score=67.41  Aligned_cols=31  Identities=29%  Similarity=0.600  Sum_probs=28.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      .|+|.|+||+||||+++.+|+.++.+++.++
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~~~id~d   32 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGYEYVDLT   32 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEehh
Confidence            3899999999999999999999999887654

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=97.70  E-value=8e-05  Score=64.16  Aligned_cols=23  Identities=43%  Similarity=0.801  Sum_probs=20.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +++|+|+||+||||+++.+++.+
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l   23 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEEL   23 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHH
T ss_pred             CEEEECcCCCCHHHHHHHHHHHh
Confidence            48999999999999999998876

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>PRK00625 shikimate kinase; Provisional

Probab=97.70  E-value=3.7e-05  Score=66.56  Aligned_cols=31  Identities=35%  Similarity=0.507  Sum_probs=28.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      +|+|+|.||+||||+++.+|+.++.+|+.++
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~~~~id~D   32 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLSLPFFDTD   32 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCEEEhh
Confidence            5899999999999999999999999998776

>PRK04296 thymidine kinase; Provisional

Probab=97.70  E-value=0.00042  Score=61.08  Aligned_cols=31  Identities=19%  Similarity=0.235  Sum_probs=23.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc---CCcEEEEe
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKES---GAVFINVR  155 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~---~~~~~~i~  155 (396)
                      -.+++||+|+|||+++..++..+   +..++.++
T Consensus         4 i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k   37 (190)
T PRK04296          4 LEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFK   37 (190)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEe
Confidence            46899999999999998887754   55555453

>PRK13947 shikimate kinase; Provisional

Probab=97.70  E-value=3.9e-05  Score=66.27  Aligned_cols=31  Identities=35%  Similarity=0.493  Sum_probs=28.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      +|+|.|+||||||++++.+|+.+|.+|+..+
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg~~~id~d   33 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLSFGFIDTD   33 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhCCCEEECc
Confidence            5899999999999999999999999997655

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.69  E-value=0.00056  Score=62.31  Aligned_cols=77  Identities=21%  Similarity=0.282  Sum_probs=50.0

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEecccccchh--------------------------------
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRISNLMSKW--------------------------------  163 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~~~l~~~~--------------------------------  163 (396)
                      .+.....++++|+||+|||+++..++.+   .|.+.++++..+-....                                
T Consensus        21 G~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~~~~~~~~~~~~g~~~~~~~~~g~l~i~~~~~~~~~~  100 (234)
T PRK06067         21 GIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENTSKSYLKQMESVKIDISDFFLWGYLRIFPLNTEGFEW  100 (234)
T ss_pred             CCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCCHHHHHHHHHHCCCChhHHHhCCCceEEecccccccc
Confidence            3667788999999999999999999654   35566665543221110                                


Q ss_pred             -hchHHHHHHHHHHHHHHhCCcEEEEccccccc
Q 016044          164 -FGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFL  195 (396)
Q Consensus       164 -~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~  195 (396)
                       ....+..+..+.......++.+++||++..+.
T Consensus       101 ~~~~~~~ll~~l~~~i~~~~~~~iviDs~t~~~  133 (234)
T PRK06067        101 NSTLANKLLELIIEFIKSKREDVIIIDSLTIFA  133 (234)
T ss_pred             CcchHHHHHHHHHHHHHhcCCCEEEEecHHHHH
Confidence             01113344444444555588999999998763

>cd01131 PilT Pilus retraction ATPase PilT

Probab=97.67  E-value=8.8e-05  Score=65.82  Aligned_cols=67  Identities=19%  Similarity=0.332  Sum_probs=40.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCC----cEEEEecc-cccc---------hhhchHHHHHHHHHHHHHHhCCcEEEEcc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGA----VFINVRIS-NLMS---------KWFGDAQKLVAAVFSLAYKLQPAIIFIDE  190 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~----~~~~i~~~-~l~~---------~~~g~~~~~~~~~f~~a~~~~p~vl~iDE  190 (396)
                      -+++.||+||||||++++++.....    .++.+..+ ++..         ...+.........+..+....|.++++||
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~~~E~~~~~~~~~i~q~~vg~~~~~~~~~i~~aLr~~pd~ii~gE   82 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIEDPIEFVHESKRSLINQREVGLDTLSFENALKAALRQDPDVILVGE   82 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcCCccccccCccceeeecccCCCccCHHHHHHHHhcCCcCEEEEcC
Confidence            4789999999999999999886642    22222211 1110         01121112234445556666899999999


Q ss_pred             c
Q 016044          191 V  191 (396)
Q Consensus       191 i  191 (396)
                      +
T Consensus        83 i   83 (198)
T cd01131          83 M   83 (198)
T ss_pred             C
Confidence            8

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.

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=97.66  E-value=0.00016  Score=64.03  Aligned_cols=72  Identities=24%  Similarity=0.316  Sum_probs=45.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc--------CCcEEEEec-ccccchhhc-------------hHHHHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES--------GAVFINVRI-SNLMSKWFG-------------DAQKLVAAVFSLAYK  180 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~--------~~~~~~i~~-~~l~~~~~g-------------~~~~~~~~~f~~a~~  180 (396)
                      ..+.|+.|||||||||+.|-+|+-+        +..+..++- +++.+-..|             ...-....+....+.
T Consensus       137 ~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gvpq~~~g~R~dVld~cpk~~gmmmaIrs  216 (308)
T COG3854         137 WLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVPQHGRGRRMDVLDPCPKAEGMMMAIRS  216 (308)
T ss_pred             ceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCCchhhhhhhhhhcccchHHHHHHHHHHh
Confidence            4678999999999999999999844        223333432 222111111             112223345556678


Q ss_pred             hCCcEEEEcccccc
Q 016044          181 LQPAIIFIDEVDSF  194 (396)
Q Consensus       181 ~~p~vl~iDEid~l  194 (396)
                      +.|.|+++|||...
T Consensus       217 m~PEViIvDEIGt~  230 (308)
T COG3854         217 MSPEVIIVDEIGTE  230 (308)
T ss_pred             cCCcEEEEeccccH
Confidence            89999999999764

>PRK06762 hypothetical protein; Provisional

Probab=97.66  E-value=0.00013  Score=62.64  Aligned_cols=37  Identities=24%  Similarity=0.351  Sum_probs=29.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      .-++|+|+|||||||+|+.+++.++..++.++...+.
T Consensus         3 ~li~i~G~~GsGKST~A~~L~~~l~~~~~~i~~D~~r   39 (166)
T PRK06762          3 TLIIIRGNSGSGKTTIAKQLQERLGRGTLLVSQDVVR   39 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCeEEecHHHHH
Confidence            5588999999999999999999986556666654443

>PRK06581 DNA polymerase III subunit delta'; Validated

Probab=97.65  E-value=0.00067  Score=60.96  Aligned_cols=145  Identities=10%  Similarity=0.039  Sum_probs=95.3

Q ss_pred             CceEEEECCCC-CcHHHHHHHHHHHcCC---------cEEEEeccccc---chhhchHHHHHHHHHHHH----HHhCCcE
Q 016044          123 QKGVLLYGPPG-TGKTMLAKAIAKESGA---------VFINVRISNLM---SKWFGDAQKLVAAVFSLA----YKLQPAI  185 (396)
Q Consensus       123 ~~~vLL~GppG-tGKT~la~ala~~~~~---------~~~~i~~~~l~---~~~~g~~~~~~~~~f~~a----~~~~p~v  185 (396)
                      .+..||.|..+ +||..++..++..+.+         .+..+....-.   ++..  .-..++.+...+    ......|
T Consensus        15 shAYLfeG~n~~~~~~~~~~f~~~~l~~~~i~~~~HPD~~~I~pe~~~~~~~~~I--~IdqIReL~~~l~~~p~~g~~KV   92 (263)
T PRK06581         15 YNSWLIEAENIEQALKDLEKFIYIKLFKNSIPLENNPDYHFIARETSATSNAKNI--SIEQIRKLQDFLSKTSAISGYKV   92 (263)
T ss_pred             hheeeEeCCChhhHHHHHHHHHHHHHhccCcccCCCCCEEEEeccccccccCCcc--cHHHHHHHHHHHhhCcccCCcEE
Confidence            46799999998 9999999888775532         23333321100   0111  112233333322    2334579


Q ss_pred             EEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHH
Q 016044          186 IFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQI  265 (396)
Q Consensus       186 l~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~i  265 (396)
                      ++|+++|.+..           ...+.+++.++    +++.++++|..|..++.+.+.+++|| ..+.++.|+...-.+.
T Consensus        93 iII~~ae~mt~-----------~AANALLKtLE----EPP~~t~fILit~~~~~LLpTIrSRC-q~i~~~~p~~~~~~e~  156 (263)
T PRK06581         93 AIIYSAELMNL-----------NAANSCLKILE----DAPKNSYIFLITSRAASIISTIRSRC-FKINVRSSILHAYNEL  156 (263)
T ss_pred             EEEechHHhCH-----------HHHHHHHHhhc----CCCCCeEEEEEeCChhhCchhHhhce-EEEeCCCCCHHHHHHH
Confidence            99999999832           23346666665    45778888888889999999999999 8999999999888888


Q ss_pred             HHHHhcCCCCCCCCCHHHHHHh
Q 016044          266 LKVILKGEKVEENIDFDYLAGL  287 (396)
Q Consensus       266 l~~~l~~~~~~~~~~l~~la~~  287 (396)
                      +...+....-  +..++.+.+.
T Consensus       157 ~~~~~~p~~~--~~~l~~i~~~  176 (263)
T PRK06581        157 YSQFIQPIAD--NKTLDFINRF  176 (263)
T ss_pred             HHHhcccccc--cHHHHHHHHH
Confidence            8877764332  2335555554

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=97.65  E-value=4.9e-05  Score=64.24  Aligned_cols=31  Identities=32%  Similarity=0.611  Sum_probs=28.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      +|+|+|+||+|||++++.++..++.+++..+
T Consensus         1 ~i~l~G~~GsGKstla~~la~~l~~~~~~~d   31 (154)
T cd00464           1 NIVLIGMMGAGKTTVGRLLAKALGLPFVDLD   31 (154)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHhCCCEEEch
Confidence            4799999999999999999999999887655

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>PRK13949 shikimate kinase; Provisional

Probab=97.64  E-value=4.8e-05  Score=65.70  Aligned_cols=32  Identities=44%  Similarity=0.679  Sum_probs=29.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      +.|+|+|+||+|||++++.+|+.++.+++..+
T Consensus         2 ~~I~liG~~GsGKstl~~~La~~l~~~~id~D   33 (169)
T PRK13949          2 ARIFLVGYMGAGKTTLGKALARELGLSFIDLD   33 (169)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCCeeccc
Confidence            35899999999999999999999999888766

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

Probab=97.64  E-value=0.00062  Score=67.01  Aligned_cols=121  Identities=21%  Similarity=0.274  Sum_probs=69.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHE  204 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~  204 (396)
                      -++++||.+|||||+++.+.......++.++..++......- ...... +..+.......+|||||+.+-.        
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~~~~iy~~~~d~~~~~~~l-~d~~~~-~~~~~~~~~~yifLDEIq~v~~--------  108 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLLEEIIYINFDDLRLDRIEL-LDLLRA-YIELKEREKSYIFLDEIQNVPD--------  108 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCCcceEEEEecchhcchhhH-HHHHHH-HHHhhccCCceEEEecccCchh--------
Confidence            789999999999999988888775545555555543332211 111111 1112111347999999998621        


Q ss_pred             HHHhhHHHHHHHhhccCcCCCCcEEEEEecCC--CCCCcHHHHhccCCceEeCCCCHHHHHH
Q 016044          205 ALTNMKTEFMALWDGFTTDQNARVMVLAATNR--PSELDEAILRRLPQAFEIGMPDRKERAQ  264 (396)
Q Consensus       205 ~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~--~~~l~~~l~~R~~~~i~~~~P~~~er~~  264 (396)
                          +-..+-...|..    +.++++.+++..  .....+.+..|. ..+.+.|.+..|...
T Consensus       109 ----W~~~lk~l~d~~----~~~v~itgsss~ll~~~~~~~L~GR~-~~~~l~PlSF~Efl~  161 (398)
T COG1373         109 ----WERALKYLYDRG----NLDVLITGSSSSLLSKEISESLAGRG-KDLELYPLSFREFLK  161 (398)
T ss_pred             ----HHHHHHHHHccc----cceEEEECCchhhhccchhhhcCCCc-eeEEECCCCHHHHHh
Confidence                111222333322    113444444332  223455666686 788888889888865

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.64  E-value=0.00087  Score=61.23  Aligned_cols=38  Identities=32%  Similarity=0.425  Sum_probs=28.5

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEec
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRI  156 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~  156 (396)
                      ++.+...+|++||||||||+++..++.+   .|.+.+++..
T Consensus        17 G~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~   57 (237)
T TIGR03877        17 GIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVAL   57 (237)
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEe
Confidence            4677788999999999999999876553   3555555543

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.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=97.64  E-value=0.00021  Score=66.32  Aligned_cols=104  Identities=19%  Similarity=0.247  Sum_probs=62.9

Q ss_pred             ccccCCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC---CcE
Q 016044           75 CDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG---AVF  151 (396)
Q Consensus        75 ~~~~~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~---~~~  151 (396)
                      -.++.+.....++++++-.+...+.+.+++..               +...+++.||+|+||||+++++.....   ..+
T Consensus        47 iR~~~~~~~~~~l~~lg~~~~~~~~l~~~~~~---------------~~GlilisG~tGSGKTT~l~all~~i~~~~~~i  111 (264)
T cd01129          47 LRILDKKNQILDLEKLGLKPENLEIFRKLLEK---------------PHGIILVTGPTGSGKTTTLYSALSELNTPEKNI  111 (264)
T ss_pred             EEEeCCccCCCCHHHcCCCHHHHHHHHHHHhc---------------CCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeE
Confidence            33444443345788887777777777655431               124589999999999999999977653   234


Q ss_pred             EEEec-ccccch-----hhc-hHHHHHHHHHHHHHHhCCcEEEEccccc
Q 016044          152 INVRI-SNLMSK-----WFG-DAQKLVAAVFSLAYKLQPAIIFIDEVDS  193 (396)
Q Consensus       152 ~~i~~-~~l~~~-----~~g-~~~~~~~~~f~~a~~~~p~vl~iDEid~  193 (396)
                      +.+.- .++.-.     .+. +...........+.+..|.+++++|+..
T Consensus       112 itiEdp~E~~~~~~~q~~v~~~~~~~~~~~l~~~lR~~PD~i~vgEiR~  160 (264)
T cd01129         112 ITVEDPVEYQIPGINQVQVNEKAGLTFARGLRAILRQDPDIIMVGEIRD  160 (264)
T ss_pred             EEECCCceecCCCceEEEeCCcCCcCHHHHHHHHhccCCCEEEeccCCC
Confidence            44421 111110     001 1112344555666678999999999954

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.

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

Probab=97.64  E-value=0.00083  Score=63.78  Aligned_cols=61  Identities=20%  Similarity=0.189  Sum_probs=47.0

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      ..+.+.+.+++.+..++..         ..  -.-|..+.|+|..|||||.+.+.+.+.++.+.+.++|-+.
T Consensus         6 ~~v~~Re~qi~~L~~Llg~---------~~--~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~~vw~n~~ec   66 (438)
T KOG2543|consen    6 PNVPCRESQIRRLKSLLGN---------NS--CTIPSIVHIYGHSGTGKTYLVRQLLRKLNLENVWLNCVEC   66 (438)
T ss_pred             cCccchHHHHHHHHHHhCC---------CC--cccceeEEEeccCCCchhHHHHHHHhhcCCcceeeehHHh
Confidence            3466778888888765531         11  1346778999999999999999999999999999888544

>PRK14532 adenylate kinase; Provisional

Probab=97.64  E-value=5.1e-05  Score=66.66  Aligned_cols=36  Identities=31%  Similarity=0.680  Sum_probs=28.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK  162 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~  162 (396)
                      .++|.|||||||||+|+.+|+.+|..+++  ..++..+
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~~g~~~is--~~d~lr~   37 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEERGMVQLS--TGDMLRA   37 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCeEEe--CcHHHHH
Confidence            48999999999999999999999876654  4444433

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=97.64  E-value=0.0039  Score=60.70  Aligned_cols=35  Identities=14%  Similarity=0.193  Sum_probs=25.5

Q ss_pred             CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCC
Q 016044          239 ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGE  273 (396)
Q Consensus       239 ~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~  273 (396)
                      .|..++-.|.-+.|.+.-.+.+.-+.++...+...
T Consensus       198 ~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~L~~~  232 (431)
T PF10443_consen  198 PLSKALPNRVFKTISLSDASPESAKQYVLSQLDED  232 (431)
T ss_pred             hHHHhCCCCceeEEeecCCCHHHHHHHHHHHhccc
Confidence            45666666544888898888888888888877543

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>PRK13948 shikimate kinase; Provisional

Probab=97.62  E-value=7.1e-05  Score=65.34  Aligned_cols=35  Identities=29%  Similarity=0.333  Sum_probs=31.6

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      .++..|+|.|.+|||||++++.+|..++.+|+..|
T Consensus         8 ~~~~~I~LiG~~GsGKSTvg~~La~~lg~~~iD~D   42 (182)
T PRK13948          8 RPVTWVALAGFMGTGKSRIGWELSRALMLHFIDTD   42 (182)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEECC
Confidence            45688999999999999999999999999998655

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

Probab=97.62  E-value=0.00061  Score=61.71  Aligned_cols=76  Identities=25%  Similarity=0.380  Sum_probs=50.7

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH---c-CCcEEEEecccccch-----------------------------h--
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKE---S-GAVFINVRISNLMSK-----------------------------W--  163 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~---~-~~~~~~i~~~~l~~~-----------------------------~--  163 (396)
                      +++++..+|+.||||+|||+++..++..   . |.+.+.+...+-...                             .  
T Consensus        15 Gip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~~~l~~~~~s~g~d~~~~~~~g~l~~~d~~~~~~~   94 (226)
T PF06745_consen   15 GIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPPEELIENMKSFGWDLEEYEDSGKLKIIDAFPERIG   94 (226)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-HHHHHHHHHTTTS-HHHHHHTTSEEEEESSGGGST
T ss_pred             CCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCHHHHHHHHHHcCCcHHHHhhcCCEEEEeccccccc
Confidence            3667788999999999999999887642   2 667666664221100                             0  


Q ss_pred             --hchHHHHHHHHHHHHHHhCCcEEEEcccccc
Q 016044          164 --FGDAQKLVAAVFSLAYKLQPAIIFIDEVDSF  194 (396)
Q Consensus       164 --~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l  194 (396)
                        ..........+.......++.+++||.+..+
T Consensus        95 ~~~~~~~~l~~~i~~~i~~~~~~~vVIDsls~l  127 (226)
T PF06745_consen   95 WSPNDLEELLSKIREAIEELKPDRVVIDSLSAL  127 (226)
T ss_dssp             -TSCCHHHHHHHHHHHHHHHTSSEEEEETHHHH
T ss_pred             ccccCHHHHHHHHHHHHHhcCCCEEEEECHHHH
Confidence              1123445555666666678899999999998

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 ....

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.61  E-value=0.00033  Score=60.99  Aligned_cols=22  Identities=55%  Similarity=0.854  Sum_probs=20.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~  147 (396)
                      ++|+|+||+|||++|+.+|+.+
T Consensus         4 iIlTGyPgsGKTtfakeLak~L   25 (261)
T COG4088           4 IILTGYPGSGKTTFAKELAKEL   25 (261)
T ss_pred             EEEecCCCCCchHHHHHHHHHH
Confidence            7899999999999999999976

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=97.61  E-value=0.00055  Score=59.09  Aligned_cols=34  Identities=24%  Similarity=0.401  Sum_probs=28.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN  158 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~  158 (396)
                      .+++.|+||+|||++|..++..++.+++++....
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~~~~~~iat~~   36 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSGLQVLYIATAQ   36 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcCCCcEeCcCCC
Confidence            4899999999999999999999887776665443

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=97.60  E-value=5.9e-05  Score=65.91  Aligned_cols=34  Identities=26%  Similarity=0.508  Sum_probs=27.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS  161 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~  161 (396)
                      |+++|||||||||+|+.+|..+|..+  ++.+++..
T Consensus         2 i~i~G~pGsGKst~a~~la~~~~~~~--is~~d~lr   35 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVENFGFTH--LSAGDLLR   35 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeE--EECChHHH
Confidence            68999999999999999999998654  44444443

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.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=97.60  E-value=0.00016  Score=58.38  Aligned_cols=52  Identities=19%  Similarity=0.188  Sum_probs=37.6

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .|.|++-+++.+...+...+..+       .-..|--+-|+|+||||||.+++.||+.+
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~-------~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANP-------NPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCC-------CCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            47899988888888776543322       01123334589999999999999999964

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>PRK10536 hypothetical protein; Provisional

Probab=97.60  E-value=0.00054  Score=62.52  Aligned_cols=23  Identities=35%  Similarity=0.469  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..+++.||+|||||++|.+++.+
T Consensus        75 ~lV~i~G~aGTGKT~La~a~a~~   97 (262)
T PRK10536         75 QLIFATGEAGCGKTWISAAKAAE   97 (262)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999999884

>cd01394 radB RadB

Probab=97.60  E-value=0.00061  Score=61.31  Aligned_cols=38  Identities=34%  Similarity=0.538  Sum_probs=29.8

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      +.+..-++++|+||+|||+++..+|.+.   |.+.+.++..
T Consensus        16 i~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~e   56 (218)
T cd01394          16 VERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTE   56 (218)
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEECC
Confidence            5556678999999999999999998754   5566666553

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

>PRK09354 recA recombinase A; Provisional

Probab=97.60  E-value=0.00066  Score=64.95  Aligned_cols=78  Identities=21%  Similarity=0.241  Sum_probs=51.0

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEecccccch----------------hhchHHHHHHHHHHHHH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRISNLMSK----------------WFGDAQKLVAAVFSLAY  179 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~~~l~~~----------------~~g~~~~~~~~~f~~a~  179 (396)
                      ++...+-+.++||||||||+||-.++..   .|...++++...-...                .....+..+..+-...+
T Consensus        56 Gip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~~a~~lGvdld~lli~qp~~~Eq~l~i~~~li~  135 (349)
T PRK09354         56 GLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPVYAKKLGVDIDNLLVSQPDTGEQALEIADTLVR  135 (349)
T ss_pred             CCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHhh
Confidence            3556667899999999999999887653   3666777765432111                11123333333333445


Q ss_pred             HhCCcEEEEcccccccc
Q 016044          180 KLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       180 ~~~p~vl~iDEid~l~~  196 (396)
                      ...+.+|+||-+-.+.+
T Consensus       136 s~~~~lIVIDSvaaL~~  152 (349)
T PRK09354        136 SGAVDLIVVDSVAALVP  152 (349)
T ss_pred             cCCCCEEEEeChhhhcc
Confidence            55789999999998875

>PRK05973 replicative DNA helicase; Provisional

Probab=97.59  E-value=0.00097  Score=60.53  Aligned_cols=38  Identities=37%  Similarity=0.475  Sum_probs=28.6

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      ++.+..-+++.|+||+|||+++-.++...   |.+.++++.
T Consensus        60 Gl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSl  100 (237)
T PRK05973         60 QLKPGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTL  100 (237)
T ss_pred             CCCCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEE
Confidence            35666779999999999999998876633   656555554

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.57  E-value=0.00052  Score=62.44  Aligned_cols=40  Identities=18%  Similarity=0.223  Sum_probs=30.0

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---------CCcEEEEeccc
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---------GAVFINVRISN  158 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---------~~~~~~i~~~~  158 (396)
                      ++....-+.|+||||||||+++..++...         +...++++..+
T Consensus        15 Gi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~   63 (235)
T cd01123          15 GIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEG   63 (235)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCC
Confidence            35566778999999999999999997542         24666676544

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 .

>PRK14531 adenylate kinase; Provisional

Probab=97.57  E-value=7.7e-05  Score=65.33  Aligned_cols=31  Identities=29%  Similarity=0.591  Sum_probs=27.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      ..++++||||+||||+++.+|..+|.++++.
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~g~~~is~   33 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAHGLRHLST   33 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCeEec
Confidence            4589999999999999999999999776553

>PRK06217 hypothetical protein; Validated

Probab=97.56  E-value=7.5e-05  Score=65.38  Aligned_cols=31  Identities=23%  Similarity=0.414  Sum_probs=28.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      .|+|.|+||+||||+++++++.+|.+++..+
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l~~~~~~~D   33 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERLDIPHLDTD   33 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEEEcC
Confidence            4899999999999999999999998877655

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=97.54  E-value=7.2e-05  Score=63.88  Aligned_cols=32  Identities=31%  Similarity=0.527  Sum_probs=29.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      .+++|.|++|+||||+.+++|+.++.+|+..|
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~F~D~D   34 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLPFIDTD   34 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCCcccch
Confidence            57999999999999999999999999998776

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=97.53  E-value=7.8e-05  Score=64.77  Aligned_cols=35  Identities=17%  Similarity=0.400  Sum_probs=29.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN  158 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~  158 (396)
                      +-++|.|+||+||||+|+.++..++.+++.++...
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~~~~~~~~~~D~   37 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVLAEPWLHFGVDS   37 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhCCCccccCccH
Confidence            56899999999999999999999887777665443

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=97.52  E-value=0.00038  Score=56.86  Aligned_cols=24  Identities=42%  Similarity=0.519  Sum_probs=20.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ++++++||+|+|||+++-.++...
T Consensus         1 ~~~~i~~~~G~GKT~~~~~~~~~~   24 (144)
T cd00046           1 RDVLLAAPTGSGKTLAALLPILEL   24 (144)
T ss_pred             CCEEEECCCCCchhHHHHHHHHHH
Confidence            368999999999999888876654

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>COG5271 MDN1 AAA ATPase containing von Willebrand factor type A (vWA) domain [General function prediction only]

Probab=97.52  E-value=7.2e-05  Score=81.68  Aligned_cols=136  Identities=21%  Similarity=0.285  Sum_probs=90.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc------cchhhchHHH---HHHHHHHHHHHhCCcEEEEccccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL------MSKWFGDAQK---LVAAVFSLAYKLQPAIIFIDEVDS  193 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l------~~~~~g~~~~---~~~~~f~~a~~~~p~vl~iDEid~  193 (396)
                      .-++|+.||+.+|||++...+|.+.|..|+.++-.+-      .+.|+.....   --..++-.|.+ .+.-|++||++.
T Consensus       888 ~fP~LiQGpTSSGKTSMI~yla~~tghkfVRINNHEHTdlqeYiGTyvTdd~G~lsFkEGvLVeAlR-~GyWIVLDELNL  966 (4600)
T COG5271         888 NFPLLIQGPTSSGKTSMILYLARETGHKFVRINNHEHTDLQEYIGTYVTDDDGSLSFKEGVLVEALR-RGYWIVLDELNL  966 (4600)
T ss_pred             CCcEEEecCCCCCcchHHHHHHHHhCccEEEecCcccchHHHHhhceeecCCCceeeehhHHHHHHh-cCcEEEeecccc
Confidence            3569999999999999999999999999999885322      2222211111   11122333433 336899999976


Q ss_pred             cccCCCCCchHHHHhhHHHHHHHhhcc----------CcCCCCcEEEEEecCCCC------CCcHHHHhccCCceEeCCC
Q 016044          194 FLGQRRTSDHEALTNMKTEFMALWDGF----------TTDQNARVMVLAATNRPS------ELDEAILRRLPQAFEIGMP  257 (396)
Q Consensus       194 l~~~~~~~~~~~~~~~~~~ll~~l~~~----------~~~~~~~v~vI~atn~~~------~l~~~l~~R~~~~i~~~~P  257 (396)
                      ..    +...+       .+-.++|.-          ...+..+++++||.|+|.      .+..|++.|| ..++|.--
T Consensus       967 Ap----TDVLE-------aLNRLLDDNRelfIPETqevV~PHp~F~lFATQNppg~YgGRK~LSrAFRNRF-lE~hFddi 1034 (4600)
T COG5271         967 AP----TDVLE-------ALNRLLDDNRELFIPETQEVVVPHPNFRLFATQNPPGGYGGRKGLSRAFRNRF-LEMHFDDI 1034 (4600)
T ss_pred             Cc----HHHHH-------HHHHhhccccceecCCcceeeccCCCeeEEeecCCCccccchHHHHHHHHhhh-HhhhcccC
Confidence            42    11122       222222211          112456789999999886      4678999999 88889888


Q ss_pred             CHHHHHHHHHHHhc
Q 016044          258 DRKERAQILKVILK  271 (396)
Q Consensus       258 ~~~er~~il~~~l~  271 (396)
                      +.+|...||+..+.
T Consensus      1035 pedEle~ILh~rc~ 1048 (4600)
T COG5271        1035 PEDELEEILHGRCE 1048 (4600)
T ss_pred             cHHHHHHHHhccCc
Confidence            89999999987664

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=97.52  E-value=0.00024  Score=68.86  Aligned_cols=70  Identities=24%  Similarity=0.333  Sum_probs=44.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC-----CcEEEEecc-ccc-----------chhhchHHHHHHHHHHHHHHhCCcEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESG-----AVFINVRIS-NLM-----------SKWFGDAQKLVAAVFSLAYKLQPAII  186 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~-----~~~~~i~~~-~l~-----------~~~~g~~~~~~~~~f~~a~~~~p~vl  186 (396)
                      ..++++||+||||||+++++.....     ...+.+.-+ ++.           ....|............+.+..|.+|
T Consensus       150 GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E~~~~~~~~~~~~~q~evg~~~~~~~~~l~~aLR~~PD~I  229 (372)
T TIGR02525       150 GLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDPIEYILGSPDDLLPPAQSQIGRDVDSFANGIRLALRRAPKII  229 (372)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecCchhccCCCceeecccccccCCCccCHHHHHHHhhccCCCEE
Confidence            4589999999999999999987652     344444321 111           01111111123445556667799999


Q ss_pred             EEccccc
Q 016044          187 FIDEVDS  193 (396)
Q Consensus       187 ~iDEid~  193 (396)
                      ++.|+-.
T Consensus       230 ~vGEiRd  236 (372)
T TIGR02525       230 GVGEIRD  236 (372)
T ss_pred             eeCCCCC
Confidence            9999853

Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=97.51  E-value=0.0011  Score=57.15  Aligned_cols=71  Identities=14%  Similarity=0.230  Sum_probs=44.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhh-----------------chHHHHHHHHHHHHHHhCCcEEEE
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWF-----------------GDAQKLVAAVFSLAYKLQPAIIFI  188 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~-----------------g~~~~~~~~~f~~a~~~~p~vl~i  188 (396)
                      +|+.|++|+|||++|..++...+.+.+++....-...-.                 .+....+...+...  ..+.+++|
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~~~~~~y~at~~~~d~em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~--~~~~~VLI   79 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAELGGPVTYIATAEAFDDEMAERIARHRKRRPAHWRTIETPRDLVSALKEL--DPGDVVLI   79 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCeEEEEccCcCCHHHHHHHHHHHHhCCCCceEeecHHHHHHHHHhc--CCCCEEEE
Confidence            689999999999999999988777777765443221110                 11111222222111  14679999


Q ss_pred             ccccccccCC
Q 016044          189 DEVDSFLGQR  198 (396)
Q Consensus       189 DEid~l~~~~  198 (396)
                      |-+..+..+.
T Consensus        80 Dclt~~~~n~   89 (169)
T cd00544          80 DCLTLWVTNL   89 (169)
T ss_pred             EcHhHHHHHh
Confidence            9998876554

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.51  E-value=0.0003  Score=67.88  Aligned_cols=26  Identities=35%  Similarity=0.507  Sum_probs=22.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      ..-.+|+||||+|||+|++.+++...
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I~  194 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSIT  194 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHHH
Confidence            34589999999999999999998653

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=97.51  E-value=9.5e-05  Score=62.35  Aligned_cols=28  Identities=39%  Similarity=0.756  Sum_probs=24.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      ++|+|+||+||||+|+.++..++..++.
T Consensus         2 i~l~G~~GsGKST~a~~l~~~~~~~~i~   29 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAERLGAPFID   29 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhhcCCEEEe
Confidence            6899999999999999999998876654

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=97.51  E-value=9.2e-05  Score=61.94  Aligned_cols=29  Identities=31%  Similarity=0.642  Sum_probs=26.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      |-+.|||||||||+++.+|..+|.++++-
T Consensus         3 ItIsG~pGsG~TTva~~lAe~~gl~~vsa   31 (179)
T COG1102           3 ITISGLPGSGKTTVARELAEHLGLKLVSA   31 (179)
T ss_pred             EEeccCCCCChhHHHHHHHHHhCCceeec
Confidence            56889999999999999999999998763

>PRK14530 adenylate kinase; Provisional

Probab=97.51  E-value=0.00011  Score=66.15  Aligned_cols=31  Identities=32%  Similarity=0.582  Sum_probs=27.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      ..|+|.||||+||||+++.+|..+|.+++..
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~~~~~~i~~   34 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEEFGVEHVTT   34 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            3589999999999999999999999877654

>PRK08154 anaerobic benzoate catabolism transcriptional regulator; Reviewed

Probab=97.50  E-value=0.0002  Score=68.15  Aligned_cols=42  Identities=24%  Similarity=0.512  Sum_probs=35.2

Q ss_pred             hhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          114 FSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       114 ~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      +.+.+...+...|+|.|+||||||++++.++..+|.+|+.++
T Consensus       124 ~~~~~~~~~~~~I~l~G~~GsGKStvg~~La~~Lg~~~id~D  165 (309)
T PRK08154        124 LGAGRRAARRRRIALIGLRGAGKSTLGRMLAARLGVPFVELN  165 (309)
T ss_pred             HhhhhhccCCCEEEEECCCCCCHHHHHHHHHHHcCCCEEeHH
Confidence            344445667788999999999999999999999999998543

>PTZ00088 adenylate kinase 1; Provisional

Probab=97.49  E-value=0.00012  Score=66.27  Aligned_cols=33  Identities=30%  Similarity=0.595  Sum_probs=28.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      +..++|.||||+||||+|+.+|+.+|.++++++
T Consensus         6 ~mrIvl~G~PGsGK~T~a~~La~~~g~~~is~g   38 (229)
T PTZ00088          6 PLKIVLFGAPGVGKGTFAEILSKKENLKHINMG   38 (229)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHhCCcEEECC
Confidence            345999999999999999999999997776654

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=97.49  E-value=0.0001  Score=61.65  Aligned_cols=30  Identities=33%  Similarity=0.685  Sum_probs=27.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      +.+.|+||||||++|+.++..+|.+++..+
T Consensus         2 I~i~G~~GsGKst~a~~la~~~~~~~~~~~   31 (147)
T cd02020           2 IAIDGPAGSGKSTVAKLLAKKLGLPYLDTG   31 (147)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence            689999999999999999999999988776

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=97.49  E-value=0.0001  Score=64.90  Aligned_cols=29  Identities=45%  Similarity=0.765  Sum_probs=25.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      |+|+||||+||||+|+.+|..+|..++.+
T Consensus         2 I~i~G~pGsGKst~a~~La~~~~~~~i~~   30 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKYGLPHIST   30 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCeEEEC
Confidence            79999999999999999999988766554

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

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

Probab=97.49  E-value=0.001  Score=60.16  Aligned_cols=39  Identities=23%  Similarity=0.392  Sum_probs=29.6

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc---C------CcEEEEeccc
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES---G------AVFINVRISN  158 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~---~------~~~~~i~~~~  158 (396)
                      +.+..-+.|+||||+|||+++..++...   +      ..+++++...
T Consensus        16 ~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~   63 (226)
T cd01393          16 IPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG   63 (226)
T ss_pred             CcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence            5566678999999999999999997643   2      4556666543

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=97.48  E-value=0.0016  Score=62.28  Aligned_cols=35  Identities=23%  Similarity=0.191  Sum_probs=26.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      +.-++|.||+|+||||++..+|..+   |..+..+++.
T Consensus       140 ~~vi~~~G~~GvGKTTtiakLA~~l~~~g~~V~li~~D  177 (336)
T PRK14974        140 PVVIVFVGVNGTGKTTTIAKLAYYLKKNGFSVVIAAGD  177 (336)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEecCC
Confidence            5678999999999999988888754   4455455543

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.48  E-value=0.00051  Score=66.48  Aligned_cols=25  Identities=32%  Similarity=0.437  Sum_probs=22.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ....++|.||+|+||||++..+|..
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~  160 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAAR  160 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3567899999999999999999875

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.47  E-value=0.0016  Score=63.55  Aligned_cols=25  Identities=32%  Similarity=0.489  Sum_probs=22.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +..++|+||+|+||||++..+|..+
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~  198 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIY  198 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            5678999999999999999998754

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=97.46  E-value=0.00023  Score=68.77  Aligned_cols=70  Identities=20%  Similarity=0.312  Sum_probs=43.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC----CcEEEEec-cccc---------chhhchHHHHHHHHHHHHHHhCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG----AVFINVRI-SNLM---------SKWFGDAQKLVAAVFSLAYKLQPAIIFI  188 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~----~~~~~i~~-~~l~---------~~~~g~~~~~~~~~f~~a~~~~p~vl~i  188 (396)
                      ...+++.||+|+||||+++++.....    ..++.+.- .++.         ....|.........+..+....|.+|++
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E~~~~~~~~~i~q~evg~~~~~~~~~l~~~lr~~pd~i~v  201 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIEYVHRNKRSLINQREVGLDTLSFANALRAALREDPDVILI  201 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChhhhccCccceEEccccCCCCcCHHHHHHHhhccCCCEEEE
Confidence            35689999999999999999988654    23333321 1111         1111211122344455566779999999


Q ss_pred             cccc
Q 016044          189 DEVD  192 (396)
Q Consensus       189 DEid  192 (396)
                      ||+.
T Consensus       202 gEir  205 (343)
T TIGR01420       202 GEMR  205 (343)
T ss_pred             eCCC
Confidence            9984

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.

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

Probab=97.46  E-value=0.00049  Score=63.12  Aligned_cols=28  Identities=32%  Similarity=0.447  Sum_probs=24.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCC
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      ....++|.||+|||||++++.+++....
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l~~   42 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAITK   42 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcccc
Confidence            3567999999999999999999987643

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.

>TIGR00416 sms DNA repair protein RadA

Probab=97.46  E-value=0.00081  Score=67.23  Aligned_cols=79  Identities=18%  Similarity=0.210  Sum_probs=51.9

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhh------ch--------HHHHHHHHHHHHHHh
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWF------GD--------AQKLVAAVFSLAYKL  181 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~------g~--------~~~~~~~~f~~a~~~  181 (396)
                      .+.+..-+++.|+||+|||+++..++...   +.++++++..+-.....      +-        .+..+..+...+...
T Consensus        90 Gi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs~~qi~~ra~rlg~~~~~l~~~~e~~~~~I~~~i~~~  169 (454)
T TIGR00416        90 GIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEESLQQIKMRAIRLGLPEPNLYVLSETNWEQICANIEEE  169 (454)
T ss_pred             CccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCCHHHHHHHHHHcCCChHHeEEcCCCCHHHHHHHHHhc
Confidence            46667778999999999999999987744   34666766543322110      00        011233444555666


Q ss_pred             CCcEEEEccccccccC
Q 016044          182 QPAIIFIDEVDSFLGQ  197 (396)
Q Consensus       182 ~p~vl~iDEid~l~~~  197 (396)
                      +|.+++||.+..+...
T Consensus       170 ~~~~vVIDSIq~l~~~  185 (454)
T TIGR00416       170 NPQACVIDSIQTLYSP  185 (454)
T ss_pred             CCcEEEEecchhhccc
Confidence            8899999999987543

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)).

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=97.45  E-value=0.00011  Score=62.91  Aligned_cols=28  Identities=43%  Similarity=0.722  Sum_probs=24.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      +++.||+||||||+++.++..++..++.
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l~~~~v~   28 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRLGAKFIE   28 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhcCCeEEe
Confidence            4789999999999999999999866653

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>PF05272 VirE: Virulence-associated protein E; InterPro: IPR007936 This family contains several bacterial virulence-associated protein E like proteins

Probab=97.45  E-value=0.0001  Score=65.20  Aligned_cols=110  Identities=21%  Similarity=0.294  Sum_probs=58.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD  202 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~  202 (396)
                      ...++|.|+.|+|||++.+.|+.+    ++.-+......      ......+   .   ..-++.+||++.+..+.    
T Consensus        52 d~~lvl~G~QG~GKStf~~~L~~~----~~~d~~~~~~~------kd~~~~l---~---~~~iveldEl~~~~k~~----  111 (198)
T PF05272_consen   52 DTVLVLVGKQGIGKSTFFRKLGPE----YFSDSINDFDD------KDFLEQL---Q---GKWIVELDELDGLSKKD----  111 (198)
T ss_pred             ceeeeEecCCcccHHHHHHHHhHH----hccCccccCCC------cHHHHHH---H---HhHheeHHHHhhcchhh----
Confidence            355789999999999999999765    21111111110      1111111   1   11588899999874221    


Q ss_pred             hHHHHhhHHHHHHHhhc-------cCcCCCCcEEEEEecCCCCCC-cHHHHhccCCceEeCC
Q 016044          203 HEALTNMKTEFMALWDG-------FTTDQNARVMVLAATNRPSEL-DEAILRRLPQAFEIGM  256 (396)
Q Consensus       203 ~~~~~~~~~~ll~~l~~-------~~~~~~~~v~vI~atn~~~~l-~~~l~~R~~~~i~~~~  256 (396)
                      .+.   +++-+-...+.       .....+...++|||||..+-| |+.=-||| ..+.+..
T Consensus       112 ~~~---lK~~iT~~~~~~R~pY~~~~~~~~R~~~figTtN~~~~L~D~TGnRRf-~~v~v~~  169 (198)
T PF05272_consen  112 VEA---LKSFITRRTDTYRPPYGRDPEEFPRRAVFIGTTNDDDFLKDPTGNRRF-WPVEVSK  169 (198)
T ss_pred             HHH---HHHHhcccceeeecCCcCcceeeceeEEEEeccCCcceeeCCCCCeEE-EEEEEcC
Confidence            111   11111111111       111224567889999987755 34445688 6666654

>PRK06547 hypothetical protein; Provisional

Probab=97.45  E-value=0.00014  Score=62.87  Aligned_cols=33  Identities=36%  Similarity=0.547  Sum_probs=28.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      +.-|++.|++|||||++++.+++.++.+++..+
T Consensus        15 ~~~i~i~G~~GsGKTt~a~~l~~~~~~~~~~~d   47 (172)
T PRK06547         15 MITVLIDGRSGSGKTTLAGALAARTGFQLVHLD   47 (172)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhCCCeeccc
Confidence            567888999999999999999999887776554

>PRK13695 putative NTPase; Provisional

Probab=97.45  E-value=0.0023  Score=55.35  Aligned_cols=23  Identities=43%  Similarity=0.622  Sum_probs=20.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .++|.|++|+||||+++.++..+
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l   24 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELL   24 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            37899999999999999987754

>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=97.45  E-value=0.001  Score=61.74  Aligned_cols=68  Identities=22%  Similarity=0.304  Sum_probs=35.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccc---hh-hchHHHHHHHH----HHHHHHhCCcEEEEcccccc
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMS---KW-FGDAQKLVAAV----FSLAYKLQPAIIFIDEVDSF  194 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~---~~-~g~~~~~~~~~----f~~a~~~~p~vl~iDEid~l  194 (396)
                      |+|+|-||+|||++|+.|+..+   +..+..++...+.-   .| ....++..+..    +..+.. ...++++|+...+
T Consensus         4 iil~G~P~SGKTt~a~~L~~~~~~~~~~v~~i~~~~~~~~~~~y~~~~~Ek~~R~~l~s~v~r~ls-~~~iVI~Dd~nYi   82 (270)
T PF08433_consen    4 IILCGLPCSGKTTRAKELKKYLEEKGKEVVIISDDSLGIDRNDYADSKKEKEARGSLKSAVERALS-KDTIVILDDNNYI   82 (270)
T ss_dssp             EEEE--TTSSHHHHHHHHHHHHHHTT--EEEE-THHHH-TTSSS--GGGHHHHHHHHHHHHHHHHT-T-SEEEE-S---S
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHHhcCCEEEEEcccccccchhhhhchhhhHHHHHHHHHHHHHhhc-cCeEEEEeCCchH
Confidence            7899999999999999998854   55666666433320   11 12234444433    333322 3479999998876

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []

Probab=97.44  E-value=0.0061  Score=51.53  Aligned_cols=130  Identities=18%  Similarity=0.211  Sum_probs=75.1

Q ss_pred             ECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHh
Q 016044          129 YGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTN  208 (396)
Q Consensus       129 ~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~  208 (396)
                      .+.+||||||++.++++-+|- +-.+.-.++.++   ...+.+..+.+...+....++|.|==+.....           
T Consensus         5 IAtiGCGKTTva~aL~~LFg~-wgHvQnDnI~~k---~~~~f~~~~l~~L~~~~~~vViaDRNNh~~re-----------   69 (168)
T PF08303_consen    5 IATIGCGKTTVALALSNLFGE-WGHVQNDNITGK---RKPKFIKAVLELLAKDTHPVVIADRNNHQKRE-----------   69 (168)
T ss_pred             ecCCCcCHHHHHHHHHHHcCC-CCccccCCCCCC---CHHHHHHHHHHHHhhCCCCEEEEeCCCchHHH-----------
Confidence            588999999999999998873 334555666554   34455555555554445578888864443221           


Q ss_pred             hHHHHHHHhhccCc---CCCCcEEEEEecCCCCCCcHH--------HHhccCC--ceEeCCCCHHHHHHHHHHHhcCCC
Q 016044          209 MKTEFMALWDGFTT---DQNARVMVLAATNRPSELDEA--------ILRRLPQ--AFEIGMPDRKERAQILKVILKGEK  274 (396)
Q Consensus       209 ~~~~ll~~l~~~~~---~~~~~v~vI~atn~~~~l~~~--------l~~R~~~--~i~~~~P~~~er~~il~~~l~~~~  274 (396)
                       ..++...+.....   ....++.+||-.=..+.-.+.        +..|=+.  .|.....+...-..|+..+++...
T Consensus        70 -R~ql~~~~~~~~~~yl~~~~~~r~VaL~fv~~~~~~~i~~it~~RV~~RGDNHQTika~~~~~~~~~~Im~gFi~rfe  147 (168)
T PF08303_consen   70 -RKQLFEDVSQLKPDYLPYDTNVRFVALNFVHDDDLDEIRRITQDRVLARGDNHQTIKADSKDEKKVEGIMEGFIKRFE  147 (168)
T ss_pred             -HHHHHHHHHHhcccccccCCCeEEEEEEccCCCCHHHHHHHHHHHHHhcCcCcceeecCCCCHHHHHHHHHHHHHhcC
Confidence             2233333332221   123466777665433332222        2334433  444555567788888888886543

Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=97.43  E-value=0.0027  Score=58.00  Aligned_cols=37  Identities=27%  Similarity=0.419  Sum_probs=28.8

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEec
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVRI  156 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~  156 (396)
                      +.+..-++|.|+||+|||+++..++...    +.+++.+++
T Consensus        10 l~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~   50 (242)
T cd00984          10 LQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSL   50 (242)
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeC
Confidence            5556678999999999999998886643    667766664

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.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=97.42  E-value=0.0013  Score=58.43  Aligned_cols=22  Identities=27%  Similarity=0.563  Sum_probs=20.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      +-++|.||+|+||||+++.++.
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~   47 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGV   47 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHH
Confidence            5689999999999999999985

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

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=97.42  E-value=0.0017  Score=57.47  Aligned_cols=34  Identities=41%  Similarity=0.582  Sum_probs=24.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      +..++.||||||||++++.+...+   +..++.+.++
T Consensus        19 ~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~apT   55 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAPT   55 (196)
T ss_dssp             SEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEESS
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECCc
Confidence            567889999999999999987643   5566666543

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.42  E-value=0.0022  Score=59.37  Aligned_cols=38  Identities=18%  Similarity=0.274  Sum_probs=28.4

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEec
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRI  156 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~  156 (396)
                      ++.+..-++++||||||||++|-.++..   .|.+.++++.
T Consensus        32 Gip~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~   72 (259)
T TIGR03878        32 GIPAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTV   72 (259)
T ss_pred             CeECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEe
Confidence            4666777999999999999999988663   2445555543

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

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=97.42  E-value=0.0054  Score=58.58  Aligned_cols=29  Identities=24%  Similarity=0.313  Sum_probs=24.5

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCC
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      .++..+.|+|+=|||||++.+.+-+.+..
T Consensus        18 ~~~~~IgL~G~WGsGKSs~l~~l~~~L~~   46 (325)
T PF07693_consen   18 DDPFVIGLYGEWGSGKSSFLNMLKEELKE   46 (325)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            45678999999999999999999876643

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=97.41  E-value=0.00017  Score=62.50  Aligned_cols=34  Identities=24%  Similarity=0.564  Sum_probs=30.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEec
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI  156 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~  156 (396)
                      ...|+|.|++|+|||++++.++..++.+++..+.
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l~~~~vd~D~   37 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSDQ   37 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHcCCcEEECCc
Confidence            3579999999999999999999999998877663

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=97.41  E-value=0.00065  Score=68.47  Aligned_cols=101  Identities=19%  Similarity=0.303  Sum_probs=61.9

Q ss_pred             ccCCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCce-EEEECCCCCcHHHHHHHHHHHcC---CcEE
Q 016044           77 VINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKG-VLLYGPPGTGKTMLAKAIAKESG---AVFI  152 (396)
Q Consensus        77 ~~~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~-vLL~GppGtGKT~la~ala~~~~---~~~~  152 (396)
                      +++.+....++++++-.++..+.+.+.+..                +.| ++++||+|+||||+..++.++++   .+++
T Consensus       211 ll~~~~~~~~l~~Lg~~~~~~~~l~~~~~~----------------~~GlilitGptGSGKTTtL~a~L~~l~~~~~~ii  274 (486)
T TIGR02533       211 LLDKTAVRLDLETLGMSPELLSRFERLIRR----------------PHGIILVTGPTGSGKTTTLYAALSRLNTPERNIL  274 (486)
T ss_pred             eccCccCCCCHHHcCCCHHHHHHHHHHHhc----------------CCCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEE
Confidence            334444456888888777777777665431                344 68999999999999998877653   3344


Q ss_pred             EEec-ccccch-----hhc-hHHHHHHHHHHHHHHhCCcEEEEccccc
Q 016044          153 NVRI-SNLMSK-----WFG-DAQKLVAAVFSLAYKLQPAIIFIDEVDS  193 (396)
Q Consensus       153 ~i~~-~~l~~~-----~~g-~~~~~~~~~f~~a~~~~p~vl~iDEid~  193 (396)
                      .+.- .++.-.     .+. ............+.+..|.+|++.|+-.
T Consensus       275 TiEDpvE~~~~~~~q~~v~~~~g~~f~~~lr~~LR~dPDvI~vGEiRd  322 (486)
T TIGR02533       275 TVEDPVEYQIEGIGQIQVNPKIGLTFAAGLRAILRQDPDIIMVGEIRD  322 (486)
T ss_pred             EEcCCeeeecCCCceEEEccccCccHHHHHHHHHhcCCCEEEEeCCCC
Confidence            4432 111100     011 0111233445556678999999999854

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=97.40  E-value=0.00066  Score=57.31  Aligned_cols=34  Identities=26%  Similarity=0.451  Sum_probs=27.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccc
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNL  159 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l  159 (396)
                      +++.|+||+|||++|+.++..+   +...+.++...+
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~~~g~~~~~i~~d~~   38 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLFQRGRPVYVLDGDNV   38 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEEcCHHH
Confidence            6899999999999999999987   666666665433

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=97.39  E-value=0.00018  Score=62.07  Aligned_cols=32  Identities=31%  Similarity=0.550  Sum_probs=28.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      ..++|.|++|||||++++.+|..+|.+|+..+
T Consensus         3 ~~i~~~G~~GsGKst~~~~la~~lg~~~~d~D   34 (171)
T PRK03731          3 QPLFLVGARGCGKTTVGMALAQALGYRFVDTD   34 (171)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCEEEcc
Confidence            35899999999999999999999999987654

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.39  E-value=0.0005  Score=67.90  Aligned_cols=109  Identities=19%  Similarity=0.312  Sum_probs=67.5

Q ss_pred             cchhhhccccCCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCce-EEEECCCCCcHHHHHHHHHHHc
Q 016044           69 YEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKG-VLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus        69 ~~~~~~~~~~~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~-vLL~GppGtGKT~la~ala~~~  147 (396)
                      |-+.+.-.+++......++++++......+.+.+.+..                |.| +|+.||.|+||||...++.+++
T Consensus       219 ~GEkvVlRil~~~~~~l~l~~Lg~~~~~~~~~~~~~~~----------------p~GliLvTGPTGSGKTTTLY~~L~~l  282 (500)
T COG2804         219 YGEKVVLRILDKDQVILDLEKLGMSPFQLARLLRLLNR----------------PQGLILVTGPTGSGKTTTLYAALSEL  282 (500)
T ss_pred             CCcEEEEEEeccccccCCHHHhCCCHHHHHHHHHHHhC----------------CCeEEEEeCCCCCCHHHHHHHHHHHh
Confidence            34444445556666678899999998888888776542                455 5778999999999999998887


Q ss_pred             CCcE---EEEec------ccccchhhch-HHHHHHHHHHHHHHhCCcEEEEccccc
Q 016044          148 GAVF---INVRI------SNLMSKWFGD-AQKLVAAVFSLAYKLQPAIIFIDEVDS  193 (396)
Q Consensus       148 ~~~~---~~i~~------~~l~~~~~g~-~~~~~~~~f~~a~~~~p~vl~iDEid~  193 (396)
                      +.+.   +.+.-      +.+..-.+.. ..-.....++...+..|.||++.||-.
T Consensus       283 n~~~~nI~TiEDPVE~~~~gI~Q~qVN~k~gltfa~~LRa~LRqDPDvImVGEIRD  338 (500)
T COG2804         283 NTPERNIITIEDPVEYQLPGINQVQVNPKIGLTFARALRAILRQDPDVIMVGEIRD  338 (500)
T ss_pred             cCCCceEEEeeCCeeeecCCcceeecccccCCCHHHHHHHHhccCCCeEEEeccCC
Confidence            6433   33221      1111100000 000112233344567999999999954

>PRK13946 shikimate kinase; Provisional

Probab=97.39  E-value=0.00015  Score=63.46  Aligned_cols=33  Identities=27%  Similarity=0.526  Sum_probs=30.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      ++.|+|.|.+|||||++++.+|+.+|.+|+..+
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~Lg~~~id~D   42 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATMLGLPFLDAD   42 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHcCCCeECcC
Confidence            467999999999999999999999999988766

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function

Probab=97.39  E-value=0.00064  Score=65.96  Aligned_cols=23  Identities=52%  Similarity=0.680  Sum_probs=21.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~  147 (396)
                      -+++.|.||||||.+|-.++.++
T Consensus         3 v~~I~G~aGTGKTvla~~l~~~l   25 (352)
T PF09848_consen    3 VILITGGAGTGKTVLALNLAKEL   25 (352)
T ss_pred             EEEEEecCCcCHHHHHHHHHHHh
Confidence            47899999999999999999987

It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.39  E-value=0.017  Score=54.91  Aligned_cols=94  Identities=20%  Similarity=0.279  Sum_probs=54.1

Q ss_pred             CcEEEEccccccccCCCC------CchHHHHhhHHHHHHHhhccCcCCCCcEEE-EEecCC---CC--CCcHHHHhccC-
Q 016044          183 PAIIFIDEVDSFLGQRRT------SDHEALTNMKTEFMALWDGFTTDQNARVMV-LAATNR---PS--ELDEAILRRLP-  249 (396)
Q Consensus       183 p~vl~iDEid~l~~~~~~------~~~~~~~~~~~~ll~~l~~~~~~~~~~v~v-I~atn~---~~--~l~~~l~~R~~-  249 (396)
                      |.++-+|+++.++....-      .....-..+...|+..+.+-....++.+++ +++|..   +.  .++.++..+-. 
T Consensus       157 PVL~avD~~n~l~~~S~Y~~~~~~~I~~~~L~l~~~f~~~~s~~~~~~nG~~v~~l~~t~~~~~~~~~~l~~~L~~~~~~  236 (309)
T PF10236_consen  157 PVLVAVDGFNALFGPSAYRDPDFKPIHPHDLTLVRLFLDLLSGKRDFKNGAVVTALAATSVSNAPKSPTLPVALGGKEGF  236 (309)
T ss_pred             ceEEEehhhHHhhCCccccCCCCccccHHHhhHHHHHHHHhcCccccCCCeEEEEEeccccccccCCccchhhhccccCC
Confidence            556679999999766321      111122234445555544444334444432 444432   22  45555554321 


Q ss_pred             --------------------CceEeCCCCHHHHHHHHHHHhcCCCCC
Q 016044          250 --------------------QAFEIGMPDRKERAQILKVILKGEKVE  276 (396)
Q Consensus       250 --------------------~~i~~~~P~~~er~~il~~~l~~~~~~  276 (396)
                                          ..+.++..+.+|-..++..+....-+.
T Consensus       237 ~~~dPy~~~d~~~~~~l~~~~~i~v~~~s~~E~~~ll~yy~~~~~l~  283 (309)
T PF10236_consen  237 PHLDPYVKRDPRVAESLKGVKPIEVPRLSKEEARSLLEYYADSGWLR  283 (309)
T ss_pred             CCCCCcccccHHHHHHhcCCceEEeCCCCHHHHHHHHHHHHHCCccc
Confidence                                268899999999999999998765554

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).

>PRK14528 adenylate kinase; Provisional

Probab=97.39  E-value=0.00017  Score=63.29  Aligned_cols=31  Identities=32%  Similarity=0.587  Sum_probs=27.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      +.+++.||||+||||+++.++..+|.+++.+
T Consensus         2 ~~i~i~G~pGsGKtt~a~~la~~~~~~~is~   32 (186)
T PRK14528          2 KNIIFMGPPGAGKGTQAKILCERLSIPQIST   32 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCCeeeC
Confidence            3589999999999999999999999877654

>PLN02200 adenylate kinase family protein

Probab=97.39  E-value=0.0002  Score=65.25  Aligned_cols=37  Identities=22%  Similarity=0.366  Sum_probs=30.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS  161 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~  161 (396)
                      +.-+++.|||||||||+|+.++..+|..  .++++++..
T Consensus        43 ~~ii~I~G~PGSGKsT~a~~La~~~g~~--his~gdllR   79 (234)
T PLN02200         43 PFITFVLGGPGSGKGTQCEKIVETFGFK--HLSAGDLLR   79 (234)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhCCe--EEEccHHHH
Confidence            4568899999999999999999999865  455555544

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=97.39  E-value=0.00023  Score=66.36  Aligned_cols=100  Identities=20%  Similarity=0.324  Sum_probs=58.0

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC---CcEEEEec-c
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG---AVFINVRI-S  157 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~---~~~~~i~~-~  157 (396)
                      ....++++++-.....+.+.+++...            .....++++.||+||||||+++++.....   ..++.+.- .
T Consensus        98 ~~~~sle~l~~~~~~~~~~~~~l~~~------------v~~~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~  165 (270)
T PF00437_consen   98 SKPFSLEDLGESGSIPEEIAEFLRSA------------VRGRGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPP  165 (270)
T ss_dssp             SS--CHCCCCHTHHCHHHHHHHHHHC------------HHTTEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS
T ss_pred             cccccHhhccCchhhHHHHHHHHhhc------------cccceEEEEECCCccccchHHHHHhhhccccccceEEecccc
Confidence            34568888877666666666555421            11247899999999999999999998663   33333331 1


Q ss_pred             cccch------h-hchHHHHHHHHHHHHHHhCCcEEEEccccc
Q 016044          158 NLMSK------W-FGDAQKLVAAVFSLAYKLQPAIIFIDEVDS  193 (396)
Q Consensus       158 ~l~~~------~-~g~~~~~~~~~f~~a~~~~p~vl~iDEid~  193 (396)
                      ++.-.      . ..........++..+.+..|.++++.|+-.
T Consensus       166 E~~l~~~~~~~~~~~~~~~~~~~~l~~~LR~~pD~iiigEiR~  208 (270)
T PF00437_consen  166 ELRLPGPNQIQIQTRRDEISYEDLLKSALRQDPDVIIIGEIRD  208 (270)
T ss_dssp             -S--SCSSEEEEEEETTTBSHHHHHHHHTTS--SEEEESCE-S
T ss_pred             ceeecccceEEEEeecCcccHHHHHHHHhcCCCCcccccccCC
Confidence            11100      0 011122344455566677899999999864

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>PRK08233 hypothetical protein; Provisional

Probab=97.39  E-value=0.0016  Score=56.59  Aligned_cols=33  Identities=18%  Similarity=0.209  Sum_probs=25.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC-CcEEEEec
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESG-AVFINVRI  156 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~-~~~~~i~~  156 (396)
                      .-|.+.|+||+||||+|+.++..++ ..++..+.
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~~l~~~~~~~~d~   37 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTHKLKNSKALYFDR   37 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCCCCceEEECC
Confidence            3477889999999999999999885 44444443

>PRK13764 ATPase; Provisional

Probab=97.38  E-value=0.00048  Score=70.53  Aligned_cols=67  Identities=21%  Similarity=0.459  Sum_probs=41.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC---CcEEEEe------cccccchh---hchHHHHHHHHHHHHHHhCCcEEEEcc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG---AVFINVR------ISNLMSKW---FGDAQKLVAAVFSLAYKLQPAIIFIDE  190 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~---~~~~~i~------~~~l~~~~---~g~~~~~~~~~f~~a~~~~p~vl~iDE  190 (396)
                      ..++|++|||||||||++++++..+.   ..+..+.      .......+   .+....    ....+....|.++++||
T Consensus       257 ~~~ILIsG~TGSGKTTll~AL~~~i~~~~riV~TiEDp~El~~~~~i~q~~~~~~~~~~----~~~~lLR~rPD~IivGE  332 (602)
T PRK13764        257 AEGILIAGAPGAGKSTFAQALAEFYADMGKIVKTMESPRDLQVPPEITQYSKLEGSMEE----TADILLLVRPDYTIYDE  332 (602)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhhCCCEEEEECCCccccCCCcceEEeeccccHHH----HHHHHHhhCCCEEEECC
Confidence            47899999999999999999998764   2232332      11111111   111122    22223456899999999


Q ss_pred             ccc
Q 016044          191 VDS  193 (396)
Q Consensus       191 id~  193 (396)
                      +-.
T Consensus       333 iRd  335 (602)
T PRK13764        333 MRK  335 (602)
T ss_pred             CCC
Confidence            854

>PRK04328 hypothetical protein; Provisional

Probab=97.38  E-value=0.0029  Score=58.20  Aligned_cols=37  Identities=30%  Similarity=0.403  Sum_probs=27.0

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEe
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVR  155 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~  155 (396)
                      .+.+...++++||||||||+++..++.+   .|.+.++++
T Consensus        19 Gip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis   58 (249)
T PRK04328         19 GIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA   58 (249)
T ss_pred             CCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            3666778999999999999999877543   244444444

>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=97.37  E-value=0.0022  Score=58.19  Aligned_cols=135  Identities=12%  Similarity=0.210  Sum_probs=72.1

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCCcE--EEEecccccch---hh-----------chHHHHHHH----HHHHHH
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKESGAVF--INVRISNLMSK---WF-----------GDAQKLVAA----VFSLAY  179 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~~~~~--~~i~~~~l~~~---~~-----------g~~~~~~~~----~f~~a~  179 (396)
                      ...+-.+++.|++|||||+++..+...+...|  +.+-++.....   ++           .+.+..+..    +-....
T Consensus        10 ~~~~fr~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~~~n~~~~~~i~p~~i~~~~~~e~le~~l~~~k~~I~k~~~   89 (241)
T PF04665_consen   10 LKDPFRMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITPEYNNEYYKYIWPDHIFKVFDKEELEYILIRQKEKIEKYIK   89 (241)
T ss_pred             cCCCceEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEecCCchhhhhhcchhhccccccHHHHHHHHHHHHHHHHHHhh
Confidence            34456799999999999999999987654322  21111111111   10           011111111    111111


Q ss_pred             ---H---hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceE
Q 016044          180 ---K---LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFE  253 (396)
Q Consensus       180 ---~---~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~  253 (396)
                         .   ..+.+|++||+..   . .     .-.+.+.++..   .   ...-++.+|.++...-.+++.++.-.+..+-
T Consensus        90 k~~~~k~~~~~LiIlDD~~~---~-~-----~k~~~l~~~~~---~---gRH~~is~i~l~Q~~~~lp~~iR~n~~y~i~  154 (241)
T PF04665_consen   90 KSPQKKNNPRFLIILDDLGD---K-K-----LKSKILRQFFN---N---GRHYNISIIFLSQSYFHLPPNIRSNIDYFII  154 (241)
T ss_pred             hhcccCCCCCeEEEEeCCCC---c-h-----hhhHHHHHHHh---c---ccccceEEEEEeeecccCCHHHhhcceEEEE
Confidence               1   1257999999742   1 0     01112223332   1   1244578888888888999999887766665


Q ss_pred             eCCCCHHHHHHHHHHHh
Q 016044          254 IGMPDRKERAQILKVIL  270 (396)
Q Consensus       254 ~~~P~~~er~~il~~~l  270 (396)
                      ++ -+......+++.+.
T Consensus       155 ~~-~s~~dl~~i~~~~~  170 (241)
T PF04665_consen  155 FN-NSKRDLENIYRNMN  170 (241)
T ss_pred             ec-CcHHHHHHHHHhcc
Confidence            64 45555555555443

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

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.35  E-value=0.00021  Score=62.16  Aligned_cols=28  Identities=46%  Similarity=0.852  Sum_probs=24.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFI  152 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~  152 (396)
                      .|+|.||||+||||+|+.|++.++.+.+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~i~hl   29 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLGLPHL   29 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            4899999999999999999999665443

>TIGR01351 adk adenylate kinases

Probab=97.35  E-value=0.00018  Score=64.44  Aligned_cols=29  Identities=45%  Similarity=0.739  Sum_probs=26.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      |++.||||+||||+|+.+|..+|.+++++
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~g~~~is~   30 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKYGLPHIST   30 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCeeeh
Confidence            78999999999999999999998776654

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=97.35  E-value=0.00065  Score=64.18  Aligned_cols=70  Identities=26%  Similarity=0.383  Sum_probs=45.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEecc-ccc-------chhhchHHHHHHHHHHHHHHhCCcEEEEc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVRIS-NLM-------SKWFGDAQKLVAAVFSLAYKLQPAIIFID  189 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~~~-~l~-------~~~~g~~~~~~~~~f~~a~~~~p~vl~iD  189 (396)
                      ..++++.||+|+||||++++++...     +..++.+.-. ++.       .-...........++..+.+..|..|++.
T Consensus       132 ~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~~~~~~v~~~~~~~~~~~~~~l~~aLR~~pD~iivG  211 (299)
T TIGR02782       132 RKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQCAAPNVVQLRTSDDAISMTRLLKATLRLRPDRIIVG  211 (299)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcCCCCCEEEEEecCCCCCHHHHHHHHhcCCCCEEEEe
Confidence            4789999999999999999999875     2333333211 110       00001111134556677778899999999


Q ss_pred             ccc
Q 016044          190 EVD  192 (396)
Q Consensus       190 Eid  192 (396)
                      |+-
T Consensus       212 EiR  214 (299)
T TIGR02782       212 EVR  214 (299)
T ss_pred             ccC
Confidence            984

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.35  E-value=0.0042  Score=60.19  Aligned_cols=35  Identities=23%  Similarity=0.264  Sum_probs=26.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      ++.++|.||+|+||||++..+|..+   |..+..+++.
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aD  278 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTD  278 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecC
Confidence            5678999999999999999998765   3344445443

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=97.35  E-value=0.0015  Score=55.94  Aligned_cols=72  Identities=17%  Similarity=0.111  Sum_probs=42.6

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCC--cEEEEecccccc--------h---h---hchHHHHHHHHHHHHHHhCCc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKESGA--VFINVRISNLMS--------K---W---FGDAQKLVAAVFSLAYKLQPA  184 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~~~--~~~~i~~~~l~~--------~---~---~g~~~~~~~~~f~~a~~~~p~  184 (396)
                      .+...+.|.||+|+|||||.+.++.....  --+.++...+..        .   +   .... ...+-.+..+...+|.
T Consensus        24 ~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v~~~g~~~~~~~~~~~~~~~i~~~~qLS~G-~~qrl~laral~~~p~  102 (163)
T cd03216          24 RRGEVHALLGENGAGKSTLMKILSGLYKPDSGEILVDGKEVSFASPRDARRAGIAMVYQLSVG-ERQMVEIARALARNAR  102 (163)
T ss_pred             eCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEECCcCCHHHHHhcCeEEEEecCHH-HHHHHHHHHHHhcCCC
Confidence            34567899999999999999999875421  112222211110        0   0   1111 1223344556667899


Q ss_pred             EEEEccccc
Q 016044          185 IIFIDEVDS  193 (396)
Q Consensus       185 vl~iDEid~  193 (396)
                      ++++||-..
T Consensus       103 illlDEP~~  111 (163)
T cd03216         103 LLILDEPTA  111 (163)
T ss_pred             EEEEECCCc
Confidence            999999754

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.

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=97.33  E-value=0.0032  Score=55.70  Aligned_cols=25  Identities=36%  Similarity=0.498  Sum_probs=21.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      |+-++|.||+|+||||.+-.+|..+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~   25 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARL   25 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHH
Confidence            4678999999999999998888754

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 ....

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

Probab=97.33  E-value=0.0022  Score=59.77  Aligned_cols=37  Identities=22%  Similarity=0.305  Sum_probs=27.9

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEec
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVRI  156 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~  156 (396)
                      +.+..-++|.|+||+|||+++..++...    |.+++.++.
T Consensus        27 ~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~   67 (271)
T cd01122          27 LRKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISL   67 (271)
T ss_pred             EcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEc
Confidence            4555678999999999999999886643    555555554

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

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.33  E-value=0.00022  Score=62.43  Aligned_cols=30  Identities=27%  Similarity=0.517  Sum_probs=25.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      .-+++.|||||||||+++.++..+|..++.
T Consensus         4 ~ii~i~G~~GsGKsTl~~~l~~~~g~~~~~   33 (188)
T TIGR01360         4 KIIFIVGGPGSGKGTQCEKIVEKYGFTHLS   33 (188)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCcEEe
Confidence            357899999999999999999998865543

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PRK02496 adk adenylate kinase; Provisional

Probab=97.33  E-value=0.00019  Score=62.79  Aligned_cols=30  Identities=30%  Similarity=0.527  Sum_probs=26.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      .+++.||||+||||+++.++..++.+.+..
T Consensus         3 ~i~i~G~pGsGKst~a~~la~~~~~~~i~~   32 (184)
T PRK02496          3 RLIFLGPPGAGKGTQAVVLAEHLHIPHIST   32 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEEh
Confidence            389999999999999999999998776554

>PRK10436 hypothetical protein; Provisional

Probab=97.32  E-value=0.00077  Score=67.31  Aligned_cols=104  Identities=16%  Similarity=0.238  Sum_probs=63.6

Q ss_pred             ccccCCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC---CcE
Q 016044           75 CDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG---AVF  151 (396)
Q Consensus        75 ~~~~~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~---~~~  151 (396)
                      ..++.......++++++-.+...+.+.+.+..               +...+|++||+|+||||+..++..+.+   .++
T Consensus       185 lRll~~~~~~~~L~~LG~~~~~~~~l~~~~~~---------------~~GliLvtGpTGSGKTTtL~a~l~~~~~~~~~i  249 (462)
T PRK10436        185 LRLLQQVQQALDLETLGMTPAQLAQFRQALQQ---------------PQGLILVTGPTGSGKTVTLYSALQTLNTAQINI  249 (462)
T ss_pred             EEEeccccCCCCHHHcCcCHHHHHHHHHHHHh---------------cCCeEEEECCCCCChHHHHHHHHHhhCCCCCEE
Confidence            33444444456888988777777777665532               234578999999999999988777653   334


Q ss_pred             EEEec-ccccch-----hhc-hHHHHHHHHHHHHHHhCCcEEEEccccc
Q 016044          152 INVRI-SNLMSK-----WFG-DAQKLVAAVFSLAYKLQPAIIFIDEVDS  193 (396)
Q Consensus       152 ~~i~~-~~l~~~-----~~g-~~~~~~~~~f~~a~~~~p~vl~iDEid~  193 (396)
                      +.+.- .++.-.     .++ .........+..+.+..|.+|++.|+-.
T Consensus       250 ~TiEDPvE~~l~gi~Q~~v~~~~g~~f~~~lr~~LR~dPDvI~vGEIRD  298 (462)
T PRK10436        250 CSVEDPVEIPLAGINQTQIHPKAGLTFQRVLRALLRQDPDVIMVGEIRD  298 (462)
T ss_pred             EEecCCccccCCCcceEeeCCccCcCHHHHHHHHhcCCCCEEEECCCCC
Confidence            44331 111100     011 1112244455566678999999999853

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=97.32  E-value=0.00016  Score=61.29  Aligned_cols=30  Identities=33%  Similarity=0.543  Sum_probs=26.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      .++++|.|||||||+++.++ .+|..+++++
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~-~lg~~~i~l~   31 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR-ELGYKVIELN   31 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH-HhCCceeeHH
Confidence            37899999999999999999 8888876654

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.31  E-value=0.00039  Score=62.63  Aligned_cols=24  Identities=38%  Similarity=0.562  Sum_probs=21.3

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~  145 (396)
                      +.--+-|.||+|||||||.+.+|.
T Consensus        28 ~GEfvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          28 KGEFVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            345689999999999999999997

>PF13479 AAA_24: AAA domain

Probab=97.31  E-value=0.0013  Score=58.98  Aligned_cols=21  Identities=52%  Similarity=1.043  Sum_probs=18.9

Q ss_pred             CceEEEECCCCCcHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAI  143 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~al  143 (396)
                      +..++|||+||+|||++|..+
T Consensus         3 ~~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    3 PIKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             ceEEEEECCCCCCHHHHHHhC
Confidence            456899999999999999988

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

Probab=97.31  E-value=0.0023  Score=61.58  Aligned_cols=83  Identities=19%  Similarity=0.284  Sum_probs=60.8

Q ss_pred             CCCCCCceEEEECCCCCcHHHHHHHHHHHcC--CcEEEEecccccchh--------------hchHHHHHHHHHHHHHHh
Q 016044          118 KLLGPQKGVLLYGPPGTGKTMLAKAIAKESG--AVFINVRISNLMSKW--------------FGDAQKLVAAVFSLAYKL  181 (396)
Q Consensus       118 ~~~~~~~~vLL~GppGtGKT~la~ala~~~~--~~~~~i~~~~l~~~~--------------~g~~~~~~~~~f~~a~~~  181 (396)
                      +.+-+..-+|+-|.||.|||||.-.++..+.  .+++++...+-....              .--.+-.+..+.......
T Consensus        88 GG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~~vLYVsGEES~~QiklRA~RL~~~~~~l~l~aEt~~e~I~~~l~~~  167 (456)
T COG1066          88 GGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGKVLYVSGEESLQQIKLRADRLGLPTNNLYLLAETNLEDIIAELEQE  167 (456)
T ss_pred             CCcccccEEEEccCCCCCHHHHHHHHHHHHHhcCcEEEEeCCcCHHHHHHHHHHhCCCccceEEehhcCHHHHHHHHHhc
Confidence            3355667789999999999999988877552  368888875543321              112455667777888888


Q ss_pred             CCcEEEEccccccccCCCC
Q 016044          182 QPAIIFIDEVDSFLGQRRT  200 (396)
Q Consensus       182 ~p~vl~iDEid~l~~~~~~  200 (396)
                      +|.+++||-|..+....-+
T Consensus       168 ~p~lvVIDSIQT~~s~~~~  186 (456)
T COG1066         168 KPDLVVIDSIQTLYSEEIT  186 (456)
T ss_pred             CCCEEEEeccceeeccccc
Confidence            9999999999998766533

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=97.31  E-value=0.00074  Score=62.14  Aligned_cols=34  Identities=29%  Similarity=0.486  Sum_probs=27.2

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccc
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNL  159 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l  159 (396)
                      |+|+|+||+||||+|+.++..+   +..++.++...+
T Consensus         2 Ivl~G~pGSGKST~a~~La~~l~~~~~~v~~i~~D~l   38 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAKKLSEKNIDVIILGTDLI   38 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCceEEEccHHH
Confidence            6899999999999999999876   456666655433

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.

>PRK13900 type IV secretion system ATPase VirB11; Provisional

Probab=97.29  E-value=0.00083  Score=64.37  Aligned_cols=71  Identities=24%  Similarity=0.383  Sum_probs=45.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCC--cEEEEec-cccc-----------chh--hchHHHHHHHHHHHHHHhCCcEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGA--VFINVRI-SNLM-----------SKW--FGDAQKLVAAVFSLAYKLQPAII  186 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~--~~~~i~~-~~l~-----------~~~--~g~~~~~~~~~f~~a~~~~p~vl  186 (396)
                      ..++++.|++|+||||+++++......  .++.+.- .++.           ...  .+...-....++..+.+..|..|
T Consensus       160 ~~nili~G~tgSGKTTll~aL~~~ip~~~ri~tiEd~~El~l~~~~n~~~~~~~~~~~~~~~~~~~~ll~~~LR~~PD~I  239 (332)
T PRK13900        160 KKNIIISGGTSTGKTTFTNAALREIPAIERLITVEDAREIVLSNHPNRVHLLASKGGQGRAKVTTQDLIEACLRLRPDRI  239 (332)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHhhCCCCCeEEEecCCCccccccCCCEEEEEecCCCCCcCcCcHHHHHHHHhccCCCeE
Confidence            578999999999999999999986642  2222211 1111           000  11112234556777778899999


Q ss_pred             EEccccc
Q 016044          187 FIDEVDS  193 (396)
Q Consensus       187 ~iDEid~  193 (396)
                      ++.|+-.
T Consensus       240 ivGEiR~  246 (332)
T PRK13900        240 IVGELRG  246 (332)
T ss_pred             EEEecCC
Confidence            9999853

>PRK00279 adk adenylate kinase; Reviewed

Probab=97.29  E-value=0.00024  Score=63.88  Aligned_cols=29  Identities=45%  Similarity=0.725  Sum_probs=26.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      |+++||||+||||+++.+|..+|..++++
T Consensus         3 I~v~G~pGsGKsT~a~~la~~~~~~~is~   31 (215)
T PRK00279          3 LILLGPPGAGKGTQAKFIAEKYGIPHIST   31 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEEC
Confidence            89999999999999999999999766654

>PRK14527 adenylate kinase; Provisional

Probab=97.29  E-value=0.00022  Score=62.84  Aligned_cols=32  Identities=38%  Similarity=0.621  Sum_probs=27.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      +.-++++||||+||||+|+.++..++...++.
T Consensus         6 ~~~i~i~G~pGsGKsT~a~~La~~~~~~~is~   37 (191)
T PRK14527          6 NKVVIFLGPPGAGKGTQAERLAQELGLKKLST   37 (191)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCCCCCc
Confidence            46689999999999999999999988765443

>PRK06696 uridine kinase; Validated

Probab=97.29  E-value=0.00072  Score=61.13  Aligned_cols=39  Identities=28%  Similarity=0.399  Sum_probs=32.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMS  161 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~  161 (396)
                      +.-|.+.|++|+||||+|+.|+..+   |.+++.++..++..
T Consensus        22 ~~iI~I~G~sgsGKSTlA~~L~~~l~~~g~~v~~~~~Ddf~~   63 (223)
T PRK06696         22 PLRVAIDGITASGKTTFADELAEEIKKRGRPVIRASIDDFHN   63 (223)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeccccccC
Confidence            5568899999999999999999988   67777777766643

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=97.29  E-value=0.0011  Score=58.87  Aligned_cols=42  Identities=21%  Similarity=0.415  Sum_probs=31.8

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc-CCcEEEEecccccch
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKES-GAVFINVRISNLMSK  162 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~-~~~~~~i~~~~l~~~  162 (396)
                      ..|.-+++.|+||+|||+++..+...+ +..++.++...+...
T Consensus        13 ~~P~~~i~aG~~GsGKSt~~~~~~~~~~~~~~v~i~~D~~r~~   55 (199)
T PF06414_consen   13 EKPTLIIIAGQPGSGKSTLARQLLEEFGGGGIVVIDADEFRQF   55 (199)
T ss_dssp             SS-EEEEEES-TTSTTHHHHHHHHHHT-TT-SEEE-GGGGGGG
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHhhhhccCCCeEEEehHHHHHh
Confidence            346778999999999999999999988 778888888776543

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>PRK04040 adenylate kinase; Provisional

Probab=97.28  E-value=0.00029  Score=61.90  Aligned_cols=30  Identities=27%  Similarity=0.382  Sum_probs=25.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc--CCcEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES--GAVFI  152 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~--~~~~~  152 (396)
                      +.-++++|+|||||||+++.++..+  +..++
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~l~~~~~~~   33 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEKLKEDYKIV   33 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHhccCCeEE
Confidence            4568999999999999999999998  55543

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=97.27  E-value=0.0027  Score=56.43  Aligned_cols=22  Identities=27%  Similarity=0.446  Sum_probs=20.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      .-++|+||.|+|||++.+.++.
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHH
Confidence            5689999999999999999983

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.26  E-value=0.0044  Score=54.50  Aligned_cols=120  Identities=23%  Similarity=0.362  Sum_probs=69.1

Q ss_pred             CCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcE----------------------------------EEEecccc
Q 016044          117 GKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVF----------------------------------INVRISNL  159 (396)
Q Consensus       117 ~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~----------------------------------~~i~~~~l  159 (396)
                      +++++.+.-+++.|+.|||||.+++.++.-.   +...                                  +.++...+
T Consensus        22 GGGiP~GsL~lIEGd~~tGKSvLsqr~~YG~L~~g~~v~yvsTe~T~refi~qm~sl~ydv~~~~l~G~l~~~~~~~~~~  101 (235)
T COG2874          22 GGGIPVGSLILIEGDNGTGKSVLSQRFAYGFLMNGYRVTYVSTELTVREFIKQMESLSYDVSDFLLSGRLLFFPVNLEPV  101 (235)
T ss_pred             cCCCccCeEEEEECCCCccHHHHHHHHHHHHHhCCceEEEEEechhHHHHHHHHHhcCCCchHHHhcceeEEEEeccccc
Confidence            3446666668899999999999999998722   2222                                  22211111


Q ss_pred             cchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCC
Q 016044          160 MSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE  239 (396)
Q Consensus       160 ~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~  239 (396)
                      . -......+.+..+....+.....|++||-+..+....   ..    ....+|+..+..+..  .++ +||.|. +|+.
T Consensus       102 ~-~~~~~~~~~L~~l~~~~k~~~~dViIIDSls~~~~~~---~~----~~vl~fm~~~r~l~d--~gK-vIilTv-hp~~  169 (235)
T COG2874         102 N-WGRRSARKLLDLLLEFIKRWEKDVIIIDSLSAFATYD---SE----DAVLNFMTFLRKLSD--LGK-VIILTV-HPSA  169 (235)
T ss_pred             c-cChHHHHHHHHHHHhhHHhhcCCEEEEecccHHhhcc---cH----HHHHHHHHHHHHHHh--CCC-EEEEEe-Chhh
Confidence            0 0112345556666666666677999999999875443   11    122244444444432  223 344444 4677


Q ss_pred             CcHHHHhcc
Q 016044          240 LDEAILRRL  248 (396)
Q Consensus       240 l~~~l~~R~  248 (396)
                      +++++..|+
T Consensus       170 l~e~~~~ri  178 (235)
T COG2874         170 LDEDVLTRI  178 (235)
T ss_pred             cCHHHHHHH
Confidence            887777654

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.25  E-value=0.0049  Score=60.32  Aligned_cols=35  Identities=29%  Similarity=0.394  Sum_probs=25.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEecc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVRIS  157 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~~  157 (396)
                      +.-++|.||+|+||||++..+|...    |..+..+++.
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~D  261 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTD  261 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEeccc
Confidence            4458899999999999999998743    3344444443

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=97.25  E-value=0.0051  Score=55.57  Aligned_cols=37  Identities=19%  Similarity=0.330  Sum_probs=28.6

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEec
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRI  156 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~  156 (396)
                      +.+...+++.|+||+|||+++..++..   .|.+.++++.
T Consensus        13 i~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~   52 (224)
T TIGR03880        13 FPEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISL   52 (224)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEC
Confidence            566677899999999999999988753   2656666655

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.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.25  E-value=0.00087  Score=59.02  Aligned_cols=23  Identities=30%  Similarity=0.652  Sum_probs=20.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..-+.++||+||||||+.|++-.
T Consensus        28 Gevv~iiGpSGSGKSTlLRclN~   50 (240)
T COG1126          28 GEVVVIIGPSGSGKSTLLRCLNG   50 (240)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHC
Confidence            45689999999999999999965

>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=97.25  E-value=0.0022  Score=54.50  Aligned_cols=71  Identities=27%  Similarity=0.406  Sum_probs=42.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCc--EEEEecccccc-------h---h---hchHHHHHHHHHHHHHHhCCcEE
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGAV--FINVRISNLMS-------K---W---FGDAQKLVAAVFSLAYKLQPAII  186 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~~--~~~i~~~~l~~-------~---~---~g~~~~~~~~~f~~a~~~~p~vl  186 (396)
                      +...+.|.||+|+|||+++++++......  -+.++...+..       .   +   ....++ .+..+..+...+|.++
T Consensus        24 ~g~~~~i~G~nGsGKStll~~l~g~~~~~~G~i~~~~~~~~~~~~~~~~~~i~~~~qlS~G~~-~r~~l~~~l~~~~~i~  102 (157)
T cd00267          24 AGEIVALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGKDIAKLPLEELRRRIGYVPQLSGGQR-QRVALARALLLNPDLL  102 (157)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCccEEEECCEEcccCCHHHHHhceEEEeeCCHHHH-HHHHHHHHHhcCCCEE
Confidence            44678999999999999999999855321  12233221110       0   0   111221 2223444555678999


Q ss_pred             EEccccc
Q 016044          187 FIDEVDS  193 (396)
Q Consensus       187 ~iDEid~  193 (396)
                      ++||...
T Consensus       103 ilDEp~~  109 (157)
T cd00267         103 LLDEPTS  109 (157)
T ss_pred             EEeCCCc
Confidence            9999864

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=97.23  E-value=0.019  Score=53.47  Aligned_cols=36  Identities=22%  Similarity=0.277  Sum_probs=27.7

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      +++-++|.||+|+||||++..+|..+   |..+.-+++.
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D  109 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGD  109 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCC
Confidence            35678899999999999999998755   5555555554

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.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=97.23  E-value=0.00036  Score=64.76  Aligned_cols=25  Identities=32%  Similarity=0.519  Sum_probs=22.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      .++++.||+|+||||+.+.++....
T Consensus       112 ~~~~i~g~~g~GKttl~~~l~~~~~  136 (270)
T TIGR02858       112 LNTLIISPPQCGKTTLLRDLARILS  136 (270)
T ss_pred             eEEEEEcCCCCCHHHHHHHHhCccC
Confidence            6899999999999999999998653

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.

>PF13245 AAA_19: Part of AAA domain

Probab=97.23  E-value=0.00056  Score=50.56  Aligned_cols=24  Identities=50%  Similarity=0.663  Sum_probs=17.0

Q ss_pred             ceEEEECCCCCcHH-HHHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKT-MLAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT-~la~ala~~~  147 (396)
                      +-+++.|||||||| ++++.++...
T Consensus        11 ~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen   11 PLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHH
Confidence            34566999999999 5555555544

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=97.23  E-value=0.00023  Score=60.21  Aligned_cols=32  Identities=41%  Similarity=0.781  Sum_probs=25.5

Q ss_pred             EECCCCCcHHHHHHHHHHHcCCcEEEEecccccc
Q 016044          128 LYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS  161 (396)
Q Consensus       128 L~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~  161 (396)
                      |.||||+||||+|+.||..+|..+  ++..++..
T Consensus         1 i~G~PgsGK~t~~~~la~~~~~~~--is~~~llr   32 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYGLVH--ISVGDLLR   32 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTSEE--EEHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhcCcce--echHHHHH
Confidence            689999999999999999998654  45445443

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>PLN02674 adenylate kinase

Probab=97.22  E-value=0.00035  Score=63.68  Aligned_cols=32  Identities=31%  Similarity=0.543  Sum_probs=27.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      ...++|.||||+||+|+++.+|..+|..+++.
T Consensus        31 ~~~i~l~G~PGsGKgT~a~~La~~~~~~his~   62 (244)
T PLN02674         31 DKRLILIGPPGSGKGTQSPIIKDEYCLCHLAT   62 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHcCCcEEch
Confidence            46699999999999999999999998665543

>COG4178 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]

Probab=97.20  E-value=0.00069  Score=68.79  Aligned_cols=27  Identities=37%  Similarity=0.594  Sum_probs=23.8

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHH
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      +++...+++.||+|||||++.|++|.-
T Consensus       416 v~~G~~llI~G~SG~GKTsLlRaiaGL  442 (604)
T COG4178         416 VRPGERLLITGESGAGKTSLLRALAGL  442 (604)
T ss_pred             eCCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            455678999999999999999999983

>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=97.20  E-value=0.00048  Score=49.90  Aligned_cols=22  Identities=32%  Similarity=0.607  Sum_probs=20.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~  147 (396)
                      +.+.|+||+|||+++++++..+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999999985

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.

>PLN02199 shikimate kinase

Probab=97.18  E-value=0.00063  Score=63.27  Aligned_cols=33  Identities=30%  Similarity=0.502  Sum_probs=30.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      ..+|+|.|.+|+|||++++.+|+.+|.+|+..+
T Consensus       102 ~~~I~LIG~~GSGKSTVgr~LA~~Lg~~fIDtD  134 (303)
T PLN02199        102 GRSMYLVGMMGSGKTTVGKLMSKVLGYTFFDCD  134 (303)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEehH
Confidence            468999999999999999999999999988765

>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB

Probab=97.17  E-value=0.00096  Score=68.70  Aligned_cols=102  Identities=19%  Similarity=0.254  Sum_probs=62.4

Q ss_pred             ccCCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC---CcEEE
Q 016044           77 VINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG---AVFIN  153 (396)
Q Consensus        77 ~~~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~---~~~~~  153 (396)
                      +++......++++++-.+...+.+.+.+..               +...+|++||+|+||||+..++.+..+   .+++.
T Consensus       285 ll~~~~~~~~l~~lg~~~~~~~~l~~~~~~---------------~~Glilv~G~tGSGKTTtl~a~l~~~~~~~~~i~t  349 (564)
T TIGR02538       285 ILDSSAAQLDIDKLGFEPDQKALFLEAIHK---------------PQGMVLVTGPTGSGKTVSLYTALNILNTEEVNIST  349 (564)
T ss_pred             eecCccccCCHHHcCCCHHHHHHHHHHHHh---------------cCCeEEEECCCCCCHHHHHHHHHHhhCCCCceEEE
Confidence            444444446788888777777777665532               124478999999999999988877664   23443


Q ss_pred             Eecc------cccchhhc-hHHHHHHHHHHHHHHhCCcEEEEccccc
Q 016044          154 VRIS------NLMSKWFG-DAQKLVAAVFSLAYKLQPAIIFIDEVDS  193 (396)
Q Consensus       154 i~~~------~l~~~~~g-~~~~~~~~~f~~a~~~~p~vl~iDEid~  193 (396)
                      +.-+      .+....+. .........+..+.+..|.+|++.|+-.
T Consensus       350 iEdpvE~~~~~~~q~~v~~~~g~~~~~~l~~~LR~dPDvI~vGEiRd  396 (564)
T TIGR02538       350 AEDPVEINLPGINQVNVNPKIGLTFAAALRSFLRQDPDIIMVGEIRD  396 (564)
T ss_pred             ecCCceecCCCceEEEeccccCCCHHHHHHHHhccCCCEEEeCCCCC
Confidence            3221      11111011 0111234455566778999999999854

This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.

>COG5245 DYN1 Dynein, heavy chain [Cytoskeleton]

Probab=97.17  E-value=0.0011  Score=72.37  Aligned_cols=144  Identities=17%  Similarity=0.234  Sum_probs=81.9

Q ss_pred             CCCCceEEEECCCCCcHHHHH-HHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHHH--------------hCCc
Q 016044          120 LGPQKGVLLYGPPGTGKTMLA-KAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYK--------------LQPA  184 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la-~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~--------------~~p~  184 (396)
                      +...++++++||||+|||++. -++-+++-..++.++.+.-..     ++..+..+-+....              -+..
T Consensus      1491 lnt~R~~i~cGppGSgK~mlM~~sLrs~~~~ev~~~Nfs~~t~-----T~s~ls~Ler~t~yy~~tg~~~l~PK~~vK~l 1565 (3164)
T COG5245        1491 LNTLRSYIYCGPPGSGKEMLMCPSLRSELITEVKYFNFSTCTM-----TPSKLSVLERETEYYPNTGVVRLYPKPVVKDL 1565 (3164)
T ss_pred             HhccceEEEECCCCCccchhcchhhhhhhheeeeEEeeccccC-----CHHHHHHHHhhceeeccCCeEEEccCcchhhe
Confidence            445689999999999999864 677777777777777544322     12222221111100              0125


Q ss_pred             EEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcC------CCCcEEEEEecCCCCCC-----cHHHHhccCCceE
Q 016044          185 IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD------QNARVMVLAATNRPSEL-----DEAILRRLPQAFE  253 (396)
Q Consensus       185 vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~------~~~~v~vI~atn~~~~l-----~~~l~~R~~~~i~  253 (396)
                      |||.|||+ +...+.-...... -.+..++. -.|+...      .-.++.+.|++|++.+.     +..+.|+- ..+.
T Consensus      1566 VLFcDeIn-Lp~~~~y~~~~vI-~FlR~l~e-~QGfw~s~~~~wvTI~~i~l~Gacnp~td~gRv~~~eRf~r~~-v~vf 1641 (3164)
T COG5245        1566 VLFCDEIN-LPYGFEYYPPTVI-VFLRPLVE-RQGFWSSIAVSWVTICGIILYGACNPGTDEGRVKYYERFIRKP-VFVF 1641 (3164)
T ss_pred             EEEeeccC-CccccccCCCceE-EeeHHHHH-hcccccchhhhHhhhcceEEEccCCCCCCcccCccHHHHhcCc-eEEE
Confidence            99999999 4333221111100 00001111 1112111      12468999999987643     35666654 6678


Q ss_pred             eCCCCHHHHHHHHHHHhcC
Q 016044          254 IGMPDRKERAQILKVILKG  272 (396)
Q Consensus       254 ~~~P~~~er~~il~~~l~~  272 (396)
                      +..|.......|...++.+
T Consensus      1642 ~~ype~~SL~~Iyea~l~~ 1660 (3164)
T COG5245        1642 CCYPELASLRNIYEAVLMG 1660 (3164)
T ss_pred             ecCcchhhHHHHHHHHHHH
Confidence            8999999998888877653

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=97.17  E-value=0.003  Score=60.03  Aligned_cols=40  Identities=13%  Similarity=0.143  Sum_probs=29.3

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH---------cCCcEEEEeccc
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKE---------SGAVFINVRISN  158 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~---------~~~~~~~i~~~~  158 (396)
                      ++....-+.++||||+|||+++..+|-.         .+...++++...
T Consensus        92 Gi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~  140 (313)
T TIGR02238        92 GIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEG  140 (313)
T ss_pred             CCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCC
Confidence            3666667889999999999999887642         234666776544

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.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=97.17  E-value=0.00066  Score=59.57  Aligned_cols=70  Identities=27%  Similarity=0.460  Sum_probs=42.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCC--cEEEEecc-cccc---hh----------hchHHHHHHHHHHHHHHhCCcEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGA--VFINVRIS-NLMS---KW----------FGDAQKLVAAVFSLAYKLQPAII  186 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~--~~~~i~~~-~l~~---~~----------~g~~~~~~~~~f~~a~~~~p~vl  186 (396)
                      ...++|.||+|+||||++++++.....  ..+.+... ++..   .+          .+.........+..+.+..|.++
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i~~~~~~i~ied~~E~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~lR~~pd~i  104 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFIPPDERIITIEDTAELQLPHPNWVRLVTRPGNVEGSGEVTMADLLRSALRMRPDRI  104 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcCCCCCEEEECCccccCCCCCCEEEEEEecCCCCCCCccCHHHHHHHHhccCCCEE
Confidence            467999999999999999999986531  12222111 1100   00          00111234455556667789999


Q ss_pred             EEcccc
Q 016044          187 FIDEVD  192 (396)
Q Consensus       187 ~iDEid  192 (396)
                      ++.|+-
T Consensus       105 ~igEir  110 (186)
T cd01130         105 IVGEVR  110 (186)
T ss_pred             EEEccC
Confidence            999984

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>PRK13833 conjugal transfer protein TrbB; Provisional

Probab=97.16  E-value=0.0014  Score=62.25  Aligned_cols=70  Identities=21%  Similarity=0.355  Sum_probs=44.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEe-cccccch------hhchHHHHHHHHHHHHHHhCCcEEEEcc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVR-ISNLMSK------WFGDAQKLVAAVFSLAYKLQPAIIFIDE  190 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~-~~~l~~~------~~g~~~~~~~~~f~~a~~~~p~vl~iDE  190 (396)
                      ..++++.|++|+||||++++++...     +..++.+. ..++.-.      ......-....++..+.+..|..|++.|
T Consensus       144 ~~nilI~G~tGSGKTTll~aL~~~i~~~~~~~rivtiEd~~El~~~~~n~v~l~~~~~~~~~~lv~~aLR~~PD~IivGE  223 (323)
T PRK13833        144 RLNIVISGGTGSGKTTLANAVIAEIVASAPEDRLVILEDTAEIQCAAENAVALHTSDTVDMARLLKSTMRLRPDRIIVGE  223 (323)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHhcCCCCceEEEecCCcccccCCCCEEEeccCCCcCHHHHHHHHhCCCCCEEEEee
Confidence            4689999999999999999998865     23333332 1121100      0011112244566667778999999999


Q ss_pred             cc
Q 016044          191 VD  192 (396)
Q Consensus       191 id  192 (396)
                      +-
T Consensus       224 iR  225 (323)
T PRK13833        224 VR  225 (323)
T ss_pred             cC
Confidence            84

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=97.16  E-value=0.0021  Score=55.50  Aligned_cols=33  Identities=33%  Similarity=0.389  Sum_probs=26.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCcEEEEeccc
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES---GAVFINVRISN  158 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~  158 (396)
                      +++.||||+|||++++.++..+   +..+..+++..
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D~   38 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADT   38 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcCC
Confidence            6889999999999999998764   56666666653

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.

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.14  E-value=0.00033  Score=56.94  Aligned_cols=22  Identities=41%  Similarity=0.668  Sum_probs=20.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~  147 (396)
                      |+|.|+|||||||+|+.++..+
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            6899999999999999999986

...

>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=97.13  E-value=0.0022  Score=54.24  Aligned_cols=39  Identities=31%  Similarity=0.348  Sum_probs=32.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK  162 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~  162 (396)
                      .-|+|+|.||+||||+|+++.+.+   |.+.+.++...+...
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LDgD~lR~~   44 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERRLFARGIKVYLLDGDNLRHG   44 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEEHHHHCTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEecCcchhhc
Confidence            458899999999999999998865   788999998766543

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 ....

>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=97.13  E-value=0.005  Score=53.44  Aligned_cols=26  Identities=23%  Similarity=0.218  Sum_probs=21.6

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHH
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      .+..-+.|.||+|+|||||.+++...
T Consensus        19 ~~G~~~~l~G~nG~GKSTLl~~il~~   44 (176)
T cd03238          19 PLNVLVVVTGVSGSGKSTLVNEGLYA   44 (176)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhhc
Confidence            34466889999999999999999743

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.

>TIGR00767 rho transcription termination factor Rho

Probab=97.13  E-value=0.0016  Score=63.26  Aligned_cols=27  Identities=33%  Similarity=0.486  Sum_probs=23.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      ...-++|.||||+|||++++.+++...
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I~  193 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAIT  193 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhhc
Confidence            345689999999999999999999753

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

>PRK01184 hypothetical protein; Provisional

Probab=97.12  E-value=0.00046  Score=60.34  Aligned_cols=29  Identities=34%  Similarity=0.526  Sum_probs=24.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      -|+|+||||+||||+++ ++++.|.+++..
T Consensus         3 ~i~l~G~~GsGKsT~a~-~~~~~g~~~i~~   31 (184)
T PRK01184          3 IIGVVGMPGSGKGEFSK-IAREMGIPVVVM   31 (184)
T ss_pred             EEEEECCCCCCHHHHHH-HHHHcCCcEEEh
Confidence            47899999999999987 788888877654

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=97.12  E-value=0.022  Score=54.26  Aligned_cols=35  Identities=23%  Similarity=0.226  Sum_probs=26.8

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      ++.-++|.||+|+||||++..+|..+   +..+.-+++
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~  150 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAG  150 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEec
Confidence            35678899999999999999998865   444444544

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.11  E-value=0.00061  Score=56.02  Aligned_cols=30  Identities=33%  Similarity=0.385  Sum_probs=26.0

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCCc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKESGAV  150 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~~~~  150 (396)
                      .+..-++|.|+.|+|||++++.+++.++..
T Consensus        20 ~~~~~i~l~G~lGaGKTtl~~~l~~~lg~~   49 (133)
T TIGR00150        20 DFGTVVLLKGDLGAGKTTLVQGLLQGLGIQ   49 (133)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHHHcCCC
Confidence            345678999999999999999999998854

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=97.11  E-value=0.0047  Score=58.80  Aligned_cols=40  Identities=23%  Similarity=0.330  Sum_probs=30.3

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---------CCcEEEEeccc
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---------GAVFINVRISN  158 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---------~~~~~~i~~~~  158 (396)
                      ++....-++++||||||||+++-.+|...         +...++++..+
T Consensus        91 Gi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~  139 (310)
T TIGR02236        91 GIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTEN  139 (310)
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCC
Confidence            35556667899999999999999998653         23677777654

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.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=97.10  E-value=0.0022  Score=57.59  Aligned_cols=22  Identities=27%  Similarity=0.504  Sum_probs=20.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      +.++|+||.|+|||++.+.++.
T Consensus        30 ~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          30 SIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             eEEEEECCCCCChHHHHHHHHH
Confidence            6789999999999999999973

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

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=97.10  E-value=0.0064  Score=53.96  Aligned_cols=21  Identities=29%  Similarity=0.558  Sum_probs=19.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIA  144 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala  144 (396)
                      +.++|.||.|+||||+.+.++
T Consensus        29 ~~~~ltG~Ng~GKStll~~i~   49 (200)
T cd03280          29 RVLVITGPNAGGKTVTLKTLG   49 (200)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            459999999999999999988

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=97.10  E-value=0.0056  Score=53.06  Aligned_cols=24  Identities=29%  Similarity=0.488  Sum_probs=18.4

Q ss_pred             ceEEEECCCCCcHHH-HHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKTM-LAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT~-la~ala~~~  147 (396)
                      +++++.||+|+|||+ ++..+....
T Consensus        25 ~~~~i~~~~GsGKT~~~~~~~~~~~   49 (201)
T smart00487       25 RDVILAAPTGSGKTLAALLPALEAL   49 (201)
T ss_pred             CcEEEECCCCCchhHHHHHHHHHHh
Confidence            578999999999999 555555443

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=97.10  E-value=0.0047  Score=65.08  Aligned_cols=78  Identities=19%  Similarity=0.225  Sum_probs=49.8

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHH---HcCCcEEEEecccccch----------------hhchHHHHHHHHHHHHH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAK---ESGAVFINVRISNLMSK----------------WFGDAQKLVAAVFSLAY  179 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~---~~~~~~~~i~~~~l~~~----------------~~g~~~~~~~~~f~~a~  179 (396)
                      ++.+..-++++||||||||+++..++.   ..|...+.++...-...                .....+..+..+-....
T Consensus        56 Gip~GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~~~A~~lGvDl~~llv~~~~~~E~~l~~i~~lv~  135 (790)
T PRK09519         56 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIR  135 (790)
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhHHHHHHcCCChhHeEEecCCCHHHHHHHHHHHhh
Confidence            466667789999999999999976544   33556666665432220                01122333333333344


Q ss_pred             HhCCcEEEEcccccccc
Q 016044          180 KLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       180 ~~~p~vl~iDEid~l~~  196 (396)
                      ...+.+|+||-+..+.+
T Consensus       136 ~~~~~LVVIDSI~aL~~  152 (790)
T PRK09519        136 SGALDIVVIDSVAALVP  152 (790)
T ss_pred             cCCCeEEEEcchhhhcc
Confidence            45789999999999875

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=97.08  E-value=0.005  Score=58.81  Aligned_cols=40  Identities=20%  Similarity=0.268  Sum_probs=30.3

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---------CCcEEEEeccc
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---------GAVFINVRISN  158 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---------~~~~~~i~~~~  158 (396)
                      ++....-++++||||||||+++-.+|...         +...++++..+
T Consensus        98 Gi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~  146 (317)
T PRK04301         98 GIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEG  146 (317)
T ss_pred             CccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCC
Confidence            35566778999999999999999998653         23566776644

>PRK14526 adenylate kinase; Provisional

Probab=97.08  E-value=0.00054  Score=61.33  Aligned_cols=29  Identities=34%  Similarity=0.669  Sum_probs=25.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      .++|.|||||||||+++.++..++..++.
T Consensus         2 ~i~l~G~pGsGKsT~a~~La~~~~~~~is   30 (211)
T PRK14526          2 KLVFLGPPGSGKGTIAKILSNELNYYHIS   30 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceee
Confidence            37899999999999999999998876554

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=97.08  E-value=0.0066  Score=58.30  Aligned_cols=40  Identities=15%  Similarity=0.149  Sum_probs=28.7

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---------CCcEEEEeccc
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---------GAVFINVRISN  158 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---------~~~~~~i~~~~  158 (396)
                      ++....-..|+||||||||+++..+|-..         +...++++...
T Consensus       122 Gi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~  170 (344)
T PLN03187        122 GIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEG  170 (344)
T ss_pred             CCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCC
Confidence            35556667899999999999999886321         24566666533

>PRK00889 adenylylsulfate kinase; Provisional

Probab=97.07  E-value=0.0032  Score=54.56  Aligned_cols=37  Identities=27%  Similarity=0.319  Sum_probs=28.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNL  159 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l  159 (396)
                      +.-+.|.|+||+|||++++.++..+   +..+..++...+
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~l~~~g~~v~~id~D~~   43 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEKLREAGYPVEVLDGDAV   43 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEcCccH
Confidence            4568899999999999999999876   444555665443

>PRK04182 cytidylate kinase; Provisional

Probab=97.06  E-value=0.00059  Score=59.18  Aligned_cols=29  Identities=34%  Similarity=0.674  Sum_probs=26.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      .|+|.|++|||||++++.+|..+|.+++.
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg~~~id   30 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLGLKHVS   30 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCcEec
Confidence            37899999999999999999999988765

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.06  E-value=0.0038  Score=57.10  Aligned_cols=26  Identities=27%  Similarity=0.351  Sum_probs=22.5

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ....+-|.|++||||||++|.+..-.
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~   63 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLE   63 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCc
Confidence            45678899999999999999998844

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=97.06  E-value=0.00085  Score=63.79  Aligned_cols=71  Identities=20%  Similarity=0.349  Sum_probs=44.4

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCC--cEEEEec-ccccc----------hh--hchHHHHHHHHHHHHHHhCCcEE
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGA--VFINVRI-SNLMS----------KW--FGDAQKLVAAVFSLAYKLQPAII  186 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~--~~~~i~~-~~l~~----------~~--~g~~~~~~~~~f~~a~~~~p~vl  186 (396)
                      ...++++.||+|+||||++++++.....  ..+.+.- .++.-          ..  .+...-....++..+....|.++
T Consensus       143 ~~~~ili~G~tGsGKTTll~al~~~~~~~~~iv~ied~~El~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~Lr~~pd~i  222 (308)
T TIGR02788       143 SRKNIIISGGTGSGKTTFLKSLVDEIPKDERIITIEDTREIFLPHPNYVHLFYSKGGQGLAKVTPKDLLQSCLRMRPDRI  222 (308)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHccCCccccEEEEcCccccCCCCCCEEEEEecCCCCCcCccCHHHHHHHHhcCCCCeE
Confidence            4578999999999999999999986531  2222211 11100          00  01111234456666777899999


Q ss_pred             EEcccc
Q 016044          187 FIDEVD  192 (396)
Q Consensus       187 ~iDEid  192 (396)
                      ++||+-
T Consensus       223 i~gE~r  228 (308)
T TIGR02788       223 ILGELR  228 (308)
T ss_pred             EEeccC
Confidence            999985

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=97.06  E-value=0.0029  Score=53.92  Aligned_cols=39  Identities=21%  Similarity=0.282  Sum_probs=32.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMS  161 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~  161 (396)
                      +.-+.|+|.+|+||||+|.++...+   |...+.+++..+..
T Consensus        23 ~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~LDGDnvR~   64 (197)
T COG0529          23 GAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLLDGDNVRH   64 (197)
T ss_pred             CeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEecChhHhh
Confidence            4568899999999999999998855   88899999876643

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=97.05  E-value=0.011  Score=50.20  Aligned_cols=22  Identities=32%  Similarity=0.374  Sum_probs=18.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~  146 (396)
                      -+.+|+++|.|||++|-.+|-.
T Consensus         4 ~i~vy~g~G~Gkt~~a~g~~~r   25 (159)
T cd00561           4 LIQVYTGNGKGKTTAALGLALR   25 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3678999999999999988764

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.

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=97.04  E-value=0.00064  Score=64.35  Aligned_cols=31  Identities=39%  Similarity=0.545  Sum_probs=25.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc-CCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES-GAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~-~~~~~~i  154 (396)
                      .-+++.|+|||||||+|+.+++.+ +..++..
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~~~~~~l~~   34 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKNPKAVNVNR   34 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHCCCCEEEec
Confidence            457899999999999999999998 5554443

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=97.04  E-value=0.011  Score=53.55  Aligned_cols=38  Identities=32%  Similarity=0.339  Sum_probs=27.8

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEec
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRI  156 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~  156 (396)
                      .+.+...+++.||||+|||+++..++.+   .+...+.++.
T Consensus        16 Gi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~   56 (229)
T TIGR03881        16 GIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTT   56 (229)
T ss_pred             CCcCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEc
Confidence            3666788999999999999999887643   2444555543

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.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=97.04  E-value=0.0058  Score=53.63  Aligned_cols=26  Identities=42%  Similarity=0.615  Sum_probs=21.4

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ...-++|+||||+|||+++..++...
T Consensus        31 ~g~l~~i~g~~g~GKT~~~~~l~~~~   56 (193)
T PF13481_consen   31 RGELTLIAGPPGSGKTTLALQLAAAL   56 (193)
T ss_dssp             TTSEEEEEECSTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34558999999999999999987743

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=97.03  E-value=0.00083  Score=64.51  Aligned_cols=71  Identities=24%  Similarity=0.391  Sum_probs=45.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCC--cEEEEec-cccc-----------ch-hhchHHHHHHHHHHHHHHhCCcEE
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGA--VFINVRI-SNLM-----------SK-WFGDAQKLVAAVFSLAYKLQPAII  186 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~--~~~~i~~-~~l~-----------~~-~~g~~~~~~~~~f~~a~~~~p~vl  186 (396)
                      ...++++.||+|+||||++++++.....  ..+.+.- .++.           .. ..+...-....++..+.+..|..|
T Consensus       161 ~~~nilI~G~tGSGKTTll~aLl~~i~~~~rivtiEd~~El~l~~~~~v~l~~~~~~~~~~~~t~~~ll~~~LR~~pD~I  240 (344)
T PRK13851        161 GRLTMLLCGPTGSGKTTMSKTLISAIPPQERLITIEDTLELVIPHENHVRLLYSKNGAGLGAVTAEHLLQASLRMRPDRI  240 (344)
T ss_pred             cCCeEEEECCCCccHHHHHHHHHcccCCCCCEEEECCCccccCCCCCEEEEEeeccccCcCccCHHHHHHHHhcCCCCeE
Confidence            4578999999999999999999986532  2232221 1110           00 001111234456667777899999


Q ss_pred             EEcccc
Q 016044          187 FIDEVD  192 (396)
Q Consensus       187 ~iDEid  192 (396)
                      ++.|+-
T Consensus       241 ivGEiR  246 (344)
T PRK13851        241 LLGEMR  246 (344)
T ss_pred             EEEeeC
Confidence            999984

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=97.02  E-value=0.0095  Score=62.23  Aligned_cols=162  Identities=22%  Similarity=0.276  Sum_probs=87.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc--CCcE--EEEeccccc-----ch-------h---hc-------------hHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES--GAVF--INVRISNLM-----SK-------W---FG-------------DAQKL  170 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~--~~~~--~~i~~~~l~-----~~-------~---~g-------------~~~~~  170 (396)
                      .+-++|.-|.|.||||++-..+...  +..+  ++++-++--     +.       +   .+             ..+..
T Consensus        37 ~RL~li~APAGfGKttl~aq~~~~~~~~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l  116 (894)
T COG2909          37 YRLILISAPAGFGKTTLLAQWRELAADGAAVAWLSLDESDNDPARFLSYLIAALQQATPTLGDEAQTLLQKHQYVSLESL  116 (894)
T ss_pred             ceEEEEeCCCCCcHHHHHHHHHHhcCcccceeEeecCCccCCHHHHHHHHHHHHHHhCccccHHHHHHHHhcccccHHHH
Confidence            4678999999999999999997522  3333  334332210     00       0   01             12234


Q ss_pred             HHHHHHHH-HHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccC
Q 016044          171 VAAVFSLA-YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLP  249 (396)
Q Consensus       171 ~~~~f~~a-~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~  249 (396)
                      +..+|... ...+|..++|||.+.+...   ..+..+    ..|++       ..+.++.+|.+|...-.+.-+-.|-=+
T Consensus       117 ~~~L~~Ela~~~~pl~LVlDDyHli~~~---~l~~~l----~fLl~-------~~P~~l~lvv~SR~rP~l~la~lRlr~  182 (894)
T COG2909         117 LSSLLNELASYEGPLYLVLDDYHLISDP---ALHEAL----RFLLK-------HAPENLTLVVTSRSRPQLGLARLRLRD  182 (894)
T ss_pred             HHHHHHHHHhhcCceEEEeccccccCcc---cHHHHH----HHHHH-------hCCCCeEEEEEeccCCCCcccceeehh
Confidence            44455443 4457899999999987322   122222    23332       236678888777532222111111001


Q ss_pred             CceEeC----CCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHH-HHHHHH
Q 016044          250 QAFEIG----MPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGS-DLLEVC  300 (396)
Q Consensus       250 ~~i~~~----~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~-di~~l~  300 (396)
                      ..++++    ..+.+|-.+++...... ++ +..++..|...++||..+ .+..+.
T Consensus       183 ~llEi~~~~Lrf~~eE~~~fl~~~~~l-~L-d~~~~~~L~~~teGW~~al~L~aLa  236 (894)
T COG2909         183 ELLEIGSEELRFDTEEAAAFLNDRGSL-PL-DAADLKALYDRTEGWAAALQLIALA  236 (894)
T ss_pred             hHHhcChHhhcCChHHHHHHHHHcCCC-CC-ChHHHHHHHhhcccHHHHHHHHHHH
Confidence            112222    24677777777766532 12 345677888888888665 454443

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=97.02  E-value=0.00082  Score=60.56  Aligned_cols=22  Identities=45%  Similarity=0.732  Sum_probs=17.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~  147 (396)
                      .++.||||||||+++..++..+
T Consensus        20 ~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen   20 TLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             EEEE-STTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHHHh
Confidence            7899999999998777776654

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.02  E-value=0.0006  Score=58.38  Aligned_cols=26  Identities=38%  Similarity=0.652  Sum_probs=21.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEE
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFI  152 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~  152 (396)
                      |.|+|+||||||||+++++.. |.+++
T Consensus         2 I~i~G~~stGKTTL~~~L~~~-g~~~v   27 (163)
T PF13521_consen    2 IVITGGPSTGKTTLIEALAAR-GYPVV   27 (163)
T ss_dssp             EEEE--TTSHHHHHHHHHHHH-T-EEE
T ss_pred             EEEECCCCCCHHHHHHHHHHc-CCeEE
Confidence            789999999999999999998 77765

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=97.01  E-value=0.0035  Score=57.89  Aligned_cols=69  Identities=19%  Similarity=0.318  Sum_probs=44.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCC----cEEEEecc-cc---------cchhhchHHHHHHHHHHHHHHhCCcEEEEcc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGA----VFINVRIS-NL---------MSKWFGDAQKLVAAVFSLAYKLQPAIIFIDE  190 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~----~~~~i~~~-~l---------~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDE  190 (396)
                      -||++||.||||||...++-...|.    +.+.+..+ ++         ...-+|.........++.|.+..|.||++=|
T Consensus       127 LILVTGpTGSGKSTTlAamId~iN~~~~~HIlTIEDPIE~vh~skkslI~QREvG~dT~sF~~aLraALReDPDVIlvGE  206 (353)
T COG2805         127 LILVTGPTGSGKSTTLAAMIDYINKHKAKHILTIEDPIEYVHESKKSLINQREVGRDTLSFANALRAALREDPDVILVGE  206 (353)
T ss_pred             eEEEeCCCCCcHHHHHHHHHHHHhccCCcceEEecCchHhhhcchHhhhhHHHhcccHHHHHHHHHHHhhcCCCEEEEec
Confidence            3678899999999999998887653    33333221 11         1122344344444555667777999999999


Q ss_pred             ccc
Q 016044          191 VDS  193 (396)
Q Consensus       191 id~  193 (396)
                      +-.
T Consensus       207 mRD  209 (353)
T COG2805         207 MRD  209 (353)
T ss_pred             ccc
Confidence            754

>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=97.01  E-value=0.0024  Score=53.56  Aligned_cols=71  Identities=23%  Similarity=0.342  Sum_probs=41.2

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCCc--EEEEecc---cccchhhchHHHHHHHHHHHHHHhCCcEEEEccccc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKESGAV--FINVRIS---NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDS  193 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~~~~--~~~i~~~---~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~  193 (396)
                      .+...+.|.||+|+||||+++.++......  -+.++..   .+.....+ .++ -+-.+..+...+|.++++||-..
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~~~~~i~~~~~lS~-G~~-~rv~laral~~~p~illlDEP~~   99 (144)
T cd03221          24 NPGDRIGLVGRNGAGKSTLLKLIAGELEPDEGIVTWGSTVKIGYFEQLSG-GEK-MRLALAKLLLENPNLLLLDEPTN   99 (144)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHcCCCCCCceEEEECCeEEEEEEccCCH-HHH-HHHHHHHHHhcCCCEEEEeCCcc
Confidence            345678899999999999999998854211  1111110   00011111 222 22233445566899999999754

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.

>PTZ00035 Rad51 protein; Provisional

Probab=97.00  E-value=0.0065  Score=58.42  Aligned_cols=27  Identities=26%  Similarity=0.261  Sum_probs=22.9

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~  145 (396)
                      ++....-+.++||||||||+++..++.
T Consensus       114 Gi~~G~iteI~G~~GsGKT~l~~~l~~  140 (337)
T PTZ00035        114 GIETGSITELFGEFRTGKTQLCHTLCV  140 (337)
T ss_pred             CCCCCeEEEEECCCCCchhHHHHHHHH
Confidence            366666788999999999999998875

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=97.00  E-value=0.00072  Score=58.13  Aligned_cols=29  Identities=38%  Similarity=0.700  Sum_probs=26.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      |.+.|++|||||++|+.+++.+|.+++..
T Consensus         3 I~i~G~~GSGKstia~~la~~lg~~~~~~   31 (171)
T TIGR02173         3 ITISGPPGSGKTTVAKILAEKLSLKLISA   31 (171)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCceecH
Confidence            78999999999999999999999887553

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=97.00  E-value=0.0025  Score=61.74  Aligned_cols=70  Identities=21%  Similarity=0.261  Sum_probs=41.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC------CcEEEEec-ccccchh------------hchHHHHHHHHHHHHHHhCC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG------AVFINVRI-SNLMSKW------------FGDAQKLVAAVFSLAYKLQP  183 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~------~~~~~i~~-~~l~~~~------------~g~~~~~~~~~f~~a~~~~p  183 (396)
                      ...++++||+|+||||++++++....      ..++.+.- .++....            .+............+....|
T Consensus       134 ~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE~~~~~~~~~~~~v~Q~~v~~~~~~~~~~l~~aLR~~P  213 (358)
T TIGR02524       134 EGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIEFVYDEIETISASVCQSEIPRHLNNFAAGVRNALRRKP  213 (358)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCceEeccccccccceeeeeeccccccCHHHHHHHHhccCC
Confidence            35689999999999999999998752      23333221 1111000            01000123333444666799


Q ss_pred             cEEEEcccc
Q 016044          184 AIIFIDEVD  192 (396)
Q Consensus       184 ~vl~iDEid  192 (396)
                      .++++.|+-
T Consensus       214 d~i~vGEiR  222 (358)
T TIGR02524       214 HAILVGEAR  222 (358)
T ss_pred             CEEeeeeeC
Confidence            999999974

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.

>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]

Probab=96.99  E-value=0.011  Score=56.87  Aligned_cols=53  Identities=13%  Similarity=0.080  Sum_probs=35.4

Q ss_pred             ccCCceEeCCCCHHHHHHHHHHHhcCCCCC----CCCCHHHHHHhCCCCcHHHHHHHHH
Q 016044          247 RLPQAFEIGMPDRKERAQILKVILKGEKVE----ENIDFDYLAGLCEGFTGSDLLEVCK  301 (396)
Q Consensus       247 R~~~~i~~~~P~~~er~~il~~~l~~~~~~----~~~~l~~la~~~~g~s~~di~~l~~  301 (396)
                      -| ..|+++..+.+|-..++..+++..-+.    .+-...++--++ +..|+.++.+|.
T Consensus       402 pf-~pi~v~nYt~~E~~~~i~YYl~~nwl~kkv~~Ee~~kql~fLS-ngNP~l~~~lca  458 (461)
T KOG3928|consen  402 PF-VPIEVENYTLDEFEALIDYYLQSNWLLKKVPGEENIKQLYFLS-NGNPSLMERLCA  458 (461)
T ss_pred             Cc-CccccCCCCHHHHHHHHHHHHHhhHHHhhcCcccchhhhhhhc-CCCHHHHHHHHH
Confidence            45 457888999999999999888643322    222344454455 567788777774

>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=96.99  E-value=0.002  Score=56.01  Aligned_cols=72  Identities=17%  Similarity=0.082  Sum_probs=41.4

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCC--cEEEEecccc---cchh-hchHHHHHHHHHHHHHHhCCcEEEEccccc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKESGA--VFINVRISNL---MSKW-FGDAQKLVAAVFSLAYKLQPAIIFIDEVDS  193 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~~~--~~~~i~~~~l---~~~~-~g~~~~~~~~~f~~a~~~~p~vl~iDEid~  193 (396)
                      .+..-+.|.||.|+|||||++.++.....  --+.++...+   .... ....++ -+-.+..+....|.++++||--.
T Consensus        23 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g~~i~~~~q~~~LSgGq~-qrv~laral~~~p~lllLDEPts  100 (177)
T cd03222          23 KEGEVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDGITPVYKPQYIDLSGGEL-QRVAIAAALLRNATFYLFDEPSA  100 (177)
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCCCCCCcEEEECCEEEEEEcccCCCCHHHH-HHHHHHHHHhcCCCEEEEECCcc
Confidence            34466889999999999999999985421  0112221110   0100 112222 22234445556899999999754

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.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=96.98  E-value=0.025  Score=51.60  Aligned_cols=21  Identities=38%  Similarity=0.479  Sum_probs=18.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~  146 (396)
                      -+|+||||+|||+++..+|..
T Consensus         4 ~ll~g~~G~GKS~lal~la~~   24 (239)
T cd01125           4 SALVAPGGTGKSSLLLVLALA   24 (239)
T ss_pred             eEEEcCCCCCHHHHHHHHHHH
Confidence            489999999999999998763

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.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.96  E-value=0.00097  Score=57.84  Aligned_cols=27  Identities=30%  Similarity=0.374  Sum_probs=24.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      ++.-++|.|++|+||||+++.++..+.
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~   32 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLK   32 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            456789999999999999999998875

>PRK13894 conjugal transfer ATPase TrbB; Provisional

Probab=96.96  E-value=0.0014  Score=62.41  Aligned_cols=70  Identities=21%  Similarity=0.405  Sum_probs=44.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEec-ccccc------hhhchHHHHHHHHHHHHHHhCCcEEEEcc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVRI-SNLMS------KWFGDAQKLVAAVFSLAYKLQPAIIFIDE  190 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~~-~~l~~------~~~g~~~~~~~~~f~~a~~~~p~vl~iDE  190 (396)
                      ..++++.|++|+||||++++++...     ...++.+.- .++.-      .+..........++..+.+..|..|++.|
T Consensus       148 ~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~~El~~~~~~~v~~~~~~~~~~~~ll~~aLR~~PD~IivGE  227 (319)
T PRK13894        148 HRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTGEIQCAAENYVQYHTSIDVNMTALLKTTLRMRPDRILVGE  227 (319)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCCCccccCCCCEEEEecCCCCCHHHHHHHHhcCCCCEEEEec
Confidence            5789999999999999999999763     122332221 11110      00001112345666777788999999999


Q ss_pred             cc
Q 016044          191 VD  192 (396)
Q Consensus       191 id  192 (396)
                      +-
T Consensus       228 iR  229 (319)
T PRK13894        228 VR  229 (319)
T ss_pred             cC
Confidence            84

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.96  E-value=0.006  Score=61.75  Aligned_cols=79  Identities=19%  Similarity=0.200  Sum_probs=54.2

Q ss_pred             CCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhh----------------------------ch
Q 016044          118 KLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWF----------------------------GD  166 (396)
Q Consensus       118 ~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~----------------------------g~  166 (396)
                      +.+.+...+|+.||||+|||+++-.++...   |.+.+++...+-.....                            ..
T Consensus       258 GG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~eEs~~~i~~~~~~lg~~~~~~~~~g~l~~~~~~p~~~~  337 (484)
T TIGR02655       258 GGFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFAYEESRAQLLRNAYSWGIDFEEMEQQGLLKIICAYPESAG  337 (484)
T ss_pred             CCccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCHHHHHHHHHHcCCChHHHhhCCcEEEEEcccccCC
Confidence            346677789999999999999999887743   55556655432211100                            01


Q ss_pred             HHHHHHHHHHHHHHhCCcEEEEcccccccc
Q 016044          167 AQKLVAAVFSLAYKLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       167 ~~~~~~~~f~~a~~~~p~vl~iDEid~l~~  196 (396)
                      .+..+..+.......+|.+++||-+..+..
T Consensus       338 ~~~~~~~i~~~i~~~~~~~vvIDsi~~~~~  367 (484)
T TIGR02655       338 LEDHLQIIKSEIADFKPARIAIDSLSALAR  367 (484)
T ss_pred             hHHHHHHHHHHHHHcCCCEEEEcCHHHHHH
Confidence            245566667777777899999999998743

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.

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=96.96  E-value=0.0016  Score=57.73  Aligned_cols=24  Identities=54%  Similarity=0.666  Sum_probs=18.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .-+.+.||.|||||++|-+.|.+.
T Consensus        20 ~~v~~~G~AGTGKT~LA~a~Al~~   43 (205)
T PF02562_consen   20 DLVIVNGPAGTGKTFLALAAALEL   43 (205)
T ss_dssp             SEEEEE--TTSSTTHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Confidence            458899999999999999988644

; GO: 0005524 ATP binding; PDB: 3B85_A.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=96.96  E-value=0.0054  Score=57.53  Aligned_cols=37  Identities=24%  Similarity=0.317  Sum_probs=28.0

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc----C-CcEEEEeccc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES----G-AVFINVRISN  158 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~----~-~~~~~i~~~~  158 (396)
                      .+..++|.||+|+||||++..+|..+    | ..+..+++..
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~  234 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDT  234 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCc
Confidence            35678899999999999999998754    3 4555566544

>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=96.96  E-value=0.0085  Score=51.80  Aligned_cols=26  Identities=35%  Similarity=0.629  Sum_probs=22.4

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +..-+.|.||+|+|||||++.++...
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          27 PGESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            34568999999999999999999853

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

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.96  E-value=0.0053  Score=54.07  Aligned_cols=23  Identities=35%  Similarity=0.657  Sum_probs=19.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..-.-|.||+||||||+.|++-+
T Consensus        33 ~~VTAlIGPSGcGKST~LR~lNR   55 (253)
T COG1117          33 NKVTALIGPSGCGKSTLLRCLNR   55 (253)
T ss_pred             CceEEEECCCCcCHHHHHHHHHh
Confidence            34457999999999999999865

>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type

Probab=96.95  E-value=0.0021  Score=61.49  Aligned_cols=34  Identities=24%  Similarity=0.175  Sum_probs=28.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEec
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI  156 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~  156 (396)
                      ...++|.|+||+|||||++.++...+.+++.--.
T Consensus       162 ~~~~~~~G~~~~gkstl~~~l~~~~~~~~v~E~~  195 (325)
T TIGR01526       162 VKTVAILGGESTGKSTLVNKLAAVFNTTSAWEYA  195 (325)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCCCEEeehh
Confidence            3579999999999999999999998888755443

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.

>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=96.93  E-value=0.0083  Score=51.85  Aligned_cols=27  Identities=37%  Similarity=0.340  Sum_probs=22.8

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .+...+.|.||+|+|||||++.++...
T Consensus        24 ~~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          24 EKGEIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            345678999999999999999998743

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.

>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=96.92  E-value=0.0064  Score=52.92  Aligned_cols=27  Identities=33%  Similarity=0.421  Sum_probs=23.0

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .+..-+.|.||+|+||||+++.++...
T Consensus        23 ~~G~~~~l~G~nGsGKStLl~~i~G~~   49 (180)
T cd03214          23 EAGEIVGILGPNGAGKSTLLKTLAGLL   49 (180)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            345678999999999999999998854

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.

>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid []

Probab=96.92  E-value=0.0011  Score=58.38  Aligned_cols=39  Identities=38%  Similarity=0.529  Sum_probs=29.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchh
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKW  163 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~  163 (396)
                      -++|+||+|||||.+|-++|+..|.+++..|.-......
T Consensus         3 v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~Driq~y~~l   41 (233)
T PF01745_consen    3 VYLIVGPTGTGKTALAIALAQKTGAPVISLDRIQCYPEL   41 (233)
T ss_dssp             EEEEE-STTSSHHHHHHHHHHHH--EEEEE-SGGG-GGG
T ss_pred             EEEEECCCCCChhHHHHHHHHHhCCCEEEecceeccccc
Confidence            368999999999999999999999999999976665543

; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.

>PLN02459 probable adenylate kinase

Probab=96.91  E-value=0.001  Score=61.01  Aligned_cols=31  Identities=29%  Similarity=0.413  Sum_probs=26.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      ..++|.||||+||+|+++.+++.+|..+++.
T Consensus        30 ~~ii~~G~PGsGK~T~a~~la~~~~~~~is~   60 (261)
T PLN02459         30 VNWVFLGCPGVGKGTYASRLSKLLGVPHIAT   60 (261)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCcEEeC
Confidence            3488899999999999999999998665543

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.91  E-value=0.011  Score=59.83  Aligned_cols=38  Identities=24%  Similarity=0.235  Sum_probs=29.3

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH----cCCcEEEEec
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKE----SGAVFINVRI  156 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~----~~~~~~~i~~  156 (396)
                      .+.+.+.+|+.||||||||++|..++.+    .|.+.+++..
T Consensus        17 Glp~g~~~Li~G~pGsGKT~la~qfl~~g~~~~ge~~lyvs~   58 (484)
T TIGR02655        17 GLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIHFDEPGVFVTF   58 (484)
T ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHHHHHHHhCCCCEEEEEE
Confidence            4667788999999999999999988542    2566666554

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.

>PRK14529 adenylate kinase; Provisional

Probab=96.90  E-value=0.0008  Score=60.56  Aligned_cols=29  Identities=28%  Similarity=0.589  Sum_probs=25.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      .++|.||||+||||+++.++..++.++++
T Consensus         2 ~I~l~G~PGsGK~T~a~~La~~~~~~~is   30 (223)
T PRK14529          2 NILIFGPNGSGKGTQGALVKKKYDLAHIE   30 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCCCcc
Confidence            38899999999999999999999877653

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=96.89  E-value=0.0056  Score=58.32  Aligned_cols=40  Identities=20%  Similarity=0.243  Sum_probs=29.2

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc------C---CcEEEEeccc
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES------G---AVFINVRISN  158 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~------~---~~~~~i~~~~  158 (396)
                      ++.+..-+.++||||+|||+++..++...      |   ...++++...
T Consensus        92 Gi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~  140 (316)
T TIGR02239        92 GIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEG  140 (316)
T ss_pred             CCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCC
Confidence            35666778899999999999999887521      1   2556666644

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).

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.89  E-value=0.00098  Score=58.45  Aligned_cols=29  Identities=31%  Similarity=0.554  Sum_probs=24.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFI  152 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~  152 (396)
                      ..++|.||+|+||||+++.++...+..++
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~~~~~~   31 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQREQTQLL   31 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccCCCeEE
Confidence            45889999999999999999998776543

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=96.88  E-value=0.019  Score=56.64  Aligned_cols=201  Identities=14%  Similarity=0.196  Sum_probs=98.5

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch---------------hh-----chHHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK---------------WF-----GDAQKLVAAVFSLA  178 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~---------------~~-----g~~~~~~~~~f~~a  178 (396)
                      +|.-++|+|++|+||||++..+|..+   |..+.-+++......               ++     ..........+..+
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~  178 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKF  178 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHH
Confidence            35678999999999999999998755   556666665432110               00     01112222334444


Q ss_pred             HHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecC-CCCCCc--HHHHhcc-CCceEe
Q 016044          179 YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATN-RPSELD--EAILRRL-PQAFEI  254 (396)
Q Consensus       179 ~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn-~~~~l~--~~l~~R~-~~~i~~  254 (396)
                      +.....+|+||=...+     ....    ....++....+..   .+..++++..+. ..+..+  .++...+ ...+-+
T Consensus       179 ~~~~~DvViIDTaGr~-----~~d~----~lm~El~~i~~~~---~p~e~lLVlda~~Gq~a~~~a~~F~~~~~~~g~Il  246 (429)
T TIGR01425       179 KKENFDIIIVDTSGRH-----KQED----SLFEEMLQVAEAI---QPDNIIFVMDGSIGQAAEAQAKAFKDSVDVGSVII  246 (429)
T ss_pred             HhCCCCEEEEECCCCC-----cchH----HHHHHHHHHhhhc---CCcEEEEEeccccChhHHHHHHHHHhccCCcEEEE
Confidence            4445678999876543     1111    1222333332222   133444444433 222221  2222221 122334


Q ss_pred             CCCCHHHHHH-HHHHHh----------cCCCCC--CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHH----HHHHHHhc
Q 016044          255 GMPDRKERAQ-ILKVIL----------KGEKVE--ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIR----ELLDEERK  317 (396)
Q Consensus       255 ~~P~~~er~~-il~~~l----------~~~~~~--~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~----~~~~~~~~  317 (396)
                      ...|...|-- ++....          .+..++  ...+.+.++.+.-|.  +|+..|++.|...--.    +..+...+
T Consensus       247 TKlD~~argG~aLs~~~~t~~PI~fig~Ge~v~Dle~f~p~~~~~rilgm--gDi~~L~ek~~~~~~~~~~~~~~~k~~~  324 (429)
T TIGR01425       247 TKLDGHAKGGGALSAVAATKSPIIFIGTGEHIDDFEIFKTQPFISKLLGM--GDIEGLIDKVQDLKLDDNEKALIEKLKE  324 (429)
T ss_pred             ECccCCCCccHHhhhHHHHCCCeEEEcCCCChhhcCcCChHHHHHHHhcC--CCcHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            4455544441 122111          122221  234456666666553  4888888776543111    11111121


Q ss_pred             CCCCCCCCCCCHHHHHHHHHhcccch
Q 016044          318 GKPAAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       318 ~~~~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                             ...+.+||..-++.++.--
T Consensus       325 -------~~f~l~D~~~q~~~i~kmG  343 (429)
T TIGR01425       325 -------GTFTLRDMYEQFQNLLKMG  343 (429)
T ss_pred             -------CCCCHHHHHHHHHHHHhcc
Confidence                   3588999999888887653

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.

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=96.88  E-value=0.0013  Score=58.09  Aligned_cols=29  Identities=28%  Similarity=0.362  Sum_probs=25.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVF  151 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~  151 (396)
                      +.-+++.|+||+||||+|+.++.+++..+
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~~~~~   31 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHRAIDI   31 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCeE
Confidence            35689999999999999999999988754

>PRK10867 signal recognition particle protein; Provisional

Probab=96.88  E-value=0.008  Score=59.54  Aligned_cols=200  Identities=20%  Similarity=0.228  Sum_probs=99.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEecccccchh---------------h-----chHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVRISNLMSKW---------------F-----GDAQKLVAAVFSL  177 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~~~l~~~~---------------~-----g~~~~~~~~~f~~  177 (396)
                      +|.-++++|++|+||||++..+|..+    |..+..+++.......               +     .............
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~v~~~~~~~dp~~i~~~a~~~  178 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQIGVPVFPSGDGQDPVDIAKAALEE  178 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhcCCeEEecCCCCCHHHHHHHHHHH
Confidence            46778999999999999888887643    5556666664332110               0     1122333344445


Q ss_pred             HHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC-CCCCc--HHHHhccC-CceE
Q 016044          178 AYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR-PSELD--EAILRRLP-QAFE  253 (396)
Q Consensus       178 a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~-~~~l~--~~l~~R~~-~~i~  253 (396)
                      +......++++|=...+..     ...    ...++....+...   +..++++..+.. .+.++  ..+..++. ..+-
T Consensus       179 a~~~~~DvVIIDTaGrl~~-----d~~----lm~eL~~i~~~v~---p~evllVlda~~gq~av~~a~~F~~~~~i~giI  246 (433)
T PRK10867        179 AKENGYDVVIVDTAGRLHI-----DEE----LMDELKAIKAAVN---PDEILLVVDAMTGQDAVNTAKAFNEALGLTGVI  246 (433)
T ss_pred             HHhcCCCEEEEeCCCCccc-----CHH----HHHHHHHHHHhhC---CCeEEEEEecccHHHHHHHHHHHHhhCCCCEEE
Confidence            5555567999998765421     111    1122222222221   333444443322 12221  22222221 2233


Q ss_pred             eCCCCHHHHHHHHHHHhc-----------CCCCC--CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHH----HHHHHHHh
Q 016044          254 IGMPDRKERAQILKVILK-----------GEKVE--ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSI----RELLDEER  316 (396)
Q Consensus       254 ~~~P~~~er~~il~~~l~-----------~~~~~--~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~----~~~~~~~~  316 (396)
                      +...|...+.-.+-....           +..++  ...+.+.++.+.-|.  +|+..|++.|...--    .+..+...
T Consensus       247 lTKlD~~~rgG~alsi~~~~~~PI~fig~Ge~v~DLe~f~p~~~~~~ilgm--gD~~~l~e~~~~~~~~~~~~~~~~~~~  324 (433)
T PRK10867        247 LTKLDGDARGGAALSIRAVTGKPIKFIGTGEKLDDLEPFHPDRMASRILGM--GDVLSLIEKAQEVVDEEKAEKLAKKLK  324 (433)
T ss_pred             EeCccCcccccHHHHHHHHHCcCEEEEeCCCccccCccCCHHHHHHHHhCC--CChHHHHHHHHHhhCHHHHHHHHHHHH
Confidence            444554433322222111           22221  234466777766553  588888887654311    11121222


Q ss_pred             cCCCCCCCCCCCHHHHHHHHHhcccc
Q 016044          317 KGKPAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       317 ~~~~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                      +       ...+.+||..-++.++.-
T Consensus       325 ~-------g~f~l~d~~~q~~~~~km  343 (433)
T PRK10867        325 K-------GKFDLEDFLEQLQQMKKM  343 (433)
T ss_pred             h-------CCCCHHHHHHHHHHHHhc
Confidence            1       347889999988887665

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=96.88  E-value=0.01  Score=51.20  Aligned_cols=27  Identities=33%  Similarity=0.584  Sum_probs=23.2

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .+...+.|.||+|+||||+.+.++...
T Consensus        26 ~~G~~~~l~G~nGsGKstLl~~i~G~~   52 (171)
T cd03228          26 KPGEKVAIVGPSGSGKSTLLKLLLRLY   52 (171)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            345678999999999999999999854

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.

>cd03227 ABC_Class2 ABC-type Class 2 contains systems involved in cellular processes other than transport

Probab=96.87  E-value=0.0067  Score=51.89  Aligned_cols=22  Identities=32%  Similarity=0.582  Sum_probs=19.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      +..++.||.|+|||++.++++-
T Consensus        22 ~~~~i~G~NgsGKS~~l~~i~~   43 (162)
T cd03227          22 SLTIITGPNGSGKSTILDAIGL   43 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999854

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.

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=96.87  E-value=0.0047  Score=53.39  Aligned_cols=26  Identities=42%  Similarity=0.561  Sum_probs=22.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +..-+++.||+|.||||+.|.+..+.
T Consensus        27 ~Gef~fl~GpSGAGKSTllkLi~~~e   52 (223)
T COG2884          27 KGEFVFLTGPSGAGKSTLLKLIYGEE   52 (223)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhh
Confidence            34558999999999999999998854

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.84  E-value=0.0074  Score=58.27  Aligned_cols=62  Identities=18%  Similarity=0.179  Sum_probs=38.5

Q ss_pred             ChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044           92 GLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus        92 G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      +.+.+...+.+.+...+..+..+.    ..+++.++|.||+|+||||++..+|..+   +..+..+++.
T Consensus       179 ~~~~v~~~~~~~L~~~l~~~~~~~----~~~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaD  243 (407)
T PRK12726        179 HLDDITDWFVPYLSGKLAVEDSFD----LSNHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTD  243 (407)
T ss_pred             cHHHHHHHHHHHhcCcEeeCCCce----ecCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCC
Confidence            345555666555544333322221    2346778999999999999999998754   4444445543

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=96.84  E-value=0.0023  Score=62.87  Aligned_cols=31  Identities=19%  Similarity=0.228  Sum_probs=27.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      .+.|.|.|++|||||||+++|+...|..++.
T Consensus       219 ~~~IvI~G~~gsGKTTL~~~La~~~g~~~v~  249 (399)
T PRK08099        219 VRTVAILGGESSGKSTLVNKLANIFNTTSAW  249 (399)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHhCCCeee
Confidence            3679999999999999999999998877543

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.84  E-value=0.0037  Score=60.24  Aligned_cols=25  Identities=36%  Similarity=0.537  Sum_probs=22.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ....+|+||||||||++++.+++.+
T Consensus       133 GQR~LIvG~pGtGKTTLl~~la~~i  157 (380)
T PRK12608        133 GQRGLIVAPPRAGKTVLLQQIAAAV  157 (380)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHH
Confidence            3457999999999999999998866

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=96.83  E-value=0.0026  Score=60.50  Aligned_cols=54  Identities=30%  Similarity=0.414  Sum_probs=40.0

Q ss_pred             ccc-cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044           86 EFE-SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus        86 ~~~-~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .|+ ++.|+++.+.++..++.       ..+.+ +-...+-++|.||+|+|||++++.+.+.+
T Consensus        58 ~f~~~~~G~~~~i~~lV~~fk-------~AA~g-~~~~krIl~L~GPvg~GKSsl~~~Lk~~l  112 (358)
T PF08298_consen   58 FFEDEFYGMEETIERLVNYFK-------SAAQG-LEERKRILLLLGPVGGGKSSLAELLKRGL  112 (358)
T ss_pred             CccccccCcHHHHHHHHHHHH-------HHHhc-cCccceEEEEECCCCCCHHHHHHHHHHHh
Confidence            355 89999999999877653       22222 12234567899999999999999998855

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=96.83  E-value=0.014  Score=52.60  Aligned_cols=23  Identities=22%  Similarity=0.303  Sum_probs=20.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      ...++|.||.|+|||++.+.++.
T Consensus        31 g~~~~itG~N~~GKStll~~i~~   53 (222)
T cd03287          31 GYCQIITGPNMGGKSSYIRQVAL   53 (222)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35689999999999999999977

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

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=96.83  E-value=0.0047  Score=54.11  Aligned_cols=20  Identities=25%  Similarity=0.489  Sum_probs=18.4

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      ++|+||.|+|||++.|.++-
T Consensus         2 ~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        2 VIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            68999999999999999983

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=96.82  E-value=0.0091  Score=54.68  Aligned_cols=25  Identities=32%  Similarity=0.426  Sum_probs=21.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+.|.||.|||||||.|+++.-+
T Consensus        28 G~i~~iiGpNG~GKSTLLk~l~g~l   52 (258)
T COG1120          28 GEITGILGPNGSGKSTLLKCLAGLL   52 (258)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccC
Confidence            4567899999999999999999833

>PRK12338 hypothetical protein; Provisional

Probab=96.78  E-value=0.0016  Score=61.50  Aligned_cols=30  Identities=20%  Similarity=0.331  Sum_probs=26.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFI  152 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~  152 (396)
                      |.-+++.|+|||||||+|+++|..+|...+
T Consensus         4 p~ii~i~G~sGsGKST~a~~la~~l~~~~~   33 (319)
T PRK12338          4 PYVILIGSASGIGKSTIASELARTLNIKHL   33 (319)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHCCCeEE
Confidence            567899999999999999999999987653

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.78  E-value=0.0022  Score=57.24  Aligned_cols=37  Identities=24%  Similarity=0.293  Sum_probs=28.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC-CcEEEEecccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG-AVFINVRISNL  159 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~-~~~~~i~~~~l  159 (396)
                      +.-|.|.|++||||||+++.|+..++ ..+..++...+
T Consensus         6 ~~iI~I~G~sGsGKTTl~~~l~~~l~~~~~~~i~~D~~   43 (209)
T PRK05480          6 PIIIGIAGGSGSGKTTVASTIYEELGDESIAVIPQDSY   43 (209)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhCCCceEEEeCCcc
Confidence            45688999999999999999999884 33444554443

>PRK13808 adenylate kinase; Provisional

Probab=96.77  E-value=0.0013  Score=62.64  Aligned_cols=29  Identities=34%  Similarity=0.712  Sum_probs=25.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      |+|+||||+|||++++.|+..+|..++++
T Consensus         3 Iiv~GpPGSGK~T~a~~LA~~ygl~~is~   31 (333)
T PRK13808          3 LILLGPPGAGKGTQAQRLVQQYGIVQLST   31 (333)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCceecc
Confidence            89999999999999999999998765554

>cd02022 DPCK Dephospho-coenzyme A kinase (DPCK, EC 2

Probab=96.77  E-value=0.0015  Score=56.98  Aligned_cols=34  Identities=26%  Similarity=0.429  Sum_probs=26.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK  162 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~  162 (396)
                      |.|+|++||||||+++.+++ +|.+++.  +..+...
T Consensus         2 i~itG~~gsGKst~~~~l~~-~g~~~i~--~D~~~~~   35 (179)
T cd02022           2 IGLTGGIGSGKSTVAKLLKE-LGIPVID--ADKIAHE   35 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHH-CCCCEEe--cCHHHHh
Confidence            68999999999999999998 7876654  4454433

7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis.

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=96.77  E-value=0.017  Score=52.31  Aligned_cols=23  Identities=39%  Similarity=0.619  Sum_probs=19.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      .--+.|.||+||||||+.|.|-+
T Consensus        27 gef~vliGpSGsGKTTtLkMINr   49 (309)
T COG1125          27 GEFLVLIGPSGSGKTTTLKMINR   49 (309)
T ss_pred             CeEEEEECCCCCcHHHHHHHHhc
Confidence            34578999999999999999866

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.76  E-value=0.022  Score=49.37  Aligned_cols=27  Identities=22%  Similarity=0.428  Sum_probs=23.0

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .+...+.|.||+|+|||||++.++...
T Consensus        26 ~~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          26 KQGEKIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            345678999999999999999998853

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.

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=96.76  E-value=0.022  Score=50.71  Aligned_cols=22  Identities=32%  Similarity=0.415  Sum_probs=19.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      +-++|.||.|+|||++.+.++.
T Consensus        30 ~~~~l~G~n~~GKstll~~i~~   51 (204)
T cd03282          30 RFHIITGPNMSGKSTYLKQIAL   51 (204)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999999874

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

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=96.76  E-value=0.0015  Score=57.28  Aligned_cols=30  Identities=30%  Similarity=0.354  Sum_probs=24.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc-CCcEEEEe
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES-GAVFINVR  155 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~-~~~~~~i~  155 (396)
                      |.+.|+|||||||+|+.++..+ +..++..+
T Consensus         2 i~i~G~sgsGKTtla~~l~~~~~~~~~i~~D   32 (187)
T cd02024           2 VGISGVTNSGKTTLAKLLQRILPNCCVIHQD   32 (187)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCeEEccc
Confidence            5788999999999999999988 45554443

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed

Probab=96.76  E-value=0.0016  Score=61.60  Aligned_cols=36  Identities=31%  Similarity=0.458  Sum_probs=31.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      .-+++.||+|||||++|..+|.+++..+++.|.-.+
T Consensus         5 ~~i~i~GptgsGKt~la~~la~~~~~~iis~Ds~Qv   40 (307)
T PRK00091          5 KVIVIVGPTASGKTALAIELAKRLNGEIISADSMQV   40 (307)
T ss_pred             eEEEEECCCCcCHHHHHHHHHHhCCCcEEeccccce
Confidence            568899999999999999999999988887776444

>PLN02165 adenylate isopentenyltransferase

Probab=96.72  E-value=0.0016  Score=61.72  Aligned_cols=35  Identities=29%  Similarity=0.391  Sum_probs=29.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS  157 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~  157 (396)
                      ...++|.||+|+|||+++..+|..++..++..+.-
T Consensus        43 g~iivIiGPTGSGKStLA~~LA~~l~~eIIsaDs~   77 (334)
T PLN02165         43 DKVVVIMGATGSGKSRLSVDLATRFPSEIINSDKM   77 (334)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHcCCceecCChh
Confidence            34689999999999999999999998877776544

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=96.72  E-value=0.0075  Score=55.70  Aligned_cols=39  Identities=21%  Similarity=0.312  Sum_probs=27.6

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc---------CCcEEEEeccc
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES---------GAVFINVRISN  158 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~---------~~~~~~i~~~~  158 (396)
                      +....-.=|+||||||||.+|-.+|-..         +...++++...
T Consensus        35 i~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~   82 (256)
T PF08423_consen   35 IPTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEG   82 (256)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSS
T ss_pred             CCCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCC
Confidence            4433444599999999999999887543         34577777643

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 ....

>COG1855 ATPase (PilT family) [General function prediction only]

Probab=96.71  E-value=0.002  Score=62.42  Aligned_cols=45  Identities=33%  Similarity=0.572  Sum_probs=37.1

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..+.+|-.-.+.++++|.+.                   ..|+|+.||||.||||+|+|+|.-+
T Consensus       243 k~~ledY~L~dkl~eRL~er-------------------aeGILIAG~PGaGKsTFaqAlAefy  287 (604)
T COG1855         243 KLSLEDYGLSDKLKERLEER-------------------AEGILIAGAPGAGKSTFAQALAEFY  287 (604)
T ss_pred             EechhhcCCCHHHHHHHHhh-------------------hcceEEecCCCCChhHHHHHHHHHH
Confidence            36777877788888888542                   3789999999999999999999844

>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=96.70  E-value=0.0021  Score=56.06  Aligned_cols=35  Identities=29%  Similarity=0.508  Sum_probs=27.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCcEEEEeccccc
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLM  160 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~  160 (396)
                      |.+.|+|||||||+|+.++..+   +.+...++..++.
T Consensus         2 i~i~G~sgsGKttla~~l~~~l~~~~~~~~~i~~Ddf~   39 (179)
T cd02028           2 VGIAGPSGSGKTTFAKKLSNQLRVNGIGPVVISLDDYY   39 (179)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEehhhcc
Confidence            6789999999999999999986   3455666665554

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.70  E-value=0.013  Score=56.25  Aligned_cols=40  Identities=18%  Similarity=0.186  Sum_probs=28.8

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---------CCcEEEEeccc
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---------GAVFINVRISN  158 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---------~~~~~~i~~~~  158 (396)
                      ++.+..-+.++|+||+|||+++..+|...         +...++++...
T Consensus       119 G~~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~  167 (342)
T PLN03186        119 GIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEG  167 (342)
T ss_pred             CCcCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCC
Confidence            35556668899999999999998877421         22566776644

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	396
3vfd_A	389	Human Spastin Aaa Domain Length = 389		8e-54
3d8b_A	357	Crystal Structure Of Human Fidgetin-Like Protein 1		1e-52
3b9p_A	297	Spastin Length = 297		4e-52
3h4m_A	285	Aaa Atpase Domain Of The Proteasome- Activating Nuc		4e-44
2qp9_X	355	Crystal Structure Of S.Cerevisiae Vps4 Length = 355		5e-44
2rko_A	331	Crystal Structure Of The Vps4p-Dimer Length = 331		7e-44
3eie_A	322	Crystal Structure Of S.Cerevisiae Vps4 In The So4-B		2e-43
3eih_A	340	Crystal Structure Of S.Cerevisiae Vps4 In The Prese		2e-43
1r7r_A	816	The Crystal Structure Of Murine P97VCP AT 3.6A Leng		2e-42
3cf1_A	806	Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Len		2e-42
3cf0_A	301	Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH		3e-42
2zam_A	444	Crystal Structure Of Mouse Skd1VPS4B APO-Form Lengt		5e-41
3hu3_A	489	Structure Of P97 N-D1 R155h Mutant In Complex With		5e-41
3hu2_A	489	Structure Of P97 N-D1 R86a Mutant In Complex With A		6e-41
3hu1_A	489	Structure Of P97 N-D1 R95g Mutant In Complex With A		6e-41
1xwi_A	322	Crystal Structure Of Vps4b Length = 322		8e-41
1e32_A	458	Structure Of The N-Terminal Domain And The D1 Aaa D		9e-41
4b4t_L	437	Near-Atomic Resolution Structural Model Of The Yeas		1e-38
4b4t_H	467	Near-Atomic Resolution Structural Model Of The Yeas		5e-38
2x8a_A	274	Human Nuclear Valosin Containing Protein Like (Nvl)		4e-36
4b4t_M	434	Near-Atomic Resolution Structural Model Of The Yeas		3e-35
4b4t_K	428	Near-Atomic Resolution Structural Model Of The Yeas		3e-34
4b4t_J	405	Near-Atomic Resolution Structural Model Of The Yeas		9e-34
2r62_A	268	Crystal Structure Of Helicobacter Pylori Atp Depend		1e-32
4b4t_I	437	Near-Atomic Resolution Structural Model Of The Yeas		3e-32
1lv7_A	257	Crystal Structure Of The Aaa Domain Of Ftsh Length		6e-32
2ce7_A	476	Edta Treated Length = 476		9e-28
3kds_E	465	Apo-ftsh Crystal Structure Length = 465		4e-27
4eiw_A	508	Whole Cytosolic Region Of Atp-Dependent Metalloprot		2e-25
2dhr_A	499	Whole Cytosolic Region Of Atp-Dependent Metalloprot		2e-25
1iy2_A	278	Crystal Structure Of The Ftsh Atpase Domain From Th		3e-25
2qz4_A	262	Human Paraplegin, Aaa Domain In Complex With Adp Le		3e-25
1ixz_A	254	Crystal Structure Of The Ftsh Atpase Domain From Th		3e-25
1nsf_A	273	D2 Hexamerization Domain Of N-Ethylmaleimide Sensit		1e-04
4a3v_B	95	Yeast Regulatory Particle Proteasome Assembly Chape		1e-04
1d2n_A	272	D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Prot		1e-04
1hqc_A	324	Structure Of Ruvb From Thermus Thermophilus Hb8 Len		3e-04
1ixs_B	318	Structure Of Ruvb Complexed With Ruva Domain Iii Le		4e-04
3m6a_A	543	Crystal Structure Of Bacillus Subtilis Lon C-Termin		4e-04
1ixr_C	312	Ruva-Ruvb Complex Length = 312		5e-04

>pdb|3VFD|A Chain A, Human Spastin Aaa Domain Length = 389

Iteration: 1
 Score =  207 bits (527), Expect = 8e-54,   Method: Compositional matrix adjust.
 Identities = 115/254 (45%), Positives = 167/254 (65%), Gaps = 5/254 (1%)
Query: 85  VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIA 144
           V+F+ I G +  KQAL E+VILP  RPELF+   L  P +G+LL+GPPG GKTMLAKA+A
Sbjct: 112 VKFDDIAGQDLAKQALQEIVILPSLRPELFTG--LRAPARGLLLFGPPGNGKTMLAKAVA 169
Query: 145 KESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHE 204
            ES A F N+  ++L SK+ G+ +KLV A+F++A +LQP+IIFID+VDS L +RR  +H+
Sbjct: 170 AESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHD 229
Query: 205 ALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQ 264
           A   +KTEF+  +DG  +  + RV+V+ ATNRP ELDEA+LRR  +   + +P+ + R  
Sbjct: 230 ASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLL 289
Query: 265 ILKVIL--KGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAA 322
           +LK +L  +G  + +  +   LA + +G++GSDL  + K AA   IREL  E+ K   A+
Sbjct: 290 LLKNLLCKQGSPLTQK-ELAQLARMTDGYSGSDLTALAKDAALGPIRELKPEQVKNMSAS 348
Query: 323 APRPLSRLDLEKVL 336
             R +   D  + L
Sbjct: 349 EMRNIRLSDFTESL 362

>pdb|3D8B|A Chain A, Crystal Structure Of Human Fidgetin-Like Protein 1 In Complex With Adp Length = 357

Iteration: 1
 Score =  203 bits (517), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 105/261 (40%), Positives = 161/261 (61%), Gaps = 7/261 (2%)
Query: 85  VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIA 144
           V +E I G+E  K  + E+V+ P+ RP++F+   L GP KG+LL+GPPGTGKT++ K IA
Sbjct: 81  VNWEDIAGVEFAKATIKEIVVWPMLRPDIFTG--LRGPPKGILLFGPPGTGKTLIGKCIA 138
Query: 145 KESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHE 204
            +SGA F ++  S+L SKW G+ +K+V A+F++A   QPA+IFIDE+DS L QR   +HE
Sbjct: 139 SQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHE 198
Query: 205 ALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQ 264
           +   +KTEF+   DG TT    R++V+ ATNRP E+DEA  RRL +   I +P+   R Q
Sbjct: 199 SSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQ 258
Query: 265 ILKVILKGEKV---EENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPA 321
           I+  ++  E+    EE I  + +    + F+G+D+ ++C++A+   IR L   +      
Sbjct: 259 IVINLMSKEQCCLSEEEI--EQIVQQSDAFSGADMTQLCREASLGPIRSLQTADIATITP 316
Query: 322 AAPRPLSRLDLEKVLTTSRKT 342
              RP++ +D E    T R +
Sbjct: 317 DQVRPIAYIDFENAFRTVRPS 337

>pdb|3B9P|A Chain A, Spastin Length = 297

Iteration: 1
 Score =  202 bits (513), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 121/279 (43%), Positives = 176/279 (63%), Gaps = 8/279 (2%)
Query: 85  VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIA 144
           VE+  I G +  KQAL E+VILP  RPELF+   L  P KG+LL+GPPG GKT+LA+A+A
Sbjct: 18  VEWTDIAGQDVAKQALQEMVILPSVRPELFTG--LRAPAKGLLLFGPPGNGKTLLARAVA 75
Query: 145 KESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHE 204
            E  A F+N+  ++L SK+ GD +KLV A+F++A  +QP+IIFIDEVDS L +R +S+HE
Sbjct: 76  TECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHE 135
Query: 205 ALTNMKTEFMALWDGFTTDQNA-RVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERA 263
           A   +KTEF+  +DG   + +  R++VLAATNRP ELDEA LRR  +   + +PD + R 
Sbjct: 136 ASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRE 195
Query: 264 QILKVILKGEKVEENID-FDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAA 322
            +L  +L+ +    + +    LA + +G++GSDL  + K AA   IREL  E+ K    +
Sbjct: 196 LLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAKDAALEPIRELNVEQVKCLDIS 255
Query: 323 APRPLSRLDLEKVLTTSRKTRVAATEYTLNSQSSGWSRN 361
           A R ++  D    L   ++ R +    +LNS    WS++
Sbjct: 256 AMRAITEQDFHSSL---KRIRRSVAPQSLNSYEK-WSQD 290

>pdb|3H4M|A Chain A, Aaa Atpase Domain Of The Proteasome- Activating Nucleotidase Length = 285

Iteration: 1
 Score =  175 bits (444), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 99/235 (42%), Positives = 140/235 (59%), Gaps = 8/235 (3%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
           +V +E IGGLE   Q + E+V LPL+ PELF    +  P KG+LLYGPPGTGKT+LAKA+
Sbjct: 13  NVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGI-EPPKGILLYGPPGTGKTLLAKAV 71
Query: 144 AKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRR---T 200
           A E+ A FI V  S L+ K+ G+   LV  +F LA +  P+IIFIDE+D+   +R    T
Sbjct: 72  ATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALT 131
Query: 201 SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPD 258
                +     + +A  DGF  D    V ++ ATNRP  LD AILR  R  +  E+  PD
Sbjct: 132 GGDREVQRTLMQLLAEMDGF--DARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPD 189
Query: 259 RKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLD 313
            K R +ILK+  +   + E+++ + +A + EG  G++L  +C +A   +IREL D
Sbjct: 190 EKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVGAELKAICTEAGMNAIRELRD 244

>pdb|2QP9|X Chain X, Crystal Structure Of S.Cerevisiae Vps4 Length = 355

Iteration: 1
 Score =  175 bits (443), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 94/229 (41%), Positives = 140/229 (61%), Gaps = 4/229 (1%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
           +V++E + GLE  K+AL E VILP++ P LF   +   P  G+LLYGPPGTGK+ LAKA+
Sbjct: 47  NVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRK--PTSGILLYGPPGTGKSYLAKAV 104
Query: 144 AKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH 203
           A E+ + F +V  S+L+SKW G+++KLV  +F++A + +P+IIFID+VD+  G R   + 
Sbjct: 105 ATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGES 164
Query: 204 EALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERA 263
           EA   +KTE +   +G   D    V+VL ATN P +LD AI RR  +   I +PD   R 
Sbjct: 165 EASRRIKTELLVQMNGVGNDSQG-VLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAART 223
Query: 264 QILKV-ILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIREL 311
            + ++ +     V    D+  L  + EG++GSD+  V K A    IR++
Sbjct: 224 TMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKI 272

>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer Length = 331

Iteration: 1
 Score =  174 bits (441), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 95/229 (41%), Positives = 140/229 (61%), Gaps = 4/229 (1%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
           +V++E + GLE  K+AL E VILP++ P LF   +   P  G+LLYGPPGTGK+ LAKA+
Sbjct: 23  NVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNR--KPTSGILLYGPPGTGKSYLAKAV 80
Query: 144 AKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH 203
           A E+ + F +V  S+L+SKW G+++KLV  +F++A + +P+IIFIDEVD+  G R   + 
Sbjct: 81  ATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDEVDALTGTRGEGES 140
Query: 204 EALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERA 263
           EA   +KTE +   +G   D    V+VL ATN P +LD AI RR  +   I +PD   R 
Sbjct: 141 EASRRIKTELLVQMNGVGNDSQG-VLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAART 199
Query: 264 QILKV-ILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIREL 311
            + ++ +     V    D+  L  + EG++GSD+  V K A    IR++
Sbjct: 200 TMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKI 248

>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound State Length = 322

Iteration: 1
 Score =  173 bits (438), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 94/229 (41%), Positives = 140/229 (61%), Gaps = 4/229 (1%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
           +V++E + GLE  K+AL E VILP++ P LF   +   P  G+LLYGPPGTGK+ LAKA+
Sbjct: 14  NVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNR--KPTSGILLYGPPGTGKSYLAKAV 71
Query: 144 AKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH 203
           A E+ + F +V  S+L+SKW G+++KLV  +F++A + +P+IIFID+VD+  G R   + 
Sbjct: 72  ATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGES 131
Query: 204 EALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERA 263
           EA   +KTE +   +G   D    V+VL ATN P +LD AI RR  +   I +PD   R 
Sbjct: 132 EASRRIKTELLVQMNGVGNDSQG-VLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAART 190
Query: 264 QILKV-ILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIREL 311
            + ++ +     V    D+  L  + EG++GSD+  V K A    IR++
Sbjct: 191 TMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKI 239

>pdb|3EIH|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of Atpgammas Length = 340

Iteration: 1
 Score =  173 bits (438), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 94/229 (41%), Positives = 140/229 (61%), Gaps = 4/229 (1%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
           +V++E + GLE  K+AL E VILP++ P LF   +   P  G+LLYGPPGTGK+ LAKA+
Sbjct: 32  NVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNR--KPTSGILLYGPPGTGKSYLAKAV 89
Query: 144 AKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH 203
           A E+ + F +V  S+L+SKW G+++KLV  +F++A + +P+IIFID+VD+  G R   + 
Sbjct: 90  ATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGES 149
Query: 204 EALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERA 263
           EA   +KTE +   +G   D    V+VL ATN P +LD AI RR  +   I +PD   R 
Sbjct: 150 EASRRIKTELLVQMNGVGNDSQG-VLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAART 208
Query: 264 QILKVILKGEK-VEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIREL 311
            + ++ +     V    D+  L  + EG++GSD+  V K A    IR++
Sbjct: 209 TMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKI 257

>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A Length = 816

Iteration: 1
 Score =  164 bits (414), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 90/234 (38%), Positives = 141/234 (60%), Gaps = 9/234 (3%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAK 141
           +V ++ +GG       + E+V LPLR P LF   K +G  P +G+LLYGPPGTGKT++A+
Sbjct: 200 EVGYDDVGGCRKQLAQIKEMVELPLRHPALF---KAIGVKPPRGILLYGPPGTGKTLIAR 256
Query: 142 AIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS 201
           A+A E+GA F  +    +MSK  G+++  +   F  A K  PAIIFIDE+D+   +R  +
Sbjct: 257 AVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKT 316
Query: 202 DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDR 259
             E    + ++ + L DG    Q A V+V+AATNRP+ +D A+ R  R  +  +IG+PD 
Sbjct: 317 HGEVERRIVSQLLTLMDGLK--QRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDA 374
Query: 260 KERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLD 313
             R +IL++  K  K+ +++D + +A    G  G+DL  +C +AA  +IR+ +D
Sbjct: 375 TGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMD 428

>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX Length = 806

Iteration: 1
 Score =  164 bits (415), Expect = 8e-41,   Method: Compositional matrix adjust.
 Identities = 91/234 (38%), Positives = 141/234 (60%), Gaps = 9/234 (3%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAK 141
           +V ++ IGG       + E+V LPLR P LF   K +G  P +G+LLYGPPGTGKT++A+
Sbjct: 200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALF---KAIGVKPPRGILLYGPPGTGKTLIAR 256
Query: 142 AIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS 201
           A+A E+GA F  +    +MSK  G+++  +   F  A K  PAIIFIDE+D+   +R  +
Sbjct: 257 AVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKT 316
Query: 202 DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDR 259
             E    + ++ + L DG    Q A V+V+AATNRP+ +D A+ R  R  +  +IG+PD 
Sbjct: 317 HGEVERRIVSQLLTLMDGLK--QRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDA 374
Query: 260 KERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLD 313
             R +IL++  K  K+ +++D + +A    G  G+DL  +C +AA  +IR+ +D
Sbjct: 375 TGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMD 428

>pdb|3CF0|A Chain A, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP Length = 301

Iteration: 1
 Score =  169 bits (427), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 92/225 (40%), Positives = 133/225 (59%), Gaps = 8/225 (3%)
Query: 85  VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIA 144
           V +E IGGLE +K+ L ELV  P+  P+ F    +  P KGVL YGPPG GKT+LAKAIA
Sbjct: 12  VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMT-PSKGVLFYGPPGCGKTLLAKAIA 70
Query: 145 KESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQR---RTS 201
            E  A FI+++   L++ WFG+++  V  +F  A +  P ++F DE+DS    R      
Sbjct: 71  NECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGD 130
Query: 202 DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDR 259
              A   +  + +   DG +T +N  V ++ ATNRP  +D AILR  RL Q   I +PD 
Sbjct: 131 GGGAADRVINQILTEMDGMSTKKN--VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE 188
Query: 260 KERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAA 304
           K R  ILK  L+   V +++D ++LA +  GF+G+DL E+C++A 
Sbjct: 189 KSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRAC 233

>pdb|2ZAM|A Chain A, Crystal Structure Of Mouse Skd1VPS4B APO-Form Length = 444

Iteration: 1
 Score =  165 bits (417), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 90/230 (39%), Positives = 141/230 (61%), Gaps = 5/230 (2%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
           +V++  + GLE  K+AL E VILP++ P LF+  +   P +G+LL+GPPGTGK+ LAKA+
Sbjct: 130 NVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRT--PWRGILLFGPPGTGKSYLAKAV 187
Query: 144 AKESG-AVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD 202
           A E+  + F ++  S+L+SKW G+++KLV  +F LA + +P+IIFIDE+DS  G R  ++
Sbjct: 188 ATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENE 247
Query: 203 HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKER 262
            EA   +KTEF+    G   D N  ++VL ATN P  LD AI RR  +   I +P+   R
Sbjct: 248 SEAARRIKTEFLVQMQGVGVD-NDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHAR 306
Query: 263 AQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIREL 311
           A + ++ L   +      DF  L    +G++G+D+  + + A    +R++
Sbjct: 307 AAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVRDALMQPVRKV 356

>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score =  164 bits (416), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 91/234 (38%), Positives = 141/234 (60%), Gaps = 9/234 (3%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAK 141
           +V ++ IGG       + E+V LPLR P LF   K +G  P +G+LLYGPPGTGKT++A+
Sbjct: 200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALF---KAIGVKPPRGILLYGPPGTGKTLIAR 256
Query: 142 AIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS 201
           A+A E+GA F  +    +MSK  G+++  +   F  A K  PAIIFIDE+D+   +R  +
Sbjct: 257 AVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKT 316
Query: 202 DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDR 259
             E    + ++ + L DG    Q A V+V+AATNRP+ +D A+ R  R  +  +IG+PD 
Sbjct: 317 HGEVERRIVSQLLTLMDGLK--QRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDA 374
Query: 260 KERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLD 313
             R +IL++  K  K+ +++D + +A    G  G+DL  +C +AA  +IR+ +D
Sbjct: 375 TGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMD 428

>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score =  164 bits (416), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 91/234 (38%), Positives = 141/234 (60%), Gaps = 9/234 (3%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAK 141
           +V ++ IGG       + E+V LPLR P LF   K +G  P +G+LLYGPPGTGKT++A+
Sbjct: 200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALF---KAIGVKPPRGILLYGPPGTGKTLIAR 256
Query: 142 AIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS 201
           A+A E+GA F  +    +MSK  G+++  +   F  A K  PAIIFIDE+D+   +R  +
Sbjct: 257 AVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKT 316
Query: 202 DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDR 259
             E    + ++ + L DG    Q A V+V+AATNRP+ +D A+ R  R  +  +IG+PD 
Sbjct: 317 HGEVERRIVSQLLTLMDGLK--QRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDA 374
Query: 260 KERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLD 313
             R +IL++  K  K+ +++D + +A    G  G+DL  +C +AA  +IR+ +D
Sbjct: 375 TGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMD 428

>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs Length = 489

Iteration: 1
 Score =  164 bits (416), Expect = 6e-41,   Method: Compositional matrix adjust.
 Identities = 91/234 (38%), Positives = 141/234 (60%), Gaps = 9/234 (3%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAK 141
           +V ++ IGG       + E+V LPLR P LF   K +G  P +G+LLYGPPGTGKT++A+
Sbjct: 200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALF---KAIGVKPPRGILLYGPPGTGKTLIAR 256
Query: 142 AIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS 201
           A+A E+GA F  +    +MSK  G+++  +   F  A K  PAIIFIDE+D+   +R  +
Sbjct: 257 AVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKT 316
Query: 202 DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDR 259
             E    + ++ + L DG    Q A V+V+AATNRP+ +D A+ R  R  +  +IG+PD 
Sbjct: 317 HGEVERRIVSQLLTLMDGLK--QRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDA 374
Query: 260 KERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLD 313
             R +IL++  K  K+ +++D + +A    G  G+DL  +C +AA  +IR+ +D
Sbjct: 375 TGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMD 428

>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b Length = 322

Iteration: 1
 Score =  164 bits (415), Expect = 8e-41,   Method: Compositional matrix adjust.
 Identities = 90/230 (39%), Positives = 141/230 (61%), Gaps = 5/230 (2%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
           +V++  + GLE  K+AL E VILP++ P LF+  +   P +G+LL+GPPGTGK+ LAKA+
Sbjct: 8   NVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRT--PWRGILLFGPPGTGKSYLAKAV 65
Query: 144 AKESG-AVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD 202
           A E+  + F ++  S+L+SKW G+++KLV  +F LA + +P+IIFIDE+DS  G R  ++
Sbjct: 66  ATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENE 125
Query: 203 HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKER 262
            EA   +KTEF+    G   D +  ++VL ATN P  LD AI RR  +   I +P+   R
Sbjct: 126 SEAARRIKTEFLVQMQGVGVDNDG-ILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHAR 184
Query: 263 AQILKVIL-KGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIREL 311
           A + K+ L   +      DF  L    +G++G+D+  + + A    +R++
Sbjct: 185 AAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDALMQPVRKV 234

>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain Of Membrane Fusion Atpase P97 Length = 458

Iteration: 1
 Score =  164 bits (414), Expect = 9e-41,   Method: Compositional matrix adjust.
 Identities = 90/234 (38%), Positives = 141/234 (60%), Gaps = 9/234 (3%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAK 141
           +V ++ +GG       + E+V LPLR P LF   K +G  P +G+LLYGPPGTGKT++A+
Sbjct: 200 EVGYDDVGGCRKQLAQIKEMVELPLRHPALF---KAIGVKPPRGILLYGPPGTGKTLIAR 256
Query: 142 AIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS 201
           A+A E+GA F  +    +MSK  G+++  +   F  A K  PAIIFIDE+D+   +R  +
Sbjct: 257 AVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKT 316
Query: 202 DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDR 259
             E    + ++ + L DG    Q A V+V+AATNRP+ +D A+ R  R  +  +IG+PD 
Sbjct: 317 HGEVERRIVSQLLTLMDGLK--QRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDA 374
Query: 260 KERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLD 313
             R +IL++  K  K+ +++D + +A    G  G+DL  +C +AA  +IR+ +D
Sbjct: 375 TGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMD 428

>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score =  157 bits (396), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 89/235 (37%), Positives = 135/235 (57%), Gaps = 8/235 (3%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
           ++ F+ IGGL    + L E++ LPL+ PE+F    +  P KGVLLYGPPGTGKT+LAKA+
Sbjct: 177 EITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGI-KPPKGVLLYGPPGTGKTLLAKAV 235
Query: 144 AKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQR---RT 200
           A   GA FI    S ++ K+ G++ +++  +F+ A + +P IIF+DEVD+  G+R    T
Sbjct: 236 AATIGANFIFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGT 295
Query: 201 SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPD 258
           S    +     E +   DGF  D   +  ++ ATNRP  LD A+LR  RL +  EI +P+
Sbjct: 296 SADREIQRTLMELLTQMDGF--DNLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPN 353
Query: 259 RKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLD 313
              R +I K+     K     DF+    + +GF G+D+     +A +F+IR+  D
Sbjct: 354 EAGRLEIFKIHTAKVKKTGEFDFEAAVKMSDGFNGADIRNCATEAGFFAIRDDRD 408

>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 467

Iteration: 1
 Score =  155 bits (391), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 93/234 (39%), Positives = 133/234 (56%), Gaps = 14/234 (5%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAK 141
           DV +  +GG +   + L E+V LPL  PE F+    LG  P KG+LLYGPPGTGKT+ A+
Sbjct: 205 DVTYSDVGGCKDQIEKLREVVELPLLSPERFA---TLGIDPPKGILLYGPPGTGKTLCAR 261
Query: 142 AIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQR--- 198
           A+A  + A FI V  S L+ K+ G+  ++V  +F +A   +  IIF DE+D+  G R   
Sbjct: 262 AVANRTDATFIRVIGSELVQKYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDD 321
Query: 199 -RTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIG 255
               D+E    M  E +   DGF    N +VM   ATNRP+ LD A+LR  R+ +  E  
Sbjct: 322 GAGGDNEVQRTM-LELITQLDGFDPRGNIKVMF--ATNRPNTLDPALLRPGRIDRKVEFS 378
Query: 256 MPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIR 309
           +PD + RA I ++  K   VE  I ++ ++ LC   TG++L  VC +A  F+IR
Sbjct: 379 LPDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIR 432

>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C- Terminal Aaa-Atpase Domain Length = 274

Iteration: 1
 Score =  149 bits (375), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 87/242 (35%), Positives = 142/242 (58%), Gaps = 10/242 (4%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
           +V +  IG LE I++ L   ++ P+R P+ F    L+ P  GVLL GPPG GKT+LAKA+
Sbjct: 6   NVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPA-GVLLAGPPGCGKTLLAKAV 64
Query: 144 AKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH 203
           A ESG  FI+V+   L++ + G++++ V  VF  A    P +IF DEVD+   +R   + 
Sbjct: 65  ANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRET 124
Query: 204 EALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDRKE 261
            A   +  + +   DG    Q  +V ++AATNRP  +D AILR  RL +   +G+P   +
Sbjct: 125 GASVRVVNQLLTEMDGLEARQ--QVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPAD 182
Query: 262 RAQILKVILK-GEK--VEENIDFDYLAG--LCEGFTGSDLLEVCKQAAYFSIRELLDEER 316
           R  ILK I K G K  ++ +++ + +AG   C+ +TG+DL  + ++A+  ++R+ +  ++
Sbjct: 183 RLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQEMARQK 242
Query: 317 KG 318
            G
Sbjct: 243 SG 244

>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 434

Iteration: 1
 Score =  145 bits (367), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 85/229 (37%), Positives = 131/229 (57%), Gaps = 10/229 (4%)
Query: 87  FESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKE 146
           +  +GGL+   + L E ++LP++R + F    +  P KG L+YGPPGTGKT+LA+A A +
Sbjct: 180 YSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAP-KGALMYGPPGTGKTLLARACAAQ 238
Query: 147 SGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQR----RTSD 202
           + A F+ +    L+  + G+  KLV   F+LA +  P IIFIDE+D+   +R    ++ D
Sbjct: 239 TNATFLKLAAPQLVQMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGD 298
Query: 203 HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDRK 260
            E    M  E +   DGF++D   RV VLAATNR   LD A+LR  RL +  E  +P   
Sbjct: 299 REVQRTM-LELLNQLDGFSSDD--RVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSED 355
Query: 261 ERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIR 309
            RAQIL++  +    +++I++  LA   + F G+ L  V  +A   ++R
Sbjct: 356 SRAQILQIHSRKMTTDDDINWQELARSTDEFNGAQLKAVTVEAGMIALR 404

>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 428

Iteration: 1
 Score =  142 bits (358), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 88/233 (37%), Positives = 128/233 (54%), Gaps = 9/233 (3%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
           DV +  +GGL+  KQ + E V LPL + +L+    +  P +GVLLYGPPGTGKTML KA+
Sbjct: 168 DVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGI-DPPRGVLLYGPPGTGKTMLVKAV 226
Query: 144 AKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQR---RT 200
           A  + A FI V  S  + K+ G+  ++V  VF LA +  P+IIFIDEVDS   +R   +T
Sbjct: 227 ANSTKAAFIRVNGSEFVHKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQT 286
Query: 201 SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEI-GMP 257
                +  +  E +   DGF  DQ+  V V+ ATNR   LD A+LR  RL +  E   + 
Sbjct: 287 GSDREVQRILIELLTQMDGF--DQSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLR 344
Query: 258 DRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
           DR+ER  I   I     +    D D L    +  +G+ +  + ++A   ++R+
Sbjct: 345 DRRERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRK 397

>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 405

Iteration: 1
 Score =  140 bits (354), Expect = 9e-34,   Method: Compositional matrix adjust.
 Identities = 83/234 (35%), Positives = 134/234 (57%), Gaps = 12/234 (5%)
Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
           D  ++ +GGL    + + E++ LP++ PELF    +  P KGV+LYGPPGTGKT+LA+A+
Sbjct: 144 DSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQP-KGVILYGPPGTGKTLLARAV 202
Query: 144 AKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRT--- 200
           A  +   FI V  + L+ K+ G+  ++V  +F +A +  P+IIF+DE+DS +G  R    
Sbjct: 203 AHHTDCKFIRVSGAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDS-IGSTRVEGS 261
Query: 201 --SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGM 256
              D E    M  E +   DGF T +N ++++  ATNR   LD A+LR  R+ +  E   
Sbjct: 262 GGGDSEVQRTM-LELLNQLDGFETSKNIKIIM--ATNRLDILDPALLRPGRIDRKIEFPP 318
Query: 257 PDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
           P    RA+IL++  +   +   I+   +A    G +G+D+  VC +A  +++RE
Sbjct: 319 PSVAARAEILRIHSRKMNLTRGINLRKVAEKMNGCSGADVKGVCTEAGMYALRE 372

>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent Protease, Ftsh Length = 268

Iteration: 1
 Score =  137 bits (344), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 93/249 (37%), Positives = 141/249 (56%), Gaps = 15/249 (6%)
Query: 78  INPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQ--KGVLLYGPPGTG 135
           IN +  +V F+ + G E  K+ + E+V   L+ PE +++   LG +  KGVLL GPPGTG
Sbjct: 1   INAEKPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYAN---LGAKIPKGVLLVGPPGTG 56
Query: 136 KTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFL 195
           KT+LAKA+A E+   F ++  S+ +  + G     V  +F  A K  P+IIFIDE+D+ +
Sbjct: 57  KTLLAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDA-I 115
Query: 196 GQRRTSDHEALTNMKTE-----FMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RL 248
           G+ R +      N + E      +A  DGF + +NA V+VLAATNRP  LD A++R  R 
Sbjct: 116 GKSRAAGGVVSGNDEREQTLNQLLAEMDGFGS-ENAPVIVLAATNRPEILDPALMRPGRF 174
Query: 249 PQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSI 308
            +   +  PD   R +ILKV +KG K+  +++   +A L  G  G+DL  +  +AA  + 
Sbjct: 175 DRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANIINEAALLAG 234
Query: 309 RELLDEERK 317
           R    E R+
Sbjct: 235 RNNQKEVRQ 243

>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s Proteasome Length = 437

Iteration: 1
 Score =  135 bits (341), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 78/229 (34%), Positives = 126/229 (55%), Gaps = 8/229 (3%)
Query: 87  FESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKE 146
           +  IGGLE+  Q + E V LPL  PEL+    +  P KGV+LYG PGTGKT+LAKA+A +
Sbjct: 181 YSDIGGLESQIQEIKESVELPLTHPELYEEMGI-KPPKGVILYGAPGTGKTLLAKAVANQ 239
Query: 147 SGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD---H 203
           + A F+ +  S L+ K+ GD  +L   +F +A +  P+I+FIDE+D+   +R  S+    
Sbjct: 240 TSATFLRIVGSELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGE 299
Query: 204 EALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDRKE 261
             +     E +   DGF  D    V V+ ATN+   LD A++R  R+ +      PD   
Sbjct: 300 REIQRTMLELLNQLDGF--DDRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLST 357
Query: 262 RAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
           + +IL +      + E+++ + L    +  +G+D+  +C +A   ++RE
Sbjct: 358 KKKILGIHTSKMNLSEDVNLETLVTTKDDLSGADIQAMCTEAGLLALRE 406

>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh Length = 257

Iteration: 1
 Score =  135 bits (339), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 89/240 (37%), Positives = 128/240 (53%), Gaps = 13/240 (5%)
Query: 77  VINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSH--GKLLGPQKGVLLYGPPGT 134
           ++  D I   F  + G +  K+ + ELV   LR P  F    GK+    KGVL+ GPPGT
Sbjct: 1   MLTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKI---PKGVLMVGPPGT 56
Query: 135 GKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSF 194
           GKT+LAKAIA E+   F  +  S+ +  + G     V  +F  A K  P IIFIDE+D+ 
Sbjct: 57  GKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAV 116
Query: 195 LGQRRT---SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLP 249
             QR       H+       + +   DGF  + N  ++V+AATNRP  LD A+LR  R  
Sbjct: 117 GRQRGAGLGGGHDEREQTLNQMLVEMDGF--EGNEGIIVIAATNRPDVLDPALLRPGRFD 174
Query: 250 QAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIR 309
           +   +G+PD + R QILKV ++   +  +ID   +A    GF+G+DL  +  +AA F+ R
Sbjct: 175 RQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAAR 234

>pdb|2CE7|A Chain A, Edta Treated Length = 476

Iteration: 1
 Score =  120 bits (302), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 79/236 (33%), Positives = 128/236 (54%), Gaps = 11/236 (4%)
Query: 85  VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIA 144
           V F+ +GG E   + L E+V   L+ P  F+      P KG+LL GPPGTGKT+LA+A+A
Sbjct: 13  VTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMP-KGILLVGPPGTGKTLLARAVA 70
Query: 145 KESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS--- 201
            E+   F ++  S+ +  + G     V  +F+ A    P I+FIDE+D+ +G+ R +   
Sbjct: 71  GEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDA-VGRHRGAGLG 129
Query: 202 -DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPD 258
             H+       + +   DGF  D    ++V+AATNRP  LD A+LR  R  +   +  PD
Sbjct: 130 GGHDEREQTLNQLLVEMDGF--DSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPD 187
Query: 259 RKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE 314
              R +IL++  + + + E+++ + +A    GF G+DL  +  +AA  + RE  D+
Sbjct: 188 MLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREGRDK 243

>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure Length = 465

Iteration: 1
 Score =  119 bits (297), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 78/236 (33%), Positives = 127/236 (53%), Gaps = 11/236 (4%)
Query: 85  VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIA 144
           V F+ +GG E   + L E+V   L+ P  F+      P KG+LL GPPGTG T+LA+A+A
Sbjct: 13  VTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMP-KGILLVGPPGTGATLLARAVA 70
Query: 145 KESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS--- 201
            E+   F ++  S+ +  + G     V  +F+ A    P I+FIDE+D+ +G+ R +   
Sbjct: 71  GEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDA-VGRHRGAGLG 129
Query: 202 -DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPD 258
             H+       + +   DGF  D    ++V+AATNRP  LD A+LR  R  +   +  PD
Sbjct: 130 GGHDEREQTLNQLLVEMDGF--DSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPD 187
Query: 259 RKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE 314
              R +IL++  + + + E+++ + +A    GF G+DL  +  +AA  + RE  D+
Sbjct: 188 MLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREGRDK 243

>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 508

Iteration: 1
 Score =  113 bits (282), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 68/178 (38%), Positives = 99/178 (55%), Gaps = 9/178 (5%)
Query: 124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQP 183
           KGVLL GPPG GKT LA+A+A E+   FI    S+ +  + G     V  +F  A +  P
Sbjct: 74  KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAP 133
Query: 184 AIIFIDEVDSFLGQRRTS----DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE 239
            I+FIDE+D+ +G++R S     ++       + +   DGF  D    ++V+AATNRP  
Sbjct: 134 CIVFIDEIDA-VGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTA--IVVMAATNRPDI 190
Query: 240 LDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSD 295
           LD A+LR  R  +   I  PD K R QIL++  +G+ + E++D   LA    GF G+D
Sbjct: 191 LDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGAD 248

>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease Ftsh (G399l) Length = 499

Iteration: 1
 Score =  112 bits (281), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 68/178 (38%), Positives = 99/178 (55%), Gaps = 9/178 (5%)
Query: 124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQP 183
           KGVLL GPPG GKT LA+A+A E+   FI    S+ +  + G     V  +F  A +  P
Sbjct: 65  KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAP 124
Query: 184 AIIFIDEVDSFLGQRRTS----DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE 239
            I+FIDE+D+ +G++R S     ++       + +   DGF  D    ++V+AATNRP  
Sbjct: 125 CIVFIDEIDA-VGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTA--IVVMAATNRPDI 181
Query: 240 LDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSD 295
           LD A+LR  R  +   I  PD K R QIL++  +G+ + E++D   LA    GF G+D
Sbjct: 182 LDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGAD 239

>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 278

Iteration: 1
 Score =  112 bits (281), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 68/178 (38%), Positives = 99/178 (55%), Gaps = 9/178 (5%)
Query: 124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQP 183
           KGVLL GPPG GKT LA+A+A E+   FI    S+ +  + G     V  +F  A +  P
Sbjct: 74  KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAP 133
Query: 184 AIIFIDEVDSFLGQRRTSDHEALTNMK----TEFMALWDGFTTDQNARVMVLAATNRPSE 239
            I+FIDE+D+ +G++R S      + +     + +   DGF  D    ++V+AATNRP  
Sbjct: 134 CIVFIDEIDA-VGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTA--IVVMAATNRPDI 190
Query: 240 LDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSD 295
           LD A+LR  R  +   I  PD K R QIL++  +G+ + E++D   LA    GF G+D
Sbjct: 191 LDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGAD 248

>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp Length = 262

Iteration: 1
 Score =  112 bits (281), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 83/240 (34%), Positives = 129/240 (53%), Gaps = 20/240 (8%)
Query: 83  IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQ--KGVLLYGPPGTGKTMLA 140
           + V F+ + G+   K  + E V   L+ PE F     LG +  KG LL GPPG GKT+LA
Sbjct: 1   MGVSFKDVAGMHEAKLEVREFVDY-LKSPERFLQ---LGAKVPKGALLLGPPGCGKTLLA 56
Query: 141 KAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRT 200
           KA+A E+   F+ +  +  +    G     V ++F  A    P I++IDE+D+ +G++R+
Sbjct: 57  KAVATEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDA-VGKKRS 115
Query: 201 SDHEALTNMKTE-----FMALWDGF-TTDQNARVMVLAATNRPSELDEAILR--RLPQAF 252
           +     +N + E      +   DG  TTD    V+VLA+TNR   LD A++R  RL +  
Sbjct: 116 TTMSGFSNTEEEQTLNQLLVEMDGMGTTDH---VIVLASTNRADILDGALMRPGRLDRHV 172
Query: 253 EIGMPDRKERAQILKVILKGEKVEENIDF--DYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
            I +P  +ER +I +  LK  K+ ++  F    LA L  GF+G+D+  +C +AA  + RE
Sbjct: 173 FIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAARE 232

>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus Thermophilus Length = 254

Iteration: 1
 Score =  112 bits (281), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 68/178 (38%), Positives = 99/178 (55%), Gaps = 9/178 (5%)
Query: 124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQP 183
           KGVLL GPPG GKT LA+A+A E+   FI    S+ +  + G     V  +F  A +  P
Sbjct: 50  KGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAP 109
Query: 184 AIIFIDEVDSFLGQRRTSDHEALTNMK----TEFMALWDGFTTDQNARVMVLAATNRPSE 239
            I+FIDE+D+ +G++R S      + +     + +   DGF  D    ++V+AATNRP  
Sbjct: 110 CIVFIDEIDA-VGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTA--IVVMAATNRPDI 166
Query: 240 LDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSD 295
           LD A+LR  R  +   I  PD K R QIL++  +G+ + E++D   LA    GF G+D
Sbjct: 167 LDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGAD 224

>pdb|1NSF|A Chain A, D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive Factor (Nsf) Length = 273

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 122 PQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQ-KLVAAVFSLAYK 180
           P   VLL GPP +GKT LA  IA+ES   FI +   + M  +   A+ + +  +F  AYK
Sbjct: 62  PLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYK 121
Query: 181 LQPAIIFIDEVDSFL 195
            Q + + +D+++  L
Sbjct: 122 SQLSCVVVDDIERLL 136

>pdb|4A3V|B Chain B, Yeast Regulatory Particle Proteasome Assembly Chaperone Hsm3 In Complex With Rpt1 C-Terminal Fragment Length = 95

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 32/54 (59%)
Query: 256 MPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIR 309
           +PD + RA I ++  K   VE  I ++ ++ LC   TG++L  VC +A  F+IR
Sbjct: 7   LPDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIR 60

>pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein Length = 272

Iteration: 1
 Score = 44.3 bits (103), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 27/75 (36%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 122 PQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQ-KLVAAVFSLAYK 180
           P   VLL GPP +GKT LA  IA+ES   FI +   + M  +   A+ + +  +F  AYK
Sbjct: 63  PLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYK 122
Query: 181 LQPAIIFIDEVDSFL 195
            Q + + +D+++  L
Sbjct: 123 SQLSCVVVDDIERLL 137

>pdb|1HQC|A Chain A, Structure Of Ruvb From Thermus Thermophilus Hb8 Length = 324

Iteration: 1
 Score = 42.7 bits (99), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 41/133 (30%), Positives = 64/133 (48%), Gaps = 16/133 (12%)
Query: 122 PQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI-SNLMSKWFGDAQKLVAAVFSLAYK 180
           P + +LL+GPPG GKT LA  IA E G   +N+R+ S    +  GD    +AA+  LA  
Sbjct: 37  PLEHLLLFGPPGLGKTTLAHVIAHELG---VNLRVTSGPAIEKPGD----LAAI--LANS 87
Query: 181 LQPA-IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD----QNARVMVLAATN 235
           L+   I+FIDE+     Q     + A+ +   + + +  G        +  R  ++ AT 
Sbjct: 88  LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIV-IGQGPAARTIRLELPRFTLIGATT 146
Query: 236 RPSELDEAILRRL 248
           RP  +   +L R 
Sbjct: 147 RPGLITAPLLSRF 159

>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii Length = 318

Iteration: 1
 Score = 42.4 bits (98), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 41/133 (30%), Positives = 64/133 (48%), Gaps = 16/133 (12%)
Query: 122 PQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI-SNLMSKWFGDAQKLVAAVFSLAYK 180
           P + +LL+GPPG GKT LA  IA E G   +N+R+ S    +  GD    +AA+  LA  
Sbjct: 37  PLEHLLLFGPPGLGKTTLAHVIAHELG---VNLRVTSGPAIEKPGD----LAAI--LANS 87
Query: 181 LQPA-IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD----QNARVMVLAATN 235
           L+   I+FIDE+     Q     + A+ +   + + +  G        +  R  ++ AT 
Sbjct: 88  LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIV-IGQGPAARTIRLELPRFTLIGATT 146
Query: 236 RPSELDEAILRRL 248
           RP  +   +L R 
Sbjct: 147 RPGLITAPLLSRF 159

>pdb|3M6A|A Chain A, Crystal Structure Of Bacillus Subtilis Lon C-Terminal Domain Length = 543

Iteration: 1
 Score = 42.4 bits (98), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 37/113 (32%), Positives = 54/113 (47%), Gaps = 20/113 (17%)
Query: 92  GLETIKQALYE-LVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV 150
           GLE +K+ + E L +  L +        L GP   + L GPPG GKT LAK+IAK  G  
Sbjct: 85  GLEKVKERILEYLAVQKLTK-------SLKGPI--LCLAGPPGVGKTSLAKSIAKSLGRK 135
Query: 151 FINVRISNLM--SKWFGDAQKLVAAV-------FSLAYKLQPAIIFIDEVDSF 194
           F+ + +  +   S+  G  +  V A+          A KL P +  +DE+D  
Sbjct: 136 FVRISLGGVRDESEIRGHRRTYVGAMPGRIIQGMKKAGKLNP-VFLLDEIDKM 187

>pdb|1IXR|C Chain C, Ruva-Ruvb Complex Length = 312

Iteration: 1
 Score = 42.4 bits (98), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 41/133 (30%), Positives = 64/133 (48%), Gaps = 16/133 (12%)
Query: 122 PQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI-SNLMSKWFGDAQKLVAAVFSLAYK 180
           P + +LL+GPPG GKT LA  IA E G   +N+R+ S    +  GD    +AA+  LA  
Sbjct: 37  PLEHLLLFGPPGLGKTTLAHVIAHELG---VNLRVTSGPAIEKPGD----LAAI--LANS 87
Query: 181 LQPA-IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD----QNARVMVLAATN 235
           L+   I+FIDE+     Q     + A+ +   + + +  G        +  R  ++ AT 
Sbjct: 88  LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIV-IGQGPAARTIRLELPRFTLIGATT 146
Query: 236 RPSELDEAILRRL 248
           RP  +   +L R 
Sbjct: 147 RPGLITAPLLSRF 159

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	396
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	1e-131
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	1e-131
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	1e-128
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	1e-110
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	1e-105
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	4e-99
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	2e-98
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	5e-78
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	1e-76
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	3e-76
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	5e-76
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	1e-69
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	3e-75
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	2e-52
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	4e-44
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	6e-44
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	2e-43
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	3e-43
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	1e-42
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	6e-42
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	6e-36
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	2e-35
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-16
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-06
2krk_A	86	26S protease regulatory subunit 8; structural geno	2e-13
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	4e-13
3vlf_B	88	26S protease regulatory subunit 7 homolog; heat re	2e-11
3kw6_A	78	26S protease regulatory subunit 8; structural geno	2e-11
3aji_B	83	S6C, proteasome (prosome, macropain) 26S subunit,	2e-10
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	4e-10
3pvs_A	447	Replication-associated recombination protein A; ma	2e-08
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	3e-08
2dzn_B	82	26S protease regulatory subunit 6B homolog; ankyri	5e-08
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	5e-08
2chg_A	226	Replication factor C small subunit; DNA-binding pr	6e-08
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	3e-07
2chq_A	319	Replication factor C small subunit; DNA-binding pr	4e-07
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	8e-06
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	1e-05
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	2e-05
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	3e-05
2qgz_A	308	Helicase loader, putative primosome component; str	3e-05
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	4e-05
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	4e-05
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	4e-05
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	6e-05
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	6e-05
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	1e-04
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	2e-04
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	2e-04
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	3e-04
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	3e-04
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	9e-04

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster} Length = 297

 Score =  377 bits (971), Expect = e-131
 Identities = 118/272 (43%), Positives = 168/272 (61%), Gaps = 4/272 (1%)

Query: 73  IACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPP 132
           +  D I      VE+  I G +  KQAL E+VILP  RPELF+   L  P KG+LL+GPP
Sbjct: 6   LILDEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFT--GLRAPAKGLLLFGPP 63

Query: 133 GTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVD 192
           G GKT+LA+A+A E  A F+N+  ++L SK+ GD +KLV A+F++A  +QP+IIFIDEVD
Sbjct: 64  GNGKTLLARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVD 123

Query: 193 SFLGQRRTSDHEALTNMKTEFMALWDGFTTDQ-NARVMVLAATNRPSELDEAILRRLPQA 251
           S L +R +S+HEA   +KTEF+  +DG   +    R++VLAATNRP ELDEA LRR  + 
Sbjct: 124 SLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALRRFTKR 183

Query: 252 FEIGMPDRKERAQILKVILKGEKVEEN-IDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
             + +PD + R  +L  +L+ +    +      LA + +G++GSDL  + K AA   IRE
Sbjct: 184 VYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAKDAALEPIRE 243

Query: 311 LLDEERKGKPAAAPRPLSRLDLEKVLTTSRKT 342
           L  E+ K    +A R ++  D    L   R++
Sbjct: 244 LNVEQVKCLDISAMRAITEQDFHSSLKRIRRS 275

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens} Length = 389

 Score =  381 bits (980), Expect = e-131
 Identities = 117/304 (38%), Positives = 178/304 (58%), Gaps = 3/304 (0%)

Query: 40  PNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIKQA 99
                +K +        K+  +     +     +  + I  +   V+F+ I G +  KQA
Sbjct: 67  KTNRTNKPSTPTTATRKKKDLKNFRNVDSNLANLIMNEIVDNGTAVKFDDIAGQDLAKQA 126

Query: 100 LYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL 159
           L E+VILP  RPELF+   L  P +G+LL+GPPG GKTMLAKA+A ES A F N+  ++L
Sbjct: 127 LQEIVILPSLRPELFT--GLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASL 184

Query: 160 MSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDG 219
            SK+ G+ +KLV A+F++A +LQP+IIFID+VDS L +RR  +H+A   +KTEF+  +DG
Sbjct: 185 TSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDG 244

Query: 220 FTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-EN 278
             +  + RV+V+ ATNRP ELDEA+LRR  +   + +P+ + R  +LK +L  +      
Sbjct: 245 VQSAGDDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQ 304

Query: 279 IDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTT 338
            +   LA + +G++GSDL  + K AA   IREL  E+ K   A+  R +   D  + L  
Sbjct: 305 KELAQLARMTDGYSGSDLTALAKDAALGPIRELKPEQVKNMSASEMRNIRLSDFTESLKK 364

Query: 339 SRKT 342
            +++
Sbjct: 365 IKRS 368

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens} Length = 357

 Score =  371 bits (954), Expect = e-128
 Identities = 109/310 (35%), Positives = 171/310 (55%), Gaps = 10/310 (3%)

Query: 34  GLRHLDPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGL 93
           G     P      +      E  K L   +I+       +  + I      V +E I G+
Sbjct: 37  GGMQCKPYGAGPTEPAHPVDERLKNLEPKMIE-------LIMNEIMDHGPPVNWEDIAGV 89

Query: 94  ETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFIN 153
           E  K  + E+V+ P+ RP++F+   L GP KG+LL+GPPGTGKT++ K IA +SGA F +
Sbjct: 90  EFAKATIKEIVVWPMLRPDIFTG--LRGPPKGILLFGPPGTGKTLIGKCIASQSGATFFS 147

Query: 154 VRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEF 213
           +  S+L SKW G+ +K+V A+F++A   QPA+IFIDE+DS L QR   +HE+   +KTEF
Sbjct: 148 ISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEF 207

Query: 214 MALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGE 273
           +   DG TT    R++V+ ATNRP E+DEA  RRL +   I +P+   R QI+  ++  E
Sbjct: 208 LVQLDGATTSSEDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKE 267

Query: 274 KVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDL 332
           +      + + +    + F+G+D+ ++C++A+   IR L   +         RP++ +D 
Sbjct: 268 QCCLSEEEIEQIVQQSDAFSGADMTQLCREASLGPIRSLQTADIATITPDQVRPIAYIDF 327

Query: 333 EKVLTTSRKT 342
           E    T R +
Sbjct: 328 ENAFRTVRPS 337

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens} Length = 322

 Score =  326 bits (837), Expect = e-110
 Identities = 99/276 (35%), Positives = 152/276 (55%), Gaps = 5/276 (1%)

Query: 78  INPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKT 137
           I  +  +V++  + GLE  K+AL E VILP++ P LF+      P +G+LL+GPPGTGK+
Sbjct: 2   IVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFT--GKRTPWRGILLFGPPGTGKS 59

Query: 138 MLAKAIAKESG-AVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLG 196
            LAKA+A E+  + F ++  S+L+SKW G+++KLV  +F LA + +P+IIFIDE+DS  G
Sbjct: 60  YLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCG 119

Query: 197 QRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGM 256
            R  ++ EA   +KTEF+    G   D N  ++VL ATN P  LD AI RR  +   I +
Sbjct: 120 SRSENESEAARRIKTEFLVQMQGVGVD-NDGILVLGATNIPWVLDSAIRRRFEKRIYIPL 178

Query: 257 PDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE 315
           P+   RA + K+ L   +      DF  L    +G++G+D+  + + A    +R++    
Sbjct: 179 PEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDALMQPVRKVQSAT 238

Query: 316 RKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEYTL 351
              K     R      ++ +LT        A E T 
Sbjct: 239 HFKKVRGPSRADPNHLVDDLLTPCSPGDPGAIEMTW 274

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C Length = 322

 Score =  312 bits (802), Expect = e-105
 Identities = 95/254 (37%), Positives = 144/254 (56%), Gaps = 4/254 (1%)

Query: 78  INPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKT 137
           I  +  +V++E + GLE  K+AL E VILP++ P LF       P  G+LLYGPPGTGK+
Sbjct: 8   ILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGN--RKPTSGILLYGPPGTGKS 65

Query: 138 MLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQ 197
            LAKA+A E+ + F +V  S+L+SKW G+++KLV  +F++A + +P+IIFID+VD+  G 
Sbjct: 66  YLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGT 125

Query: 198 RRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMP 257
           R   + EA   +KTE +   +G   D +  V+VL ATN P +LD AI RR  +   I +P
Sbjct: 126 RGEGESEASRRIKTELLVQMNGVGND-SQGVLVLGATNIPWQLDSAIRRRFERRIYIPLP 184

Query: 258 DRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEER 316
           D   R  + ++ +          D+  L  + EG++GSD+  V K A    IR++     
Sbjct: 185 DLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATH 244

Query: 317 KGKPAAAPRPLSRL 330
               +       +L
Sbjct: 245 FKDVSTEDDETRKL 258

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A Length = 444

 Score =  301 bits (772), Expect = 4e-99
 Identities = 102/314 (32%), Positives = 158/314 (50%), Gaps = 5/314 (1%)

Query: 40  PNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIKQA 99
           P +E     ++ K   S                     I  +  +V++  + GLE  K+A
Sbjct: 86  PVKEEQSGPVDEKGNDSDGEAESDDPEKKKLQNQLQGAIVIERPNVKWSDVAGLEGAKEA 145

Query: 100 LYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG-AVFINVRISN 158
           L E VILP++ P LF+      P +G+LL+GPPGTGK+ LAKA+A E+  + F ++  S+
Sbjct: 146 LKEAVILPIKFPHLFT--GKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSD 203

Query: 159 LMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWD 218
           L+SKW G+++KLV  +F LA + +P+IIFIDE+DS  G R  ++ EA   +KTEF+    
Sbjct: 204 LVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQ 263

Query: 219 GFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-E 277
           G   D N  ++VL ATN P  LD AI RR  +   I +P+   RA + ++ L   +    
Sbjct: 264 GVGVD-NDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSLT 322

Query: 278 NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLT 337
             DF  L    +G++G+D+  + + A    +R++       K     R      +  +LT
Sbjct: 323 EADFQELGRKTDGYSGADISIIVRDALMQPVRKVQSATHFKKVRGPSRADPNCIVNDLLT 382

Query: 338 TSRKTRVAATEYTL 351
                   A E T 
Sbjct: 383 PCSPGDPGAIEMTW 396

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A* Length = 355

 Score =  296 bits (759), Expect = 2e-98
 Identities = 100/293 (34%), Positives = 155/293 (52%), Gaps = 5/293 (1%)

Query: 39  DPNREASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFESIGGLETIKQ 98
            P+  +      +KK   +       + N          I  +  +V++E + GLE  K+
Sbjct: 3   SPSAGSGSNG-GNKKISQEEGEDNGGEDNKKLRGALSSAILSEKPNVKWEDVAGLEGAKE 61

Query: 99  ALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN 158
           AL E VILP++ P LF   +   P  G+LLYGPPGTGK+ LAKA+A E+ + F +V  S+
Sbjct: 62  ALKEAVILPVKFPHLFKGNR--KPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSD 119

Query: 159 LMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWD 218
           L+SKW G+++KLV  +F++A + +P+IIFID+VD+  G R   + EA   +KTE +   +
Sbjct: 120 LVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMN 179

Query: 219 GFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEK-VEE 277
           G   D +  V+VL ATN P +LD AI RR  +   I +PD   R  + ++ +     V  
Sbjct: 180 GVGND-SQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVLT 238

Query: 278 NIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRL 330
             D+  L  + EG++GSD+  V K A    IR++         +       +L
Sbjct: 239 KEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATHFKDVSTEDDETRKL 291

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus} Length = 301

 Score =  242 bits (619), Expect = 5e-78
 Identities = 98/254 (38%), Positives = 146/254 (57%), Gaps = 16/254 (6%)

Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
            V +E IGGLE +K+ L ELV  P+  P+ F    +  P KGVL YGPPG GKT+LAKAI
Sbjct: 11  QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGM-TPSKGVLFYGPPGCGKTLLAKAI 69

Query: 144 AKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH 203
           A E  A FI+++   L++ WFG+++  V  +F  A +  P ++F DE+DS    R  +  
Sbjct: 70  ANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIG 129

Query: 204 EA-------LTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEI 254
           +        +  + TE     DG +T +N  V ++ ATNRP  +D AILR  RL Q   I
Sbjct: 130 DGGGAADRVINQILTEM----DGMSTKKN--VFIIGATNRPDIIDPAILRPGRLDQLIYI 183

Query: 255 GMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE 314
            +PD K R  ILK  L+   V +++D ++LA +  GF+G+DL E+C++A   +IRE ++ 
Sbjct: 184 PLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIES 243

Query: 315 ERKGKPAAAPRPLS 328
           E + +      P +
Sbjct: 244 EIRRERERQTNPSA 257

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens} Length = 274

 Score =  237 bits (607), Expect = 1e-76
 Identities = 89/274 (32%), Positives = 143/274 (52%), Gaps = 27/274 (9%)

Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
           +V +  IG LE I++ L   ++ P+R P+ F    L     GVLL GPPG GKT+LAKA+
Sbjct: 6   NVTWADIGALEDIREELTMAILAPVRNPDQFKALGL-VTPAGVLLAGPPGCGKTLLAKAV 64

Query: 144 AKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH 203
           A ESG  FI+V+   L++ + G++++ V  VF  A    P +IF DEVD+   +R   + 
Sbjct: 65  ANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRET 124

Query: 204 EA--------LTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFE 253
            A        LT M        DG    Q   V ++AATNRP  +D AILR  RL +   
Sbjct: 125 GASVRVVNQLLTEM--------DGLEARQQ--VFIMAATNRPDIIDPAILRPGRLDKTLF 174

Query: 254 IGMPDRKERAQILKVILKGEK---VEENIDFDYLA--GLCEGFTGSDLLEVCKQAAYFSI 308
           +G+P   +R  ILK I K      ++ +++ + +A    C+ +TG+DL  + ++A+  ++
Sbjct: 175 VGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICAL 234

Query: 309 RELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKT 342
           R+ +  ++ G      + +S    E+     R +
Sbjct: 235 RQEMARQKSGNEKGELK-VSHKHFEEAFKKVRSS 267

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii} Length = 285

 Score =  237 bits (606), Expect = 3e-76
 Identities = 102/240 (42%), Positives = 144/240 (60%), Gaps = 16/240 (6%)

Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAK 141
           +V +E IGGLE   Q + E+V LPL+ PELF     +G  P KG+LLYGPPGTGKT+LAK
Sbjct: 13  NVRYEDIGGLEKQMQEIREVVELPLKHPELFEK---VGIEPPKGILLYGPPGTGKTLLAK 69

Query: 142 AIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS 201
           A+A E+ A FI V  S L+ K+ G+   LV  +F LA +  P+IIFIDE+D+ +  +RT 
Sbjct: 70  AVATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDA-IAAKRTD 128

Query: 202 -----DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEI 254
                D E    +  + +A  DGF  D    V ++ ATNRP  LD AILR  R  +  E+
Sbjct: 129 ALTGGDREVQRTL-MQLLAEMDGF--DARGDVKIIGATNRPDILDPAILRPGRFDRIIEV 185

Query: 255 GMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE 314
             PD K R +ILK+  +   + E+++ + +A + EG  G++L  +C +A   +IREL D 
Sbjct: 186 PAPDEKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVGAELKAICTEAGMNAIRELRDY 245

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A* 2pjh_B Length = 489

 Score =  240 bits (615), Expect = 3e-75
 Identities = 91/251 (36%), Positives = 143/251 (56%), Gaps = 9/251 (3%)

Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAK 141
           +V ++ IGG       + E+V LPLR P LF     +G  P +G+LLYGPPGTGKT++A+
Sbjct: 200 EVGYDDIGGCRKQLAQIKEMVELPLRHPALFKA---IGVKPPRGILLYGPPGTGKTLIAR 256

Query: 142 AIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS 201
           A+A E+GA F  +    +MSK  G+++  +   F  A K  PAIIFIDE+D+   +R  +
Sbjct: 257 AVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKT 316

Query: 202 DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDR 259
             E    + ++ + L DG    Q A V+V+AATNRP+ +D A+ R  R  +  +IG+PD 
Sbjct: 317 HGEVERRIVSQLLTLMDGL--KQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDA 374

Query: 260 KERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGK 319
             R +IL++  K  K+ +++D + +A    G  G+DL  +C +AA  +IR+ +D      
Sbjct: 375 TGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLED 434

Query: 320 PAAAPRPLSRL 330
                  ++ L
Sbjct: 435 ETIDAEVMNSL 445

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A Length = 293

 Score =  175 bits (446), Expect = 2e-52
 Identities = 48/280 (17%), Positives = 100/280 (35%), Gaps = 31/280 (11%)

Query: 90  IGGLETIKQALYELVILPLRRPELFSHGKLLG--PQKGVLLYGPPGTGKTMLAKAIAKES 147
           + G       + +LV+   +        KL        + ++G  G GK+   + + ++ 
Sbjct: 6   LDGFYIAPAFMDKLVVHITK--NFL---KLPNIKVPLILGIWGGKGQGKSFQCELVFRKM 60

Query: 148 GAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKL----QPAIIFIDEVDSFLGQRRTSD- 202
           G   I +    L S   G+  KL+   +  A ++        +FI+++D+  G+   +  
Sbjct: 61  GINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQ 120

Query: 203 --------HEALTNMKTEFMAL-WDGF-TTDQNARVMVLAATNRPSELDEAILR--RLPQ 250
                   +  L N+      +   G     +NARV ++   N  S L   ++R  R+ +
Sbjct: 121 YTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEK 180

Query: 251 AFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
            +    P R++R  +   I +     +N+  + +  + + F G  +       A     E
Sbjct: 181 FYWA--PTREDRIGVCTGIFR----TDNVPAEDVVKIVDNFPGQSIDFFGALRARVYDDE 234

Query: 311 LLDE-ERKGKPAAAPRPLSRLDLEKVLTTSRKTRVAATEY 349
           +       G      + L+  D        + T     EY
Sbjct: 235 VRKWVSGTGIEKIGDKLLNSFDGPPTFEQPKMTIEKLLEY 274

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens} Length = 262

 Score =  153 bits (388), Expect = 4e-44
 Identities = 82/242 (33%), Positives = 125/242 (51%), Gaps = 24/242 (9%)

Query: 83  IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQ--KGVLLYGPPGTGKTMLA 140
           + V F+ + G+   K  + E V   L+ PE F     LG +  KG LL GPPG GKT+LA
Sbjct: 1   MGVSFKDVAGMHEAKLEVREFVDY-LKSPERFLQ---LGAKVPKGALLLGPPGCGKTLLA 56

Query: 141 KAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRT 200
           KA+A E+   F+ +  +  +    G     V ++F  A    P I++IDE+D+   +R T
Sbjct: 57  KAVATEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRST 116

Query: 201 SDH--------EALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQ 250
           +          + L  +  E M   DG  T  +  V+VLA+TNR   LD A++R  RL +
Sbjct: 117 TMSGFSNTEEEQTLNQLLVE-M---DGMGTTDH--VIVLASTNRADILDGALMRPGRLDR 170

Query: 251 AFEIGMPDRKERAQILKVILKGEKVEENIDF--DYLAGLCEGFTGSDLLEVCKQAAYFSI 308
              I +P  +ER +I +  LK  K+ ++  F    LA L  GF+G+D+  +C +AA  + 
Sbjct: 171 HVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAA 230

Query: 309 RE 310
           RE
Sbjct: 231 RE 232

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A* Length = 268

 Score =  152 bits (387), Expect = 6e-44
 Identities = 90/245 (36%), Positives = 134/245 (54%), Gaps = 21/245 (8%)

Query: 78  INPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQ--KGVLLYGPPGTG 135
           IN +  +V F+ + G E  K+ + E+V   L+ PE +++   LG +  KGVLL GPPGTG
Sbjct: 1   INAEKPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYAN---LGAKIPKGVLLVGPPGTG 56

Query: 136 KTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFL 195
           KT+LAKA+A E+   F ++  S+ +  + G     V  +F  A K  P+IIFIDE+D+  
Sbjct: 57  KTLLAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIG 116

Query: 196 GQRRTSDH--------EALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR- 246
             R             + L  +  E M   DGF ++ NA V+VLAATNRP  LD A++R 
Sbjct: 117 KSRAAGGVVSGNDEREQTLNQLLAE-M---DGFGSE-NAPVIVLAATNRPEILDPALMRP 171

Query: 247 -RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAY 305
            R  +   +  PD   R +ILKV +KG K+  +++   +A L  G  G+DL  +  +AA 
Sbjct: 172 GRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANIINEAAL 231

Query: 306 FSIRE 310
            + R 
Sbjct: 232 LAGRN 236

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A* Length = 254

 Score =  150 bits (382), Expect = 2e-43
 Identities = 87/246 (35%), Positives = 131/246 (53%), Gaps = 23/246 (9%)

Query: 77  VINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQ--KGVLLYGPPGT 134
            +  +   V F+ + G E  K+ L E+V   L+ P  F     +G +  KGVLL GPPG 
Sbjct: 5   SVLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHE---MGARIPKGVLLVGPPGV 60

Query: 135 GKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSF 194
           GKT LA+A+A E+   FI    S+ +  + G     V  +F  A +  P I+FIDE+D+ 
Sbjct: 61  GKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDA- 119

Query: 195 LGQRRTSDH--------EALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR 246
           +G++R S          + L  +  E M   DGF  +++  ++V+AATNRP  LD A+LR
Sbjct: 120 VGRKRGSGVGGGNDEREQTLNQLLVE-M---DGF--EKDTAIVVMAATNRPDILDPALLR 173

Query: 247 --RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAA 304
             R  +   I  PD K R QIL++  +G+ + E++D   LA    GF G+DL  +  +AA
Sbjct: 174 PGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAA 233

Query: 305 YFSIRE 310
             + RE
Sbjct: 234 LLAARE 239

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A* Length = 272

 Score =  151 bits (382), Expect = 3e-43
 Identities = 46/233 (19%), Positives = 90/233 (38%), Gaps = 16/233 (6%)

Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
                 I         + +   L +++ +         P   VLL GPP +GKT LA  I
Sbjct: 29  SYIMNGIIKWGDPVTRVLDDGELLVQQTKNSDRT----PLVSVLLEGPPHSGKTALAAKI 84

Query: 144 AKESGAVFINVRISNLMSKWFGDAQ-KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD 202
           A+ES   FI +   + M  +   A+ + +  +F  AYK Q + + +D+++  L       
Sbjct: 85  AEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIER-LLDYVPIG 143

Query: 203 HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAF--EIGMPDRK 260
                 +    + L       Q  +++++  T+R   L E     +  AF   I +P+  
Sbjct: 144 PRFSNLVLQALLVLLKKAPP-QGRKLLIIGTTSRKDVLQEM---EMLNAFSTTIHVPNIA 199

Query: 261 ERAQILKVILKGEKVEENIDFDYLAGLCEG---FTGSDLLEVCKQAAYFSIRE 310
              Q+L+ +      ++  +   +A   +G   + G   L +  + +     E
Sbjct: 200 TGEQLLEALELLGNFKDK-ERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPE 251

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20 Length = 257

 Score =  149 bits (377), Expect = 1e-42
 Identities = 92/245 (37%), Positives = 132/245 (53%), Gaps = 23/245 (9%)

Query: 78  INPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQ--KGVLLYGPPGTG 135
           +  D I   F  + G +  K+ + ELV   LR P  F     LG +  KGVL+ GPPGTG
Sbjct: 2   LTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQK---LGGKIPKGVLMVGPPGTG 57

Query: 136 KTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFL 195
           KT+LAKAIA E+   F  +  S+ +  + G     V  +F  A K  P IIFIDE+D+ +
Sbjct: 58  KTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDA-V 116

Query: 196 GQRRTSD--------HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR- 246
           G++R +          + L  M  E M   DGF  + N  ++V+AATNRP  LD A+LR 
Sbjct: 117 GRQRGAGLGGGHDEREQTLNQMLVE-M---DGF--EGNEGIIVIAATNRPDVLDPALLRP 170

Query: 247 -RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAY 305
            R  +   +G+PD + R QILKV ++   +  +ID   +A    GF+G+DL  +  +AA 
Sbjct: 171 GRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAAL 230

Query: 306 FSIRE 310
           F+ R 
Sbjct: 231 FAARG 235

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20 Length = 278

 Score =  147 bits (373), Expect = 6e-42
 Identities = 87/242 (35%), Positives = 130/242 (53%), Gaps = 23/242 (9%)

Query: 81  DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQ--KGVLLYGPPGTGKTM 138
           +   V F+ + G E  K+ L E+V   L+ P  F     +G +  KGVLL GPPG GKT 
Sbjct: 33  EAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHE---MGARIPKGVLLVGPPGVGKTH 88

Query: 139 LAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQR 198
           LA+A+A E+   FI    S+ +  + G     V  +F  A +  P I+FIDE+D+ +G++
Sbjct: 89  LARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDA-VGRK 147

Query: 199 RTSDH--------EALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RL 248
           R S          + L  +  E M   DGF  +++  ++V+AATNRP  LD A+LR  R 
Sbjct: 148 RGSGVGGGNDEREQTLNQLLVE-M---DGF--EKDTAIVVMAATNRPDILDPALLRPGRF 201

Query: 249 PQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSI 308
            +   I  PD K R QIL++  +G+ + E++D   LA    GF G+DL  +  +AA  + 
Sbjct: 202 DRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAA 261

Query: 309 RE 310
           RE
Sbjct: 262 RE 263

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E* Length = 476

 Score =  136 bits (344), Expect = 6e-36
 Identities = 83/249 (33%), Positives = 133/249 (53%), Gaps = 37/249 (14%)

Query: 81  DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQ--KGVLLYGPPGTGKTM 138
            +  V F+ +GG E   + L E+V   L+ P  F+    +G +  KG+LL GPPGTGKT+
Sbjct: 9   GNKRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNR---IGARMPKGILLVGPPGTGKTL 64

Query: 139 LAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAA-----VFSLAYKLQPAIIFIDEVDS 193
           LA+A+A E+   F ++  S+ +  + G     V A     +F+ A    P I+FIDE+D+
Sbjct: 65  LARAVAGEANVPFFHISGSDFVELFVG-----VGAARVRDLFAQAKAHAPCIVFIDEIDA 119

Query: 194 FLGQRRTS----DHE----ALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAIL 245
            +G+ R +     H+     L  +  E M   DGF  D    ++V+AATNRP  LD A+L
Sbjct: 120 -VGRHRGAGLGGGHDEREQTLNQLLVE-M---DGF--DSKEGIIVMAATNRPDILDPALL 172

Query: 246 RRLPQAFE----IGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCK 301
           R  P  F+    +  PD   R +IL++  + + + E+++ + +A    GF G+DL  +  
Sbjct: 173 R--PGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVN 230

Query: 302 QAAYFSIRE 310
           +AA  + RE
Sbjct: 231 EAALLAARE 239

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus} Length = 499

 Score =  135 bits (341), Expect = 2e-35
 Identities = 88/240 (36%), Positives = 131/240 (54%), Gaps = 27/240 (11%)

Query: 85  VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQ--KGVLLYGPPGTGKTMLAKA 142
           V F+ + G E  K+ L E+V   L+ P  F     +G +  KGVLL GPPG GKT LA+A
Sbjct: 28  VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHE---MGARIPKGVLLVGPPGVGKTHLARA 83

Query: 143 IAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS- 201
           +A E+   FI    S+ +  + G     V  +F  A +  P I+FIDE+D+ +G++R S 
Sbjct: 84  VAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDA-VGRKRGSG 142

Query: 202 ---DHE----ALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFE- 253
               ++     L  +  E M   DGF  +++  ++V+AATNRP  LD A+LR  P  F+ 
Sbjct: 143 VGGGNDEREQTLNQLLVE-M---DGF--EKDTAIVVMAATNRPDILDPALLR--PGRFDR 194

Query: 254 ---IGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
              I  PD K R QIL++  +G+ + E++D   LA    GF G+DL  +  +AA  + RE
Sbjct: 195 QIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAARE 254

>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 = 80.3 bits (197), Expect = 3e-16
 Identities = 68/431 (15%), Positives = 135/431 (31%), Gaps = 102/431 (23%)

Query: 1   MVKRMGNSSETKFLQELILYAASAALSCLVLFAGLRHLDPNREASKKALEH--------- 51
           M K + +  E       I+ +  A    L LF  L  L    E  +K +E          
Sbjct: 41  MPKSILSKEEIDH----IIMSKDAVSGTLRLFWTL--LSKQEEMVQKFVEEVLRINYKFL 94

Query: 52  KKEISKRLGRPLIQTNPYE---DVIACD--VINPDHIDVEFESIGGLETIKQALYELVIL 106
              I     +P + T  Y    D +  D  V    ++      +     ++QAL EL   
Sbjct: 95  MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNV----SRLQPYLKLRQALLEL--- 147

Query: 107 PLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKE-------SGAVF-INVRISN 158
              RP            K VL+ G  G+GKT +A  +             +F +N++  N
Sbjct: 148 ---RPA-----------KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCN 193

Query: 159 LMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWD 218
                    + ++  +  L Y++ P   +    D     +      ++       +    
Sbjct: 194 -------SPETVLEMLQKLLYQIDPN--WTSRSDHSSNIKLRI--HSIQAELRRLLKSKP 242

Query: 219 GFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEEN 278
                +N  ++VL         +         AF +         +IL +  + ++V + 
Sbjct: 243 Y----ENC-LLVLLNVQNAKAWN---------AFNLS-------CKIL-LTTRFKQVTDF 280

Query: 279 IDFDY-----LAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKP------AAAPRP- 326
           +         L       T  ++  +  +      ++L  E     P      A + R  
Sbjct: 281 LSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDG 340

Query: 327 LSRLDLEKVLTTSRKTRVAATEYTLNSQSSGWSRNNESNDYQVQAAISELSRLVVSQIMN 386
           L+  D  K +   + T +   E +LN          E      + ++   S  + + +++
Sbjct: 341 LATWDNWKHVNCDKLTTI--IESSLNVLEP-----AEYRKMFDRLSVFPPSAHIPTILLS 393

Query: 387 IQ-SEPDTQDP 396
           +   +    D 
Sbjct: 394 LIWFDVIKSDV 404

>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 = 47.5 bits (112), Expect = 6e-06
 Identities = 46/347 (13%), Positives = 103/347 (29%), Gaps = 94/347 (27%)

Query: 35  LRHLDPN---REASKKALEHKKEISKRLGRPLIQTNPYED--VIACDVINPDHIDVEFES 89
           L  +DPN   R      ++ +    +   R L+++ PYE+  ++  +V N    +  F  
Sbjct: 206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNA-FN- 263

Query: 90  IGGLETI-----KQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIA 144
               + +     KQ    L         L  H   L P +           K++L K   
Sbjct: 264 -LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEV----------KSLLLK--- 309

Query: 145 KESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHE 204
                 +++ R  +L  +                    P  +      S + +       
Sbjct: 310 ------YLDCRPQDLPRE---------------VLTTNPRRL------SIIAE------- 335

Query: 205 ALTNMKTEFMALWDGF---TTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKE 261
                  + +A WD +     D+   ++  +       L+ A  R++     +  P    
Sbjct: 336 ----SIRDGLATWDNWKHVNCDKLTTIIESSLNV----LEPAEYRKMFDRLSVFPPSAHI 387

Query: 262 RAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPA 321
              +L  ++  + ++ ++    +  L +      L+E   + +  SI  +  E +     
Sbjct: 388 PTILL-SLIWFDVIKSDVM-VVVNKLHK----YSLVEKQPKESTISIPSIYLELKV---- 437

Query: 322 AAPRPLSRLDLEKVLTTSRKTRVAATEYTLNSQSSGWSRNNESND-Y 367
              +  +   L + +            Y +              D Y
Sbjct: 438 ---KLENEYALHRSIVDH---------YNIPKTFDSDDLIPPYLDQY 472

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens} Length = 86

 Score = 64.1 bits (157), Expect = 2e-13
 Identities = 15/58 (25%), Positives = 30/58 (51%)

Query: 253 EIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
               P+ + R  ILK+  +   +   I+   +A L  G +G+++  VC +A  +++RE
Sbjct: 7   HHSHPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRE 64

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A* Length = 309

 Score = 68.2 bits (166), Expect = 4e-13
 Identities = 43/246 (17%), Positives = 80/246 (32%), Gaps = 36/246 (14%)

Query: 87  FESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQK-GVLLYGPPGTGKTMLAKAIAK 145
              + GL+ +K  + E   L L        G         +   G PGTGKT +A  +A 
Sbjct: 30  DRELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAG 89

Query: 146 E-------SGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQR 198
                        ++V   +L+ ++ G        V   A      ++FIDE        
Sbjct: 90  LLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPD 146

Query: 199 RTSDH--EALTNMKTEFMALWDGFTTDQNARVMVLAA----TNRPSELDEAILRRLPQAF 252
              D+  EA+         L      +++  V++LA          + +     R+    
Sbjct: 147 NERDYGQEAIE-------ILLQVMENNRDDLVVILAGYADRMENFFQSNPGFRSRIAHHI 199

Query: 253 EIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFS----I 308
           E      +E  +I   +L  +  +  +  +    L         + + +   +F+    I
Sbjct: 200 EFPDYSDEELFEIAGHMLDDQNYQ--MTPEAETALRA------YIGLRRNQPHFANARSI 251

Query: 309 RELLDE 314
           R  LD 
Sbjct: 252 RNALDR 257

>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone, chaperone-protein binding complex; HET: DNA; 3.80A {Saccharomyces cerevisiae} PDB: 4a3v_B* Length = 88

 Score = 59.1 bits (144), Expect = 2e-11
 Identities = 19/53 (35%), Positives = 30/53 (56%)

Query: 258 DRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
           D + RA I ++  K   VE  I ++ ++ LC   TG++L  VC +A  F+IR 
Sbjct: 2   DLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRA 54

>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Homo sapiens} Length = 78

 Score = 58.3 bits (142), Expect = 2e-11
 Identities = 15/55 (27%), Positives = 30/55 (54%)

Query: 256 MPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
            P+ + R  ILK+  +   +   I+   +A L  G +G+++  VC +A  +++RE
Sbjct: 2   PPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRE 56

>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B* 2dvw_B* Length = 83

 Score = 55.8 bits (135), Expect = 2e-10
 Identities = 11/53 (20%), Positives = 27/53 (50%)

Query: 258 DRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
           DR+++  I   I     + E +D +      +  +G+D+  +C+++   ++RE
Sbjct: 2   DRRQKRLIFSTITSKMNLSEEVDLEDYVARPDKISGADINSICQESGMLAVRE 54

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20 Length = 516

 Score = 60.3 bits (146), Expect = 4e-10
 Identities = 47/254 (18%), Positives = 84/254 (33%), Gaps = 44/254 (17%)

Query: 121 GPQKGVLLYGPPGTGKTMLAKAIAKESGAVFI-----NVRISNLMSKWFGDA-------Q 168
           G  +  +LYGPPG GKT  A  +A+E G   +     +VR   L++    +A        
Sbjct: 75  GVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVG 134

Query: 169 KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARV 228
                  +     +  +I +DEVD   G     D   +     +           + +  
Sbjct: 135 YFKHNEEAQNLNGKHFVIIMDEVDGMSG----GDRGGV----GQLAQF-----CRKTSTP 181

Query: 229 MVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLC 288
           ++L    R         R      +   PD       L  I   EK +  +D + +  L 
Sbjct: 182 LILICNERNLPKMRPFDRVC-LDIQFRRPDANSIKSRLMTIAIREKFK--LDPNVIDRLI 238

Query: 289 EGFTGSDL------LEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLD----LEKVLTT 338
           +  T  D+      L         +  + ++ E   + + A      L       K+L  
Sbjct: 239 QT-TRGDIRQVINLLSTIS-----TTTKTINHENINEISKAWEKNIALKPFDIAHKMLDG 292

Query: 339 SRKTRVAATEYTLN 352
              + + +  +TLN
Sbjct: 293 QIYSDIGSRNFTLN 306

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli} Length = 447

 Score = 55.2 bits (134), Expect = 2e-08
 Identities = 32/100 (32%), Positives = 47/100 (47%), Gaps = 21/100 (21%)

Query: 107 PLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFG- 165
           PL R      G L      ++L+GPPGTGKT LA+ IA+ + A     RIS + S   G 
Sbjct: 40  PLPR--AIEAGHL----HSMILWGPPGTGKTTLAEVIARYANADVE--RISAVTS---GV 88

Query: 166 -DAQKLVAAVFSLAYKLQPAIIFIDEV--------DSFLG 196
            + ++ +          +  I+F+DEV        D+FL 
Sbjct: 89  KEIREAIERARQNRNAGRRTILFVDEVHRFNKSQQDAFLP 128

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A* Length = 456

 Score = 54.6 bits (131), Expect = 3e-08
 Identities = 52/258 (20%), Positives = 86/258 (33%), Gaps = 53/258 (20%)

Query: 92  GLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV- 150
           G E  ++A   +V       EL    K+ G  + VLL GPPGTGKT LA AIA+E G+  
Sbjct: 41  GQENAREACGVIV-------ELIKSKKMAG--RAVLLAGPPGTGKTALALAIAQELGSKV 91

Query: 151 -FINVRISNLMSKWFGDAQKLVAAVF-SLAYKLQ-PAIIFIDEVDSF-----------LG 196
            F  +  S + S      + L+     ++  +++    ++  EV               G
Sbjct: 92  PFCPMVGSEVYSTEIKKTEVLMENFRRAIGLRIKETKEVYEGEVTELTPCETENPMGGYG 151

Query: 197 QRRTSDHEALTNMKTEFMALWDGFTTDQ--------NARVMVLAATNRPSELDEAILRRL 248
           +  +     L   K       D    +            + + A +              
Sbjct: 152 KTISHVIIGLKTAKGTKQLKLDPSIFESLQKERVEAGDVIYIEANSGAVKRQGRCDTY-- 209

Query: 249 PQAFEIGMPD---------RKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEV 299
              F++   +          K++  I  V L         D D      +G  G D+L +
Sbjct: 210 ATEFDLEAEEYVPLPKGDVHKKKEIIQDVTLH--------DLDVANARPQG--GQDILSM 259

Query: 300 CKQAAYFSIRELLDEERK 317
             Q       E+ D+ R 
Sbjct: 260 MGQLMKPKKTEITDKLRG 277

>2dzn_B 26S protease regulatory subunit 6B homolog; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} PDB: 2dzo_B Length = 82

 Score = 48.9 bits (117), Expect = 5e-08
 Identities = 10/50 (20%), Positives = 21/50 (42%)

Query: 261 ERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
           ER  I   I     +    D D L    +  +G+ +  + ++A   ++R+
Sbjct: 2   ERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRK 51

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20 Length = 327

 Score = 53.1 bits (128), Expect = 5e-08
 Identities = 55/228 (24%), Positives = 84/228 (36%), Gaps = 62/228 (27%)

Query: 127 LLYGPPGTGKTMLAKAIAKE---------------SGAVFINVRISNLMSKWFGDAQKLV 171
           L  GPPG GKT  A A+A+E               S    INV I   + K F  A+   
Sbjct: 50  LFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINV-IREKV-KEF--ART-- 103

Query: 172 AAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD-HEALTNMKTEFMALWDGFTTDQNARVMV 230
             +   ++K    IIF+DE D+      T D  +AL      F +         N R ++
Sbjct: 104 KPIGGASFK----IIFLDEADAL-----TQDAQQALRRTMEMFSS---------NVRFIL 145

Query: 231 LAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCE 289
             + N  S++ E I  R    F       ++ A+ L+ I + E +E        +  + E
Sbjct: 146 --SCNYSSKIIEPIQSRC-AIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAE 202

Query: 290 G------------------FTGSDLLEVCKQAAYFSIRELLDEERKGK 319
           G                   T  ++  V  +A    IRE++    KG 
Sbjct: 203 GDMRRAINILQAAAALDKKITDENVFMVASRARPEDIREMMLLALKGN 250

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus} Length = 226

 Score = 51.8 bits (125), Expect = 6e-08
 Identities = 49/197 (24%), Positives = 68/197 (34%), Gaps = 73/197 (37%)

Query: 127 LLYGPPGTGKTMLAKAIAKE---------------SGAVFINV---RISNLMSKWFGDAQ 168
           L  GPPGTGKT  A A+A++               S    I+V   +I     K F  A+
Sbjct: 42  LFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKI-----KEF--AR 94

Query: 169 KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD-QNA- 226
              A +    +K    IIF+DE D+                    +      T D Q A 
Sbjct: 95  T--APIGGAPFK----IIFLDEADA--------------------L------TADAQAAL 122

Query: 227 -RVM---------VLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE 276
            R M         +L+  N  S + E I  R    F      ++   + L  I + E V+
Sbjct: 123 RRTMEMYSKSCRFILSC-NYVSRIIEPIQSRC-AVFRFKPVPKEAMKKRLLEICEKEGVK 180

Query: 277 ENIDFDYLAGLCEGFTG 293
             I  D L  L     G
Sbjct: 181 --ITEDGLEALIYISGG 195

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus} Length = 384

 Score = 50.9 bits (121), Expect = 3e-07
 Identities = 35/216 (16%), Positives = 64/216 (29%), Gaps = 51/216 (23%)

Query: 126 VLLYGPPGTGKTMLAKAIAKE-----------SGAVFINVRISNLMSKWFGDAQKLVAAV 174
            L  G  GTGKT ++K I  E                  V    +          L   +
Sbjct: 48  NLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKL 107

Query: 175 FSLAYKLQ------------------PAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMAL 216
              +                       AII++DEVD+ +  +R      L  +       
Sbjct: 108 TGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLV--KRRGGDIVLYQL------- 158

Query: 217 WDGFTTDQNARVMVLAATNR---PSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGE 273
                   +A + V+  +N       ++  +L  L  +      D ++   IL    +  
Sbjct: 159 -----LRSDANISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYG 213

Query: 274 KVEENID---FDYLAGLCEGFTGS--DLLEVCKQAA 304
            ++   D     Y+A +     G     + +  +AA
Sbjct: 214 LIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAA 249

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A Length = 319

 Score = 50.4 bits (121), Expect = 4e-07
 Identities = 51/242 (21%), Positives = 77/242 (31%), Gaps = 90/242 (37%)

Query: 127 LLYGPPGTGKTMLAKAIAKE---------------SGAVFINV---RISNLMSKWFGDAQ 168
           L  GPPGTGKT  A A+A++               S    I+V   +I     K F  A+
Sbjct: 42  LFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKI-----KEF--AR 94

Query: 169 KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD-QNA- 226
              A +    +K    IIF+DE D+                    +      T D Q A 
Sbjct: 95  T--APIGGAPFK----IIFLDEADA--------------------L------TADAQAAL 122

Query: 227 -RVM---------VLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE 276
            R M         +L+  N  S + E I  R    F      ++   + L  I + E V+
Sbjct: 123 RRTMEMYSKSCRFILS-CNYVSRIIEPIQSRC-AVFRFKPVPKEAMKKRLLEICEKEGVK 180

Query: 277 -ENIDFDYLAGLCEG------------------FTGSDLLEVCKQAAYFSIRELLDEERK 317
                 + L  +  G                       + ++   A    + EL+    K
Sbjct: 181 ITEDGLEALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITATARPEEMTELIQTALK 240

Query: 318 GK 319
           G 
Sbjct: 241 GN 242

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A* Length = 180

 Score = 45.1 bits (107), Expect = 8e-06
 Identities = 14/33 (42%), Positives = 15/33 (45%)

Query: 114 FSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKE 146
           F H       KG+   G PG GKT LA A  K 
Sbjct: 29  FVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKA 61

>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 Length = 353

 Score = 45.6 bits (108), Expect = 1e-05
 Identities = 38/187 (20%), Positives = 62/187 (33%), Gaps = 43/187 (22%)

Query: 126 VLLYGPPGTGKTMLAKAIAKE----------------SGAVFINV---RISNLMSKWFGD 166
           +L YGPPGTGKT    A+ KE                S    I++   ++ N        
Sbjct: 61  MLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARLTVSK 120

Query: 167 AQKLVAAVFSLA-YKLQPAIIFIDEVDSFLGQRRTSD-HEALTNMKTEFMALWDGFTTDQ 224
             K     +    YK    II +DE DS      T+D   AL      +           
Sbjct: 121 PSKHDLENYPCPPYK----IIILDEADSM-----TADAQSALRRTMETYSG--------- 162

Query: 225 NARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDF-DY 283
             R  ++   N  + + + +  +    F     D       L+ I + E V+ +    + 
Sbjct: 163 VTRFCLIC--NYVTRIIDPLASQC-SKFRFKALDASNAIDRLRFISEQENVKCDDGVLER 219

Query: 284 LAGLCEG 290
           +  +  G
Sbjct: 220 ILDISAG 226

>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* Length = 324

 Score = 45.2 bits (108), Expect = 2e-05
 Identities = 30/69 (43%), Positives = 42/69 (60%), Gaps = 13/69 (18%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISN--LMSKWFGDAQKLVAAVFSLAYKLQP 183
           +LL+GPPG GKT LA  IA E G    N+R+++   + K  GD    +AA+  LA  L+ 
Sbjct: 41  LLLFGPPGLGKTTLAHVIAHELGV---NLRVTSGPAIEK-PGD----LAAI--LANSLEE 90

Query: 184 A-IIFIDEV 191
             I+FIDE+
Sbjct: 91  GDILFIDEI 99

>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 Length = 340

 Score = 44.7 bits (106), Expect = 3e-05
 Identities = 63/272 (23%), Positives = 98/272 (36%), Gaps = 85/272 (31%)

Query: 126 VLLYGPPGTGKTMLAKAIAKE---------------SGAVFINV---RISNLMSKWFGDA 167
           +L YGPPGTGKT    A+A+E               S    I+V   +I     K F  A
Sbjct: 49  LLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQI-----KDF--A 101

Query: 168 QKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD-QNA 226
                 +FS  +K    +I +DE D+               M           T   QNA
Sbjct: 102 ST--RQIFSKGFK----LIILDEADA---------------M-----------TNAAQNA 129

Query: 227 --RVM---------VLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKV 275
             RV+          + A N   +L  A+L +    F      ++   + +  +L  EK+
Sbjct: 130 LRRVIERYTKNTRFCVLA-NYAHKLTPALLSQC-TRFRFQPLPQEAIERRIANVLVHEKL 187

Query: 276 EENIDFDYLAGLCEGFTGSDL------LEVCKQAAYFSIRELLDEERKGKPAAAPRPLSR 329
              +  +    L E   G D+      L+ CK        + + ++   +   APRP   
Sbjct: 188 --KLSPNAEKALIELSNG-DMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPRP--- 241

Query: 330 LDLEKVLTTSRKTRVAATEYTLNS--QSSGWS 359
            DL+ VL +  +       YTLN    + G +
Sbjct: 242 SDLKAVLKSILEDDWGTAHYTLNKVRSAKGLA 273

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3} Length = 308

 Score = 44.4 bits (105), Expect = 3e-05
 Identities = 14/33 (42%), Positives = 17/33 (51%)

Query: 114 FSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKE 146
           F        QKG+ LYG  G GK+ L  A+A E
Sbjct: 143 FVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHE 175

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426} Length = 202

 Score = 43.1 bits (102), Expect = 4e-05
 Identities = 13/24 (54%), Positives = 15/24 (62%)

Query: 123 QKGVLLYGPPGTGKTMLAKAIAKE 146
            KG+ L+G  G GKT L  AIA E
Sbjct: 54  MKGLYLHGSFGVGKTYLLAAIANE 77

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp} Length = 338

 Score = 44.1 bits (105), Expect = 4e-05
 Identities = 24/68 (35%), Positives = 35/68 (51%), Gaps = 12/68 (17%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRI-SNLMSKWFGDAQKLVAAVFSLAYKLQPA 184
           +L  GP G GKT LA  I+ E  A   N++  +  M +  GD    +AA+ +    L   
Sbjct: 58  ILFSGPAGLGKTTLANIISYEMSA---NIKTTAAPMIEKSGD----LAAILT---NLSEG 107

Query: 185 -IIFIDEV 191
            I+FIDE+
Sbjct: 108 DILFIDEI 115

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A* Length = 412

 Score = 44.1 bits (103), Expect = 4e-05
 Identities = 40/270 (14%), Positives = 74/270 (27%), Gaps = 50/270 (18%)

Query: 82  HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAK 141
             +     +       +AL  + +  L      S   ++         G  G GKT LAK
Sbjct: 16  DENYIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIY-----GSIGRVGIGKTTLAK 70

Query: 142 AIAKE---------SGAVFINVRISNLMS------------------KWFGDAQKLVAAV 174
              K                 V   N  +                  +       L A V
Sbjct: 71  FTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALV 130

Query: 175 FSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAAT 234
            +L  +    ++ +DE  S L    +S   A  ++ T      +  + D   R+  L   
Sbjct: 131 DNLYVENHYLLVILDEFQSML----SSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVA 186

Query: 235 NRPSELD------EAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYL---- 284
           +    L         +  ++     +     +E   IL+   +    +   +  +L    
Sbjct: 187 SDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELIS 246

Query: 285 --AGLCEGFTGSD--LLEVCKQAAYFSIRE 310
              G  +G  GS    +   K A   +   
Sbjct: 247 DVYGEDKGGDGSARRAIVALKMACEMAEAM 276

>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* Length = 334

 Score = 43.7 bits (104), Expect = 6e-05
 Identities = 26/69 (37%), Positives = 39/69 (56%), Gaps = 14/69 (20%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISN--LMSKWFGDAQKLVAAVFSLAYKLQP 183
           VLL GPPG GKT LA  IA E      N+ +++  ++ K  GD    +AA+ +    L+ 
Sbjct: 54  VLLAGPPGLGKTTLAHIIASELQT---NIHVTSGPVLVK-QGD----MAAILT---SLER 102

Query: 184 A-IIFIDEV 191
             ++FIDE+
Sbjct: 103 GDVLFIDEI 111

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20 Length = 389

 Score = 44.0 bits (103), Expect = 6e-05
 Identities = 26/185 (14%), Positives = 53/185 (28%), Gaps = 37/185 (20%)

Query: 126 VLLYGPPGTGKTMLAKAIAKE----SGAVFINVRISNLMS----------------KWFG 165
             L G PGTGKT+  + + +     + A F+ +      +                   G
Sbjct: 47  ATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRG 106

Query: 166 DAQKLVAAVF--SLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD 223
            ++    A+    L  +     + +D+                  +  E   L       
Sbjct: 107 LSRDEFLALLVEHLRERDLYMFLVLDDAF----NLAPDILSTFIRLGQEADKL------- 155

Query: 224 QNARVMVLAATNR---PSELDEAILRRLPQAFEIGMP-DRKERAQILKVILKGEKVEENI 279
              R+ ++   +     + LD +    + +      P  + +   IL    K    E + 
Sbjct: 156 GAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSY 215

Query: 280 DFDYL 284
             D L
Sbjct: 216 SEDIL 220

>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 Length = 543

 Score = 42.9 bits (102), Expect = 1e-04
 Identities = 33/86 (38%), Positives = 43/86 (50%), Gaps = 22/86 (25%)

Query: 74  ACDVINPDHIDVEFESIGGLETIKQALYE-LVILPLRRPELFSHGKLLGPQKGVL-LYGP 131
           A  +++ +H         GLE +K+ + E L +  L          L GP   +L L GP
Sbjct: 75  AGRLLDEEHH--------GLEKVKERILEYLAVQKLT-------KSLKGP---ILCLAGP 116

Query: 132 PGTGKTMLAKAIAKESGAVFINVRIS 157
           PG GKT LAK+IAK  G  F  VRIS
Sbjct: 117 PGVGKTSLAKSIAKSLGRKF--VRIS 140

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus} Length = 386

 Score = 42.7 bits (100), Expect = 2e-04
 Identities = 34/219 (15%), Positives = 72/219 (32%), Gaps = 45/219 (20%)

Query: 126 VLLYGPPGTGKTMLAKAIAKE--------SGAVFINVR---------------ISNLMSK 162
           + +YG  GTGKT + K +  +           V+IN R               +   +  
Sbjct: 48  IFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPF 107

Query: 163 WFGDAQKLVAAVFS-LAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT 221
                 +L   +   +       +I +DE+D+F+ +        L+ + +E         
Sbjct: 108 TGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEV-------- 159

Query: 222 TDQNARVMVLAATNR---PSELDEAILRRLPQAFEIGMP-DRKERAQILKVILKGEKVEE 277
               +++  +  TN       LD  +   L +   I  P + +E   IL    +      
Sbjct: 160 --NKSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPG 217

Query: 278 NIDFDYLAGLCEGFTGSD------LLEVCKQAAYFSIRE 310
            +  + +  LC      +       L++ + +   + R 
Sbjct: 218 VLPDNVIK-LCAALAAREHGDARRALDLLRVSGEIAERM 255

>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* Length = 310

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 29/102 (28%), Positives = 45/102 (44%), Gaps = 11/102 (10%)

Query: 98  QALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS 157
            AL        RR +L    +     K +L+ GP G GKT +A+ +AK + A FI V  +
Sbjct: 29  IALRNR----WRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEAT 84

Query: 158 NLM-SKWFGD--AQKLV----AAVFSLAYKLQPAIIFIDEVD 192
                 + G      +     +A  ++    Q  I+FIDE+D
Sbjct: 85  KFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEID 126

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli} Length = 500

 Score = 41.7 bits (98), Expect = 3e-04
 Identities = 8/20 (40%), Positives = 13/20 (65%)

Query: 126 VLLYGPPGTGKTMLAKAIAK 145
           V L GPPG  K+++A+ +  
Sbjct: 44  VFLLGPPGIAKSLIARRLKF 63

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G Length = 350

 Score = 41.3 bits (97), Expect = 3e-04
 Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 14/58 (24%)

Query: 87  FESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIA 144
           F +I G E +K AL    + P                 GVL++G  GTGK+   +A+A
Sbjct: 23  FSAIVGQEDMKLALLLTAVDPGIG--------------GVLVFGDRGTGKSTAVRALA 66

>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} Length = 193

 Score = 39.1 bits (91), Expect = 9e-04
 Identities = 9/33 (27%), Positives = 17/33 (51%)

Query: 120 LGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFI 152
           +     +++ G P TGKT L++A+A       +
Sbjct: 2   MQTPALIIVTGHPATGKTTLSQALATGLRLPLL 34

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	396
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	100.0
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	100.0
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	100.0
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	100.0
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	100.0
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	100.0
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	100.0
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	100.0
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	100.0
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	100.0
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	100.0
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	100.0
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	100.0
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	100.0
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	100.0
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	100.0
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	100.0
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	100.0
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	100.0
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	100.0
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	100.0
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	100.0
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	100.0
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	100.0
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	100.0
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	99.98
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	99.97
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	99.97
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	99.93
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	99.89
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	99.89
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	99.87
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	99.85
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	99.85
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	99.83
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	99.81
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	99.81
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	99.8
3pvs_A	447	Replication-associated recombination protein A; ma	99.8
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	99.79
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.79
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	99.79
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	99.79
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	99.78
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.77
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	99.77
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	99.76
3bos_A	242	Putative DNA replication factor; P-loop containing	99.76
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.76
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.76
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	99.75
2r44_A	331	Uncharacterized protein; putative ATPase, structur	99.75
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	99.75
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.75
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	99.74
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	99.73
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	99.73
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	99.72
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.72
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.71
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.7
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	99.7
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	99.7
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	99.7
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	99.69
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.69
2chq_A	319	Replication factor C small subunit; DNA-binding pr	99.69
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	99.69
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.68
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	99.68
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	99.66
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	99.64
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	99.63
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	99.62
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	99.61
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	99.59
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	99.57
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	99.56
3co5_A	143	Putative two-component system transcriptional RES	99.55
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	99.51
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	99.44
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.44
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	99.43
2krk_A	86	26S protease regulatory subunit 8; structural geno	99.4
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	99.4
3kw6_A	78	26S protease regulatory subunit 8; structural geno	99.37
1ny5_A	387	Transcriptional regulator (NTRC family); AAA+ ATPa	99.32
3vlf_B	88	26S protease regulatory subunit 7 homolog; heat re	99.27
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	99.24
3aji_B	83	S6C, proteasome (prosome, macropain) 26S subunit,	99.22
3dzd_A	368	Transcriptional regulator (NTRC family); sigma43 a	99.18
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	99.14
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	99.08
2fna_A	357	Conserved hypothetical protein; structural genomic	99.07
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	99.05
3f8t_A	506	Predicted ATPase involved in replication control,	99.04
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.03
2dzn_B	82	26S protease regulatory subunit 6B homolog; ankyri	98.97
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	98.92
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	98.87
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	98.84
1tue_A	212	Replication protein E1; helicase, replication, E1E	98.77
2qgz_A	308	Helicase loader, putative primosome component; str	98.74
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.61
3vkg_A	3245	Dynein heavy chain, cytoplasmic; AAA+ protein, mol	98.48
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	98.46
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	98.45
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	98.44
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	98.37
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	98.16
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	98.1
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	98.09
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.98
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	97.97
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.91
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.89
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.89
1xp8_A	366	RECA protein, recombinase A; recombination, radior	97.88
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	97.84
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	97.82
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	97.79
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	97.79
1u94_A	356	RECA protein, recombinase A; homologous recombinat	97.79
2z43_A	324	DNA repair and recombination protein RADA; archaea	97.79
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.75
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.74
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.74
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.7
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	97.67
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.64
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	97.61
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.59
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.59
2iut_A	574	DNA translocase FTSK; nucleotide-binding, chromoso	97.59
3io5_A	333	Recombination and repair protein; storage dimer, i	97.58
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.57
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	97.56
1via_A	175	Shikimate kinase; structural genomics, transferase	97.56
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.56
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	97.54
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	97.54
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.53
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.5
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	97.5
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	97.5
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	97.49
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	97.49
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.48
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	97.47
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.47
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.46
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	97.45
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	97.44
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.43
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.43
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	97.42
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	97.42
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	97.41
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	97.41
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.41
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.39
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	97.39
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	97.37
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	97.37
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.37
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	97.37
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	97.37
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.36
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.35
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.34
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	97.34
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	97.33
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.33
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.33
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	97.33
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	97.33
2vli_A	183	Antibiotic resistance protein; transferase, tunica	97.32
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.32
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.31
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.3
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	97.3
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	97.28
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	97.28
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	97.25
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	97.25
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	97.24
2r6a_A	454	DNAB helicase, replicative helicase; replication,	97.24
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	97.19
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	97.19
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	97.18
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.18
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	97.17
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.15
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	97.14
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	97.13
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.12
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	97.11
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	97.11
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.1
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	97.1
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.08
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	97.07
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.07
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.06
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	97.05
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	97.03
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	97.03
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.02
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	97.01
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	97.0
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	97.0
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.99
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.98
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.98
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	96.97
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.95
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.93
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.93
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.92
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.89
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.87
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.84
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.83
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.82
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.81
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.8
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	96.78
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.75
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.75
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.74
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.73
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.71
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.7
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	96.69
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.67
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.67
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.65
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.65
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.62
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.62
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	96.61
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	96.61
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.6
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	96.58
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.58
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	96.55
4b3f_X	646	DNA-binding protein smubp-2; hydrolase, helicase;	96.51
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	96.48
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.47
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.46
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	96.4
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.4
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.39
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.38
3b6e_A	216	Interferon-induced helicase C domain-containing P;	96.37
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.35
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	96.33
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.33
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.32
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.3
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.26
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	96.24
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	96.21
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	96.21
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	96.19
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	96.17
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.17
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.13
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	96.13
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.12
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.1
2xxa_A	433	Signal recognition particle protein; protein trans	96.09
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.08
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	96.07
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.02
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	96.01
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	95.99
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.98
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	95.97
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	95.97
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.95
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	95.95
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.94
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	95.93
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.93
1w4r_A	195	Thymidine kinase; type II, human, cytosolic, phosp	95.92
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.9
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	95.88
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.86
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	95.84
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	95.82
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	95.81
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	95.79
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.79
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	95.76
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	95.61
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	95.6
2og2_A	359	Putative signal recognition particle receptor; nuc	95.59
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	95.56
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	95.54
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.52
4i1u_A	210	Dephospho-COA kinase; structural genomics, niaid,	95.46
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	95.46
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	95.45
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.44
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	95.42
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.42
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.41
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.41
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	95.4
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	95.4
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	95.29
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	95.27
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	95.26
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	95.26
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	95.25
3ice_A	422	Transcription termination factor RHO; transcriptio	95.24
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	95.21
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	95.18
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	95.17
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.17
1b0u_A	262	Histidine permease; ABC transporter, transport pro	95.12
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	95.08
2ged_A	193	SR-beta, signal recognition particle receptor beta	95.07
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	95.04
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	95.01
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.0
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	95.0
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.0
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	94.99
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	94.97
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	94.97
1sgw_A	214	Putative ABC transporter; structural genomics, P p	94.94
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	94.94
2ghi_A	260	Transport protein; multidrug resistance protein, M	94.93
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	94.89
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	94.85
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	94.85
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	94.84
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	94.84
1g6h_A	257	High-affinity branched-chain amino acid transport	94.84
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	94.84
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	94.83
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	94.83
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	94.82
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	94.82
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	94.82
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	94.8
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	94.8
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	94.79
1ji0_A	240	ABC transporter; ATP binding protein, structural g	94.78
2gk6_A	624	Regulator of nonsense transcripts 1; UPF1, helicas	94.78
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	94.77
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	94.77
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	94.76
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	94.75
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	94.75
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	94.74
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	94.73
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	94.73
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	94.73
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	94.72
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	94.7
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	94.67
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	94.67
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	94.65
2orv_A	234	Thymidine kinase; TP4A (P1-(5'-adenosyl)P4-(5'- (2	94.65
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	94.64
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.61
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	94.6
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	94.59
1nrj_B	218	SR-beta, signal recognition particle receptor beta	94.59
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	94.54
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	94.54
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	94.53
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	94.52
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	94.48
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	94.48
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	94.42
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	94.39
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	94.37
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	94.36
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	94.34
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	94.29
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	94.29
2wji_A	165	Ferrous iron transport protein B homolog; membrane	94.28
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	94.26
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	94.21
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	94.2
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	94.2
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	94.19
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	94.18
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	94.17
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	94.15
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	94.13
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	94.13
1ko7_A	314	HPR kinase/phosphatase; protein kinase, phosphotra	94.1
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	94.1
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	94.09
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	94.07
2wjy_A	800	Regulator of nonsense transcripts 1; nonsense medi	94.04
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	94.04
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	94.02
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	94.0
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	94.0
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	93.96
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	93.95
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	93.94
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	93.88
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	93.88
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	93.87
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	93.84
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	93.82
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	93.82
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	93.8
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	93.79
2hf9_A	226	Probable hydrogenase nickel incorporation protein	93.78
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	93.78
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	93.78
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	93.76
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	93.72
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	93.71
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	93.71
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	93.7
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	93.66
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	93.64
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	93.63
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	93.62
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	93.59
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	93.59
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	93.58
1knx_A	312	Probable HPR(Ser) kinase/phosphatase; HPR kinase,	93.56
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	93.56
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	93.55
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	93.54
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	93.54
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	93.51
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	93.5
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	93.5
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	93.49
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	93.48
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	93.46
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	93.45
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	93.41
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	93.4
2xzl_A	802	ATP-dependent helicase NAM7; hydrolase-RNA complex	93.38
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	93.38
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	93.37
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	93.37
2o8b_B	1022	DNA mismatch repair protein MSH6; DNA damage respo	93.35
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	93.34
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	93.33
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	93.33
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	93.32
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	93.32
1oyw_A	523	RECQ helicase, ATP-dependent DNA helicase; winged	93.32
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	93.3
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	93.3
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	93.27
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	93.25
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	93.24
3h1t_A	590	Type I site-specific restriction-modification syst	93.24
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	93.23
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	93.19
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	93.19
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	93.18
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	93.18
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	93.14
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	93.13
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	93.11
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	93.07
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	93.04
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	93.03
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	93.03
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	93.03
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	93.02
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	93.01
1dek_A	241	Deoxynucleoside monophosphate kinase; transferase,	93.0
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	92.99
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	92.99
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	92.98
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	92.98
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	92.97
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	92.95
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	92.94
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	92.93
1gm5_A	780	RECG; helicase, replication restart; HET: DNA ADP;	92.93
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	92.93
4ddu_A	1104	Reverse gyrase; topoisomerase, DNA supercoiling, a	92.92
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	92.9
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	92.89
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	92.88
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	92.85
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	92.83
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	92.8
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	92.79
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	92.77
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	92.74
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	92.74
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	92.72

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=3.9e-51  Score=393.23  Aligned_cols=247  Identities=32%  Similarity=0.573  Sum_probs=228.5

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.|+++|+||+|++++|++|++.+.+|+.+|++|...+ +.+|+|+|||||||||||++|+++|++++.+|+.++++++.
T Consensus       141 ~~p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~g-i~~prGvLL~GPPGTGKTllAkAiA~e~~~~f~~v~~s~l~  219 (405)
T 4b4t_J          141 KVPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLG-IAQPKGVILYGPPGTGKTLLARAVAHHTDCKFIRVSGAELV  219 (405)
T ss_dssp             CSCSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHT-CCCCCCEEEESCSSSSHHHHHHHHHHHHTCEEEEEEGGGGS
T ss_pred             CCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCC-CCCCCceEEeCCCCCCHHHHHHHHHHhhCCCceEEEhHHhh
Confidence            46789999999999999999999999999999999864 78899999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCc---hHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD---HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~---~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      ++|.|++++.++.+|..|+..+||||||||+|.+++++....   .....+.+++++..+|++..  ..+++||+|||+|
T Consensus       220 sk~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~--~~~V~vIaATNrp  297 (405)
T 4b4t_J          220 QKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFET--SKNIKIIMATNRL  297 (405)
T ss_dssp             CSSTTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTC--CCCEEEEEEESCS
T ss_pred             ccccchHHHHHHHHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccCC--CCCeEEEeccCCh
Confidence            999999999999999999999999999999999998875432   33456788899999999865  5679999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +.+|++++|  ||+..|+|++|+.++|.+||+.++++.++..+++++.+|+.|+||||+||.++|++|++.|+++.    
T Consensus       298 d~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvdl~~lA~~t~G~SGADi~~l~~eA~~~Air~~----  373 (405)
T 4b4t_J          298 DILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGINLRKVAEKMNGCSGADVKGVCTEAGMYALRER----  373 (405)
T ss_dssp             SSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHTT----
T ss_pred             hhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCccCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHcC----
Confidence            999999999  99999999999999999999999999999899999999999999999999999999999998762    


Q ss_pred             hcCCCCCCCCCCCHHHHHHHHHhcccc
Q 016044          316 RKGKPAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                              ...|+++||+.|++++.+.
T Consensus       374 --------~~~vt~~Df~~Al~~v~~~  392 (405)
T 4b4t_J          374 --------RIHVTQEDFELAVGKVMNK  392 (405)
T ss_dssp             --------CSBCCHHHHHHHHHHHHHH
T ss_pred             --------CCCcCHHHHHHHHHHHhCc
Confidence                    2569999999999987554

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=8.4e-50  Score=384.68  Aligned_cols=247  Identities=32%  Similarity=0.563  Sum_probs=227.9

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.|+++|+||+|++++|++|++.+.+|+.+|+.|...+ ..+|+|+|||||||||||++|+++|++++.+|+.++++++.
T Consensus       175 ~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~G-i~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s~l~  253 (437)
T 4b4t_I          175 KSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMG-IKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGSELI  253 (437)
T ss_dssp             SSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHT-CCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESGGGC
T ss_pred             cCCCCcceecCcHHHHHHHHHHHHHHHHhCHHHHHhCC-CCCCCCCceECCCCchHHHHHHHHHHHhCCCEEEEEHHHhh
Confidence            45789999999999999999999999999999999865 78899999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCc---hHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD---HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~---~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      ++|+|++++.++.+|..|+..+||||||||+|.+++.+....   .....+.+.+++..+|++..  ..+++||+|||+|
T Consensus       254 sk~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~--~~~ViVIaATNrp  331 (437)
T 4b4t_I          254 QKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDD--RGDVKVIMATNKI  331 (437)
T ss_dssp             CSSSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCC--SSSEEEEEEESCS
T ss_pred             hccCchHHHHHHHHHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcCC--CCCEEEEEeCCCh
Confidence            999999999999999999999999999999999998875332   23456677899999998865  5679999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +.||++++|  ||+..|+|++|+.++|.+||+.++++..+..+++++.+|..|+||||+||.++|++|++.|+++.    
T Consensus       332 d~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvdl~~LA~~T~GfSGADI~~l~~eA~~~Air~~----  407 (437)
T 4b4t_I          332 ETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVNLETLVTTKDDLSGADIQAMCTEAGLLALRER----  407 (437)
T ss_dssp             TTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHTT----
T ss_pred             hhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcC----
Confidence            999999999  99999999999999999999999999999899999999999999999999999999999999762    


Q ss_pred             hcCCCCCCCCCCCHHHHHHHHHhcccc
Q 016044          316 RKGKPAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                              ...|+++||..|++++.++
T Consensus       408 --------~~~It~eDf~~Al~rv~~~  426 (437)
T 4b4t_I          408 --------RMQVTAEDFKQAKERVMKN  426 (437)
T ss_dssp             --------CSCBCHHHHHHHHHHHHHH
T ss_pred             --------CCccCHHHHHHHHHHHhCC
Confidence                    1569999999999988766

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=3.6e-49  Score=385.18  Aligned_cols=248  Identities=33%  Similarity=0.581  Sum_probs=229.0

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.|+++|+||+|++++|++|++.+.+|+.+|+.|...+ ..+|+|+|||||||||||++|+++|++++.+|+.++++++.
T Consensus       174 ~~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g-~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~~v~~s~l~  252 (434)
T 4b4t_M          174 EKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMG-IRAPKGALMYGPPGTGKTLLARACAAQTNATFLKLAAPQLV  252 (434)
T ss_dssp             SSCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHC-CCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGGC
T ss_pred             CCCCCChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCC-CCCCCeeEEECcCCCCHHHHHHHHHHHhCCCEEEEehhhhh
Confidence            45789999999999999999999999999999998865 78899999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCch---HHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH---EALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~---~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      ++|.|++++.++.+|..|+..+||||||||+|.+++++.....   ....+.+.+++..++++..  ..+|+||+|||+|
T Consensus       253 ~~~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~--~~~ViVIaaTNrp  330 (434)
T 4b4t_M          253 QMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSS--DDRVKVLAATNRV  330 (434)
T ss_dssp             SSCSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCS--SCSSEEEEECSSC
T ss_pred             hcccchHHHHHHHHHHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhccCC--CCCEEEEEeCCCc
Confidence            9999999999999999999999999999999999988865443   2345677889999999875  5679999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +.||++++|  ||+..|+|++|+.++|.+||+.++++..+..+++++.||+.|+||||+||.++|++|++.|+++.    
T Consensus       331 ~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvdl~~lA~~t~G~sGADi~~l~~eA~~~a~r~~----  406 (434)
T 4b4t_M          331 DVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDINWQELARSTDEFNGAQLKAVTVEAGMIALRNG----  406 (434)
T ss_dssp             CCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCCHHHHHHHCSSCCHHHHHHHHHHHHHHHHHHT----
T ss_pred             hhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCcCCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcC----
Confidence            999999999  99999999999999999999999999988899999999999999999999999999999999862    


Q ss_pred             hcCCCCCCCCCCCHHHHHHHHHhcccch
Q 016044          316 RKGKPAAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                              ...|+.+||..|+++++++.
T Consensus       407 --------~~~i~~~Df~~Al~~v~~~~  426 (434)
T 4b4t_M          407 --------QSSVKHEDFVEGISEVQARK  426 (434)
T ss_dssp             --------CSSBCHHHHHHHHHSCSSSC
T ss_pred             --------CCCcCHHHHHHHHHHHhCCC
Confidence                    15699999999999998873

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=2.5e-48  Score=377.98  Aligned_cols=247  Identities=36%  Similarity=0.619  Sum_probs=227.2

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.|+++|+||+|++++|++|++.+.+|+.+|+.|...+ +.+|+|+|||||||||||++|+++|++++.+|+.++++++.
T Consensus       202 e~P~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~G-i~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L~  280 (467)
T 4b4t_H          202 EKPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLG-IDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSELV  280 (467)
T ss_dssp             SSCSCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHT-CCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGGC
T ss_pred             CCCCCCHHHhccHHHHHHHHHHHHHHHhcCHHHHHHCC-CCCCCceEeeCCCCCcHHHHHHHHHhccCCCeEEEEhHHhh
Confidence            46789999999999999999999999999999998864 78899999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCc---hHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD---HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~---~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      ++|+|++++.++.+|..|+..+||||||||+|.++.++....   .....+.+.+++..+++...  ..+++||+|||+|
T Consensus       281 sk~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~--~~~ViVIaATNrp  358 (467)
T 4b4t_H          281 QKYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDP--RGNIKVMFATNRP  358 (467)
T ss_dssp             CCSSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCC--TTTEEEEEECSCT
T ss_pred             cccCCHHHHHHHHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCC--CCcEEEEeCCCCc
Confidence            999999999999999999999999999999999998875432   33455677889999998764  5679999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +.||++++|  ||+..|+|++|+.++|.+||+.++++..+..+++++.||+.|+||||+||.++|++|++.|+++.    
T Consensus       359 d~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvdl~~LA~~T~GfSGADI~~l~~eAa~~Air~~----  434 (467)
T 4b4t_H          359 NTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRAR----  434 (467)
T ss_dssp             TSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHT----
T ss_pred             ccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHcC----
Confidence            999999999  99999999999999999999999999999899999999999999999999999999999999862    


Q ss_pred             hcCCCCCCCCCCCHHHHHHHHHhcccc
Q 016044          316 RKGKPAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                              ...|+++||..|++++.+.
T Consensus       435 --------~~~it~~Df~~Al~kV~~g  453 (467)
T 4b4t_H          435 --------RKVATEKDFLKAVDKVISG  453 (467)
T ss_dssp             --------CSSBCHHHHHHHHHHHHHH
T ss_pred             --------CCccCHHHHHHHHHHHhcC
Confidence                    1569999999999987543

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=6e-49  Score=383.93  Aligned_cols=247  Identities=36%  Similarity=0.641  Sum_probs=227.4

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.|+++|+||+|++++|++|++.+.+|+.+|++|...+ +.+|+|+|||||||||||++|+++|++++.+|+.++++++.
T Consensus       174 ~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g-~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~~~v~~s~l~  252 (437)
T 4b4t_L          174 EQGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVG-IKPPKGVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIV  252 (437)
T ss_dssp             ESCSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHC-CCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEEEEEGGGTC
T ss_pred             cCCCCChhHhCChHHHHHHHHHHHHHHHhCHHHHHhCC-CCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehhhhc
Confidence            35789999999999999999999999999999999865 78899999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCc---hHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD---HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~---~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      ++|.|++++.++.+|..|+..+||||||||+|.+++++....   .....+.+.+|+..+|++..  ..+++||+|||+|
T Consensus       253 sk~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~--~~~vivI~ATNrp  330 (437)
T 4b4t_L          253 DKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDN--LGQTKIIMATNRP  330 (437)
T ss_dssp             CSSSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSC--TTSSEEEEEESST
T ss_pred             cccchHHHHHHHHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhcccC--CCCeEEEEecCCc
Confidence            999999999999999999999999999999999998874432   33456678899999999875  5679999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +.||++++|  ||+..|+|++|+.++|.+||+.++++.....++|+..+|+.|+||||+||.++|++|++.|+++.    
T Consensus       331 ~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~dl~~lA~~t~G~sGADi~~l~~eA~~~air~~----  406 (437)
T 4b4t_L          331 DTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDFEAAVKMSDGFNGADIRNCATEAGFFAIRDD----  406 (437)
T ss_dssp             TSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCCHHHHHHTCCSCCHHHHHHHHHHHHHHHHHTT----
T ss_pred             hhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCcccCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcC----
Confidence            999999998  69999999999999999999999999988889999999999999999999999999999998752    


Q ss_pred             hcCCCCCCCCCCCHHHHHHHHHhcccc
Q 016044          316 RKGKPAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                              ...|+.+||..|++++.+.
T Consensus       407 --------~~~i~~~d~~~Al~~v~~~  425 (437)
T 4b4t_L          407 --------RDHINPDDLMKAVRKVAEV  425 (437)
T ss_dssp             --------CSSBCHHHHHHHHHHHHHT
T ss_pred             --------CCCCCHHHHHHHHHHHHhc
Confidence                    1569999999999988765

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=100.00  E-value=2e-49  Score=412.28  Aligned_cols=300  Identities=33%  Similarity=0.554  Sum_probs=272.4

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      ..+.++|+||+|+++++++|++.+.+|+.+|++|...+ ..+|+|||||||||||||++|+++|++++.+|+.++++++.
T Consensus       197 ~~~~v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g-~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~  275 (806)
T 3cf2_A          197 SLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIG-VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM  275 (806)
T ss_dssp             CSSSCCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCC-CCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHH
T ss_pred             cCCCCChhhhcCHHHHHHHHHHHHHHHccCHHHHhhcC-CCCCCeEEEECCCCCCHHHHHHHHHHHhCCeEEEEEhHHhh
Confidence            45679999999999999999999999999999999865 78899999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSEL  240 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l  240 (396)
                      +++.|++++.++.+|..|+.++||||||||+|.+++++.....+...+++++|+..|+++..  ..+|+||++||+++.+
T Consensus       276 sk~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~--~~~V~VIaaTN~~d~L  353 (806)
T 3cf2_A          276 SKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQ--RAHVIVMAATNRPNSI  353 (806)
T ss_dssp             SSCTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCG--GGCEEEEEECSSTTTS
T ss_pred             cccchHHHHHHHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccc--cCCEEEEEecCChhhc
Confidence            99999999999999999999999999999999999988777777778899999999999875  5679999999999999


Q ss_pred             cHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 016044          241 DEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKG  318 (396)
Q Consensus       241 ~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~  318 (396)
                      |++++|  ||+..|+++.|+..+|.+||+.++++..+..++++..+|..|.||+|+||..+|++|++.|+++........
T Consensus       354 D~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvdl~~lA~~T~GfsgaDL~~Lv~eA~~~A~~r~~~~i~~~  433 (806)
T 3cf2_A          354 DPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLE  433 (806)
T ss_dssp             CTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHHHHHGGGT
T ss_pred             CHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcccccccc
Confidence            999999  999999999999999999999999999888999999999999999999999999999999999976554322


Q ss_pred             CCCC-----CCCCCCHHHHHHHHHhcccchhhhhhhhccCCCCCccccCCCccHhHHHHHHHHHHHHHHHHhccCCCCCC
Q 016044          319 KPAA-----APRPLSRLDLEKVLTTSRKTRVAATEYTLNSQSSGWSRNNESNDYQVQAAISELSRLVVSQIMNIQSEPDT  393 (396)
Q Consensus       319 ~~~~-----~~~~i~~~d~~~al~~~~~~~~~~~~~~~~~~~~~w~di~~~~~~~~~~~L~ei~~~~~~~~~~~~~~~~~  393 (396)
                      ....     ....++.+||..|++.++|+  .........|+++|+|++|++  ++++.|.|+       +.||..+|..
T Consensus       434 ~~~~~~e~~~~~~v~~~Df~~Al~~~~ps--~~r~~~~~~p~v~w~diggl~--~~k~~l~e~-------v~~p~~~p~~  502 (806)
T 3cf2_A          434 DETIDAEVMNSLAVTMDDFRWALSQSNPS--ALRETVVEVPQVTWEDIGGLE--DVKRELQEL-------VQYPVEHPDK  502 (806)
T ss_dssp             CCCCSHHHHHHCEECTTHHHHHHSSSSCC--CCCCCCCBCCCCCSTTCCSCH--HHHHHHTTT-------TTTTTTCSGG
T ss_pred             ccccchhhhccceeeHHHHHHHHHhCCCc--ccccccccCCCCCHHHhCCHH--HHHHHHHHH-------HHhhhhCHHH
Confidence            2111     23568899999999999998  566667789999999999999  888888887       7899999887


Q ss_pred             C
Q 016044          394 Q  394 (396)
Q Consensus       394 ~  394 (396)
                      |
T Consensus       503 f  503 (806)
T 3cf2_A          503 F  503 (806)
T ss_dssp             G
T ss_pred             H
Confidence            6

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=100.00  E-value=1.6e-47  Score=373.42  Aligned_cols=244  Identities=36%  Similarity=0.593  Sum_probs=224.8

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.|+++|+||+|++++|++|++.+.+|+.+|+.|...+ ..+|+|+|||||||||||++|+++|++++.+|+.++++++.
T Consensus       165 ~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g-~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~~l~  243 (428)
T 4b4t_K          165 EKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIG-IDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSEFV  243 (428)
T ss_dssp             SSCSCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHC-CCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGGGTC
T ss_pred             CCCCCCHHHhccHHHHHHHHHHHHHHHHhCHHHHHhCC-CCCCceEEEECCCCCCHHHHHHHHHHHhCCCeEEEecchhh
Confidence            45789999999999999999999999999999999865 78899999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCC---chHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS---DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      ++|.|++++.++.+|..|+...||||||||+|.+++.+...   ......+++++|+..+||+..  ..+++||+|||+|
T Consensus       244 ~~~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~--~~~v~vI~aTN~~  321 (428)
T 4b4t_K          244 HKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQ--STNVKVIMATNRA  321 (428)
T ss_dssp             CSSCSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCS--SCSEEEEEEESCS
T ss_pred             ccccchhHHHHHHHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCCC--CCCEEEEEecCCh
Confidence            99999999999999999999999999999999999887432   234556788999999999875  5579999999999


Q ss_pred             CCCcHHHHh--ccCCceEeC-CCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIG-MPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE  314 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~-~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~  314 (396)
                      +.+|++++|  ||+..|+|| +|+.++|..||+.++++..+..+++++.+|..|+||||+||.++|++|++.|+++.   
T Consensus       322 ~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~dl~~lA~~t~G~sgadi~~l~~eA~~~a~r~~---  398 (428)
T 4b4t_K          322 DTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKN---  398 (428)
T ss_dssp             SSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCCHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTT---
T ss_pred             hhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCcccCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCC---
Confidence            999999999  999999996 89999999999999999998899999999999999999999999999999999862   


Q ss_pred             HhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          315 ERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       315 ~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                               ...|+++||+.|+...
T Consensus       399 ---------~~~i~~~d~~~A~~~~  414 (428)
T 4b4t_K          399 ---------RYVILQSDLEEAYATQ  414 (428)
T ss_dssp             ---------CSSBCHHHHHHHHHHH
T ss_pred             ---------CCCCCHHHHHHHHHHh
Confidence                     1569999999999764

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=100.00  E-value=6.6e-46  Score=385.91  Aligned_cols=262  Identities=37%  Similarity=0.658  Sum_probs=194.6

Q ss_pred             CCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044           80 PDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus        80 ~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      ...++++|++|+|++++|+.|.+.+.+|+.+|+.|...+ ..+++|+|||||||||||++|+++|++++.+|+.++++++
T Consensus       469 ~~~p~v~w~diggl~~~k~~l~e~v~~p~~~p~~f~~~g-~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l  547 (806)
T 3cf2_A          469 VEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFG-MTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPEL  547 (806)
T ss_dssp             CBCCCCCSTTCCSCHHHHHHHTTTTTTTTTCSGGGSSSC-CCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHH
T ss_pred             ccCCCCCHHHhCCHHHHHHHHHHHHHhhhhCHHHHHhcC-CCCCceEEEecCCCCCchHHHHHHHHHhCCceEEeccchh
Confidence            356789999999999999999999999999999998865 7789999999999999999999999999999999999999


Q ss_pred             cchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCC---CchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC
Q 016044          160 MSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRT---SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR  236 (396)
Q Consensus       160 ~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~---~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~  236 (396)
                      .++|+|++++.++.+|..|+...||||||||+|.+++.|..   .......+++++|+.+||++..  ..+|+||+|||+
T Consensus       548 ~s~~vGese~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~--~~~V~vi~aTN~  625 (806)
T 3cf2_A          548 LTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST--KKNVFIIGATNR  625 (806)
T ss_dssp             HTTTCSSCHHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCS--SSSEEEECC-CC
T ss_pred             hccccchHHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCC--CCCEEEEEeCCC
Confidence            99999999999999999999999999999999999988753   2345677899999999999875  567999999999


Q ss_pred             CCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHH
Q 016044          237 PSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE  314 (396)
Q Consensus       237 ~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~  314 (396)
                      |+.||++++|  ||++.+++++|+.++|.+||+.++++.++..+++++.||+.|+||||+||.++|++|++.|+++.++.
T Consensus       626 p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l~~~~~~~~~dl~~la~~t~g~SGadi~~l~~~A~~~a~r~~~~~  705 (806)
T 3cf2_A          626 PDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIES  705 (806)
T ss_dssp             SSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTSSCC--CCC----------------CHHHHHHHHHHHHHHHHHC-
T ss_pred             chhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999  99999999999999999999999999998899999999999999999999999999999999998654


Q ss_pred             HhcC-------------CCCCCCCCCCHHHHHHHHHhcccchh
Q 016044          315 ERKG-------------KPAAAPRPLSRLDLEKVLTTSRKTRV  344 (396)
Q Consensus       315 ~~~~-------------~~~~~~~~i~~~d~~~al~~~~~~~~  344 (396)
                      ....             ......++|+++||+.|++.++|+..
T Consensus       706 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~df~~al~~~~pSvs  748 (806)
T 3cf2_A          706 EIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVS  748 (806)
T ss_dssp             ----------------------CCC----CCTTTC--------
T ss_pred             hhhhhhhhccCccccccccccccCccCHHHHHHHHHhCCCCCC
Confidence            2110             01123467999999999999999854

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=100.00  E-value=3.6e-41  Score=320.86  Aligned_cols=260  Identities=36%  Similarity=0.612  Sum_probs=229.9

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc-CCcEEEEecccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES-GAVFINVRISNL  159 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~-~~~~~~i~~~~l  159 (396)
                      +.++++|+||+|++++|+.|.+.+.+|+.+++.|...  ..+++++||+||||||||++|+++|+++ +.+|+.++++++
T Consensus         5 ~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~--~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~~i~~~~l   82 (322)
T 1xwi_A            5 ERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGK--RTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDL   82 (322)
T ss_dssp             ECCCCCGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTT--CCCCSEEEEESSSSSCHHHHHHHHHHHTTSCEEEEEECCSS
T ss_pred             cCCCCCHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCC--CCCCceEEEECCCCccHHHHHHHHHHHcCCCcEEEEEhHHH
Confidence            4568999999999999999999999999999999753  5678999999999999999999999999 899999999999


Q ss_pred             cchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCC
Q 016044          160 MSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE  239 (396)
Q Consensus       160 ~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~  239 (396)
                      .+++.|+.++.++.+|..+...+|+||||||+|.+.+.+.........++.++++..++++.. ...+++||++||+++.
T Consensus        83 ~~~~~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~-~~~~v~vI~atn~~~~  161 (322)
T 1xwi_A           83 VSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGV-DNDGILVLGATNIPWV  161 (322)
T ss_dssp             CCSSCCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSS-CCTTEEEEEEESCTTT
T ss_pred             HhhhhhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhcccc-cCCCEEEEEecCCccc
Confidence            999999999999999999999999999999999999888777777788889999999998753 2568999999999999


Q ss_pred             CcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhc-
Q 016044          240 LDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERK-  317 (396)
Q Consensus       240 l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~-  317 (396)
                      ++++++|||+..+++++|+.++|.+|++.++...... .+.++..+++.+.||+|+||..+|++|++.++++....... 
T Consensus       162 ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~~A~~~a~r~~~~~~~~~  241 (322)
T 1xwi_A          162 LDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDALMQPVRKVQSATHFK  241 (322)
T ss_dssp             SCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBCCCHHHHHHHHHTCTTCCHHHHHHHHHHHHTHHHHHHHHCSEEE
T ss_pred             CCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence            9999999999999999999999999999999876654 55678999999999999999999999999999998643110 


Q ss_pred             -----C-----------------------------C--CCCCCCCCCHHHHHHHHHhcccch
Q 016044          318 -----G-----------------------------K--PAAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       318 -----~-----------------------------~--~~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                           .                             .  ......+|+++||..|++.++|+.
T Consensus       242 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~df~~al~~~~ps~  303 (322)
T 1xwi_A          242 KVRGPSRADPNHLVDDLLTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMSDMLRSLSNTKPTV  303 (322)
T ss_dssp             EEEEECSSCTTSEEEEEEEECCSSSTTEEECCGGGSCGGGBCCCCBCHHHHHHHHHTCCCSC
T ss_pred             hhccccccccccccccccccccccccchhhccccccccccccCCCcCHHHHHHHHHhCCCCC
Confidence                 0                             0  000135899999999999999883

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=100.00  E-value=4.6e-40  Score=313.58  Aligned_cols=260  Identities=37%  Similarity=0.619  Sum_probs=226.0

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      ..++++|++|+|++.+++.|.+.+.+|+.+++.|..+  ..+++++||+||||||||++|+++|++++.+|+.++++++.
T Consensus        11 ~~~~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~--~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~v~~~~l~   88 (322)
T 3eie_A           11 EKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGN--RKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLV   88 (322)
T ss_dssp             ECCCCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTT--CCCCCEEEEECSSSSCHHHHHHHHHHHHTCEEEEEEHHHHH
T ss_pred             cCCCCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcC--CCCCCeEEEECCCCCcHHHHHHHHHHHHCCCEEEEchHHHh
Confidence            5678999999999999999999999999999998764  46789999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSEL  240 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l  240 (396)
                      +++.|+.+..++.+|..+...+|+||||||+|.+...+.........++..+++..+++... ...+++||++||.++.+
T Consensus        89 ~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~-~~~~v~vi~atn~~~~l  167 (322)
T 3eie_A           89 SKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGN-DSQGVLVLGATNIPWQL  167 (322)
T ss_dssp             TTTGGGHHHHHHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGT-SCCCEEEEEEESCGGGS
T ss_pred             hcccchHHHHHHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccc-cCCceEEEEecCChhhC
Confidence            99999999999999999999999999999999998887666666667788899999998753 35679999999999999


Q ss_pred             cHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcC-
Q 016044          241 DEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKG-  318 (396)
Q Consensus       241 ~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~-  318 (396)
                      ++++++||+..+++++|+.++|.+|++.++...... .+.++..++..+.||+++||..+|++|++.++++..+..... 
T Consensus       168 d~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~l~~la~~t~g~sg~di~~l~~~a~~~a~r~~~~~~~~~~  247 (322)
T 3eie_A          168 DSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATHFKD  247 (322)
T ss_dssp             CHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCCCCHHHHHHHHHTTTTCCHHHHHHHHHHHTTHHHHHHHHCEEEEE
T ss_pred             CHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHhhhhhhhh
Confidence            999999999999999999999999999999876654 556789999999999999999999999999999987542110 


Q ss_pred             ------------------------------CCCCCCCCCCHHHHHHHHHhcccch
Q 016044          319 ------------------------------KPAAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       319 ------------------------------~~~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                                                    .......+|+++||..|++.++|+.
T Consensus       248 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~it~~df~~al~~~~ps~  302 (322)
T 3eie_A          248 VSTEDDETRKLTPCSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKAIKSTRPTV  302 (322)
T ss_dssp             CC----CCCCEEECCSSCTTEEEEEGGGSCSSCBCCCCCCHHHHHHHHHHSCCSS
T ss_pred             hccccccccccccccccccccccccccccccccccCCCCCHHHHHHHHHhcCCCC
Confidence                                          0011236799999999999999984

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=100.00  E-value=2.4e-40  Score=330.38  Aligned_cols=278  Identities=34%  Similarity=0.575  Sum_probs=234.5

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK  162 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~  162 (396)
                      ..++|++|+|++.+++.|.+.+..++.+++.|...+ ..+++++||+||||||||++|++++++++.+|+.++|+++.+.
T Consensus       199 ~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g-~~~~~~vLL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~  277 (489)
T 3hu3_A          199 NEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIG-VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSK  277 (489)
T ss_dssp             TCCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHT-CCCCCEEEEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTS
T ss_pred             CCCCHHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcC-CCCCCcEEEECcCCCCHHHHHHHHHHHhCCCEEEEEchHhhhh
Confidence            357899999999999999999999999999998754 5678999999999999999999999999999999999999999


Q ss_pred             hhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcH
Q 016044          163 WFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDE  242 (396)
Q Consensus       163 ~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~  242 (396)
                      +.|+.+..++.+|..+....|++|||||+|.+.+++.....+...++...|+..+++...  ..+++||+|||+++.+++
T Consensus       278 ~~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~--~~~v~vIaaTn~~~~Ld~  355 (489)
T 3hu3_A          278 LAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQ--RAHVIVMAATNRPNSIDP  355 (489)
T ss_dssp             CTTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCT--TSCEEEEEEESCGGGBCG
T ss_pred             hcchhHHHHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhcccc--CCceEEEEecCCccccCH
Confidence            999999999999999999999999999999999888766666777888899999998754  567999999999999999


Q ss_pred             HHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 016044          243 AILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKP  320 (396)
Q Consensus       243 ~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~  320 (396)
                      ++++  ||+..++++.|+.++|.+||+.+++...+..+.++..++..+.||+++||..+|++|++.++++..........
T Consensus       356 al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~~~l~~la~~t~g~s~~dL~~L~~~A~~~a~r~~~~~i~~~~~  435 (489)
T 3hu3_A          356 ALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDE  435 (489)
T ss_dssp             GGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTTTTTCCTTCS
T ss_pred             HHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHccCCcHHHHHHHHHHHHHHHHHhcccccccccc
Confidence            9999  99999999999999999999999998888888899999999999999999999999999999875432111100


Q ss_pred             C-----CCCCCCCHHHHHHHHHhcccchhhhhhhhccCCCCCccccCCCc
Q 016044          321 A-----AAPRPLSRLDLEKVLTTSRKTRVAATEYTLNSQSSGWSRNNESN  365 (396)
Q Consensus       321 ~-----~~~~~i~~~d~~~al~~~~~~~~~~~~~~~~~~~~~w~di~~~~  365 (396)
                      .     .....++++||..|++.++|+  ...+.....|+++|+||||..
T Consensus       436 ~~~~~~~~~~~vt~edf~~Al~~~~ps--~~re~~~e~p~v~W~dig~~~  483 (489)
T 3hu3_A          436 TIDAEVMNSLAVTMDDFRWALSQSNPS--ALRETVVEVPQVTWEDIGGRS  483 (489)
T ss_dssp             SCCHHHHHHCCBCHHHHHHHHTSHHHH--HHHGGGC--------------
T ss_pred             ccchhhcccCcCCHHHHHHHHHhCCch--hhhcccccCCCCCHHHcCCCc
Confidence            0     012469999999999999998  677888899999999999975

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=100.00  E-value=2.3e-39  Score=301.22  Aligned_cols=259  Identities=33%  Similarity=0.577  Sum_probs=208.9

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      ..|+++|+||+|++++|+.|++.+.+|+.+++.+...+ +..++|++|+||||||||++++++|..++..++.+++.++.
T Consensus         3 ~~~~~~~~di~g~~~~~~~l~~~i~~~~~~~~~l~~~~-l~~~~GvlL~Gp~GtGKTtLakala~~~~~~~i~i~g~~l~   81 (274)
T 2x8a_A            3 TVPNVTWADIGALEDIREELTMAILAPVRNPDQFKALG-LVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELL   81 (274)
T ss_dssp             ---------CCHHHHHHHHHHHHHTHHHHSHHHHHHTT-CCCCSEEEEESSTTSCHHHHHHHHHHHTTCEEEEEETTTTC
T ss_pred             CCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcC-CCCCCeEEEECCCCCcHHHHHHHHHHHcCCCEEEEEcHHHH
Confidence            35678999999999999999999999999999998865 56778899999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSEL  240 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l  240 (396)
                      +.+.++.++.+..+|..+....|+++|+||+|.+...+.........+..++++..+++...  ...++++++||+|+.+
T Consensus        82 ~~~~~~~~~~i~~vf~~a~~~~p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~--~~~~i~ia~tn~p~~L  159 (274)
T 2x8a_A           82 NMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEA--RQQVFIMAATNRPDII  159 (274)
T ss_dssp             SSTTHHHHHHHHHHHHHHHHTCSEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCS--TTCEEEEEEESCGGGS
T ss_pred             hhhhhHHHHHHHHHHHHHHhcCCCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccc--cCCEEEEeecCChhhC
Confidence            99999999999999999988899999999999987655433333445677889999998764  4568999999999999


Q ss_pred             cHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcC---CCCCCCCCHHHHHHhC--CCCcHHHHHHHHHHHHHHHHHHHHH
Q 016044          241 DEAILR--RLPQAFEIGMPDRKERAQILKVILKG---EKVEENIDFDYLAGLC--EGFTGSDLLEVCKQAAYFSIRELLD  313 (396)
Q Consensus       241 ~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~---~~~~~~~~l~~la~~~--~g~s~~di~~l~~~A~~~a~~~~~~  313 (396)
                      |++++|  ||+..+++++|+.++|.+||+.+++.   .....+++++.+|..+  +||||+||.++|++|++.++++...
T Consensus       160 D~al~r~gRfd~~i~~~~P~~~~r~~il~~~~~~~~~~~~~~~~~~~~la~~~~~~g~sgadl~~l~~~a~~~a~~~~~~  239 (274)
T 2x8a_A          160 DPAILRPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQEMA  239 (274)
T ss_dssp             CHHHHSTTSSCEEEECCSCCHHHHHHHHHHHTTTTBTTBBCTTCCHHHHHTCSGGGSCCHHHHHHHHHHHHHHHHHHHC-
T ss_pred             CHhhcCcccCCeEEEeCCcCHHHHHHHHHHHHhcccCCCCccccCHHHHHHhhccCCcCHHHHHHHHHHHHHHHHHHHHh
Confidence            999999  99999999999999999999999854   3445789999999875  4999999999999999999988643


Q ss_pred             HHhcCCCCCCCCCCCHHHHHHHHHhcccch
Q 016044          314 EERKGKPAAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       314 ~~~~~~~~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                      ..... .......|+++||+.|++.++|+.
T Consensus       240 ~~~~~-~~~~~~~i~~~df~~al~~~~ps~  268 (274)
T 2x8a_A          240 RQKSG-NEKGELKVSHKHFEEAFKKVRSSI  268 (274)
T ss_dssp             -----------CCBCHHHHHHHHTTCCCCC
T ss_pred             hcccc-ccccCCeecHHHHHHHHHHhcCCC
Confidence            32211 112235799999999999999984

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=100.00  E-value=2.3e-39  Score=312.42  Aligned_cols=264  Identities=37%  Similarity=0.610  Sum_probs=218.2

Q ss_pred             ccCCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEec
Q 016044           77 VINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI  156 (396)
Q Consensus        77 ~~~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~  156 (396)
                      .+....++++|++|+|++.+++.|.+.+.+|+.+++.|..+  ..+++++||+||||||||++|+++|++++.+|+.+++
T Consensus        40 ~~~~~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~--~~~~~~iLL~GppGtGKT~la~ala~~~~~~~~~v~~  117 (355)
T 2qp9_X           40 AILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGN--RKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSS  117 (355)
T ss_dssp             -------CCCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSS--CCCCCCEEEECSTTSCHHHHHHHHHHHHTCEEEEEEH
T ss_pred             hhcccCCCCCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcC--CCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEeeH
Confidence            34456778999999999999999999999999999999864  5678899999999999999999999999999999999


Q ss_pred             ccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC
Q 016044          157 SNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR  236 (396)
Q Consensus       157 ~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~  236 (396)
                      +++.+.+.|+.+..++.+|..+....|+||||||+|.+.+.+.........++.++++..+++... ...+++||++||+
T Consensus       118 ~~l~~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~-~~~~v~vI~atn~  196 (355)
T 2qp9_X          118 SDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGN-DSQGVLVLGATNI  196 (355)
T ss_dssp             HHHHSCC---CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC----CCEEEEEEESC
T ss_pred             HHHhhhhcchHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhcccc-cCCCeEEEeecCC
Confidence            999999999999999999999999899999999999998877666666777888899999998753 2457999999999


Q ss_pred             CCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          237 PSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       237 ~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      ++.++++++|||+..+++++|+.++|.+||+.++...... .+.+++.|+..+.||+|+||.++|++|++.|+++.....
T Consensus       197 ~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~~~~~~l~~la~~t~G~sg~dl~~l~~~A~~~a~~~~~~~~  276 (355)
T 2qp9_X          197 PWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSAT  276 (355)
T ss_dssp             GGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHHHHHCS
T ss_pred             cccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999999877643 456789999999999999999999999999999875431


Q ss_pred             hc----C---------------------------CCCCCCCCCCHHHHHHHHHhcccch
Q 016044          316 RK----G---------------------------KPAAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       316 ~~----~---------------------------~~~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                      ..    .                           .......+|+++||..|++.++|+.
T Consensus       277 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~df~~Al~~~~ps~  335 (355)
T 2qp9_X          277 HFKDVSTEDDETRKLTPSSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKAIKSTRPTV  335 (355)
T ss_dssp             EEEECCC-----CCEEEECTTSSSEEECCGGGSCGGGBCCCCBCHHHHHHHHHHSCCSS
T ss_pred             hhhhhccccccccccCcCCccccchhhcccccccccccccCCccHHHHHHHHHHcCCCC
Confidence            10    0                           0001235799999999999999983

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=100.00  E-value=4e-39  Score=304.20  Aligned_cols=260  Identities=38%  Similarity=0.667  Sum_probs=223.7

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.++++|++|+|++++++.|.+.+.+|+.+++.|...+ ..+++++||+||||||||++|+++|++++.+++.++++++.
T Consensus         8 ~~~~~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~-~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~i~v~~~~l~   86 (301)
T 3cf0_A            8 EVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFG-MTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELL   86 (301)
T ss_dssp             ECCCCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHC-CCCCSEEEEECSSSSSHHHHHHHHHHHTTCEEEEECHHHHH
T ss_pred             cCCCCCHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcC-CCCCceEEEECCCCcCHHHHHHHHHHHhCCCEEEEEhHHHH
Confidence            45689999999999999999999999999999998754 56789999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCC---chHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS---DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      +++.|+.+..++.+|..+....|++|||||+|.+...+...   ......++..+++..++++..  ..+++||++||++
T Consensus        87 ~~~~g~~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~~~--~~~v~vi~atn~~  164 (301)
T 3cf0_A           87 TMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST--KKNVFIIGATNRP  164 (301)
T ss_dssp             HHHHTTCTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSSCT--TSSEEEEEEESCG
T ss_pred             hhhcCchHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcccC--CCCEEEEEecCCc
Confidence            99999998999999999999899999999999987654321   112234566788888988753  5679999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +.++++++|  ||+..+++++|+.++|.+|++.+++......+++++.++..+.||+|+||.++|++|++.++++.+...
T Consensus       165 ~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~~~~~la~~~~g~sg~dl~~l~~~a~~~a~~~~~~~~  244 (301)
T 3cf0_A          165 DIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIESE  244 (301)
T ss_dssp             GGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHHTCSSCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccchHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhh
Confidence            999999999  999999999999999999999999988877889999999999999999999999999999998876432


Q ss_pred             hcCC-------------CCCCCCCCCHHHHHHHHHhcccch
Q 016044          316 RKGK-------------PAAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       316 ~~~~-------------~~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                      ....             .......|+++||..|++.++|+.
T Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~al~~~~~s~  285 (301)
T 3cf0_A          245 IRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSV  285 (301)
T ss_dssp             C--------------------CCCBCHHHHHHHHTTCCCSS
T ss_pred             hhhhhhcccccccccccccccCCccCHHHHHHHHHHcCCCC
Confidence            1100             011235799999999999998874

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=100.00  E-value=1.2e-38  Score=316.22  Aligned_cols=264  Identities=36%  Similarity=0.626  Sum_probs=221.0

Q ss_pred             ccCCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc-CCcEEEEe
Q 016044           77 VINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES-GAVFINVR  155 (396)
Q Consensus        77 ~~~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~-~~~~~~i~  155 (396)
                      .+....++++|++|+|++.+++.|.+.+.+|+.+++.|...  ..+++++||+||||||||++|+++|+++ +.+|+.++
T Consensus       123 ~i~~~~~~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~--~~~~~~vLL~GppGtGKT~lA~aia~~~~~~~~~~v~  200 (444)
T 2zan_A          123 AIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGK--RTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSIS  200 (444)
T ss_dssp             -CBCCCCCCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGG--GCCCSEEEEECSTTSSHHHHHHHHHHHCCSSEEEEEC
T ss_pred             ceeccCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhcc--CCCCceEEEECCCCCCHHHHHHHHHHHcCCCCEEEEe
Confidence            34456788999999999999999999999999999998753  4567999999999999999999999999 89999999


Q ss_pred             cccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecC
Q 016044          156 ISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATN  235 (396)
Q Consensus       156 ~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn  235 (396)
                      ++++.+.+.|+.+..++.+|..+....|+||||||+|.+.+.+.........++.++++..+++... .+.+++||+|||
T Consensus       201 ~~~l~~~~~g~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~-~~~~v~vI~atn  279 (444)
T 2zan_A          201 SSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGV-DNDGILVLGATN  279 (444)
T ss_dssp             CC---------CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSC-CCSSCEEEEEES
T ss_pred             HHHHHhhhcchHHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCccc-CCCCEEEEecCC
Confidence            9999999999988999999999999999999999999998887776667777888899999988753 256799999999


Q ss_pred             CCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHH
Q 016044          236 RPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE  314 (396)
Q Consensus       236 ~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~  314 (396)
                      +++.++++++|||+..+.+++|+.++|..|++.++...... .+.++..|+..+.||+|+||..+|++|++.++++....
T Consensus       280 ~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~l~~~~l~~la~~t~G~sgadl~~l~~~a~~~a~r~~~~~  359 (444)
T 2zan_A          280 IPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVRDALMQPVRKVQSA  359 (444)
T ss_dssp             CGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCEECCHHHHHHHHHHTTTCCHHHHHHHHHHHHTHHHHHHHHC
T ss_pred             CccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999876543 55678999999999999999999999999999998653


Q ss_pred             Hhc----C-------------------------------CC--CCCCCCCCHHHHHHHHHhcccch
Q 016044          315 ERK----G-------------------------------KP--AAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       315 ~~~----~-------------------------------~~--~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                      ...    +                               ..  .....+|+++||..|++.++|+.
T Consensus       360 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~df~~a~~~~~ps~  425 (444)
T 2zan_A          360 THFKKVRGPSRADPNCIVNDLLTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMWDMLRSLSSTKPTV  425 (444)
T ss_dssp             SEEEEECCBCSSCTTSBCSCEEEEECTTSTTEEECCTTTSCTTCBCCCCEEHHHHHHHHHTCCCSC
T ss_pred             hhhhhhccccccccccccccccccCCCCcccchhcccccCchhhccCCccCHHHHHHHHHhCCCCC
Confidence            100    0                               00  01135899999999999999883

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=100.00  E-value=4e-37  Score=297.21  Aligned_cols=267  Identities=38%  Similarity=0.678  Sum_probs=220.5

Q ss_pred             hccccCCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044           74 ACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus        74 ~~~~~~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      ...+++ ..++++|++|+|++.+++.|.+.+.+|+.+++.|...  ..+++++||+||||||||++|+++|++++.+|+.
T Consensus        71 ~~~i~~-~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~--~~~~~~vLl~GppGtGKT~la~aia~~~~~~~~~  147 (357)
T 3d8b_A           71 MNEIMD-HGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGL--RGPPKGILLFGPPGTGKTLIGKCIASQSGATFFS  147 (357)
T ss_dssp             HHHTBC-CSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGG--GSCCSEEEEESSTTSSHHHHHHHHHHHTTCEEEE
T ss_pred             Hhhccc-CCCCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhc--cCCCceEEEECCCCCCHHHHHHHHHHHcCCeEEE
Confidence            344443 4568999999999999999999999999999988653  3567899999999999999999999999999999


Q ss_pred             EecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEe
Q 016044          154 VRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAA  233 (396)
Q Consensus       154 i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~a  233 (396)
                      ++++++...+.|+.+..++.+|..+....|+||||||+|.+...+.........++..+++..+++.......+++||++
T Consensus       148 i~~~~l~~~~~g~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~a  227 (357)
T 3d8b_A          148 ISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRILVVGA  227 (357)
T ss_dssp             EEGGGGCCSSTTHHHHHHHHHHHHHHHTCSEEEEEETHHHHTBC------CHHHHHHHHHHHHHHC----CCCCEEEEEE
T ss_pred             EehHHhhccccchHHHHHHHHHHHHHhcCCeEEEEeCchhhhccCCCCcchHHHHHHHHHHHHHhcccccCCCCEEEEEe
Confidence            99999999999999999999999999889999999999999887766666667778889999999876555678999999


Q ss_pred             cCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHH
Q 016044          234 TNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELL  312 (396)
Q Consensus       234 tn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~  312 (396)
                      ||.++.+++++++||+..++++.|+.++|.++++.++...... .+.++..++..+.||+++||..+|++|+..+++++.
T Consensus       228 tn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~l~~la~~t~G~s~~dl~~l~~~a~~~~ir~l~  307 (357)
T 3d8b_A          228 TNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCREASLGPIRSLQ  307 (357)
T ss_dssp             ESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBCCCHHHHHHHHHHTTTCCHHHHHHHHHHHHTHHHHHCC
T ss_pred             cCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCCccHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHhh
Confidence            9999999999999999899999999999999999999765443 344578899999999999999999999999998754


Q ss_pred             HHHhcCCCCCCCCCCCHHHHHHHHHhcccch
Q 016044          313 DEERKGKPAAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       313 ~~~~~~~~~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                      .............+|+.+||..|++.++|+.
T Consensus       308 ~~~~~~~~~~~~~~i~~~d~~~al~~~~ps~  338 (357)
T 3d8b_A          308 TADIATITPDQVRPIAYIDFENAFRTVRPSV  338 (357)
T ss_dssp             C----------CCCBCHHHHHHHHHHHGGGC
T ss_pred             hhhhccccccccCCcCHHHHHHHHHhcCCCC
Confidence            3322222334457899999999999999873

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=100.00  E-value=2.4e-36  Score=284.53  Aligned_cols=261  Identities=44%  Similarity=0.705  Sum_probs=215.7

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      ..++++|++|+|++.+++.+.+.+..|+.+++.|...  ..+++++||+||||||||++|+++|++++.+|+.++|+++.
T Consensus        14 ~~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~--~~~~~~vll~Gp~GtGKT~la~~la~~~~~~~~~i~~~~l~   91 (297)
T 3b9p_A           14 GGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGL--RAPAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLT   91 (297)
T ss_dssp             CSSCCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGG--GCCCSEEEEESSSSSCHHHHHHHHHHHTTCEEEEEESTTTS
T ss_pred             CCCCCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcC--CCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEeeHHHHh
Confidence            5678999999999999999999999999999988653  34678999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcC-CCCcEEEEEecCCCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD-QNARVMVLAATNRPSE  239 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~-~~~~v~vI~atn~~~~  239 (396)
                      ..+.++.+..++.+|..+....|++|||||+|.+...+.........+....++..+++.... ...++++|++||.++.
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~~v~vi~~tn~~~~  171 (297)
T 3b9p_A           92 SKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQE  171 (297)
T ss_dssp             SSSCSCHHHHHHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC------CEEEEEEESCGGG
T ss_pred             hcccchHHHHHHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccccCCCCcEEEEeecCChhh
Confidence            999999999999999999998999999999999988776544444556677888888876542 1256999999999999


Q ss_pred             CcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 016044          240 LDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKG  318 (396)
Q Consensus       240 l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~  318 (396)
                      +++++++||+..+.+++|+.++|..+++.++...... .+.++..++..+.||+++||..+|++|+..++++........
T Consensus       172 l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~~la~~~~g~~~~~l~~l~~~a~~~a~r~~~~~~~~~  251 (297)
T 3b9p_A          172 LDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAKDAALEPIRELNVEQVKC  251 (297)
T ss_dssp             BCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGSCCSCHHHHHHHHHHTTTCCHHHHHHHHHHHTTHHHHTCC------
T ss_pred             CCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHhhhhccc
Confidence            9999999999999999999999999999998765432 334578899999999999999999999999998754333333


Q ss_pred             CCCCCCCCCCHHHHHHHHHhcccch
Q 016044          319 KPAAAPRPLSRLDLEKVLTTSRKTR  343 (396)
Q Consensus       319 ~~~~~~~~i~~~d~~~al~~~~~~~  343 (396)
                      ........|+.+||..|++.++|+.
T Consensus       252 ~~~~~~~~i~~~d~~~a~~~~~~s~  276 (297)
T 3b9p_A          252 LDISAMRAITEQDFHSSLKRIRRSV  276 (297)
T ss_dssp             --CCCCCCCCHHHHHHHTTSCCCSS
T ss_pred             ccccccCCcCHHHHHHHHHHcCCCC
Confidence            3334457899999999999988873

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=100.00  E-value=3.4e-36  Score=294.18  Aligned_cols=271  Identities=42%  Similarity=0.693  Sum_probs=216.6

Q ss_pred             cchhhhccccCCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 016044           69 YEDVIACDVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus        69 ~~~~~~~~~~~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +++.+...++. ..++++|++|+|++.+++.|.+++..++.+++.|...  ..+++++||+||||||||++|+++|++++
T Consensus        97 ~~~~~~~~~~~-~~~~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~--~~~~~~vLL~GppGtGKT~la~aia~~~~  173 (389)
T 3vfd_A           97 LANLIMNEIVD-NGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGL--RAPARGLLLFGPPGNGKTMLAKAVAAESN  173 (389)
T ss_dssp             CCTTGGGTTBC-CSCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGG--GCCCSEEEEESSTTSCHHHHHHHHHHHTT
T ss_pred             HHHHHHhhhhc-cCCCCChHHhCCHHHHHHHHHHHHHHhccCHHHhccc--CCCCceEEEECCCCCCHHHHHHHHHHhhc
Confidence            33444444443 5678899999999999999999999999999888754  34578999999999999999999999999


Q ss_pred             CcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcE
Q 016044          149 AVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARV  228 (396)
Q Consensus       149 ~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v  228 (396)
                      .+|+.++|+++.+.+.|..+..+..+|..+....|+||||||+|.++..+.........++...++..+++.....+.++
T Consensus       174 ~~~~~v~~~~l~~~~~g~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v  253 (389)
T 3vfd_A          174 ATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRV  253 (389)
T ss_dssp             CEEEEECSCCC-------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-----CE
T ss_pred             CcEEEeeHHHhhccccchHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccccCCCCE
Confidence            99999999999999999999999999999999999999999999998877666666677888899999998876556789


Q ss_pred             EEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHH
Q 016044          229 MVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFS  307 (396)
Q Consensus       229 ~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a  307 (396)
                      +||++||+++.+++++++||...++++.|+.++|.+||+.++...... .+.++..++..+.||++++|..+|++|+..+
T Consensus       254 ~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~l~~~~~~~la~~~~g~~~~~l~~L~~~a~~~~  333 (389)
T 3vfd_A          254 LVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALAKDAALGP  333 (389)
T ss_dssp             EEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCCCSCHHHHHHHHHHTTTCCHHHHHHHHHHHTTHH
T ss_pred             EEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999999998899999999999999999999765443 3345788999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhcccc
Q 016044          308 IRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       308 ~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                      ++++...............|+.+||..+++.++++
T Consensus       334 ~rel~~~~~~~~~~~~~~~i~~~d~~~al~~~~~s  368 (389)
T 3vfd_A          334 IRELKPEQVKNMSASEMRNIRLSDFTESLKKIKRS  368 (389)
T ss_dssp             HHTSCCC---CCSSSCCCCCCHHHHHHHHHHCCCS
T ss_pred             HHhhhhhhhhccchhhcCCcCHHHHHHHHHHcCCC
Confidence            98865444333444456789999999999998876

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=100.00  E-value=4.4e-35  Score=274.15  Aligned_cols=247  Identities=40%  Similarity=0.669  Sum_probs=217.5

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      ..++++|++|+|++++++.|.+.+..++.+++.+...+ ..+++++||+||||||||++|+++|++++.+++.++++++.
T Consensus        10 ~~~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~~~v~~~~~~   88 (285)
T 3h4m_A           10 ERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVG-IEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELV   88 (285)
T ss_dssp             SSCCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHC-CCCCSEEEEESSSSSSHHHHHHHHHHHTTCEEEEEEGGGGC
T ss_pred             CCCCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcC-CCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEehHHHH
Confidence            45678999999999999999999999999999998754 56788999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCc---hHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD---HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~---~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      ..+.+.....+..+|..+....|+||||||+|.+.+++....   .....+.+..++..+++...  +.++++|+|||.+
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~--~~~~~vI~ttn~~  166 (285)
T 3h4m_A           89 KKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDA--RGDVKIIGATNRP  166 (285)
T ss_dssp             CCSTTHHHHHHHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHHHTTCS--SSSEEEEEECSCG
T ss_pred             HhccchHHHHHHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHhhCCCC--CCCEEEEEeCCCc
Confidence            999999999999999999999999999999999987765432   22333455566666666543  4579999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +.+++++++  ||+..+.++.|+.++|.+|++.++.......+.++..++..+.|+++++|..+|+.|...|+.+.    
T Consensus       167 ~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~~~~~~l~~~~~g~~~~~i~~l~~~a~~~a~~~~----  242 (285)
T 3h4m_A          167 DILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVGAELKAICTEAGMNAIREL----  242 (285)
T ss_dssp             GGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHHCTTCCHHHHHHHHHHHHHHHHHTT----
T ss_pred             hhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCcCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhc----
Confidence            999999999  99999999999999999999999998888888899999999999999999999999999988752    


Q ss_pred             hcCCCCCCCCCCCHHHHHHHHHhcccc
Q 016044          316 RKGKPAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                              ...|+.+||..|+..+.+.
T Consensus       243 --------~~~I~~~d~~~al~~~~~~  261 (285)
T 3h4m_A          243 --------RDYVTMDDFRKAVEKIMEK  261 (285)
T ss_dssp             --------CSSBCHHHHHHHHHHHHHH
T ss_pred             --------cCcCCHHHHHHHHHHHHhc
Confidence                    1569999999999987654

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=100.00  E-value=5.7e-35  Score=289.42  Aligned_cols=248  Identities=31%  Similarity=0.537  Sum_probs=213.7

Q ss_pred             cCCC-CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEec
Q 016044           78 INPD-HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI  156 (396)
Q Consensus        78 ~~~~-~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~  156 (396)
                      +.++ .+.++|+||+|++++++++++.+.. +..+..|...+ ...|+|+||+||||||||++|+++|.+.+.+|+.+++
T Consensus         5 ~~~~~~~~~~f~di~G~~~~~~~l~e~v~~-l~~~~~~~~~g-~~~p~gvLL~GppGtGKT~Laraia~~~~~~f~~is~   82 (476)
T 2ce7_A            5 YKPSGNKRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIG-ARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHISG   82 (476)
T ss_dssp             CCCCCSCCCCGGGCCSCHHHHHHHHHHHHH-HHCTHHHHTTT-CCCCSEEEEECCTTSSHHHHHHHHHHHHTCCEEEEEG
T ss_pred             eccCCCCCCCHHHhCCcHHHHHHHHHHHHH-hhChHHHhhcC-CCCCCeEEEECCCCCCHHHHHHHHHHHcCCCeeeCCH
Confidence            3445 6788999999999999999998765 66777777654 5678899999999999999999999999999999999


Q ss_pred             ccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCC---chHHHHhhHHHHHHHhhccCcCCCCcEEEEEe
Q 016044          157 SNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS---DHEALTNMKTEFMALWDGFTTDQNARVMVLAA  233 (396)
Q Consensus       157 ~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~a  233 (396)
                      +++...+.|.....++.+|..+....|+||||||+|.+..+++..   ......+.+++++..++++..  +.+++||++
T Consensus        83 ~~~~~~~~g~~~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~--~~~viVIaa  160 (476)
T 2ce7_A           83 SDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDS--KEGIIVMAA  160 (476)
T ss_dssp             GGTTTCCTTHHHHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCG--GGTEEEEEE
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCC--CCCEEEEEe
Confidence            999999999999999999999999999999999999998776532   222334567788888887754  457999999


Q ss_pred             cCCCCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHH
Q 016044          234 TNRPSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIREL  311 (396)
Q Consensus       234 tn~~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~  311 (396)
                      ||+++.++++++|  ||+..+.+++|+.++|.+|++.+++..++..++++..++..+.||+|+||.++|++|+..+.++.
T Consensus       161 Tn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v~l~~la~~t~G~sgadL~~lv~~Aal~A~~~~  240 (476)
T 2ce7_A          161 TNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREG  240 (476)
T ss_dssp             ESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             cCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchhhHHHHHHhcCCCcHHHHHHHHHHHHHHHHHcC
Confidence            9999999999998  99999999999999999999999998888888999999999999999999999999998887541


Q ss_pred             HHHHhcCCCCCCCCCCCHHHHHHHHHhccc
Q 016044          312 LDEERKGKPAAAPRPLSRLDLEKVLTTSRK  341 (396)
Q Consensus       312 ~~~~~~~~~~~~~~~i~~~d~~~al~~~~~  341 (396)
                                  ...|+.+||..|+..+.+
T Consensus       241 ------------~~~I~~~dl~~al~~v~~  258 (476)
T 2ce7_A          241 ------------RDKITMKDFEEAIDRVIA  258 (476)
T ss_dssp             ------------CSSBCHHHHHHHHHHHC-
T ss_pred             ------------CCeecHHHHHHHHHHHhc
Confidence                        256999999999998754

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=100.00  E-value=1.3e-34  Score=267.09  Aligned_cols=245  Identities=37%  Similarity=0.565  Sum_probs=208.9

Q ss_pred             CCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044           80 PDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus        80 ~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      +..++.+|++|+|++.+++.+.+.+.+ +.+++.+...+ ...+++++|+||||||||++|+++++.++.+++.++++++
T Consensus         4 ~~~~~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~~-~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~i~~~~~   81 (257)
T 1lv7_A            4 EDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLG-GKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDF   81 (257)
T ss_dssp             ECSSCCCGGGSCSCHHHHHHTHHHHHH-HHCGGGC------CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSCSS
T ss_pred             ccCCCCCHHHhcCcHHHHHHHHHHHHH-HhCHHHHHHcC-CCCCCeEEEECcCCCCHHHHHHHHHHHcCCCEEEEeHHHH
Confidence            456788999999999999999988765 67777766543 4567899999999999999999999999999999999999


Q ss_pred             cchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCC---chHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC
Q 016044          160 MSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS---DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR  236 (396)
Q Consensus       160 ~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~  236 (396)
                      ...+.+.....+..+|..+....|+++||||+|.+...+...   ......+....++..++++..  +.++++|++||.
T Consensus        82 ~~~~~~~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~--~~~~~vI~~tn~  159 (257)
T 1lv7_A           82 VEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG--NEGIIVIAATNR  159 (257)
T ss_dssp             TTSCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCS--SSCEEEEEEESC
T ss_pred             HHHhhhhhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCccc--CCCEEEEEeeCC
Confidence            988888888899999999988889999999999998766432   122233566788888887653  567999999999


Q ss_pred             CCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHH
Q 016044          237 PSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE  314 (396)
Q Consensus       237 ~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~  314 (396)
                      ++.+++++++  ||+..+.+++|+.++|.+|++.+++...+..+.++..++..+.||+++||.++|++|+..|..+.   
T Consensus       160 ~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~~~~~~la~~~~G~~~~dl~~l~~~a~~~a~~~~---  236 (257)
T 1lv7_A          160 PDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGN---  236 (257)
T ss_dssp             TTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTT---
T ss_pred             chhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCccccHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhC---
Confidence            9999999998  99999999999999999999999998888788889999999999999999999999999887642   


Q ss_pred             HhcCCCCCCCCCCCHHHHHHHHHhcc
Q 016044          315 ERKGKPAAAPRPLSRLDLEKVLTTSR  340 (396)
Q Consensus       315 ~~~~~~~~~~~~i~~~d~~~al~~~~  340 (396)
                               ...|+.+||..|++.+.
T Consensus       237 ---------~~~i~~~~~~~a~~~~~  253 (257)
T 1lv7_A          237 ---------KRVVSMVEFEKAKDKIM  253 (257)
T ss_dssp             ---------CSSBCHHHHHHHHHHHT
T ss_pred             ---------CCcccHHHHHHHHHHHh
Confidence                     25799999999998764

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=100.00  E-value=3.9e-34  Score=264.15  Aligned_cols=244  Identities=32%  Similarity=0.481  Sum_probs=189.5

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK  162 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~  162 (396)
                      |+++|++|+|++.+++.+.+.+.. +.+++.|...+ ..+++++||+||||||||++|+++|++++.+++.++++++...
T Consensus         1 ~~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~g-~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~~   78 (262)
T 2qz4_A            1 MGVSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLG-AKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEV   78 (262)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHHH-HHCCC-------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCEEEEETTTTSSS
T ss_pred             CCCCHHHhCCHHHHHHHHHHHHHH-HHCHHHHHHcC-CCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEechHHHHhh
Confidence            467899999999999999998765 66777776543 5668899999999999999999999999999999999999998


Q ss_pred             hhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCc----hHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC
Q 016044          163 WFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD----HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS  238 (396)
Q Consensus       163 ~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~----~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~  238 (396)
                      +.+.....+..+|..+....|++|||||+|.+..++....    .......+..++..+++...  ..++++|++||.++
T Consensus        79 ~~~~~~~~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~--~~~~~vi~~tn~~~  156 (262)
T 2qz4_A           79 IGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGT--TDHVIVLASTNRAD  156 (262)
T ss_dssp             STTHHHHHHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCT--TCCEEEEEEESCGG
T ss_pred             ccChhHHHHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCC--CCCEEEEecCCChh
Confidence            8888889999999999888899999999999977654321    12223455677777776543  45799999999999


Q ss_pred             CCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCC--HHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHH
Q 016044          239 ELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENID--FDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE  314 (396)
Q Consensus       239 ~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~--l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~  314 (396)
                      .+++++++  ||+..+++++|+.++|.++++.++.......+.+  ...++..+.||++++|..+|+.|+..+.++..  
T Consensus       157 ~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~~~l~~~~~g~~~~~l~~l~~~a~~~a~~~~~--  234 (262)
T 2qz4_A          157 ILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAAREGH--  234 (262)
T ss_dssp             GGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTCCBTHHHHHHHHHHTCTTCCHHHHHHHHHHHHTC--------
T ss_pred             hcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCCCcchhhHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHcCC--
Confidence            99999999  9999999999999999999999998766553332  47899999999999999999999988876521  


Q ss_pred             HhcCCCCCCCCCCCHHHHHHHHHhcccc
Q 016044          315 ERKGKPAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       315 ~~~~~~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                                ..|+.+||..|++.+.+.
T Consensus       235 ----------~~i~~~d~~~a~~~~~~~  252 (262)
T 2qz4_A          235 ----------TSVHTLNFEYAVERVLAG  252 (262)
T ss_dssp             ------------CCBCCHHHHHHHHHHH
T ss_pred             ----------CCCCHHHHHHHHHHhccC
Confidence                      568999999999987655

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=100.00  E-value=1.4e-32  Score=273.75  Aligned_cols=244  Identities=35%  Similarity=0.556  Sum_probs=210.7

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK  162 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~  162 (396)
                      +.++|++|+|++++++++++.+.. +..+..|...+ ...++|++|+||||||||++|+++|.+++.+++.++++++...
T Consensus        26 ~~~~f~dv~G~~~~k~~l~~lv~~-l~~~~~~~~lg-~~ip~GvLL~GppGtGKTtLaraIa~~~~~~~i~i~g~~~~~~  103 (499)
T 2dhr_A           26 PKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMG-ARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEM  103 (499)
T ss_dssp             CCCCTTSSCSCHHHHHHHHHHHHH-HHCGGGTTTTS-CCCCSEEEEECSSSSSHHHHHHHHHHHTTCCEEEEEGGGGTSS
T ss_pred             CCCCHHHcCCcHHHHHHHHHHHHH-hhchhhhhhcc-CCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEehhHHHHh
Confidence            789999999999999999998765 66677776643 5567899999999999999999999999999999999999988


Q ss_pred             hhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCC---chHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCC
Q 016044          163 WFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS---DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE  239 (396)
Q Consensus       163 ~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~  239 (396)
                      +.+.....++.+|..+....|+++||||+|.+...+...   ......+.+++++..+++...  +..++++++||+|+.
T Consensus       104 ~~g~~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ldg~~~--~~~viviAatn~p~~  181 (499)
T 2dhr_A          104 FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK--DTAIVVMAATNRPDI  181 (499)
T ss_dssp             CTTHHHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGGGCCS--SCCCEEEECCSCGGG
T ss_pred             hhhhHHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhccccc--CccEEEEEecCChhh
Confidence            888888889999998877788999999999997765431   233345567788888888754  456899999999999


Q ss_pred             CcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhc
Q 016044          240 LDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERK  317 (396)
Q Consensus       240 l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~  317 (396)
                      +|++++|  ||+..+.+++|+.++|.+||+.++++..+..++++..+|..+.||+|+||.++|++|+..+.++       
T Consensus       182 LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~dv~l~~lA~~t~G~~gadL~~lv~~Aa~~A~~~-------  254 (499)
T 2dhr_A          182 LDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAARE-------  254 (499)
T ss_dssp             SCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCSSTTHHHHTTSCSCCHHHHHHHHHHHHHHHTTT-------
T ss_pred             cCcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHh-------
Confidence            9999998  8999999999999999999999998888888899999999999999999999999999877653       


Q ss_pred             CCCCCCCCCCCHHHHHHHHHhcccc
Q 016044          318 GKPAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       318 ~~~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                           ....|+.+||..|+..+.+.
T Consensus       255 -----~~~~It~~dl~~al~~v~~~  274 (499)
T 2dhr_A          255 -----GRRKITMKDLEEAADRVMML  274 (499)
T ss_dssp             -----CCSSCCSHHHHHHHHHHTTC
T ss_pred             -----CCCccCHHHHHHHHHHHhcc
Confidence                 12579999999999987554

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=100.00  E-value=6.7e-32  Score=248.42  Aligned_cols=241  Identities=35%  Similarity=0.567  Sum_probs=200.9

Q ss_pred             CCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044           80 PDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus        80 ~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      +..+.++|++++|+++++.++++.... +..+..+.... ...++|++|+||||||||+++++++...+.+++.+++.++
T Consensus         8 ~~~~~~~~~~i~g~~~~~~~l~~l~~~-~~~~~~~~~~~-~~~~~g~ll~G~~G~GKTtl~~~i~~~~~~~~i~~~~~~~   85 (254)
T 1ixz_A            8 TEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMG-ARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDF   85 (254)
T ss_dssp             CCCCSCCGGGCCSCHHHHHHHHHHHHH-HHCHHHHHHTT-CCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHH
T ss_pred             cCCCCCCHHHhCCcHHHHHHHHHHHHH-HHCHHHHHHcC-CCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEEEeeHHHH
Confidence            466789999999999999999987765 45566666543 4567889999999999999999999999999999999888


Q ss_pred             cchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCC---chHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC
Q 016044          160 MSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS---DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR  236 (396)
Q Consensus       160 ~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~  236 (396)
                      ...+.+.....+..+|+.+....|+++++||+|.+...+...   ......+....++..+++...  ...++++++||.
T Consensus        86 ~~~~~~~~~~~i~~~~~~~~~~~~~i~~~Deid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~g~~~--~~~~i~~a~t~~  163 (254)
T 1ixz_A           86 VEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK--DTAIVVMAATNR  163 (254)
T ss_dssp             HHSCTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCT--TCCEEEEEEESC
T ss_pred             HHHHhhHHHHHHHHHHHHHHhcCCeEEEehhhhhhhcccCccccccchHHHHHHHHHHHHHhCCCC--CCCEEEEEccCC
Confidence            877778778888889998877778999999999987655321   122334566788888887653  456889999999


Q ss_pred             CCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHH
Q 016044          237 PSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE  314 (396)
Q Consensus       237 ~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~  314 (396)
                      |+.+|++++|  ||+..++++.|+.++|.+||+.++++..+..+.++..++..+.||+++||.++|++|+..+.++.   
T Consensus       164 p~~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~G~~~~dl~~~~~~a~~~a~~~~---  240 (254)
T 1ixz_A          164 PDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREG---  240 (254)
T ss_dssp             GGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTT---
T ss_pred             chhCCHHHcCCCcCCeEEeeCCcCHHHHHHHHHHHHcCCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhc---
Confidence            9999999998  89999999999999999999999988877788899999999999999999999999998887541   


Q ss_pred             HhcCCCCCCCCCCCHHHHHHHH
Q 016044          315 ERKGKPAAAPRPLSRLDLEKVL  336 (396)
Q Consensus       315 ~~~~~~~~~~~~i~~~d~~~al  336 (396)
                               ...|+.+||++|+
T Consensus       241 ---------~~~I~~~dl~~a~  253 (254)
T 1ixz_A          241 ---------RRKITMKDLEEAA  253 (254)
T ss_dssp             ---------CSSBCHHHHHHHT
T ss_pred             ---------CCCcCHHHHHHHh
Confidence                     1569999999875

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=99.98  E-value=2.6e-34  Score=266.58  Aligned_cols=249  Identities=35%  Similarity=0.544  Sum_probs=202.9

Q ss_pred             CCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc
Q 016044           79 NPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN  158 (396)
Q Consensus        79 ~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~  158 (396)
                      ++..++.+|++|+|++.+++.+.+.+.. +.+++.|...+ ...++++||+||||||||++|+++|++++.+++.++++.
T Consensus         2 ~~~~~~~~~~~i~G~~~~~~~l~~~~~~-~~~~~~~~~~~-~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~v~~~~   79 (268)
T 2r62_A            2 NAEKPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLG-AKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSS   79 (268)
T ss_dssp             CCCCCCCCSTTSSSCTTTHHHHHHHHHH-HHCHHHHHHHS-CCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCCCCSCT
T ss_pred             CccCCCCCHHHhCCcHHHHHHHHHHHHH-HHChHHHHHCC-CCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEEechHH
Confidence            4567788999999999999999998765 77888877643 456788999999999999999999999999999999999


Q ss_pred             ccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCch----HHHHhhHHHHHHHhhccCcCCCCcEEEEEec
Q 016044          159 LMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH----EALTNMKTEFMALWDGFTTDQNARVMVLAAT  234 (396)
Q Consensus       159 l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~----~~~~~~~~~ll~~l~~~~~~~~~~v~vI~at  234 (396)
                      +...+.+.....++.+|..+....|+||||||+|.+...+.....    ....+....++..+++... ...++++|+||
T Consensus        80 ~~~~~~~~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~-~~~~v~vi~tt  158 (268)
T 2r62_A           80 FIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGS-ENAPVIVLAAT  158 (268)
T ss_dssp             TTTSCSSSCSSSSSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCSSC-SCSCCEEEECB
T ss_pred             HHHhhcchHHHHHHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCccc-CCCCEEEEEec
Confidence            988887776666777888888888999999999999766432111    0111233455666665442 24568999999


Q ss_pred             CCCCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHH
Q 016044          235 NRPSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELL  312 (396)
Q Consensus       235 n~~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~  312 (396)
                      |.++.+++++++  ||+..+++++|+.++|.++|+.+++......+.++..++..+.||+|+||.++|+.|...|..+  
T Consensus       159 n~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~g~~g~dl~~l~~~a~~~a~~~--  236 (268)
T 2r62_A          159 NRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANIINEAALLAGRN--  236 (268)
T ss_dssp             SCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHTSSSCCCSSCCTTTTTSSSCSSCHHHHHHHHHHHHHTTSSS--
T ss_pred             CCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHHhcCCCCCccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHh--
Confidence            999999999999  9999999999999999999999998887777888899999999999999999999998776532  


Q ss_pred             HHHhcCCCCCCCCCCCHHHHHHHHHhcccc
Q 016044          313 DEERKGKPAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       313 ~~~~~~~~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                                ....|+.+|+..++....++
T Consensus       237 ----------~~~~i~~~~~~~a~~~~~~~  256 (268)
T 2r62_A          237 ----------NQKEVRQQHLKEAVERGIAG  256 (268)
T ss_dssp             ----------CCCSCCHHHHHTSCTTCCCC
T ss_pred             ----------ccCCcCHHHHHHHHHHHhhc
Confidence                      12579999999999887776

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=99.97  E-value=3e-30  Score=240.65  Aligned_cols=239  Identities=36%  Similarity=0.567  Sum_probs=198.5

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS  161 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~  161 (396)
                      .++++|++|+|+++++++++..... +..+..+.... ...++|++|+||||||||+++++++..++..++.+++.++..
T Consensus        34 ~~~~~~~~i~g~~~~~~~l~~l~~~-~~~~~~l~~~~-~~~~~gvll~Gp~GtGKTtl~~~i~~~~~~~~i~~~~~~~~~  111 (278)
T 1iy2_A           34 APKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMG-ARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVE  111 (278)
T ss_dssp             CCCCCGGGSSSCHHHHHHHHHHHHH-HHCHHHHHHTT-CCCCCEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHHH
T ss_pred             CCCCCHHHhCChHHHHHHHHHHHHH-HHCHHHHHHcC-CCCCCeEEEECCCcChHHHHHHHHHHHcCCCEEEecHHHHHH
Confidence            3789999999999999999987765 45556665543 455678999999999999999999999999999999988877


Q ss_pred             hhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCC---chHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC
Q 016044          162 KWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS---DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS  238 (396)
Q Consensus       162 ~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~  238 (396)
                      .+.+.....+..+|+.+....|+++++||+|.+...+...   ......+.+..++..+++...  ...++++++||.|+
T Consensus       112 ~~~~~~~~~i~~~~~~~~~~~~~i~~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~lsgg~~--~~~~i~~a~t~~p~  189 (278)
T 1iy2_A          112 MFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK--DTAIVVMAATNRPD  189 (278)
T ss_dssp             STTTHHHHHHHHHHHHHHTSCSEEEEEETHHHHHCC--------CHHHHHHHHHHHHHHTTCCT--TCCEEEEEEESCTT
T ss_pred             HHhhHHHHHHHHHHHHHHhcCCcEEehhhhHhhhcccccccCCcchHHHHHHHHHHHHHhCCCC--CCCEEEEEecCCch
Confidence            7777778888899998887788999999999987654321   122334556677777877653  45688999999999


Q ss_pred             CCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHh
Q 016044          239 ELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEER  316 (396)
Q Consensus       239 ~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~  316 (396)
                      .+|++++|  ||+..++++.|+.++|.+||+.+++...+..++++..++..+.|++++||.++|++|+..+.++.     
T Consensus       190 ~ld~~l~r~~rf~~~i~i~~p~~~~r~~il~~~~~~~~~~~~~~~~~la~~~~G~~~~dl~~l~~~a~~~a~~~~-----  264 (278)
T 1iy2_A          190 ILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREG-----  264 (278)
T ss_dssp             SSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTT-----
T ss_pred             hCCHhHcCCCcCCeEEEeCCcCHHHHHHHHHHHHccCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhC-----
Confidence            99999998  89999999999999999999999988877788899999999999999999999999998876531     


Q ss_pred             cCCCCCCCCCCCHHHHHHHH
Q 016044          317 KGKPAAAPRPLSRLDLEKVL  336 (396)
Q Consensus       317 ~~~~~~~~~~i~~~d~~~al  336 (396)
                             ...|+.+||++|+
T Consensus       265 -------~~~I~~~dl~~a~  277 (278)
T 1iy2_A          265 -------RRKITMKDLEEAA  277 (278)
T ss_dssp             -------CCSBCHHHHHHHT
T ss_pred             -------CCCcCHHHHHHHh
Confidence                   1569999999875

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=99.93  E-value=2.4e-26  Score=215.69  Aligned_cols=173  Identities=21%  Similarity=0.308  Sum_probs=132.3

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHH----HHhCCcEEEEccccccc
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLA----YKLQPAIIFIDEVDSFL  195 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a----~~~~p~vl~iDEid~l~  195 (396)
                      ..+|+++||+||||||||++|+++|++++.+++.++++++.+.+.|+.+..++.+|..+    +...|+||||||+|.+.
T Consensus        33 ~~~p~~lLl~GppGtGKT~la~aiA~~l~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a~~~~~~~~~~vl~iDEiD~~~  112 (293)
T 3t15_A           33 IKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGA  112 (293)
T ss_dssp             CCCCSEEEEEECTTSCHHHHHHHHHHHHTCCCEEEEHHHHHCC---HHHHHHHHHHHHHHHHHTTSSCCCEEEECCC---
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhCCCEEEEeHHHhhhccCchhHHHHHHHHHHHHHHHhcCCCeEEEEechhhhc
Confidence            56789999999999999999999999999999999999999999999999999999888    46689999999999998


Q ss_pred             cCCCCCch--HHHHhhHHHHHHHhhccC---------cCCCCcEEEEEecCCCCCCcHHHHh--ccCCceEeCCCCHHHH
Q 016044          196 GQRRTSDH--EALTNMKTEFMALWDGFT---------TDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDRKER  262 (396)
Q Consensus       196 ~~~~~~~~--~~~~~~~~~ll~~l~~~~---------~~~~~~v~vI~atn~~~~l~~~l~~--R~~~~i~~~~P~~~er  262 (396)
                      +.......  .....+...++..+|+..         .....+++||+|||.++.++++++|  ||+..+.  .|+.++|
T Consensus       113 ~~~~~~~~~~~~~~~v~~~Ll~~ld~~~~~~~~~~~~~~~~~~v~vI~ttN~~~~ld~al~R~~R~d~~i~--~P~~~~r  190 (293)
T 3t15_A          113 GRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW--APTREDR  190 (293)
T ss_dssp             -----------CHHHHHHHHHHHHHCCC-----------CCCCCCEEEECSSCCC--CHHHHHHHEEEEEE--CCCHHHH
T ss_pred             CCCCCCccccchHHHHHHHHHHHhccccccccccccccccCCCcEEEEecCCcccCCHHHhCCCCCceeEe--CcCHHHH
Confidence            75432211  122345567777777432         1134579999999999999999997  8877776  5799999


Q ss_pred             HHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHH
Q 016044          263 AQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLE  298 (396)
Q Consensus       263 ~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~  298 (396)
                      .+|++.++..    .+++.+.++..+.||++++|..
T Consensus       191 ~~Il~~~~~~----~~~~~~~l~~~~~~~~~~~l~~  222 (293)
T 3t15_A          191 IGVCTGIFRT----DNVPAEDVVKIVDNFPGQSIDF  222 (293)
T ss_dssp             HHHHHHHHGG----GCCCHHHHHHHHHHSCSCCHHH
T ss_pred             HHHHHHhccC----CCCCHHHHHHHhCCCCcccHHH
Confidence            9999988864    3567899999999999998864

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=99.89  E-value=2.7e-25  Score=221.24  Aligned_cols=203  Identities=20%  Similarity=0.219  Sum_probs=140.2

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC--CcEEEEeccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG--AVFINVRISN  158 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~--~~~~~i~~~~  158 (396)
                      ..+...|++|+|++++++.+..++..       +..+  ..+++++||+||||||||++|+++|++++  .+|+.+++++
T Consensus        30 ~~~~~~~~~iiG~~~~~~~l~~~~~~-------~~~~--~~~~~~iLl~GppGtGKT~la~ala~~l~~~~~~~~~~~~~  100 (456)
T 2c9o_A           30 GLAKQAASGLVGQENAREACGVIVEL-------IKSK--KMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSE  100 (456)
T ss_dssp             SCBCSEETTEESCHHHHHHHHHHHHH-------HHTT--CCTTCEEEEECCTTSSHHHHHHHHHHHHCTTSCEEEEEGGG
T ss_pred             cChhhchhhccCHHHHHHHHHHHHHH-------HHhC--CCCCCeEEEECCCcCCHHHHHHHHHHHhCCCceEEEEeHHH
Confidence            34566799999999999999887642       2222  34578999999999999999999999999  9999999999


Q ss_pred             ccchhhchHHHHHHHHHHHH---HHhCCcEEEEccccccccCCCCCchHHH-------------------HhhHHHHHHH
Q 016044          159 LMSKWFGDAQKLVAAVFSLA---YKLQPAIIFIDEVDSFLGQRRTSDHEAL-------------------TNMKTEFMAL  216 (396)
Q Consensus       159 l~~~~~g~~~~~~~~~f~~a---~~~~p~vl~iDEid~l~~~~~~~~~~~~-------------------~~~~~~ll~~  216 (396)
                      +.+++.|+++. +...|..+   +...|++|||||+|.+++++........                   .++...++..
T Consensus       101 ~~~~~~~~~~~-~~~~f~~a~~~~~~~~~il~iDEid~l~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ll~~  179 (456)
T 2c9o_A          101 VYSTEIKKTEV-LMENFRRAIGLRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSIFES  179 (456)
T ss_dssp             GCCSSSCHHHH-HHHHHHHTEEEEEEEEEEEEEEEEEEEEEC--------------CEEEEEEETTEEEEEEECHHHHHH
T ss_pred             HHHHhhhhhHH-HHHHHHHHHhhhhcCCcEEEEechhhcccccCCCCCCCcchHHHHHHHHHhccccchhHhhhHHHHHH
Confidence            99999999987 88899988   6778999999999999987754321110                   1222345555


Q ss_pred             hhccCcCCCCcEEEEEecCCCCCCcHHHHh--ccCC--ceEeCCCC--HHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCC
Q 016044          217 WDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQ--AFEIGMPD--RKERAQILKVILKGEKVEENIDFDYLAGLCEG  290 (396)
Q Consensus       217 l~~~~~~~~~~v~vI~atn~~~~l~~~l~~--R~~~--~i~~~~P~--~~er~~il~~~l~~~~~~~~~~l~~la~~~~g  290 (396)
                      ++......+..++|++|||+++.++++++|  ||+.  .+.++.|+  .++|.+|++.+..       .+++.++..+.|
T Consensus       180 l~~~~~~~~~~v~i~attn~~~~ld~a~~r~~rfd~~~~~~v~~p~~~~~~R~~il~~~~~-------~dl~~~a~~t~g  252 (456)
T 2c9o_A          180 LQKERVEAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPKGDVHKKKEIIQDVTL-------HDLDVANARPQG  252 (456)
T ss_dssp             HHHTTCCTTEEEEEETTTCCEEEEEEETTSCCTTSCSSSSEECCCCSCSEEEEEEEEEEEH-------HHHHHTC-----
T ss_pred             HhhccCCCCCEEEEEcCCCCcccCChhhcCCcccCcceeEecCCCchhHHHHHHHHHHHHH-------HHHHHHHHhCCC
Confidence            543222334456667999999999999876  8988  66778774  4777777765543       267888889999


Q ss_pred             CcHHHHHHHHHH
Q 016044          291 FTGSDLLEVCKQ  302 (396)
Q Consensus       291 ~s~~di~~l~~~  302 (396)
                        |+||.++|..
T Consensus       253 --gadl~~l~~~  262 (456)
T 2c9o_A          253 --GQDILSMMGQ  262 (456)
T ss_dssp             ------------
T ss_pred             --hhHHHHHHhh
Confidence              9999999954

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=99.89  E-value=1.9e-23  Score=197.21  Aligned_cols=215  Identities=17%  Similarity=0.174  Sum_probs=160.6

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCC--CCCCCceEEEECCCCCcHHHHHHHHHHHc-------CCcEEEEecccc
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGK--LLGPQKGVLLYGPPGTGKTMLAKAIAKES-------GAVFINVRISNL  159 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~--~~~~~~~vLL~GppGtGKT~la~ala~~~-------~~~~~~i~~~~l  159 (396)
                      +|+|++++++.+.+.+..+.. +..+...+  ...++.++||+||||||||++|+++|+.+       +.+++.++++++
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~-~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l  110 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLV-ERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDL  110 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHH-HHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGT
T ss_pred             HccChHHHHHHHHHHHHHHHh-HHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHh
Confidence            799999999999998876442 33332211  12345679999999999999999999987       348999999999


Q ss_pred             cchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC-
Q 016044          160 MSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS-  238 (396)
Q Consensus       160 ~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~-  238 (396)
                      .+.+.|.....+..+|..+   .+++|||||+|.+...+....  ........++..++..    ..++++|+++|.+. 
T Consensus       111 ~~~~~g~~~~~~~~~~~~~---~~~vl~iDEid~l~~~~~~~~--~~~~~~~~Ll~~l~~~----~~~~~~i~~~~~~~~  181 (309)
T 3syl_A          111 VGQYIGHTAPKTKEVLKRA---MGGVLFIDEAYYLYRPDNERD--YGQEAIEILLQVMENN----RDDLVVILAGYADRM  181 (309)
T ss_dssp             CCSSTTCHHHHHHHHHHHH---TTSEEEEETGGGSCCCC---C--CTHHHHHHHHHHHHHC----TTTCEEEEEECHHHH
T ss_pred             hhhcccccHHHHHHHHHhc---CCCEEEEEChhhhccCCCccc--ccHHHHHHHHHHHhcC----CCCEEEEEeCChHHH
Confidence            9999999888888888766   568999999999976543211  1233455666666643    45678899988653 


Q ss_pred             ----CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHh-------CCCCcHHHHHHHHHHHHHH
Q 016044          239 ----ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGL-------CEGFTGSDLLEVCKQAAYF  306 (396)
Q Consensus       239 ----~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~-------~~g~s~~di~~l~~~A~~~  306 (396)
                          .+++++++||+..+.|++|+.+++..|++.++...... .+..+..++..       ...-+++++.++++.|...
T Consensus       182 ~~~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~gn~r~l~~~l~~a~~~  261 (309)
T 3syl_A          182 ENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALRAYIGLRRNQPHFANARSIRNALDRARLR  261 (309)
T ss_dssp             HHHHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHTTSSSCCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhccCCCCCcHHHHHHHHHHHHHH
Confidence                35789999999999999999999999999999765543 11224455554       2223578999999999998


Q ss_pred             HHHHHHH
Q 016044          307 SIRELLD  313 (396)
Q Consensus       307 a~~~~~~  313 (396)
                      +..+...
T Consensus       262 ~~~r~~~  268 (309)
T 3syl_A          262 QANRLFT  268 (309)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            8888765

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=99.87  E-value=4e-21  Score=185.71  Aligned_cols=221  Identities=19%  Similarity=0.230  Sum_probs=155.2

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCC--cEEEEeccccc
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA--VFINVRISNLM  160 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~--~~~~i~~~~l~  160 (396)
                      |..+|++++|++.+++.+..+..       ....+  ..+++++||+||||||||++|+++++.++.  +++.+++..+.
T Consensus        39 p~~~~~~ivG~~~~~~~l~~l~~-------~~~~~--~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~~~~~~~~~~  109 (368)
T 3uk6_A           39 PRQASQGMVGQLAARRAAGVVLE-------MIREG--KIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIF  109 (368)
T ss_dssp             BCSEETTEESCHHHHHHHHHHHH-------HHHTT--CCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCEEEEEGGGGS
T ss_pred             cCcchhhccChHHHHHHHHHHHH-------HHHcC--CCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCcccccchhhh
Confidence            44569999999999998765543       22222  234579999999999999999999999874  78888876644


Q ss_pred             chhhchH-------------------------------------------------HHHHHHHHHHHHH----h-----C
Q 016044          161 SKWFGDA-------------------------------------------------QKLVAAVFSLAYK----L-----Q  182 (396)
Q Consensus       161 ~~~~g~~-------------------------------------------------~~~~~~~f~~a~~----~-----~  182 (396)
                      ..+.+..                                                 ...++..+..+..    .     .
T Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~  189 (368)
T 3uk6_A          110 SLEMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEII  189 (368)
T ss_dssp             CSSSCHHHHHHHHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---C
T ss_pred             hcccchhHHHHHHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhcccccc
Confidence            4332221                                                 2223333333221    1     1


Q ss_pred             CcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEec-----------CCCCCCcHHHHhccCCc
Q 016044          183 PAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAAT-----------NRPSELDEAILRRLPQA  251 (396)
Q Consensus       183 p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~at-----------n~~~~l~~~l~~R~~~~  251 (396)
                      |+||||||+|.+..           ...+.++..++.    ...+++++++.           |.+..+++++++|| ..
T Consensus       190 ~~vl~IDEi~~l~~-----------~~~~~L~~~le~----~~~~~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~-~~  253 (368)
T 3uk6_A          190 PGVLFIDEVHMLDI-----------ESFSFLNRALES----DMAPVLIMATNRGITRIRGTSYQSPHGIPIDLLDRL-LI  253 (368)
T ss_dssp             BCEEEEESGGGSBH-----------HHHHHHHHHTTC----TTCCEEEEEESCSEEECBTSSCEEETTCCHHHHTTE-EE
T ss_pred             CceEEEhhccccCh-----------HHHHHHHHHhhC----cCCCeeeeecccceeeeeccCCCCcccCCHHHHhhc-cE
Confidence            67999999999832           122344444433    23345555554           35778999999999 55


Q ss_pred             eEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHH
Q 016044          252 FEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRL  330 (396)
Q Consensus       252 i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~  330 (396)
                      +.|++|+.+++.++++..+...... ++..++.++..+.+.+++++.++|+.|...|..+            ....|+.+
T Consensus       254 i~~~~~~~~e~~~il~~~~~~~~~~~~~~~l~~l~~~~~~G~~r~~~~ll~~a~~~A~~~------------~~~~It~~  321 (368)
T 3uk6_A          254 VSTTPYSEKDTKQILRIRCEEEDVEMSEDAYTVLTRIGLETSLRYAIQLITAASLVCRKR------------KGTEVQVD  321 (368)
T ss_dssp             EEECCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHT------------TCSSBCHH
T ss_pred             EEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHh------------CCCCCCHH
Confidence            8999999999999999988754433 2223677888888568899999999998877654            12679999


Q ss_pred             HHHHHHHhcc
Q 016044          331 DLEKVLTTSR  340 (396)
Q Consensus       331 d~~~al~~~~  340 (396)
                      |+.+++..+-
T Consensus       322 ~v~~a~~~~~  331 (368)
T 3uk6_A          322 DIKRVYSLFL  331 (368)
T ss_dssp             HHHHHHHHSB
T ss_pred             HHHHHHHHhc
Confidence            9999998743

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=99.85  E-value=3.2e-20  Score=177.39  Aligned_cols=218  Identities=19%  Similarity=0.204  Sum_probs=155.4

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS  161 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~  161 (396)
                      ..+.+|++++|++.+++.+..++.....      .   ..++.++||+||||||||++|+++++.++.+|+.++|+.+..
T Consensus        23 ~~p~~~~~iiG~~~~~~~l~~~l~~~~~------~---~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~~~~~~~~~~~   93 (338)
T 3pfi_A           23 LRPSNFDGYIGQESIKKNLNVFIAAAKK------R---NECLDHILFSGPAGLGKTTLANIISYEMSANIKTTAAPMIEK   93 (338)
T ss_dssp             CCCCSGGGCCSCHHHHHHHHHHHHHHHH------T---TSCCCCEEEECSTTSSHHHHHHHHHHHTTCCEEEEEGGGCCS
T ss_pred             cCCCCHHHhCChHHHHHHHHHHHHHHHh------c---CCCCCeEEEECcCCCCHHHHHHHHHHHhCCCeEEecchhccc
Confidence            4456899999999999999888764211      1   123578999999999999999999999999999999977632


Q ss_pred             hhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCc--------------CCCCc
Q 016044          162 KWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTT--------------DQNAR  227 (396)
Q Consensus       162 ~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~--------------~~~~~  227 (396)
                      .      ..+...+..  ...+++|||||+|.+...           ....++..++....              ....+
T Consensus        94 ~------~~~~~~~~~--~~~~~vl~lDEi~~l~~~-----------~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~  154 (338)
T 3pfi_A           94 S------GDLAAILTN--LSEGDILFIDEIHRLSPA-----------IEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPK  154 (338)
T ss_dssp             H------HHHHHHHHT--CCTTCEEEEETGGGCCHH-----------HHHHHHHHHHTSCC---------CCCCCCCCCC
T ss_pred             h------hHHHHHHHh--ccCCCEEEEechhhcCHH-----------HHHHHHHHHHhccchhhcccCccccceecCCCC
Confidence            1      112222221  246799999999998421           22234444433210              01125


Q ss_pred             EEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHH
Q 016044          228 VMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYF  306 (396)
Q Consensus       228 v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~  306 (396)
                      +++|++||....+++++++||+..+.+++|+.+++..+++..+...... .+..++.++..+.| +++++.++++.+...
T Consensus       155 ~~~i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~~~~~~~~~~~l~~~~~G-~~r~l~~~l~~~~~~  233 (338)
T 3pfi_A          155 FTLIGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLNKTCEEKAALEIAKRSRS-TPRIALRLLKRVRDF  233 (338)
T ss_dssp             CEEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCEECHHHHHHHHHTTTT-CHHHHHHHHHHHHHH
T ss_pred             eEEEEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHCc-CHHHHHHHHHHHHHH
Confidence            8999999999999999999999999999999999999999998765543 22236677776666 567888888877655


Q ss_pred             HHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhcc
Q 016044          307 SIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSR  340 (396)
Q Consensus       307 a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~  340 (396)
                      +...            ....|+.+++..++....
T Consensus       234 a~~~------------~~~~i~~~~~~~~~~~~~  255 (338)
T 3pfi_A          234 ADVN------------DEEIITEKRANEALNSLG  255 (338)
T ss_dssp             HHHT------------TCSEECHHHHHHHHHHHT
T ss_pred             HHhh------------cCCccCHHHHHHHHHHhC
Confidence            4321            114578888888776543

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=99.85  E-value=6.1e-21  Score=179.71  Aligned_cols=246  Identities=22%  Similarity=0.254  Sum_probs=159.7

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc-hhhch
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS-KWFGD  166 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~-~~~g~  166 (396)
                      ++|+|++.+++.+...+..+..+............+.++||+||||||||++|+++++.++.+++.++|+.+.. .+.+.
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~i~~~~~~~~~~~~~   94 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   94 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGG
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEEEcchhcccCCccCc
Confidence            35899999999998887654332222111000124678999999999999999999999999999999988865 34442


Q ss_pred             -HHHHHHHHHHHH-----HHhCCcEEEEccccccccCCCCCchHHHH-hhHHHHHHHhhccCc------CCCCcEEEEEe
Q 016044          167 -AQKLVAAVFSLA-----YKLQPAIIFIDEVDSFLGQRRTSDHEALT-NMKTEFMALWDGFTT------DQNARVMVLAA  233 (396)
Q Consensus       167 -~~~~~~~~f~~a-----~~~~p~vl~iDEid~l~~~~~~~~~~~~~-~~~~~ll~~l~~~~~------~~~~~v~vI~a  233 (396)
                       ....+..++..+     ....++||||||+|.+............. .+.+.++..+++...      ....++++|++
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~~i~~  174 (310)
T 1ofh_A           95 EVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIAS  174 (310)
T ss_dssp             STTHHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEE
T ss_pred             cHHHHHHHHHHHhhHHHhhccCCCEEEEEChhhcCccccccccchhHHHHHHHHHHHhcCCeEecccccccCCcEEEEEc
Confidence             223444444421     11235899999999997765433322222 234566776765311      01346788888


Q ss_pred             ----cCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHh-----------cCCCCC---CCCCHHHHHHhCC------
Q 016044          234 ----TNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVIL-----------KGEKVE---ENIDFDYLAGLCE------  289 (396)
Q Consensus       234 ----tn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l-----------~~~~~~---~~~~l~~la~~~~------  289 (396)
                          ++.+..+++++++||+..+.|++|+.+++.+|++..+           ......   ++-.++.+++.+.      
T Consensus       175 ~~~~~~~~~~l~~~l~~R~~~~i~~~~~~~~~~~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~  254 (310)
T 1ofh_A          175 GAFQVARPSDLIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKT  254 (310)
T ss_dssp             ECCSSSCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHHTTCEEEECHHHHHHHHHHHHHHHHHS
T ss_pred             CCcccCCcccCCHHHHhhCCceEEcCCcCHHHHHHHHHhhHHHHHHHHHHHHHhcCCeeccCHHHHHHHHHHhhhhcccc
Confidence                4567889999999998889999999999999998421           111111   1122555666551      


Q ss_pred             -CCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          290 -GFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       290 -g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                       +...+++.++++.+...+..+...      .......|+.+|+..++...
T Consensus       255 ~~g~~R~l~~~l~~~~~~~~~~~~~------~~~~~~~i~~~~v~~~l~~~  299 (310)
T 1ofh_A          255 ENIGARRLHTVMERLMDKISFSASD------MNGQTVNIDAAYVADALGEV  299 (310)
T ss_dssp             CCCTTHHHHHHHHHHSHHHHHHGGG------CTTCEEEECHHHHHHHTCSS
T ss_pred             cccCcHHHHHHHHHHHHhhhcCCcc------ccCCEEEEeeHHHHHHHHhh
Confidence             346677888877766554322210      11222359999999988764

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=99.83  E-value=1.3e-21  Score=198.21  Aligned_cols=234  Identities=18%  Similarity=0.231  Sum_probs=147.4

Q ss_pred             cccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc---
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS---  161 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~---  161 (396)
                      .-+++++|++++++.+.+.+.......        ..++..++|+||||||||++|++++..++.++..+++..+..   
T Consensus        78 ~l~~di~G~~~vk~~i~~~~~l~~~~~--------~~~g~~vll~Gp~GtGKTtlar~ia~~l~~~~~~i~~~~~~~~~~  149 (543)
T 3m6a_A           78 LLDEEHHGLEKVKERILEYLAVQKLTK--------SLKGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESE  149 (543)
T ss_dssp             THHHHCSSCHHHHHHHHHHHHHHHHSS--------SCCSCEEEEESSSSSSHHHHHHHHHHHHTCEEEEECCCC------
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHhcc--------cCCCCEEEEECCCCCCHHHHHHHHHHhcCCCeEEEEecccchhhh
Confidence            345679999999999987665421111        114568999999999999999999999999999999876543   


Q ss_pred             ------hhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCc-----------CC
Q 016044          162 ------KWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTT-----------DQ  224 (396)
Q Consensus       162 ------~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~-----------~~  224 (396)
                            .+.|.....+...|..+.... +|+||||+|.+....+....       ..++..++....           ..
T Consensus       150 ~~g~~~~~ig~~~~~~~~~~~~a~~~~-~vl~lDEid~l~~~~~~~~~-------~~LL~~ld~~~~~~~~~~~~~~~~~  221 (543)
T 3m6a_A          150 IRGHRRTYVGAMPGRIIQGMKKAGKLN-PVFLLDEIDKMSSDFRGDPS-------SAMLEVLDPEQNSSFSDHYIEETFD  221 (543)
T ss_dssp             --------------CHHHHHHTTCSSS-EEEEEEESSSCC----------------CCGGGTCTTTTTBCCCSSSCCCCB
T ss_pred             hhhHHHHHhccCchHHHHHHHHhhccC-CEEEEhhhhhhhhhhccCHH-------HHHHHHHhhhhcceeecccCCeeec
Confidence                  455555555666666554444 49999999999765432211       233333432110           01


Q ss_pred             CCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhc-----CCCCC---CCCC---HHHHHHhCCC-Cc
Q 016044          225 NARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILK-----GEKVE---ENID---FDYLAGLCEG-FT  292 (396)
Q Consensus       225 ~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~-----~~~~~---~~~~---l~~la~~~~g-~s  292 (396)
                      ..++++|+|||+++.++++|++|| ..+.++.|+.+++..|++.++.     .....   -.++   +..++....+ ..
T Consensus       222 ~~~v~iI~ttN~~~~l~~aL~~R~-~vi~~~~~~~~e~~~Il~~~l~~~~~~~~~~~~~~i~i~~~~l~~l~~~~~~~~~  300 (543)
T 3m6a_A          222 LSKVLFIATANNLATIPGPLRDRM-EIINIAGYTEIEKLEIVKDHLLPKQIKEHGLKKSNLQLRDQAILDIIRYYTREAG  300 (543)
T ss_dssp             CSSCEEEEECSSTTTSCHHHHHHE-EEEECCCCCHHHHHHHHHHTHHHHHHHHTTCCGGGCEECHHHHHHHHHHHCCCSS
T ss_pred             ccceEEEeccCccccCCHHHHhhc-ceeeeCCCCHHHHHHHHHHHHHHHHHHHcCCCcccccCCHHHHHHHHHhCChhhc
Confidence            156899999999999999999999 5899999999999999998762     22221   1122   3444443332 33


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhccc
Q 016044          293 GSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRK  341 (396)
Q Consensus       293 ~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~~  341 (396)
                      .++|++.+..+...+..+....      ......|+.+|+.+++...+.
T Consensus       301 vR~L~~~i~~~~~~aa~~~~~~------~~~~~~It~~~l~~~Lg~~~~  343 (543)
T 3m6a_A          301 VRSLERQLAAICRKAAKAIVAE------ERKRITVTEKNLQDFIGKRIF  343 (543)
T ss_dssp             SHHHHHHHHHHHHHHHHHHHTT------CCSCCEECTTTTHHHHCSCCS
T ss_pred             hhHHHHHHHHHHHHHHHHHHhc------CCcceecCHHHHHHHhCCccc
Confidence            4566655555554444443321      123356899999999876543

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=99.81  E-value=1.6e-19  Score=171.35  Aligned_cols=218  Identities=22%  Similarity=0.229  Sum_probs=151.6

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS  161 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~  161 (396)
                      ..+.+|++++|.+..++.+...+....      ...   .++.+++|+||||||||++|+++++.++.+++.++|+.+..
T Consensus         6 ~~p~~~~~~ig~~~~~~~l~~~l~~~~------~~~---~~~~~vll~G~~GtGKT~la~~i~~~~~~~~~~~~~~~~~~   76 (324)
T 1hqc_A            6 LRPKTLDEYIGQERLKQKLRVYLEAAK------ARK---EPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEK   76 (324)
T ss_dssp             CCCCSTTTCCSCHHHHHHHHHHHHHHH------HHC---SCCCCCEEECCTTCCCHHHHHHHHHHHTCCEEEECTTTCCS
T ss_pred             cCcccHHHhhCHHHHHHHHHHHHHHHH------ccC---CCCCcEEEECCCCCCHHHHHHHHHHHhCCCEEEEeccccCC
Confidence            345689999999999999988775311      111   23578999999999999999999999999999999887633


Q ss_pred             hhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCc------C--------CCCc
Q 016044          162 KWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTT------D--------QNAR  227 (396)
Q Consensus       162 ~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~------~--------~~~~  227 (396)
                      .      ..+...+..+ ...+++|||||+|.+...           ....++..++....      .        ...+
T Consensus        77 ~------~~l~~~l~~~-~~~~~~l~lDEi~~l~~~-----------~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~  138 (324)
T 1hqc_A           77 P------GDLAAILANS-LEEGDILFIDEIHRLSRQ-----------AEEHLYPAMEDFVMDIVIGQGPAARTIRLELPR  138 (324)
T ss_dssp             H------HHHHHHHTTT-CCTTCEEEETTTTSCCHH-----------HHHHHHHHHHHSEEEECCSSSSSCCCEEEECCC
T ss_pred             h------HHHHHHHHHh-ccCCCEEEEECCcccccc-----------hHHHHHHHHHhhhhHHhccccccccccccCCCC
Confidence            1      1122222210 135789999999988421           11233333332210      0        1135


Q ss_pred             EEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHH
Q 016044          228 VMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYF  306 (396)
Q Consensus       228 v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~  306 (396)
                      +.+|++||.++.+++++++||...+.+++|+.+++..+++.++...... .+..++.++..+.| .++++.++++.+...
T Consensus       139 ~~~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G-~~r~l~~~l~~~~~~  217 (324)
T 1hqc_A          139 FTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRG-TMRVAKRLFRRVRDF  217 (324)
T ss_dssp             CEEEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHSCS-CHHHHHHHHHHHTTT
T ss_pred             EEEEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHccC-CHHHHHHHHHHHHHH
Confidence            7899999999999999999998899999999999999999998765443 22236778888876 457777777765433


Q ss_pred             HHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          307 SIRELLDEERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       307 a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                      +..            .....|+.+++..++...
T Consensus       218 a~~------------~~~~~i~~~~~~~~~~~~  238 (324)
T 1hqc_A          218 AQV------------AGEEVITRERALEALAAL  238 (324)
T ss_dssp             STT------------TSCSCCCHHHHHHHHHHH
T ss_pred             HHH------------hcCCCCCHHHHHHHHHHh
Confidence            221            122468888888777654

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=99.81  E-value=7.2e-20  Score=176.83  Aligned_cols=241  Identities=18%  Similarity=0.253  Sum_probs=156.2

Q ss_pred             ccChHHHHHHHHHHHHccccChhhhhc-CCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch-hhchH
Q 016044           90 IGGLETIKQALYELVILPLRRPELFSH-GKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK-WFGDA  167 (396)
Q Consensus        90 i~G~~~~k~~l~~~v~~~l~~~~~~~~-~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~-~~g~~  167 (396)
                      |+|++.+++.+...+............ .....++.++||+||||||||++|+++|+.++.+|+.++|+.+... +.|..
T Consensus        17 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~~~~~~~~~~~~l~~~~~~g~~   96 (363)
T 3hws_A           17 VIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGED   96 (363)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHTTCHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHcCCCEEEechHHhccccccccc
Confidence            699999999999887543322221111 1112356899999999999999999999999999999999988754 66665


Q ss_pred             -HHHHHHHHHHH----HHhCCcEEEEccccccccCCCCCc---hHHHHhhHHHHHHHhhccCc-----------------
Q 016044          168 -QKLVAAVFSLA----YKLQPAIIFIDEVDSFLGQRRTSD---HEALTNMKTEFMALWDGFTT-----------------  222 (396)
Q Consensus       168 -~~~~~~~f~~a----~~~~p~vl~iDEid~l~~~~~~~~---~~~~~~~~~~ll~~l~~~~~-----------------  222 (396)
                       ...+..++..+    ....++||||||+|.+...+....   .....++.+.|+..+++...                 
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~vl~lDEid~l~~~~~~~~~~~~~~~~~~~~~Ll~~leg~~~~~~~~~~~~~~~~~~~~  176 (363)
T 3hws_A           97 VENIIQKLLQKCDYDVQKAQRGIVYIDQIDKISRKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQGGRKHPQQEFLQ  176 (363)
T ss_dssp             HTHHHHHHHHHTTTCHHHHHHCEEEEECHHHHCCCSSCC---CHHHHHHHHHHHHHHHHCC----------------CCC
T ss_pred             HHHHHHHHHHHhhhhHHhcCCcEEEEeChhhhcccccccccccccchHHHHHHHHHHhcCceeeccCccccccCCCceEE
Confidence             45566666654    334568999999999987654332   22223467788888874310                 


Q ss_pred             CCCCcEEEEEecCCC----------CC-----------------------------------CcHHHHhccCCceEeCCC
Q 016044          223 DQNARVMVLAATNRP----------SE-----------------------------------LDEAILRRLPQAFEIGMP  257 (396)
Q Consensus       223 ~~~~~v~vI~atn~~----------~~-----------------------------------l~~~l~~R~~~~i~~~~P  257 (396)
                      -...++++|+++|..          ..                                   +.++|++||+..+.|++|
T Consensus       177 i~tsn~~~i~~g~~~~l~~~i~~~~~~~~~~gf~~~~~~~~~~~~~~~l~~~v~~~~l~~~~~~~~l~~R~~~~~~~~pl  256 (363)
T 3hws_A          177 VDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGELLAQVEPEDLIKFGLIPEFIGRLPVVATLNEL  256 (363)
T ss_dssp             CCTTSSEEEEEECCTTHHHHHHHHHCCCC------------CCSCHHHHHHTCCHHHHHHHTCCHHHHTTCCEEEECCCC
T ss_pred             EECCCceEEecCCcHHHHHHHHHhhhccccCCccccccccccchhhHHHHHhCCHHHHHHcCCCHHHhcccCeeeecCCC
Confidence            012334455555432          11                                   789999999999999999


Q ss_pred             CHHHHHHHHHH----Hh-------cCCCCCCCCC---HHHHHHh--CCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Q 016044          258 DRKERAQILKV----IL-------KGEKVEENID---FDYLAGL--CEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPA  321 (396)
Q Consensus       258 ~~~er~~il~~----~l-------~~~~~~~~~~---l~~la~~--~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~  321 (396)
                      +.+++.+|+..    ++       ........++   ++.|++.  ...+..++|+++++.+...++.+....     ..
T Consensus       257 ~~~~~~~I~~~~~~~l~~~~~~~~~~~~~~l~~~~~a~~~L~~~~~~~~~gaR~L~~~ie~~~~~~l~~~~~~-----~~  331 (363)
T 3hws_A          257 SEEALIQILKEPKNALTKQYQALFNLEGVDLEFRDEALDAIAKKAMARKTGARGLRSIVEAALLDTMYDLPSM-----ED  331 (363)
T ss_dssp             CHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTTTTHHHHHHHHHHHHHHSTTTC-----CC
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHhcCceEEECHHHHHHHHHhhcCCccCchHHHHHHHHHHHHHHHhcccc-----cC
Confidence            99999999886    22       1112211122   4555542  234555788888888877766543211     01


Q ss_pred             CCCCCCCHHHHHHH
Q 016044          322 AAPRPLSRLDLEKV  335 (396)
Q Consensus       322 ~~~~~i~~~d~~~a  335 (396)
                      .....|+.+++++.
T Consensus       332 ~~~~~I~~~~v~~~  345 (363)
T 3hws_A          332 VEKVVIDESVIDGQ  345 (363)
T ss_dssp             SEEEECHHHHTTCC
T ss_pred             CceeEEcHHHHhCc
Confidence            12345777776654

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=99.80  E-value=1.4e-18  Score=169.69  Aligned_cols=245  Identities=22%  Similarity=0.283  Sum_probs=160.1

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccc-hhhch
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMS-KWFGD  166 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~-~~~g~  166 (396)
                      ++|+|++++|+.+...+..+.+++..+.......+++++||+||||||||++|+++|..++.+|+.++++.+.. .|.|.
T Consensus        15 ~~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~~~~~v~~~~~~~~g~vG~   94 (444)
T 1g41_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGK   94 (444)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC----CCC
T ss_pred             HHhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCCCceeecchhhcccceeec
Confidence            36899999999999999887777766654432345789999999999999999999999999999999988877 47763


Q ss_pred             -HHHHHHHHHHHHH------------------------------------------------------------------
Q 016044          167 -AQKLVAAVFSLAY------------------------------------------------------------------  179 (396)
Q Consensus       167 -~~~~~~~~f~~a~------------------------------------------------------------------  179 (396)
                       .+..++.+|..+.                                                                  
T Consensus        95 d~e~~lr~lf~~a~~~~~~De~d~~~~~~~~~~e~rvl~~LL~~~dg~~~~~~v~a~~TN~~~~ld~aL~rggr~D~~i~  174 (444)
T 1g41_A           95 EVDSIIRDLTDSAMKLVRQQEIAKNRARAEDVAEERILDALLPPAKNQWGEVENHDSHSSTRQAFRKKLREGQLDDKEIE  174 (444)
T ss_dssp             CTHHHHHHHHHHHHHHHHHHHHHSCC------------------------------------------------------
T ss_pred             cHHHHHHHHHHHHHhcchhhhhhhhhccchhhHHHHHHHHHHHHhhccccccccccccccCHHHHHHHHHcCCCcceEEE
Confidence             4555554443320                                                                  


Q ss_pred             ------------------------------------------------------------------------H-hCCcEE
Q 016044          180 ------------------------------------------------------------------------K-LQPAII  186 (396)
Q Consensus       180 ------------------------------------------------------------------------~-~~p~vl  186 (396)
                                                                                              . ...+++
T Consensus       175 i~lP~~~~~~~ei~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~v~~a~~~l~~~e~~~l~~~~~~~~~ai~~ae~~~il  254 (444)
T 1g41_A          175 IDVSAGVSMGVEIMAPPGMEEMTNQLQSLFQNLGSDKTKKRKMKIKDALKALIDDEAAKLINPEELKQKAIDAVEQNGIV  254 (444)
T ss_dssp             ---------------------------------------------------CCGGGSCSSCCHHHHHHHHHHHHHHHCEE
T ss_pred             EcCCCCccchhhhhcCCChHHHHHHHHHHHHhhcCCCCcceeeeHHHHHHHHHHHHHHHccCHHHHHHHHHHHhccCCee
Confidence                                                                                    0 123699


Q ss_pred             EEccccccccCCCCCchH-HHHhhHHHHHHHhhccCc------CCCCcEEEEEec----CCCCCCcHHHHhccCCceEeC
Q 016044          187 FIDEVDSFLGQRRTSDHE-ALTNMKTEFMALWDGFTT------DQNARVMVLAAT----NRPSELDEAILRRLPQAFEIG  255 (396)
Q Consensus       187 ~iDEid~l~~~~~~~~~~-~~~~~~~~ll~~l~~~~~------~~~~~v~vI~at----n~~~~l~~~l~~R~~~~i~~~  255 (396)
                      ++||+|.+..+......+ ....+...|+..+++...      .+..++++|+|.    +.|.++.|.|+.||+.++.|+
T Consensus       255 ~~DEidki~~~~~~~~~D~s~egvq~aLL~~le~~~~~~~~~~~d~~~ilfI~~gaf~~~~~~dlipel~~R~~i~i~l~  334 (444)
T 1g41_A          255 FIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQGRLPIRVELT  334 (444)
T ss_dssp             EEETGGGGSCCSSCSSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEECCSSCCGGGSCHHHHTTCCEEEECC
T ss_pred             eHHHHHHHhhccCCCCCCchHHHHHHHHHHHhcccccccccceecCCcEEEEeccccccCChhhcchHHhcccceeeeCC
Confidence            999999998664322222 223355678888886321      124578899887    244556689999998889999


Q ss_pred             CCCHHHHHHHHHH-----------HhcCCCCC---CCCCHHHHHHh-------CCCCcHHHHHHHHHHHHHHHHHHHHHH
Q 016044          256 MPDRKERAQILKV-----------ILKGEKVE---ENIDFDYLAGL-------CEGFTGSDLLEVCKQAAYFSIRELLDE  314 (396)
Q Consensus       256 ~P~~~er~~il~~-----------~l~~~~~~---~~~~l~~la~~-------~~g~s~~di~~l~~~A~~~a~~~~~~~  314 (396)
                      .++.++...|+..           .+......   .+-.+..+++.       +...-.+.|+.++.........+... 
T Consensus       335 ~lt~~e~~~Il~~~~~~l~~q~~~~~~~~~~~l~~~~~al~~i~~~a~~~~~~t~~~GaR~L~~~ie~~~~~~~~~~~~-  413 (444)
T 1g41_A          335 ALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMERLMDKISFSASD-  413 (444)
T ss_dssp             CCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHHHHHSCCCGGGHHHHHHHHHHHHHHHHGGG-
T ss_pred             CCCHHHHHHHHHHHHHhHHHHHHHHhcccCceEEECHHHHHHHHHHHHHhccCCccCCchHHHHHHHHHHHHHHhhccc-
Confidence            9999999999941           11111111   11124444442       34444445555555544443333221 


Q ss_pred             HhcCCCCCCCCCCCHHHHHHHHHh
Q 016044          315 ERKGKPAAAPRPLSRLDLEKVLTT  338 (396)
Q Consensus       315 ~~~~~~~~~~~~i~~~d~~~al~~  338 (396)
                           .......|+.+++.+.+..
T Consensus       414 -----~~~~~~~i~~~~v~~~l~~  432 (444)
T 1g41_A          414 -----MNGQTVNIDAAYVADALGE  432 (444)
T ss_dssp             -----CTTCEEEECHHHHHHHHTT
T ss_pred             -----cCCCeEEEeHHHHHHhcCc
Confidence                 1123456888888876654

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=99.80  E-value=1e-18  Score=172.65  Aligned_cols=206  Identities=21%  Similarity=0.287  Sum_probs=140.9

Q ss_pred             CcccccccChHHHH---HHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           84 DVEFESIGGLETIK---QALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        84 ~~~~~~i~G~~~~k---~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.+|++++|++.++   +.|...+..          +.    .+++||+||||||||++|+++++.++.+|+.+++....
T Consensus        22 P~~l~~ivGq~~~~~~~~~L~~~i~~----------~~----~~~vLL~GppGtGKTtlAr~ia~~~~~~f~~l~a~~~~   87 (447)
T 3pvs_A           22 PENLAQYIGQQHLLAAGKPLPRAIEA----------GH----LHSMILWGPPGTGKTTLAEVIARYANADVERISAVTSG   87 (447)
T ss_dssp             CCSTTTCCSCHHHHSTTSHHHHHHHH----------TC----CCEEEEECSTTSSHHHHHHHHHHHTTCEEEEEETTTCC
T ss_pred             CCCHHHhCCcHHHHhchHHHHHHHHc----------CC----CcEEEEECCCCCcHHHHHHHHHHHhCCCeEEEEeccCC
Confidence            46899999999999   667665542          21    36899999999999999999999999999999875532


Q ss_pred             chhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEec--
Q 016044          161 SKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAAT--  234 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~at--  234 (396)
                      .       ..++.++..+.    ...+++|||||+|.+....+.           .|+..++.      ..+++|++|  
T Consensus        88 ~-------~~ir~~~~~a~~~~~~~~~~iLfIDEI~~l~~~~q~-----------~LL~~le~------~~v~lI~att~  143 (447)
T 3pvs_A           88 V-------KEIREAIERARQNRNAGRRTILFVDEVHRFNKSQQD-----------AFLPHIED------GTITFIGATTE  143 (447)
T ss_dssp             H-------HHHHHHHHHHHHHHHTTCCEEEEEETTTCC-----------------CCHHHHHT------TSCEEEEEESS
T ss_pred             H-------HHHHHHHHHHHHhhhcCCCcEEEEeChhhhCHHHHH-----------HHHHHHhc------CceEEEecCCC
Confidence            1       22333444333    346799999999998544332           23333432      346677666  


Q ss_pred             CCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCC-------C-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHH
Q 016044          235 NRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKV-------E-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYF  306 (396)
Q Consensus       235 n~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~-------~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~  306 (396)
                      |....+++++++|| .++.+++|+.+++..+++..+.....       . ++..++.++..+.| ..+++.++++.+...
T Consensus       144 n~~~~l~~aL~sR~-~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~G-d~R~lln~Le~a~~~  221 (447)
T 3pvs_A          144 NPSFELNSALLSRA-RVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNG-DARRALNTLEMMADM  221 (447)
T ss_dssp             CGGGSSCHHHHTTE-EEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCS-CHHHHHHHHHHHHHH
T ss_pred             CcccccCHHHhCce-eEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCC-CHHHHHHHHHHHHHh
Confidence            44568999999999 68899999999999999999875221       1 11225677777766 556666777665543


Q ss_pred             HHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          307 SIRELLDEERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       307 a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                      +..          .......|+.+++.+++...
T Consensus       222 a~~----------~~~~~~~It~e~v~~~l~~~  244 (447)
T 3pvs_A          222 AEV----------DDSGKRVLKPELLTEIAGER  244 (447)
T ss_dssp             SCB----------CTTSCEECCHHHHHHHHTCC
T ss_pred             ccc----------ccCCCCccCHHHHHHHHhhh
Confidence            210          00122569999999988754

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=99.79  E-value=7.9e-19  Score=173.52  Aligned_cols=220  Identities=17%  Similarity=0.274  Sum_probs=145.7

Q ss_pred             CCccccccc-C--hHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEE
Q 016044           83 IDVEFESIG-G--LETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINV  154 (396)
Q Consensus        83 ~~~~~~~i~-G--~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i  154 (396)
                      +..+|++++ |  +......+......+          +  . +++++|+||||||||++|+++++.+     +.+++.+
T Consensus       100 ~~~tfd~fv~g~~n~~a~~~~~~~a~~~----------~--~-~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v  166 (440)
T 2z4s_A          100 PDYTFENFVVGPGNSFAYHAALEVAKHP----------G--R-YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYI  166 (440)
T ss_dssp             TTCSGGGCCCCTTTHHHHHHHHHHHHST----------T--S-SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEE
T ss_pred             CCCChhhcCCCCchHHHHHHHHHHHhCC----------C--C-CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEe
Confidence            456899987 5  344444444433321          1  1 4689999999999999999999987     8889999


Q ss_pred             ecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEec
Q 016044          155 RISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAAT  234 (396)
Q Consensus       155 ~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~at  234 (396)
                      ++..+...+.+.........|.......+++|||||+|.+.+...         ....++..++....  .+..+|+++.
T Consensus       167 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vL~IDEi~~l~~~~~---------~q~~l~~~l~~l~~--~~~~iIitt~  235 (440)
T 2z4s_A          167 TSEKFLNDLVDSMKEGKLNEFREKYRKKVDILLIDDVQFLIGKTG---------VQTELFHTFNELHD--SGKQIVICSD  235 (440)
T ss_dssp             EHHHHHHHHHHHHHTTCHHHHHHHHTTTCSEEEEECGGGGSSCHH---------HHHHHHHHHHHHHT--TTCEEEEEES
T ss_pred             eHHHHHHHHHHHHHcccHHHHHHHhcCCCCEEEEeCcccccCChH---------HHHHHHHHHHHHHH--CCCeEEEEEC
Confidence            998875544433222111223323222679999999999854311         11133333333221  2345556555


Q ss_pred             CCCCC---CcHHHHhccC--CceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHH
Q 016044          235 NRPSE---LDEAILRRLP--QAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSI  308 (396)
Q Consensus       235 n~~~~---l~~~l~~R~~--~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~  308 (396)
                      +.+..   +++++++||.  ..+.+++|+.++|.++++..+....+. ++..+..++..+.| +.+++..+++.+...+.
T Consensus       236 ~~~~~l~~l~~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~i~~e~l~~la~~~~g-n~R~l~~~L~~~~~~a~  314 (440)
T 2z4s_A          236 REPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGELPEEVLNFVAENVDD-NLRRLRGAIIKLLVYKE  314 (440)
T ss_dssp             SCGGGCSSCCHHHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHCCS-CHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHH
Confidence            55554   7899999995  688999999999999999988643332 22337889988876 78899998888776654


Q ss_pred             HHHHHHHhcCCCCCCCCCCCHHHHHHHHHhcc
Q 016044          309 RELLDEERKGKPAAAPRPLSRLDLEKVLTTSR  340 (396)
Q Consensus       309 ~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~  340 (396)
                      ..             ..+|+.+++.++++...
T Consensus       315 ~~-------------~~~It~~~~~~~l~~~~  333 (440)
T 2z4s_A          315 TT-------------GKEVDLKEAILLLKDFI  333 (440)
T ss_dssp             HS-------------SSCCCHHHHHHHTSTTT
T ss_pred             Hh-------------CCCCCHHHHHHHHHHHh
Confidence            21             13578888888777654

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=99.79  E-value=5.9e-18  Score=150.70  Aligned_cols=202  Identities=20%  Similarity=0.214  Sum_probs=139.9

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEec
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVRI  156 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~~  156 (396)
                      ..+.+|++++|.+..++.+.+.+..          .    ...+++|+||||||||++++++++.+     +..++.+++
T Consensus        11 ~~p~~~~~~~g~~~~~~~l~~~l~~----------~----~~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~   76 (226)
T 2chg_A           11 YRPRTLDEVVGQDEVIQRLKGYVER----------K----NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNA   76 (226)
T ss_dssp             TSCSSGGGCCSCHHHHHHHHHHHHT----------T----CCCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEET
T ss_pred             cCCCCHHHHcCcHHHHHHHHHHHhC----------C----CCCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEecc
Confidence            3456899999999999999887642          1    13459999999999999999999875     456888887


Q ss_pred             ccccchhhchHHHHHHHHHHHHH------HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEE
Q 016044          157 SNLMSKWFGDAQKLVAAVFSLAY------KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMV  230 (396)
Q Consensus       157 ~~l~~~~~g~~~~~~~~~f~~a~------~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~v  230 (396)
                      +.....      ..+...+....      ...+.+|+|||+|.+...           ....+...++..    ..++.+
T Consensus        77 ~~~~~~------~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~-----------~~~~l~~~l~~~----~~~~~~  135 (226)
T 2chg_A           77 SDERGI------DVVRHKIKEFARTAPIGGAPFKIIFLDEADALTAD-----------AQAALRRTMEMY----SKSCRF  135 (226)
T ss_dssp             TCTTCH------HHHHHHHHHHHTSCCSTTCSCEEEEEETGGGSCHH-----------HHHHHHHHHHHT----TTTEEE
T ss_pred             ccccCh------HHHHHHHHHHhcccCCCccCceEEEEeChhhcCHH-----------HHHHHHHHHHhc----CCCCeE
Confidence            654322      11111111111      135789999999998431           122344444432    346788


Q ss_pred             EEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHH
Q 016044          231 LAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIR  309 (396)
Q Consensus       231 I~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~  309 (396)
                      |++||.++.+++++.+||. .+.+++|+.++..++++..+...... ++..+..++..+.| ....+.++++.++..+  
T Consensus       136 i~~~~~~~~~~~~l~~r~~-~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~l~~~l~~~~~~~--  211 (226)
T 2chg_A          136 ILSCNYVSRIIEPIQSRCA-VFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGG-DFRKAINALQGAAAIG--  211 (226)
T ss_dssp             EEEESCGGGSCHHHHTTSE-EEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTT-CHHHHHHHHHHHHHTC--
T ss_pred             EEEeCChhhcCHHHHHhCc-eeecCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHHHhcC--
Confidence            8999999999999999995 89999999999999999888643332 22235667777765 4455555555443221  


Q ss_pred             HHHHHHhcCCCCCCCCCCCHHHHHHHHH
Q 016044          310 ELLDEERKGKPAAAPRPLSRLDLEKVLT  337 (396)
Q Consensus       310 ~~~~~~~~~~~~~~~~~i~~~d~~~al~  337 (396)
                                     ..|+.+|+++++.
T Consensus       212 ---------------~~I~~~~v~~~~~  224 (226)
T 2chg_A          212 ---------------EVVDADTIYQITA  224 (226)
T ss_dssp             ---------------SCBCHHHHHHHHH
T ss_pred             ---------------ceecHHHHHHHhc
Confidence                           4699999999876

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=99.79  E-value=3.5e-19  Score=155.03  Aligned_cols=159  Identities=20%  Similarity=0.334  Sum_probs=114.5

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEE
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFIN  153 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~  153 (396)
                      +.+|++++|.++.++.+.+.+..              ..+.+++|+||||||||++|+++++.+          +.+++.
T Consensus        18 ~~~~~~~~g~~~~~~~l~~~l~~--------------~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~~   83 (195)
T 1jbk_A           18 QGKLDPVIGRDEEIRRTIQVLQR--------------RTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLA   83 (195)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHTS--------------SSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEE
T ss_pred             hccccccccchHHHHHHHHHHhc--------------CCCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCcEEE
Confidence            45789999999998888776531              235789999999999999999999986          788899


Q ss_pred             Eeccccc--chhhchHHHHHHHHHHHHHH-hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEE
Q 016044          154 VRISNLM--SKWFGDAQKLVAAVFSLAYK-LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMV  230 (396)
Q Consensus       154 i~~~~l~--~~~~g~~~~~~~~~f~~a~~-~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~v  230 (396)
                      +++..+.  ..+.+.....+..++..+.. ..+.+|+|||+|.+..............   .+...++      ..++.+
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~~~~~---~l~~~~~------~~~~~~  154 (195)
T 1jbk_A           84 LDMGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGN---MLKPALA------RGELHC  154 (195)
T ss_dssp             ECHHHHHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHH---HHHHHHH------TTSCCE
T ss_pred             eeHHHHhccCCccccHHHHHHHHHHHHhhcCCCeEEEEeCHHHHhccCcccchHHHHH---HHHHhhc------cCCeEE
Confidence            9987765  34456666677777775543 4567999999999975542211111111   2222222      345778


Q ss_pred             EEecCCCC-----CCcHHHHhccCCceEeCCCCHHHHHHHH
Q 016044          231 LAATNRPS-----ELDEAILRRLPQAFEIGMPDRKERAQIL  266 (396)
Q Consensus       231 I~atn~~~-----~l~~~l~~R~~~~i~~~~P~~~er~~il  266 (396)
                      |++||.+.     .+++++++||. .+.+++|+.+++.+++
T Consensus       155 i~~~~~~~~~~~~~~~~~l~~r~~-~i~~~~p~~~~~~~il  194 (195)
T 1jbk_A          155 VGATTLDEYRQYIEKDAALERRFQ-KVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             EEEECHHHHHHHTTTCHHHHTTEE-EEECCCCCHHHHHTTC
T ss_pred             EEeCCHHHHHHHHhcCHHHHHHhc-eeecCCCCHHHHHHHh
Confidence            88888765     68999999995 7999999999998875

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=99.79  E-value=6.7e-19  Score=163.13  Aligned_cols=206  Identities=19%  Similarity=0.214  Sum_probs=130.7

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc-chhhch
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM-SKWFGD  166 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~-~~~~g~  166 (396)
                      ..++|.+...+.+.......   ...+... ...+++++||+||||||||++|+++|+..+.+|+.+++++.. +...+.
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l---~~~l~~~-~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~~~i~~~~~~~g~~~~~  108 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELL---VQQTKNS-DRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETA  108 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHH---HHHHHHC-SSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHH
T ss_pred             cCCCCccHHHHHHHHHHHHH---HHHHhcc-CCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCEEEEeCHHHhcCCchHH
Confidence            45677766655554421100   0112111 134568999999999999999999999999999999887532 222223


Q ss_pred             HHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcH-HHH
Q 016044          167 AQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDE-AIL  245 (396)
Q Consensus       167 ~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~-~l~  245 (396)
                      ....++.+|..+....+++|||||+|.+++.+.... .....+...+...+++.. ..+.++++|+|||.++.+++ .+.
T Consensus       109 ~~~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~-~~~~~~l~~L~~~~~~~~-~~~~~~~ii~ttn~~~~l~~~~l~  186 (272)
T 1d2n_A          109 KCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGP-RFSNLVLQALLVLLKKAP-PQGRKLLIIGTTSRKDVLQEMEML  186 (272)
T ss_dssp             HHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTT-BCCHHHHHHHHHHTTCCC-STTCEEEEEEEESCHHHHHHTTCT
T ss_pred             HHHHHHHHHHHHHhcCCcEEEEEChhhhhccCCCCh-hHHHHHHHHHHHHhcCcc-CCCCCEEEEEecCChhhcchhhhh
Confidence            345677788888777789999999999976543221 111233344555555443 23567889999999988887 677


Q ss_pred             hccCCceEeCCCCH-HHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCC----cHHHHHHHHHHH
Q 016044          246 RRLPQAFEIGMPDR-KERAQILKVILKGEKVEENIDFDYLAGLCEGF----TGSDLLEVCKQA  303 (396)
Q Consensus       246 ~R~~~~i~~~~P~~-~er~~il~~~l~~~~~~~~~~l~~la~~~~g~----s~~di~~l~~~A  303 (396)
                      +||+..+.+|+++. ++...++..   ...+ .+.++..++..+.||    ...++.++++.|
T Consensus       187 ~rf~~~i~~p~l~~r~~i~~i~~~---~~~~-~~~~~~~l~~~~~g~~~~g~ir~l~~~l~~a  245 (272)
T 1d2n_A          187 NAFSTTIHVPNIATGEQLLEALEL---LGNF-KDKERTTIAQQVKGKKVWIGIKKLLMLIEMS  245 (272)
T ss_dssp             TTSSEEEECCCEEEHHHHHHHHHH---HTCS-CHHHHHHHHHHHTTSEEEECHHHHHHHHHHH
T ss_pred             cccceEEcCCCccHHHHHHHHHHh---cCCC-CHHHHHHHHHHhcCCCccccHHHHHHHHHHH
Confidence            89988887766554 444444433   2222 233467778888876    344555555444

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=99.78  E-value=4.2e-18  Score=161.81  Aligned_cols=197  Identities=21%  Similarity=0.285  Sum_probs=131.7

Q ss_pred             CCccccccc-C--hHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044           83 IDVEFESIG-G--LETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus        83 ~~~~~~~i~-G--~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      +..+|++++ |  +......+...+..+            ...+++++|+||||||||++|+++++.+   +.+++.+++
T Consensus         6 ~~~~f~~fv~g~~~~~a~~~~~~~~~~~------------~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~~   73 (324)
T 1l8q_A            6 PKYTLENFIVGEGNRLAYEVVKEALENL------------GSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSA   73 (324)
T ss_dssp             TTCCSSSCCCCTTTHHHHHHHHHHHHTT------------TTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEH
T ss_pred             CCCCcccCCCCCcHHHHHHHHHHHHhCc------------CCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEH
Confidence            456899987 4  555555665554321            1135789999999999999999999988   899999999


Q ss_pred             ccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC
Q 016044          157 SNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR  236 (396)
Q Consensus       157 ~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~  236 (396)
                      .++...+.+.........|.... ..+++|||||+|.+...+.  ..       ..++..++....  ....+++++++.
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~vL~iDEi~~l~~~~~--~~-------~~l~~~l~~~~~--~~~~iii~~~~~  141 (324)
T 1l8q_A           74 DDFAQAMVEHLKKGTINEFRNMY-KSVDLLLLDDVQFLSGKER--TQ-------IEFFHIFNTLYL--LEKQIILASDRH  141 (324)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHH-HTCSEEEEECGGGGTTCHH--HH-------HHHHHHHHHHHH--TTCEEEEEESSC
T ss_pred             HHHHHHHHHHHHcCcHHHHHHHh-cCCCEEEEcCcccccCChH--HH-------HHHHHHHHHHHH--CCCeEEEEecCC
Confidence            88765554443322222233222 2479999999999854211  11       123333322211  234566677776


Q ss_pred             CC---CCcHHHHhccC--CceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHH
Q 016044          237 PS---ELDEAILRRLP--QAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYF  306 (396)
Q Consensus       237 ~~---~l~~~l~~R~~--~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~  306 (396)
                      +.   .+++++++||.  ..+.+++ +.+++..+++..+...... ++..++.++..+ | ..+++..+++.+...
T Consensus       142 ~~~l~~l~~~L~sR~~~~~~i~l~~-~~~e~~~il~~~~~~~~~~l~~~~l~~l~~~~-g-~~r~l~~~l~~~~~~  214 (324)
T 1l8q_A          142 PQKLDGVSDRLVSRFEGGILVEIEL-DNKTRFKIIKEKLKEFNLELRKEVIDYLLENT-K-NVREIEGKIKLIKLK  214 (324)
T ss_dssp             GGGCTTSCHHHHHHHHTSEEEECCC-CHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHC-S-SHHHHHHHHHHHHHH
T ss_pred             hHHHHHhhhHhhhcccCceEEEeCC-CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhC-C-CHHHHHHHHHHHHHc
Confidence            65   68999999996  5688998 9999999999998754432 222367788888 5 667788777776654

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.77  E-value=6.7e-18  Score=163.55  Aligned_cols=224  Identities=17%  Similarity=0.143  Sum_probs=150.4

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---------CCcEEEEec
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---------GAVFINVRI  156 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---------~~~~~~i~~  156 (396)
                      ..++++|.++.++.+..++...+      .    ...+.+++|+||||||||++++++++.+         +.+++.++|
T Consensus        17 ~p~~~~gr~~~~~~l~~~l~~~~------~----~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~   86 (387)
T 2v1u_A           17 VPDVLPHREAELRRLAEVLAPAL------R----GEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNA   86 (387)
T ss_dssp             CCSCCTTCHHHHHHHHHTTGGGT------S----SCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEET
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHH------c----CCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEEC
Confidence            34889999999999987653211      0    1235789999999999999999999987         888999998


Q ss_pred             ccccchh----------------hch-HHHHHHHHHHHHHHh-CCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhh
Q 016044          157 SNLMSKW----------------FGD-AQKLVAAVFSLAYKL-QPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWD  218 (396)
Q Consensus       157 ~~l~~~~----------------~g~-~~~~~~~~f~~a~~~-~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~  218 (396)
                      ....+..                .+. .......++...... .+.+|||||+|.+....  .    ....+..++..+.
T Consensus        87 ~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~--~----~~~~l~~l~~~~~  160 (387)
T 2v1u_A           87 RHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRP--G----GQDLLYRITRINQ  160 (387)
T ss_dssp             TTSCSHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHST--T----HHHHHHHHHHGGG
T ss_pred             CcCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccC--C----CChHHHhHhhchh
Confidence            7643321                011 223344444433322 36799999999985432  0    1122233333333


Q ss_pred             ccCcCCCCcEEEEEecCCC---CCCcHHHHhccCC-ceEeCCCCHHHHHHHHHHHhcC--CCCC-CCCCHHHHHHhCC--
Q 016044          219 GFTTDQNARVMVLAATNRP---SELDEAILRRLPQ-AFEIGMPDRKERAQILKVILKG--EKVE-ENIDFDYLAGLCE--  289 (396)
Q Consensus       219 ~~~~~~~~~v~vI~atn~~---~~l~~~l~~R~~~-~i~~~~P~~~er~~il~~~l~~--~~~~-~~~~l~~la~~~~--  289 (396)
                      ....  +.++.+|++||.+   +.+++.+.+||.. .+.+++|+.+++.++++..+..  .... .+..++.++..+.  
T Consensus       161 ~~~~--~~~~~~I~~t~~~~~~~~l~~~l~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~  238 (387)
T 2v1u_A          161 ELGD--RVWVSLVGITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAARE  238 (387)
T ss_dssp             CC-------CEEEEECSCSTTSSSSCHHHHTTTTSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSS
T ss_pred             hcCC--CceEEEEEEECCCchHhhhCHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHh
Confidence            2210  4568899999987   6789999999976 7899999999999999988753  1111 2333667777776  


Q ss_pred             -CCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhcc
Q 016044          290 -GFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSR  340 (396)
Q Consensus       290 -g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~  340 (396)
                       | .+..+.++|+.|+..+..+            ....|+.+|+..++....
T Consensus       239 ~G-~~r~~~~~l~~a~~~a~~~------------~~~~i~~~~v~~a~~~~~  277 (387)
T 2v1u_A          239 HG-DARRALDLLRVAGEIAERR------------REERVRREHVYSARAEIE  277 (387)
T ss_dssp             SC-CHHHHHHHHHHHHHHHHHT------------TCSCBCHHHHHHHHHHHH
T ss_pred             cc-CHHHHHHHHHHHHHHHHHc------------CCCCcCHHHHHHHHHHHh
Confidence             6 5567778888887655432            125689999999987763

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=99.77  E-value=2.1e-18  Score=171.89  Aligned_cols=184  Identities=18%  Similarity=0.297  Sum_probs=127.0

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEE
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFIN  153 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~  153 (396)
                      +-+|++|+|.++.++.+.+.+..              ...+++||+||||||||++|+++|..+          +.+++.
T Consensus       176 ~~~ld~iiGr~~~i~~l~~~l~r--------------~~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~  241 (468)
T 3pxg_A          176 EDSLDPVIGRSKEIQRVIEVLSR--------------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMT  241 (468)
T ss_dssp             SSCSCCCCCCHHHHHHHHHHHHC--------------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEEC
T ss_pred             cCCCCCccCcHHHHHHHHHHHhc--------------cCCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE
Confidence            45789999999999998776541              224689999999999999999999986          788999


Q ss_pred             EecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEe
Q 016044          154 VRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAA  233 (396)
Q Consensus       154 i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~a  233 (396)
                      ++++   .++.|+.+..+..+|..+....++|||||      +..     .    ..+.++..+.      .+.+.+|++
T Consensus       242 l~~~---~~~~g~~e~~~~~~~~~~~~~~~~iLfiD------~~~-----~----a~~~L~~~L~------~g~v~vI~a  297 (468)
T 3pxg_A          242 LDMG---TKYRGEFEDRLKKVMDEIRQAGNIILFID------AAI-----D----ASNILKPSLA------RGELQCIGA  297 (468)
T ss_dssp             C-------------CTTHHHHHHHHHTCCCCEEEEC------C-----------------CCCTT------SSSCEEEEE
T ss_pred             eeCC---ccccchHHHHHHHHHHHHHhcCCeEEEEe------Cch-----h----HHHHHHHhhc------CCCEEEEec
Confidence            8887   66777777888889998888888999999      100     0    0111211111      456899999


Q ss_pred             cCCCC-----CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCC--C---CHHHHHHhCCCC-----cHHHHHH
Q 016044          234 TNRPS-----ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEEN--I---DFDYLAGLCEGF-----TGSDLLE  298 (396)
Q Consensus       234 tn~~~-----~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~--~---~l~~la~~~~g~-----s~~di~~  298 (396)
                      ||.++     .+++++++||. .+.|+.|+.+++..|++.++..+....+  +   .+..++..+.+|     .+.....
T Consensus       298 t~~~e~~~~~~~~~al~~Rf~-~i~v~~p~~e~~~~iL~~~~~~~~~~~~~~i~~~al~~l~~~s~~~~~~~~lp~~ai~  376 (468)
T 3pxg_A          298 TTLDEYRKYIEKDAALERRFQ-PIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAID  376 (468)
T ss_dssp             CCTTTTHHHHTTCSHHHHSEE-EEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHH
T ss_pred             CCHHHHHHHhhcCHHHHHhCc-cceeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhccCcCCcHHHH
Confidence            99887     68999999994 6999999999999999998876322111  2   245555554443     3446667


Q ss_pred             HHHHHHHH
Q 016044          299 VCKQAAYF  306 (396)
Q Consensus       299 l~~~A~~~  306 (396)
                      +++.|...
T Consensus       377 ll~~a~~~  384 (468)
T 3pxg_A          377 LIDEAGSK  384 (468)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77776643

>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.76  E-value=1.9e-18  Score=174.29  Aligned_cols=195  Identities=21%  Similarity=0.256  Sum_probs=126.2

Q ss_pred             CCCcccccccChHHHHHHHHHHHHcccc-ChhhhhcCCC--CCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLR-RPELFSHGKL--LGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN  158 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~-~~~~~~~~~~--~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~  158 (396)
                      ..+.+|++|+|++.+++.+.+++..... .+..|...+.  ..+++++||+||||||||++|+++|++++.+++.+++++
T Consensus        33 yrP~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~~~~i~in~s~  112 (516)
T 1sxj_A           33 YAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASD  112 (516)
T ss_dssp             TCCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTS
T ss_pred             cCCCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcCCCEEEEeCCC
Confidence            3456899999999999999998864221 1122222111  124679999999999999999999999999999999988


Q ss_pred             ccchhhchHHHH-------HHHHHHHH-----HHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCC
Q 016044          159 LMSKWFGDAQKL-------VAAVFSLA-----YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNA  226 (396)
Q Consensus       159 l~~~~~g~~~~~-------~~~~f~~a-----~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~  226 (396)
                      +...........       +...|..+     ....++||||||+|.+......        ....+...++.    ...
T Consensus       113 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~--------~l~~L~~~l~~----~~~  180 (516)
T 1sxj_A          113 VRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRG--------GVGQLAQFCRK----TST  180 (516)
T ss_dssp             CCCHHHHHHTGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTT--------HHHHHHHHHHH----CSS
T ss_pred             cchHHHHHHHHHHHhccccHHHHHhhhhhhhhccCCCeEEEEECCCccchhhHH--------HHHHHHHHHHh----cCC
Confidence            765432211100       11122222     1245689999999999664321        12233343432    133


Q ss_pred             cEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCC
Q 016044          227 RVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEG  290 (396)
Q Consensus       227 ~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g  290 (396)
                      ++++++++.....++ .+.+|+ ..+.|++|+.+++.+++...+...... ++..+..+++.+.|
T Consensus       181 ~iIli~~~~~~~~l~-~l~~r~-~~i~f~~~~~~~~~~~L~~i~~~~~~~i~~~~l~~la~~s~G  243 (516)
T 1sxj_A          181 PLILICNERNLPKMR-PFDRVC-LDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRG  243 (516)
T ss_dssp             CEEEEESCTTSSTTG-GGTTTS-EEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHTTT
T ss_pred             CEEEEEcCCCCccch-hhHhce-EEEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Confidence            455555544434454 355555 789999999999999998887543332 22347788888765

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=99.76  E-value=1.9e-17  Score=149.70  Aligned_cols=205  Identities=17%  Similarity=0.155  Sum_probs=136.9

Q ss_pred             CcccccccCh---HHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044           84 DVEFESIGGL---ETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus        84 ~~~~~~i~G~---~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      ..+|++++|.   +.+.+.+..++..              ..+++++|+||||||||++|+++++++   +.+++.+++.
T Consensus        24 ~~~~~~~~~~~~~~~~~~~l~~~~~~--------------~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~   89 (242)
T 3bos_A           24 DETFTSYYPAAGNDELIGALKSAASG--------------DGVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIPLG   89 (242)
T ss_dssp             TCSTTTSCC--CCHHHHHHHHHHHHT--------------CSCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEGG
T ss_pred             CCChhhccCCCCCHHHHHHHHHHHhC--------------CCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEHH
Confidence            4689999873   4666666555431              135789999999999999999999876   4778889988


Q ss_pred             cccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcE-EEEEecCC
Q 016044          158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARV-MVLAATNR  236 (396)
Q Consensus       158 ~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v-~vI~atn~  236 (396)
                      ++........        .  ....+.+|+|||+|.+.....         ....++..++....  ...+ +|++++..
T Consensus        90 ~~~~~~~~~~--------~--~~~~~~vliiDe~~~~~~~~~---------~~~~l~~~l~~~~~--~~~~~ii~~~~~~  148 (242)
T 3bos_A           90 IHASISTALL--------E--GLEQFDLICIDDVDAVAGHPL---------WEEAIFDLYNRVAE--QKRGSLIVSASAS  148 (242)
T ss_dssp             GGGGSCGGGG--------T--TGGGSSEEEEETGGGGTTCHH---------HHHHHHHHHHHHHH--HCSCEEEEEESSC
T ss_pred             HHHHHHHHHH--------H--hccCCCEEEEeccccccCCHH---------HHHHHHHHHHHHHH--cCCCeEEEEcCCC
Confidence            7655432111        1  113568999999999843210         01122232222211  1223 44444444


Q ss_pred             CC---CCcHHHHhccC--CceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHH
Q 016044          237 PS---ELDEAILRRLP--QAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE  310 (396)
Q Consensus       237 ~~---~l~~~l~~R~~--~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~  310 (396)
                      +.   .+.+++.+||.  ..+.+++|+.+++.+++..++...... .+..++.++..+.| +.+++.++++.+...+..+
T Consensus       149 ~~~~~~~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~l~~~l~~~~~~a~~~  227 (242)
T 3bos_A          149 PMEAGFVLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQLPEDVGRFLLNRMAR-DLRTLFDVLDRLDKASMVH  227 (242)
T ss_dssp             TTTTTCCCHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTCCCCHHHHHHHHHHTTT-CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHccC-CHHHHHHHHHHHHHHHHHh
Confidence            43   45689999986  789999999999999999988644432 22236678888876 7788888888887766432


Q ss_pred             HHHHHhcCCCCCCCCCCCHHHHHHHHH
Q 016044          311 LLDEERKGKPAAAPRPLSRLDLEKVLT  337 (396)
Q Consensus       311 ~~~~~~~~~~~~~~~~i~~~d~~~al~  337 (396)
                                   ...|+.+++.+++.
T Consensus       228 -------------~~~It~~~v~~~l~  241 (242)
T 3bos_A          228 -------------QRKLTIPFVKEMLR  241 (242)
T ss_dssp             -------------TCCCCHHHHHHHHT
T ss_pred             -------------CCCCcHHHHHHHhh
Confidence                         15699999998874

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.76  E-value=4.4e-18  Score=153.48  Aligned_cols=202  Identities=23%  Similarity=0.275  Sum_probs=140.1

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc------------
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV------------  150 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~------------  150 (396)
                      .+..|++++|.+..++.+...+..          +   ..++.++|+||||+|||++++++++.++..            
T Consensus        18 ~p~~~~~~~g~~~~~~~l~~~l~~----------~---~~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~   84 (250)
T 1njg_A           18 RPQTFADVVGQEHVLTALANGLSL----------G---RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCD   84 (250)
T ss_dssp             CCCSGGGCCSCHHHHHHHHHHHHH----------T---CCCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCCSCSH
T ss_pred             CCccHHHHhCcHHHHHHHHHHHHc----------C---CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCcccH
Confidence            456789999999999999877642          1   124579999999999999999999876432            


Q ss_pred             ------------EEEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHH
Q 016044          151 ------------FINVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFM  214 (396)
Q Consensus       151 ------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll  214 (396)
                                  ++.++...      ......+..++....    ...+.+|+|||+|.+..           .....++
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~-----------~~~~~l~  147 (250)
T 1njg_A           85 NCREIEQGRFVDLIEIDAAS------RTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSR-----------HSFNALL  147 (250)
T ss_dssp             HHHHHHTTCCSSEEEEETTC------GGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCH-----------HHHHHHH
T ss_pred             HHHHHhccCCcceEEecCcc------cccHHHHHHHHHHhhhchhcCCceEEEEECcccccH-----------HHHHHHH
Confidence                        22222211      011222333333221    22468999999998721           1223445


Q ss_pred             HHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcH
Q 016044          215 ALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTG  293 (396)
Q Consensus       215 ~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~  293 (396)
                      ..++.    .+.++.+|++||.+..+++++.+|+ ..+.+++|+.++..++++..+...... ++..++.+++.+.| .+
T Consensus       148 ~~l~~----~~~~~~~i~~t~~~~~~~~~l~~r~-~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G-~~  221 (250)
T 1njg_A          148 KTLEE----PPEHVKFLLATTDPQKLPVTILSRC-LQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEG-SL  221 (250)
T ss_dssp             HHHHS----CCTTEEEEEEESCGGGSCHHHHTTS-EEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHHHTT-CH
T ss_pred             HHHhc----CCCceEEEEEeCChHhCCHHHHHHh-hhccCCCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHcCC-CH
Confidence            55543    2456889999999889999999997 889999999999999999988654332 22236778888887 77


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHH
Q 016044          294 SDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVL  336 (396)
Q Consensus       294 ~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al  336 (396)
                      +.+.++++.|...+                ...|+.+|+++++
T Consensus       222 ~~~~~~~~~~~~~~----------------~~~i~~~~v~~~~  248 (250)
T 1njg_A          222 RDALSLTDQAIASG----------------DGQVSTQAVSAML  248 (250)
T ss_dssp             HHHHHHHHHHHTTT----------------TSSBCHHHHHHHS
T ss_pred             HHHHHHHHHHHhcc----------------CceecHHHHHHHh
Confidence            88888887763211                1369999998875

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=99.76  E-value=1.5e-17  Score=175.60  Aligned_cols=224  Identities=20%  Similarity=0.270  Sum_probs=156.5

Q ss_pred             cccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEEE
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFINV  154 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~i  154 (396)
                      -.|++++|.+..++.+.+.+.              ...+.+++|+||||||||++|++++..+          +..++.+
T Consensus       183 ~~~d~~iGr~~~i~~l~~~l~--------------~~~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~  248 (758)
T 1r6b_X          183 GGIDPLIGREKELERAIQVLC--------------RRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL  248 (758)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHT--------------SSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEEC
T ss_pred             CCCCCccCCHHHHHHHHHHHh--------------ccCCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEE
Confidence            578999999999998877553              1235789999999999999999999976          6678888


Q ss_pred             eccccc--chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEE
Q 016044          155 RISNLM--SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLA  232 (396)
Q Consensus       155 ~~~~l~--~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~  232 (396)
                      ++..+.  .++.|..+..+..++..+....+++|||||+|.+.+........  .    .....+..+..  ...+.+|+
T Consensus       249 ~~~~l~~~~~~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~--~----~~~~~L~~~l~--~~~~~~I~  320 (758)
T 1r6b_X          249 DIGSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQ--V----DAANLIKPLLS--SGKIRVIG  320 (758)
T ss_dssp             CCC---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCH--H----HHHHHHSSCSS--SCCCEEEE
T ss_pred             cHHHHhccccccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcch--H----HHHHHHHHHHh--CCCeEEEE
Confidence            887776  45778889999999998877778999999999997765432111  1    22223333322  45678899


Q ss_pred             ecCCC-----CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCC----CCC-CCCCHHHHHHhCCC-----CcHHHHH
Q 016044          233 ATNRP-----SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGE----KVE-ENIDFDYLAGLCEG-----FTGSDLL  297 (396)
Q Consensus       233 atn~~-----~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~----~~~-~~~~l~~la~~~~g-----~s~~di~  297 (396)
                      +||.+     ..+++++.+||. .+.++.|+.+++.++++.++...    ... .+..+..++..+.|     +.+..+.
T Consensus       321 at~~~~~~~~~~~d~aL~~Rf~-~i~v~~p~~~e~~~il~~l~~~~~~~~~v~~~~~al~~~~~~s~~~i~~~~lp~~~i  399 (758)
T 1r6b_X          321 STTYQEFSNIFEKDRALARRFQ-KIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAI  399 (758)
T ss_dssp             EECHHHHHCCCCCTTSSGGGEE-EEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHH
T ss_pred             EeCchHHhhhhhcCHHHHhCce-EEEcCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhcccccCchHHH
Confidence            99864     356889999995 79999999999999999877531    111 11124445554443     4556777


Q ss_pred             HHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          298 EVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       298 ~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                      .++++|...+...        ........++.+|+..++...
T Consensus       400 ~lld~a~~~~~~~--------~~~~~~~~v~~~di~~~~~~~  433 (758)
T 1r6b_X          400 DVIDEAGARARLM--------PVSKRKKTVNVADIESVVARI  433 (758)
T ss_dssp             HHHHHHHHHHHHS--------SSCCCCCSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcc--------cccccCCccCHHHHHHHHHHh
Confidence            7887765332210        011223579999999998875

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=99.75  E-value=3.9e-18  Score=165.44  Aligned_cols=243  Identities=17%  Similarity=0.230  Sum_probs=145.0

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhh----------------cCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEE
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFS----------------HGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFI  152 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~----------------~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~  152 (396)
                      .|+|++.+|+.|...+..+..+.....                ......++.++||+||||||||++|+++|+.++.+|+
T Consensus        22 ~viGq~~ak~~l~~~~~~~~~~~~~g~~~~~~~~~~~~~p~~~~~~~~~~~~~ill~Gp~GtGKT~la~~la~~l~~~~~  101 (376)
T 1um8_A           22 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIA  101 (376)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEE
T ss_pred             HccCcHHHHHHHHHHHHHHHHHHHhhhhhhhccccccccccccccccccCCCCEEEECCCCCCHHHHHHHHHHHhCCCEE
Confidence            489999999999988754333322100                0011234678999999999999999999999999999


Q ss_pred             EEeccccc-chhhchH-HHHHHHHHHHH----HHhCCcEEEEccccccccCCCCCch---HHHHhhHHHHHHHhhccCc-
Q 016044          153 NVRISNLM-SKWFGDA-QKLVAAVFSLA----YKLQPAIIFIDEVDSFLGQRRTSDH---EALTNMKTEFMALWDGFTT-  222 (396)
Q Consensus       153 ~i~~~~l~-~~~~g~~-~~~~~~~f~~a----~~~~p~vl~iDEid~l~~~~~~~~~---~~~~~~~~~ll~~l~~~~~-  222 (396)
                      .++|..+. ..+.|.. +..+...+..+    ....++||||||+|.+...+.....   .....+.+.|+..+++... 
T Consensus       102 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~vl~iDEi~~l~~~~~~~~~~~~~~~~~~~~~Ll~~le~~~~~  181 (376)
T 1um8_A          102 ISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVN  181 (376)
T ss_dssp             EEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCCEEC
T ss_pred             EecchhhhhcCcCCccHHHHHHHHHhhccchhhhcCCeEEEEcCHHHHhhhcCCCceecccchHHHHHHHHHHhhcccee
Confidence            99998875 3344443 33344444322    2346799999999999765322110   0111245567777764310 


Q ss_pred             ----------------CCCCcEEEEEecCC-----------------------------------------CCCCcHHHH
Q 016044          223 ----------------DQNARVMVLAATNR-----------------------------------------PSELDEAIL  245 (396)
Q Consensus       223 ----------------~~~~~v~vI~atn~-----------------------------------------~~~l~~~l~  245 (396)
                                      -...++++|+++|.                                         ...+.++++
T Consensus       182 ~~~~~~~~~~~~~~~~i~t~n~~~I~~~~~~~l~~~l~~R~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~~~p~l~  261 (376)
T 1um8_A          182 IPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELI  261 (376)
T ss_dssp             ---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHH
T ss_pred             cccccccccCCcceEEEecCCeEEEecCCHHHHHHHHHHHhcccccCCCchhhhccchhHHHhhcCHHHHhhcCCChHHh
Confidence                            00144577777762                                         113568899


Q ss_pred             hccCCceEeCCCCHHHHHHHHHH----Hhc-------CCCCC---CCCCHHHHHHhCC--CCcHHHHHHHHHHHHHHHHH
Q 016044          246 RRLPQAFEIGMPDRKERAQILKV----ILK-------GEKVE---ENIDFDYLAGLCE--GFTGSDLLEVCKQAAYFSIR  309 (396)
Q Consensus       246 ~R~~~~i~~~~P~~~er~~il~~----~l~-------~~~~~---~~~~l~~la~~~~--g~s~~di~~l~~~A~~~a~~  309 (396)
                      +||+..+.|++++.++...++..    ++.       .....   ++-.++.|+..+.  ....+++.++++.+...++.
T Consensus       262 ~R~~~~i~~~~l~~~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~R~L~~~le~~~~~~~~  341 (376)
T 1um8_A          262 GRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLIFEEEAIKEIAQLALERKTGARGLRAIIEDFCLDIMF  341 (376)
T ss_dssp             TTCCEEEECCCCCHHHHHHHHHSSTTCHHHHHHHHHHTTTCEEEECHHHHHHHHHHHHHTTCTGGGHHHHHHHHHHHHHH
T ss_pred             cCCCceeeccCCCHHHHHHHHhhhHHHHHHHHHHHHhhcCceEEECHHHHHHHHHHhcccccCcHHHHHHHHHHHHHHHh
Confidence            99998999999999999998862    111       11111   1112455555532  23557888888877776665


Q ss_pred             HHHHHHhcCCCCCCCCCCCHHHHHHHHH
Q 016044          310 ELLDEERKGKPAAAPRPLSRLDLEKVLT  337 (396)
Q Consensus       310 ~~~~~~~~~~~~~~~~~i~~~d~~~al~  337 (396)
                      +....      ......|+.+++.++..
T Consensus       342 ~~~~~------~~~~~~i~~~~v~~~~~  363 (376)
T 1um8_A          342 DLPKL------KGSEVRITKDCVLKQAE  363 (376)
T ss_dssp             TGGGG------TTSEEEECHHHHTTSSC
T ss_pred             hccCC------CCCEEEEeHHHhcCCCC
Confidence            53321      11234688888876443

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=99.75  E-value=1.1e-17  Score=159.26  Aligned_cols=159  Identities=19%  Similarity=0.231  Sum_probs=107.3

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc--chh
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM--SKW  163 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~--~~~  163 (396)
                      .+++++|++++++.+...+..                ..++||+||||||||++|+++++.++.+++.+++..-.  ...
T Consensus        25 ~~~~i~g~~~~~~~l~~~l~~----------------~~~vll~G~pGtGKT~la~~la~~~~~~~~~i~~~~~~~~~~l   88 (331)
T 2r44_A           25 VGKVVVGQKYMINRLLIGICT----------------GGHILLEGVPGLAKTLSVNTLAKTMDLDFHRIQFTPDLLPSDL   88 (331)
T ss_dssp             HTTTCCSCHHHHHHHHHHHHH----------------TCCEEEESCCCHHHHHHHHHHHHHTTCCEEEEECCTTCCHHHH
T ss_pred             hccceeCcHHHHHHHHHHHHc----------------CCeEEEECCCCCcHHHHHHHHHHHhCCCeEEEecCCCCChhhc
Confidence            457899999999888765532                25799999999999999999999999999998874211  111


Q ss_pred             hchHH-HHHHHHHHHHHHhC---CcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc-------CcCCCCcEEEEE
Q 016044          164 FGDAQ-KLVAAVFSLAYKLQ---PAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF-------TTDQNARVMVLA  232 (396)
Q Consensus       164 ~g~~~-~~~~~~f~~a~~~~---p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~-------~~~~~~~v~vI~  232 (396)
                      .|... ......+  ....+   .++|||||+|.+...           ....++..++..       ....+.++++|+
T Consensus        89 ~g~~~~~~~~~~~--~~~~g~l~~~vl~iDEi~~~~~~-----------~~~~Ll~~l~~~~~~~~g~~~~~~~~~~via  155 (331)
T 2r44_A           89 IGTMIYNQHKGNF--EVKKGPVFSNFILADEVNRSPAK-----------VQSALLECMQEKQVTIGDTTYPLDNPFLVLA  155 (331)
T ss_dssp             HEEEEEETTTTEE--EEEECTTCSSEEEEETGGGSCHH-----------HHHHHHHHHHHSEEEETTEEEECCSSCEEEE
T ss_pred             CCceeecCCCCce--EeccCcccccEEEEEccccCCHH-----------HHHHHHHHHhcCceeeCCEEEECCCCEEEEE
Confidence            11000 0000000  00011   279999999987322           122333333321       112345688889


Q ss_pred             ecCCCC-----CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCC
Q 016044          233 ATNRPS-----ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGE  273 (396)
Q Consensus       233 atn~~~-----~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~  273 (396)
                      |+|+.+     .+++++++||...+.++.|+.+++.+|++..+...
T Consensus       156 t~np~~~~~~~~l~~~l~~Rf~~~i~i~~p~~~~~~~il~~~~~~~  201 (331)
T 2r44_A          156 TQNPVEQEGTYPLPEAQVDRFMMKIHLTYLDKESELEVMRRVSNMN  201 (331)
T ss_dssp             EECTTCCSCCCCCCHHHHTTSSEEEECCCCCHHHHHHHHHHHHCTT
T ss_pred             ecCCCcccCcccCCHHHHhheeEEEEcCCCCHHHHHHHHHhccccC
Confidence            988654     38999999997789999999999999999988653

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=99.75  E-value=1.7e-17  Score=156.37  Aligned_cols=210  Identities=16%  Similarity=0.210  Sum_probs=139.4

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchh-
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKW-  163 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~-  163 (396)
                      ++++|++.+++.+...+.....     .-.....+..+++|+||||||||++|++++..+   +.+++.++|+.+.... 
T Consensus        17 ~~i~G~~~~~~~l~~~i~~~~~-----~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~~~~~~~~~~~~~~~~~~~   91 (311)
T 4fcw_A           17 KRVVGQDEAIRAVADAIRRARA-----GLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHA   91 (311)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHH-----TCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHSCGGGEEEEEGGGCCSTTH
T ss_pred             hhcCCHHHHHHHHHHHHHHHhc-----CCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcCCCcceEEeeccccccccc
Confidence            3578999999999887753210     000112234579999999999999999999987   5679999998765432 


Q ss_pred             ----hchHH-----HHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCC-------CCc
Q 016044          164 ----FGDAQ-----KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQ-------NAR  227 (396)
Q Consensus       164 ----~g~~~-----~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~-------~~~  227 (396)
                          +|...     .....+........+++|||||+|.+..           .....++..++......       -.+
T Consensus        92 ~~~l~g~~~~~~~~~~~~~~~~~~~~~~~~vl~lDEi~~l~~-----------~~~~~Ll~~le~~~~~~~~~~~~~~~~  160 (311)
T 4fcw_A           92 VSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHP-----------DVFNILLQMLDDGRLTDSHGRTVDFRN  160 (311)
T ss_dssp             HHHHHCCCTTSTTTTTCCHHHHHHHHCSSEEEEEETGGGSCH-----------HHHHHHHHHHHHSEEECTTSCEEECTT
T ss_pred             HHHhcCCCCccccccccchHHHHHHhCCCeEEEEeChhhcCH-----------HHHHHHHHHHhcCEEEcCCCCEEECCC
Confidence                11000     0001122223334458999999998832           23335555554322111       136


Q ss_pred             EEEEEecCC--------------------------CCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCC-------C
Q 016044          228 VMVLAATNR--------------------------PSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGE-------K  274 (396)
Q Consensus       228 v~vI~atn~--------------------------~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~-------~  274 (396)
                      +++|+|||.                          ...+++++++||+..+.+++|+.+++..|++.++...       .
T Consensus       161 ~iiI~ttn~~~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~R~~~~~~~~p~~~~~~~~i~~~~l~~~~~~~~~~~  240 (311)
T 4fcw_A          161 TVIIMTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQMSYLRARLAEKR  240 (311)
T ss_dssp             EEEEEEESTTHHHHHTTTTSCCCSSTHHHHTHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHTHHHHHHHHTTT
T ss_pred             cEEEEecccCHHHHHhhhcccccHHHHHHHHHHHHHHhCCHHHHhcCCeEEEeCCCCHHHHHHHHHHHHHHHHHHHHhCC
Confidence            779999998                          4468899999999999999999999999999877532       1


Q ss_pred             CC---CCCCHHHHHHhCC--CCcHHHHHHHHHHHHHHHHHHHHH
Q 016044          275 VE---ENIDFDYLAGLCE--GFTGSDLLEVCKQAAYFSIRELLD  313 (396)
Q Consensus       275 ~~---~~~~l~~la~~~~--g~s~~di~~l~~~A~~~a~~~~~~  313 (396)
                      ..   .+..++.++...-  ..+.++|+++++.+...++.+.+.
T Consensus       241 ~~~~~~~~~~~~l~~~~~~~~gn~R~L~~~i~~~~~~~~~~~i~  284 (311)
T 4fcw_A          241 ISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKIL  284 (311)
T ss_dssp             CEEEECHHHHHHHHHHSCBTTTBTTTHHHHHHHHTHHHHHHHHH
T ss_pred             cEEEeCHHHHHHHHHhCCCccCCchhHHHHHHHHHHHHHHHHHH
Confidence            11   1122556666554  456789999999988887776553

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.75  E-value=5.5e-17  Score=157.28  Aligned_cols=215  Identities=17%  Similarity=0.157  Sum_probs=144.1

Q ss_pred             cccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc-----------CCcEEEEe
Q 016044           87 FESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES-----------GAVFINVR  155 (396)
Q Consensus        87 ~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~-----------~~~~~~i~  155 (396)
                      .++++|.++.++.+...+...+       .+   ..+++++|+||||||||++|+++++++           +.+++.++
T Consensus        19 p~~l~gr~~~~~~l~~~l~~~~-------~~---~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~   88 (384)
T 2qby_B           19 FKEIPFREDILRDAAIAIRYFV-------KN---EVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVN   88 (384)
T ss_dssp             CSSCTTCHHHHHHHHHHHHHHH-------TT---CCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEE
T ss_pred             CCCCCChHHHHHHHHHHHHHHH-------cC---CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEE
Confidence            4789999999999988775321       11   235789999999999999999999987           89999999


Q ss_pred             ccccc-chh------h-----------ch-HHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHH
Q 016044          156 ISNLM-SKW------F-----------GD-AQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMAL  216 (396)
Q Consensus       156 ~~~l~-~~~------~-----------g~-~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~  216 (396)
                      |.... ...      .           +. ....+..++...... +.+|+|||+|.+......       .   .++..
T Consensus        89 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~-~~vlilDEi~~l~~~~~~-------~---~~l~~  157 (384)
T 2qby_B           89 CREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNI-RAIIYLDEVDTLVKRRGG-------D---IVLYQ  157 (384)
T ss_dssp             HHHHCSCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSS-CEEEEEETTHHHHHSTTS-------H---HHHHH
T ss_pred             CccCCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccC-CCEEEEECHHHhccCCCC-------c---eeHHH
Confidence            87653 110      0           00 122333344333332 349999999998543211       1   10211


Q ss_pred             hhccCcCCCCcEEEEEecCCC---CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcC-CC-CC-CCCCHHHHHHhCCC
Q 016044          217 WDGFTTDQNARVMVLAATNRP---SELDEAILRRLPQAFEIGMPDRKERAQILKVILKG-EK-VE-ENIDFDYLAGLCEG  290 (396)
Q Consensus       217 l~~~~~~~~~~v~vI~atn~~---~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~-~~-~~-~~~~l~~la~~~~g  290 (396)
                      +....    .++.+|++||.+   +.+++++.+||...+.|++|+.++..++++..+.. .. .. .+..++.+++.+.+
T Consensus       158 l~~~~----~~~~iI~~t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~  233 (384)
T 2qby_B          158 LLRSD----ANISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAK  233 (384)
T ss_dssp             HHTSS----SCEEEEEECSSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHT
T ss_pred             HhcCC----cceEEEEEECCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHh
Confidence            21111    568899999987   67899999999789999999999999999998752 11 11 22235667776662


Q ss_pred             C--cHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhcc
Q 016044          291 F--TGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSR  340 (396)
Q Consensus       291 ~--s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~  340 (396)
                      .  ....+.++|+.|+..+.              ....|+.+|+..++....
T Consensus       234 ~~G~~r~a~~~l~~a~~~a~--------------~~~~i~~~~v~~~~~~~~  271 (384)
T 2qby_B          234 EHGDARKAVNLLFRAAQLAS--------------GGGIIRKEHVDKAIVDYE  271 (384)
T ss_dssp             TCCCHHHHHHHHHHHHHHTT--------------SSSCCCHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHHhc--------------CCCccCHHHHHHHHHHHh
Confidence            1  34456667777654432              125689999999887764

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=99.74  E-value=2.4e-17  Score=156.53  Aligned_cols=174  Identities=16%  Similarity=0.163  Sum_probs=123.4

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK  162 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~  162 (396)
                      .+.+|++++|++++++.+..++..             -..++.+|++||||||||++|++++++++.+++.+++++..  
T Consensus        21 rP~~~~~ivg~~~~~~~l~~~l~~-------------~~~~~~~L~~G~~G~GKT~la~~la~~l~~~~~~i~~~~~~--   85 (324)
T 3u61_B           21 RPSTIDECILPAFDKETFKSITSK-------------GKIPHIILHSPSPGTGKTTVAKALCHDVNADMMFVNGSDCK--   85 (324)
T ss_dssp             CCCSTTTSCCCHHHHHHHHHHHHT-------------TCCCSEEEECSSTTSSHHHHHHHHHHHTTEEEEEEETTTCC--
T ss_pred             CCCCHHHHhCcHHHHHHHHHHHHc-------------CCCCeEEEeeCcCCCCHHHHHHHHHHHhCCCEEEEcccccC--
Confidence            456899999999999999887751             12356788899999999999999999999999999987742  


Q ss_pred             hhchHHHHHHHHHHHHHHh-----CCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          163 WFGDAQKLVAAVFSLAYKL-----QPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       163 ~~g~~~~~~~~~f~~a~~~-----~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                           ...++..+......     .+++|||||+|.+.+.          .....++..++..    +.++.+|++||.+
T Consensus        86 -----~~~i~~~~~~~~~~~~~~~~~~vliiDEi~~l~~~----------~~~~~L~~~le~~----~~~~~iI~~~n~~  146 (324)
T 3u61_B           86 -----IDFVRGPLTNFASAASFDGRQKVIVIDEFDRSGLA----------ESQRHLRSFMEAY----SSNCSIIITANNI  146 (324)
T ss_dssp             -----HHHHHTHHHHHHHBCCCSSCEEEEEEESCCCGGGH----------HHHHHHHHHHHHH----GGGCEEEEEESSG
T ss_pred             -----HHHHHHHHHHHHhhcccCCCCeEEEEECCcccCcH----------HHHHHHHHHHHhC----CCCcEEEEEeCCc
Confidence                 22233333322222     4689999999998411          1122344444432    3457889999999


Q ss_pred             CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHh-------cCCCCC-CC-CCHHHHHHhCCCC
Q 016044          238 SELDEAILRRLPQAFEIGMPDRKERAQILKVIL-------KGEKVE-EN-IDFDYLAGLCEGF  291 (396)
Q Consensus       238 ~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l-------~~~~~~-~~-~~l~~la~~~~g~  291 (396)
                      ..+++++++|| ..+.|++|+.+++.++++.+.       ...... ++ ..++.++..+.|-
T Consensus       147 ~~l~~~l~sR~-~~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~gd  208 (324)
T 3u61_B          147 DGIIKPLQSRC-RVITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPD  208 (324)
T ss_dssp             GGSCTTHHHHS-EEEECCCCCHHHHHHHHHHHHHHHHHHHHHHTCCBSCHHHHHHHHHHTCSC
T ss_pred             cccCHHHHhhC-cEEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHHHHhCCCC
Confidence            99999999999 689999999999876655443       222222 22 3366777777663

>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop, rossman fold, AAA+, photosynthesis, metal transport; 2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB: 2x31_G

Probab=99.73  E-value=1.4e-17  Score=159.57  Aligned_cols=221  Identities=19%  Similarity=0.257  Sum_probs=129.5

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCC-------c----
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA-------V----  150 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~-------~----  150 (396)
                      .++.+|++++|++.+++.+......              ....++||+||||||||++|+++++.++.       +    
T Consensus        18 ~~~~~f~~i~G~~~~~~~l~~~~~~--------------~~~~~vLl~G~~GtGKT~la~~la~~~~~~~~~~~~~~~~~   83 (350)
T 1g8p_A           18 RPVFPFSAIVGQEDMKLALLLTAVD--------------PGIGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSP   83 (350)
T ss_dssp             CCCCCGGGSCSCHHHHHHHHHHHHC--------------GGGCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCS
T ss_pred             CCCCCchhccChHHHHHHHHHHhhC--------------CCCceEEEECCCCccHHHHHHHHHHhCcccccccccccccc
Confidence            3467899999999988775443321              11346999999999999999999998863       2    


Q ss_pred             ----------------------EEEEecccccchhhchHHHHHHHHHHHH---------HHhCCcEEEEccccccccCCC
Q 016044          151 ----------------------FINVRISNLMSKWFGDAQKLVAAVFSLA---------YKLQPAIIFIDEVDSFLGQRR  199 (396)
Q Consensus       151 ----------------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a---------~~~~p~vl~iDEid~l~~~~~  199 (396)
                                            ++.+..........|...  +...+...         ....+++|||||+|.+...  
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~g~~~--~~~~~~~~~~~~~~g~~~~a~~~vl~iDEi~~l~~~--  159 (350)
T 1g8p_A           84 NVEMIPDWATVLSTNVIRKPTPVVDLPLGVSEDRVVGALD--IERAISKGEKAFEPGLLARANRGYLYIDECNLLEDH--  159 (350)
T ss_dssp             SGGGSCTTCCCSCCCEEEECCCEEEECTTCCHHHHHCEEC--HHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCHH--
T ss_pred             ccccccchhhhhccccccCCCcccccCCCcchhhheeech--hhhhhcCCceeecCceeeecCCCEEEEeChhhCCHH--
Confidence                                  111111100011111100  00111111         1124689999999998432  


Q ss_pred             CCchHHHHhhHHHHHHHhhc----cCc-----CCCCcEEEEEecCCCC-CCcHHHHhccCCceEeCCC-CHHHHHHHHHH
Q 016044          200 TSDHEALTNMKTEFMALWDG----FTT-----DQNARVMVLAATNRPS-ELDEAILRRLPQAFEIGMP-DRKERAQILKV  268 (396)
Q Consensus       200 ~~~~~~~~~~~~~ll~~l~~----~~~-----~~~~~v~vI~atn~~~-~l~~~l~~R~~~~i~~~~P-~~~er~~il~~  268 (396)
                               ....++..++.    +..     ..+.++++|+++|..+ .+++++++||+..+.+++| +.+++.+|++.
T Consensus       160 ---------~~~~Ll~~le~~~~~~~~~g~~~~~~~~~~li~~~n~~~~~l~~~L~~R~~~~~~l~~~~~~~~~~~il~~  230 (350)
T 1g8p_A          160 ---------IVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIRR  230 (350)
T ss_dssp             ---------HHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCSHHHHHHHHHH
T ss_pred             ---------HHHHHHHHHhcCceEEEecceEEeeCCceEEEEEeCCCCCCCCHHHHhhcceEEEcCCCCcHHHHHHHHHH
Confidence                     12233343332    111     1123789999999744 8999999999878999999 67778788876


Q ss_pred             Hhc-------------------------------CCCCCCCCCHHHHHHhCCC---CcHHHHHHHHHHHHHHHHHHHHHH
Q 016044          269 ILK-------------------------------GEKVEENIDFDYLAGLCEG---FTGSDLLEVCKQAAYFSIRELLDE  314 (396)
Q Consensus       269 ~l~-------------------------------~~~~~~~~~l~~la~~~~g---~s~~di~~l~~~A~~~a~~~~~~~  314 (396)
                      .+.                               ...+. +-.++.++..+.+   -+.+.+.++++.|...|..+    
T Consensus       231 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ls-~~~~~~l~~~~~~~~~~~~R~~~~ll~~a~~~A~~~----  305 (350)
T 1g8p_A          231 RDTYDADPKAFLEEWRPKDMDIRNQILEARERLPKVEAP-NTALYDCAALCIALGSDGLRGELTLLRSARALAALE----  305 (350)
T ss_dssp             HHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHGGGCBCC-HHHHHHHHHHHHHSSSCSHHHHHHHHHHHHHHHHHT----
T ss_pred             HHhcccCchhhccccccchHHHHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHc----
Confidence            321                               11111 1113333333322   14566666666655544422    


Q ss_pred             HhcCCCCCCCCCCCHHHHHHHHHhcccc
Q 016044          315 ERKGKPAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       315 ~~~~~~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                              ....|+.+|+..++..+-.+
T Consensus       306 --------~~~~v~~~~v~~a~~~~l~~  325 (350)
T 1g8p_A          306 --------GATAVGRDHLKRVATMALSH  325 (350)
T ss_dssp             --------TCSBCCHHHHHHHHHHHHGG
T ss_pred             --------CCCcCCHHHHHHHHHHHHhh
Confidence                    11459999999999876554

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=99.73  E-value=1.3e-17  Score=144.51  Aligned_cols=151  Identities=19%  Similarity=0.370  Sum_probs=108.2

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEE
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFIN  153 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~  153 (396)
                      +.+|++++|.+...+.+.+.+..              ..+.+++|+||||||||++|+++++.+          +.+++.
T Consensus        18 ~~~~~~~~g~~~~~~~l~~~l~~--------------~~~~~vll~G~~G~GKT~la~~~~~~~~~~~~~~~~~~~~~~~   83 (187)
T 2p65_A           18 AGKLDPVIGRDTEIRRAIQILSR--------------RTKNNPILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVS   83 (187)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHTS--------------SSSCEEEEESCGGGCHHHHHHHHHHHHHTTCSCTTTTTCEEEE
T ss_pred             ccccchhhcchHHHHHHHHHHhC--------------CCCCceEEECCCCCCHHHHHHHHHHHHHhcCCcchhcCCeEEE
Confidence            34789999999988888765531              225789999999999999999999986          778888


Q ss_pred             Eecccccc--hhhchHHHHHHHHHHHHHHh-CCcEEEEccccccccCCC-CCchHHHHhhHHHHHHHhhccCcCCCCcEE
Q 016044          154 VRISNLMS--KWFGDAQKLVAAVFSLAYKL-QPAIIFIDEVDSFLGQRR-TSDHEALTNMKTEFMALWDGFTTDQNARVM  229 (396)
Q Consensus       154 i~~~~l~~--~~~g~~~~~~~~~f~~a~~~-~p~vl~iDEid~l~~~~~-~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~  229 (396)
                      +++..+..  .+.+.....+..++..+... .+.+|||||+|.+.+.+. ....   ....+.+...++      ..++.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vl~iDe~~~l~~~~~~~~~~---~~~~~~l~~~~~------~~~~~  154 (187)
T 2p65_A           84 LDLSSLIAGAKYRGDFEERLKSILKEVQDAEGQVVMFIDEIHTVVGAGAVAEGA---LDAGNILKPMLA------RGELR  154 (187)
T ss_dssp             ECHHHHHHHCCSHHHHHHHHHHHHHHHHHTTTSEEEEETTGGGGSSSSSSCTTS---CCTHHHHHHHHH------TTCSC
T ss_pred             EeHHHhhcCCCchhHHHHHHHHHHHHHHhcCCceEEEEeCHHHhcccccccccc---hHHHHHHHHHHh------cCCee
Confidence            88877652  24455566677777766654 567999999999975443 1111   111222223232      34578


Q ss_pred             EEEecCCCC-----CCcHHHHhccCCceEeCCCC
Q 016044          230 VLAATNRPS-----ELDEAILRRLPQAFEIGMPD  258 (396)
Q Consensus       230 vI~atn~~~-----~l~~~l~~R~~~~i~~~~P~  258 (396)
                      +|+++|.+.     .+++++++||. .+.+++|+
T Consensus       155 ii~~~~~~~~~~~~~~~~~l~~R~~-~i~i~~p~  187 (187)
T 2p65_A          155 CIGATTVSEYRQFIEKDKALERRFQ-QILVEQPS  187 (187)
T ss_dssp             EEEEECHHHHHHHTTTCHHHHHHEE-EEECCSCC
T ss_pred             EEEecCHHHHHHHHhccHHHHHhcC-cccCCCCC
Confidence            899998764     68999999995 58999885

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.72  E-value=1.2e-16  Score=153.14  Aligned_cols=213  Identities=16%  Similarity=0.183  Sum_probs=139.0

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC------CcEEEEe
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG------AVFINVR  155 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~------~~~~~i~  155 (396)
                      ..+.+|++++|++++++.+...+..          +    ...+++|+||||||||++|+++++.++      ..++.++
T Consensus        31 ~~p~~~~~i~g~~~~~~~l~~~l~~----------~----~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~   96 (353)
T 1sxj_D           31 YRPKNLDEVTAQDHAVTVLKKTLKS----------A----NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELN   96 (353)
T ss_dssp             TCCSSTTTCCSCCTTHHHHHHHTTC----------T----TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEEC
T ss_pred             cCCCCHHHhhCCHHHHHHHHHHHhc----------C----CCCEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEc
Confidence            3466899999999999998776531          1    123499999999999999999998754      4578888


Q ss_pred             cccccchhhchHHHHHHHHHHH-----------H-HHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcC
Q 016044          156 ISNLMSKWFGDAQKLVAAVFSL-----------A-YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD  223 (396)
Q Consensus       156 ~~~l~~~~~g~~~~~~~~~f~~-----------a-~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  223 (396)
                      +++..+.  +.....+......           . ....+.+|+|||+|.+...           ..+.++..++..   
T Consensus        97 ~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vliiDE~~~l~~~-----------~~~~Ll~~le~~---  160 (353)
T 1sxj_D           97 ASDERGI--SIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTAD-----------AQSALRRTMETY---  160 (353)
T ss_dssp             SSSCCCH--HHHTTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHH-----------HHHHHHHHHHHT---
T ss_pred             cccccch--HHHHHHHHHHhhhcccccchhhcccCCCCCceEEEEECCCccCHH-----------HHHHHHHHHHhc---
Confidence            8764221  1111111111000           0 0123469999999998432           112444445432   


Q ss_pred             CCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHH
Q 016044          224 QNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQ  302 (396)
Q Consensus       224 ~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~  302 (396)
                       .....+|.++|.+..+.+++++|+ ..+.+++|+.++...+++..+...... ++..++.++..+.|. .+.+.++++.
T Consensus       161 -~~~~~~il~~~~~~~l~~~l~sR~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G~-~r~~~~~l~~  237 (353)
T 1sxj_D          161 -SGVTRFCLICNYVTRIIDPLASQC-SKFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAGD-LRRGITLLQS  237 (353)
T ss_dssp             -TTTEEEEEEESCGGGSCHHHHHHS-EEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSSC-HHHHHHHHHH
T ss_pred             -CCCceEEEEeCchhhCcchhhccC-ceEEeCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHcCCC-HHHHHHHHHH
Confidence             334677778899999999999999 589999999999999999988655433 223367788888873 4555555555


Q ss_pred             HHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHh
Q 016044          303 AAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTT  338 (396)
Q Consensus       303 A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~  338 (396)
                      ++..+-+.       +    ....|+.+|+..++..
T Consensus       238 ~~~~~~~~-------~----~~~~It~~~v~~~~~~  262 (353)
T 1sxj_D          238 ASKGAQYL-------G----DGKNITSTQVEELAGV  262 (353)
T ss_dssp             THHHHHHH-------C----SCCCCCHHHHHHHHTC
T ss_pred             HHHhcCCC-------c----cCccccHHHHHHHhCC
Confidence            54432211       0    0025788887776654

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=99.72  E-value=2.2e-17  Score=176.05  Aligned_cols=200  Identities=20%  Similarity=0.307  Sum_probs=129.6

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEE
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFIN  153 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~  153 (396)
                      +-+|++++|.++.++.+.+.+..              +..++++|+||||||||++|+++|+.+          +.+++.
T Consensus       166 ~~~ld~viGr~~~i~~l~~~l~~--------------~~~~~vlL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~  231 (854)
T 1qvr_A          166 EGKLDPVIGRDEEIRRVIQILLR--------------RTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVS  231 (854)
T ss_dssp             TTCSCCCCSCHHHHHHHHHHHHC--------------SSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEE
T ss_pred             cCCCcccCCcHHHHHHHHHHHhc--------------CCCCceEEEcCCCCCHHHHHHHHHHHHhcCCCchhhcCCeEEE
Confidence            45789999999988888776531              224679999999999999999999987          889999


Q ss_pred             Eeccccc--chhhchHHHHHHHHHHHHHHh-CCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEE
Q 016044          154 VRISNLM--SKWFGDAQKLVAAVFSLAYKL-QPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMV  230 (396)
Q Consensus       154 i~~~~l~--~~~~g~~~~~~~~~f~~a~~~-~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~v  230 (396)
                      ++++.+.  .++.|+.+..+..++..+... .++||||||+|.+.+............   .+...+.      ...+.+
T Consensus       232 l~~~~l~~g~~~~g~~~~~l~~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~g~~~~~~---~L~~~l~------~~~i~~  302 (854)
T 1qvr_A          232 LQMGSLLAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGN---MLKPALA------RGELRL  302 (854)
T ss_dssp             ECC-----------CHHHHHHHHHHHHHTTCSSEEEEECCC----------------------HHHHH------TTCCCE
T ss_pred             eehHHhhccCccchHHHHHHHHHHHHHHhcCCCeEEEEecHHHHhccCCccchHHHHH---HHHHHHh------CCCeEE
Confidence            9998886  567788888999999988765 678999999999976543322111112   2222232      345778


Q ss_pred             EEecCCCC----CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCC----CCC-CCCCHHHHHHhC-----CCCcHHHH
Q 016044          231 LAATNRPS----ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGE----KVE-ENIDFDYLAGLC-----EGFTGSDL  296 (396)
Q Consensus       231 I~atn~~~----~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~----~~~-~~~~l~~la~~~-----~g~s~~di  296 (396)
                      |++||.++    .+++++.+||. .+.++.|+.+++.+|++.++...    ... .+..+..++..+     ..|.+...
T Consensus       303 I~at~~~~~~~~~~d~aL~rRf~-~i~l~~p~~~e~~~iL~~~~~~~~~~~~~~i~~~al~~~~~ls~r~i~~~~lp~ka  381 (854)
T 1qvr_A          303 IGATTLDEYREIEKDPALERRFQ-PVYVDEPTVEETISILRGLKEKYEVHHGVRISDSAIIAAATLSHRYITERRLPDKA  381 (854)
T ss_dssp             EEEECHHHHHHHTTCTTTCSCCC-CEEECCCCHHHHHHHHHHHHHHHHHHTTCEECHHHHHHHHHHHHHHCCSSCTHHHH
T ss_pred             EEecCchHHhhhccCHHHHhCCc-eEEeCCCCHHHHHHHHHhhhhhhhhhcCCCCCHHHHHHHHHHHhhhcccccChHHH
Confidence            89988764    47899999995 59999999999999998776532    111 111244444443     35667777


Q ss_pred             HHHHHHHHHHH
Q 016044          297 LEVCKQAAYFS  307 (396)
Q Consensus       297 ~~l~~~A~~~a  307 (396)
                      ..++++|+...
T Consensus       382 i~lldea~a~~  392 (854)
T 1qvr_A          382 IDLIDEAAARL  392 (854)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77777666543

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.71  E-value=4e-17  Score=172.18  Aligned_cols=184  Identities=20%  Similarity=0.298  Sum_probs=128.7

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEE
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFIN  153 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~  153 (396)
                      +-.+++++|.++.++.+.+.+..              ....++||+||||||||++|+++|+.+          +.+++.
T Consensus       176 ~~~ld~iiG~~~~i~~l~~~l~~--------------~~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~  241 (758)
T 3pxi_A          176 EDSLDPVIGRSKEIQRVIEVLSR--------------RTKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMT  241 (758)
T ss_dssp             SSCSCCCCCCHHHHHHHHHHHHC--------------SSSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEEC
T ss_pred             hCCCCCccCchHHHHHHHHHHhC--------------CCCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEE
Confidence            35788999999999998776541              235789999999999999999999986          788888


Q ss_pred             EecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEe
Q 016044          154 VRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAA  233 (396)
Q Consensus       154 i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~a  233 (396)
                      +++   ..++.|+.+..++.+|..+....++|||||      +..         ...+.++..++      .+.+.+|++
T Consensus       242 ~~~---g~~~~G~~e~~l~~~~~~~~~~~~~iLfiD------~~~---------~~~~~L~~~l~------~~~v~~I~a  297 (758)
T 3pxi_A          242 LDM---GTKYRGEFEDRLKKVMDEIRQAGNIILFID------AAI---------DASNILKPSLA------RGELQCIGA  297 (758)
T ss_dssp             C-------------CTTHHHHHHHHHTCCCCEEEEC------C-----------------CCCTT------SSSCEEEEE
T ss_pred             ecc---cccccchHHHHHHHHHHHHHhcCCEEEEEc------Cch---------hHHHHHHHHHh------cCCEEEEeC
Confidence            887   556778888889999999988889999999      000         01111211111      456899999


Q ss_pred             cCCCC-----CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCC--CC---HHHHHHhC-----CCCcHHHHHH
Q 016044          234 TNRPS-----ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEEN--ID---FDYLAGLC-----EGFTGSDLLE  298 (396)
Q Consensus       234 tn~~~-----~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~--~~---l~~la~~~-----~g~s~~di~~  298 (396)
                      ||..+     .++++++||| ..+.|+.|+.+++.+||+.++.......+  ++   +..++..+     .++.+.....
T Consensus       298 t~~~~~~~~~~~d~al~rRf-~~i~v~~p~~~~~~~il~~~~~~~~~~~~~~i~~~al~~~~~~s~~~i~~~~~p~~ai~  376 (758)
T 3pxi_A          298 TTLDEYRKYIEKDAALERRF-QPIQVDQPSVDESIQILQGLRDRYEAHHRVSITDDAIEAAVKLSDRYISDRFLPDKAID  376 (758)
T ss_dssp             CCTTTTHHHHTTCSHHHHSE-EEEECCCCCHHHHHHHHHHTTTTSGGGSSCSCCHHHHHHHHHHHHHSSCCSCTTHHHHH
T ss_pred             CChHHHHHHhhccHHHHhhC-cEEEeCCCCHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhcccccCcCCcHHHH
Confidence            99888     7899999999 67999999999999999988766432222  22   33444433     3566677777


Q ss_pred             HHHHHHHH
Q 016044          299 VCKQAAYF  306 (396)
Q Consensus       299 l~~~A~~~  306 (396)
                      +++.|+..
T Consensus       377 ll~~a~~~  384 (758)
T 3pxi_A          377 LIDEAGSK  384 (758)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77776554

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.70  E-value=5.5e-16  Score=149.85  Aligned_cols=223  Identities=13%  Similarity=0.162  Sum_probs=148.1

Q ss_pred             cccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc------CCcEEEEeccc
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES------GAVFINVRISN  158 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~------~~~~~~i~~~~  158 (396)
                      ...++++|.++.++.+.+.+...+      .    ...+..++|+||||||||++++++++.+      +.+++.++|..
T Consensus        17 ~~p~~~~gr~~e~~~l~~~l~~~~------~----~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~   86 (386)
T 2qby_A           17 YIPDELPHREDQIRKIASILAPLY------R----EEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQ   86 (386)
T ss_dssp             CCCSCCTTCHHHHHHHHHSSGGGG------G----TCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHH
T ss_pred             cCCCCCCChHHHHHHHHHHHHHHH------c----CCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCC
Confidence            345889999999999977654211      1    1235689999999999999999999987      88999999764


Q ss_pred             ccchh----------------hc-hHHHHHHHHHHHHHHhC-CcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc
Q 016044          159 LMSKW----------------FG-DAQKLVAAVFSLAYKLQ-PAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF  220 (396)
Q Consensus       159 l~~~~----------------~g-~~~~~~~~~f~~a~~~~-p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~  220 (396)
                      .....                .+ ........++....... |.+|+|||+|.+......       ..+..++..++..
T Consensus        87 ~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~-------~~l~~l~~~~~~~  159 (386)
T 2qby_A           87 IDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYND-------DILYKLSRINSEV  159 (386)
T ss_dssp             HCSHHHHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCS-------THHHHHHHHHHSC
T ss_pred             CCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcC-------HHHHHHhhchhhc
Confidence            32210                01 12333444444444333 789999999998654311       2233455555433


Q ss_pred             CcCCCCcEEEEEecCCC---CCCcHHHHhccCC-ceEeCCCCHHHHHHHHHHHhcCCCCCCCC---CHHHHHHhCC---C
Q 016044          221 TTDQNARVMVLAATNRP---SELDEAILRRLPQ-AFEIGMPDRKERAQILKVILKGEKVEENI---DFDYLAGLCE---G  290 (396)
Q Consensus       221 ~~~~~~~v~vI~atn~~---~~l~~~l~~R~~~-~i~~~~P~~~er~~il~~~l~~~~~~~~~---~l~~la~~~~---g  290 (396)
                         ...++.+|++||.+   ..+++.+.+||.. .+.+++++.++..++++..+........+   .+..++..+.   |
T Consensus       160 ---~~~~~~~I~~~~~~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G  236 (386)
T 2qby_A          160 ---NKSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHG  236 (386)
T ss_dssp             ---CC--EEEEEEESCGGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTC
T ss_pred             ---CCCeEEEEEEECCCChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcC
Confidence               24578889999876   4678889999864 89999999999999999876521111112   2455666665   5


Q ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhcc
Q 016044          291 FTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSR  340 (396)
Q Consensus       291 ~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~  340 (396)
                       .+..+.++|+.|+..+..+            ....|+.+|+..++....
T Consensus       237 -~~r~~~~ll~~a~~~a~~~------------~~~~i~~~~v~~a~~~~~  273 (386)
T 2qby_A          237 -DARRALDLLRVSGEIAERM------------KDTKVKEEYVYMAKEEIE  273 (386)
T ss_dssp             -CHHHHHHHHHHHHHHHHHT------------TCSSCCHHHHHHHHHHHH
T ss_pred             -CHHHHHHHHHHHHHHHHhc------------CCCccCHHHHHHHHHHHh
Confidence             4556667888876655432            124689999998887654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=99.70  E-value=1.8e-16  Score=167.22  Aligned_cols=205  Identities=13%  Similarity=0.172  Sum_probs=139.3

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhh
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWF  164 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~  164 (396)
                      ++++|++.+++.+.+.+.....     .......|..++||+||||||||++|+++|+.+   +.+|+.++|+++...+.
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~-----~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~~s~~~~~~~  565 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARA-----GLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHS  565 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTT-----TCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEEGGGGCSSCC
T ss_pred             CcCcChHHHHHHHHHHHHHHHc-----ccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEechhcccccc
Confidence            5689999999999887753110     000111222369999999999999999999987   68999999999987765


Q ss_pred             chHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCc-------CCCCcEEEEEecCCC
Q 016044          165 GDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTT-------DQNARVMVLAATNRP  237 (396)
Q Consensus       165 g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~-------~~~~~v~vI~atn~~  237 (396)
                      ...    ..++...+...++||||||+|.+..           .+.+.|+..++....       ....++++|+|||.+
T Consensus       566 ~~~----~~l~~~~~~~~~~vl~lDEi~~~~~-----------~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~ttn~~  630 (758)
T 3pxi_A          566 TSG----GQLTEKVRRKPYSVVLLDAIEKAHP-----------DVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTSNVG  630 (758)
T ss_dssp             CC-------CHHHHHHCSSSEEEEECGGGSCH-----------HHHHHHHHHHHHSBCC-----CCBCTTCEEEEEESSS
T ss_pred             ccc----chhhHHHHhCCCeEEEEeCccccCH-----------HHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeCCCC
Confidence            541    1223334455668999999998722           233455555554221       123467999999965


Q ss_pred             CC------------CcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCC-------CCCCCC---CHHHHHHhCC--CCcH
Q 016044          238 SE------------LDEAILRRLPQAFEIGMPDRKERAQILKVILKGE-------KVEENI---DFDYLAGLCE--GFTG  293 (396)
Q Consensus       238 ~~------------l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~-------~~~~~~---~l~~la~~~~--g~s~  293 (396)
                      ..            +.+++++||+..+.|++|+.+++..|++.++...       ...-.+   .++.|+....  .+..
T Consensus       631 ~~~~~~~~~~~~~~f~p~l~~Rl~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~  710 (758)
T 3pxi_A          631 ASEKDKVMGELKRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLMSDQLTKRLKEQDLSIELTDAAKAKVAEEGVDLEYGA  710 (758)
T ss_dssp             TTCCHHHHHHHHHHSCHHHHTTSSEEEECC--CHHHHHHHHHHHHHHHHHHHHTTTCEEEECHHHHHHHHGGGCCTTTTT
T ss_pred             hhhHHHHHHHHHhhCCHHHHhhCCeEEecCCCCHHHHHHHHHHHHHHHHHHHHhCCCeEEECHHHHHHHHHhCCCCCCCC
Confidence            53            7899999999999999999999999998877532       111112   2455655422  3455


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 016044          294 SDLLEVCKQAAYFSIRELL  312 (396)
Q Consensus       294 ~di~~l~~~A~~~a~~~~~  312 (396)
                      ++|+++++.+...++.+.+
T Consensus       711 R~L~~~i~~~v~~~l~~~~  729 (758)
T 3pxi_A          711 RPLRRAIQKHVEDRLSEEL  729 (758)
T ss_dssp             TTHHHHHHHHTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHH
Confidence            6888888888777776544

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=99.70  E-value=2.2e-16  Score=152.37  Aligned_cols=186  Identities=24%  Similarity=0.285  Sum_probs=130.0

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc------------
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV------------  150 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~------------  150 (396)
                      .+.+|++++|++.+++.+...+..          +   ..++.++|+||+|||||++|+++++.+++.            
T Consensus        11 rp~~~~~~vg~~~~~~~L~~~l~~----------~---~~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~   77 (373)
T 1jr3_A           11 RPQTFADVVGQEHVLTALANGLSL----------G---RIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCD   77 (373)
T ss_dssp             CCCSTTTSCSCHHHHHHHHHHHHH----------T---CCCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSCSSCCSSSH
T ss_pred             CCCchhhccCcHHHHHHHHHHHHh----------C---CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccH
Confidence            356899999999999999887642          1   124678999999999999999999987542            


Q ss_pred             ------------EEEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHH
Q 016044          151 ------------FINVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFM  214 (396)
Q Consensus       151 ------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll  214 (396)
                                  ++.++...-  ....    .++.++..+.    ...+.||+|||+|.+..           ...+.++
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~--~~~~----~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~-----------~~~~~Ll  140 (373)
T 1jr3_A           78 NCREIEQGRFVDLIEIDAASR--TKVE----DTRDLLDNVQYAPARGRFKVYLIDEVHMLSR-----------HSFNALL  140 (373)
T ss_dssp             HHHHHHTSCCSSCEEEETTCS--CCSS----CHHHHHHHTTSCCSSSSSEEEEEECGGGSCH-----------HHHHHHH
T ss_pred             HHHHHhccCCCceEEeccccc--CCHH----HHHHHHHHHhhccccCCeEEEEEECcchhcH-----------HHHHHHH
Confidence                        233332210  1111    1333333332    22357999999998832           1223455


Q ss_pred             HHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcH
Q 016044          215 ALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTG  293 (396)
Q Consensus       215 ~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~  293 (396)
                      ..++.    .+.++++|++|+.+..+.+++++|+ ..+.+++|+.++...+++..+...+.. ++..+..++..+.| +.
T Consensus       141 ~~le~----~~~~~~~Il~~~~~~~l~~~l~sr~-~~i~~~~l~~~~~~~~l~~~~~~~~~~~~~~a~~~l~~~~~G-~~  214 (373)
T 1jr3_A          141 KTLEE----PPEHVKFLLATTDPQKLPVTILSRC-LQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEG-SL  214 (373)
T ss_dssp             HHHHS----CCSSEEEEEEESCGGGSCHHHHTTS-EEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHSSS-CH
T ss_pred             HHHhc----CCCceEEEEEeCChHhCcHHHHhhe-eEeeCCCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHCCC-CH
Confidence            55543    3567888889998889999999998 889999999999999999988654433 12225678888877 66


Q ss_pred             HHHHHHHHHHH
Q 016044          294 SDLLEVCKQAA  304 (396)
Q Consensus       294 ~di~~l~~~A~  304 (396)
                      .++.++++.+.
T Consensus       215 r~~~~~l~~~~  225 (373)
T 1jr3_A          215 RDALSLTDQAI  225 (373)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77888877764

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=99.70  E-value=1.8e-15  Score=144.24  Aligned_cols=216  Identities=21%  Similarity=0.217  Sum_probs=147.1

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchh
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKW  163 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~  163 (396)
                      +.+|++++|++.+++.+...+....      ..+   .++.+++|+|||||||||+++++|+.++.++...+++.+... 
T Consensus        21 ~~~l~~~~g~~~~~~~l~~~i~~~~------~~~---~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~~~sg~~~~~~-   90 (334)
T 1in4_A           21 PKSLDEFIGQENVKKKLSLALEAAK------MRG---EVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQ-   90 (334)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHHHH------HHT---CCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSH-
T ss_pred             CccHHHccCcHHHHHHHHHHHHHHH------hcC---CCCCeEEEECCCCCcHHHHHHHHHHHhCCCEEEEechHhcCH-
Confidence            4489999999999888876654210      011   234679999999999999999999999988877665544221 


Q ss_pred             hchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCc------C--------CCCcEE
Q 016044          164 FGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTT------D--------QNARVM  229 (396)
Q Consensus       164 ~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~------~--------~~~~v~  229 (396)
                           ..+..++..  ...++|+||||++.+...    .    ..   .++..+.....      .        .-..+.
T Consensus        91 -----~~l~~~~~~--~~~~~v~~iDE~~~l~~~----~----~e---~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~  152 (334)
T 1in4_A           91 -----GDMAAILTS--LERGDVLFIDEIHRLNKA----V----EE---LLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFT  152 (334)
T ss_dssp             -----HHHHHHHHH--CCTTCEEEEETGGGCCHH----H----HH---HHHHHHHTSCCCC---------------CCCE
T ss_pred             -----HHHHHHHHH--ccCCCEEEEcchhhcCHH----H----HH---HHHHHHHhcccceeeccCcccccccccCCCeE
Confidence                 112222221  124589999999988531    1    11   22222221110      0        012467


Q ss_pred             EEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHH
Q 016044          230 VLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSI  308 (396)
Q Consensus       230 vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~  308 (396)
                      ++++++.+..+++++++||...+.+++|+.+++.++++......... ++..+..++..+.| +++.+..+++.+...|.
T Consensus       153 li~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~~~~~~~~~~~ia~~~~G-~~R~a~~ll~~~~~~a~  231 (334)
T 1in4_A          153 LVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRG-TPRIAIRLTKRVRDMLT  231 (334)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTT-CHHHHHHHHHHHHHHHH
T ss_pred             EEEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHhcCC-ChHHHHHHHHHHHHHHH
Confidence            88899999999999999998788999999999999999887654433 12236778888887 56788888887766654


Q ss_pred             HHHHHHHhcCCCCCCCCCCCHHHHHHHHHhcc
Q 016044          309 RELLDEERKGKPAAAPRPLSRLDLEKVLTTSR  340 (396)
Q Consensus       309 ~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~  340 (396)
                      .+.            ...|+.+++.+++....
T Consensus       232 ~~~------------~~~It~~~v~~al~~~~  251 (334)
T 1in4_A          232 VVK------------ADRINTDIVLKTMEVLN  251 (334)
T ss_dssp             HHT------------CSSBCHHHHHHHHHHHT
T ss_pred             HcC------------CCCcCHHHHHHHHHHhC
Confidence            321            14688999999888764

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=99.69  E-value=8.3e-17  Score=151.17  Aligned_cols=159  Identities=11%  Similarity=0.100  Sum_probs=111.4

Q ss_pred             ccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEEEecccc
Q 016044           90 IGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFINVRISNL  159 (396)
Q Consensus        90 i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~i~~~~l  159 (396)
                      |.|.++..+.+...+...      ...    ..+.+++|+||||||||++++++++++          +..+++++|..+
T Consensus        22 L~~Re~E~~~i~~~L~~~------i~~----~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~~~   91 (318)
T 3te6_A           22 LKSQVEDFTRIFLPIYDS------LMS----SQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALEL   91 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHH------HHT----TCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETTCC
T ss_pred             cCCHHHHHHHHHHHHHHH------hcC----CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEecccc
Confidence            667777777777666431      111    246889999999999999999999987          357889999775


Q ss_pred             cchh----------------hchHHHHHHHHHHHH--HHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC
Q 016044          160 MSKW----------------FGDAQKLVAAVFSLA--YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT  221 (396)
Q Consensus       160 ~~~~----------------~g~~~~~~~~~f~~a--~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~  221 (396)
                      .+.+                .+.....+...|...  ....+.|++|||+|.+.      .+    +++..++....   
T Consensus        92 ~t~~~~~~~I~~~L~g~~~~~~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~------~q----~~L~~l~~~~~---  158 (318)
T 3te6_A           92 AGMDALYEKIWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL------SE----KILQYFEKWIS---  158 (318)
T ss_dssp             C--HHHHHHHHHHHSCCC--CCCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSC------CT----HHHHHHHHHHH---
T ss_pred             CCHHHHHHHHHHHhcCCCCCchHHHHHHHHHHHHhhhccCCceEEEEecHHHhh------cc----hHHHHHHhccc---
Confidence            4431                122345566667653  23456899999999996      11    22223333211   


Q ss_pred             cCCCCcEEEEEecCCCCC----CcHHHHhccC-CceEeCCCCHHHHHHHHHHHhcC
Q 016044          222 TDQNARVMVLAATNRPSE----LDEAILRRLP-QAFEIGMPDRKERAQILKVILKG  272 (396)
Q Consensus       222 ~~~~~~v~vI~atn~~~~----l~~~l~~R~~-~~i~~~~P~~~er~~il~~~l~~  272 (396)
                       ....++.+|+++|..+.    +++++++||. .++.|++++.++..+|++..+..
T Consensus       159 -~~~s~~~vI~i~n~~d~~~~~L~~~v~SR~~~~~i~F~pYt~~el~~Il~~Rl~~  213 (318)
T 3te6_A          159 -SKNSKLSIICVGGHNVTIREQINIMPSLKAHFTEIKLNKVDKNELQQMIITRLKS  213 (318)
T ss_dssp             -CSSCCEEEEEECCSSCCCHHHHHTCHHHHTTEEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             -ccCCcEEEEEEecCcccchhhcchhhhccCCceEEEeCCCCHHHHHHHHHHHHHh
Confidence             23567999999998764    3455677886 57999999999999999998864

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=99.69  E-value=1.2e-15  Score=148.05  Aligned_cols=222  Identities=14%  Similarity=0.098  Sum_probs=147.4

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCc--eEEEECCCCCcHHHHHHHHHHHc----CCcEEEEecccc
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQK--GVLLYGPPGTGKTMLAKAIAKES----GAVFINVRISNL  159 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~--~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~~~l  159 (396)
                      .+++++|.++.++.+...+...+      ..    ..+.  +++|+||||||||++++++++.+    +..++.++|...
T Consensus        15 ~p~~l~gr~~~~~~l~~~l~~~~------~~----~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~   84 (389)
T 1fnn_A           15 VPKRLPHREQQLQQLDILLGNWL------RN----PGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIY   84 (389)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHH------HS----TTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTC
T ss_pred             CCCCCCChHHHHHHHHHHHHHHH------cC----CCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccC
Confidence            34789999999999988775311      11    1133  79999999999999999999988    678899998664


Q ss_pred             cchh----------------hc-hHHHHHHHHHHHHHH-hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC
Q 016044          160 MSKW----------------FG-DAQKLVAAVFSLAYK-LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT  221 (396)
Q Consensus       160 ~~~~----------------~g-~~~~~~~~~f~~a~~-~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~  221 (396)
                      ....                .+ ........+...... ..|.+|+|||+|.+.       .    .....+...+....
T Consensus        85 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~-------~----~~~~~L~~~~~~~~  153 (389)
T 1fnn_A           85 RNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLA-------P----DILSTFIRLGQEAD  153 (389)
T ss_dssp             CSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSC-------H----HHHHHHHHHTTCHH
T ss_pred             CCHHHHHHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccc-------h----HHHHHHHHHHHhCC
Confidence            3210                01 122222333332222 347899999999981       1    22334444443322


Q ss_pred             cCCCCcEEEEEecCCC---CCCcHHHHhccCC-ceEeCCCCHHHHHHHHHHHhcCC---CCCCCCCHHHHHHhC------
Q 016044          222 TDQNARVMVLAATNRP---SELDEAILRRLPQ-AFEIGMPDRKERAQILKVILKGE---KVEENIDFDYLAGLC------  288 (396)
Q Consensus       222 ~~~~~~v~vI~atn~~---~~l~~~l~~R~~~-~i~~~~P~~~er~~il~~~l~~~---~~~~~~~l~~la~~~------  288 (396)
                      .....++.+|+++|.+   +.+++.+.+||.. .+.|++++.++..++++..+...   ..-.+..++.++..+      
T Consensus       154 ~~~~~~~~iI~~~~~~~~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  233 (389)
T 1fnn_A          154 KLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPL  233 (389)
T ss_dssp             HHSSCCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTT
T ss_pred             CCCcCCEEEEEEECCchHHHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccC
Confidence            1111468889999887   6788999999865 79999999999999999887531   111222356778887      


Q ss_pred             ---CCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhccc
Q 016044          289 ---EGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRK  341 (396)
Q Consensus       289 ---~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~~  341 (396)
                         .| .+..+.++|+.|+..+..+.            ...++.+++..++.....
T Consensus       234 ~~~~G-~~r~~~~~l~~a~~~a~~~~------------~~~i~~~~v~~~~~~~~~  276 (389)
T 1fnn_A          234 DTNRG-DARLAIDILYRSAYAAQQNG------------RKHIAPEDVRKSSKEVLF  276 (389)
T ss_dssp             CTTSC-CHHHHHHHHHHHHHHHHHTT------------CSSCCHHHHHHHHHHHSC
T ss_pred             CCCCC-cHHHHHHHHHHHHHHHHHhC------------CCCcCHHHHHHHHHHHhh
Confidence               44 55678888888876665421            145888888888776543

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=99.69  E-value=1.7e-16  Score=149.73  Aligned_cols=190  Identities=21%  Similarity=0.216  Sum_probs=127.7

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEe
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVR  155 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~  155 (396)
                      ...+.+|++++|++.+++.+...+..          +    ...+++|+||||||||++|+++++.+     +.+++.++
T Consensus        10 k~~p~~~~~~~g~~~~~~~l~~~l~~----------~----~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~   75 (319)
T 2chq_A           10 KYRPRTLDEVVGQDEVIQRLKGYVER----------K----NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMN   75 (319)
T ss_dssp             TTSCSSGGGSCSCHHHHHHHHTTTTT----------T----CCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEE
T ss_pred             hcCCCCHHHHhCCHHHHHHHHHHHhC----------C----CCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEe
Confidence            45567899999999999998765421          1    12349999999999999999999986     34678888


Q ss_pred             cccccchhhchHHHHHHHHHHHH-H-HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEe
Q 016044          156 ISNLMSKWFGDAQKLVAAVFSLA-Y-KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAA  233 (396)
Q Consensus       156 ~~~l~~~~~g~~~~~~~~~f~~a-~-~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~a  233 (396)
                      +++..+.  ......+....... . ...+.+++|||+|.+...           ..+.++..++    ..+.++.+|++
T Consensus        76 ~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~-----------~~~~L~~~le----~~~~~~~~i~~  138 (319)
T 2chq_A           76 ASDERGI--DVVRHKIKEFARTAPIGGAPFKIIFLDEADALTAD-----------AQAALRRTME----MYSKSCRFILS  138 (319)
T ss_dssp             TTSTTCT--TTSSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHH-----------HHHTTGGGTS----SSSSSEEEEEE
T ss_pred             CccccCh--HHHHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHH-----------HHHHHHHHHH----hcCCCCeEEEE
Confidence            8764331  11111122111000 0 134689999999998321           1112333332    23567889999


Q ss_pred             cCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHH
Q 016044          234 TNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQA  303 (396)
Q Consensus       234 tn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A  303 (396)
                      ||.+..+.+++.+|+ ..+.+++|+.+++..++...+...... ++..++.++..+.| ..+.+.++++.+
T Consensus       139 ~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~i~~~~l~~l~~~~~G-~~r~~~~~l~~~  207 (319)
T 2chq_A          139 CNYVSRIIEPIQSRC-AVFRFKPVPKEAMKKRLLEICEKEGVKITEDGLEALIYISGG-DFRKAINALQGA  207 (319)
T ss_dssp             ESCGGGSCHHHHTTC-EEEECCCCCHHHHHHHHHHHHHTTCCCBCHHHHHHHHHTTTT-CHHHHHHHHHHH
T ss_pred             eCChhhcchHHHhhC-eEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC-CHHHHHHHHHHH
Confidence            999999999999999 589999999999999999998765543 22235667766665 334444444443

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=99.69  E-value=2.4e-16  Score=166.30  Aligned_cols=205  Identities=18%  Similarity=0.216  Sum_probs=140.8

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcC--CCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch---
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHG--KLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK---  162 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~--~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~---  162 (396)
                      ++++|++.+++.+...+..       ...+  ...+|..++||+||||||||++|+++++.++.+++.++|+++...   
T Consensus       458 ~~v~g~~~~~~~l~~~i~~-------~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l~~~~~~i~~s~~~~~~~~  530 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKM-------ARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTV  530 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHH-------HHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCC
T ss_pred             hhccCHHHHHHHHHHHHHH-------HhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCEEEEechhhcchhhH
Confidence            3588999999988776642       1111  111234579999999999999999999999999999999887653   


Q ss_pred             ---------hhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcC-------CCC
Q 016044          163 ---------WFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD-------QNA  226 (396)
Q Consensus       163 ---------~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~-------~~~  226 (396)
                               +.|..+.  ..+....+...++||||||+|.+..           .+.+.|+..++.....       .-.
T Consensus       531 ~~l~g~~~g~~g~~~~--~~l~~~~~~~~~~vl~lDEi~~~~~-----------~~~~~Ll~~le~~~~~~~~g~~~~~~  597 (758)
T 1r6b_X          531 SRLIGAPPGYVGFDQG--GLLTDAVIKHPHAVLLLDEIEKAHP-----------DVFNILLQVMDNGTLTDNNGRKADFR  597 (758)
T ss_dssp             SSSCCCCSCSHHHHHT--THHHHHHHHCSSEEEEEETGGGSCH-----------HHHHHHHHHHHHSEEEETTTEEEECT
T ss_pred             hhhcCCCCCCcCcccc--chHHHHHHhCCCcEEEEeCccccCH-----------HHHHHHHHHhcCcEEEcCCCCEEecC
Confidence                     3332221  1223344455679999999998731           2444566666532110       014


Q ss_pred             cEEEEEecCCCC-------------------------CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCC--------
Q 016044          227 RVMVLAATNRPS-------------------------ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGE--------  273 (396)
Q Consensus       227 ~v~vI~atn~~~-------------------------~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~--------  273 (396)
                      ++++|+|||...                         .+++++++||+..+.|++|+.+++..|++.++...        
T Consensus       598 ~~~iI~tsN~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~l~~~~~~~i~~~~l~~~~~~~~~~~  677 (758)
T 1r6b_X          598 NVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKG  677 (758)
T ss_dssp             TEEEEEEECSSCC-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             CeEEEEecCcchhhhhhcccCccccchHHHHHHHHHHhcCHHHHhhCCcceeeCCCCHHHHHHHHHHHHHHHHHHHHHCC
Confidence            688999999754                         57899999999999999999999999999887521        


Q ss_pred             -CCC-CCCCHHHHHHhC--CCCcHHHHHHHHHHHHHHHHHHHH
Q 016044          274 -KVE-ENIDFDYLAGLC--EGFTGSDLLEVCKQAAYFSIRELL  312 (396)
Q Consensus       274 -~~~-~~~~l~~la~~~--~g~s~~di~~l~~~A~~~a~~~~~  312 (396)
                       .+. .+-.++.++...  .++..+++..+++.+...++.+.+
T Consensus       678 ~~~~~~~~a~~~l~~~~~~~~~g~R~l~~~i~~~~~~~l~~~~  720 (758)
T 1r6b_X          678 VSLEVSQEARNWLAEKGYDRAMGARPMARVIQDNLKKPLANEL  720 (758)
T ss_dssp             EEEEECHHHHHHHHHHHCBTTTBTTTHHHHHHHHHTHHHHHHH
T ss_pred             cEEEeCHHHHHHHHHhCCCcCCCchHHHHHHHHHHHHHHHHHH
Confidence             111 112245566543  245677888888888877666543

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.68  E-value=7.5e-16  Score=145.51  Aligned_cols=186  Identities=16%  Similarity=0.147  Sum_probs=128.1

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEec
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVRI  156 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~~  156 (396)
                      ..+.+|++++|++..++.+...+..          +   ..++ ++|+||||+|||++|+++++.+     +..++.+++
T Consensus        15 ~~p~~~~~~~g~~~~~~~l~~~l~~----------~---~~~~-~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~   80 (323)
T 1sxj_B           15 YRPQVLSDIVGNKETIDRLQQIAKD----------G---NMPH-MIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNA   80 (323)
T ss_dssp             TCCSSGGGCCSCTHHHHHHHHHHHS----------C---CCCC-EEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECT
T ss_pred             cCCCCHHHHHCCHHHHHHHHHHHHc----------C---CCCe-EEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEecC
Confidence            3456899999999999999887642          1   1233 9999999999999999999985     356788887


Q ss_pred             ccccchhhchHHHHHHHHHHHHH-------HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEE
Q 016044          157 SNLMSKWFGDAQKLVAAVFSLAY-------KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVM  229 (396)
Q Consensus       157 ~~l~~~~~g~~~~~~~~~f~~a~-------~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~  229 (396)
                      ++..+      ...++..+....       ...+.+|+|||+|.+....           .+.++..++.    .+.++.
T Consensus        81 ~~~~~------~~~i~~~~~~~~~~~~~~~~~~~~viiiDe~~~l~~~~-----------~~~L~~~le~----~~~~~~  139 (323)
T 1sxj_B           81 SDDRG------IDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGA-----------QQALRRTMEL----YSNSTR  139 (323)
T ss_dssp             TSCCS------HHHHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHHH-----------HHTTHHHHHH----TTTTEE
T ss_pred             ccccC------hHHHHHHHHHHHhccccCCCCCceEEEEECcccCCHHH-----------HHHHHHHHhc----cCCCce
Confidence            65322      122333333332       2236899999999984311           1233333332    245678


Q ss_pred             EEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHH
Q 016044          230 VLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAA  304 (396)
Q Consensus       230 vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~  304 (396)
                      +|++||.+..+.+++.+|+ ..+.+++|+.++..++++..+...... ++..+..++..+.|. .+.+.++++.++
T Consensus       140 ~il~~~~~~~l~~~l~sr~-~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~G~-~r~a~~~l~~~~  213 (323)
T 1sxj_B          140 FAFACNQSNKIIEPLQSQC-AILRYSKLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEGD-MRQAINNLQSTV  213 (323)
T ss_dssp             EEEEESCGGGSCHHHHTTS-EEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTTC-HHHHHHHHHHHH
T ss_pred             EEEEeCChhhchhHHHhhc-eEEeecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCC-HHHHHHHHHHHH
Confidence            8888899999999999999 589999999999999999887643332 222356778888763 444444444433

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=99.68  E-value=1.1e-15  Score=144.73  Aligned_cols=190  Identities=24%  Similarity=0.278  Sum_probs=128.6

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC-----CcEEEEec
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG-----AVFINVRI  156 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~-----~~~~~i~~  156 (396)
                      ..+.+|++++|++.+++.+..++..          +    ...+++|+||||||||++|+++++.+.     ..++.+++
T Consensus        19 ~~p~~~~~~~g~~~~~~~l~~~l~~----------~----~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~   84 (327)
T 1iqp_A           19 YRPQRLDDIVGQEHIVKRLKHYVKT----------G----SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNA   84 (327)
T ss_dssp             TCCCSTTTCCSCHHHHHHHHHHHHH----------T----CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEET
T ss_pred             cCCCCHHHhhCCHHHHHHHHHHHHc----------C----CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeec
Confidence            4467899999999999999877642          1    123599999999999999999999863     34777887


Q ss_pred             ccccchhhchHHHHHHHHHHHH--HHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEec
Q 016044          157 SNLMSKWFGDAQKLVAAVFSLA--YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAAT  234 (396)
Q Consensus       157 ~~l~~~~~g~~~~~~~~~f~~a--~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~at  234 (396)
                      ++..+.  ......+.......  ....+.+++|||+|.+...           ..+.++..++..    +.++.+|+++
T Consensus        85 ~~~~~~--~~~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~-----------~~~~L~~~le~~----~~~~~~i~~~  147 (327)
T 1iqp_A           85 SDERGI--NVIREKVKEFARTKPIGGASFKIIFLDEADALTQD-----------AQQALRRTMEMF----SSNVRFILSC  147 (327)
T ss_dssp             TCHHHH--HTTHHHHHHHHHSCCGGGCSCEEEEEETGGGSCHH-----------HHHHHHHHHHHT----TTTEEEEEEE
T ss_pred             cccCch--HHHHHHHHHHHhhCCcCCCCCeEEEEeCCCcCCHH-----------HHHHHHHHHHhc----CCCCeEEEEe
Confidence            654221  11111111111000  0134689999999998321           122344444432    4467888899


Q ss_pred             CCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHH
Q 016044          235 NRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAA  304 (396)
Q Consensus       235 n~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~  304 (396)
                      |.+..+.+++.+|+ ..+.+++|+.++...+++..+...... ++..++.++..+.| +.+.+.++++.++
T Consensus       148 ~~~~~l~~~l~sr~-~~~~~~~l~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~g-~~r~~~~~l~~~~  216 (327)
T 1iqp_A          148 NYSSKIIEPIQSRC-AIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEG-DMRRAINILQAAA  216 (327)
T ss_dssp             SCGGGSCHHHHHTE-EEEECCCCCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTT-CHHHHHHHHHHHH
T ss_pred             CCccccCHHHHhhC-cEEEecCCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHCCC-CHHHHHHHHHHHH
Confidence            99999999999999 589999999999999999988765543 22235677777766 4455555555444

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=99.66  E-value=1.7e-16  Score=146.33  Aligned_cols=152  Identities=20%  Similarity=0.246  Sum_probs=92.5

Q ss_pred             cccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC---CcEEEEecccccc
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG---AVFINVRISNLMS  161 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~---~~~~~i~~~~l~~  161 (396)
                      .+|++++|.+..++.+.+.+...            ...+.++||+||||||||++|+++++.+.   .+|+.++|+.+..
T Consensus         3 ~~f~~~ig~~~~~~~~~~~~~~~------------~~~~~~vll~G~~GtGKt~la~~i~~~~~~~~~~~~~v~~~~~~~   70 (265)
T 2bjv_A            3 EYKDNLLGEANSFLEVLEQVSHL------------APLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNE   70 (265)
T ss_dssp             -------CCCHHHHHHHHHHHHH------------TTSCSCEEEECCTTSCHHHHHHHHHHTSTTTTSCEEEEEGGGSCH
T ss_pred             cccccceeCCHHHHHHHHHHHHH------------hCCCCCEEEECCCCCcHHHHHHHHHHhcCccCCCeEEEecCCCCh
Confidence            47899999999988887766421            11247899999999999999999999874   6899999988743


Q ss_pred             hhh-----chHHHHH-------HHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-------c
Q 016044          162 KWF-----GDAQKLV-------AAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-------T  222 (396)
Q Consensus       162 ~~~-----g~~~~~~-------~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-------~  222 (396)
                      ...     |......       ...+.   ...+++|||||+|.+...           ....++..++...       .
T Consensus        71 ~~~~~~l~g~~~~~~~g~~~~~~~~l~---~a~~~~l~lDEi~~l~~~-----------~q~~Ll~~l~~~~~~~~g~~~  136 (265)
T 2bjv_A           71 NLLDSELFGHEAGAFTGAQKRHPGRFE---RADGGTLFLDELATAPMM-----------VQEKLLRVIEYGELERVGGSQ  136 (265)
T ss_dssp             HHHHHHHHCCC---------CCCCHHH---HTTTSEEEEESGGGSCHH-----------HHHHHHHHHHHCEECCCCC--
T ss_pred             hHHHHHhcCCcccccccccccccchhh---hcCCcEEEEechHhcCHH-----------HHHHHHHHHHhCCeecCCCcc
Confidence            211     1100000       01111   224589999999998431           1223444444211       0


Q ss_pred             CCCCcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHH
Q 016044          223 DQNARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERA  263 (396)
Q Consensus       223 ~~~~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~  263 (396)
                      ....++.+|+|||.+       ..+.+++.+||. .+.+..|+..+|.
T Consensus       137 ~~~~~~~iI~atn~~~~~~~~~~~~~~~L~~Rl~-~~~i~lp~L~~R~  183 (265)
T 2bjv_A          137 PLQVNVRLVCATNADLPAMVNEGTFRADLLDALA-FDVVQLPPLRERE  183 (265)
T ss_dssp             CEECCCEEEEEESSCHHHHHHHTSSCHHHHHHHC-SEEEECCCGGGCH
T ss_pred             cccCCeEEEEecCcCHHHHHHcCCccHHHHHhhc-CcEEeCCChhhhh
Confidence            112457899999974       247899999994 4566666665543

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.64  E-value=2.3e-15  Score=144.44  Aligned_cols=191  Identities=16%  Similarity=0.206  Sum_probs=124.2

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCC-----------
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA-----------  149 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~-----------  149 (396)
                      .+.+.+|++++|++.+++.+...+.         ..+   ..++ ++|+||+|+|||++++++++++..           
T Consensus         7 kyrP~~~~~~vg~~~~~~~l~~~~~---------~~~---~~~~-~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~   73 (354)
T 1sxj_E            7 KYRPKSLNALSHNEELTNFLKSLSD---------QPR---DLPH-LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVR   73 (354)
T ss_dssp             TTCCCSGGGCCSCHHHHHHHHTTTT---------CTT---CCCC-EEEECSTTSSHHHHHHTHHHHHSCTTCCC------
T ss_pred             ccCCCCHHHhcCCHHHHHHHHHHHh---------hCC---CCCe-EEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecce
Confidence            3456789999999999998866441         111   1234 999999999999999999996411           


Q ss_pred             ------------------cEEEEecccccchhhchHHHHHHHHHHHHH--------------HhCCcEEEEccccccccC
Q 016044          150 ------------------VFINVRISNLMSKWFGDAQKLVAAVFSLAY--------------KLQPAIIFIDEVDSFLGQ  197 (396)
Q Consensus       150 ------------------~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~--------------~~~p~vl~iDEid~l~~~  197 (396)
                                        .++.++.++...   .. ...++..+..+.              ...|.+++|||++.+...
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~-~~~~~~~i~~~~~~~~~~~~~~ls~l~~~~~vlilDE~~~L~~~  149 (354)
T 1sxj_E           74 QFVTASNRKLELNVVSSPYHLEITPSDMGN---ND-RIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKD  149 (354)
T ss_dssp             ------------CCEECSSEEEECCC-------CC-HHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHH
T ss_pred             eecccccccceeeeecccceEEecHhhcCC---cc-hHHHHHHHHHHHHhccccccccccccCCCCeEEEEeCccccCHH
Confidence                              122232222100   00 001233322221              225679999999986211


Q ss_pred             CCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-
Q 016044          198 RRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-  276 (396)
Q Consensus       198 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-  276 (396)
                                 ..+.++..++..    +.+..+|.+|+.++.+.+++++|| ..+.|++|+.++...+++..+...... 
T Consensus       150 -----------~~~~L~~~le~~----~~~~~~Il~t~~~~~l~~~l~sR~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~  213 (354)
T 1sxj_E          150 -----------AQAALRRTMEKY----SKNIRLIMVCDSMSPIIAPIKSQC-LLIRCPAPSDSEISTILSDVVTNERIQL  213 (354)
T ss_dssp             -----------HHHHHHHHHHHS----TTTEEEEEEESCSCSSCHHHHTTS-EEEECCCCCHHHHHHHHHHHHHHHTCEE
T ss_pred             -----------HHHHHHHHHHhh----cCCCEEEEEeCCHHHHHHHHHhhc-eEEecCCcCHHHHHHHHHHHHHHcCCCC
Confidence                       122444445443    335788888999999999999999 899999999999999999988654443 


Q ss_pred             C-CCCHHHHHHhCCCCcHHHHHHHHHHHHH
Q 016044          277 E-NIDFDYLAGLCEGFTGSDLLEVCKQAAY  305 (396)
Q Consensus       277 ~-~~~l~~la~~~~g~s~~di~~l~~~A~~  305 (396)
                      + +..++.++..+.| +.+++.++++.++.
T Consensus       214 ~~~~~l~~i~~~~~G-~~r~a~~~l~~~~~  242 (354)
T 1sxj_E          214 ETKDILKRIAQASNG-NLRVSLLMLESMAL  242 (354)
T ss_dssp             CCSHHHHHHHHHHTT-CHHHHHHHHTHHHH
T ss_pred             CcHHHHHHHHHHcCC-CHHHHHHHHHHHHH
Confidence            2 3346778888876 45555566655543

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=99.63  E-value=2.6e-15  Score=160.13  Aligned_cols=210  Identities=17%  Similarity=0.220  Sum_probs=140.5

Q ss_pred             cccccChHHHHHHHHHHHHccccChhhhhc-CCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch
Q 016044           87 FESIGGLETIKQALYELVILPLRRPELFSH-GKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK  162 (396)
Q Consensus        87 ~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~-~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~  162 (396)
                      +++|+|++.+++.+...+...      ... .....|..++||+||||||||++|++++..+   +.+|+.++|+.+...
T Consensus       557 ~~~viG~~~a~~~l~~~i~~~------~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~~~~~~i~i~~~~~~~~  630 (854)
T 1qvr_A          557 HKRVVGQDEAIRAVADAIRRA------RAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEK  630 (854)
T ss_dssp             HHHSCSCHHHHHHHHHHHHHH------GGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSS
T ss_pred             hcccCCcHHHHHHHHHHHHHH------hcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCCcEEEEechhccch
Confidence            467899999999998877531      110 0111233589999999999999999999988   789999999877543


Q ss_pred             h-----hchHHHH-----HHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcC-------CC
Q 016044          163 W-----FGDAQKL-----VAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD-------QN  225 (396)
Q Consensus       163 ~-----~g~~~~~-----~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~-------~~  225 (396)
                      .     +|.....     ...+........++||||||+|.+.           ..+.+.|+..++.....       +-
T Consensus       631 ~~~s~l~g~~~~~~G~~~~g~l~~~~~~~~~~vl~lDEi~~l~-----------~~~~~~Ll~~l~~~~~~~~~g~~vd~  699 (854)
T 1qvr_A          631 HAVSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKAH-----------PDVFNILLQILDDGRLTDSHGRTVDF  699 (854)
T ss_dssp             GGGGGC--------------CHHHHHHHCSSEEEEESSGGGSC-----------HHHHHHHHHHHTTTEECCSSSCCEEC
T ss_pred             hHHHHHcCCCCCCcCccccchHHHHHHhCCCeEEEEecccccC-----------HHHHHHHHHHhccCceECCCCCEecc
Confidence            1     1111110     1223333344456899999999872           23445666666633211       01


Q ss_pred             CcEEEEEecCCC--------------------------CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCC------
Q 016044          226 ARVMVLAATNRP--------------------------SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGE------  273 (396)
Q Consensus       226 ~~v~vI~atn~~--------------------------~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~------  273 (396)
                      .++++|+|||..                          ..+.++|++||+..+.+.+|+.+++..|++.++...      
T Consensus       700 ~~~iiI~tsn~~~~~~~~~~~~~~~~~~l~~~v~~~~~~~f~~~l~~Rl~~~i~~~pl~~edi~~i~~~~l~~~~~~~~~  779 (854)
T 1qvr_A          700 RNTVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAE  779 (854)
T ss_dssp             TTEEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEecCcChHHHhhhcccccchHHHHHHHHHHHHhhCCHHHHHhcCeEEeCCCCCHHHHHHHHHHHHHHHHHHHHh
Confidence            367899999972                          346788999999999999999999999998887521      


Q ss_pred             -CCC---CCCCHHHHHHhCC--CCcHHHHHHHHHHHHHHHHHHHHH
Q 016044          274 -KVE---ENIDFDYLAGLCE--GFTGSDLLEVCKQAAYFSIRELLD  313 (396)
Q Consensus       274 -~~~---~~~~l~~la~~~~--g~s~~di~~l~~~A~~~a~~~~~~  313 (396)
                       ...   .+-.++.|+...-  .+..++|+++++.+...++.+.+-
T Consensus       780 ~~~~~~~~~~a~~~L~~~~~~~~gn~R~L~~~i~~~~~~~~~~~i~  825 (854)
T 1qvr_A          780 KRISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQKIL  825 (854)
T ss_dssp             TTCEEEECHHHHHHHHHHHCBTTTBTSTHHHHHHHHTHHHHHHHHH
T ss_pred             CCceEEECHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHHH
Confidence             111   1122555666544  456778999999988887776543

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=99.62  E-value=4.5e-17  Score=153.22  Aligned_cols=156  Identities=22%  Similarity=0.338  Sum_probs=101.6

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhh
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWF  164 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~  164 (396)
                      ++|+|.+..++.+.+.+...            ...+.++||+||||||||++|+++++.+   +.+|+.++|+.+.....
T Consensus         2 ~~iig~s~~~~~~~~~~~~~------------a~~~~~vLi~Ge~GtGKt~lAr~i~~~~~~~~~~~v~v~~~~~~~~l~   69 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMV------------APSDATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALNESLL   69 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHH------------CSTTSCEEEESCTTSCHHHHHHHHHHHSSCSSSCCCEEECSSCCHHHH
T ss_pred             CCcEECCHHHHHHHHHHHHH------------hCCCCcEEEECCCCchHHHHHHHHHHhCcccCCCeEEEeCCCCChHHH
Confidence            35889998888887776531            1235789999999999999999999965   57899999987744221


Q ss_pred             -----ch-------HHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-------cCCC
Q 016044          165 -----GD-------AQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-------TDQN  225 (396)
Q Consensus       165 -----g~-------~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-------~~~~  225 (396)
                           |.       ........|..+   .+++|||||+|.+...           ....++..++...       ...+
T Consensus        70 ~~~lfg~~~g~~tg~~~~~~g~~~~a---~~g~L~LDEi~~l~~~-----------~q~~Ll~~l~~~~~~~~g~~~~~~  135 (304)
T 1ojl_A           70 ESELFGHEKGAFTGADKRREGRFVEA---DGGTLFLDEIGDISPL-----------MQVRLLRAIQEREVQRVGSNQTIS  135 (304)
T ss_dssp             HHHHTCCCSSCCC---CCCCCHHHHH---TTSEEEEESCTTCCHH-----------HHHHHHHHHHSSBCCBTTBCCCCB
T ss_pred             HHHhcCccccccCchhhhhcCHHHhc---CCCEEEEeccccCCHH-----------HHHHHHHHHhcCEeeecCCccccc
Confidence                 10       000111223333   4589999999998432           1224444444321       1123


Q ss_pred             CcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHH----HHHHHh
Q 016044          226 ARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQ----ILKVIL  270 (396)
Q Consensus       226 ~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~----il~~~l  270 (396)
                      .++.+|++||.+       ..+++++.+|| ..+.+..|+..+|.+    ++++++
T Consensus       136 ~~~riI~atn~~l~~~v~~g~fr~~L~~Rl-~~~~i~lPpL~eR~edi~~l~~~~l  190 (304)
T 1ojl_A          136 VDVRLIAATHRDLAEEVSAGRFRQDLYYRL-NVVAIEMPSLRQRREDIPLLADHFL  190 (304)
T ss_dssp             CCCEEEEEESSCHHHHHHHTSSCHHHHHHH-SSEEEECCCSGGGGGGHHHHHHHHH
T ss_pred             CCeEEEEecCccHHHHHHhCCcHHHHHhhc-CeeEEeccCHHHhHhhHHHHHHHHH
Confidence            468899999975       34678899999 477777777666544    555544

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=99.61  E-value=4e-16  Score=155.52  Aligned_cols=153  Identities=15%  Similarity=0.146  Sum_probs=94.0

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC--CcEEEEeccc-----ccc
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG--AVFINVRISN-----LMS  161 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~--~~~~~i~~~~-----l~~  161 (396)
                      .|+|++++++.+...+..                ..++||+||||||||++|+++|+.++  .+|..+++..     +.+
T Consensus        23 ~ivGq~~~i~~l~~al~~----------------~~~VLL~GpPGtGKT~LAraLa~~l~~~~~f~~~~~~~~t~~dL~G   86 (500)
T 3nbx_X           23 GLYERSHAIRLCLLAALS----------------GESVFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFG   86 (500)
T ss_dssp             TCSSCHHHHHHHHHHHHH----------------TCEEEEECCSSSSHHHHHHHGGGGBSSCCEEEEECCTTCCHHHHHC
T ss_pred             hhHHHHHHHHHHHHHHhc----------------CCeeEeecCchHHHHHHHHHHHHHHhhhhHHHHHHHhcCCHHHhcC
Confidence            478999999887654431                36899999999999999999999884  3555555532     222


Q ss_pred             hhhchHHHHHHHHHHHHHHh---CCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhc-------cCcCCCCcEEEE
Q 016044          162 KWFGDAQKLVAAVFSLAYKL---QPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDG-------FTTDQNARVMVL  231 (396)
Q Consensus       162 ~~~g~~~~~~~~~f~~a~~~---~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~-------~~~~~~~~v~vI  231 (396)
                      .+.+.... -...|..+...   .++|||||||+.+..           .....++..++.       .....+.++ +|
T Consensus        87 ~~~~~~~~-~~g~~~~~~~g~l~~~~IL~IDEI~r~~~-----------~~q~~LL~~lee~~v~i~G~~~~~~~~~-iI  153 (500)
T 3nbx_X           87 PLSIQALK-DEGRYERLTSGYLPEAEIVFLDEIWKAGP-----------AILNTLLTAINERQFRNGAHVEKIPMRL-LV  153 (500)
T ss_dssp             CBC-----------CBCCTTSGGGCSEEEEESGGGCCH-----------HHHHHHHHHHHSSEEECSSSEEECCCCE-EE
T ss_pred             cccHHHHh-hchhHHhhhccCCCcceeeeHHhHhhhcH-----------HHHHHHHHHHHHHhccCCCCcCCcchhh-hh
Confidence            11111100 01112111111   357999999987632           222345555532       222223344 56


Q ss_pred             EecCCCC---CCcHHHHhccCCceEeCCCCH-HHHHHHHHHHh
Q 016044          232 AATNRPS---ELDEAILRRLPQAFEIGMPDR-KERAQILKVIL  270 (396)
Q Consensus       232 ~atn~~~---~l~~~l~~R~~~~i~~~~P~~-~er~~il~~~l  270 (396)
                      +|||+..   ...+++++||...+.+++|+. +++..|++...
T Consensus       154 ~ATN~lpe~~~~~~aLldRF~~~i~v~~p~~~ee~~~IL~~~~  196 (500)
T 3nbx_X          154 AASNELPEADSSLEALYDRMLIRLWLDKVQDKANFRSMLTSQQ  196 (500)
T ss_dssp             EEESSCCCTTCTTHHHHTTCCEEEECCSCCCHHHHHHHHTCCC
T ss_pred             hccccCCCccccHHHHHHHHHHHHHHHHhhhhhhHHHHHhccc
Confidence            7777532   245799999988899999987 77888887655

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=99.59  E-value=1.9e-16  Score=161.86  Aligned_cols=168  Identities=23%  Similarity=0.296  Sum_probs=100.6

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEE----ecccccchh
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINV----RISNLMSKW  163 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i----~~~~l~~~~  163 (396)
                      ..|+|++.+|+.+...+..  ..+..... ...+...++||+||||||||++|+++|+.++..++..    ++..+....
T Consensus       295 ~~I~G~e~vk~al~~~l~~--g~~~~~~~-~~~r~~~~vLL~GppGtGKT~LAr~la~~~~r~~~~~~~~~~~~~l~~~~  371 (595)
T 3f9v_A          295 PSIYGHWELKEALALALFG--GVPKVLED-TRIRGDIHILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAV  371 (595)
T ss_dssp             STTSCCHHHHHHHTTTTTC--CCCEETTT-TEECCSCCEEEEESSCCTHHHHHHSSSTTCSCEECCCTTCSTTTTSEEEC
T ss_pred             chhcChHHHHHHHHHHHhC--CCcccccC-CCcCCCcceEEECCCchHHHHHHHHHHHhCCCceecCCCcccccccccee
Confidence            4689999998887332211  00000000 1122334899999999999999999999887665442    223332221


Q ss_pred             hchH----HHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhc---------cCcCCCCcEEE
Q 016044          164 FGDA----QKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDG---------FTTDQNARVMV  230 (396)
Q Consensus       164 ~g~~----~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~---------~~~~~~~~v~v  230 (396)
                      ....    .......+..|   .++|+||||+|.+....           ...++..|+.         .....+.++.+
T Consensus       372 ~~~~~~g~~~~~~G~l~~A---~~gil~IDEid~l~~~~-----------q~~Ll~~le~~~i~i~~~g~~~~~~~~~~v  437 (595)
T 3f9v_A          372 VREKGTGEYYLEAGALVLA---DGGIAVIDEIDKMRDED-----------RVAIHEAMEQQTVSIAKAGIVAKLNARAAV  437 (595)
T ss_dssp             SSGGGTSSCSEEECHHHHH---SSSEECCTTTTCCCSHH-----------HHHHHHHHHSSSEEEESSSSEEEECCCCEE
T ss_pred             eeccccccccccCCeeEec---CCCcEEeehhhhCCHhH-----------hhhhHHHHhCCEEEEecCCcEEEecCceEE
Confidence            1100    00000112222   45899999999984321           2244444442         11223467889


Q ss_pred             EEecCCCC-------------CCcHHHHhccCCce-EeCCCCHHHHHHHHHHHhcCC
Q 016044          231 LAATNRPS-------------ELDEAILRRLPQAF-EIGMPDRKERAQILKVILKGE  273 (396)
Q Consensus       231 I~atn~~~-------------~l~~~l~~R~~~~i-~~~~P~~~er~~il~~~l~~~  273 (396)
                      |+|||+++             .+++++++||+..+ ..+.|+.+ ...|.++.+...
T Consensus       438 IaatNp~~G~~~~~~~~~~ni~l~~aLl~RFDl~~~~~~~~~~e-~~~i~~~il~~~  493 (595)
T 3f9v_A          438 IAAGNPKFGRYISERPVSDNINLPPTILSRFDLIFILKDQPGEQ-DRELANYILDVH  493 (595)
T ss_dssp             EEEECCTTCCSCTTSCSCTTTCSCSSSGGGCSCCEEECCTTHHH-HHHHHHHHHTTT
T ss_pred             EEEcCCcCCccCcccCchhccCCCHHHHhhCeEEEEeCCCCCHH-HHHHHHHHHHHh
Confidence            99999876             89999999997555 45666666 888888877643

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=99.57  E-value=2e-15  Score=126.22  Aligned_cols=132  Identities=14%  Similarity=0.179  Sum_probs=88.4

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhhc
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWFG  165 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~g  165 (396)
                      +++|.+...+.+.+.+..       +.     ....+|||+||||||||++|+++++..   +.+|+ ++|..+...   
T Consensus         2 ~iiG~s~~~~~~~~~~~~-------~a-----~~~~~vll~G~~GtGKt~lA~~i~~~~~~~~~~~v-~~~~~~~~~---   65 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQ-------LS-----ETDIAVWLYGAPGTGRMTGARYLHQFGRNAQGEFV-YRELTPDNA---   65 (145)
T ss_dssp             --CCSSHHHHHHHHHHHH-------HT-----TCCSCEEEESSTTSSHHHHHHHHHHSSTTTTSCCE-EEECCTTTS---
T ss_pred             CceeCCHHHHHHHHHHHH-------Hh-----CCCCCEEEECCCCCCHHHHHHHHHHhCCccCCCEE-EECCCCCcc---
Confidence            578888888888776642       11     224679999999999999999999976   77899 999887554   


Q ss_pred             hHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC-------C
Q 016044          166 DAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP-------S  238 (396)
Q Consensus       166 ~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~-------~  238 (396)
                         ......+..+   .+++|||||+|.+...           ....++..+..    ...++.+|++||.+       .
T Consensus        66 ---~~~~~~~~~a---~~g~l~ldei~~l~~~-----------~q~~Ll~~l~~----~~~~~~~I~~t~~~~~~~~~~~  124 (145)
T 3n70_A           66 ---PQLNDFIALA---QGGTLVLSHPEHLTRE-----------QQYHLVQLQSQ----EHRPFRLIGIGDTSLVELAASN  124 (145)
T ss_dssp             ---SCHHHHHHHH---TTSCEEEECGGGSCHH-----------HHHHHHHHHHS----SSCSSCEEEEESSCHHHHHHHS
T ss_pred             ---hhhhcHHHHc---CCcEEEEcChHHCCHH-----------HHHHHHHHHhh----cCCCEEEEEECCcCHHHHHHcC
Confidence               1122334433   4589999999998432           11234444432    24457889999864       2


Q ss_pred             CCcHHHHhccCCceEeCCCC
Q 016044          239 ELDEAILRRLPQAFEIGMPD  258 (396)
Q Consensus       239 ~l~~~l~~R~~~~i~~~~P~  258 (396)
                      .+.+.+..|+ ..+.+..|+
T Consensus       125 ~~~~~L~~rl-~~~~i~lPp  143 (145)
T 3n70_A          125 HIIAELYYCF-AMTQIACLP  143 (145)
T ss_dssp             CCCHHHHHHH-HHHEEECCC
T ss_pred             CCCHHHHHHh-cCCEEeCCC
Confidence            5677888887 344454443

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.56  E-value=3.6e-14  Score=135.53  Aligned_cols=172  Identities=20%  Similarity=0.262  Sum_probs=116.4

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC-----CcEEEEecc
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG-----AVFINVRIS  157 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~-----~~~~~i~~~  157 (396)
                      .+.+|++++|++.+++.|...+..          +.   .+ +++|+||||||||++|+++++.+.     ..+..++++
T Consensus        20 rp~~~~~~~g~~~~~~~L~~~i~~----------g~---~~-~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~~   85 (340)
T 1sxj_C           20 RPETLDEVYGQNEVITTVRKFVDE----------GK---LP-HLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNAS   85 (340)
T ss_dssp             CCSSGGGCCSCHHHHHHHHHHHHT----------TC---CC-CEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTT
T ss_pred             CCCcHHHhcCcHHHHHHHHHHHhc----------CC---Cc-eEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcCc
Confidence            456899999999999998776641          21   12 399999999999999999999863     246677765


Q ss_pred             cccchhhchHHHHHHHHHHHHHH------hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEE
Q 016044          158 NLMSKWFGDAQKLVAAVFSLAYK------LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVL  231 (396)
Q Consensus       158 ~l~~~~~g~~~~~~~~~f~~a~~------~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI  231 (396)
                      +..+  .    ..++..+.....      ..+.+++|||+|.+...           ..+.++..++..    +..+.+|
T Consensus        86 ~~~~--~----~~ir~~i~~~~~~~~~~~~~~~viiiDe~~~l~~~-----------~~~~L~~~le~~----~~~~~~i  144 (340)
T 1sxj_C           86 DDRG--I----DVVRNQIKDFASTRQIFSKGFKLIILDEADAMTNA-----------AQNALRRVIERY----TKNTRFC  144 (340)
T ss_dssp             SCCS--H----HHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCHH-----------HHHHHHHHHHHT----TTTEEEE
T ss_pred             cccc--H----HHHHHHHHHHHhhcccCCCCceEEEEeCCCCCCHH-----------HHHHHHHHHhcC----CCCeEEE
Confidence            5321  1    122222222211      13589999999988321           122444444432    3456778


Q ss_pred             EecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCC
Q 016044          232 AATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEG  290 (396)
Q Consensus       232 ~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g  290 (396)
                      ++||.+..+.+++++|| ..+.|++++.++..+++...+....+. .+.....++..+.|
T Consensus       145 l~~n~~~~i~~~i~sR~-~~~~~~~l~~~~~~~~l~~~~~~~~~~i~~~~~~~i~~~s~G  203 (340)
T 1sxj_C          145 VLANYAHKLTPALLSQC-TRFRFQPLPQEAIERRIANVLVHEKLKLSPNAEKALIELSNG  203 (340)
T ss_dssp             EEESCGGGSCHHHHTTS-EEEECCCCCHHHHHHHHHHHHHTTTCCBCHHHHHHHHHHHTT
T ss_pred             EEecCccccchhHHhhc-eeEeccCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCC
Confidence            88899999999999999 689999999999999999888544332 11224455555544

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=99.55  E-value=1.6e-15  Score=126.47  Aligned_cols=132  Identities=13%  Similarity=0.177  Sum_probs=87.1

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHH
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQ  168 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~  168 (396)
                      +++|.+..++.+.+.+..       +..     .+.+|+|+||||||||++|+++++..+ +|+.++|+.+...+     
T Consensus         5 ~~iG~s~~~~~l~~~~~~-------~~~-----~~~~vll~G~~GtGKt~lA~~i~~~~~-~~~~~~~~~~~~~~-----   66 (143)
T 3co5_A            5 DKLGNSAAIQEMNREVEA-------AAK-----RTSPVFLTGEAGSPFETVARYFHKNGT-PWVSPARVEYLIDM-----   66 (143)
T ss_dssp             ---CCCHHHHHHHHHHHH-------HHT-----CSSCEEEEEETTCCHHHHHGGGCCTTS-CEECCSSTTHHHHC-----
T ss_pred             CceeCCHHHHHHHHHHHH-------HhC-----CCCcEEEECCCCccHHHHHHHHHHhCC-CeEEechhhCChHh-----
Confidence            578988888888877652       111     246799999999999999999999888 99999998865433     


Q ss_pred             HHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC-CC----CcHH
Q 016044          169 KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP-SE----LDEA  243 (396)
Q Consensus       169 ~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~-~~----l~~~  243 (396)
                        ....+..+   .+++|||||+|.+....           ...++..++...   +.++.+|++||.+ ..    +++.
T Consensus        67 --~~~~~~~a---~~~~l~lDei~~l~~~~-----------q~~Ll~~l~~~~---~~~~~iI~~tn~~~~~~~~~~~~~  127 (143)
T 3co5_A           67 --PMELLQKA---EGGVLYVGDIAQYSRNI-----------QTGITFIIGKAE---RCRVRVIASCSYAAGSDGISCEEK  127 (143)
T ss_dssp             --HHHHHHHT---TTSEEEEEECTTCCHHH-----------HHHHHHHHHHHT---TTTCEEEEEEEECTTTC--CHHHH
T ss_pred             --hhhHHHhC---CCCeEEEeChHHCCHHH-----------HHHHHHHHHhCC---CCCEEEEEecCCCHHHHHhCccHH
Confidence              33444433   45899999999984321           113333333321   3457888888854 33    5567


Q ss_pred             HHhccCCceEeCCCC
Q 016044          244 ILRRLPQAFEIGMPD  258 (396)
Q Consensus       244 l~~R~~~~i~~~~P~  258 (396)
                      +..|+ ..+.+..|+
T Consensus       128 L~~rl-~~~~i~lPp  141 (143)
T 3co5_A          128 LAGLF-SESVVRIPP  141 (143)
T ss_dssp             HHHHS-SSEEEEECC
T ss_pred             HHHHh-cCcEEeCCC
Confidence            77787 444444443

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=99.51  E-value=2.4e-13  Score=129.46  Aligned_cols=157  Identities=12%  Similarity=0.140  Sum_probs=106.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCc------------------------EEEEecccccchhhchHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGAV------------------------FINVRISNLMSKWFGDAQKLVAAVFSL  177 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~~------------------------~~~i~~~~l~~~~~g~~~~~~~~~f~~  177 (396)
                      .++.+||+||||+|||++|+++|+.+.+.                        ++.++..+- +...  .-..++.+...
T Consensus        23 ~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~-~~~~--~i~~ir~l~~~   99 (334)
T 1a5t_A           23 GHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKG-KNTL--GVDAVREVTEK   99 (334)
T ss_dssp             CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTT-CSSB--CHHHHHHHHHH
T ss_pred             cceeEEEECCCCchHHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCCCEEEEecccc-CCCC--CHHHHHHHHHH
Confidence            36789999999999999999999987542                        333332200 0001  12234455544


Q ss_pred             HHH----hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceE
Q 016044          178 AYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFE  253 (396)
Q Consensus       178 a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~  253 (396)
                      +..    ..+.|++|||+|.+...           ..+.+++.++.    ++.++++|.+||.++.+.+++++|+ ..+.
T Consensus       100 ~~~~~~~~~~kvviIdead~l~~~-----------a~naLLk~lEe----p~~~~~~Il~t~~~~~l~~ti~SRc-~~~~  163 (334)
T 1a5t_A          100 LNEHARLGGAKVVWVTDAALLTDA-----------AANALLKTLEE----PPAETWFFLATREPERLLATLRSRC-RLHY  163 (334)
T ss_dssp             TTSCCTTSSCEEEEESCGGGBCHH-----------HHHHHHHHHTS----CCTTEEEEEEESCGGGSCHHHHTTS-EEEE
T ss_pred             HhhccccCCcEEEEECchhhcCHH-----------HHHHHHHHhcC----CCCCeEEEEEeCChHhCcHHHhhcc-eeee
Confidence            432    23579999999998321           23356666653    4567888889999999999999999 7899


Q ss_pred             eCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHH
Q 016044          254 IGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQ  302 (396)
Q Consensus       254 ~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~  302 (396)
                      |++|+.++..++++..+   .. ++..+..++..+.| +.+.+.++++.
T Consensus       164 ~~~~~~~~~~~~L~~~~---~~-~~~~~~~l~~~s~G-~~r~a~~~l~~  207 (334)
T 1a5t_A          164 LAPPPEQYAVTWLSREV---TM-SQDALLAALRLSAG-SPGAALALFQG  207 (334)
T ss_dssp             CCCCCHHHHHHHHHHHC---CC-CHHHHHHHHHHTTT-CHHHHHHTTSS
T ss_pred             CCCCCHHHHHHHHHHhc---CC-CHHHHHHHHHHcCC-CHHHHHHHhcc
Confidence            99999999999998876   12 12235667777776 44555444443

>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=99.44  E-value=2e-13  Score=151.38  Aligned_cols=153  Identities=16%  Similarity=0.186  Sum_probs=107.8

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccC----------hhhhhc-----------------CCCCCCCceEEEECCCC
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRR----------PELFSH-----------------GKLLGPQKGVLLYGPPG  133 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~----------~~~~~~-----------------~~~~~~~~~vLL~GppG  133 (396)
                      ..+.++|++++|++++|+.+.+.+.+|+.+          ++.|..                 .+..+..+.+++|||||
T Consensus      1013 ~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tG~~glD~~lg~GG~p~g~~~l~~G~~g 1092 (1706)
T 3cmw_A         1013 SASGSSTGSMSAIDENKQKALAAALGQIEKQFGKGSIMRLGEDRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPES 1092 (1706)
T ss_dssp             -----------CTTHHHHHHHHHHHHHHHHHHCGGGSEEGGGCGGGSCCEECCSCHHHHHHTSSSSEETTSEEEEECSTT
T ss_pred             ccCCceeeecCCccHHHHHHHHHHHHHHhhccCcccchhchhhhhccccccccCchhHHHHhccCCCCCCCEEEEEcCCC
Confidence            455699999999999999999999999844          455544                 12233334499999999


Q ss_pred             CcHHHHHHHHHHHc---CCcEEEEeccccc------------chhhch----HHHHHHHHHHHHHHhCCcEEEEcccccc
Q 016044          134 TGKTMLAKAIAKES---GAVFINVRISNLM------------SKWFGD----AQKLVAAVFSLAYKLQPAIIFIDEVDSF  194 (396)
Q Consensus       134 tGKT~la~ala~~~---~~~~~~i~~~~l~------------~~~~g~----~~~~~~~~f~~a~~~~p~vl~iDEid~l  194 (396)
                      ||||++|++++.+.   |.+.+.++.....            ++|+++    +++.++.+|..|+...|+++|+|++|.|
T Consensus      1093 ~GKT~la~~~~~~~~~~g~~~~fi~~~~~~~~~~~~~~G~d~~~~~~~~~~~~e~~l~~~~~~ar~~~~~~i~~d~~~al 1172 (1706)
T 3cmw_A         1093 SGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDVIVVDSVAAL 1172 (1706)
T ss_dssp             SSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCSEEEESCGGGC
T ss_pred             CChHHHHHHHHHHhhhcCCceeEEEcccchHHHHHHHhCCCHHHHhhccccchHHHHHHHHHHHHhcCCeEEEeCchHhc
Confidence            99999999998865   5566666665544            556677    8999999999999999999999999999


Q ss_pred             ccCCC------CCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC
Q 016044          195 LGQRR------TSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR  236 (396)
Q Consensus       195 ~~~~~------~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~  236 (396)
                      .+.+.      ........|.+++++..+++...  ..+|+|| +||+
T Consensus      1173 ~~~~~~~g~~~~~~~~~~~r~~~q~l~~~~~~~~--~~~v~v~-~~n~ 1217 (1706)
T 3cmw_A         1173 TPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLK--QSNTLLI-FINQ 1217 (1706)
T ss_dssp             CCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHH--HTTCEEE-EEEC
T ss_pred             CcccccccccccccccHHHHHHHHHHHHHHhhhc--cCCeEEE-Eecc
Confidence            87731      11235667788899999988654  3456666 6664

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=99.44  E-value=2.4e-12  Score=125.56  Aligned_cols=207  Identities=16%  Similarity=0.143  Sum_probs=127.1

Q ss_pred             cccccChHHHHHHHHHHH-HccccChhhhhcCCCCCCCceEEE--ECCCCCcHHHHHHHHHHHc---------CCcEEEE
Q 016044           87 FESIGGLETIKQALYELV-ILPLRRPELFSHGKLLGPQKGVLL--YGPPGTGKTMLAKAIAKES---------GAVFINV  154 (396)
Q Consensus        87 ~~~i~G~~~~k~~l~~~v-~~~l~~~~~~~~~~~~~~~~~vLL--~GppGtGKT~la~ala~~~---------~~~~~~i  154 (396)
                      .++++|.+...+.+.+.+ ....      ..  ....+..++|  +||||+|||++++++++..         +..++.+
T Consensus        21 p~~l~gR~~el~~l~~~l~~~~~------~~--~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~   92 (412)
T 1w5s_A           21 PPELRVRRGEAEALARIYLNRLL------SG--AGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYV   92 (412)
T ss_dssp             CSSCSSSCHHHHHHHHHHHHHHH------TS--SCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CCCCCChHHHHHHHHHHHhHHHh------cC--CCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEE
Confidence            378999999988888776 4211      11  0012567999  9999999999999999865         5567888


Q ss_pred             ecccccch------hh----------c-hHHHHHHHHHHHHH-HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHH
Q 016044          155 RISNLMSK------WF----------G-DAQKLVAAVFSLAY-KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMAL  216 (396)
Q Consensus       155 ~~~~l~~~------~~----------g-~~~~~~~~~f~~a~-~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~  216 (396)
                      +|......      ..          + ........+..... ...|.+|+|||+|.+...... ..+    .+..++..
T Consensus        93 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~-~~~----~l~~l~~~  167 (412)
T 1w5s_A           93 NAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRI-AAE----DLYTLLRV  167 (412)
T ss_dssp             EGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTS-CHH----HHHHHHTH
T ss_pred             ECCCCCCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCc-chH----HHHHHHHH
Confidence            87432111      00          1 01222223322222 235789999999998543111 111    12233333


Q ss_pred             hhccCcCCC--CcEEEEEecCCCC---CCc---HHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC---CCCCHHHHH
Q 016044          217 WDGFTTDQN--ARVMVLAATNRPS---ELD---EAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE---ENIDFDYLA  285 (396)
Q Consensus       217 l~~~~~~~~--~~v~vI~atn~~~---~l~---~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~---~~~~l~~la  285 (396)
                      +..... ..  .++.+|++++.++   .++   +.+.+++...+.+++++.++..++++..+......   .+..+..++
T Consensus       168 ~~~~~~-~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~  246 (412)
T 1w5s_A          168 HEEIPS-RDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELIS  246 (412)
T ss_dssp             HHHSCC-TTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHH
T ss_pred             HHhccc-CCCCceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHH
Confidence            332211 12  5788888887655   334   66677776669999999999999998776421111   122356777


Q ss_pred             HhCC------CCcHHHHHHHHHHHHHHHH
Q 016044          286 GLCE------GFTGSDLLEVCKQAAYFSI  308 (396)
Q Consensus       286 ~~~~------g~s~~di~~l~~~A~~~a~  308 (396)
                      ..+.      | .+..+..+++.|+..+.
T Consensus       247 ~~~~~~~~~~G-~p~~~~~l~~~a~~~a~  274 (412)
T 1w5s_A          247 DVYGEDKGGDG-SARRAIVALKMACEMAE  274 (412)
T ss_dssp             HHHCGGGTSCC-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhccCCC-cHHHHHHHHHHHHHHHH
Confidence            8888      7 45678888887766554

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=99.43  E-value=1.2e-13  Score=141.89  Aligned_cols=52  Identities=29%  Similarity=0.395  Sum_probs=43.7

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      ..++.+|++++|++.+++.+...+..                ..+++|+||||||||++|++++..+.
T Consensus        34 ~~rp~~l~~i~G~~~~l~~l~~~i~~----------------g~~vll~Gp~GtGKTtlar~ia~~l~   85 (604)
T 3k1j_A           34 EVPEKLIDQVIGQEHAVEVIKTAANQ----------------KRHVLLIGEPGTGKSMLGQAMAELLP   85 (604)
T ss_dssp             CCCSSHHHHCCSCHHHHHHHHHHHHT----------------TCCEEEECCTTSSHHHHHHHHHHTSC
T ss_pred             cccccccceEECchhhHhhccccccC----------------CCEEEEEeCCCCCHHHHHHHHhccCC
Confidence            44567899999999999888765531                35799999999999999999999774

>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast structural genomics consortium (NESG), target HR3102A, PSI-2; NMR {Homo sapiens}

Probab=99.40  E-value=3.6e-13  Score=101.49  Aligned_cols=77  Identities=22%  Similarity=0.418  Sum_probs=70.9

Q ss_pred             eCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHH
Q 016044          254 IGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLE  333 (396)
Q Consensus       254 ~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~  333 (396)
                      -.+|+.++|.+||+.++++.++..+++++.||+.|+||||+||.++|++|++.++++.            ...|+++||.
T Consensus         8 ~~~Pd~~~R~~IL~~~l~~~~l~~dvdl~~LA~~T~G~SGADL~~l~~eAa~~alr~~------------~~~I~~~df~   75 (86)
T 2krk_A            8 HSHPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRER------------RVHVTQEDFE   75 (86)
T ss_dssp             CCCCCHHHHHHHHHHHTTTSEECTTCCCHHHHHTCSSCCHHHHHHHHHHHHHHHHHTT------------CSEECHHHHH
T ss_pred             CCCcCHHHHHHHHHHHHcCCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHc------------CCCCCHHHHH
Confidence            4689999999999999999988889999999999999999999999999999999874            2679999999


Q ss_pred             HHHHhcccc
Q 016044          334 KVLTTSRKT  342 (396)
Q Consensus       334 ~al~~~~~~  342 (396)
                      .|+++++|.
T Consensus        76 ~Al~~v~p~   84 (86)
T 2krk_A           76 MAVAKVMQK   84 (86)
T ss_dssp             HHHHHHHCC
T ss_pred             HHHHHHccC
Confidence            999998775

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=99.40  E-value=1.4e-12  Score=122.31  Aligned_cols=142  Identities=11%  Similarity=0.121  Sum_probs=100.5

Q ss_pred             ChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc------CCcEEEEecccccchhhc
Q 016044           92 GLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES------GAVFINVRISNLMSKWFG  165 (396)
Q Consensus        92 G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~------~~~~~~i~~~~l~~~~~g  165 (396)
                      |++++.+.|...+..          +   . .+.+||+||||+|||++|+++++.+      +..++.++++.-   .. 
T Consensus         1 g~~~~~~~L~~~i~~----------~---~-~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~~~~---~~-   62 (305)
T 2gno_A            1 GAKDQLETLKRIIEK----------S---E-GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGE---NI-   62 (305)
T ss_dssp             ---CHHHHHHHHHHT----------C---S-SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSS---CB-
T ss_pred             ChHHHHHHHHHHHHC----------C---C-CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcCCcC---CC-
Confidence            567777777766542          1   1 4689999999999999999999864      346777775421   11 


Q ss_pred             hHHHHHHHHHHHHHHh----CCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCc
Q 016044          166 DAQKLVAAVFSLAYKL----QPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELD  241 (396)
Q Consensus       166 ~~~~~~~~~f~~a~~~----~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~  241 (396)
                       .-..++.+...+...    ...|++|||+|.+...           ..+.|+..++    +++..+++|.+|+.++.+.
T Consensus        63 -~id~ir~li~~~~~~p~~~~~kvviIdead~lt~~-----------a~naLLk~LE----ep~~~t~fIl~t~~~~kl~  126 (305)
T 2gno_A           63 -GIDDIRTIKDFLNYSPELYTRKYVIVHDCERMTQQ-----------AANAFLKALE----EPPEYAVIVLNTRRWHYLL  126 (305)
T ss_dssp             -CHHHHHHHHHHHTSCCSSSSSEEEEETTGGGBCHH-----------HHHHTHHHHH----SCCTTEEEEEEESCGGGSC
T ss_pred             -CHHHHHHHHHHHhhccccCCceEEEeccHHHhCHH-----------HHHHHHHHHh----CCCCCeEEEEEECChHhCh
Confidence             122345555555422    2369999999998321           1335555555    3456788888888899999


Q ss_pred             HHHHhccCCceEeCCCCHHHHHHHHHHHh
Q 016044          242 EAILRRLPQAFEIGMPDRKERAQILKVIL  270 (396)
Q Consensus       242 ~~l~~R~~~~i~~~~P~~~er~~il~~~l  270 (396)
                      +++++|   .+.|++|+.++..++++..+
T Consensus       127 ~tI~SR---~~~f~~l~~~~i~~~L~~~~  152 (305)
T 2gno_A          127 PTIKSR---VFRVVVNVPKEFRDLVKEKI  152 (305)
T ss_dssp             HHHHTT---SEEEECCCCHHHHHHHHHHH
T ss_pred             HHHHce---eEeCCCCCHHHHHHHHHHHh
Confidence            999999   89999999999999998887

>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Homo sapiens}

Probab=99.37  E-value=1e-12  Score=97.45  Aligned_cols=76  Identities=22%  Similarity=0.420  Sum_probs=69.1

Q ss_pred             CCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHH
Q 016044          255 GMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEK  334 (396)
Q Consensus       255 ~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~  334 (396)
                      |+|+.++|.+||+.++++..+..++++..||..|+||||+||.++|++|++.++++.            ...|+++||..
T Consensus         1 plPd~~~R~~Il~~~l~~~~~~~~~dl~~la~~t~G~SGADi~~l~~eA~~~a~~~~------------~~~i~~~d~~~   68 (78)
T 3kw6_A            1 PPPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRER------------RVHVTQEDFEM   68 (78)
T ss_dssp             CCCCHHHHHHHHHHHHTTSEECTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTT------------CSEECHHHHHH
T ss_pred             CcCCHHHHHHHHHHHhcCCCCCCccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhC------------CCCCCHHHHHH
Confidence            689999999999999999988889999999999999999999999999999999872            26799999999


Q ss_pred             HHHhcccc
Q 016044          335 VLTTSRKT  342 (396)
Q Consensus       335 al~~~~~~  342 (396)
                      |++++...
T Consensus        69 Al~~v~~~   76 (78)
T 3kw6_A           69 AVAKVMQK   76 (78)
T ss_dssp             HHHHHHC-
T ss_pred             HHHHHHhc
Confidence            99987543

>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54 activator, bacterial transcription, DIM transcription; HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1 c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*

Probab=99.32  E-value=2.4e-12  Score=125.01  Aligned_cols=215  Identities=24%  Similarity=0.301  Sum_probs=121.2

Q ss_pred             cccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC---CcEEEEecccccchh
Q 016044           87 FESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG---AVFINVRISNLMSKW  163 (396)
Q Consensus        87 ~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~---~~~~~i~~~~l~~~~  163 (396)
                      ++.++|.+...+.+.+.+..       .+     ....+++++|++||||+++|++++...+   .+|+.++|+.+....
T Consensus       136 ~~~~ig~s~~m~~l~~~i~~-------~a-----~~~~~vli~Ge~GtGK~~lAr~ih~~s~r~~~~fv~v~~~~~~~~~  203 (387)
T 1ny5_A          136 EEEYVFESPKMKEILEKIKK-------IS-----CAECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDI  203 (387)
T ss_dssp             CCCCCCCSHHHHHHHHHHHH-------HT-----TCCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHH
T ss_pred             chhhhhccHHhhHHHHHHHH-------hc-----CCCCCeEEecCCCcCHHHHHHHHHHhcCCCCCCeEEEecCCCCHHH
Confidence            34567776666666655532       11     2246799999999999999999998764   689999998764322


Q ss_pred             h-----chHH-------HHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc-------CcCC
Q 016044          164 F-----GDAQ-------KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF-------TTDQ  224 (396)
Q Consensus       164 ~-----g~~~-------~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~-------~~~~  224 (396)
                      .     |...       ......|..|   ..++||||||+.+...           ....++..++..       ....
T Consensus       204 ~~~elfg~~~g~~tga~~~~~g~~~~a---~~gtlfldei~~l~~~-----------~q~~Ll~~l~~~~~~~~g~~~~~  269 (387)
T 1ny5_A          204 FEAELFGYEKGAFTGAVSSKEGFFELA---DGGTLFLDEIGELSLE-----------AQAKLLRVIESGKFYRLGGRKEI  269 (387)
T ss_dssp             HHHHHHCBCTTSSTTCCSCBCCHHHHT---TTSEEEEESGGGCCHH-----------HHHHHHHHHHHSEECCBTCCSBE
T ss_pred             HHHHhcCCCCCCCCCcccccCCceeeC---CCcEEEEcChhhCCHH-----------HHHHHHHHHhcCcEEeCCCCcee
Confidence            1     1000       0011223333   4589999999998322           111333333321       1111


Q ss_pred             CCcEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHH----HHHHHhcCCCCCCCCCHHHHHHhCCCCcH
Q 016044          225 NARVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQ----ILKVILKGEKVEENIDFDYLAGLCEGFTG  293 (396)
Q Consensus       225 ~~~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~----il~~~l~~~~~~~~~~l~~la~~~~g~s~  293 (396)
                      ..++.+|+|||..       ..+.+.+..|+ ..+.+..|+..+|.+    ++.+++......       ......++++
T Consensus       270 ~~~~rii~at~~~l~~~~~~g~fr~dl~~rl-~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~-------~~~~~~~~~~  341 (387)
T 1ny5_A          270 EVNVRILAATNRNIKELVKEGKFREDLYYRL-GVIEIEIPPLRERKEDIIPLANHFLKKFSRK-------YAKEVEGFTK  341 (387)
T ss_dssp             ECCCEEEEEESSCHHHHHHTTSSCHHHHHHH-TTEEEECCCGGGCHHHHHHHHHHHHHHHHHH-------TTCCCCEECH
T ss_pred             eccEEEEEeCCCCHHHHHHcCCccHHHHHhh-cCCeecCCcchhccccHHHHHHHHHHHHHHH-------cCCCCCCCCH
Confidence            2467899999963       45678888888 777788888877754    333433211000       0000123455


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHH
Q 016044          294 SDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKV  335 (396)
Q Consensus       294 ~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~a  335 (396)
                      ..+..+..+.|..+++++.+.............|+.+|+...
T Consensus       342 ~a~~~l~~~~wpGNvreL~~~i~~~~~~~~~~~i~~~~l~~~  383 (387)
T 1ny5_A          342 SAQELLLSYPWYGNVRELKNVIERAVLFSEGKFIDRGELSCL  383 (387)
T ss_dssp             HHHHHHHHSCCTTHHHHHHHHHHHHHHHCCSSEECHHHHHHH
T ss_pred             HHHHHHHhCCCCcHHHHHHHHHHHHHHhCCCCcCcHHHCcHh
Confidence            555555555555555554443322111112246777777543

>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone, chaperone-protein binding complex; HET: DNA; 3.80A {Saccharomyces cerevisiae} PDB: 4a3v_B*

Probab=99.27  E-value=8.9e-12  Score=94.39  Aligned_cols=73  Identities=29%  Similarity=0.476  Sum_probs=66.5

Q ss_pred             CHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHH
Q 016044          258 DRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLT  337 (396)
Q Consensus       258 ~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~  337 (396)
                      +.++|.+||+.++++.++..+++++.||+.|+||||+||.++|++|++.++++..            ..|+++||..|++
T Consensus         2 d~~~R~~Il~~~~~~~~~~~dvdl~~lA~~t~G~SGADl~~l~~eAa~~a~r~~~------------~~i~~~df~~Al~   69 (88)
T 3vlf_B            2 DLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARR------------KVATEKDFLKAVD   69 (88)
T ss_dssp             CSSHHHHHHHHHHTTSCBCSCCCHHHHHHTCSSCCHHHHHHHHHHHHHHHHHHSC------------SSBCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHCCCCCCCccCHHHHHHHcCCCcHHHHHHHHHHHHHHHHHhcc------------ccCCHHHHHHHHH
Confidence            5678999999999999998999999999999999999999999999999998731            5699999999999


Q ss_pred             hcccc
Q 016044          338 TSRKT  342 (396)
Q Consensus       338 ~~~~~  342 (396)
                      ++.+.
T Consensus        70 ~v~~~   74 (88)
T 3vlf_B           70 KVISG   74 (88)
T ss_dssp             HHTC-
T ss_pred             HHhcC
Confidence            98776

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=99.24  E-value=9.2e-12  Score=143.74  Aligned_cols=140  Identities=21%  Similarity=0.408  Sum_probs=92.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH-HcCCcEEEEecccccchhhchHHHHHHHHHHHH-H--------------HhCCcEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK-ESGAVFINVRISNLMSKWFGDAQKLVAAVFSLA-Y--------------KLQPAII  186 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~-~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a-~--------------~~~p~vl  186 (396)
                      .+++||+||||||||++|+.+.. ..+..++.++++...+.      ..+...+... .              ..+++|+
T Consensus      1267 ~~~vLL~GPpGtGKT~la~~~l~~~~~~~~~~infsa~ts~------~~~~~~i~~~~~~~~~~~g~~~~P~~~gk~~Vl 1340 (2695)
T 4akg_A         1267 KRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTT------EHILSALHRHTNYVTTSKGLTLLPKSDIKNLVL 1340 (2695)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHSCSSCEEEEEECCTTCCH------HHHHHHHHHHBCCEEETTTEEEEEBSSSSCEEE
T ss_pred             CCeEEEECCCCCCHHHHHHHHHhcCCCCceEEEEeecCCCH------HHHHHHHHHHhhhccccCCccccCCCCCceEEE
Confidence            47999999999999999955544 44678888888765432      1222222221 0              1123699


Q ss_pred             EEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCC------CcEEEEEecCCCC-----CCcHHHHhccCCceEeC
Q 016044          187 FIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQN------ARVMVLAATNRPS-----ELDEAILRRLPQAFEIG  255 (396)
Q Consensus       187 ~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~------~~v~vI~atn~~~-----~l~~~l~~R~~~~i~~~  255 (396)
                      ||||+|.....+- +.+ .....+.+++. ..++.....      .++.+|||||+|+     .++++++||| ..+.++
T Consensus      1341 FiDEinmp~~d~y-g~q-~~lelLRq~le-~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~~l~~rllRrf-~vi~i~ 1416 (2695)
T 4akg_A         1341 FCDEINLPKLDKY-GSQ-NVVLFLRQLME-KQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTRHA-AILYLG 1416 (2695)
T ss_dssp             EEETTTCSCCCSS-SCC-HHHHHHHHHHH-TSSEECTTTCCEEEEESEEEEEEECCTTSTTCCCCCHHHHTTE-EEEECC
T ss_pred             Eeccccccccccc-Cch-hHHHHHHHHHh-cCCEEEcCCCcEEEecCEEEEEecCCCccCCCccCChhhhhee-eEEEeC
Confidence            9999986433321 111 22233334432 223221111      3589999999995     7999999999 899999


Q ss_pred             CCCHHHHHHHHHHHhcC
Q 016044          256 MPDRKERAQILKVILKG  272 (396)
Q Consensus       256 ~P~~~er~~il~~~l~~  272 (396)
                      .|+.+++..|+..++..
T Consensus      1417 ~P~~~~l~~I~~~il~~ 1433 (2695)
T 4akg_A         1417 YPSGKSLSQIYEIYYKA 1433 (2695)
T ss_dssp             CCTTTHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHH
Confidence            99999999999988753

>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin, S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B* 2dvw_B*

Probab=99.22  E-value=1.1e-11  Score=92.93  Aligned_cols=74  Identities=22%  Similarity=0.394  Sum_probs=66.8

Q ss_pred             CHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHH
Q 016044          258 DRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLT  337 (396)
Q Consensus       258 ~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~  337 (396)
                      +.++|.+||+.++++.++..++++..+|+.|+||||+||.++|++|++.++++.            ..+|+++||..|++
T Consensus         2 d~~~R~~Il~~~l~~~~~~~~vdl~~la~~t~G~SGADi~~l~~eA~~~a~~~~------------~~~i~~~df~~Al~   69 (83)
T 3aji_B            2 DRRQKRLIFSTITSKMNLSEEVDLEDYVARPDKISGADINSICQESGMLAVREN------------RYIVLAKDFEKAYK   69 (83)
T ss_dssp             CHHHHHHHHHHHHTTSCBCTTCCTHHHHTSSCCCCHHHHHHHHHHHHHGGGTSC------------CSSBCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhCCCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhc------------cCCcCHHHHHHHHH
Confidence            678999999999999988889999999999999999999999999999998763            26799999999999


Q ss_pred             hcccch
Q 016044          338 TSRKTR  343 (396)
Q Consensus       338 ~~~~~~  343 (396)
                      .++|+.
T Consensus        70 ~~~ps~   75 (83)
T 3aji_B           70 TVIKKD   75 (83)
T ss_dssp             HHCC--
T ss_pred             HHccCc
Confidence            999984

>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+ ATPase, response regulator, transcriptional activator, ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB: 1zit_A 2jrl_A

Probab=99.18  E-value=2.3e-11  Score=117.14  Aligned_cols=194  Identities=21%  Similarity=0.300  Sum_probs=115.9

Q ss_pred             ccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc--EEEEecccccchhh-
Q 016044           88 ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV--FINVRISNLMSKWF-  164 (396)
Q Consensus        88 ~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~--~~~i~~~~l~~~~~-  164 (396)
                      ..++|.+...+.+.+.+..       .+.     ....++++|++||||+++|++++...+..  |+.++|..+..... 
T Consensus       129 ~~~ig~s~~~~~~~~~~~~-------~a~-----~~~~vli~GesGtGKe~lAr~ih~~s~r~~~fv~vnc~~~~~~~~~  196 (368)
T 3dzd_A          129 IEFVGEHPKILEIKRLIPK-------IAK-----SKAPVLITGESGTGKEIVARLIHRYSGRKGAFVDLNCASIPQELAE  196 (368)
T ss_dssp             CCCCCCSHHHHHHHHHHHH-------HHT-----SCSCEEEECCTTSSHHHHHHHHHHHHCCCSCEEEEESSSSCTTTHH
T ss_pred             ccccccchHHHHHHhhhhh-------hhc-----cchhheEEeCCCchHHHHHHHHHHhccccCCcEEEEcccCChHHHH
Confidence            4577877777766655431       111     23569999999999999999999876543  99999987643321 


Q ss_pred             ----chHH-------HHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-------cCCCC
Q 016044          165 ----GDAQ-------KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-------TDQNA  226 (396)
Q Consensus       165 ----g~~~-------~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-------~~~~~  226 (396)
                          |...       ......|..|   ..++||||||+.+....           ...++..++.-.       .....
T Consensus       197 ~~lfg~~~g~~tga~~~~~g~~~~a---~~gtlfldei~~l~~~~-----------Q~~Ll~~l~~~~~~~~g~~~~~~~  262 (368)
T 3dzd_A          197 SELFGHEKGAFTGALTRKKGKLELA---DQGTLFLDEVGELDQRV-----------QAKLLRVLETGSFTRLGGNQKIEV  262 (368)
T ss_dssp             HHHHEECSCSSSSCCCCEECHHHHT---TTSEEEEETGGGSCHHH-----------HHHHHHHHHHSEECCBTCCCBEEC
T ss_pred             HHhcCccccccCCcccccCChHhhc---CCCeEEecChhhCCHHH-----------HHHHHHHHHhCCcccCCCCcceee
Confidence                1000       0001123333   45899999999983221           123343333211       11123


Q ss_pred             cEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHH----HHHHHhcCCCCCCCCCHHHHHHhCCCCcHHH
Q 016044          227 RVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQ----ILKVILKGEKVEENIDFDYLAGLCEGFTGSD  295 (396)
Q Consensus       227 ~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~----il~~~l~~~~~~~~~~l~~la~~~~g~s~~d  295 (396)
                      ++.+|++||..       ..+.++|..|+ ..+.+..|+..+|.+    ++.+++.....       .......++++..
T Consensus       263 ~~rii~at~~~l~~~v~~g~fr~dL~~rl-~~~~i~lPpLreR~~Di~~l~~~~l~~~~~-------~~~~~~~~~~~~a  334 (368)
T 3dzd_A          263 DIRVISATNKNLEEEIKKGNFREDLYYRL-SVFQIYLPPLRERGKDVILLAEYFLKKFAK-------EYKKNCFELSEET  334 (368)
T ss_dssp             CCEEEEEESSCHHHHHHTTSSCHHHHHHH-TSEEEECCCGGGSTTHHHHHHHHHHHHHHH-------HTTCCCCCBCHHH
T ss_pred             eeEEEEecCCCHHHHHHcCCccHHHHHHh-CCeEEeCCChhhchhhHHHHHHHHHHHHHH-------HcCCCCCCcCHHH
Confidence            67899999853       35667888898 777777787777644    34444432110       0011123567777


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 016044          296 LLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       296 i~~l~~~A~~~a~~~~~~~~  315 (396)
                      +..|+++.|..+++++.+..
T Consensus       335 ~~~L~~~~wpGNvreL~n~i  354 (368)
T 3dzd_A          335 KEYLMKQEWKGNVRELKNLI  354 (368)
T ss_dssp             HHHHHTCCCTTHHHHHHHHH
T ss_pred             HHHHHhCCCCcHHHHHHHHH
Confidence            77777777777777765443

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=99.14  E-value=1.3e-10  Score=100.25  Aligned_cols=99  Identities=19%  Similarity=0.190  Sum_probs=60.6

Q ss_pred             CCcccccccC----hHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----CCcEEEE
Q 016044           83 IDVEFESIGG----LETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----GAVFINV  154 (396)
Q Consensus        83 ~~~~~~~i~G----~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i  154 (396)
                      .+.+|+++++    +..+.+.+.+++..       +    ....+.+++|+||+|||||+++++++..+    |..++.+
T Consensus         5 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~-------~----~~~~g~~~~l~G~~G~GKTtL~~~i~~~~~~~~g~~~~~~   73 (180)
T 3ec2_A            5 WNANLDTYHPKNVSQNRALLTIRVFVHN-------F----NPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFF   73 (180)
T ss_dssp             TTCCSSSCCCCSHHHHHHHHHHHHHHHS-------C----CGGGCCEEEECCSSSSSHHHHHHHHHHHHHHHSCCCCCEE
T ss_pred             hhCccccccCCCHHHHHHHHHHHHHHHh-------c----cccCCCEEEEECCCCCCHHHHHHHHHHHHHHHcCCeEEEE
Confidence            3567888875    34444555444432       1    12235789999999999999999999866    6666777


Q ss_pred             ecccccchhhchHHHH-HHHHHHHHHHhCCcEEEEcccccc
Q 016044          155 RISNLMSKWFGDAQKL-VAAVFSLAYKLQPAIIFIDEVDSF  194 (396)
Q Consensus       155 ~~~~l~~~~~g~~~~~-~~~~f~~a~~~~p~vl~iDEid~l  194 (396)
                      ++.++........... ......  ....|.+|+|||++..
T Consensus        74 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~llilDE~~~~  112 (180)
T 3ec2_A           74 DTKDLIFRLKHLMDEGKDTKFLK--TVLNSPVLVLDDLGSE  112 (180)
T ss_dssp             EHHHHHHHHHHHHHHTCCSHHHH--HHHTCSEEEEETCSSS
T ss_pred             EHHHHHHHHHHHhcCchHHHHHH--HhcCCCEEEEeCCCCC
Confidence            7766644332111100 001111  2236799999999853

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=99.08  E-value=4.2e-10  Score=94.10  Aligned_cols=105  Identities=14%  Similarity=0.320  Sum_probs=67.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRR  199 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~  199 (396)
                      ...++|+||+|+|||+++++++...   |...+.++..++...               +...++.+|+|||++.+.... 
T Consensus        36 g~~~~l~G~~G~GKTtL~~~i~~~~~~~g~~~~~~~~~~~~~~---------------~~~~~~~lLilDE~~~~~~~~-   99 (149)
T 2kjq_A           36 GQFIYVWGEEGAGKSHLLQAWVAQALEAGKNAAYIDAASMPLT---------------DAAFEAEYLAVDQVEKLGNEE-   99 (149)
T ss_dssp             CSEEEEESSSTTTTCHHHHHHHHHHHTTTCCEEEEETTTSCCC---------------GGGGGCSEEEEESTTCCCSHH-
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEcHHHhhHH---------------HHHhCCCEEEEeCccccChHH-
Confidence            5679999999999999999999976   667888888776544               112357899999998863221 


Q ss_pred             CCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecC-CCCCCc--HHHHhccCCceEeC
Q 016044          200 TSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATN-RPSELD--EAILRRLPQAFEIG  255 (396)
Q Consensus       200 ~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn-~~~~l~--~~l~~R~~~~i~~~  255 (396)
                         .+       .+...++....  .+..++|.++| .|..+.  +++.+|+..-..+.
T Consensus       100 ---~~-------~l~~li~~~~~--~g~~~iiits~~~p~~l~~~~~L~SRl~~g~~~~  146 (149)
T 2kjq_A          100 ---QA-------LLFSIFNRFRN--SGKGFLLLGSEYTPQQLVIREDLRTRMAYCLVYE  146 (149)
T ss_dssp             ---HH-------HHHHHHHHHHH--HTCCEEEEEESSCTTTSSCCHHHHHHGGGSEECC
T ss_pred             ---HH-------HHHHHHHHHHH--cCCcEEEEECCCCHHHccccHHHHHHHhcCeeEE
Confidence               22       22222222211  11222344555 454332  89999986655544

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=99.07  E-value=9.2e-09  Score=97.75  Aligned_cols=187  Identities=15%  Similarity=0.154  Sum_probs=112.5

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc---
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM---  160 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~---  160 (396)
                      ....+.++|.+...+.|.+ +.               .  +.++++||+|+|||++++.++++.+..++.+++....   
T Consensus         9 ~~~~~~~~gR~~el~~L~~-l~---------------~--~~v~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~   70 (357)
T 2fna_A            9 KDNRKDFFDREKEIEKLKG-LR---------------A--PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERN   70 (357)
T ss_dssp             CCSGGGSCCCHHHHHHHHH-TC---------------S--SEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTCS
T ss_pred             CCCHHHhcChHHHHHHHHH-hc---------------C--CcEEEECCCCCCHHHHHHHHHHhcCCCEEEEEchhhcccc
Confidence            3456778999988888865 42               0  4789999999999999999999887777777775430   


Q ss_pred             --c--hhhch---------------------------------------HHHHHHHHHHHHHHh--CCcEEEEccccccc
Q 016044          161 --S--KWFGD---------------------------------------AQKLVAAVFSLAYKL--QPAIIFIDEVDSFL  195 (396)
Q Consensus       161 --~--~~~g~---------------------------------------~~~~~~~~f~~a~~~--~p~vl~iDEid~l~  195 (396)
                        .  .....                                       ....+..++......  +|.+|+|||++.+.
T Consensus        71 ~~~~~~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~  150 (357)
T 2fna_A           71 YISYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELV  150 (357)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGG
T ss_pred             CCCHHHHHHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhh
Confidence              0  00000                                       001123344333332  37899999999986


Q ss_pred             cCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCC---------cHHHHhccCCceEeCCCCHHHHHHHH
Q 016044          196 GQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSEL---------DEAILRRLPQAFEIGMPDRKERAQIL  266 (396)
Q Consensus       196 ~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l---------~~~l~~R~~~~i~~~~P~~~er~~il  266 (396)
                      .........       .+...++..     .++.+|.++.....+         ...+..|+...+.+++.+.++..+++
T Consensus       151 ~~~~~~~~~-------~l~~~~~~~-----~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l  218 (357)
T 2fna_A          151 KLRGVNLLP-------ALAYAYDNL-----KRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFL  218 (357)
T ss_dssp             GCTTCCCHH-------HHHHHHHHC-----TTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHH
T ss_pred             ccCchhHHH-------HHHHHHHcC-----CCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHH
Confidence            421111111       121222221     245666665532211         11233355567899999999999999


Q ss_pred             HHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHH
Q 016044          267 KVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQ  302 (396)
Q Consensus       267 ~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~  302 (396)
                      ...+.......+ +...+...+.|+. .-+..++..
T Consensus       219 ~~~~~~~~~~~~-~~~~i~~~t~G~P-~~l~~~~~~  252 (357)
T 2fna_A          219 RRGFQEADIDFK-DYEVVYEKIGGIP-GWLTYFGFI  252 (357)
T ss_dssp             HHHHHHHTCCCC-CHHHHHHHHCSCH-HHHHHHHHH
T ss_pred             HHHHHHcCCCCC-cHHHHHHHhCCCH-HHHHHHHHH
Confidence            887642222222 2478888999865 456666554

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=99.05  E-value=2.5e-10  Score=100.24  Aligned_cols=101  Identities=18%  Similarity=0.218  Sum_probs=61.0

Q ss_pred             CCcccccccChHH----HHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEe
Q 016044           83 IDVEFESIGGLET----IKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVR  155 (396)
Q Consensus        83 ~~~~~~~i~G~~~----~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~  155 (396)
                      ...+|+++++.+.    +.+.+.+++..       +..   ...+.+++|+||||||||++|+++++.+   +.+++.++
T Consensus        20 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~-------~~~---~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~   89 (202)
T 2w58_A           20 LRASLSDVDLNDDGRIKAIRFAERFVAE-------YEP---GKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVY   89 (202)
T ss_dssp             GCCCTTSSCCSSHHHHHHHHHHHHHHHH-------CCS---SCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             HcCCHhhccCCChhHHHHHHHHHHHHHH-------hhh---ccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            3568888887543    33333333321       000   1123789999999999999999999977   67788888


Q ss_pred             cccccchhhchHH-HHHHHHHHHHHHhCCcEEEEccccccc
Q 016044          156 ISNLMSKWFGDAQ-KLVAAVFSLAYKLQPAIIFIDEVDSFL  195 (396)
Q Consensus       156 ~~~l~~~~~g~~~-~~~~~~f~~a~~~~p~vl~iDEid~l~  195 (396)
                      ++++......... ......+....  .+.+|+|||++...
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~lilDei~~~~  128 (202)
T 2w58_A           90 VPELFRELKHSLQDQTMNEKLDYIK--KVPVLMLDDLGAEA  128 (202)
T ss_dssp             HHHHHHHHHHC---CCCHHHHHHHH--HSSEEEEEEECCC-
T ss_pred             hHHHHHHHHHHhccchHHHHHHHhc--CCCEEEEcCCCCCc
Confidence            8766543322110 00112222222  34699999997753

>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family; helicase, MCM homolog, DNA replication, ATP-binding, DNA-binding; 1.90A {Methanopyrus kandleri AV19}

Probab=99.04  E-value=1e-10  Score=113.80  Aligned_cols=221  Identities=19%  Similarity=0.088  Sum_probs=113.5

Q ss_pred             ccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHH-HHHcCCcEEEEe-cc---cccchhh
Q 016044           90 IGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI-AKESGAVFINVR-IS---NLMSKWF  164 (396)
Q Consensus        90 i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~al-a~~~~~~~~~i~-~~---~l~~~~~  164 (396)
                      |.|++.+|+.|.-.+..         .....+..-++||.|+||| ||++|+++ ++.+....+... ++   .+.....
T Consensus       215 I~G~e~vK~aLll~L~G---------G~~k~rgdihVLL~G~PGt-KS~Lar~i~~~i~pR~~ft~g~~ss~~gLt~s~r  284 (506)
T 3f8t_A          215 LPGAEEVGKMLALQLFS---------CVGKNSERLHVLLAGYPVV-CSEILHHVLDHLAPRGVYVDLRRTELTDLTAVLK  284 (506)
T ss_dssp             STTCHHHHHHHHHHHTT---------CCSSGGGCCCEEEESCHHH-HHHHHHHHHHHTCSSEEEEEGGGCCHHHHSEEEE
T ss_pred             cCCCHHHHHHHHHHHcC---------CccccCCceeEEEECCCCh-HHHHHHHHHHHhCCCeEEecCCCCCccCceEEEE
Confidence            88999998887543321         1000111237999999999 99999999 765543322211 11   1111100


Q ss_pred             chH-HHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC-----
Q 016044          165 GDA-QKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS-----  238 (396)
Q Consensus       165 g~~-~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~-----  238 (396)
                      +.+ ...-...+..|   ..+++|+|||+.+..+.+.    .+.+.+.+-.-.+.|.  .-+.++.||+|+|+.+     
T Consensus       285 ~~tG~~~~~G~l~LA---dgGvl~lDEIn~~~~~~qs----aLlEaMEe~~VtI~G~--~lparf~VIAA~NP~~~yd~~  355 (506)
T 3f8t_A          285 EDRGWALRAGAAVLA---DGGILAVDHLEGAPEPHRW----ALMEAMDKGTVTVDGI--ALNARCAVLAAINPGEQWPSD  355 (506)
T ss_dssp             ESSSEEEEECHHHHT---TTSEEEEECCTTCCHHHHH----HHHHHHHHSEEEETTE--EEECCCEEEEEECCCC--CCS
T ss_pred             cCCCcccCCCeeEEc---CCCeeehHhhhhCCHHHHH----HHHHHHhCCcEEECCE--EcCCCeEEEEEeCcccccCCC
Confidence            000 00001112222   3489999999998433222    1111111100011222  2356789999999865     


Q ss_pred             ------CCcHHHHhccCCceE-eCCCCHHHH-------------HHHHHHHhcCCCCCCCCC---HHHHHH---------
Q 016044          239 ------ELDEAILRRLPQAFE-IGMPDRKER-------------AQILKVILKGEKVEENID---FDYLAG---------  286 (396)
Q Consensus       239 ------~l~~~l~~R~~~~i~-~~~P~~~er-------------~~il~~~l~~~~~~~~~~---l~~la~---------  286 (396)
                            .|++++++||+..+. ++.|+.++-             .+++. +++.......++   .+.+..         
T Consensus       356 ~s~~~~~Lp~alLDRFDLi~i~~d~pd~e~d~e~~~~~ls~e~L~~yi~-~ar~~~~~p~ls~ea~~yI~~~y~~tR~~~  434 (506)
T 3f8t_A          356 PPIARIDLDQDFLSHFDLIAFLGVDPRPGEPEEQDTEVPSYTLLRRYLL-YAIREHPAPELTEEARKRLEHWYETRREEV  434 (506)
T ss_dssp             CGGGGCCSCHHHHTTCSEEEETTC--------------CCHHHHHHHHH-HHHHHCSCCEECHHHHHHHHHHHHHHHHHH
T ss_pred             CCccccCCChHHhhheeeEEEecCCCChhHhhcccCCCCCHHHHHHHHH-HHHhcCCCceeCHHHHHHHHHHHHHHhcCc
Confidence                  789999999976543 455554331             11111 112000011111   111110         


Q ss_pred             --------hCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhcccc
Q 016044          287 --------LCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       287 --------~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                              ..-|.|++.+..+++-|...|.-+.            ...++.+|+..|+.-++.+
T Consensus       435 ~~~~~~~~~~~giSpR~leaLiRlA~A~A~L~g------------R~~V~~eDV~~Ai~L~~~S  486 (506)
T 3f8t_A          435 EERLGMGLPTLPVTRRQLESVERLAKAHARMRL------------SDDVEPEDVDIAAELVDWY  486 (506)
T ss_dssp             HHHHHTTCCCCCCCHHHHHHHHHHHHHHHHHTT------------CSEECHHHHHHHHHHHHHH
T ss_pred             ccccccccccccccHHHHHHHHHHHHHHHHHcC------------cCCCCHHHHHHHHHHHHHH
Confidence                    1336777777777776665555442            1568999999999887655

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.03  E-value=1.7e-08  Score=95.74  Aligned_cols=191  Identities=15%  Similarity=0.148  Sum_probs=111.6

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc---
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM---  160 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~---  160 (396)
                      ...-+.++|.+...+.|.+.+..                .+.++++||+|+|||++++.++++.+  ++.+++....   
T Consensus         8 ~~~~~~~~gR~~el~~L~~~l~~----------------~~~v~i~G~~G~GKT~Ll~~~~~~~~--~~~~~~~~~~~~~   69 (350)
T 2qen_A            8 KTRREDIFDREEESRKLEESLEN----------------YPLTLLLGIRRVGKSSLLRAFLNERP--GILIDCRELYAER   69 (350)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHH----------------CSEEEEECCTTSSHHHHHHHHHHHSS--EEEEEHHHHHHTT
T ss_pred             CCChHhcCChHHHHHHHHHHHhc----------------CCeEEEECCCcCCHHHHHHHHHHHcC--cEEEEeecccccc
Confidence            34456789999999998876541                15799999999999999999999876  5666654321   


Q ss_pred             ---------c---hhh-------------------------chHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCch
Q 016044          161 ---------S---KWF-------------------------GDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH  203 (396)
Q Consensus       161 ---------~---~~~-------------------------g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~  203 (396)
                               .   ...                         ......+..+...+...+|.+|+|||++.+.........
T Consensus        70 ~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~  149 (350)
T 2qen_A           70 GHITREELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGK  149 (350)
T ss_dssp             TCBCHHHHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTH
T ss_pred             cCCCHHHHHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchh
Confidence                     0   000                         011222222222232234899999999998541100111


Q ss_pred             HHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC---------CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCC
Q 016044          204 EALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS---------ELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEK  274 (396)
Q Consensus       204 ~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~---------~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~  274 (396)
                          .....+...++..     .++.+|.++....         .....+..|+...+.+++.+.++..+++...+....
T Consensus       150 ----~~~~~L~~~~~~~-----~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~  220 (350)
T 2qen_A          150 ----ELLALFAYAYDSL-----PNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVN  220 (350)
T ss_dssp             ----HHHHHHHHHHHHC-----TTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTT
T ss_pred             ----hHHHHHHHHHHhc-----CCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcC
Confidence                1111222222221     2455555554321         111223335545789999999999999988775433


Q ss_pred             CC-CCCCHHHHHHhCCCCcHHHHHHHHHH
Q 016044          275 VE-ENIDFDYLAGLCEGFTGSDLLEVCKQ  302 (396)
Q Consensus       275 ~~-~~~~l~~la~~~~g~s~~di~~l~~~  302 (396)
                      .. .......+...+.|+. .-+..++..
T Consensus       221 ~~~~~~~~~~i~~~tgG~P-~~l~~~~~~  248 (350)
T 2qen_A          221 LDVPENEIEEAVELLDGIP-GWLVVFGVE  248 (350)
T ss_dssp             CCCCHHHHHHHHHHHTTCH-HHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHhCCCH-HHHHHHHHH
Confidence            22 1223567788888865 456666543

>2dzn_B 26S protease regulatory subunit 6B homolog; ankyrin repeats, A-helical domain, structural genomics, NPPSFA; 2.20A {Saccharomyces cerevisiae} PDB: 2dzo_B

Probab=98.97  E-value=1.5e-10  Score=86.48  Aligned_cols=69  Identities=20%  Similarity=0.247  Sum_probs=51.0

Q ss_pred             HHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          260 KERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       260 ~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                      ++|.+||+.++++.++..+++++.+|..|+||||+||.++|++|++.++++.            ...|+++||..|+.++
T Consensus         1 ~~R~~Il~~~l~~~~~~~~vdl~~lA~~t~G~SGADi~~l~~eAa~~ai~~~------------~~~i~~~df~~Al~~v   68 (82)
T 2dzn_B            1 MERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKN------------RYVILQSDLEEAYATQ   68 (82)
T ss_dssp             -------------CEECTTCCSTTTTTSSCCCCHHHHHHHHHHHHHHHHHTT------------CSEECHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHcCCCCCCcCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHhc------------cCCcCHHHHHHHHHHH
Confidence            4789999999998888888999999999999999999999999999999872            1579999999999998


Q ss_pred             c
Q 016044          340 R  340 (396)
Q Consensus       340 ~  340 (396)
                      .
T Consensus        69 ~   69 (82)
T 2dzn_B           69 V   69 (82)
T ss_dssp             C
T ss_pred             H
Confidence            4

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=98.92  E-value=5e-10  Score=98.18  Aligned_cols=127  Identities=16%  Similarity=0.235  Sum_probs=78.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH--------cC-CcEEEEecccccchhh-------------ch--HHHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE--------SG-AVFINVRISNLMSKWF-------------GD--AQKLVAAVFSLAY  179 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~--------~~-~~~~~i~~~~l~~~~~-------------g~--~~~~~~~~f~~a~  179 (396)
                      .-.|++|+||||||++|.+++..        .| .+++..++.++.....             ++  ....+...+..+ 
T Consensus         6 mi~l~tG~pGsGKT~~a~~~~~~~~~~~~~~~g~r~v~~~~~~gL~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~-   84 (199)
T 2r2a_A            6 EICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKSTDEQLSAHDMYEWIKKP-   84 (199)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCGGGSCCTTSCCCCEEECCTTBCSCCEEEECCTTTCSSCCSSCEEGGGHHHHTTSG-
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhhcccccCceEEEEecCCCccccccccchhhhhccccCcccccHHHHHHHhhcc-
Confidence            35789999999999999886543        34 6666666665532221             00  001122211111 


Q ss_pred             HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCH
Q 016044          180 KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDR  259 (396)
Q Consensus       180 ~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~  259 (396)
                      ...+++|+|||++.+.+.+.... +. .    .++..+..   .....+-+|.+|+.+..++.++++|+...++++.|..
T Consensus        85 ~~~~~vliIDEAq~l~~~~~~~~-e~-~----rll~~l~~---~r~~~~~iil~tq~~~~l~~~lr~ri~~~~~l~~~~~  155 (199)
T 2r2a_A           85 ENIGSIVIVDEAQDVWPARSAGS-KI-P----ENVQWLNT---HRHQGIDIFVLTQGPKLLDQNLRTLVRKHYHIASNKM  155 (199)
T ss_dssp             GGTTCEEEETTGGGTSBCCCTTC-CC-C----HHHHGGGG---TTTTTCEEEEEESCGGGBCHHHHTTEEEEEEEEECSS
T ss_pred             ccCceEEEEEChhhhccCccccc-hh-H----HHHHHHHh---cCcCCeEEEEECCCHHHHhHHHHHHhheEEEEcCccc
Confidence            23468999999999976543211 00 1    23333332   2244567788888899999999999998998887654


Q ss_pred             H
Q 016044          260 K  260 (396)
Q Consensus       260 ~  260 (396)
                      .
T Consensus       156 ~  156 (199)
T 2r2a_A          156 G  156 (199)
T ss_dssp             C
T ss_pred             C
Confidence            3

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=98.87  E-value=1.4e-09  Score=101.31  Aligned_cols=119  Identities=18%  Similarity=0.279  Sum_probs=66.5

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCC--cEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccC
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKESGA--VFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQ  197 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~~~--~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~  197 (396)
                      +.+.+.++|+||||||||++|.+++...|.  .|+.....+..+.+..+.+..+..+.......+  +|+||+++.+...
T Consensus       120 i~~gsviLI~GpPGsGKTtLAlqlA~~~G~~VlyIs~~~eE~v~~~~~~le~~l~~i~~~l~~~~--LLVIDsI~aL~~~  197 (331)
T 2vhj_A          120 RYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQHR--VIVIDSLKNVIGA  197 (331)
T ss_dssp             EEESEEEEEECSCSSSHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHHCS--EEEEECCTTTC--
T ss_pred             CCCCcEEEEEcCCCCCHHHHHHHHHHhCCCCEEEEEecchhhhhhhhcCHHHHHHHHHHHHhhCC--EEEEecccccccc
Confidence            344556899999999999999999986543  466663233333333455666666666555543  9999999998544


Q ss_pred             CCC-CchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHH
Q 016044          198 RRT-SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEA  243 (396)
Q Consensus       198 ~~~-~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~  243 (396)
                      ... +......+...+++..+.++..  ..++.+|+++|. ...+++
T Consensus       198 ~~~~s~~G~v~~~lrqlL~~L~~~~k--~~gvtVIlttnp-~s~dea  241 (331)
T 2vhj_A          198 AGGNTTSGGISRGAFDLLSDIGAMAA--SRGCVVIASLNP-TSNDDK  241 (331)
T ss_dssp             ---------CCHHHHHHHHHHHHHHH--HHTCEEEEECCC-SSCSSS
T ss_pred             cccccccchHHHHHHHHHHHHHHHHh--hCCCEEEEEeCC-cccchh
Confidence            322 1101111223344444433322  224577888884 444433

>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain cytoplasmic; motor protein, AAA+ protein, ASCE protein, P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A

Probab=98.84  E-value=1.8e-08  Score=116.68  Aligned_cols=134  Identities=19%  Similarity=0.253  Sum_probs=94.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD  202 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~  202 (396)
                      ..|+++.||+|||||.+++++|+.+|.+++.++|++-+..      ..+..+|..+... ++.+++||++.+...    .
T Consensus       645 ~~~~~l~GpaGtGKTe~vk~LA~~lg~~~v~~nc~e~ld~------~~lg~~~~g~~~~-Gaw~~~DE~nr~~~e----v  713 (2695)
T 4akg_A          645 KYGGCFFGPAGTGKTETVKAFGQNLGRVVVVFNCDDSFDY------QVLSRLLVGITQI-GAWGCFDEFNRLDEK----V  713 (2695)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHHHTTTCCCEEEETTSSCCH------HHHHHHHHHHHHH-TCEEEEETTTSSCHH----H
T ss_pred             CCCCcccCCCCCCcHHHHHHHHHHhCCcEEEEECCCCCCh------hHhhHHHHHHHhc-CCEeeehhhhhcChH----H
Confidence            3688999999999999999999999999999999876543      2234455555443 489999999987322    1


Q ss_pred             hHHHHhhHHHHHHHhh---------ccCcCCCCcEEEEEecCC----CCCCcHHHHhccCCceEeCCCCHHHHHHHHHH
Q 016044          203 HEALTNMKTEFMALWD---------GFTTDQNARVMVLAATNR----PSELDEAILRRLPQAFEIGMPDRKERAQILKV  268 (396)
Q Consensus       203 ~~~~~~~~~~ll~~l~---------~~~~~~~~~v~vI~atn~----~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~  268 (396)
                      ...+...+..+...+.         |-....+.++.+++|.|+    ...+++++++|| +.+.+..|+.+...+++-.
T Consensus       714 Ls~l~~~l~~i~~al~~~~~~i~~~g~~i~l~~~~~vfiT~NPgy~g~~eLP~~Lk~~F-r~v~m~~Pd~~~i~ei~l~  791 (2695)
T 4akg_A          714 LSAVSANIQQIQNGLQVGKSHITLLEEETPLSPHTAVFITLNPGYNGRSELPENLKKSF-REFSMKSPQSGTIAEMILQ  791 (2695)
T ss_dssp             HHHHHHHHHHHHHHHHHTCSEEECSSSEEECCTTCEEEEEECCCSSSSCCCCHHHHTTE-EEEECCCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCcEEeeCCcEEecCCCceEEEEeCCCccCcccccHHHHhhe-EEEEeeCCCHHHHHHHHHH
Confidence            2222222222222221         111122456778899984    447999999999 7899999999998888643

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=98.77  E-value=1.2e-08  Score=88.75  Aligned_cols=110  Identities=17%  Similarity=0.231  Sum_probs=63.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSD  202 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~  202 (396)
                      .++++|+||||||||++|.++|+.++...+.+..+.  +.+.          +...  ....+++|||+|.-        
T Consensus        58 kn~ili~GPPGtGKTt~a~ala~~l~g~i~~fans~--s~f~----------l~~l--~~~kIiiLDEad~~--------  115 (212)
T 1tue_A           58 KNCLVFCGPANTGKSYFGMSFIHFIQGAVISFVNST--SHFW----------LEPL--TDTKVAMLDDATTT--------  115 (212)
T ss_dssp             CSEEEEESCGGGCHHHHHHHHHHHHTCEECCCCCSS--SCGG----------GGGG--TTCSSEEEEEECHH--------
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHhCCCeeeEEecc--chhh----------hccc--CCCCEEEEECCCch--------
Confidence            467999999999999999999999865443321110  0000          0111  12369999999842        


Q ss_pred             hHHHHhhHHHHHHHhhccC----cCCC-----CcEEEEEecCCC---CCCcHHHHhccCCceEeCCC
Q 016044          203 HEALTNMKTEFMALWDGFT----TDQN-----ARVMVLAATNRP---SELDEAILRRLPQAFEIGMP  257 (396)
Q Consensus       203 ~~~~~~~~~~ll~~l~~~~----~~~~-----~~v~vI~atn~~---~~l~~~l~~R~~~~i~~~~P  257 (396)
                        ....+...+...++|..    ....     ....+|.|||..   +..-+.+.+|+ ..+.|+.|
T Consensus       116 --~~~~~d~~lrn~ldG~~~~iD~Khr~~~~~~~~PlIITtN~~~~~~~~~~~L~SRi-~~f~F~~~  179 (212)
T 1tue_A          116 --CWTYFDTYMRNALDGNPISIDRKHKPLIQLKCPPILLTTNIHPAKDNRWPYLESRI-TVFEFPNA  179 (212)
T ss_dssp             --HHHHHHHHCHHHHHTCCEEEC----CCEEECCCCEEEEESSCTTSSSSCHHHHTSC-EEEECCSC
T ss_pred             --hHHHHHHHHHHHhCCCcccHHHhhcCccccCCCCEEEecCCCcccccchhhhhhhE-EEEEcCCC
Confidence              11112223445566641    1111     123577788862   33347888998 67777743

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=98.74  E-value=4.5e-09  Score=98.61  Aligned_cols=98  Identities=19%  Similarity=0.293  Sum_probs=58.2

Q ss_pred             CcccccccChH----HHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEe
Q 016044           84 DVEFESIGGLE----TIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVR  155 (396)
Q Consensus        84 ~~~~~~i~G~~----~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~  155 (396)
                      +.+|+++.+..    .+.+.+.+++..       +..    .+..+++|+||||||||++|+++++++    |.+++.++
T Consensus       120 ~~tfd~f~~~~~~~~~~~~~~~~~i~~-------~~~----~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~  188 (308)
T 2qgz_A          120 HIHLSDIDVNNASRMEAFSAILDFVEQ-------YPS----AEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLH  188 (308)
T ss_dssp             SCCGGGSCCCSHHHHHHHHHHHHHHHH-------CSC----SSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEE
T ss_pred             hCCHhhCcCCChHHHHHHHHHHHHHHh-------ccc----cCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEE
Confidence            46899988633    233333333321       111    125789999999999999999999854    47788888


Q ss_pred             cccccchhhchH-HHHHHHHHHHHHHhCCcEEEEcccccc
Q 016044          156 ISNLMSKWFGDA-QKLVAAVFSLAYKLQPAIIFIDEVDSF  194 (396)
Q Consensus       156 ~~~l~~~~~g~~-~~~~~~~f~~a~~~~p~vl~iDEid~l  194 (396)
                      ++++........ .......+...  ..+.+|+|||++..
T Consensus       189 ~~~l~~~l~~~~~~~~~~~~~~~~--~~~~lLiiDdig~~  226 (308)
T 2qgz_A          189 FPSFAIDVKNAISNGSVKEEIDAV--KNVPVLILDDIGAE  226 (308)
T ss_dssp             HHHHHHHHHCCCC----CCTTHHH--HTSSEEEEETCCC-
T ss_pred             HHHHHHHHHHHhccchHHHHHHHh--cCCCEEEEcCCCCC
Confidence            776654332210 00111112222  24579999999764

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.61  E-value=6.5e-08  Score=112.87  Aligned_cols=139  Identities=19%  Similarity=0.337  Sum_probs=87.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc-CCcEEEEecccccchhhchHHHHHHHHHHHH----H------------HhCCcE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES-GAVFINVRISNLMSKWFGDAQKLVAAVFSLA----Y------------KLQPAI  185 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~-~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a----~------------~~~p~v  185 (396)
                      .+++||+||||||||+++......+ +.+++.++++.-.+.      ..+...+...    .            ..+..|
T Consensus      1304 ~~pvLL~GptGtGKT~li~~~L~~l~~~~~~~infS~~Tta------~~l~~~~e~~~e~~~~~~~G~~~~p~~~Gk~~V 1377 (3245)
T 3vkg_A         1304 HRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTP------ELLLKTFDHHCEYKRTPSGETVLRPTQLGKWLV 1377 (3245)
T ss_dssp             TCCCEEESSTTSSHHHHHHHHGGGCTTEEEEEECCCTTCCH------HHHHHHHHHHEEEEECTTSCEEEEESSTTCEEE
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHhCCCCceEEEEeeCCCCH------HHHHHHHhhcceEEeccCCCcccCCCcCCceEE
Confidence            4789999999999998876655444 566778888765432      1222222210    0            012259


Q ss_pred             EEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcC------CCCcEEEEEecCCCC-----CCcHHHHhccCCceEe
Q 016044          186 IFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD------QNARVMVLAATNRPS-----ELDEAILRRLPQAFEI  254 (396)
Q Consensus       186 l~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~------~~~~v~vI~atn~~~-----~l~~~l~~R~~~~i~~  254 (396)
                      +||||++.-.... -+.+. ....+.+++.. .++...      .-.++.+|+|+|+|.     .+++++.||| ..+.+
T Consensus      1378 lFiDDiNmp~~D~-yGtQ~-~ielLrqlld~-~g~yd~~~~~~~~i~d~~~vaamnPp~~gGr~~l~~Rf~r~F-~vi~i 1453 (3245)
T 3vkg_A         1378 VFCDEINLPSTDK-YGTQR-VITFIRQMVEK-GGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLRHA-PILLV 1453 (3245)
T ss_dssp             EEETTTTCCCCCT-TSCCH-HHHHHHHHHHH-SEEEETTTTEEEEESSEEEEEEECCTTSTTCCCCCHHHHTTC-CEEEC
T ss_pred             EEecccCCCCccc-ccccc-HHHHHHHHHHc-CCeEECCCCeEEEecCeEEEEEcCCCCCCCCccCCHHHHhhc-eEEEe
Confidence            9999998632221 11122 22233333332 222211      124688999999884     5899999999 78999


Q ss_pred             CCCCHHHHHHHHHHHhc
Q 016044          255 GMPDRKERAQILKVILK  271 (396)
Q Consensus       255 ~~P~~~er~~il~~~l~  271 (396)
                      +.|+.++...|+..++.
T Consensus      1454 ~~ps~esL~~If~til~ 1470 (3245)
T 3vkg_A         1454 DFPSTSSLTQIYGTFNR 1470 (3245)
T ss_dssp             CCCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHH
Confidence            99999999999876654

>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor, microtubles, motor protein; HET: ADP SPM; 2.81A {Dictyostelium discoideum} PDB: 3vkh_A*

Probab=98.48  E-value=8.5e-07  Score=103.70  Aligned_cols=133  Identities=19%  Similarity=0.235  Sum_probs=90.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCch
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH  203 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~  203 (396)
                      .|..+.||+|||||.+++.+|+.+|.+++.++|++-+..      ..+..+|.-+... ++..++|||+++...    ..
T Consensus       605 ~gg~~~GPaGtGKTet~k~La~~lgr~~~vfnC~~~~d~------~~~g~i~~G~~~~-GaW~cfDEfNrl~~~----vL  673 (3245)
T 3vkg_A          605 MGGNPFGPAGTGKTETVKALGSQLGRFVLVFCCDEGFDL------QAMSRIFVGLCQC-GAWGCFDEFNRLEER----IL  673 (3245)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHTTCCEEEEECSSCCCH------HHHHHHHHHHHHH-TCEEEEETTTSSCHH----HH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHhCCeEEEEeCCCCCCH------HHHHHHHhhHhhc-CcEEEehhhhcCCHH----HH
Confidence            567899999999999999999999999999999875443      2233444444433 489999999997221    11


Q ss_pred             HHHHhhHHHHHHHhh----------ccCcCCCCcEEEEEecCC----CCCCcHHHHhccCCceEeCCCCHHHHHHHHHH
Q 016044          204 EALTNMKTEFMALWD----------GFTTDQNARVMVLAATNR----PSELDEAILRRLPQAFEIGMPDRKERAQILKV  268 (396)
Q Consensus       204 ~~~~~~~~~ll~~l~----------~~~~~~~~~v~vI~atn~----~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~  268 (396)
                      ..+...+..+...+.          |-...-+..+.+++|+|+    ...++++++.|| +.+.+..||.+...+|+-.
T Consensus       674 Svv~~qi~~I~~a~~~~~~~~~~~~G~~i~l~~~~~vfiTmNpgY~gr~eLP~nLk~lF-r~v~m~~Pd~~~i~ei~L~  751 (3245)
T 3vkg_A          674 SAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGIFVTMNPGYAGRSNLPDNLKKLF-RSMAMIKPDREMIAQVMLY  751 (3245)
T ss_dssp             HHHHHHHHHHHHHHHHTCSEECCC---CEECCTTCEEEECBCCCGGGCCCSCHHHHTTE-EEEECCSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCCeEEecCCCEEeecCCeEEEEEeCCCccCcccChHHHHhhc-EEEEEeCCCHHHHHHHHHH
Confidence            111111111111111          211122456788999984    457999999999 7899999999988887643

>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase; HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP: c.37.1.20 PDB: 1s9h_A

Probab=98.46  E-value=3e-07  Score=83.53  Aligned_cols=28  Identities=39%  Similarity=0.583  Sum_probs=24.6

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCC
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      +.++++|+||||||||++|+++|+..+.
T Consensus       103 ~~n~~~l~GppgtGKt~~a~ala~~~~l  130 (267)
T 1u0j_A          103 KRNTIWLFGPATTGKTNIAEAIAHTVPF  130 (267)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHSSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHhhhcc
Confidence            3568999999999999999999997654

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=98.45  E-value=6.7e-07  Score=84.97  Aligned_cols=158  Identities=11%  Similarity=0.097  Sum_probs=94.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CC-cEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccc-cccC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GA-VFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDS-FLGQ  197 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~-~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~-l~~~  197 (396)
                      ++.+||+||+|.||++.++.+++.+   +. ++..+....   .  .+.......+..........|++|||+|. +...
T Consensus        18 ~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~---~--~~~~~l~~~~~~~plf~~~kvvii~~~~~kl~~~   92 (343)
T 1jr3_D           18 RAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFSIDP---N--TDWNAIFSLCQAMSLFASRQTLLLLLPENGPNAA   92 (343)
T ss_dssp             CSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEECCT---T--CCHHHHHHHHHHHHHCCSCEEEEEECCSSCCCTT
T ss_pred             CcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEEecC---C--CCHHHHHHHhcCcCCccCCeEEEEECCCCCCChH
Confidence            4678999999999999999998854   22 222222111   0  12223332222222233457999999988 6211


Q ss_pred             CCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC------CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhc
Q 016044          198 RRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP------SELDEAILRRLPQAFEIGMPDRKERAQILKVILK  271 (396)
Q Consensus       198 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~------~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~  271 (396)
                                 ..+.++..++.    ++..+++|.+++.+      ..+.+++.+|+ ..+.+.+++..+....++..+.
T Consensus        93 -----------~~~aLl~~le~----p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~-~~~~~~~l~~~~l~~~l~~~~~  156 (343)
T 1jr3_D           93 -----------INEQLLTLTGL----LHDDLLLIVRGNKLSKAQENAAWFTALANRS-VQVTCQTPEQAQLPRWVAARAK  156 (343)
T ss_dssp             -----------HHHHHHHHHTT----CBTTEEEEEEESCCCTTTTTSHHHHHHTTTC-EEEEECCCCTTHHHHHHHHHHH
T ss_pred             -----------HHHHHHHHHhc----CCCCeEEEEEcCCCChhhHhhHHHHHHHhCc-eEEEeeCCCHHHHHHHHHHHHH
Confidence                       12245554543    23345555444432      35678888898 7899999999999999999987


Q ss_pred             CCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHH
Q 016044          272 GEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQ  302 (396)
Q Consensus       272 ~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~  302 (396)
                      ..+.. +.-.+..++..+.| +.+++.+.++.
T Consensus       157 ~~g~~i~~~a~~~l~~~~~g-dl~~~~~elek  187 (343)
T 1jr3_D          157 QLNLELDDAANQVLCYCYEG-NLLALAQALER  187 (343)
T ss_dssp             HTTCEECHHHHHHHHHSSTT-CHHHHHHHHHH
T ss_pred             HcCCCCCHHHHHHHHHHhch-HHHHHHHHHHH
Confidence            66543 22235566766665 44444444443

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=98.44  E-value=6.5e-07  Score=100.95  Aligned_cols=113  Identities=16%  Similarity=0.216  Sum_probs=74.9

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccc----hhh------------chHHHHHHHHHHHHH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMS----KWF------------GDAQKLVAAVFSLAY  179 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~----~~~------------g~~~~~~~~~f~~a~  179 (396)
                      .+.++.+++|+||||||||+||.+++.+.   |.....++......    ...            ...+..++.++..++
T Consensus      1423 Gi~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~~e~~~~~l~a~~~G~dl~~l~v~~~~~~E~~l~~~~~lvr 1502 (2050)
T 3cmu_A         1423 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR 1502 (2050)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHH
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEEcccccCHHHHHHcCCCchhceeecCChHHHHHHHHHHHHh
Confidence            46778999999999999999999997764   55666666654321    111            245567777778888


Q ss_pred             HhCCcEEEEccccccccCCC----CC--chHHHHhhHHHHHHHhhccCcCCCCcEEEEEe
Q 016044          180 KLQPAIIFIDEVDSFLGQRR----TS--DHEALTNMKTEFMALWDGFTTDQNARVMVLAA  233 (396)
Q Consensus       180 ~~~p~vl~iDEid~l~~~~~----~~--~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~a  233 (396)
                      ..+|++||||+++.+.+...    .+  ....-.+.+.+++..+.+....  .++.+|++
T Consensus      1503 ~~~~~lVVIDsi~al~p~~~~~g~~~~~~~~~~~R~lsqlL~~L~~~~~~--~~v~VI~t 1560 (2050)
T 3cmu_A         1503 SGAVDVIVVDSVAALTPKAEIEGEIGDSHMGLAARMMSQAMRKLAGNLKQ--SNTLLIFI 1560 (2050)
T ss_dssp             HTCCSEEEESCGGGCCCHHHHHSCTTCCCTTHHHHHHHHHHHHHHHHHHT--TTCEEEEE
T ss_pred             cCCCCEEEEcChhHhcccccccccccccccchHHHHHHHHHHHHHHHHHh--CCcEEEEE
Confidence            88999999999998876321    11  1111245556666666666543  33444444

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=98.37  E-value=3.4e-06  Score=72.32  Aligned_cols=27  Identities=37%  Similarity=0.619  Sum_probs=23.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVF  151 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~  151 (396)
                      .+.|.||+|+||||+++.++..++..+
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l~i~~   28 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERLGKRA   28 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGGGE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcC
Confidence            478999999999999999999876544

>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=98.16  E-value=3.6e-06  Score=83.14  Aligned_cols=128  Identities=16%  Similarity=0.214  Sum_probs=88.9

Q ss_pred             CcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEe---------cC---CCCCCcHHHHhccCC
Q 016044          183 PAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAA---------TN---RPSELDEAILRRLPQ  250 (396)
Q Consensus       183 p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~a---------tn---~~~~l~~~l~~R~~~  250 (396)
                      |+|+||||+|.|..           ...+.++..++.    ++.+++++++         ++   .+..+++.+++|| .
T Consensus       296 ~~VliIDEa~~l~~-----------~a~~aLlk~lEe----~~~~~~il~tn~~~~~i~~~~~~~~~~~l~~~i~sR~-~  359 (456)
T 2c9o_A          296 PGVLFVDEVHMLDI-----------ECFTYLHRALES----SIAPIVIFASNRGNCVIRGTEDITSPHGIPLDLLDRV-M  359 (456)
T ss_dssp             ECEEEEESGGGCBH-----------HHHHHHHHHTTS----TTCCEEEEEECCSEEECBTTSSCEEETTCCHHHHTTE-E
T ss_pred             ceEEEEechhhcCH-----------HHHHHHHHHhhc----cCCCEEEEecCCccccccccccccccccCChhHHhhc-c
Confidence            36999999999831           233455555553    2344544455         32   2678999999999 5


Q ss_pred             ceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhC-CCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q 016044          251 AFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLC-EGFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLS  328 (396)
Q Consensus       251 ~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~-~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~  328 (396)
                      .+.|++|+.++..++++..+...... ++..+..++..+ .| +++....+++.|...|..+.            ...|+
T Consensus       360 ~~~~~~~~~~e~~~iL~~~~~~~~~~~~~~~~~~i~~~a~~g-~~r~a~~ll~~a~~~A~~~~------------~~~v~  426 (456)
T 2c9o_A          360 IIRTMLYTPQEMKQIIKIRAQTEGINISEEALNHLGEIGTKT-TLRYSVQLLTPANLLAKING------------KDSIE  426 (456)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHHHS-CHHHHHHTHHHHHHHHHHTT------------CSSBC
T ss_pred             eeeCCCCCHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHccCC-CHHHHHHHHHHHHHHHhhcC------------CCccC
Confidence            57999999999999999887533322 122356677776 55 77777888887766665431            25799


Q ss_pred             HHHHHHHHHhc
Q 016044          329 RLDLEKVLTTS  339 (396)
Q Consensus       329 ~~d~~~al~~~  339 (396)
                      .+|+..++..+
T Consensus       427 ~~~v~~~~~~~  437 (456)
T 2c9o_A          427 KEHVEEISELF  437 (456)
T ss_dssp             HHHHHHHHHHS
T ss_pred             HHHHHHHHHHh
Confidence            99999998875

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=98.10  E-value=4.6e-05  Score=77.61  Aligned_cols=176  Identities=14%  Similarity=0.131  Sum_probs=97.0

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHH-------cCCcEEEEec
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKE-------SGAVFINVRI  156 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~-------~~~~~~~i~~  156 (396)
                      +.....++|.+...+.|.+.+...            ....+-+.|+||+|+|||++|+.+++.       .....+.++.
T Consensus       120 P~~~~~~vGR~~~l~~L~~~L~~~------------~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~  187 (591)
T 1z6t_A          120 PQRPVVFVTRKKLVNAIQQKLSKL------------KGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSV  187 (591)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHTTS------------TTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEE
T ss_pred             CCCCCeecccHHHHHHHHHHHhcc------------cCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEEC
Confidence            345567999999999998766420            112467899999999999999998642       2112333333


Q ss_pred             cccc-----chh------h-----------chHHHHHHHHHHHHHH-hCCcEEEEccccccccCCCCCchHHHHhhHHHH
Q 016044          157 SNLM-----SKW------F-----------GDAQKLVAAVFSLAYK-LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEF  213 (396)
Q Consensus       157 ~~l~-----~~~------~-----------g~~~~~~~~~f~~a~~-~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~l  213 (396)
                      +...     ...      .           ...+.....+...... .+|.+|+||+++..                 ..
T Consensus       188 ~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~-----------------~~  250 (591)
T 1z6t_A          188 GKQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDS-----------------WV  250 (591)
T ss_dssp             ESCCHHHHHHHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCH-----------------HH
T ss_pred             CCCchHHHHHHHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCH-----------------HH
Confidence            2210     000      0           0111122222222222 25789999999752                 11


Q ss_pred             HHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEe---CCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCC
Q 016044          214 MALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEI---GMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEG  290 (396)
Q Consensus       214 l~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~---~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g  290 (396)
                      +.   .+    +.+..||.||..+..... .  + ...+.+   ...+.++-.+++...+.............+++.+.|
T Consensus       251 l~---~l----~~~~~ilvTsR~~~~~~~-~--~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~i~~~~~G  319 (591)
T 1z6t_A          251 LK---AF----DSQCQILLTTRDKSVTDS-V--M-GPKYVVPVESSLGKEKGLEILSLFVNMKKADLPEQAHSIIKECKG  319 (591)
T ss_dssp             HH---TT----CSSCEEEEEESCGGGGTT-C--C-SCEEEEECCSSCCHHHHHHHHHHHHTSCGGGSCTHHHHHHHHHTT
T ss_pred             HH---Hh----cCCCeEEEECCCcHHHHh-c--C-CCceEeecCCCCCHHHHHHHHHHHhCCCcccccHHHHHHHHHhCC
Confidence            11   11    224566667664331110 0  0 233444   367899999999888754211112346788999998


Q ss_pred             CcHHHHHHHH
Q 016044          291 FTGSDLLEVC  300 (396)
Q Consensus       291 ~s~~di~~l~  300 (396)
                      +.- .|..+.
T Consensus       320 ~PL-al~~~a  328 (591)
T 1z6t_A          320 SPL-VVSLIG  328 (591)
T ss_dssp             CHH-HHHHHH
T ss_pred             CcH-HHHHHH
Confidence            653 444443

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=98.09  E-value=1.5e-06  Score=83.44  Aligned_cols=105  Identities=20%  Similarity=0.229  Sum_probs=61.6

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEcccccccc-CC
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLG-QR  198 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~-~~  198 (396)
                      ..++..++|+||||+||||++++++...+..++.+..+.-  .    ....+.      ...+..++++||++.+.. .+
T Consensus       166 i~~~~~i~l~G~~GsGKSTl~~~l~~~~~g~~~~~~~~~~--~----~~~~lg------~~~q~~~~l~dd~~~~~~~~r  233 (377)
T 1svm_A          166 IPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLD--R----LNFELG------VAIDQFLVVFEDVKGTGGESR  233 (377)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTT--T----HHHHHG------GGTTCSCEEETTCCCSTTTTT
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhcCCcEEEEeccch--h----HHHHHH------HhcchhHHHHHHHHHHHHHHh
Confidence            4556789999999999999999999988776655433221  0    011111      122446789999998764 22


Q ss_pred             CC-CchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHh
Q 016044          199 RT-SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR  246 (396)
Q Consensus       199 ~~-~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~  246 (396)
                      .. ......  ....+...++|.       +.++.++|+++.+ +++++
T Consensus       234 ~l~~~~~~~--~~~~l~~~ldG~-------v~v~~~tn~~~~l-~alf~  272 (377)
T 1svm_A          234 DLPSGQGIN--NLDNLRDYLDGS-------VKVNLEKKHLNKR-TQIFP  272 (377)
T ss_dssp             TCCCCSHHH--HHHTTHHHHHCS-------SCEEECCSSSCCE-EECCC
T ss_pred             hccccCcch--HHHHHHHHhcCC-------CeEeeccCchhhH-HHhhc
Confidence            11 111100  112333445542       3567778888877 44444

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.98  E-value=7.1e-05  Score=66.16  Aligned_cols=36  Identities=31%  Similarity=0.410  Sum_probs=26.8

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEe
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVR  155 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~  155 (396)
                      +.+...++|+||+|+|||++++.++...   +..++.++
T Consensus        20 i~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~   58 (235)
T 2w0m_A           20 IPQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVT   58 (235)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEE
T ss_pred             CcCCCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            4455678999999999999999998643   44444444

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=97.97  E-value=4.4e-05  Score=72.51  Aligned_cols=78  Identities=19%  Similarity=0.198  Sum_probs=52.3

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch----------------hhchHHHHHHHHHHHHH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK----------------WFGDAQKLVAAVFSLAY  179 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~----------------~~g~~~~~~~~~f~~a~  179 (396)
                      .+.+..-++|+||||+|||+|+..++...   +..+++++.......                .....+..+..+.....
T Consensus        57 Gi~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s~~~~ra~rlgv~~~~l~i~~~~~~e~~l~~~~~l~~  136 (356)
T 3hr8_A           57 GYPRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHALDPVYAKNLGVDLKSLLISQPDHGEQALEIVDELVR  136 (356)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccccchHHHHHcCCchhhhhhhhccCHHHHHHHHHHHhh
Confidence            35666778999999999999999998753   566677776543221                01123333333333344


Q ss_pred             HhCCcEEEEcccccccc
Q 016044          180 KLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       180 ~~~p~vl~iDEid~l~~  196 (396)
                      ...+.+++||.+..+.+
T Consensus       137 ~~~~dlvVIDSi~~l~~  153 (356)
T 3hr8_A          137 SGVVDLIVVDSVAALVP  153 (356)
T ss_dssp             TSCCSEEEEECTTTCCC
T ss_pred             hcCCCeEEehHhhhhcC
Confidence            46789999999998865

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=97.91  E-value=9.4e-05  Score=64.86  Aligned_cols=39  Identities=31%  Similarity=0.365  Sum_probs=32.0

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN  158 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~  158 (396)
                      +.+..-++|+||||+|||++++.++...+...+.++...
T Consensus        17 i~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~v~~i~~~~   55 (220)
T 2cvh_A           17 FAPGVLTQVYGPYASGKTTLALQTGLLSGKKVAYVDTEG   55 (220)
T ss_dssp             BCTTSEEEEECSTTSSHHHHHHHHHHHHCSEEEEEESSC
T ss_pred             CcCCEEEEEECCCCCCHHHHHHHHHHHcCCcEEEEECCC
Confidence            556677899999999999999999886677777777644

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.89  E-value=2.7e-05  Score=66.11  Aligned_cols=35  Identities=11%  Similarity=0.307  Sum_probs=30.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS  157 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~  157 (396)
                      +..|+|.|+||+||||+++.++..++.+++.++..
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l~~~~~~~~~D   37 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVD   37 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcCCCeEEeccc
Confidence            35689999999999999999999999888876653

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=97.89  E-value=4.5e-05  Score=68.08  Aligned_cols=78  Identities=12%  Similarity=0.197  Sum_probs=49.4

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHH--c-------CCcEEEEecccccch-----h---h------------------
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKE--S-------GAVFINVRISNLMSK-----W---F------------------  164 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~--~-------~~~~~~i~~~~l~~~-----~---~------------------  164 (396)
                      +.+..-++|+||||+|||++++.++..  .       +...+.++.......     .   .                  
T Consensus        21 i~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~g~~~~~~~~i~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~  100 (243)
T 1n0w_A           21 IETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAERYGLSGSDVLDNVAYARAFN  100 (243)
T ss_dssp             EETTSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECCS
T ss_pred             CcCCeEEEEECCCCCcHHHHHHHHHHHHhCchhcCCCCCeEEEEECCCCcCHHHHHHHHHHcCCCHHHHhhCeEEEecCC
Confidence            555677899999999999999999984  2       445677765441100     0   0                  


Q ss_pred             -chHHHHHHHHHHHHHHhCCcEEEEccccccccC
Q 016044          165 -GDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQ  197 (396)
Q Consensus       165 -g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~  197 (396)
                       .+....+..+........|.+|+||++..+...
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~lliiD~~~~~~~~  134 (243)
T 1n0w_A          101 TDHQTQLLYQASAMMVESRYALLIVDSATALYRT  134 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHSCEEEEEEETSSGGGC-
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEEEeCchHHHHH
Confidence             011112222333444557899999999987644

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=97.88  E-value=9.7e-05  Score=70.54  Aligned_cols=78  Identities=18%  Similarity=0.269  Sum_probs=51.6

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhh----------------chHHHHHHHHHHHHH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWF----------------GDAQKLVAAVFSLAY  179 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~----------------g~~~~~~~~~f~~a~  179 (396)
                      .+.+..-++|+||||+|||++|..++...   +.+++.++...-.....                ...+..+..+....+
T Consensus        70 Gl~~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~s~~~~~a~~~g~d~~~l~i~~~~~~e~~l~~l~~l~~  149 (366)
T 1xp8_A           70 GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVR  149 (366)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CccCCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCCChhHHHHHHcCCCHHHceeecCCcHHHHHHHHHHHHh
Confidence            35566779999999999999999987753   56777777644322210                122333333333333


Q ss_pred             HhCCcEEEEcccccccc
Q 016044          180 KLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       180 ~~~p~vl~iDEid~l~~  196 (396)
                      ...+++|+||.+..+..
T Consensus       150 ~~~~~lVVIDsl~~l~~  166 (366)
T 1xp8_A          150 SGAIDVVVVDSVAALTP  166 (366)
T ss_dssp             TTCCSEEEEECTTTCCC
T ss_pred             cCCCCEEEEeChHHhcc
Confidence            45689999999999874

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=97.84  E-value=3.4e-05  Score=73.29  Aligned_cols=78  Identities=21%  Similarity=0.281  Sum_probs=50.8

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchh----hc------------hHHHHHHHHHHHHH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKW----FG------------DAQKLVAAVFSLAY  179 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~----~g------------~~~~~~~~~f~~a~  179 (396)
                      .+.+..-++|+||||+|||++|..++...   +...+.++........    .|            ..+..+..+...+.
T Consensus        57 Gl~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~~~~~~~a~~lG~~~~~l~i~~~~~~e~~l~~~~~l~~  136 (349)
T 2zr9_A           57 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPEYAKKLGVDTDSLLVSQPDTGEQALEIADMLVR  136 (349)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCcCHHHHHHcCCCHHHeEEecCCCHHHHHHHHHHHHh
Confidence            35566779999999999999999998643   5566666654322111    11            22333333333333


Q ss_pred             HhCCcEEEEcccccccc
Q 016044          180 KLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       180 ~~~p~vl~iDEid~l~~  196 (396)
                      ...|.+|+||++..+..
T Consensus       137 ~~~~~lIVIDsl~~l~~  153 (349)
T 2zr9_A          137 SGALDIIVIDSVAALVP  153 (349)
T ss_dssp             TTCCSEEEEECGGGCCC
T ss_pred             cCCCCEEEEcChHhhcc
Confidence            55689999999999863

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=97.82  E-value=0.00055  Score=60.39  Aligned_cols=155  Identities=19%  Similarity=0.258  Sum_probs=80.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEeccc--------ccchhh----------ch--HHHHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISN--------LMSKWF----------GD--AQKLVAAVFSLAYK  180 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~--------l~~~~~----------g~--~~~~~~~~f~~a~~  180 (396)
                      ..+++.|+||+|||+++-.+|..+   |..++.++...        +.....          +.  .+..+..+    ..
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~G~~V~v~d~D~q~~~~~~al~~gl~~~~~~~~~~~~~~~~e~~l~~~----L~   82 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQGVRVMAGVVETHGRAETEALLNGLPQQPLLRTEYRGMTLEEMDLDAL----LK   82 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCTTCHHHHHHHTTSCBCCCEEEEETTEEEEECCHHHH----HH
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCCEEEEEeCCCCChhHHHHhcCccccCcceeecCCcccccccHHHH----Hh
Confidence            569999999999999999888754   66655444421        111000          00  00112221    22


Q ss_pred             hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCC------------------CCCCcH
Q 016044          181 LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNR------------------PSELDE  242 (396)
Q Consensus       181 ~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~------------------~~~l~~  242 (396)
                      ..|.++++||+-..........  ..-.   .+...+       +..+-+++|+|-                  .+.+++
T Consensus        83 ~~pdlvIVDElG~~~~~~~r~~--~~~q---DV~~~l-------~sgidVitT~Nlqh~esl~d~v~~itg~~v~e~vpd  150 (228)
T 2r8r_A           83 AAPSLVLVDELAHTNAPGSRHT--KRWQ---DIQELL-------AAGIDVYTTVNVQHLESLNDQVRGITGVQVRETLPD  150 (228)
T ss_dssp             HCCSEEEESCTTCBCCTTCSSS--BHHH---HHHHHH-------HTTCEEEEEEEGGGBGGGHHHHHHHHSCCCCSCBCH
T ss_pred             cCCCEEEEeCCCCCCcccchhH--HHHH---HHHHHH-------cCCCCEEEEccccccccHHHHHHHHcCCCcCCcCcc
Confidence            4689999999876422211110  0011   111111       223456677762                  246778


Q ss_pred             HHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHH
Q 016044          243 AILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCK  301 (396)
Q Consensus       243 ~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~  301 (396)
                      .++++.+.+..+..|+.+    +++.+..+..+..+..-..+...   |+.+-|.+|-.
T Consensus       151 ~~~~~a~~v~lvD~~p~~----l~~rl~~g~vy~~~~~~~a~~~~---f~~~nl~~lre  202 (228)
T 2r8r_A          151 WVLQEAFDLVLIDLPPRE----LLERLRDGKVYVPEQARAAIDAF---FTQTNLTALRE  202 (228)
T ss_dssp             HHHHTCSEEEEBCCCHHH----HHHHHHTTCCCCTTCCHHHHHHH---CCHHHHHHHHH
T ss_pred             HHHhhCCeEEEecCCHHH----HHHHHHCCCccChhHHHHHHHhh---hchhhHHHHHH
Confidence            888888777777777665    33334444333333322333322   55565555543

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=97.79  E-value=9.1e-05  Score=70.22  Aligned_cols=79  Identities=16%  Similarity=0.141  Sum_probs=51.0

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---------CCcEEEEecccccch-----h---------------------
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---------GAVFINVRISNLMSK-----W---------------------  163 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---------~~~~~~i~~~~l~~~-----~---------------------  163 (396)
                      .+.+..-++|+||||+|||++|..++...         +...++++....+..     .                     
T Consensus       118 Gl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~~~~~~g~~~~~~l~~l~~~~~~  197 (343)
T 1v5w_A          118 GIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLYARAY  197 (343)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECC
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHHHHcCCCHHHHHhceeEeecC
Confidence            36666778999999999999999998862         456777776542110     0                     


Q ss_pred             -hchHHHHHHHHHHHHHH--hCCcEEEEccccccccC
Q 016044          164 -FGDAQKLVAAVFSLAYK--LQPAIIFIDEVDSFLGQ  197 (396)
Q Consensus       164 -~g~~~~~~~~~f~~a~~--~~p~vl~iDEid~l~~~  197 (396)
                       ..+....+..+......  ..+.+|+||.+..+...
T Consensus       198 ~~e~~~~ll~~l~~~i~~~~~~~~lvVIDsl~~l~~~  234 (343)
T 1v5w_A          198 TSEHQMELLDYVAAKFHEEAGIFKLLIIDSIMALFRV  234 (343)
T ss_dssp             STTHHHHHHHHHHHHHHHSCSSEEEEEEETSGGGHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCccEEEEechHHHHHH
Confidence             00111222223344444  56789999999998643

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=97.79  E-value=0.00029  Score=77.69  Aligned_cols=177  Identities=14%  Similarity=0.123  Sum_probs=100.0

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc-------CCcEEEEec
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES-------GAVFINVRI  156 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~-------~~~~~~i~~  156 (396)
                      +..-..++|.++..++|.+.+...            ....+-+.|+|+.|+|||+||+.+++..       ...++.++.
T Consensus       120 p~~~~~~vgR~~~~~~l~~~l~~~------------~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~  187 (1249)
T 3sfz_A          120 PQRPVIFVTRKKLVHAIQQKLWKL------------NGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSI  187 (1249)
T ss_dssp             CCCCSSCCCCHHHHHHHHHHHHTT------------TTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEEC
T ss_pred             CCCCceeccHHHHHHHHHHHHhhc------------cCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEE
Confidence            345567999999999998876421            1124668899999999999999987642       122334443


Q ss_pred             ccccchh-h--------------------chHHHHHHHHHHHHHH--hCCcEEEEccccccccCCCCCchHHHHhhHHHH
Q 016044          157 SNLMSKW-F--------------------GDAQKLVAAVFSLAYK--LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEF  213 (396)
Q Consensus       157 ~~l~~~~-~--------------------g~~~~~~~~~f~~a~~--~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~l  213 (396)
                      +...... .                    ......+...+.....  .++.+|+||+++..                 . 
T Consensus       188 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~-----------------~-  249 (1249)
T 3sfz_A          188 GKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDP-----------------W-  249 (1249)
T ss_dssp             CSCCHHHHHHHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCH-----------------H-
T ss_pred             CCcCchHHHHHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCH-----------------H-
Confidence            3311100 0                    0001111111111111  23689999999853                 1 


Q ss_pred             HHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCC-CCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCc
Q 016044          214 MALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGM-PDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFT  292 (396)
Q Consensus       214 l~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~-P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s  292 (396)
                        .+..+    ..+..||.||..+..... . ......+.++. .+.++-.+++................++++.+.|..
T Consensus       250 --~~~~~----~~~~~ilvTtR~~~~~~~-~-~~~~~~~~~~~~l~~~~a~~l~~~~~~~~~~~~~~~~~~i~~~~~glP  321 (1249)
T 3sfz_A          250 --VLKAF----DNQCQILLTTRDKSVTDS-V-MGPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAEAHSIIKECKGSP  321 (1249)
T ss_dssp             --HHTTT----CSSCEEEEEESSTTTTTT-C-CSCBCCEECCSSCCHHHHHHHHHHHHTSCSTTCCTHHHHHHHHTTTCH
T ss_pred             --HHHhh----cCCCEEEEEcCCHHHHHh-h-cCCceEEEecCCCCHHHHHHHHHHhhCCChhhCcHHHHHHHHHhCCCH
Confidence              12222    223467777765432211 0 11235677775 889999999988775433222233678999999864


Q ss_pred             HHHHHHH
Q 016044          293 GSDLLEV  299 (396)
Q Consensus       293 ~~di~~l  299 (396)
                      - .|+.+
T Consensus       322 L-al~~~  327 (1249)
T 3sfz_A          322 L-VVSLI  327 (1249)
T ss_dssp             H-HHHHH
T ss_pred             H-HHHHH
Confidence            3 44443

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=97.79  E-value=6.8e-05  Score=71.36  Aligned_cols=77  Identities=19%  Similarity=0.280  Sum_probs=50.4

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchh----h------------chHHHHHHHHHHHHHH
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKW----F------------GDAQKLVAAVFSLAYK  180 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~----~------------g~~~~~~~~~f~~a~~  180 (396)
                      +.+..-++|+|+||+|||++|..++...   +.+++.++........    .            ...+.....+-...+.
T Consensus        60 l~~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~E~s~~~~~a~~~g~~~~~l~i~~~~~~e~~~~~~~~l~~~  139 (356)
T 1u94_A           60 LPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARS  139 (356)
T ss_dssp             EETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHH
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCccHHHHHHcCCChhheeeeCCCCHHHHHHHHHHHHhc
Confidence            5566779999999999999999998753   5677777764322111    0            0122222222223345


Q ss_pred             hCCcEEEEcccccccc
Q 016044          181 LQPAIIFIDEVDSFLG  196 (396)
Q Consensus       181 ~~p~vl~iDEid~l~~  196 (396)
                      ..+.+|+||.+..+..
T Consensus       140 ~~~~lVVIDsl~~l~~  155 (356)
T 1u94_A          140 GAVDVIVVDSVAALTP  155 (356)
T ss_dssp             TCCSEEEEECGGGCCC
T ss_pred             cCCCEEEEcCHHHhcc
Confidence            6789999999999864

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=97.79  E-value=6.9e-05  Score=70.46  Aligned_cols=78  Identities=17%  Similarity=0.238  Sum_probs=51.5

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---------CCcEEEEecccccc-h-------hh----------------c
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---------GAVFINVRISNLMS-K-------WF----------------G  165 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---------~~~~~~i~~~~l~~-~-------~~----------------g  165 (396)
                      .+.+..-++|+||||+|||++|..++...         +...++++...... .       ..                .
T Consensus       103 Gl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~~~~~~g~~~~~~~~~l~~~~~~  182 (324)
T 2z43_A          103 GIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIENMAKALGLDIDNVMNNIYYIRAI  182 (324)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECC
T ss_pred             CCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHHHHhCCCHHHHhccEEEEeCC
Confidence            35566778999999999999999998864         45677777654210 0       00                0


Q ss_pred             hHH---HHHHHHHHHHHH-hCCcEEEEcccccccc
Q 016044          166 DAQ---KLVAAVFSLAYK-LQPAIIFIDEVDSFLG  196 (396)
Q Consensus       166 ~~~---~~~~~~f~~a~~-~~p~vl~iDEid~l~~  196 (396)
                      ..+   ..+..+...... ..+.+|+||.+..+..
T Consensus       183 ~~~~~~~~l~~l~~~~~~~~~~~lvVIDsl~~l~~  217 (324)
T 2z43_A          183 NTDHQIAIVDDLQELVSKDPSIKLIVVDSVTSHFR  217 (324)
T ss_dssp             SHHHHHHHHHHHHHHHHHCTTEEEEEETTTTHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhccCCCEEEEeCcHHHhh
Confidence            111   123334444444 6789999999999864

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.75  E-value=1.5e-05  Score=68.20  Aligned_cols=33  Identities=24%  Similarity=0.387  Sum_probs=29.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      ++.|+|.|+|||||||+++.++..+|.+++..+
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l~~~~i~~d   37 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLTKRILYDSD   37 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHCCCEEEHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            467999999999999999999999999887654

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.74  E-value=0.00013  Score=65.94  Aligned_cols=39  Identities=23%  Similarity=0.306  Sum_probs=32.5

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      ..+..++|.|+||+||||+++.++..++..++.++...+
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~~l~~~~~~~~~D~~   68 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDGDSF   68 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHHHTTTCCEEECGGGG
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHhcCCCcEEEecHHH
Confidence            345678999999999999999999999866677776655

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.74  E-value=0.00014  Score=67.12  Aligned_cols=38  Identities=34%  Similarity=0.475  Sum_probs=30.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      .+..++|.||||+||||+++.++.+++..++.+++..+
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~~~~~~~Is~D~~   69 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTF   69 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhCCCeEEEechHh
Confidence            35678999999999999999999988545566665443

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.70  E-value=2.1e-05  Score=68.40  Aligned_cols=34  Identities=35%  Similarity=0.515  Sum_probs=29.6

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      +...++|.|||||||||+++.++..++.+++..+
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l~~~~i~~d   57 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKLNVPFIDLD   57 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHcCCCEEcch
Confidence            3467999999999999999999999998886543

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=97.67  E-value=0.00025  Score=80.35  Aligned_cols=78  Identities=18%  Similarity=0.273  Sum_probs=54.8

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhh----c--------hHHHHHHHHHHHHH----
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWF----G--------DAQKLVAAVFSLAY----  179 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~----g--------~~~~~~~~~f~~a~----  179 (396)
                      .+.+...++|+|+||+|||++|..+|..+   +.++++++.........    |        ..+..+..++..++    
T Consensus       728 Gl~~G~lilIaG~PG~GKTtLalqlA~~~a~~g~~VlyiS~Ees~~ql~A~rlG~~~~~l~i~~~~~i~~i~~~~r~l~~  807 (2050)
T 3cmu_A          728 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR  807 (2050)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHHHHTTCCTTTCEEECCSSHHHHHHHHHHHHH
T ss_pred             CcCCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECCCcHHHHHHHHcCCCccceEEecCCCHHHHHHHHHHHhh
Confidence            47778889999999999999999998865   45688888766554431    1        00011233333333    


Q ss_pred             HhCCcEEEEcccccccc
Q 016044          180 KLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       180 ~~~p~vl~iDEid~l~~  196 (396)
                      ...|++|+||.++.+..
T Consensus       808 ~~~~~LVIIDsLq~i~~  824 (2050)
T 3cmu_A          808 SGAVDVIVVDSVAALTP  824 (2050)
T ss_dssp             HTCCSEEEESCGGGCCC
T ss_pred             ccCCCEEEEcchhhhcc
Confidence            36789999999999875

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=97.61  E-value=0.00027  Score=68.23  Aligned_cols=79  Identities=18%  Similarity=0.240  Sum_probs=48.4

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---------CCcEEEEecccccch--------hhc----------------
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---------GAVFINVRISNLMSK--------WFG----------------  165 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---------~~~~~~i~~~~l~~~--------~~g----------------  165 (396)
                      .+.+..-+.|+||||||||+|++.++-..         +...++++.......        .++                
T Consensus       174 GI~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E~~~~~~rl~~~a~~~gl~~~~vleni~~~~~~  253 (400)
T 3lda_A          174 GVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVSIAQRFGLDPDDALNNVAYARAY  253 (400)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHHHHHHHHTTCCHHHHHHTEEEEECC
T ss_pred             CcCCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCCCccCHHHHHHHHHHcCCChHhHhhcEEEeccC
Confidence            35666778999999999999999876432         234666765442110        000                


Q ss_pred             ---hHHHHHHHHHHHHHHhCCcEEEEccccccccC
Q 016044          166 ---DAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQ  197 (396)
Q Consensus       166 ---~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~  197 (396)
                         .....+..+........|.+|+||++..+...
T Consensus       254 ~~~~~~~~l~~~~~~l~~~~~~llVIDs~t~~~~~  288 (400)
T 3lda_A          254 NADHQLRLLDAAAQMMSESRFSLIVVDSVMALYRT  288 (400)
T ss_dssp             SHHHHHHHHHHHHHHHHHSCEEEEEEETGGGGCC-
T ss_pred             ChHHHHHHHHHHHHHHHhcCCceEEecchhhhCch
Confidence               01112222333344567899999999887654

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=97.59  E-value=4e-05  Score=65.31  Aligned_cols=32  Identities=50%  Similarity=0.796  Sum_probs=28.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      +..|+|+|+||+||||+++.++..++..++..
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~~~~~~~~   42 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKSGLKYINV   42 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHhCCeEEEH
Confidence            45799999999999999999999999877654

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=97.59  E-value=4.2e-05  Score=64.41  Aligned_cols=31  Identities=26%  Similarity=0.237  Sum_probs=27.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      -|+|.|+|||||||+++.++..++.+++..+
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l~~~~i~~d   33 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKELKYPIIKGS   33 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHCCCEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeeecCc
Confidence            4789999999999999999999998876654

>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- cell division, DNA translocation, KOPS, membrane; HET: DNA SAP; 2.25A {Pseudomonas aeruginosa} PDB: 2iuu_A*

Probab=97.59  E-value=0.00055  Score=68.56  Aligned_cols=74  Identities=16%  Similarity=0.315  Sum_probs=52.0

Q ss_pred             cEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC--CCcHHHHhccCCceEeCCCCHHH
Q 016044          184 AIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS--ELDEAILRRLPQAFEIGMPDRKE  261 (396)
Q Consensus       184 ~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~--~l~~~l~~R~~~~i~~~~P~~~e  261 (396)
                      -+|+|||++.+.....    ......+..+...    .  ...++.+|.+|.+|.  .++..++..|...+.+...+..+
T Consensus       345 ivvVIDE~~~L~~~~~----~~~~~~L~~Iar~----G--Ra~GIhLIlaTQRPs~d~I~~~Iran~~~RI~lrv~s~~D  414 (574)
T 2iut_A          345 IVVVVDEFADMMMIVG----KKVEELIARIAQK----A--RAAGIHLILATQRPSVDVITGLIKANIPTRIAFQVSSKID  414 (574)
T ss_dssp             EEEEESCCTTHHHHTC----HHHHHHHHHHHHH----C--TTTTEEEEEEESCCCTTTSCHHHHHTCCEEEEECCSCHHH
T ss_pred             EEEEEeCHHHHhhhhh----HHHHHHHHHHHHH----H--hhCCeEEEEEecCcccccccHHHHhhhccEEEEEcCCHHH
Confidence            4899999998854321    1122222222221    1  245788999999887  78999999999999999999988


Q ss_pred             HHHHHH
Q 016044          262 RAQILK  267 (396)
Q Consensus       262 r~~il~  267 (396)
                      ...++.
T Consensus       415 sr~ILd  420 (574)
T 2iut_A          415 SRTILD  420 (574)
T ss_dssp             HHHHHS
T ss_pred             HHHhcC
Confidence            888874

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=97.58  E-value=0.00021  Score=66.27  Aligned_cols=75  Identities=13%  Similarity=0.193  Sum_probs=47.7

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEecccccchh----------------hchHHHH-HHHHHHH
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVRISNLMSKW----------------FGDAQKL-VAAVFSL  177 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~~~~l~~~~----------------~g~~~~~-~~~~f~~  177 (396)
                      +.+. -++++||||+|||+|+-.++...     +..+++++...-....                ....+.. +. +...
T Consensus        26 l~~G-iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~ra~~lGvd~d~llv~~~~~~E~~~l~-i~~~  103 (333)
T 3io5_A           26 MQSG-LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPAYLRSMGVDPERVIHTPVQSLEQLRID-MVNQ  103 (333)
T ss_dssp             BCSE-EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHHHHHHTTCCGGGEEEEECSBHHHHHHH-HHHH
T ss_pred             CcCC-eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHHHHHHhCCCHHHeEEEcCCCHHHHHHH-HHHH
Confidence            4444 57899999999999988776543     5677788765432210                0122332 22 1222


Q ss_pred             ---HHHhCCcEEEEcccccccc
Q 016044          178 ---AYKLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       178 ---a~~~~p~vl~iDEid~l~~  196 (396)
                         .....|.+|+||-+..+.+
T Consensus       104 l~~i~~~~~~lvVIDSI~aL~~  125 (333)
T 3io5_A          104 LDAIERGEKVVVFIDSLGNLAS  125 (333)
T ss_dssp             HHTCCTTCCEEEEEECSTTCBC
T ss_pred             HHHhhccCceEEEEeccccccc
Confidence               2345789999999999975

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=97.57  E-value=4.2e-05  Score=65.76  Aligned_cols=33  Identities=27%  Similarity=0.406  Sum_probs=28.6

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      .+..|+|.|+||+||||+++.++..++.+++..
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~~l~~~~i~~   36 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALATGLRLPLLSK   36 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHcCCeEecH
Confidence            356789999999999999999999999877653

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=97.56  E-value=0.00087  Score=59.65  Aligned_cols=37  Identities=35%  Similarity=0.485  Sum_probs=27.2

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEec
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRI  156 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~  156 (396)
                      +.+..-++|+||||+|||+++..++..   .+...+.++.
T Consensus        20 l~~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~~   59 (247)
T 2dr3_A           20 IPERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVAL   59 (247)
T ss_dssp             EETTCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEc
Confidence            555667899999999999999888653   2445555543

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=97.56  E-value=3.9e-05  Score=65.13  Aligned_cols=30  Identities=37%  Similarity=0.662  Sum_probs=27.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      .++|.|+|||||||+++.++..++.+++..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~~~~~d~   35 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLDLVFLDS   35 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCCCEEcc
Confidence            589999999999999999999999887653

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=97.56  E-value=0.0002  Score=63.24  Aligned_cols=28  Identities=32%  Similarity=0.404  Sum_probs=23.8

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +.+..-+.|.||+|+||||+++.++...
T Consensus        22 i~~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           22 IETQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             EESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            5555678999999999999999999743

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=97.54  E-value=4.6e-05  Score=64.18  Aligned_cols=32  Identities=22%  Similarity=0.345  Sum_probs=28.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      ..++|.|+|||||||+++.++..+|.+++..+
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~lg~~~id~D   39 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLALKLEVLDTD   39 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCCEEECh
Confidence            57999999999999999999999999887543

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=97.54  E-value=4.3e-05  Score=65.32  Aligned_cols=31  Identities=29%  Similarity=0.605  Sum_probs=27.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      .|+|.|+|||||||+++.++..+|.+++..+
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~~lg~~~id~D   34 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAKALGVGLLDTD   34 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCEEeCc
Confidence            4899999999999999999999998876543

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=97.53  E-value=4.6e-05  Score=65.36  Aligned_cols=32  Identities=44%  Similarity=0.679  Sum_probs=27.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH-cCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE-SGAVFINV  154 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~-~~~~~~~i  154 (396)
                      +..++|+|+|||||||+++.++.. +|.+++..
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~l~g~~~id~   42 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAELDGFQHLEV   42 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHSTTEEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCCEEeeH
Confidence            456999999999999999999998 68766544

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.50  E-value=7.9e-05  Score=62.88  Aligned_cols=30  Identities=27%  Similarity=0.658  Sum_probs=26.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      ..+.|.||+||||||+++.++..++.+++.
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~~~~id   34 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYD   34 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCEEe
Confidence            468999999999999999999999876553

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=97.50  E-value=8.9e-05  Score=69.27  Aligned_cols=36  Identities=33%  Similarity=0.469  Sum_probs=31.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      ..++|.||+|||||++++.+|..++..++.+|...+
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l~~~iis~Ds~qv   41 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADALPCELISVDSALI   41 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSCEEEEEECTTTT
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcCCcEEeccchhh
Confidence            568999999999999999999999988888876544

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=97.50  E-value=0.0002  Score=70.66  Aligned_cols=53  Identities=25%  Similarity=0.416  Sum_probs=33.6

Q ss_pred             CCCCCccccccc-ChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044           80 PDHIDVEFESIG-GLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus        80 ~~~~~~~~~~i~-G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +...+.+|+++- ++..+...+...+.          ..     ...++|.|+||||||+++.+++..+
T Consensus        16 ~~~~p~~~~~Ln~~Q~~av~~~~~~i~----------~~-----~~~~li~G~aGTGKT~ll~~~~~~l   69 (459)
T 3upu_A           16 PRGSHMTFDDLTEGQKNAFNIVMKAIK----------EK-----KHHVTINGPAGTGATTLTKFIIEAL   69 (459)
T ss_dssp             -----CCSSCCCHHHHHHHHHHHHHHH----------SS-----SCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cccCCCccccCCHHHHHHHHHHHHHHh----------cC-----CCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            345567888874 45555554433332          11     2379999999999999999998765

>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=97.49  E-value=0.0035  Score=58.17  Aligned_cols=36  Identities=28%  Similarity=0.346  Sum_probs=27.5

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      ++.-+++.||+|+||||++..+|..+   +..+..+++.
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~D  141 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAAD  141 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEccc
Confidence            45678899999999999999998754   4455555543

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=97.49  E-value=0.00014  Score=62.45  Aligned_cols=31  Identities=19%  Similarity=0.126  Sum_probs=22.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH---cCCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE---SGAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~---~~~~~~~i  154 (396)
                      .-++++||+|+||||++..++..   .|...+.+
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~   37 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKLGKKKVAVF   37 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            45789999999999999666654   35544443

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=97.48  E-value=6.9e-05  Score=65.09  Aligned_cols=32  Identities=41%  Similarity=0.603  Sum_probs=27.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      +..|+|.|+|||||||+++.++..++.+++..
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i~~   51 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKLGIPQIST   51 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCcEEeh
Confidence            34589999999999999999999999887654

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=97.47  E-value=0.00037  Score=66.17  Aligned_cols=39  Identities=28%  Similarity=0.347  Sum_probs=30.2

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc---------CCcEEEEeccc
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES---------GAVFINVRISN  158 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~---------~~~~~~i~~~~  158 (396)
                      +.+..-+.|+||||+|||++++.++...         +...++++..+
T Consensus       128 i~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~  175 (349)
T 1pzn_A          128 IETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTEN  175 (349)
T ss_dssp             EESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSS
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCC
Confidence            5556678999999999999999999875         23556666543

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.47  E-value=6.3e-05  Score=64.59  Aligned_cols=32  Identities=25%  Similarity=0.419  Sum_probs=27.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      +..|+|.|+|||||||+++.++..++.+++..
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   34 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKYGYTHLSA   34 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            45689999999999999999999999876543

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.46  E-value=6.8e-05  Score=64.58  Aligned_cols=33  Identities=21%  Similarity=0.430  Sum_probs=28.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      +..|+|.|+|||||||+++.++..++.+++..+
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~~d   41 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQKYGYTHLSTG   41 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEcHH
Confidence            456899999999999999999999998766543

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=97.45  E-value=8.8e-05  Score=65.46  Aligned_cols=34  Identities=21%  Similarity=0.388  Sum_probs=28.5

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      ...++-|+|.||||+||+|.|+.|++.+|.+.++
T Consensus        26 ~~k~kiI~llGpPGsGKgTqa~~L~~~~g~~hIs   59 (217)
T 3umf_A           26 LAKAKVIFVLGGPGSGKGTQCEKLVQKFHFNHLS   59 (217)
T ss_dssp             TTSCEEEEEECCTTCCHHHHHHHHHHHHCCEEEC
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHHCCceEc
Confidence            3446778899999999999999999999876553

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=97.44  E-value=8.2e-05  Score=67.35  Aligned_cols=33  Identities=36%  Similarity=0.500  Sum_probs=29.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEecc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS  157 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~  157 (396)
                      -++|.|||||||||+|+.+|..++..++..+..
T Consensus         3 li~I~G~~GSGKSTla~~La~~~~~~~i~~D~~   35 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQETGWPVVALDRV   35 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCCEEECCSG
T ss_pred             EEEEECCCCcCHHHHHHHHHhcCCCeEEeccHH
Confidence            478999999999999999999999988877653

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=97.43  E-value=0.00011  Score=64.77  Aligned_cols=32  Identities=28%  Similarity=0.477  Sum_probs=28.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      +..|+|.|+|||||||+++.++..++.+++..
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   35 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERFHAAHLAT   35 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCceEEeh
Confidence            46789999999999999999999999876654

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.43  E-value=7e-05  Score=62.98  Aligned_cols=29  Identities=45%  Similarity=0.696  Sum_probs=25.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      -|+|.|||||||||+++.+ ..+|.+++.+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L-~~~g~~~i~~   31 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL-KERGAKVIVM   31 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH-HHTTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHH-HHCCCcEEEH
Confidence            4789999999999999999 8888887654

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=97.42  E-value=7.3e-05  Score=63.02  Aligned_cols=31  Identities=23%  Similarity=0.551  Sum_probs=27.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      ..|+|.|+|||||||+++.++..+|.+++..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~lg~~~id~   33 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARALGYEFVDT   33 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHhCCcEEcc
Confidence            3589999999999999999999999877653

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=97.42  E-value=0.00033  Score=63.56  Aligned_cols=37  Identities=27%  Similarity=0.362  Sum_probs=30.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEecccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRISNL  159 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~~~l  159 (396)
                      +.-|+|.|+||+||||+++.++..   .|.+++.++...+
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~~~g~~~i~~~~D~~   43 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLI   43 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECTHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHHhCCCEEEEECchHH
Confidence            356899999999999999999997   7888876665443

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=97.41  E-value=0.00027  Score=66.18  Aligned_cols=28  Identities=25%  Similarity=0.198  Sum_probs=23.9

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      .+.+..-++|+||||+|||++|..++..
T Consensus        94 Gl~~g~i~~i~G~~gsGKT~la~~la~~  121 (322)
T 2i1q_A           94 GLESQSVTEFAGVFGSGKTQIMHQSCVN  121 (322)
T ss_dssp             SEETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3556677899999999999999999875

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=97.41  E-value=0.0009  Score=67.50  Aligned_cols=166  Identities=14%  Similarity=0.052  Sum_probs=89.2

Q ss_pred             cChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHH----HcCCcE---EEEeccccc---
Q 016044           91 GGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAK----ESGAVF---INVRISNLM---  160 (396)
Q Consensus        91 ~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~----~~~~~~---~~i~~~~l~---  160 (396)
                      +|.+..+++|.+.+...        .   ....+.|.|+|+.|+|||+||+.+++    .....|   +.++.+...   
T Consensus       131 ~GR~~~~~~l~~~L~~~--------~---~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~  199 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEM--------C---DLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKS  199 (549)
T ss_dssp             CCCHHHHHHHHHHHHHH--------T---TSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTH
T ss_pred             CCchHHHHHHHHHHhcc--------c---CCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCC
Confidence            49999999998876421        0   11246788999999999999999996    232222   223333211   


Q ss_pred             -c----hh---hch-------------HHHHHHHHHHHHHHhC-CcEEEEccccccccCCCCCchHHHHhhHHHHHHHhh
Q 016044          161 -S----KW---FGD-------------AQKLVAAVFSLAYKLQ-PAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWD  218 (396)
Q Consensus       161 -~----~~---~g~-------------~~~~~~~~f~~a~~~~-p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~  218 (396)
                       .    ..   .+.             ....+...+......+ +.+|+||+++...                ++  .+.
T Consensus       200 ~~~~~~~il~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~----------------~~--~~~  261 (549)
T 2a5y_B          200 TFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEE----------------TI--RWA  261 (549)
T ss_dssp             HHHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHH----------------HH--HHH
T ss_pred             HHHHHHHHHHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCch----------------hh--ccc
Confidence             0    00   000             0011122222222333 6899999998631                11  111


Q ss_pred             ccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCC--CHHHHHHhCCCCc
Q 016044          219 GFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENI--DFDYLAGLCEGFT  292 (396)
Q Consensus       219 ~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~--~l~~la~~~~g~s  292 (396)
                      ..     .+..||.||....... . .......+.++..+.++-.+++...........+.  ....+++.+.|..
T Consensus       262 ~~-----~gs~ilvTTR~~~v~~-~-~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~I~~~c~GlP  330 (549)
T 2a5y_B          262 QE-----LRLRCLVTTRDVEISN-A-ASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNP  330 (549)
T ss_dssp             HH-----TTCEEEEEESBGGGGG-G-CCSCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCH
T ss_pred             cc-----CCCEEEEEcCCHHHHH-H-cCCCCeEEECCCCCHHHHHHHHHHHhcCCCCchhHHHHHHHHHHHhCCCh
Confidence            11     2345666776432111 0 00112457889999999999999885433210111  1456777777754

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.41  E-value=8.5e-05  Score=63.76  Aligned_cols=37  Identities=30%  Similarity=0.482  Sum_probs=30.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN  158 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~  158 (396)
                      ++..+.|.||||+||||+++.++...+...+.++..+
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~~~~g~i~i~~d~   44 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANLPGVPKVHFHSDD   44 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCSSSCEEEECTTH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhccCCCeEEEcccc
Confidence            3466899999999999999999988776767776544

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.39  E-value=0.00011  Score=63.91  Aligned_cols=32  Identities=31%  Similarity=0.559  Sum_probs=27.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      +.-|+|.|++|+||||+++.++..+|..++..
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~lg~~~i~~   49 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEACGYPFIEG   49 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHHTCCEEEG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCEEEeC
Confidence            45699999999999999999999998776653

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=97.39  E-value=0.00062  Score=60.23  Aligned_cols=70  Identities=19%  Similarity=0.187  Sum_probs=40.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEeccc-------ccchhhchH-H----HHHHHHHHHHHH----hCCc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISN-------LMSKWFGDA-Q----KLVAAVFSLAYK----LQPA  184 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~-------l~~~~~g~~-~----~~~~~~f~~a~~----~~p~  184 (396)
                      .-++++||+|+||||++..++...   |..++.+....       +.+. .|-. +    .....++..+..    ..+.
T Consensus        13 ~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r~~~~i~sr-lG~~~~~~~~~~~~~i~~~i~~~~~~~~~d   91 (223)
T 2b8t_A           13 WIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTRSIRNIQSR-TGTSLPSVEVESAPEILNYIMSNSFNDETK   91 (223)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGGGCSSCCCC-CCCSSCCEEESSTHHHHHHHHSTTSCTTCC
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCchHHHHHHHh-cCCCccccccCCHHHHHHHHHHHhhCCCCC
Confidence            446788999999999998887654   55555553221       1111 1100 0    011233444433    2478


Q ss_pred             EEEEcccccc
Q 016044          185 IIFIDEVDSF  194 (396)
Q Consensus       185 vl~iDEid~l  194 (396)
                      +|+|||++.+
T Consensus        92 vViIDEaQ~l  101 (223)
T 2b8t_A           92 VIGIDEVQFF  101 (223)
T ss_dssp             EEEECSGGGS
T ss_pred             EEEEecCccC
Confidence            9999999875

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=97.37  E-value=9.1e-05  Score=65.72  Aligned_cols=32  Identities=19%  Similarity=0.357  Sum_probs=28.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      +..|+|.|+|||||||+++.++..++.+++..
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   38 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHFELKHLSS   38 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHSSSEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCeEEec
Confidence            46799999999999999999999998776654

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=97.37  E-value=0.00011  Score=66.18  Aligned_cols=33  Identities=21%  Similarity=0.434  Sum_probs=28.7

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      ++..|+|.||||+||||+|+.+++.++.+++..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~~~g~~~is~   60 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKKSHCYCHLST   60 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence            356799999999999999999999998776654

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.37  E-value=0.00011  Score=62.70  Aligned_cols=31  Identities=35%  Similarity=0.633  Sum_probs=26.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      ..++|.|+|||||||+++.+++.+|.+++..
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~~l~~~~i~~   35 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQELGFKKLST   35 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTCEEECH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCeEecH
Confidence            4689999999999999999999998766543

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=97.37  E-value=0.00012  Score=64.01  Aligned_cols=28  Identities=50%  Similarity=0.841  Sum_probs=25.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      ++|.||||+||+|.|+.|++.+|.+.++
T Consensus         3 Iil~GpPGsGKgTqa~~La~~~g~~~is   30 (206)
T 3sr0_A            3 LVFLGPPGAGKGTQAKRLAKEKGFVHIS   30 (206)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCeEEc
Confidence            7889999999999999999999987654

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=97.37  E-value=9.2e-05  Score=63.89  Aligned_cols=32  Identities=22%  Similarity=0.452  Sum_probs=27.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      +.-|+|.|+|||||||+++.++..++.+++..
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l~~~~i~~   43 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKYGFTHLST   43 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhCCeEEcH
Confidence            35689999999999999999999999766544

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.36  E-value=0.00011  Score=63.73  Aligned_cols=33  Identities=21%  Similarity=0.414  Sum_probs=28.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      +.-|+|.|+|||||||+++.+++.+|.+++..+
T Consensus        15 ~~~I~l~G~~GsGKsT~~~~L~~~~g~~~i~~d   47 (203)
T 1ukz_A           15 VSVIFVLGGPGAGKGTQCEKLVKDYSFVHLSAG   47 (203)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHSSCEEEEHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCceEEeHH
Confidence            356899999999999999999999987666543

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=97.35  E-value=9.8e-05  Score=64.85  Aligned_cols=30  Identities=30%  Similarity=0.533  Sum_probs=26.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      .|+|.|||||||||+++.++..++.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKYGIPHIST   31 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence            378999999999999999999998877655

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.34  E-value=0.00011  Score=62.34  Aligned_cols=29  Identities=34%  Similarity=0.499  Sum_probs=23.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH-HcCCcEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK-ESGAVFI  152 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~-~~~~~~~  152 (396)
                      .-|+|.|+||+||||+++.++. ..+..++
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~~~~~~~~i   32 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIAKNPGFYNI   32 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTTEEEE
T ss_pred             eEEEEecCCCCCHHHHHHHHHhhcCCcEEe
Confidence            4689999999999999999998 4554443

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=97.34  E-value=0.00011  Score=61.66  Aligned_cols=30  Identities=20%  Similarity=0.352  Sum_probs=26.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      .|+|.|+|||||||+++.++..++.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l~~~~i~~   31 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSLNIPFYDV   31 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHHTCCEEEH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCEEEC
Confidence            478999999999999999999999877653

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=97.33  E-value=0.0001  Score=63.09  Aligned_cols=32  Identities=28%  Similarity=0.504  Sum_probs=27.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      +..|+|.|+|||||||+++.++..++.+++..
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l~~~~i~~   37 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDFGWVHLSA   37 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEeeH
Confidence            35689999999999999999999999766654

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.33  E-value=0.0001  Score=64.65  Aligned_cols=30  Identities=30%  Similarity=0.481  Sum_probs=26.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      .|+|.|||||||||+|+.++..+|.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~~~~~i~~   31 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKYEIPHIST   31 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEeeH
Confidence            378999999999999999999999877654

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=97.33  E-value=0.00038  Score=66.17  Aligned_cols=69  Identities=19%  Similarity=0.259  Sum_probs=42.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEecc-ccc---------chhhchHHHHHHHHHHHHHHhCCcEEEEc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES----GAVFINVRIS-NLM---------SKWFGDAQKLVAAVFSLAYKLQPAIIFID  189 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~~-~l~---------~~~~g~~~~~~~~~f~~a~~~~p~vl~iD  189 (396)
                      ..+++.||+|+||||+.++++...    +..++.+.-. ++.         ....+.........+..+...+|.+|++|
T Consensus       124 g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~~~~~~v~q~~~~~~~~~~~~~La~aL~~~PdvillD  203 (356)
T 3jvv_A          124 GLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHESKKCLVNQREVHRDTLGFSEALRSALREDPDIILVG  203 (356)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHTTSCCSEEEES
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhhccccceeeeeeccccCCHHHHHHHHhhhCcCEEecC
Confidence            458899999999999999998754    3344433211 110         00011111122334555667799999999


Q ss_pred             ccc
Q 016044          190 EVD  192 (396)
Q Consensus       190 Eid  192 (396)
                      |+-
T Consensus       204 Ep~  206 (356)
T 3jvv_A          204 EMR  206 (356)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            984

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=97.33  E-value=0.00018  Score=64.11  Aligned_cols=32  Identities=31%  Similarity=0.481  Sum_probs=28.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      +..|+|.|+|||||||+++.++..++.+++..
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   47 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   47 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCceecH
Confidence            45799999999999999999999999776654

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=97.33  E-value=0.0043  Score=66.33  Aligned_cols=43  Identities=26%  Similarity=0.237  Sum_probs=34.2

Q ss_pred             cChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHH
Q 016044           91 GGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus        91 ~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      +|.+..++.|.+.+...             ...+-+.|+|+.|+|||+||+.+++.
T Consensus       131 VGRe~eLeeL~elL~~~-------------d~~RVV~IvGmGGIGKTTLAk~Vy~d  173 (1221)
T 1vt4_I          131 VSRLQPYLKLRQALLEL-------------RPAKNVLIDGVLGSGKTWVALDVCLS  173 (1221)
T ss_dssp             CCCHHHHHHHHHHHHHC-------------CSSCEEEECCSTTSSHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHhcc-------------CCCeEEEEEcCCCccHHHHHHHHHHh
Confidence            89999999988876420             11356899999999999999999863

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=97.32  E-value=0.00011  Score=62.56  Aligned_cols=30  Identities=27%  Similarity=0.431  Sum_probs=23.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFI  152 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~  152 (396)
                      +..|+|.|+|||||||+++.++..++.+++
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~~~~i   34 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLPGSFV   34 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHSTTCEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCCEE
Confidence            356899999999999999999999998876

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=97.32  E-value=0.00019  Score=60.73  Aligned_cols=31  Identities=29%  Similarity=0.525  Sum_probs=26.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      ...++|.||+|+||||+++.++..+|..++.
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~g~~~i~   38 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQLHAAFLD   38 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTCEEEE
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhhCcEEEe
Confidence            3568999999999999999999988866554

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=97.31  E-value=0.00014  Score=62.17  Aligned_cols=25  Identities=28%  Similarity=0.384  Sum_probs=23.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      .-|+|.|+|||||||+++.++..++
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4689999999999999999999887

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.30  E-value=0.0002  Score=62.17  Aligned_cols=30  Identities=37%  Similarity=0.669  Sum_probs=26.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFI  152 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~  152 (396)
                      +.-+.|.||+|+||||+++.++..+|..++
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~~~g~~~i   58 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVADETGLEFA   58 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHCCEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCCeEE
Confidence            456899999999999999999999876554

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=97.30  E-value=8.3e-05  Score=65.68  Aligned_cols=31  Identities=23%  Similarity=0.355  Sum_probs=27.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      +..|+|.|||||||||+++.++..++..++.
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~~l~~~~i~   35 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKTKYQLAHIS   35 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHCCEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCceec
Confidence            4569999999999999999999999976544

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=97.28  E-value=0.0019  Score=58.97  Aligned_cols=27  Identities=33%  Similarity=0.418  Sum_probs=22.6

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHH
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      +.+..-++|+||+|+||||++..++..
T Consensus        27 l~~G~i~~i~G~~GsGKTtl~~~l~~~   53 (279)
T 1nlf_A           27 MVAGTVGALVSPGGAGKSMLALQLAAQ   53 (279)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             ccCCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            344567899999999999999999863

>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=97.28  E-value=0.0025  Score=54.94  Aligned_cols=116  Identities=16%  Similarity=0.154  Sum_probs=66.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEeccc---------ccchhh-----------------chHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISN---------LMSKWF-----------------GDAQKLVAAV  174 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~---------l~~~~~-----------------g~~~~~~~~~  174 (396)
                      ..|++|+++|.||||+|-.+|-..   |..+..+....         +.....                 .+........
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~~~~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~~~  108 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEFQVMATGFTWETQNREADTAACMAV  108 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCSSCCHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCCCCccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHHHH
Confidence            458999999999999999987643   66666653211         222210                 0112333444


Q ss_pred             HHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCC
Q 016044          175 FSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQ  250 (396)
Q Consensus       175 f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~  250 (396)
                      +..+..    ....+|+|||+.....-.--..        .+++..+..    .+.+.-+|.|+|.+   ++.+...-|.
T Consensus       109 l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~--------~ev~~~l~~----Rp~~~~vIlTGr~a---p~~l~e~AD~  173 (196)
T 1g5t_A          109 WQHGKRMLADPLLDMVVLDELTYMVAYDYLPL--------EEVISALNA----RPGHQTVIITGRGC---HRDILDLADT  173 (196)
T ss_dssp             HHHHHHHTTCTTCSEEEEETHHHHHHTTSSCH--------HHHHHHHHT----SCTTCEEEEECSSC---CHHHHHHCSE
T ss_pred             HHHHHHHHhcCCCCEEEEeCCCccccCCCCCH--------HHHHHHHHh----CcCCCEEEEECCCC---cHHHHHhCcc
Confidence            444443    2468999999976432221111        134444432    24566788888853   5677776655


Q ss_pred             ceEe
Q 016044          251 AFEI  254 (396)
Q Consensus       251 ~i~~  254 (396)
                      +-++
T Consensus       174 VTem  177 (196)
T 1g5t_A          174 VSEL  177 (196)
T ss_dssp             EEEC
T ss_pred             eeee
Confidence            5544

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=97.25  E-value=0.00013  Score=64.21  Aligned_cols=31  Identities=32%  Similarity=0.592  Sum_probs=27.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      ..|+|.|+|||||||+++.++..++.+++..
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l~~~~i~~   36 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEYGLAHLST   36 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCceEEeh
Confidence            4689999999999999999999999877654

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=97.25  E-value=0.0043  Score=61.58  Aligned_cols=74  Identities=16%  Similarity=0.301  Sum_probs=49.3

Q ss_pred             EEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC--CCcHHHHhccCCceEeCCCCHHHH
Q 016044          185 IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS--ELDEAILRRLPQAFEIGMPDRKER  262 (396)
Q Consensus       185 vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~--~l~~~l~~R~~~~i~~~~P~~~er  262 (396)
                      +++|||+..+....    .......+..+...-.      ..++.+|.+|.+|.  .++..++..|..++.|...+..+.
T Consensus       300 vlvIDE~~~ll~~~----~~~~~~~l~~Lar~gR------a~GI~LIlaTQrp~~dvl~~~i~~n~~~RI~lrv~s~~ds  369 (512)
T 2ius_A          300 VVLVDEFADLMMTV----GKKVEELIARLAQKAR------AAGIHLVLATQRPSVDVITGLIKANIPTRIAFTVSSKIDS  369 (512)
T ss_dssp             EEEEETHHHHHHHH----HHHHHHHHHHHHHHCG------GGTEEEEEEESCCCTTTSCHHHHHHCCEEEEECCSSHHHH
T ss_pred             EEEEeCHHHHHhhh----hHHHHHHHHHHHHHhh------hCCcEEEEEecCCccccccHHHHhhcCCeEEEEcCCHHHH
Confidence            89999998775311    1111222222222111      23577888888876  588889889989999999999999


Q ss_pred             HHHHHH
Q 016044          263 AQILKV  268 (396)
Q Consensus       263 ~~il~~  268 (396)
                      ..++..
T Consensus       370 r~ilg~  375 (512)
T 2ius_A          370 RTILDQ  375 (512)
T ss_dssp             HHHHSS
T ss_pred             HHhcCC
Confidence            888754

>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*

Probab=97.24  E-value=0.00035  Score=70.74  Aligned_cols=33  Identities=36%  Similarity=0.406  Sum_probs=25.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      +.+++.||||||||+++.+++..+   +.+++.+..
T Consensus       205 ~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~Ap  240 (574)
T 3e1s_A          205 RLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCAP  240 (574)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEecC
Confidence            568999999999999999998743   555555443

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=97.24  E-value=0.0027  Score=62.41  Aligned_cols=38  Identities=18%  Similarity=0.211  Sum_probs=29.4

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEec
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVRI  156 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~  156 (396)
                      .+.+..-++|.|+||+|||+++..++...    |.+++.++.
T Consensus       199 Gl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~  240 (454)
T 2r6a_A          199 GFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSL  240 (454)
T ss_dssp             SBCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEES
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEEC
Confidence            36666778999999999999999987743    556666654

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=97.19  E-value=0.0015  Score=58.29  Aligned_cols=34  Identities=29%  Similarity=0.244  Sum_probs=27.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS  157 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~  157 (396)
                      ..++++||+|+|||.++.+++...+...+.+-+.
T Consensus       109 ~~~ll~~~tG~GKT~~a~~~~~~~~~~~liv~P~  142 (237)
T 2fz4_A          109 KRGCIVLPTGSGKTHVAMAAINELSTPTLIVVPT  142 (237)
T ss_dssp             SEEEEEESSSTTHHHHHHHHHHHSCSCEEEEESS
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHcCCCEEEEeCC
Confidence            3489999999999999999988887666665543

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=97.19  E-value=0.0027  Score=61.83  Aligned_cols=200  Identities=17%  Similarity=0.136  Sum_probs=102.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch--------------------hhchHHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK--------------------WFGDAQKLVAAVFSLA  178 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~--------------------~~g~~~~~~~~~f~~a  178 (396)
                      +|.-+++.|++|+||||++..+|..+   |..+..+++......                    ........+...+..+
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~~~~~~dp~~i~~~al~~a  178 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYF  178 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEECCTTCCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHH
Confidence            36778999999999999999998754   556666665432110                    0112334445556666


Q ss_pred             HHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEE-EecCCCCCCc--HHHHhccCC-ceEe
Q 016044          179 YKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVL-AATNRPSELD--EAILRRLPQ-AFEI  254 (396)
Q Consensus       179 ~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI-~atn~~~~l~--~~l~~R~~~-~i~~  254 (396)
                      ....+.+++||....+.     .......    ++........   +..+++| -++...+.++  ..+...+.. .+-+
T Consensus       179 ~~~~~DvVIIDTaGrl~-----~d~~lm~----el~~i~~~~~---pd~vlLVvDA~~gq~a~~~a~~f~~~~~i~gVIl  246 (443)
T 3dm5_A          179 KSKGVDIIIVDTAGRHK-----EDKALIE----EMKQISNVIH---PHEVILVIDGTIGQQAYNQALAFKEATPIGSIIV  246 (443)
T ss_dssp             HHTTCSEEEEECCCCSS-----CCHHHHH----HHHHHHHHHC---CSEEEEEEEGGGGGGHHHHHHHHHHSCTTEEEEE
T ss_pred             HhCCCCEEEEECCCccc-----chHHHHH----HHHHHHHhhc---CceEEEEEeCCCchhHHHHHHHHHhhCCCeEEEE
Confidence            66667999999875431     1111111    2222111111   2334444 3433222111  122222221 1334


Q ss_pred             CCCCHHHHHHHHHHHhc-----------CCCCC--CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHH-----HHHHHh
Q 016044          255 GMPDRKERAQILKVILK-----------GEKVE--ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE-----LLDEER  316 (396)
Q Consensus       255 ~~P~~~er~~il~~~l~-----------~~~~~--~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~-----~~~~~~  316 (396)
                      ...|...+...+.....           +..++  ...+.+.++...-|+  +|+..|++.|...--.+     ..+...
T Consensus       247 TKlD~~~~gG~~ls~~~~~g~PI~fig~Ge~vddL~~f~~~~~~~~llg~--gd~~~l~e~~~~~~~~~~~~~~~~~k~~  324 (443)
T 3dm5_A          247 TKLDGSAKGGGALSAVAATGAPIKFIGTGEKIDDIEPFDPPRFVSRLLGL--GDIQGLLEKFKELEKEVEIKEEDIERFL  324 (443)
T ss_dssp             ECCSSCSSHHHHHHHHHTTCCCEEEEECSSSTTCEEECCHHHHHHHHTTT--TCHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             ECCCCcccccHHHHHHHHHCCCEEEEEcCCChHHhhhCCHHHHHHHHcCC--CcHHHHHHHHHHhhhhhHHHHHHHHHHh
Confidence            44443333222211111           12221  224567787777654  58888888775532211     222222


Q ss_pred             cCCCCCCCCCCCHHHHHHHHHhcccc
Q 016044          317 KGKPAAAPRPLSRLDLEKVLTTSRKT  342 (396)
Q Consensus       317 ~~~~~~~~~~i~~~d~~~al~~~~~~  342 (396)
                      +       ...+.+||..-++.++.-
T Consensus       325 ~-------~~f~l~d~~~q~~~~~km  343 (443)
T 3dm5_A          325 R-------GKFTLKDMYAQLEAMRKM  343 (443)
T ss_dssp             T-------TCCCHHHHHHHHHHHHTT
T ss_pred             h-------CCcCHHHHHHHHHHHHhc
Confidence            2       348999999988887654

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=97.18  E-value=0.0045  Score=60.62  Aligned_cols=37  Identities=30%  Similarity=0.391  Sum_probs=29.0

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEec
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVRI  156 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~  156 (396)
                      +.+..-++|.|+||+|||+++..+|...    |.+++.++.
T Consensus       197 l~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~sl  237 (444)
T 2q6t_A          197 LGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSL  237 (444)
T ss_dssp             CCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEES
T ss_pred             cCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEEC
Confidence            6666778999999999999999987642    556666654

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=97.18  E-value=0.00038  Score=59.09  Aligned_cols=35  Identities=26%  Similarity=0.260  Sum_probs=30.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      +..+.|.|++||||||+++.++..+   |.+++.++..
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~l~~~g~~~i~~d~~   42 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDGD   42 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHhhCCCcEEEECCh
Confidence            4568899999999999999999987   8888887753

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=97.17  E-value=0.00032  Score=60.06  Aligned_cols=31  Identities=29%  Similarity=0.259  Sum_probs=27.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc---CCcEEEEe
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKES---GAVFINVR  155 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~---~~~~~~i~  155 (396)
                      -|.|.|++||||||+++.++..+   |.+++..+
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~~g~~~i~~d   35 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQKGYFVSLYR   35 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            37899999999999999999987   88888765

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.15  E-value=0.00057  Score=62.05  Aligned_cols=70  Identities=21%  Similarity=0.372  Sum_probs=40.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEec--cccc--------chhhchHHHHHHHHHHHHHHhCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVRI--SNLM--------SKWFGDAQKLVAAVFSLAYKLQPAIIFI  188 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~--~~l~--------~~~~g~~~~~~~~~f~~a~~~~p~vl~i  188 (396)
                      ..-++|.||+|+||||++++++...    ...++....  ..+.        ...++.....++..+..+...+|.+|++
T Consensus        25 g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~~i~~~~~~~~~~v~q~~~gl~~~~l~~~la~aL~~~p~illl  104 (261)
T 2eyu_A           25 MGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKKSIVNQREVGEDTKSFADALRAALREDPDVIFV  104 (261)
T ss_dssp             SEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCHHHHHHHHHHHCCSEEEE
T ss_pred             CCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcCCcceeecCCcceeeeHHHhCCCHHHHHHHHHHHHhhCCCEEEe
Confidence            4568899999999999999998754    222222211  0000        0000100012244455555668999999


Q ss_pred             cccc
Q 016044          189 DEVD  192 (396)
Q Consensus       189 DEid  192 (396)
                      ||.-
T Consensus       105 DEp~  108 (261)
T 2eyu_A          105 GEMR  108 (261)
T ss_dssp             SCCC
T ss_pred             CCCC
Confidence            9973

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=97.14  E-value=0.00027  Score=61.97  Aligned_cols=30  Identities=30%  Similarity=0.433  Sum_probs=26.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      .|+|.|+|||||||+++.++..+|.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~g~~~i~~   31 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKYGIPQIST   31 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            378999999999999999999999877665

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=97.13  E-value=0.0036  Score=55.67  Aligned_cols=37  Identities=32%  Similarity=0.363  Sum_probs=27.7

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHH----cCCcEEEEec
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKE----SGAVFINVRI  156 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~----~~~~~~~i~~  156 (396)
                      +.+..-++++|+||+|||++|..+|..    .+.+++.++.
T Consensus        27 l~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~   67 (251)
T 2zts_A           27 FPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTL   67 (251)
T ss_dssp             EETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEES
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecc
Confidence            556677899999999999999887643    3556665554

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=97.12  E-value=0.00037  Score=60.47  Aligned_cols=35  Identities=23%  Similarity=0.247  Sum_probs=27.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      +.-+.|.||+||||||+++.++..+   |...+.++..
T Consensus        25 g~~i~l~G~sGsGKSTl~~~La~~l~~~G~~~~~~d~d   62 (200)
T 3uie_A           25 GCVIWVTGLSGSGKSTLACALNQMLYQKGKLCYILDGD   62 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCceEEEecCc
Confidence            4668899999999999999999987   5544455543

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=97.11  E-value=0.00033  Score=61.93  Aligned_cols=30  Identities=23%  Similarity=0.545  Sum_probs=25.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      .|+|.|+|||||||+++.++..++.+++..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~lg~~~i~~   31 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKYSLAHIES   31 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCeEEch
Confidence            378999999999999999999998765543

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=97.11  E-value=0.0002  Score=67.62  Aligned_cols=30  Identities=27%  Similarity=0.530  Sum_probs=26.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      ..++|.|+||+||||+++++|..++.+|+.
T Consensus        25 ~~i~l~G~~G~GKTTl~~~la~~l~~~f~~   54 (359)
T 2ga8_A           25 VCVILVGSPGSGKSTIAEELCQIINEKYHT   54 (359)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHhCCCeee
Confidence            569999999999999999999998887744

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=97.10  E-value=0.00038  Score=61.35  Aligned_cols=30  Identities=30%  Similarity=0.471  Sum_probs=26.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      ..+.|.||+||||||+++.++..+|.+++.
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~g~~~~d   35 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEALQWHLLD   35 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            458899999999999999999999876654

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=97.10  E-value=0.00041  Score=60.03  Aligned_cols=34  Identities=15%  Similarity=0.149  Sum_probs=28.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc-CCcEEEEec
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES-GAVFINVRI  156 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~-~~~~~~i~~  156 (396)
                      +.-|.|.|++||||||+++.++..+ |.+++.++.
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l~g~~~~~~~~   38 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESIPANTIKYLNF   38 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTSCGGGEEEEES
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHCCCceEEEec
Confidence            4568999999999999999999998 577776653

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.08  E-value=0.00036  Score=60.27  Aligned_cols=29  Identities=24%  Similarity=0.549  Sum_probs=25.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      .|.|.|++||||||+++.+++.++..++.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~~~~~~   30 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLGYEIFK   30 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHCCEEEC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcCCcEEc
Confidence            37899999999999999999999986653

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=97.07  E-value=0.0082  Score=55.91  Aligned_cols=37  Identities=27%  Similarity=0.226  Sum_probs=28.8

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      +.+..-++|.|+||+|||+++..+|...   +.+++.++.
T Consensus        65 l~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~sl  104 (315)
T 3bh0_A           65 YKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSL  104 (315)
T ss_dssp             BCTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEES
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEEC
Confidence            5666779999999999999999998643   456666554

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.07  E-value=0.0014  Score=55.31  Aligned_cols=20  Identities=40%  Similarity=0.600  Sum_probs=17.6

Q ss_pred             CceEEEECCCCCcHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKA  142 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~a  142 (396)
                      +.-+.|.||+|+||||++++
T Consensus         9 gei~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHH
Confidence            45688999999999999994

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=97.06  E-value=0.00027  Score=61.37  Aligned_cols=30  Identities=27%  Similarity=0.412  Sum_probs=25.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      .|.|.|++||||||+++.++. +|.+++..+
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~-~g~~~i~~d   32 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE-LGAYVLDAD   32 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH-TTCEEEEHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH-CCCEEEEcc
Confidence            478999999999999999999 887766543

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=97.03  E-value=0.0005  Score=61.21  Aligned_cols=31  Identities=32%  Similarity=0.629  Sum_probs=27.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      +..+.|.||+||||||+++.++..+|.+++.
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~lg~~~~d   39 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARALGARYLD   39 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCccc
Confidence            3568999999999999999999999976654

>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=97.03  E-value=0.00034  Score=60.48  Aligned_cols=32  Identities=28%  Similarity=0.412  Sum_probs=27.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      ..|.|+|++||||||+++.++..+|.+++..+
T Consensus        13 ~iIgltG~~GSGKSTva~~L~~~lg~~vid~D   44 (192)
T 2grj_A           13 MVIGVTGKIGTGKSTVCEILKNKYGAHVVNVD   44 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHCCEEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCEEEECc
Confidence            34789999999999999999998898776543

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.02  E-value=0.00026  Score=60.56  Aligned_cols=24  Identities=21%  Similarity=0.318  Sum_probs=22.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcC
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      .|+|.|+|||||||+++.++..++
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            488999999999999999999875

>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=97.01  E-value=0.0019  Score=72.36  Aligned_cols=80  Identities=19%  Similarity=0.246  Sum_probs=59.7

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHH---HcCCcEEEEecccc----------------cchhhchHHHHHHHHHHHHHH
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAK---ESGAVFINVRISNL----------------MSKWFGDAQKLVAAVFSLAYK  180 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~---~~~~~~~~i~~~~l----------------~~~~~g~~~~~~~~~f~~a~~  180 (396)
                      ++..+-+.+|||+|||||++|-.++.   ..|.....++...-                .-......+..+..+...++.
T Consensus      1428 ~prg~~iei~g~~~sGkttl~~~~~a~~~~~g~~~~~i~~e~~~~~~~~~~~Gv~~~~l~~~~p~~~e~~l~~~~~~~~s 1507 (1706)
T 3cmw_A         1428 LPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALARS 1507 (1706)
T ss_dssp             EETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHH
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEecCCCCCHHHHHHcCCCHHHeEEeCCCcHHHHHHHHHHHHHc
Confidence            33445599999999999999987754   34666667766422                222344568888888888899


Q ss_pred             hCCcEEEEccccccccCCC
Q 016044          181 LQPAIIFIDEVDSFLGQRR  199 (396)
Q Consensus       181 ~~p~vl~iDEid~l~~~~~  199 (396)
                      ..+++|++|.+..|.++..
T Consensus      1508 ~~~~~vvvDsv~al~~~~e 1526 (1706)
T 3cmw_A         1508 GAVDVIVVDSVAALTPKAE 1526 (1706)
T ss_dssp             TCCSEEEESCSTTCCCTTT
T ss_pred             CCCCEEEEccHHhCCcccc
Confidence            9999999999999987653

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=97.00  E-value=0.0083  Score=58.28  Aligned_cols=73  Identities=19%  Similarity=0.104  Sum_probs=44.5

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchh--------------------hchHHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKW--------------------FGDAQKLVAAVFSLA  178 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~--------------------~g~~~~~~~~~f~~a  178 (396)
                      ++.-+++.||+|+||||++..+|..+   |..+..+++.......                    ...........+..+
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D~~r~~a~eqL~~~~~~~gv~~~~~~~~~dp~~i~~~al~~a  175 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPAAYDQLLQLGNQIGVQVYGEPNNQNPIEIAKKGVDIF  175 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCSCHHHHHHHHHHHHTTTCCEECCTTCSCHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecCccchhHHHHHHHHHHhcCCceeeccccCCHHHHHHHHHHHH
Confidence            35678899999999999999998754   5566555543221100                    001122223333444


Q ss_pred             HHhCCcEEEEcccccc
Q 016044          179 YKLQPAIIFIDEVDSF  194 (396)
Q Consensus       179 ~~~~p~vl~iDEid~l  194 (396)
                      ....+.+++||....+
T Consensus       176 ~~~~~DvvIIDTaGr~  191 (433)
T 3kl4_A          176 VKNKMDIIIVDTAGRH  191 (433)
T ss_dssp             TTTTCSEEEEEECCCS
T ss_pred             HhcCCCEEEEECCCCc
Confidence            4446789999987543

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=97.00  E-value=0.00039  Score=65.20  Aligned_cols=36  Identities=31%  Similarity=0.351  Sum_probs=31.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN  158 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~  158 (396)
                      ++.++|.||+|||||+++..+|+.++..+++.|...
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l~~eiIs~Ds~q   75 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHFPLEVINSDKMQ   75 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTSCEEEEECCSST
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHCCCcEEcccccc
Confidence            356899999999999999999999998888877653

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.99  E-value=0.00056  Score=61.67  Aligned_cols=32  Identities=31%  Similarity=0.562  Sum_probs=28.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      ..+.|.|++|+||||+++.++..+|.+|+..+
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~~lg~~~~d~d   80 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMARSLGYTFFDCD   80 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHHTCEEEEHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhcCCcEEeCc
Confidence            56999999999999999999999998877643

>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=96.98  E-value=0.0017  Score=56.75  Aligned_cols=36  Identities=19%  Similarity=0.197  Sum_probs=28.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEeccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVRISN  158 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~~~  158 (396)
                      +..++|.|++|+||||+++.++..+    |.+++.++...
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~~l~~~~g~~~~~~~~d~   64 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDN   64 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhccccCCcEEEECChH
Confidence            4668899999999999999999865    45577776543

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.98  E-value=0.00052  Score=61.59  Aligned_cols=30  Identities=30%  Similarity=0.598  Sum_probs=26.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFI  152 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~  152 (396)
                      +.-+.|.||+|+||||+++.+++.+|...+
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~lg~~~~   56 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNFGLQHL   56 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCCCE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEe
Confidence            467999999999999999999999887544

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=96.97  E-value=0.00053  Score=63.42  Aligned_cols=37  Identities=32%  Similarity=0.459  Sum_probs=31.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      +.-++|.||+|+|||+++..+|..++..+++.|...+
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~~~~~iis~Ds~qv   46 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKILPVELISVDSALI   46 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHSCEEEEECCTTTT
T ss_pred             CcEEEEECCCccCHHHHHHHHHHhCCCcEEecccccc
Confidence            4568899999999999999999999988888776544

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.95  E-value=0.00043  Score=59.76  Aligned_cols=31  Identities=19%  Similarity=0.268  Sum_probs=26.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      +..|.|.|++||||||+++.++.. |.+++..
T Consensus         8 ~~~I~i~G~~GsGKST~~~~La~~-g~~~id~   38 (203)
T 1uf9_A            8 PIIIGITGNIGSGKSTVAALLRSW-GYPVLDL   38 (203)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT-TCCEEEH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHC-CCEEEcc
Confidence            466899999999999999999998 7776543

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=96.93  E-value=0.00062  Score=59.01  Aligned_cols=31  Identities=26%  Similarity=0.486  Sum_probs=27.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      .+.|.|++||||||+++.++..+|.+++..+
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~lg~~~~d~d   34 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAALGVPYLSSG   34 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCceeccc
Confidence            5889999999999999999999998776543

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.93  E-value=0.00051  Score=59.67  Aligned_cols=28  Identities=32%  Similarity=0.427  Sum_probs=24.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      .+.|.||+||||||+++.++. +|.+++.
T Consensus         4 ~i~l~G~~GsGKST~~~~La~-lg~~~id   31 (206)
T 1jjv_A            4 IVGLTGGIGSGKTTIANLFTD-LGVPLVD   31 (206)
T ss_dssp             EEEEECSTTSCHHHHHHHHHT-TTCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHH-CCCcccc
Confidence            478999999999999999987 7877764

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.92  E-value=0.00084  Score=60.55  Aligned_cols=31  Identities=29%  Similarity=0.463  Sum_probs=26.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      ...+.|.||+||||||+++.++..+|..++.
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La~~Lg~~~~d   57 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALAESLNWRLLD   57 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHTTCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhcCCCcCC
Confidence            3468899999999999999999999976653

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.89  E-value=0.00062  Score=59.12  Aligned_cols=28  Identities=18%  Similarity=0.100  Sum_probs=24.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAV  150 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~  150 (396)
                      +.-|+|.|+|||||||+++.++..++..
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            3568999999999999999999988763

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.87  E-value=0.00028  Score=61.47  Aligned_cols=28  Identities=18%  Similarity=0.159  Sum_probs=24.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAV  150 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~  150 (396)
                      +.-|+|.|+|||||||+++.++..++.+
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~~   37 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKNN   37 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            4568999999999999999999987544

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.84  E-value=0.0011  Score=59.59  Aligned_cols=39  Identities=13%  Similarity=0.149  Sum_probs=31.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc--------EEEEecccccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAV--------FINVRISNLMS  161 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~--------~~~i~~~~l~~  161 (396)
                      +.-|.|.|++||||||+|+.++..++.+        ...++..++..
T Consensus        22 ~~iI~I~G~~GSGKST~a~~L~~~lg~~~~d~~~~~~~~i~~D~~~~   68 (252)
T 1uj2_A           22 PFLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDSFYR   68 (252)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGGGBC
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHhhhhcccccCCceEEEecCcccc
Confidence            4568899999999999999999998876        33566666654

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.83  E-value=0.00081  Score=58.42  Aligned_cols=28  Identities=29%  Similarity=0.440  Sum_probs=24.6

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      .++.-++|.||||+||||+++.++..++
T Consensus        10 ~~~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A           10 ARIPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            3456789999999999999999999874

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=96.82  E-value=0.00096  Score=63.85  Aligned_cols=71  Identities=21%  Similarity=0.365  Sum_probs=41.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcC----CcEEEEecc-cc--------cch-hhchHHHHHHHHHHHHHHhCCcEEE
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESG----AVFINVRIS-NL--------MSK-WFGDAQKLVAAVFSLAYKLQPAIIF  187 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~----~~~~~i~~~-~l--------~~~-~~g~~~~~~~~~f~~a~~~~p~vl~  187 (396)
                      +...++|.||+|+||||++++++....    ..++.+..+ ++        ... .+|.....+...+..+....|.+|+
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~~~e~~~~~~~~~v~Q~~~g~~~~~~~~~l~~~L~~~pd~il  214 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKKSIVNQREVGEDTKSFADALRAALREDPDVIF  214 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEESSCCSCCCCSSSEEEEEEBTTTBSCSHHHHHHHTTSCCSEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecccHhhhhccCceEEEeeecCCCHHHHHHHHHHHhhhCcCEEE
Confidence            345689999999999999999988542    333333211 00        000 0000011123344445556899999


Q ss_pred             Ecccc
Q 016044          188 IDEVD  192 (396)
Q Consensus       188 iDEid  192 (396)
                      +||+-
T Consensus       215 ldE~~  219 (372)
T 2ewv_A          215 VGEMR  219 (372)
T ss_dssp             ESCCC
T ss_pred             ECCCC
Confidence            99984

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=96.81  E-value=0.00078  Score=62.43  Aligned_cols=37  Identities=27%  Similarity=0.290  Sum_probs=31.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +-++|.||+|||||+++..+|..++..+++.+...+.
T Consensus         4 ~~i~i~GptgsGKt~la~~La~~~~~~iis~Ds~QvY   40 (322)
T 3exa_A            4 KLVAIVGPTAVGKTKTSVMLAKRLNGEVISGDSMQVY   40 (322)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTTTEEEEECCGGGGB
T ss_pred             cEEEEECCCcCCHHHHHHHHHHhCccceeecCcccce
Confidence            4578999999999999999999998888777765443

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.80  E-value=0.00037  Score=60.83  Aligned_cols=27  Identities=19%  Similarity=0.236  Sum_probs=23.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      +.-|+|.|+|||||||+++.++..++.
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~~   35 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALCA   35 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            456899999999999999999997643

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=96.78  E-value=0.016  Score=56.62  Aligned_cols=38  Identities=26%  Similarity=0.182  Sum_probs=29.7

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      ++.+..-+++.|+||+|||++|..+|...   |.++..++.
T Consensus       193 Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSl  233 (444)
T 3bgw_A          193 GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSL  233 (444)
T ss_dssp             SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECS
T ss_pred             CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEEC
Confidence            36666779999999999999999987643   566666654

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.75  E-value=0.0013  Score=57.74  Aligned_cols=31  Identities=35%  Similarity=0.427  Sum_probs=26.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      +.-|.|.|++||||||+++.++. +|.+++..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~-lg~~~id~   34 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD-LGINVIDA   34 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH-TTCEEEEH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH-cCCEEEEc
Confidence            35688999999999999999998 88766554

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.75  E-value=0.00063  Score=59.19  Aligned_cols=32  Identities=28%  Similarity=0.293  Sum_probs=25.6

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc-CCcEEE
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES-GAVFIN  153 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~-~~~~~~  153 (396)
                      ++.-+.|.|++|+||||+++.++..+ +..++.
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~~~~~~~i~   52 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKHLPNCSVIS   52 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTTSTTEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcEEEe
Confidence            34557899999999999999999877 554443

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.74  E-value=0.0013  Score=58.51  Aligned_cols=31  Identities=32%  Similarity=0.607  Sum_probs=27.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      +..+.|.|++||||||+++.++..+|.+++.
T Consensus        16 ~~~i~i~G~~gsGKst~~~~l~~~lg~~~~d   46 (236)
T 1q3t_A           16 TIQIAIDGPASSGKSTVAKIIAKDFGFTYLD   46 (236)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHcCCceec
Confidence            4568899999999999999999999977654

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.73  E-value=0.0013  Score=56.14  Aligned_cols=34  Identities=32%  Similarity=0.298  Sum_probs=26.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      +..++|.|+||+||||+++.++..+   +..+..++.
T Consensus        13 ~~~i~l~G~~GsGKsT~~~~L~~~l~~~~~~~~~~~~   49 (186)
T 2yvu_A           13 GIVVWLTGLPGSGKTTIATRLADLLQKEGYRVEVLDG   49 (186)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEeeH
Confidence            4668899999999999999999876   344555553

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.71  E-value=0.0011  Score=56.77  Aligned_cols=26  Identities=35%  Similarity=0.600  Sum_probs=22.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      +.|+|.||+|+||||+++.+..+...
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~~   27 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYPD   27 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCCC
Confidence            45999999999999999999887643

>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=96.70  E-value=0.00086  Score=61.58  Aligned_cols=31  Identities=29%  Similarity=0.381  Sum_probs=25.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      +.-|.|.|++||||||+++.++ .+|.+++..
T Consensus        75 ~~iI~I~G~~GSGKSTva~~La-~lg~~~id~  105 (281)
T 2f6r_A           75 LYVLGLTGISGSGKSSVAQRLK-NLGAYIIDS  105 (281)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH-HHTCEEEEH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH-HCCCcEEeh
Confidence            3458899999999999999999 678766543

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=96.69  E-value=0.0014  Score=57.47  Aligned_cols=31  Identities=29%  Similarity=0.600  Sum_probs=27.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      ..+.|.|++|||||++++.++..+|.+++..
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~g~~~~~~   34 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASELSMIYVDT   34 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHTTCEEEEH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcCCceecC
Confidence            4589999999999999999999999876554

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.67  E-value=0.00096  Score=62.68  Aligned_cols=34  Identities=26%  Similarity=0.332  Sum_probs=28.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS  157 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~  157 (396)
                      .-|+|.||+|+|||++|+.+|..++..+++.|.-
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~~~iis~Ds~   41 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFNGEIISGDSM   41 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTEEEEECCSS
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcCCceeccccc
Confidence            4588999999999999999999999776666543

>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=96.67  E-value=0.0007  Score=62.54  Aligned_cols=30  Identities=37%  Similarity=0.533  Sum_probs=24.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc-CCcEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES-GAVFIN  153 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~-~~~~~~  153 (396)
                      .-|+|.|+||+||||+++.++..+ +..++.
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~~~~~~~i~   33 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAKNPGFYNIN   33 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHSTTEEEEC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhCCCcEEec
Confidence            458999999999999999999874 655443

>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=96.65  E-value=0.0016  Score=63.26  Aligned_cols=31  Identities=29%  Similarity=0.457  Sum_probs=26.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      +.-|+|.|+||+||||+|+.++..++..++.
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~~~~~~~i~  288 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLVSAGYVHVN  288 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTGGGTCEECC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhcCcEEEc
Confidence            4568899999999999999999998865544

>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=96.65  E-value=0.00086  Score=57.88  Aligned_cols=35  Identities=26%  Similarity=0.345  Sum_probs=28.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN  158 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~  158 (396)
                      .++++|.||+|+|||++|..++...+ .++..+...
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g~-~iIsdDs~~   68 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRGH-RLIADDRVD   68 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTTC-EEEESSEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhCC-eEEecchhh
Confidence            47899999999999999999998866 666655433

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.62  E-value=0.0013  Score=56.94  Aligned_cols=26  Identities=31%  Similarity=0.488  Sum_probs=22.8

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ++.-+.|.||+|+||||+++.++...
T Consensus         5 ~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            5 KGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            34568999999999999999999876

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.62  E-value=0.0013  Score=55.84  Aligned_cols=25  Identities=20%  Similarity=0.470  Sum_probs=22.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      .-+.|.||+|+||||+++.++....
T Consensus         6 ~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            6 KTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhCC
Confidence            5688999999999999999998754

>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=96.61  E-value=0.0012  Score=63.23  Aligned_cols=34  Identities=26%  Similarity=0.416  Sum_probs=29.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEec
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI  156 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~  156 (396)
                      +.-++|.||+|+|||+++..+|..++..+++.+.
T Consensus         2 ~~~i~i~GptgsGKttla~~La~~~~~~iis~Ds   35 (409)
T 3eph_A            2 KKVIVIAGTTGVGKSQLSIQLAQKFNGEVINSDS   35 (409)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHHHHTEEEEECCT
T ss_pred             CcEEEEECcchhhHHHHHHHHHHHCCCeEeecCc
Confidence            3567899999999999999999999887776654

>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=96.61  E-value=0.02  Score=56.95  Aligned_cols=37  Identities=8%  Similarity=0.003  Sum_probs=29.3

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEec
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVRI  156 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~  156 (396)
                      +.+..-++|.|+||+|||+++..+|...    |.+++.++.
T Consensus       239 l~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~  279 (503)
T 1q57_A          239 ARGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAML  279 (503)
T ss_dssp             CCTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEES
T ss_pred             cCCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEec
Confidence            5666778999999999999999998754    456666664

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.60  E-value=0.0013  Score=57.40  Aligned_cols=26  Identities=31%  Similarity=0.512  Sum_probs=23.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +.-+.|.||+|+||||+++.++..+.
T Consensus         8 g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            8 GLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            45688999999999999999998764

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=96.58  E-value=0.034  Score=52.12  Aligned_cols=37  Identities=16%  Similarity=0.166  Sum_probs=28.9

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEec
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRI  156 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~  156 (396)
                      +.+..-++|.|+||+|||+++..+|..   .+.++..++.
T Consensus        43 l~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fSl   82 (338)
T 4a1f_A           43 FNKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFSL   82 (338)
T ss_dssp             BCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEES
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            566677899999999999999999775   3566655554

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.58  E-value=0.0017  Score=55.52  Aligned_cols=25  Identities=28%  Similarity=0.481  Sum_probs=21.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCC
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      -+.|.||+|+||||+++.++...+.
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~~~~g   28 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAAQLDN   28 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcccCC
Confidence            4789999999999999999986543

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=96.55  E-value=0.013  Score=54.12  Aligned_cols=36  Identities=25%  Similarity=0.332  Sum_probs=27.8

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEecc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVRIS  157 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~~  157 (396)
                      ++..++|.||+|+||||++..+|..+    |..+..+++.
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D  143 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTD  143 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecC
Confidence            35678999999999999999998643    5566666554

>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A

Probab=96.51  E-value=0.013  Score=60.22  Aligned_cols=51  Identities=25%  Similarity=0.262  Sum_probs=32.2

Q ss_pred             cChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEecc
Q 016044           91 GGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRIS  157 (396)
Q Consensus        91 ~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~~  157 (396)
                      .-++.+++++...+..                ..-.|++||||||||+++-.+...   .+..++.+..+
T Consensus       189 ~LN~~Q~~AV~~al~~----------------~~~~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a~T  242 (646)
T 4b3f_X          189 CLDTSQKEAVLFALSQ----------------KELAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPS  242 (646)
T ss_dssp             TCCHHHHHHHHHHHHC----------------SSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             CCCHHHHHHHHHHhcC----------------CCceEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEcCc
Confidence            3467788888665431                134689999999999765544432   25555555443

>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=96.48  E-value=0.018  Score=49.43  Aligned_cols=17  Identities=35%  Similarity=0.436  Sum_probs=15.1

Q ss_pred             ceEEEECCCCCcHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLA  140 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la  140 (396)
                      +.+++.+|+|+|||..+
T Consensus        39 ~~~li~~~TGsGKT~~~   55 (207)
T 2gxq_A           39 KDLIGQARTGTGKTLAF   55 (207)
T ss_dssp             CCEEEECCTTSCHHHHH
T ss_pred             CCEEEECCCCChHHHHH
Confidence            57999999999999864

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.47  E-value=0.0018  Score=55.85  Aligned_cols=26  Identities=31%  Similarity=0.517  Sum_probs=22.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +.-+.|.||+|+||||+++.++....
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~~   32 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKALA   32 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            35578999999999999999998753

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=96.46  E-value=0.0015  Score=61.48  Aligned_cols=71  Identities=23%  Similarity=0.325  Sum_probs=43.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC--CcEEEEecccccc-----h---hhchHHHHHHHHHHHHHHhCCcEEEEcccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG--AVFINVRISNLMS-----K---WFGDAQKLVAAVFSLAYKLQPAIIFIDEVD  192 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~--~~~~~i~~~~l~~-----~---~~g~~~~~~~~~f~~a~~~~p~vl~iDEid  192 (396)
                      ...+++.||+|+||||++++++....  ...+.++......     .   ++.+.....+..+..+....|.+|++||.-
T Consensus       171 g~~v~i~G~~GsGKTTll~~l~g~~~~~~g~i~i~~~~e~~~~~~~~~i~~~~ggg~~~r~~la~aL~~~p~ilildE~~  250 (330)
T 2pt7_A          171 GKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMRPDRIILGELR  250 (330)
T ss_dssp             TCCEEEEESTTSCHHHHHHHGGGGSCTTSCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTSCCSEEEECCCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcCCCcEEEECCeeccccccchhEEEEEeCCChhHHHHHHHHhhhCCCEEEEcCCC
Confidence            35689999999999999999998653  2234444321110     0   110011123334455556789999999975


Q ss_pred             c
Q 016044          193 S  193 (396)
Q Consensus       193 ~  193 (396)
                      .
T Consensus       251 ~  251 (330)
T 2pt7_A          251 S  251 (330)
T ss_dssp             S
T ss_pred             h
Confidence            4

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=96.40  E-value=0.0022  Score=55.75  Aligned_cols=30  Identities=17%  Similarity=0.188  Sum_probs=27.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      .-|.|.|++|||||++++.+|..+|.+|+.
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg~~~~D   36 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYNIPLYS   36 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTTCCEEC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhCcCEEC
Confidence            358899999999999999999999999874

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.40  E-value=0.0019  Score=56.16  Aligned_cols=26  Identities=35%  Similarity=0.436  Sum_probs=23.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +.-+.|.||+|+||||+++.++..++
T Consensus         6 ~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            6 PFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            45578999999999999999999877

>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=96.39  E-value=0.0068  Score=61.58  Aligned_cols=36  Identities=28%  Similarity=0.288  Sum_probs=31.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEeccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISN  158 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~  158 (396)
                      +..|+|.|.||+||||++++++..+   |.+++.++...
T Consensus        52 g~lIvLtGlsGSGKSTlAr~La~~L~~~G~~~v~lDgD~   90 (630)
T 1x6v_B           52 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLDGDN   90 (630)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEESHHH
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEechHH
Confidence            4568999999999999999999998   99998887543

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.38  E-value=0.0018  Score=55.99  Aligned_cols=26  Identities=38%  Similarity=0.668  Sum_probs=22.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      ++.+.|.||+|+||||+++.++....
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~~   29 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEHS   29 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            45689999999999999999988653

>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=96.37  E-value=0.015  Score=50.11  Aligned_cols=23  Identities=43%  Similarity=0.673  Sum_probs=19.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      +.+++.+|+|+|||.++-..+..
T Consensus        49 ~~~li~~~tGsGKT~~~~~~~~~   71 (216)
T 3b6e_A           49 KNIIICLPTGSGKTRVAVYIAKD   71 (216)
T ss_dssp             CCEEEECSCHHHHHHHHHHHHHH
T ss_pred             CCEEEEcCCCCCHHHHHHHHHHH
Confidence            56999999999999988777654

>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=96.33  E-value=0.022  Score=50.44  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=17.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIA  144 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala  144 (396)
                      ...+++.||+|||||++...+.
T Consensus        76 g~~~~i~g~TGsGKTt~~~~~~   97 (235)
T 3llm_A           76 NSVVIIRGATGCGKTTQVPQFI   97 (235)
T ss_dssp             CSEEEEECCTTSSHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCcHHhHHHHH
Confidence            3679999999999998766554

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=96.33  E-value=0.092  Score=51.66  Aligned_cols=27  Identities=26%  Similarity=0.330  Sum_probs=22.9

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..+.-++|.||+|+||||+++.|+..+
T Consensus       291 ~~GeVI~LVGpNGSGKTTLl~~LAgll  317 (503)
T 2yhs_A          291 KAPFVILMVGVNGVGKTTTIGKLARQF  317 (503)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHHh
Confidence            345668899999999999999999854

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.32  E-value=0.0042  Score=53.70  Aligned_cols=36  Identities=19%  Similarity=0.262  Sum_probs=27.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEeccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISN  158 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~  158 (396)
                      +.-+.|.|++|+||||+++.++..+   +..++..+...
T Consensus        22 ~~~i~i~G~~GsGKstl~~~l~~~~~~~~~~v~~~~~d~   60 (201)
T 1rz3_A           22 RLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHMDD   60 (201)
T ss_dssp             SEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEGGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhcCCeEEEeccCc
Confidence            4568899999999999999999865   55565554433

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.30  E-value=0.0023  Score=55.72  Aligned_cols=26  Identities=35%  Similarity=0.584  Sum_probs=22.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +.-+.|.||+|+||||+++.++..+.
T Consensus        22 g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           22 RQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            45678999999999999999998764

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=96.26  E-value=0.0038  Score=53.99  Aligned_cols=26  Identities=23%  Similarity=0.542  Sum_probs=22.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      ++-+.|.||+|+|||||+++++....
T Consensus        19 g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           19 RKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            45688999999999999999998764

>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=96.24  E-value=0.0079  Score=60.07  Aligned_cols=36  Identities=17%  Similarity=0.302  Sum_probs=27.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC---CcEEEEeccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG---AVFINVRISN  158 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~---~~~~~i~~~~  158 (396)
                      +.-|+|.|.||+||||+++.++..++   .....++..+
T Consensus        35 ~~lIvlvGlpGSGKSTia~~La~~L~~~~~d~~v~s~D~   73 (520)
T 2axn_A           35 PTVIVMVGLPARGKTYISKKLTRYLNWIGVPTKVFNVGE   73 (520)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhhcCCCeEEecccH
Confidence            45688999999999999999999874   4444455443

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=96.21  E-value=0.003  Score=55.96  Aligned_cols=30  Identities=33%  Similarity=0.514  Sum_probs=26.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      .+-|.||||+||||+|+.++..++.++++.
T Consensus        10 ~~~~~G~pGsGKsT~a~~L~~~~g~~~is~   39 (230)
T 3gmt_A           10 RLILLGAPGAGKGTQANFIKEKFGIPQIST   39 (230)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHTCCEECH
T ss_pred             ceeeECCCCCCHHHHHHHHHHHhCCCeeec
Confidence            467899999999999999999999877654

>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*

Probab=96.21  E-value=0.015  Score=61.00  Aligned_cols=60  Identities=17%  Similarity=0.098  Sum_probs=38.5

Q ss_pred             CcccccccChHHHHHHHHHHHHccccC--hhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHH
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRR--PELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~--~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..+|+++.-.+...+.+.+.-..|...  ..+...   +.....+++.||+|+|||+++..++..
T Consensus        71 ~~~f~~~~l~~~~~~~l~~r~~lP~~~q~~~i~~~---l~~~~~vii~gpTGSGKTtllp~ll~~  132 (773)
T 2xau_A           71 INPFTGREFTPKYVDILKIRRELPVHAQRDEFLKL---YQNNQIMVFVGETGSGKTTQIPQFVLF  132 (773)
T ss_dssp             BCTTTCSBCCHHHHHHHHHHTTSGGGGGHHHHHHH---HHHCSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCccccCCCHHHHHHHHHhhcCChHHHHHHHHHH---HhCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            356888877777777776655444321  111111   112356999999999999977777543

>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=96.19  E-value=0.017  Score=54.16  Aligned_cols=59  Identities=14%  Similarity=0.128  Sum_probs=34.2

Q ss_pred             cccccccChHHHHHHHHHHHHccccCh--hhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHH
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRP--ELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~--~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~  145 (396)
                      .+|+++.-.+.+.+.+.+.-...+..-  +.+..  .....+.+++.+|+|+|||..+-..+.
T Consensus         6 ~~f~~~~l~~~~~~~l~~~g~~~~~~~Q~~~i~~--~~~~~~~~l~~~~TGsGKT~~~~~~~~   66 (367)
T 1hv8_A            6 MNFNELNLSDNILNAIRNKGFEKPTDIQMKVIPL--FLNDEYNIVAQARTGSGKTASFAIPLI   66 (367)
T ss_dssp             CCGGGSSCCHHHHHHHHHHTCCSCCHHHHHHHHH--HHHTCSEEEEECCSSSSHHHHHHHHHH
T ss_pred             CchhhcCCCHHHHHHHHHcCCCCCCHHHHHHHHH--HhCCCCCEEEECCCCChHHHHHHHHHH
Confidence            468887777777777766432111100  01110  011136899999999999987655443

>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=96.17  E-value=0.032  Score=55.79  Aligned_cols=24  Identities=33%  Similarity=0.541  Sum_probs=20.5

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHH
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAI  143 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~al  143 (396)
                      +.+...++|.||+|||||||++.+
T Consensus        36 i~~Ge~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           36 LPIGRSTLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHH
T ss_pred             CCCCeEEEEEcCCCCCHHHHHHHH
Confidence            445567899999999999999994

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=96.17  E-value=0.018  Score=53.88  Aligned_cols=26  Identities=23%  Similarity=0.245  Sum_probs=22.6

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ++.-+.|.||+|+||||+++.++..+
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~l  153 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANWL  153 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            45668899999999999999999854

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.13  E-value=0.0032  Score=55.36  Aligned_cols=26  Identities=31%  Similarity=0.487  Sum_probs=22.8

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ++.-+.|.||+|+||||+++.++...
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34568899999999999999999876

>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=96.13  E-value=0.016  Score=61.58  Aligned_cols=23  Identities=26%  Similarity=0.445  Sum_probs=19.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..-+.|.||.|+||||+.|.++.
T Consensus       673 g~i~~ItGPNGaGKSTlLr~i~~  695 (918)
T 3thx_B          673 ERVMIITGPNMGGKSSYIKQVAL  695 (918)
T ss_dssp             CCEEEEESCCCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCchHHHHHHHHH
Confidence            34588999999999999999874

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.12  E-value=0.004  Score=51.84  Aligned_cols=26  Identities=31%  Similarity=0.387  Sum_probs=22.8

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +..-+.|.||.|+||||+++.++..+
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            34568899999999999999999976

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=96.10  E-value=0.0036  Score=54.44  Aligned_cols=26  Identities=23%  Similarity=0.475  Sum_probs=22.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      ..-+.|.||+|+||||+++.++....
T Consensus        20 Gei~~l~GpnGsGKSTLl~~l~gl~~   45 (207)
T 1znw_A           20 GRVVVLSGPSAVGKSTVVRCLRERIP   45 (207)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            45688999999999999999998764

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=96.09  E-value=0.02  Score=55.67  Aligned_cols=72  Identities=19%  Similarity=0.177  Sum_probs=46.0

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEecccccchhhc--------------------hHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVRISNLMSKWFG--------------------DAQKLVAAVFSL  177 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~~~l~~~~~g--------------------~~~~~~~~~f~~  177 (396)
                      +++.+++.|++|+||||++-.+|..+    |..+..+++.........                    .....+...+..
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~~r~~a~~ql~~~~~~~~l~v~~~~~~~dp~~i~~~~l~~  178 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALKE  178 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCCSSTTHHHHHHHHHHHHTCEECCCCSSSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCCCCccHHHHHHhhcccCCeeEEeCCCCCCHHHHHHHHHHH
Confidence            46778899999999999999998644    677777776543221100                    112223444555


Q ss_pred             HHHhCCcEEEEccccc
Q 016044          178 AYKLQPAIIFIDEVDS  193 (396)
Q Consensus       178 a~~~~p~vl~iDEid~  193 (396)
                      +......+++||=...
T Consensus       179 ~~~~~~D~VIIDTpG~  194 (433)
T 2xxa_A          179 AKLKFYDVLLVDTAGR  194 (433)
T ss_dssp             HHHTTCSEEEEECCCC
T ss_pred             HHhCCCCEEEEECCCc
Confidence            5544568999987543

>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=96.08  E-value=0.009  Score=57.90  Aligned_cols=50  Identities=24%  Similarity=0.367  Sum_probs=34.3

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      ..++++++-....+..+...+               ..+...+++.||+|+||||++++++....
T Consensus       143 ~~~l~~Lg~~~~~~~~L~~l~---------------~~~ggii~I~GpnGSGKTTlL~allg~l~  192 (418)
T 1p9r_A          143 RLDLHSLGMTAHNHDNFRRLI---------------KRPHGIILVTGPTGSGKSTTLYAGLQELN  192 (418)
T ss_dssp             CCCGGGSCCCHHHHHHHHHHH---------------TSSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             CCCHHHcCCCHHHHHHHHHHH---------------HhcCCeEEEECCCCCCHHHHHHHHHhhcC
Confidence            456777765555555554432               11224578999999999999999998764

>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=96.07  E-value=0.043  Score=47.74  Aligned_cols=53  Identities=17%  Similarity=0.127  Sum_probs=32.6

Q ss_pred             CcccccccChHHHHHHHHHHHHcccc-C-hhhhhcCCCCCCCceEEEECCCCCcHHHH
Q 016044           84 DVEFESIGGLETIKQALYELVILPLR-R-PELFSHGKLLGPQKGVLLYGPPGTGKTML  139 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~-~-~~~~~~~~~~~~~~~vLL~GppGtGKT~l  139 (396)
                      ..+|+++.-.+.+.+.+.+.-...+. . .+.+..   +...+.+++.+|+|+|||..
T Consensus        13 ~~~f~~l~l~~~l~~~l~~~g~~~~~~~Q~~~i~~---~~~~~~~lv~~pTGsGKT~~   67 (224)
T 1qde_A           13 VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMP---IIEGHDVLAQAQSGTGKTGT   67 (224)
T ss_dssp             CCCGGGGTCCHHHHHHHHHHTCCSCCHHHHHHHHH---HHTTCCEEEECCTTSSHHHH
T ss_pred             cCChhhcCCCHHHHHHHHHCCCCCCcHHHHHHHHH---HhcCCCEEEECCCCCcHHHH
Confidence            46799988788888888664211110 0 011111   11236799999999999976

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.02  E-value=0.0034  Score=62.54  Aligned_cols=70  Identities=19%  Similarity=0.249  Sum_probs=41.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC--CcEEEEeccc-ccch-----------hhchHHHHHHHHHHHHHHhCCcEEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG--AVFINVRISN-LMSK-----------WFGDAQKLVAAVFSLAYKLQPAIIFI  188 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~--~~~~~i~~~~-l~~~-----------~~g~~~~~~~~~f~~a~~~~p~vl~i  188 (396)
                      +.++++.||+|+||||++++++....  ...+.+.... +...           ..+.....+......+....|.++++
T Consensus       260 g~~i~I~GptGSGKTTlL~aL~~~i~~~~giitied~~E~~~~~~~~v~~~~r~~~~~~~~~~~~~l~~~LR~~PD~iiv  339 (511)
T 2oap_1          260 KFSAIVVGETASGKTTTLNAIMMFIPPDAKVVSIEDTREIKLYHENWIAEVTRTGMGEGEIDMYDLLRAALRQRPDYIIV  339 (511)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCCCSSEEEEECBCCSSSCCBCHHHHHHTTGGGCCSEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCCCCCCEEEEcCcccccCCCCCeEEEEeecccccCCcCHHHHHHHhhccCCCeEEe
Confidence            45699999999999999999988663  2344444322 1100           00000011222333444568999999


Q ss_pred             cccc
Q 016044          189 DEVD  192 (396)
Q Consensus       189 DEid  192 (396)
                      .|+-
T Consensus       340 gEir  343 (511)
T 2oap_1          340 GEVR  343 (511)
T ss_dssp             SCCC
T ss_pred             CCcC
Confidence            9974

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=96.01  E-value=0.025  Score=52.07  Aligned_cols=73  Identities=19%  Similarity=0.162  Sum_probs=44.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch-------h--------h-----chHHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK-------W--------F-----GDAQKLVAAVFSLA  178 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~-------~--------~-----g~~~~~~~~~f~~a  178 (396)
                      ++..+.+.|++|+||||++..+|..+   +..+..+++.-....       +        .     .......+..+..+
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l~~~  176 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKA  176 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            45668889999999999999998754   455555554211100       0        0     01112223445555


Q ss_pred             HHhCCcEEEEcccccc
Q 016044          179 YKLQPAIIFIDEVDSF  194 (396)
Q Consensus       179 ~~~~p~vl~iDEid~l  194 (396)
                      ....+.+++||+--.+
T Consensus       177 ~~~~~D~viiDtpp~~  192 (295)
T 1ls1_A          177 RLEARDLILVDTAGRL  192 (295)
T ss_dssp             HHHTCCEEEEECCCCS
T ss_pred             HhCCCCEEEEeCCCCc
Confidence            4457799999996443

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=95.99  E-value=0.018  Score=57.03  Aligned_cols=35  Identities=23%  Similarity=0.219  Sum_probs=27.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      .+..|+|.|++|+||||++..+|..+   |..+..+++
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~  137 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICA  137 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEec
Confidence            35678999999999999999998754   566666665

>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=0.005  Score=54.56  Aligned_cols=31  Identities=23%  Similarity=0.263  Sum_probs=25.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC--CcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG--AVFIN  153 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~--~~~~~  153 (396)
                      +.-+.|.||+|+||||+++.++..++  ..++.
T Consensus        26 g~~i~i~G~~GsGKsT~~~~l~~~l~~~~~~~~   58 (229)
T 4eaq_A           26 SAFITFEGPEGSGKTTVINEVYHRLVKDYDVIM   58 (229)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHTTTSCEEE
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhcCCCcee
Confidence            45688999999999999999999886  34443

>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=95.97  E-value=0.0045  Score=54.49  Aligned_cols=28  Identities=25%  Similarity=0.389  Sum_probs=23.5

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      .+..-+.|.||+|+|||||++.++....
T Consensus        14 ~~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           14 AQGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            3456688999999999999999998764

>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=95.97  E-value=0.1  Score=45.25  Aligned_cols=58  Identities=17%  Similarity=0.074  Sum_probs=34.3

Q ss_pred             cccccccChHHHHHHHHHHHHc-cccCh-hhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHH
Q 016044           85 VEFESIGGLETIKQALYELVIL-PLRRP-ELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~-~l~~~-~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~  145 (396)
                      .+|+++.-.+.+.+.+.+.-.. |.... +.+..   +...+.+++.+|+|+|||..+-..+-
T Consensus        14 ~~f~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~---~~~~~~~li~~~TGsGKT~~~~~~~~   73 (220)
T 1t6n_A           14 SGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQ---AILGMDVLCQAKSGMGKTAVFVLATL   73 (220)
T ss_dssp             CCSTTSCCCHHHHHHHHHTTCCCCCHHHHHHHHH---HHTTCCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHH---HhCCCCEEEECCCCCchhhhhhHHHH
Confidence            4688887777888887663211 11110 11111   11135699999999999987655443

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.95  E-value=0.012  Score=54.54  Aligned_cols=27  Identities=22%  Similarity=0.279  Sum_probs=23.1

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .++.-+.|.||+|+||||+++.+|..+
T Consensus        98 ~~g~vi~lvG~nGsGKTTll~~Lag~l  124 (302)
T 3b9q_A           98 RKPAVIMIVGVNGGGKTTSLGKLAHRL  124 (302)
T ss_dssp             SSCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            345668899999999999999999864

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=95.95  E-value=0.03  Score=52.18  Aligned_cols=36  Identities=25%  Similarity=0.217  Sum_probs=27.8

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      .++.-+++.||+|+||||++..+|..+   +..+..+++
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid~  141 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAA  141 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeC
Confidence            345678999999999999999998754   555555554

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=95.94  E-value=0.032  Score=55.75  Aligned_cols=77  Identities=19%  Similarity=0.207  Sum_probs=48.5

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch----------------------h----h--chHH
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK----------------------W----F--GDAQ  168 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~----------------------~----~--g~~~  168 (396)
                      +.+..-++|.||+|+|||+|++.++...   |...+.+...+-...                      .    .  -...
T Consensus       278 i~~G~i~~i~G~~GsGKSTLl~~l~g~~~~~G~~vi~~~~ee~~~~l~~~~~~~g~~~~~~~~~g~~~~~~~~p~~LS~g  357 (525)
T 1tf7_A          278 FFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAYEESRAQLLRNAYSWGMDFEEMERQNLLKIVCAYPESAGLE  357 (525)
T ss_dssp             EESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESSSCHHHHHHHHHTTSCCHHHHHHTTSEEECCCCGGGSCHH
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEEEEeCCHHHHHHHHHHcCCCHHHHHhCCCEEEEEeccccCCHH
Confidence            4455678999999999999999998743   444444433211000                      0    0  0223


Q ss_pred             HHHHHHHHHHHHhCCcEEEEcccccccc
Q 016044          169 KLVAAVFSLAYKLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       169 ~~~~~~f~~a~~~~p~vl~iDEid~l~~  196 (396)
                      ...+.++..+...+|.+|+||=+..+..
T Consensus       358 ~~q~~~~a~~l~~~p~llilDp~~~Ld~  385 (525)
T 1tf7_A          358 DHLQIIKSEINDFKPARIAIDSLSALAR  385 (525)
T ss_dssp             HHHHHHHHHHHTTCCSEEEEECHHHHTS
T ss_pred             HHHHHHHHHHHhhCCCEEEEcChHHHHh
Confidence            4445556666677899999996666643

>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=95.93  E-value=0.0042  Score=52.78  Aligned_cols=32  Identities=22%  Similarity=0.373  Sum_probs=27.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISN  158 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~  158 (396)
                      ++++|++|+|||++|..++.. +.+.+++....
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~-~~~~~yiaT~~   33 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD-APQVLYIATSQ   33 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS-CSSEEEEECCC
T ss_pred             EEEECCCCCcHHHHHHHHHhc-CCCeEEEecCC
Confidence            689999999999999999988 87877776544

>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=95.93  E-value=0.021  Score=52.68  Aligned_cols=72  Identities=21%  Similarity=0.102  Sum_probs=44.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch-------h------------h-chHHHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK-------W------------F-GDAQKLVAAVFSLAY  179 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~-------~------------~-g~~~~~~~~~f~~a~  179 (396)
                      +.-+++.|++|+||||++..+|..+   +..+..+++......       +            . ......+...+..++
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~~~~  177 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEKFL  177 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHHHHH
Confidence            5567889999999999999998754   556666655422110       0            0 012223334445554


Q ss_pred             HhCCcEEEEcccccc
Q 016044          180 KLQPAIIFIDEVDSF  194 (396)
Q Consensus       180 ~~~p~vl~iDEid~l  194 (396)
                      .....+++||=...+
T Consensus       178 ~~~~D~ViIDTpg~~  192 (297)
T 1j8m_F          178 SEKMEIIIVDTAGRH  192 (297)
T ss_dssp             HTTCSEEEEECCCSC
T ss_pred             hCCCCEEEEeCCCCc
Confidence            456689999985443

>1w4r_A Thymidine kinase; type II, human, cytosolic, phosphorylation, transferase; HET: TTP; 1.83A {Homo sapiens} PDB: 1xbt_A* 2wvj_A* 2j87_A*

Probab=95.92  E-value=0.0064  Score=52.25  Aligned_cols=33  Identities=15%  Similarity=0.257  Sum_probs=25.3

Q ss_pred             ceEEEECCCCCcHH-HHHHHHHHH--cCCcEEEEec
Q 016044          124 KGVLLYGPPGTGKT-MLAKAIAKE--SGAVFINVRI  156 (396)
Q Consensus       124 ~~vLL~GppGtGKT-~la~ala~~--~~~~~~~i~~  156 (396)
                      .-.++|||.|+||| .|.+++.+.  .+..++.+.+
T Consensus        21 ~l~fiyG~MgsGKTt~Ll~~i~n~~~~~~kvl~~kp   56 (195)
T 1w4r_A           21 QIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKY   56 (195)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEcc
Confidence            44688999999999 888888663  4667777664

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=95.90  E-value=0.0019  Score=56.11  Aligned_cols=24  Identities=21%  Similarity=0.304  Sum_probs=21.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcC
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      -|.|.|++|+||||+++.++..++
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~   25 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFR   25 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHH
Confidence            378999999999999999999874

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=95.88  E-value=0.0053  Score=54.21  Aligned_cols=30  Identities=23%  Similarity=0.356  Sum_probs=27.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      .-|.+.|++|||||++++.+|..+|.+|+.
T Consensus        15 ~iI~i~g~~gsGk~~i~~~la~~lg~~~~d   44 (223)
T 3hdt_A           15 LIITIEREYGSGGRIVGKKLAEELGIHFYD   44 (223)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHTCEEEC
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHcCCcEEc
Confidence            457889999999999999999999998865

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.86  E-value=0.0055  Score=54.75  Aligned_cols=28  Identities=18%  Similarity=0.185  Sum_probs=23.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAV  150 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~  150 (396)
                      +.-+-|.||+|+||||+++.++..+|..
T Consensus        25 g~iigI~G~~GsGKSTl~k~L~~~lG~~   52 (245)
T 2jeo_A           25 PFLIGVSGGTASGKSTVCEKIMELLGQN   52 (245)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHTGG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhchh
Confidence            3457899999999999999999987754

>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=95.84  E-value=0.03  Score=59.65  Aligned_cols=22  Identities=18%  Similarity=0.220  Sum_probs=19.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      .-++|.||.|+||||+.|.++.
T Consensus       663 ~i~~ItGpNGsGKSTlLr~ial  684 (934)
T 3thx_A          663 MFHIITGPNMGGKSTYIRQTGV  684 (934)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3478999999999999999843

>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=95.82  E-value=0.0057  Score=56.65  Aligned_cols=29  Identities=31%  Similarity=0.606  Sum_probs=24.7

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +.+...+.|+||+|+|||||++.|+....
T Consensus       123 i~~Ge~vaIvGpsGsGKSTLl~lL~gl~~  151 (305)
T 2v9p_A          123 IPKKNCLAFIGPPNTGKSMLCNSLIHFLG  151 (305)
T ss_dssp             CTTCSEEEEECSSSSSHHHHHHHHHHHHT
T ss_pred             ecCCCEEEEECCCCCcHHHHHHHHhhhcC
Confidence            44556789999999999999999998763

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=95.81  E-value=0.0074  Score=50.77  Aligned_cols=29  Identities=31%  Similarity=0.555  Sum_probs=24.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFI  152 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~  152 (396)
                      ..+++|.|++|+|||++|.++... |..++
T Consensus        16 G~gvli~G~SGaGKStlal~L~~r-G~~lv   44 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALIDR-GHQLV   44 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHHT-TCEEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc-CCeEe
Confidence            479999999999999999999874 54443

>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=95.79  E-value=0.027  Score=55.09  Aligned_cols=23  Identities=30%  Similarity=0.575  Sum_probs=20.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..++|+||+|+|||+|+..++..
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~  174 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHN  174 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCccHHHHHHHhh
Confidence            45899999999999999988764

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.79  E-value=0.0044  Score=57.06  Aligned_cols=37  Identities=8%  Similarity=0.149  Sum_probs=25.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC---CcEEEEeccccc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESG---AVFINVRISNLM  160 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~---~~~~~i~~~~l~  160 (396)
                      .-|.|.||+|+||||+++.++..++   ..+..++..++.
T Consensus         6 ~iIgItG~sGSGKSTva~~L~~~lg~~~~~~~vI~~D~~~   45 (290)
T 1a7j_A            6 PIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAFH   45 (290)
T ss_dssp             CEEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGGB
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhhcCCCeeEeecchhh
Confidence            4578999999999999999998765   445556665554

>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=95.76  E-value=0.069  Score=51.68  Aligned_cols=35  Identities=29%  Similarity=0.232  Sum_probs=27.4

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      ++..+++.|++|+||||++..+|..+   +..+..+++
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~  134 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAA  134 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeec
Confidence            45678889999999999999998854   455555555

>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=95.61  E-value=0.041  Score=51.98  Aligned_cols=33  Identities=24%  Similarity=0.334  Sum_probs=25.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEe
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVR  155 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~  155 (396)
                      ...|.|.|+||+||||++.+++..+   |..+..++
T Consensus        79 ~~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi~  114 (355)
T 3p32_A           79 AHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLA  114 (355)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEEe
Confidence            4568999999999999999998764   44444443

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=95.60  E-value=0.007  Score=51.97  Aligned_cols=23  Identities=43%  Similarity=0.683  Sum_probs=20.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .+.|.||+|+||||+++.++..+
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~   25 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhc
Confidence            47899999999999999999865

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.59  E-value=0.018  Score=54.63  Aligned_cols=27  Identities=22%  Similarity=0.279  Sum_probs=23.2

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .++.-+.|.||+|+||||+++.+|..+
T Consensus       155 ~~g~vi~lvG~nGsGKTTll~~Lag~l  181 (359)
T 2og2_A          155 RKPAVIMIVGVNGGGKTTSLGKLAHRL  181 (359)
T ss_dssp             SSSEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHhhc
Confidence            345668899999999999999999864

>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=95.56  E-value=0.015  Score=57.35  Aligned_cols=26  Identities=23%  Similarity=0.447  Sum_probs=23.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +..|+|.|.||+||||+++.++..++
T Consensus        39 ~~~IvlvGlpGsGKSTia~~La~~l~   64 (469)
T 1bif_A           39 PTLIVMVGLPARGKTYISKKLTRYLN   64 (469)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            45689999999999999999998764

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=95.54  E-value=0.005  Score=54.39  Aligned_cols=25  Identities=32%  Similarity=0.480  Sum_probs=16.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHH-HHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIA-KES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala-~~~  147 (396)
                      +.-+.|.||+|+||||+++.++ ...
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            4568899999999999999999 765

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.52  E-value=0.023  Score=52.88  Aligned_cols=26  Identities=12%  Similarity=0.118  Sum_probs=22.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +.-+.|.||+||||||+++.++..++
T Consensus        92 p~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           92 PYIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            44678999999999999999998764

>4i1u_A Dephospho-COA kinase; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.05A {Burkholderia vietnamiensis} PDB: 4i1v_A*

Probab=95.46  E-value=0.0088  Score=52.16  Aligned_cols=31  Identities=32%  Similarity=0.460  Sum_probs=26.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      -.|-|+|..||||||+++.++. +|.+++..|
T Consensus        10 ~~iglTGgigsGKStv~~~l~~-~g~~vidaD   40 (210)
T 4i1u_A           10 YAIGLTGGIGSGKTTVADLFAA-RGASLVDTD   40 (210)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH-TTCEEEEHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH-CCCcEEECc
Confidence            4588999999999999999988 898876554

>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=95.46  E-value=0.0083  Score=55.66  Aligned_cols=26  Identities=15%  Similarity=0.166  Sum_probs=22.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +.-+.|.||+|+||||+++.++..++
T Consensus        80 g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           80 PYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            45578999999999999999998765

>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=95.45  E-value=0.0095  Score=55.40  Aligned_cols=27  Identities=15%  Similarity=0.058  Sum_probs=22.8

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .++.-+.|.||+|+||||+++.|+..+
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll  114 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALL  114 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhc
Confidence            344567899999999999999999865

>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=95.44  E-value=0.0091  Score=54.87  Aligned_cols=36  Identities=14%  Similarity=0.110  Sum_probs=27.1

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEe
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVR  155 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~  155 (396)
                      +.+..-++|.||||+|||++++.++...    |.+++.++
T Consensus        32 l~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~   71 (296)
T 1cr0_A           32 ARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAM   71 (296)
T ss_dssp             BCTTCEEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEE
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEe
Confidence            4455678999999999999999998753    43454444

>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=95.42  E-value=0.0086  Score=60.48  Aligned_cols=36  Identities=17%  Similarity=0.123  Sum_probs=29.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC----CcEEEEeccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG----AVFINVRISN  158 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~----~~~~~i~~~~  158 (396)
                      +..|+|.|+||+||||+|++++..++    .+++.++...
T Consensus       396 ~~~I~l~GlsGSGKSTiA~~La~~L~~~G~~~~~~lD~D~  435 (573)
T 1m8p_A          396 GFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLLGDT  435 (573)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEEHHH
T ss_pred             ceEEEeecCCCCCHHHHHHHHHHHhcccCCceEEEECcHH
Confidence            35688999999999999999999875    6777777543

>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=95.42  E-value=0.0097  Score=54.75  Aligned_cols=26  Identities=23%  Similarity=0.355  Sum_probs=22.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +.-|.|.||+||||||+++.++..++
T Consensus        31 ~~ii~I~G~sGsGKSTla~~L~~~l~   56 (290)
T 1odf_A           31 PLFIFFSGPQGSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhh
Confidence            45678999999999999999998764

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.41  E-value=0.012  Score=52.40  Aligned_cols=26  Identities=19%  Similarity=0.293  Sum_probs=23.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +.-|.|.|++|+||||+++.++..++
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            35689999999999999999999984

>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=95.41  E-value=0.0097  Score=55.12  Aligned_cols=25  Identities=28%  Similarity=0.364  Sum_probs=22.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +.-+.|.||+||||||+++.++..+
T Consensus       102 g~vi~lvG~nGsGKTTll~~Lagll  126 (304)
T 1rj9_A          102 GRVVLVVGVNGVGKTTTIAKLGRYY  126 (304)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHH
Confidence            4568899999999999999999854

>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=95.40  E-value=0.0072  Score=53.77  Aligned_cols=26  Identities=27%  Similarity=0.422  Sum_probs=22.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +..-+.|.||+|+|||||++.++...
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            34568899999999999999998754

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=95.40  E-value=0.049  Score=47.90  Aligned_cols=54  Identities=19%  Similarity=0.092  Sum_probs=31.9

Q ss_pred             CcccccccChHHHHHHHHHHHHccccC-h-hhhhcCCCCCCCceEEEECCCCCcHHHHH
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRR-P-ELFSHGKLLGPQKGVLLYGPPGTGKTMLA  140 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~-~-~~~~~~~~~~~~~~vLL~GppGtGKT~la  140 (396)
                      ..+|+++.-.+.+.+.+.+.-...+.. . +.+..   +...+.+++.+|+|+|||..+
T Consensus        24 ~~~f~~~~l~~~l~~~l~~~~~~~~~~~Q~~~i~~---~~~~~~~li~a~TGsGKT~~~   79 (236)
T 2pl3_A           24 ITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGL---ALQGKDVLGAAKTGSGKTLAF   79 (236)
T ss_dssp             CSBGGGSCCCHHHHHHHHHTTCCBCCHHHHHHHHH---HHTTCCEEEECCTTSCHHHHH
T ss_pred             cCCHhhcCCCHHHHHHHHHCCCCCCCHHHHHHHHH---HhCCCCEEEEeCCCCcHHHHH
Confidence            357888887777777776532111100 0 01110   112367999999999999854

>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=95.29  E-value=0.042  Score=48.64  Aligned_cols=57  Identities=11%  Similarity=0.042  Sum_probs=31.8

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhc--CCCCCCCceEEEECCCCCcHHHHHH
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSH--GKLLGPQKGVLLYGPPGTGKTMLAK  141 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~--~~~~~~~~~vLL~GppGtGKT~la~  141 (396)
                      .+..+|+++.-.+.+.+.+.+.-.   ..+..++.  ...+...+.+++.+|+|+|||...-
T Consensus        26 ~~~~~f~~~~l~~~l~~~l~~~g~---~~~~~~Q~~~i~~~~~g~~~l~~apTGsGKT~~~~   84 (242)
T 3fe2_A           26 KPVLNFYEANFPANVMDVIARQNF---TEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYL   84 (242)
T ss_dssp             CCCSSTTTTTCCHHHHHHHHTTTC---CSCCHHHHHHHHHHHHTCCEEEEECTTSCHHHHHH
T ss_pred             CccCCHhhcCCCHHHHHHHHHCCC---CCCCHHHHHHHHHHhCCCCEEEECCCcCHHHHHHH
Confidence            345678887766777776654211   11111100  0001113679999999999997643

>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=95.27  E-value=0.0084  Score=53.40  Aligned_cols=25  Identities=32%  Similarity=0.365  Sum_probs=21.8

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      +..-+.|.||+|+|||||++.++..
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3456889999999999999999874

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=95.26  E-value=0.0053  Score=55.50  Aligned_cols=26  Identities=15%  Similarity=0.241  Sum_probs=23.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +.-|.|.|++|+||||+++.++..++
T Consensus        24 ~~~I~ieG~~GsGKST~~~~L~~~l~   49 (263)
T 1p5z_B           24 IKKISIEGNIAAGKSTFVNILKQLCE   49 (263)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhcC
Confidence            45688999999999999999999883

>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=95.26  E-value=0.085  Score=55.33  Aligned_cols=22  Identities=23%  Similarity=0.389  Sum_probs=19.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      .-+.|.||.|+||||+.|.++.
T Consensus       608 ~i~~ItGpNGsGKSTlLr~iag  629 (800)
T 1wb9_A          608 RMLIITGPNMGGKSTYMRQTAL  629 (800)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCChHHHHHHHHH
Confidence            4588999999999999999976

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=95.25  E-value=0.047  Score=51.24  Aligned_cols=25  Identities=28%  Similarity=0.343  Sum_probs=21.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+.|.||||+||||+.++++..+
T Consensus        55 g~~v~i~G~~GaGKSTLl~~l~g~~   79 (337)
T 2qm8_A           55 AIRVGITGVPGVGKSTTIDALGSLL   79 (337)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhh
Confidence            4568899999999999999998753

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=95.24  E-value=0.035  Score=52.85  Aligned_cols=26  Identities=38%  Similarity=0.553  Sum_probs=22.3

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ....++|.||+|+|||++++.+++..
T Consensus       173 rGQr~~IvG~sG~GKTtLl~~Iar~i  198 (422)
T 3ice_A          173 RGQRGLIVAPPKAGKTMLLQNIAQSI  198 (422)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHHHHH
T ss_pred             CCcEEEEecCCCCChhHHHHHHHHHH
Confidence            35679999999999999999998743

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=95.21  E-value=0.072  Score=55.22  Aligned_cols=57  Identities=21%  Similarity=0.186  Sum_probs=33.2

Q ss_pred             CcccccccChHHHHHHHHHHHH-ccccC-hhhhhcCCCCCCCceEEEECCCCCcHHHHHHH
Q 016044           84 DVEFESIGGLETIKQALYELVI-LPLRR-PELFSHGKLLGPQKGVLLYGPPGTGKTMLAKA  142 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~-~~l~~-~~~~~~~~~~~~~~~vLL~GppGtGKT~la~a  142 (396)
                      ..+|+++.-.+.+++.+.+.-. .+... .+.+..  .+....++++.||+|+|||+.+-.
T Consensus         7 ~~~~~~l~l~~~~~~~l~~~g~~~l~~~Q~~~i~~--~~~~~~~~lv~apTGsGKT~~~~l   65 (715)
T 2va8_A            7 WMPIEDLKLPSNVIEIIKKRGIKKLNPPQTEAVKK--GLLEGNRLLLTSPTGSGKTLIAEM   65 (715)
T ss_dssp             CCBGGGSSSCHHHHHHHHTTSCCBCCHHHHHHHHT--TTTTTCCEEEECCTTSCHHHHHHH
T ss_pred             cCcHHHcCCCHHHHHHHHhCCCCCCCHHHHHHHHH--HhcCCCcEEEEcCCCCcHHHHHHH
Confidence            4568887766666666654211 11000 112221  123357899999999999998843

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=95.18  E-value=0.0073  Score=53.33  Aligned_cols=25  Identities=24%  Similarity=0.312  Sum_probs=21.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+.|.||+|+|||||++.++...
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4557899999999999999998754

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=95.17  E-value=0.011  Score=52.77  Aligned_cols=24  Identities=33%  Similarity=0.544  Sum_probs=21.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .-+.|.||+|+|||||++.++...
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC
Confidence            567899999999999999999754

>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=95.17  E-value=0.014  Score=49.08  Aligned_cols=32  Identities=22%  Similarity=0.158  Sum_probs=24.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEe
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES---GAVFINVR  155 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~  155 (396)
                      .-+.|.|++|+||||++..++..+   |..+..+.
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~ik   39 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   39 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhhHhcCCeeeEEE
Confidence            458899999999999999998864   44444444

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=95.12  E-value=0.01  Score=53.77  Aligned_cols=27  Identities=19%  Similarity=0.329  Sum_probs=22.5

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +..-+.|.||+|+|||||++.++.-..
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl~~   57 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFLEK   57 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            345678999999999999999987543

>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=95.08  E-value=0.054  Score=47.34  Aligned_cols=57  Identities=14%  Similarity=0.189  Sum_probs=30.5

Q ss_pred             CCCcccccc-cChHHHHHHHHHHHHcccc-C-hhhhhcCCCCCCCceEEEECCCCCcHHHHHH
Q 016044           82 HIDVEFESI-GGLETIKQALYELVILPLR-R-PELFSHGKLLGPQKGVLLYGPPGTGKTMLAK  141 (396)
Q Consensus        82 ~~~~~~~~i-~G~~~~k~~l~~~v~~~l~-~-~~~~~~~~~~~~~~~vLL~GppGtGKT~la~  141 (396)
                      .+..+|++. .-...+.+.+.+.-...+. . .+.+..   +...+.+++.+|+|+|||..+-
T Consensus        16 ~p~~~f~~~~~l~~~l~~~l~~~g~~~~~~~Q~~~i~~---~~~~~~~l~~apTGsGKT~~~~   75 (228)
T 3iuy_A           16 KPTCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPI---ILQGIDLIVVAQTGTGKTLSYL   75 (228)
T ss_dssp             CCCCSHHHHHTTCHHHHHHHHHHTCCSCCHHHHHHHHH---HHTTCCEEEECCTTSCHHHHHH
T ss_pred             CChhhHhhhhccCHHHHHHHHHCCCCCCCHHHHHHHHH---HhCCCCEEEECCCCChHHHHHH
Confidence            344677773 4445566666553211000 0 011110   1123679999999999997543

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=95.07  E-value=0.026  Score=47.74  Aligned_cols=24  Identities=29%  Similarity=0.607  Sum_probs=21.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ...|++.|++|+|||+++.++...
T Consensus        48 ~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           48 QPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            457999999999999999999874

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=95.04  E-value=0.011  Score=52.94  Aligned_cols=25  Identities=24%  Similarity=0.499  Sum_probs=21.7

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      +..-+.|.||+|+|||||++.++..
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3456889999999999999999864

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=95.01  E-value=0.0097  Score=51.88  Aligned_cols=23  Identities=48%  Similarity=0.566  Sum_probs=20.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      .-+.|.||.|+|||||++.++..
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999999874

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=95.00  E-value=0.012  Score=55.78  Aligned_cols=24  Identities=29%  Similarity=0.458  Sum_probs=21.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..-+.|.||+|||||||.+.++.-
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcC
Confidence            455789999999999999999984

>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=95.00  E-value=0.014  Score=49.29  Aligned_cols=24  Identities=29%  Similarity=0.238  Sum_probs=21.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .-+.|.|++|+||||+++.+...+
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhc
Confidence            458899999999999999998754

>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=95.00  E-value=0.016  Score=48.83  Aligned_cols=25  Identities=28%  Similarity=0.344  Sum_probs=21.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      .-.+|+||.|+|||+++++|+..++
T Consensus        27 g~~~i~G~NGsGKStll~ai~~~l~   51 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILFVLG   51 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHc
Confidence            3568999999999999999988665

>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=94.99  E-value=0.014  Score=53.03  Aligned_cols=25  Identities=32%  Similarity=0.611  Sum_probs=21.7

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      +..-+.|.||.|+|||||++.++..
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3456889999999999999999974

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=94.97  E-value=0.024  Score=56.91  Aligned_cols=38  Identities=24%  Similarity=0.230  Sum_probs=28.9

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcC----CcEEEEecccc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESG----AVFINVRISNL  159 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~----~~~~~i~~~~l  159 (396)
                      .+..+.|.|++||||||++++++..++    ..+..++...+
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~L~~~~G~~i~~lDgD~~  409 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAARLMEMGGRCVTLLDGDIV  409 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHHHHTTCSSCEEEESSHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHhhcccCCceEEEECCcHH
Confidence            345688999999999999999999874    23444665444

>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=94.97  E-value=0.024  Score=53.63  Aligned_cols=58  Identities=17%  Similarity=0.262  Sum_probs=31.3

Q ss_pred             cccccccChHHHHHHHHHHHHcccc-C-hhhhhcCCCCCCCceEEEECCCCCcHHHHHHHH
Q 016044           85 VEFESIGGLETIKQALYELVILPLR-R-PELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI  143 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~-~-~~~~~~~~~~~~~~~vLL~GppGtGKT~la~al  143 (396)
                      .+|++++-.+.+.+.+.+.-...+. . .+.+... ....++++++.+|+|+|||..+-..
T Consensus         5 ~~f~~~~l~~~l~~~l~~~~~~~~~~~Q~~~i~~~-~~~~~~~~lv~a~TGsGKT~~~~~~   64 (395)
T 3pey_A            5 KSFDELGLAPELLKGIYAMKFQKPSKIQERALPLL-LHNPPRNMIAQSQSGTGKTAAFSLT   64 (395)
T ss_dssp             CSSTTSCCCHHHHHHHHHTTCCSCCHHHHHHHHHH-HCSSCCCEEEECCTTSCHHHHHHHH
T ss_pred             cCHhhCCCCHHHHHHHHHCCCCCCCHHHHHHHHHH-HcCCCCeEEEECCCCCcHHHHHHHH
Confidence            4677776666666666552111000 0 0011110 0112478999999999999865433

>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=94.94  E-value=0.0099  Score=52.08  Aligned_cols=25  Identities=40%  Similarity=0.464  Sum_probs=21.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+.|.||.|+|||||++.++...
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3558899999999999999998754

>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=94.94  E-value=0.012  Score=53.25  Aligned_cols=26  Identities=23%  Similarity=0.487  Sum_probs=22.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +..-+.|.||.|+|||||++.++...
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcCC
Confidence            34568899999999999999998754

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=94.93  E-value=0.012  Score=53.19  Aligned_cols=26  Identities=27%  Similarity=0.376  Sum_probs=22.2

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +..-+.|.||+|+|||||++.++...
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccC
Confidence            44568899999999999999998743

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=94.89  E-value=0.012  Score=53.45  Aligned_cols=26  Identities=35%  Similarity=0.534  Sum_probs=22.3

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +..-+.|.||+|+|||||++.++...
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34568899999999999999998754

>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=94.85  E-value=0.011  Score=52.28  Aligned_cols=25  Identities=32%  Similarity=0.347  Sum_probs=21.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+.|.||.|+|||||.+.++...
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4568899999999999999998754

>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=94.85  E-value=0.013  Score=52.60  Aligned_cols=24  Identities=38%  Similarity=0.589  Sum_probs=21.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..-+.|.||+|+|||||++.++..
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            456889999999999999999964

>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=94.84  E-value=0.015  Score=55.43  Aligned_cols=24  Identities=38%  Similarity=0.553  Sum_probs=21.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..-+.|.||+|||||||.+.++.-
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEEcCCCchHHHHHHHHHcC
Confidence            455789999999999999999984

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=94.84  E-value=0.015  Score=55.11  Aligned_cols=24  Identities=38%  Similarity=0.510  Sum_probs=21.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..-+.|.||+|||||||.+.++.-
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCchHHHHHHHHhcC
Confidence            455789999999999999999974

>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=94.84  E-value=0.011  Score=53.34  Aligned_cols=25  Identities=32%  Similarity=0.481  Sum_probs=21.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+.|.||.|+|||||++.++...
T Consensus        33 Ge~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           33 GDVTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4568899999999999999998754

>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=94.84  E-value=0.011  Score=53.87  Aligned_cols=25  Identities=20%  Similarity=0.236  Sum_probs=21.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+.|.||+|+|||||++.++...
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCC
Confidence            4558899999999999999998744

>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 3.19A {Homo sapiens}

Probab=94.83  E-value=0.067  Score=52.51  Aligned_cols=56  Identities=20%  Similarity=0.224  Sum_probs=32.2

Q ss_pred             CcccccccChHHHHHHHHHHHHcccc--ChhhhhcCCCCCCCceEEEECCCCCcHHHHH
Q 016044           84 DVEFESIGGLETIKQALYELVILPLR--RPELFSHGKLLGPQKGVLLYGPPGTGKTMLA  140 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~--~~~~~~~~~~~~~~~~vLL~GppGtGKT~la  140 (396)
                      ..+|+++.-.+.+.+.|...-...+.  ....+... ....++.+++.||+|+|||..+
T Consensus        91 ~~~f~~~~l~~~l~~~l~~~g~~~p~~~Q~~ai~~i-l~~~~~~~l~~a~TGsGKT~~~  148 (479)
T 3fmp_B           91 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLM-LAEPPQNLIAQSQSGTGKTAAF  148 (479)
T ss_dssp             CCCSGGGTCCHHHHHHHHHTTCCSCCHHHHHHHHHH-TSBSCCEEEEECCSSSSHHHHH
T ss_pred             cCCHHHcCCCHHHHHHHHHcCCCCCCHHHHHHHHHH-HcCCCCcEEEEcCCCCchhHHH
Confidence            35788888778877777542110000  00111110 0112478999999999999774

>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=94.83  E-value=0.014  Score=52.71  Aligned_cols=26  Identities=31%  Similarity=0.340  Sum_probs=22.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +..-+.|.||.|+|||||++.++...
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            34568899999999999999998754

>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=94.82  E-value=0.015  Score=55.04  Aligned_cols=24  Identities=38%  Similarity=0.414  Sum_probs=21.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..-+.|.||+|||||||.+.++.-
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEEcCCCchHHHHHHHHHCC
Confidence            455789999999999999999973

>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=94.82  E-value=0.011  Score=52.93  Aligned_cols=25  Identities=28%  Similarity=0.395  Sum_probs=21.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+.|.||+|+|||||++.++...
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4568899999999999999998754

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}

Probab=94.82  E-value=0.28  Score=48.58  Aligned_cols=22  Identities=32%  Similarity=0.640  Sum_probs=18.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      +.+++.+|+|+|||..+-..+.
T Consensus        20 ~~~l~~~~tGsGKT~~~~~~~~   41 (555)
T 3tbk_A           20 KNTIICAPTGCGKTFVSLLICE   41 (555)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEeCCCChHHHHHHHHHH
Confidence            5699999999999988665554

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=94.80  E-value=0.016  Score=49.60  Aligned_cols=23  Identities=30%  Similarity=0.488  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..+.|.|++|+|||+|++.++..
T Consensus         6 ~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            6 FKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECcCCCCHHHHHHHHhcC
Confidence            35899999999999999999875

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=94.80  E-value=0.031  Score=48.96  Aligned_cols=29  Identities=28%  Similarity=0.230  Sum_probs=25.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVF  151 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~  151 (396)
                      +.-|.|.|++|+||||+++.++..++...
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l~~~~   33 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKLQPNC   33 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHHCSSE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcccc
Confidence            35688999999999999999999998643

>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=94.79  E-value=0.15  Score=45.70  Aligned_cols=18  Identities=28%  Similarity=0.423  Sum_probs=15.4

Q ss_pred             ceEEEECCCCCcHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAK  141 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~  141 (396)
                      +.+++.+|+|+|||..+-
T Consensus        92 ~~~lv~a~TGsGKT~~~~  109 (262)
T 3ly5_A           92 RDLLAAAKTGSGKTLAFL  109 (262)
T ss_dssp             CCCEECCCTTSCHHHHHH
T ss_pred             CcEEEEccCCCCchHHHH
Confidence            568999999999997643

>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=94.78  E-value=0.012  Score=52.56  Aligned_cols=25  Identities=40%  Similarity=0.372  Sum_probs=21.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+.|.||.|+|||||.+.++...
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3558899999999999999998754

>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=94.78  E-value=0.027  Score=57.54  Aligned_cols=23  Identities=43%  Similarity=0.671  Sum_probs=18.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ...++.||||||||+++..++..
T Consensus       196 ~~~li~GppGTGKT~~~~~~i~~  218 (624)
T 2gk6_A          196 PLSLIQGPPGTGKTVTSATIVYH  218 (624)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEECCCCCCHHHHHHHHHHH
Confidence            35789999999999988777654

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=94.77  E-value=0.027  Score=49.73  Aligned_cols=25  Identities=24%  Similarity=0.207  Sum_probs=19.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +.-|.|.|++|+||||+++.+++.+
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l   49 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRL   49 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3457889999999999999999876

>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=94.77  E-value=0.016  Score=55.13  Aligned_cols=24  Identities=38%  Similarity=0.515  Sum_probs=21.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..-+.|.||+|||||||.+.++.-
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCChHHHHHHHHHcC
Confidence            456789999999999999999973

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=94.76  E-value=0.015  Score=49.49  Aligned_cols=23  Identities=30%  Similarity=0.538  Sum_probs=20.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~  147 (396)
                      -+.|.|++|+|||+|++.++...
T Consensus        31 kv~lvG~~g~GKSTLl~~l~~~~   53 (191)
T 1oix_A           31 KVVLIGDSGVGKSNLLSRFTRNE   53 (191)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHSC
T ss_pred             EEEEECcCCCCHHHHHHHHhcCC
Confidence            47899999999999999998753

>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=94.75  E-value=0.012  Score=53.35  Aligned_cols=25  Identities=28%  Similarity=0.454  Sum_probs=21.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+.|.||+|+|||||++.++...
T Consensus        37 Ge~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           37 GEMVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             TCEEEEECCTTSCHHHHHHHHTSSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCC
Confidence            4568899999999999999998744

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=94.75  E-value=0.014  Score=52.87  Aligned_cols=26  Identities=27%  Similarity=0.399  Sum_probs=22.0

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +..-+.|.||.|+|||||++.++.-.
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34568899999999999999998743

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=94.74  E-value=0.015  Score=52.85  Aligned_cols=23  Identities=26%  Similarity=0.572  Sum_probs=20.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .+.|.||+|+||||+.+.++...
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999999854

>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=94.73  E-value=0.02  Score=50.03  Aligned_cols=31  Identities=29%  Similarity=0.283  Sum_probs=24.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES---GAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~---~~~~~~i  154 (396)
                      .-|.|.|++|+||||+++.++..+   |.+++..
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~~l~~~~~~v~~~   40 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAERLRERGIEVQLT   40 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHHHcCCCcccc
Confidence            457889999999999999999876   3455444

>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=94.73  E-value=0.068  Score=55.50  Aligned_cols=19  Identities=37%  Similarity=0.602  Sum_probs=16.8

Q ss_pred             CceEEEECCCCCcHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAK  141 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~  141 (396)
                      ..++++.||+|+|||+.+.
T Consensus        39 ~~~~lv~apTGsGKT~~~~   57 (720)
T 2zj8_A           39 GKNALISIPTASGKTLIAE   57 (720)
T ss_dssp             TCEEEEECCGGGCHHHHHH
T ss_pred             CCcEEEEcCCccHHHHHHH
Confidence            5789999999999998873

>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=94.73  E-value=0.013  Score=52.71  Aligned_cols=26  Identities=31%  Similarity=0.452  Sum_probs=22.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      ..-+.|.||.|+|||||++.++....
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~Gl~~   51 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAGMTS   51 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            45688999999999999999987543

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=94.72  E-value=0.03  Score=50.64  Aligned_cols=23  Identities=39%  Similarity=0.520  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|.|.|+||+|||++..++...
T Consensus         4 ~~i~lvG~~g~GKTTL~n~l~g~   26 (271)
T 3k53_A            4 KTVALVGNPNVGKTTIFNALTGL   26 (271)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            56899999999999999999763

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=94.70  E-value=0.015  Score=55.09  Aligned_cols=24  Identities=42%  Similarity=0.552  Sum_probs=21.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..-+.|.||+|||||||.+.++.-
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            355789999999999999999974

>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=94.67  E-value=0.013  Score=55.19  Aligned_cols=24  Identities=33%  Similarity=0.552  Sum_probs=21.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..-+.|.||+|||||||.+.++.-
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CCEEEEECCCCccHHHHHHHHHcC
Confidence            456789999999999999999974

>1g8f_A Sulfate adenylyltransferase; alpha-beta protein, beta-barrel, rossmann-fold, kinase fold; 1.95A {Saccharomyces cerevisiae} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1g8g_A* 1g8h_A* 1j70_A 1jec_A 1jed_A* 1jee_A*

Probab=94.65  E-value=0.017  Score=57.29  Aligned_cols=26  Identities=12%  Similarity=0.015  Sum_probs=23.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      ..|+|.|.+||||||+++++++.++.
T Consensus       396 ~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          396 FSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             eEEEecccCCCCHHHHHHHHHHHHHH
Confidence            56889999999999999999999874

>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=94.65  E-value=0.2  Score=44.14  Aligned_cols=32  Identities=13%  Similarity=0.163  Sum_probs=21.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEe
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVR  155 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~  155 (396)
                      .-.+++||.|+|||+.+-..+..   .|..++.+.
T Consensus        20 ~l~v~~G~MgsGKTT~lL~~~~r~~~~g~kvli~k   54 (234)
T 2orv_A           20 QIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIK   54 (234)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEe
Confidence            34578999999999777655443   245555444

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=94.64  E-value=0.11  Score=48.62  Aligned_cols=25  Identities=24%  Similarity=0.348  Sum_probs=21.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ...+.+.|+||+||||++.+++..+
T Consensus        56 ~~~i~i~G~~g~GKSTl~~~l~~~~   80 (341)
T 2p67_A           56 TLRLGVTGTPGAGKSTFLEAFGMLL   80 (341)
T ss_dssp             SEEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHH
Confidence            4568899999999999999998753

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=94.61  E-value=0.019  Score=55.84  Aligned_cols=35  Identities=31%  Similarity=0.342  Sum_probs=27.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      +..+++.|++|+||||++..+|..+   |..+..+++.
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D  136 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAAD  136 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecc
Confidence            5679999999999999999998865   4556666554

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=94.60  E-value=0.021  Score=46.49  Aligned_cols=22  Identities=32%  Similarity=0.566  Sum_probs=20.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~  146 (396)
                      .+++.|++|+|||+++.++...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLFNRLLKK   24 (161)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999874

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=94.59  E-value=0.014  Score=53.35  Aligned_cols=25  Identities=32%  Similarity=0.469  Sum_probs=21.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+.|.||.|+|||||++.++...
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            4558899999999999999998754

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.59  E-value=0.024  Score=49.10  Aligned_cols=25  Identities=32%  Similarity=0.613  Sum_probs=22.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ...+++.|++|+|||+++.+++...
T Consensus        12 ~~~i~~~G~~g~GKTsl~~~l~~~~   36 (218)
T 1nrj_B           12 QPSIIIAGPQNSGKTSLLTLLTTDS   36 (218)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCC
Confidence            4579999999999999999998753

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=94.54  E-value=0.014  Score=52.42  Aligned_cols=25  Identities=20%  Similarity=0.260  Sum_probs=21.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+.|.||.|+|||||++.++...
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            4568899999999999999998754

>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=94.54  E-value=0.017  Score=55.11  Aligned_cols=24  Identities=38%  Similarity=0.526  Sum_probs=21.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..-+.|.||+|||||||.+.++.-
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCcHHHHHHHHHHcC
Confidence            355789999999999999999974

>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=94.53  E-value=0.036  Score=54.34  Aligned_cols=34  Identities=29%  Similarity=0.244  Sum_probs=27.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS  157 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~  157 (396)
                      ..+++.+|+|+|||..+-.++...+...+.+-+.
T Consensus       109 ~~~ll~~~TGsGKT~~~l~~i~~~~~~~Lvl~P~  142 (472)
T 2fwr_A          109 KRGCIVLPTGSGKTHVAMAAINELSTPTLIVVPT  142 (472)
T ss_dssp             TEEEEECCTTSCHHHHHHHHHHHHCSCEEEEESS
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHHcCCCEEEEECC
Confidence            4589999999999999988887777666666544

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=94.52  E-value=0.021  Score=54.28  Aligned_cols=28  Identities=25%  Similarity=0.380  Sum_probs=24.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAV  150 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~  150 (396)
                      ...+.|.||+|+|||||++.++......
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~~~  197 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFNTT  197 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCE
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            3568999999999999999999976543

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=94.48  E-value=0.018  Score=54.66  Aligned_cols=26  Identities=35%  Similarity=0.569  Sum_probs=22.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      ...++|.||+|+||||++++++....
T Consensus       175 G~~i~ivG~sGsGKSTll~~l~~~~~  200 (361)
T 2gza_A          175 ERVIVVAGETGSGKTTLMKALMQEIP  200 (361)
T ss_dssp             TCCEEEEESSSSCHHHHHHHHHTTSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            45799999999999999999998653

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=94.48  E-value=0.012  Score=49.52  Aligned_cols=24  Identities=21%  Similarity=0.200  Sum_probs=21.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..+.|.|++|+||||+++.++..+
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            357899999999999999998865

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=94.42  E-value=0.03  Score=46.12  Aligned_cols=24  Identities=25%  Similarity=0.426  Sum_probs=21.3

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~  145 (396)
                      ....|++.|++|+|||+|+.++..
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~   29 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQV   29 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            346799999999999999999976

>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=94.39  E-value=0.02  Score=54.85  Aligned_cols=24  Identities=38%  Similarity=0.591  Sum_probs=21.4

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~  145 (396)
                      +..-+.|.||+||||||+.+.|+.
T Consensus        46 ~Ge~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           46 PGQRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhC
Confidence            446689999999999999999987

>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=94.37  E-value=0.025  Score=50.23  Aligned_cols=25  Identities=20%  Similarity=0.352  Sum_probs=22.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +.-|.|.|++|+||||+++.++..+
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l   51 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETL   51 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3568899999999999999998866

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=94.36  E-value=0.024  Score=46.45  Aligned_cols=23  Identities=17%  Similarity=0.299  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|++.|++|+|||+++.++...
T Consensus         6 ~~i~v~G~~~~GKssl~~~l~~~   28 (168)
T 1z2a_A            6 IKMVVVGNGAVGKSSMIQRYCKG   28 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEEECcCCCCHHHHHHHHHcC
Confidence            46899999999999999999873

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=94.34  E-value=0.019  Score=48.40  Aligned_cols=21  Identities=33%  Similarity=0.638  Sum_probs=19.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      .++|.|++|+|||+|++.++.
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            489999999999999999976

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=94.29  E-value=0.014  Score=55.14  Aligned_cols=24  Identities=33%  Similarity=0.513  Sum_probs=21.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..-+.|.||+|||||||.+.++.-
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCC
Confidence            456789999999999999999973

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=94.29  E-value=0.031  Score=49.20  Aligned_cols=27  Identities=22%  Similarity=0.233  Sum_probs=22.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      +.-|.|.|++|+||||+++.++..++.
T Consensus        21 ~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           21 SMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            355788899999999999999986543

>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=94.28  E-value=0.024  Score=46.85  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=19.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..+.|.|++|+|||+|.++++.
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~   25 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTG   25 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4589999999999999999986

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=94.26  E-value=0.027  Score=46.01  Aligned_cols=23  Identities=26%  Similarity=0.429  Sum_probs=20.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|++.|++|+|||+++.++...
T Consensus         4 ~~i~v~G~~~~GKSsli~~l~~~   26 (167)
T 1kao_A            4 YKVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999863

>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=94.21  E-value=0.11  Score=45.93  Aligned_cols=17  Identities=35%  Similarity=0.638  Sum_probs=14.9

Q ss_pred             ceEEEECCCCCcHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLA  140 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la  140 (396)
                      +.+++.+|+|+|||..+
T Consensus        67 ~~~l~~a~TGsGKT~~~   83 (245)
T 3dkp_A           67 RELLASAPTGSGKTLAF   83 (245)
T ss_dssp             CCEEEECCTTSCHHHHH
T ss_pred             CCEEEECCCCCcHHHHH
Confidence            56999999999999764

>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E* 1ht1_E* 1ht2_E*

Probab=94.20  E-value=0.0074  Score=58.77  Aligned_cols=57  Identities=5%  Similarity=0.023  Sum_probs=0.0

Q ss_pred             HHhhHHHHHHHhhccCcCCCCcEEEEEe-cCCCCCCcHHHHh--ccCCceEeCCCCHH-HHHHHH
Q 016044          206 LTNMKTEFMALWDGFTTDQNARVMVLAA-TNRPSELDEAILR--RLPQAFEIGMPDRK-ERAQIL  266 (396)
Q Consensus       206 ~~~~~~~ll~~l~~~~~~~~~~v~vI~a-tn~~~~l~~~l~~--R~~~~i~~~~P~~~-er~~il  266 (396)
                      ..++++.|+..+|++...  ..+  +++ ||+++.++++|++  ||+..|+++.|+.. .|.+|+
T Consensus       128 e~rvl~~LL~~~dg~~~~--~~v--~a~~TN~~~~ld~aL~rggr~D~~i~i~lP~~~~~~~ei~  188 (444)
T 1g41_A          128 EERILDALLPPAKNQWGE--VEN--HDSHSSTRQAFRKKLREGQLDDKEIEIDVSAGVSMGVEIM  188 (444)
T ss_dssp             -----------------------------------------------------------------
T ss_pred             HHHHHHHHHHHhhccccc--ccc--ccccccCHHHHHHHHHcCCCcceEEEEcCCCCccchhhhh
Confidence            356777888888887542  222  444 9999999999998  99999999999987 677765

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=94.20  E-value=0.036  Score=48.15  Aligned_cols=26  Identities=31%  Similarity=0.489  Sum_probs=22.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      ...+++.|++|+|||+++.+++....
T Consensus        30 ~~~i~i~G~~g~GKTTl~~~l~~~~~   55 (221)
T 2wsm_A           30 TVAVNIMGAIGSGKTLLIERTIERIG   55 (221)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhc
Confidence            35789999999999999999998753

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=94.19  E-value=0.027  Score=46.06  Aligned_cols=23  Identities=26%  Similarity=0.482  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+++.++...
T Consensus         5 ~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            56899999999999999999873

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A*

Probab=94.18  E-value=0.067  Score=51.33  Aligned_cols=20  Identities=30%  Similarity=0.507  Sum_probs=16.1

Q ss_pred             ceEEEECCCCCcHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAI  143 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~al  143 (396)
                      +.+++.+|+|+|||..+-..
T Consensus        37 ~~~lv~apTGsGKT~~~l~~   56 (414)
T 3oiy_A           37 KSFTMVAPTGVGKTTFGMMT   56 (414)
T ss_dssp             CCEECCSCSSSSHHHHHHHH
T ss_pred             CCEEEEeCCCCCHHHHHHHH
Confidence            57999999999999844433

>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=94.17  E-value=0.021  Score=52.50  Aligned_cols=26  Identities=31%  Similarity=0.322  Sum_probs=22.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +..-+.|.||.|+|||||++.++...
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCC
Confidence            34568899999999999999998743

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=94.15  E-value=0.021  Score=51.66  Aligned_cols=25  Identities=40%  Similarity=0.643  Sum_probs=21.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+.|.||+|+|||||.+.++...
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458899999999999999998754

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=94.13  E-value=0.044  Score=45.45  Aligned_cols=24  Identities=33%  Similarity=0.343  Sum_probs=21.3

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~  145 (396)
                      ....|++.|++|+|||+++.++..
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~   30 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRH   30 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            356799999999999999999976

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=94.13  E-value=0.026  Score=45.94  Aligned_cols=23  Identities=22%  Similarity=0.440  Sum_probs=20.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..+++.|++|+|||+++.++...
T Consensus         4 ~~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            4 YKLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            35899999999999999999874

>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein phosphatase, dual activity, product, substrate, transferase, hydrolase; 1.95A {Staphylococcus xylosus} SCOP: c.98.2.1 c.91.1.2

Probab=94.10  E-value=0.028  Score=52.05  Aligned_cols=29  Identities=34%  Similarity=0.544  Sum_probs=24.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFI  152 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~  152 (396)
                      ..+++|.|++|+|||++|.++... |..++
T Consensus       144 g~~vl~~G~sG~GKSt~a~~l~~~-g~~lv  172 (314)
T 1ko7_A          144 GVGVLITGDSGIGKSETALELIKR-GHRLV  172 (314)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT-TCEEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHhc-CCcee
Confidence            478999999999999999999875 54443

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=94.10  E-value=0.031  Score=45.81  Aligned_cols=23  Identities=17%  Similarity=0.342  Sum_probs=20.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|++.|++|+|||+++.++...
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            4 IKLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45899999999999999999863

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=94.09  E-value=0.028  Score=46.44  Aligned_cols=22  Identities=50%  Similarity=0.678  Sum_probs=19.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..|++.|++|+|||+|++++..
T Consensus         5 ~ki~i~G~~~vGKSsl~~~l~~   26 (175)
T 2nzj_A            5 YRVVLLGDPGVGKTSLASLFAG   26 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEEECCCCccHHHHHHHHhc
Confidence            4689999999999999999975

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=94.07  E-value=0.031  Score=45.91  Aligned_cols=23  Identities=26%  Similarity=0.410  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|++.|++|+|||++++++...
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46899999999999999999874

>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=94.04  E-value=0.047  Score=57.31  Aligned_cols=23  Identities=43%  Similarity=0.671  Sum_probs=18.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ...++.||||||||+++..++..
T Consensus       372 ~~~lI~GppGTGKT~ti~~~i~~  394 (800)
T 2wjy_A          372 PLSLIQGPPGTGKTVTSATIVYH  394 (800)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHH
Confidence            35789999999999988777654

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=94.04  E-value=0.033  Score=46.20  Aligned_cols=23  Identities=30%  Similarity=0.443  Sum_probs=20.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+++.++...
T Consensus         8 ~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            8 FKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999863

>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=94.02  E-value=0.17  Score=48.89  Aligned_cols=32  Identities=31%  Similarity=0.442  Sum_probs=24.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc----CCcEEEEec
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKES----GAVFINVRI  156 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~  156 (396)
                      ++++.+|+|+|||..+-.++...    +...+.+-+
T Consensus        25 ~~ll~~~tG~GKT~~~~~~~~~~~~~~~~~~liv~P   60 (494)
T 1wp9_A           25 NCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAP   60 (494)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECS
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHhcCCCeEEEEEC
Confidence            68999999999999887776543    555555544

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=94.00  E-value=0.059  Score=48.43  Aligned_cols=22  Identities=41%  Similarity=0.606  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~  146 (396)
                      .|.|.|+||+|||+|..++...
T Consensus         3 kI~lvG~~n~GKSTL~n~L~g~   24 (256)
T 3iby_A            3 HALLIGNPNCGKTTLFNALTNA   24 (256)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
Confidence            5899999999999999999763

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=94.00  E-value=0.032  Score=45.84  Aligned_cols=23  Identities=30%  Similarity=0.313  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|++.|++|+|||+++.++...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            7 FKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46899999999999999999864

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=93.96  E-value=0.033  Score=46.32  Aligned_cols=24  Identities=29%  Similarity=0.472  Sum_probs=21.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ...|++.|++|+|||+++.++...
T Consensus         8 ~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            8 ILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            356899999999999999999873

>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=93.95  E-value=0.02  Score=53.02  Aligned_cols=27  Identities=26%  Similarity=0.495  Sum_probs=22.8

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .+..-+.|.||+|+|||||++.++...
T Consensus        78 ~~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           78 MPGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             CTTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            345678999999999999999998743

>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=93.94  E-value=0.032  Score=52.87  Aligned_cols=25  Identities=20%  Similarity=0.287  Sum_probs=21.5

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      +..-+.|.||+|+|||||++.++.-
T Consensus        53 ~Gei~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           53 AGQIYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHhcC
Confidence            3456889999999999999999874

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=93.88  E-value=0.031  Score=45.88  Aligned_cols=22  Identities=32%  Similarity=0.516  Sum_probs=20.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      -.|++.|++|+|||+++.++..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~   25 (170)
T 1g16_A            4 MKILLIGDSGVGKSCLLVRFVE   25 (170)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECcCCCCHHHHHHHHHh
Confidence            4589999999999999999986

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=93.88  E-value=0.038  Score=48.28  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=21.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .-|.|.|++|+||||.++.++..+
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l   27 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETL   27 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            457889999999999999999866

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=93.87  E-value=0.035  Score=45.41  Aligned_cols=23  Identities=22%  Similarity=0.426  Sum_probs=20.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|++.|++|+|||++++++...
T Consensus         4 ~ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            4 YKLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            45899999999999999999873

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=93.84  E-value=0.035  Score=45.46  Aligned_cols=22  Identities=27%  Similarity=0.392  Sum_probs=20.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      -.|++.|++|+|||+++.++..
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~   28 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHc
Confidence            4589999999999999999986

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=93.82  E-value=0.036  Score=45.29  Aligned_cols=22  Identities=23%  Similarity=0.347  Sum_probs=19.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~  146 (396)
                      .+++.|++|+|||+++.++...
T Consensus         2 ki~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            2 RILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3799999999999999999764

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=93.82  E-value=0.034  Score=45.73  Aligned_cols=21  Identities=38%  Similarity=0.605  Sum_probs=19.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      .|++.|++|+|||+|+.++..
T Consensus         4 ki~ivG~~~~GKSsli~~l~~   24 (169)
T 3q85_A            4 KVMLVGESGVGKSTLAGTFGG   24 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            489999999999999999963

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=93.80  E-value=0.076  Score=47.72  Aligned_cols=22  Identities=41%  Similarity=0.468  Sum_probs=19.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..|+|.|+||+|||+|..++..
T Consensus         6 ~kI~lvG~~nvGKTsL~n~l~g   27 (258)
T 3a1s_A            6 VKVALAGCPNVGKTSLFNALTG   27 (258)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHC
Confidence            4589999999999999999976

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=93.79  E-value=0.033  Score=46.75  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=20.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..+.|.|++|+|||+|+++++.
T Consensus         8 ~~i~lvG~~gvGKStL~~~l~~   29 (188)
T 2wjg_A            8 YEIALIGNPNVGKSTIFNALTG   29 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            4689999999999999999986

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=93.78  E-value=0.07  Score=46.41  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=22.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ...+++.|.+|+|||+++..++...
T Consensus        38 ~~~i~ivG~~gvGKTtl~~~l~~~~   62 (226)
T 2hf9_A           38 VVAFDFMGAIGSGKTLLIEKLIDNL   62 (226)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            3568899999999999999998865

>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=93.78  E-value=0.041  Score=45.03  Aligned_cols=24  Identities=33%  Similarity=0.358  Sum_probs=20.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .-.+|+||.|+|||++..|++--+
T Consensus        24 g~~~I~G~NGsGKStil~Ai~~~l   47 (149)
T 1f2t_A           24 GINLIIGQNGSGKSSLLDAILVGL   47 (149)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            346899999999999999998644

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=93.78  E-value=0.035  Score=54.47  Aligned_cols=24  Identities=29%  Similarity=0.434  Sum_probs=21.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..-+.|.||.|||||||+|.++..
T Consensus       138 Ge~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          138 GPRVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CCCEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCc
Confidence            456899999999999999999874

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=93.76  E-value=0.035  Score=45.55  Aligned_cols=22  Identities=32%  Similarity=0.508  Sum_probs=20.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      -.|++.|++|+|||+++.++..
T Consensus         4 ~~i~v~G~~~~GKssli~~l~~   25 (172)
T 2erx_A            4 YRVAVFGAGGVGKSSLVLRFVK   25 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            4589999999999999999986

>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=93.72  E-value=0.035  Score=46.28  Aligned_cols=23  Identities=35%  Similarity=0.551  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..+.|.|++|+|||+|.++++..
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999864

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=93.71  E-value=0.037  Score=46.47  Aligned_cols=22  Identities=27%  Similarity=0.338  Sum_probs=20.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..|++.|++|+|||+|+.++..
T Consensus        12 ~ki~v~G~~~~GKSsli~~l~~   33 (195)
T 3bc1_A           12 IKFLALGDSGVGKTSVLYQYTD   33 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4689999999999999999987

>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=93.71  E-value=0.035  Score=56.48  Aligned_cols=23  Identities=30%  Similarity=0.472  Sum_probs=19.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      +.+++.|+||||||+++..+...
T Consensus       165 ~~~vi~G~pGTGKTt~l~~ll~~  187 (608)
T 1w36_D          165 RISVISGGPGTGKTTTVAKLLAA  187 (608)
T ss_dssp             SEEEEECCTTSTHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCHHHHHHHHHHH
Confidence            56899999999999998887654

>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=93.70  E-value=0.12  Score=49.15  Aligned_cols=56  Identities=16%  Similarity=0.108  Sum_probs=31.7

Q ss_pred             CcccccccChHHHHHHHHHHHHccccC--hhhhhcCCCCCCCceEEEECCCCCcHHHHHHH
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRR--PELFSHGKLLGPQKGVLLYGPPGTGKTMLAKA  142 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~--~~~~~~~~~~~~~~~vLL~GppGtGKT~la~a  142 (396)
                      ..+|+++.-.+.+.+.+.+.-...+..  .+.+..   +...+.+++.+|+|+|||..+-.
T Consensus        39 ~~~f~~~~l~~~~~~~l~~~~~~~~~~~Q~~~i~~---~~~~~~~lv~a~TGsGKT~~~~~   96 (414)
T 3eiq_A           39 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILP---CIKGYDVIAQAQSGTGKTATFAI   96 (414)
T ss_dssp             CCCGGGGCCCHHHHHHHHHTTCCSCCHHHHHHHHH---HHTTCCEEECCCSCSSSHHHHHH
T ss_pred             hcCHhhCCCCHHHHHHHHHcCCCCCCHHHHHHhHH---HhCCCCEEEECCCCCcccHHHHH
Confidence            357888777777777775531111000  011111   11135699999999999987533

>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=93.66  E-value=0.024  Score=50.03  Aligned_cols=24  Identities=33%  Similarity=0.364  Sum_probs=21.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      +.-+.|.|+.|+||||+++.++..
T Consensus        20 g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           20 PFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            345789999999999999999887

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=93.64  E-value=0.032  Score=45.72  Aligned_cols=21  Identities=48%  Similarity=0.805  Sum_probs=19.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      .+++.|++|+|||+|++++..
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            589999999999999999854

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=93.63  E-value=0.077  Score=48.12  Aligned_cols=22  Identities=36%  Similarity=0.537  Sum_probs=20.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..|.|.|+||+|||+|..++..
T Consensus         4 ~kI~lvG~~nvGKSTL~n~L~g   25 (272)
T 3b1v_A            4 TEIALIGNPNSGKTSLFNLITG   25 (272)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHC
Confidence            4589999999999999999986

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=93.62  E-value=0.045  Score=54.88  Aligned_cols=36  Identities=22%  Similarity=0.141  Sum_probs=28.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC---CcEEEEeccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG---AVFINVRISN  158 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~---~~~~~i~~~~  158 (396)
                      +..|+|.|++|+||||+++.++..++   .++..++...
T Consensus       372 ~~~I~l~G~~GsGKSTia~~La~~L~~~G~~~~~ld~D~  410 (546)
T 2gks_A          372 GFCVWLTGLPCAGKSTIAEILATMLQARGRKVTLLDGDV  410 (546)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECHHH
T ss_pred             ceEEEccCCCCCCHHHHHHHHHHHhhhcCCeEEEECchH
Confidence            35688999999999999999998764   4566666443

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=93.59  E-value=0.036  Score=45.99  Aligned_cols=22  Identities=27%  Similarity=0.468  Sum_probs=20.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      -.|++.|++|+|||+|+.++..
T Consensus         7 ~ki~v~G~~~~GKssl~~~l~~   28 (178)
T 2hxs_A            7 LKIVVLGDGASGKTSLTTCFAQ   28 (178)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHG
T ss_pred             EEEEEECcCCCCHHHHHHHHHh
Confidence            4689999999999999999975

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=93.59  E-value=0.041  Score=45.55  Aligned_cols=23  Identities=22%  Similarity=0.394  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+++.++...
T Consensus        16 ~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           16 FKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46999999999999999999873

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=93.58  E-value=0.041  Score=46.52  Aligned_cols=23  Identities=35%  Similarity=0.505  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+|+.++...
T Consensus        26 ~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           26 FKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            46899999999999999999873

>1knx_A Probable HPR(Ser) kinase/phosphatase; HPR kinase, HPR kinase/phosphatase, HPRK/P, P-loop, walker A BOX, catabolite repression; 2.50A {Mycoplasma pneumoniae} SCOP: c.98.2.1 c.91.1.2

Probab=93.56  E-value=0.045  Score=50.58  Aligned_cols=30  Identities=33%  Similarity=0.535  Sum_probs=24.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      ..|+||.|++|+|||++|-.+.. .|..++.
T Consensus       147 g~gvli~G~sG~GKStlal~l~~-~G~~lv~  176 (312)
T 1knx_A          147 GVGVLLTGRSGIGKSECALDLIN-KNHLFVG  176 (312)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHT-TTCEEEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH-cCCEEEe
Confidence            58899999999999999988865 4555544

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=93.56  E-value=0.041  Score=46.32  Aligned_cols=23  Identities=22%  Similarity=0.440  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|++.|++|+|||+++.+++..
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45899999999999999999874

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=93.55  E-value=0.038  Score=45.77  Aligned_cols=22  Identities=23%  Similarity=0.294  Sum_probs=20.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..|++.|++|+|||+|+.++..
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~   36 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMY   36 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            4589999999999999999986

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=93.54  E-value=0.038  Score=46.45  Aligned_cols=23  Identities=30%  Similarity=0.449  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+|++++...
T Consensus         8 ~ki~v~G~~~vGKSsli~~l~~~   30 (184)
T 1m7b_A            8 CKIVVVGDSQCGKTALLHVFAKD   30 (184)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999999874

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=93.54  E-value=0.043  Score=45.96  Aligned_cols=23  Identities=22%  Similarity=0.453  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|++.|++|+|||+|+.++...
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45899999999999999999873

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=93.51  E-value=0.039  Score=45.75  Aligned_cols=23  Identities=22%  Similarity=0.416  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+|+.++...
T Consensus        10 ~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A           10 HKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999999874

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=93.50  E-value=0.044  Score=45.56  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+++.++...
T Consensus        13 ~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           13 AKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46899999999999999999873

>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=93.50  E-value=0.074  Score=50.87  Aligned_cols=34  Identities=24%  Similarity=0.380  Sum_probs=27.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      ..++++.||+|+|||++++.++...   +..++.++.
T Consensus        35 ~~~~~i~G~~G~GKs~~~~~~~~~~~~~~~~~~~~D~   71 (392)
T 4ag6_A           35 NSNWTILAKPGAGKSFTAKMLLLREYMQGSRVIIIDP   71 (392)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEES
T ss_pred             cCceEEEcCCCCCHHHHHHHHHHHHHHCCCEEEEEeC
Confidence            4679999999999999999997753   566666664

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=93.49  E-value=0.097  Score=48.34  Aligned_cols=22  Identities=27%  Similarity=0.415  Sum_probs=19.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      .-|.+.|.||+|||||..++..
T Consensus        11 g~v~ivG~~nvGKSTLin~l~g   32 (308)
T 3iev_A           11 GYVAIVGKPNVGKSTLLNNLLG   32 (308)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCcHHHHHHHHhC
Confidence            4478999999999999999976

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=93.48  E-value=0.066  Score=52.13  Aligned_cols=28  Identities=25%  Similarity=0.364  Sum_probs=24.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAV  150 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~  150 (396)
                      ..-+.|.||+|||||||++.++......
T Consensus       157 Gq~~~IvG~sGsGKSTLl~~Iag~~~~~  184 (438)
T 2dpy_A          157 GQRMGLFAGSGVGKSVLLGMMARYTRAD  184 (438)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHSCCS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcccCCC
Confidence            4568899999999999999999977543

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=93.46  E-value=0.044  Score=45.73  Aligned_cols=23  Identities=26%  Similarity=0.482  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+|+.++...
T Consensus        19 ~ki~v~G~~~~GKSsli~~l~~~   41 (187)
T 2a9k_A           19 HKVIMVGSGGVGKSALTLQFMYD   41 (187)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhhC
Confidence            56999999999999999999863

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=93.45  E-value=0.11  Score=46.99  Aligned_cols=22  Identities=32%  Similarity=0.460  Sum_probs=20.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..|.|.|.||+|||+|..++..
T Consensus         4 ~~I~lvG~~n~GKSTLin~l~g   25 (274)
T 3i8s_A            4 LTIGLIGNPNSGKTTLFNQLTG   25 (274)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4689999999999999999976

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=93.41  E-value=0.054  Score=45.79  Aligned_cols=24  Identities=21%  Similarity=0.405  Sum_probs=21.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      .-.|++.|++|+|||+|+.++...
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            356999999999999999999874

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=93.40  E-value=0.041  Score=45.62  Aligned_cols=22  Identities=32%  Similarity=0.460  Sum_probs=19.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..|++.|++|+|||+|+.++..
T Consensus        10 ~~i~v~G~~~~GKssl~~~l~~   31 (181)
T 3tw8_B           10 FKLLIIGDSGVGKSSLLLRFAD   31 (181)
T ss_dssp             EEEEEECCTTSCHHHHHHHHCS
T ss_pred             eEEEEECCCCCCHHHHHHHHhc
Confidence            4689999999999999999965

>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}

Probab=93.38  E-value=0.066  Score=56.25  Aligned_cols=22  Identities=45%  Similarity=0.696  Sum_probs=17.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..+++.||||||||+++..+..
T Consensus       376 ~~~lI~GppGTGKT~~i~~~i~  397 (802)
T 2xzl_A          376 PLSLIQGPPGTGKTVTSATIVY  397 (802)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999988766644

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=93.38  E-value=0.042  Score=46.00  Aligned_cols=23  Identities=30%  Similarity=0.466  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+|+.++...
T Consensus        11 ~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A           11 FKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999863

>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=93.37  E-value=0.026  Score=48.49  Aligned_cols=23  Identities=17%  Similarity=0.267  Sum_probs=20.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      ...+.|.|++|+|||||.++++.
T Consensus        26 ~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           26 GIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            45689999999999999999864

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=93.37  E-value=0.1  Score=54.36  Aligned_cols=22  Identities=32%  Similarity=0.443  Sum_probs=19.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..+.|.||.|+||||+.|.++.
T Consensus       577 ~i~~I~GpNGsGKSTlLr~iag  598 (765)
T 1ewq_A          577 ELVLITGPNMAGKSTFLRQTAL  598 (765)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCChHHHHHHHHh
Confidence            4578999999999999999976

>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=93.35  E-value=0.46  Score=51.21  Aligned_cols=21  Identities=33%  Similarity=0.447  Sum_probs=18.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIA  144 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala  144 (396)
                      ..++|.||.|+||||+.|.++
T Consensus       790 ~i~~ItGpNgsGKSTlLr~iG  810 (1022)
T 2o8b_B          790 YCVLVTGPNMGGKSTLMRQAG  810 (1022)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCChHHHHHHHH
Confidence            568899999999999999984

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=93.34  E-value=0.048  Score=45.98  Aligned_cols=23  Identities=22%  Similarity=0.218  Sum_probs=20.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|+|.|++|+|||+|+..+...
T Consensus        21 ~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           21 LKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            45899999999999999988764

>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=93.33  E-value=0.26  Score=54.75  Aligned_cols=28  Identities=21%  Similarity=0.380  Sum_probs=23.8

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +++..-+.++||+||||||+++.+....
T Consensus       441 i~~G~~vaivG~sGsGKSTll~ll~~~~  468 (1321)
T 4f4c_A          441 VNAGQTVALVGSSGCGKSTIISLLLRYY  468 (1321)
T ss_dssp             ECTTCEEEEEECSSSCHHHHHHHHTTSS
T ss_pred             ecCCcEEEEEecCCCcHHHHHHHhcccc
Confidence            3455678999999999999999998855

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=93.33  E-value=0.048  Score=45.55  Aligned_cols=23  Identities=22%  Similarity=0.382  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+|+.++...
T Consensus        19 ~ki~v~G~~~~GKSsl~~~l~~~   41 (183)
T 3kkq_A           19 YKLVVVGDGGVGKSALTIQFFQK   41 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999999864

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=93.32  E-value=0.046  Score=46.33  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=20.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      ...|++.|++|+|||++++++..
T Consensus        23 ~~ki~~vG~~~vGKSsli~~l~~   45 (190)
T 1m2o_B           23 HGKLLFLGLDNAGKTTLLHMLKN   45 (190)
T ss_dssp             -CEEEEEESTTSSHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhc
Confidence            35699999999999999999987

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=93.32  E-value=0.081  Score=45.80  Aligned_cols=31  Identities=23%  Similarity=0.297  Sum_probs=24.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc--CCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES--GAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~--~~~~~~i  154 (396)
                      +-|.|.|+.|+||||.++.++..+  |.+++..
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L~~~~~v~~~   35 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRLVKDYDVIMT   35 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTTTSCEEEE
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHCCCCEEEe
Confidence            347889999999999999999977  4444443

>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=93.32  E-value=0.081  Score=52.76  Aligned_cols=21  Identities=29%  Similarity=0.447  Sum_probs=16.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIA  144 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala  144 (396)
                      +.+++.+|+|+|||.....-+
T Consensus        41 ~d~lv~apTGsGKTl~~~lp~   61 (523)
T 1oyw_A           41 RDCLVVMPTGGGKSLCYQIPA   61 (523)
T ss_dssp             CCEEEECSCHHHHHHHHHHHH
T ss_pred             CCEEEECCCCcHHHHHHHHHH
Confidence            579999999999998554333

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=93.30  E-value=0.049  Score=45.25  Aligned_cols=24  Identities=33%  Similarity=0.412  Sum_probs=21.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ...|++.|++|+|||+|+.++...
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            356899999999999999999863

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=93.30  E-value=0.11  Score=50.42  Aligned_cols=17  Identities=35%  Similarity=0.346  Sum_probs=15.4

Q ss_pred             ceEEEECCCCCcHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLA  140 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la  140 (396)
                      +.+++.||+|+|||..+
T Consensus         3 ~~~lv~a~TGsGKT~~~   19 (431)
T 2v6i_A            3 ELTVLDLHPGAGKTRRV   19 (431)
T ss_dssp             CEEEEECCTTSCTTTTH
T ss_pred             CEEEEEcCCCCCHHHHH
Confidence            67999999999999875

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=93.27  E-value=0.049  Score=45.43  Aligned_cols=22  Identities=23%  Similarity=0.264  Sum_probs=20.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      -.|++.|++|+|||+|+.++..
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~   27 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTT   27 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHc
Confidence            4589999999999999999986

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=93.25  E-value=0.05  Score=45.86  Aligned_cols=23  Identities=30%  Similarity=0.348  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+|+.++...
T Consensus        23 ~ki~vvG~~~~GKSsli~~l~~~   45 (189)
T 2gf9_A           23 FKLLLIGNSSVGKTSFLFRYADD   45 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999874

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=93.24  E-value=0.051  Score=45.89  Aligned_cols=23  Identities=22%  Similarity=0.411  Sum_probs=20.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|++.|++|+|||+|+..+...
T Consensus        22 ~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           22 VNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCcHHHHHHHHHhC
Confidence            35899999999999999999863

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=93.24  E-value=0.15  Score=51.47  Aligned_cols=23  Identities=39%  Similarity=0.429  Sum_probs=19.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      +.+++++|+|+|||..+-.++..
T Consensus       199 ~~~ll~~~TGsGKT~~~~~~~~~  221 (590)
T 3h1t_A          199 KRSLITMATGTGKTVVAFQISWK  221 (590)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CceEEEecCCCChHHHHHHHHHH
Confidence            66899999999999988777654

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=93.23  E-value=0.049  Score=46.01  Aligned_cols=23  Identities=17%  Similarity=0.335  Sum_probs=20.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      ...|++.|++|+|||+++.++..
T Consensus        23 ~~~i~v~G~~~~GKSsli~~l~~   45 (195)
T 1svi_A           23 LPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            45699999999999999999975

>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=93.19  E-value=0.1  Score=46.50  Aligned_cols=34  Identities=24%  Similarity=0.305  Sum_probs=26.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc--CCcEEEEec
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES--GAVFINVRI  156 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~--~~~~~~i~~  156 (396)
                      ...+++.|.+|+||||++..++..+  |.....+++
T Consensus        14 ~~i~~~~GkgGvGKTTl~~~La~~l~~g~~v~vvd~   49 (262)
T 1yrb_A           14 SMIVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVNL   49 (262)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHTTTSCEEEEEC
T ss_pred             eEEEEEeCCCCCCHHHHHHHHHHHHHCCCeEEEEeC
Confidence            3557889999999999999998765  555555553

>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=93.19  E-value=0.1  Score=48.41  Aligned_cols=24  Identities=42%  Similarity=0.472  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .-++|.|+.|+||||+++.+....
T Consensus         5 ~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            5 AVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cEEEEEecCCCCHHHHHHHHHhhc
Confidence            347899999999999999999753

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=93.18  E-value=0.061  Score=45.65  Aligned_cols=24  Identities=21%  Similarity=0.466  Sum_probs=21.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ...|++.|++|+|||+|+.++...
T Consensus        28 ~~ki~v~G~~~vGKSsli~~l~~~   51 (196)
T 2atv_A           28 EVKLAIFGRAGVGKSALVVRFLTK   51 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456999999999999999999874

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=93.18  E-value=0.067  Score=50.40  Aligned_cols=28  Identities=21%  Similarity=0.349  Sum_probs=24.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAV  150 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~  150 (396)
                      ..-+.|.||+|+||||+++.++......
T Consensus        71 Gq~~gIiG~nGaGKTTLl~~I~g~~~~~   98 (347)
T 2obl_A           71 GQRIGIFAGSGVGKSTLLGMICNGASAD   98 (347)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHSCCS
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCC
Confidence            3568999999999999999999987644

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=93.14  E-value=0.064  Score=44.58  Aligned_cols=24  Identities=21%  Similarity=0.176  Sum_probs=21.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      .-.|++.|++|+|||+++.++...
T Consensus         8 ~~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            8 FIKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            356999999999999999999864

>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=93.13  E-value=0.22  Score=48.28  Aligned_cols=55  Identities=15%  Similarity=0.164  Sum_probs=32.6

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhc--CCCCCCCceEEEECCCCCcHHHH
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSH--GKLLGPQKGVLLYGPPGTGKTML  139 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~--~~~~~~~~~vLL~GppGtGKT~l  139 (396)
                      .+-.+|+++.-.+.+.+.+...-.   ..|.-.+.  ...+...+.+++.+|+|+|||..
T Consensus        53 ~~~~~f~~~~l~~~l~~~l~~~g~---~~pt~iQ~~ai~~i~~g~d~i~~a~TGsGKT~a  109 (434)
T 2db3_A           53 QPIQHFTSADLRDIIIDNVNKSGY---KIPTPIQKCSIPVISSGRDLMACAQTGSGKTAA  109 (434)
T ss_dssp             CCCCCGGGSCCCHHHHHHHHHTTC---CSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHH
T ss_pred             CCcCChhhcCCCHHHHHHHHHcCC---CCCCHHHHHHHHHHhcCCCEEEECCCCCCchHH
Confidence            345689998777777777765311   11111100  00011236799999999999984

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=93.11  E-value=0.053  Score=45.67  Aligned_cols=24  Identities=33%  Similarity=0.379  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      -.|++.|++|+|||+|++.+....
T Consensus        15 ~ki~vvG~~~~GKssL~~~l~~~~   38 (198)
T 3t1o_A           15 FKIVYYGPGLSGKTTNLKWIYSKV   38 (198)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHTS
T ss_pred             cEEEEECCCCCCHHHHHHHHHhhc
Confidence            458999999999999998887643

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=93.07  E-value=0.054  Score=45.70  Aligned_cols=23  Identities=35%  Similarity=0.504  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+|+.++...
T Consensus        17 ~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           17 FKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46899999999999999999873

>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=93.04  E-value=0.1  Score=53.89  Aligned_cols=19  Identities=47%  Similarity=0.670  Sum_probs=16.7

Q ss_pred             CceEEEECCCCCcHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAK  141 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~  141 (396)
                      .+++++.||+|+|||+.+-
T Consensus        40 ~~~~lv~apTGsGKT~~~~   58 (702)
T 2p6r_A           40 GKNLLLAMPTAAGKTLLAE   58 (702)
T ss_dssp             CSCEEEECSSHHHHHHHHH
T ss_pred             CCcEEEEcCCccHHHHHHH
Confidence            4679999999999999874

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=93.03  E-value=0.055  Score=46.07  Aligned_cols=23  Identities=26%  Similarity=0.482  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+|+.++...
T Consensus        15 ~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           15 HKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            56899999999999999999863

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=93.03  E-value=0.042  Score=45.69  Aligned_cols=23  Identities=17%  Similarity=0.219  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|++.|++|+|||+|+..+...
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46899999999999999999874

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=93.03  E-value=0.044  Score=45.97  Aligned_cols=21  Identities=19%  Similarity=0.392  Sum_probs=19.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      .|++.|++|+|||+++.++..
T Consensus         3 ki~v~G~~~~GKSsli~~l~~   23 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTG   23 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999986

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=93.02  E-value=0.057  Score=45.46  Aligned_cols=22  Identities=23%  Similarity=0.360  Sum_probs=20.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..|++.|++|+|||+|+.++..
T Consensus        21 ~ki~v~G~~~~GKSsli~~l~~   42 (189)
T 1z06_A           21 FKIIVIGDSNVGKTCLTYRFCA   42 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHc
Confidence            4699999999999999999986

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=93.01  E-value=0.052  Score=45.97  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|++.|++|+|||+|+.++...
T Consensus        24 ~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           24 LKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHC
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            46899999999999999999863

>1dek_A Deoxynucleoside monophosphate kinase; transferase, phosphotransferase; HET: DGP; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1 PDB: 1del_A*

Probab=93.00  E-value=0.06  Score=47.92  Aligned_cols=26  Identities=31%  Similarity=0.331  Sum_probs=23.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcE
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVF  151 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~  151 (396)
                      +.|+|++|||||++++.+...+|.+.
T Consensus         4 i~ltG~~~sGK~tv~~~l~~~~g~~~   29 (241)
T 1dek_A            4 IFLSGVKRSGKDTTADFIMSNYSAVK   29 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSCEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCeE
Confidence            67999999999999999998888664

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=92.99  E-value=0.057  Score=45.53  Aligned_cols=23  Identities=30%  Similarity=0.338  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+|+.++...
T Consensus        23 ~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           23 MELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHcC
Confidence            45899999999999999999863

>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=92.99  E-value=0.052  Score=52.52  Aligned_cols=21  Identities=29%  Similarity=0.513  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~  146 (396)
                      +.|.||+|+|||||+++++..
T Consensus        45 vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           45 ILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             EEEECSTTSSSHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHhCc
Confidence            789999999999999999864

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=92.98  E-value=0.058  Score=45.58  Aligned_cols=23  Identities=22%  Similarity=0.381  Sum_probs=20.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|++.|++|+|||+|+.++...
T Consensus        22 ~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           22 FKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            35899999999999999999863

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=92.98  E-value=0.052  Score=45.88  Aligned_cols=24  Identities=25%  Similarity=0.337  Sum_probs=21.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      -.|++.|++|+|||+|+.++....
T Consensus        24 ~ki~v~G~~~~GKSsli~~l~~~~   47 (191)
T 3dz8_A           24 FKLLIIGNSSVGKTSFLFRYADDT   47 (191)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCcCHHHHHHHHhcCC
Confidence            459999999999999999998754

>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=92.97  E-value=0.19  Score=54.79  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=18.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      .+.++++||+|+|||..+-..+.
T Consensus       199 g~dvLV~ApTGSGKTlva~l~i~  221 (1108)
T 3l9o_A          199 GESVLVSAHTSAGKTVVAEYAIA  221 (1108)
T ss_dssp             TCCEEEECCSSSHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCChHHHHHHHHH
Confidence            36799999999999987754433

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=92.95  E-value=0.059  Score=46.00  Aligned_cols=24  Identities=29%  Similarity=0.464  Sum_probs=21.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ...|++.|++|+|||+|+.++...
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~   31 (207)
T 1vg8_A            8 LLKVIILGDSGVGKTSLMNQYVNK   31 (207)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            356899999999999999999874

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=92.94  E-value=0.061  Score=45.07  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=20.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      ...|++.|++|+|||+++.++..
T Consensus        18 ~~~i~v~G~~~~GKssl~~~l~~   40 (186)
T 1ksh_A           18 ELRLLMLGLDNAGKTTILKKFNG   40 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhc
Confidence            46799999999999999999975

>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=92.93  E-value=0.061  Score=50.82  Aligned_cols=24  Identities=25%  Similarity=0.376  Sum_probs=21.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .-+.|.||+|+|||||+++++...
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCS
T ss_pred             CEEEEECCCCccHHHHHHHHhccc
Confidence            458899999999999999998643

>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19

Probab=92.93  E-value=0.67  Score=48.43  Aligned_cols=34  Identities=26%  Similarity=0.271  Sum_probs=23.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEec
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRI  156 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~  156 (396)
                      +.++++.||+|+|||..+-..+-.   .|...+.+-+
T Consensus       389 ~~~~Ll~a~TGSGKTlvall~il~~l~~g~qvlvlaP  425 (780)
T 1gm5_A          389 PMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVP  425 (780)
T ss_dssp             CCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECS
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeC
Confidence            467999999999999877554332   2544444443

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=92.93  E-value=0.059  Score=45.38  Aligned_cols=23  Identities=26%  Similarity=0.492  Sum_probs=20.7

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+|+.++...
T Consensus        16 ~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           16 LKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46899999999999999999874

>4ddu_A Reverse gyrase; topoisomerase, DNA supercoiling, archaea, helicase, hydrolas; 3.00A {Thermotoga maritima} PDB: 4ddt_A 4ddv_A 4ddw_A 4ddx_A

Probab=92.92  E-value=0.41  Score=52.07  Aligned_cols=20  Identities=30%  Similarity=0.507  Sum_probs=16.4

Q ss_pred             ceEEEECCCCCcHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAI  143 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~al  143 (396)
                      +.+++.+|+|+|||..+-..
T Consensus        94 ~dvlv~ApTGSGKTl~~l~~  113 (1104)
T 4ddu_A           94 KSFTMVAPTGVGKTTFGMMT  113 (1104)
T ss_dssp             CCEEECCSTTCCHHHHHHHH
T ss_pred             CCEEEEeCCCCcHHHHHHHH
Confidence            57999999999999855433

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=92.90  E-value=0.06  Score=45.56  Aligned_cols=23  Identities=30%  Similarity=0.381  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|++.|++|+|||+|+.++...
T Consensus        24 ~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           24 LKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHhcC
Confidence            46899999999999999999874

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=92.89  E-value=0.066  Score=45.58  Aligned_cols=24  Identities=21%  Similarity=0.364  Sum_probs=21.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ...|++.|++|+|||+|+.++...
T Consensus        28 ~~ki~v~G~~~~GKSsli~~l~~~   51 (199)
T 2p5s_A           28 AYKIVLAGDAAVGKSSFLMRLCKN   51 (199)
T ss_dssp             CEEEEEESSTTSSHHHHHHHHHHC
T ss_pred             CeEEEEECcCCCCHHHHHHHHHhC
Confidence            456999999999999999999763

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=92.88  E-value=0.055  Score=45.06  Aligned_cols=22  Identities=18%  Similarity=0.362  Sum_probs=20.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..|++.|++|+|||+|+.++..
T Consensus         7 ~ki~~~G~~~~GKSsli~~l~~   28 (181)
T 3t5g_A            7 RKIAILGYRSVGKSSLTIQFVE   28 (181)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEECcCCCCHHHHHHHHHc
Confidence            4689999999999999999985

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=92.85  E-value=0.06  Score=45.26  Aligned_cols=23  Identities=26%  Similarity=0.368  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+++.++...
T Consensus        24 ~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           24 GEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             eEEEEECCCCCCHHHHHHHHHcC
Confidence            46999999999999999999764

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=92.83  E-value=0.12  Score=44.47  Aligned_cols=31  Identities=26%  Similarity=0.312  Sum_probs=25.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      |.|.|+-||||||.++.++..+   |.+++...-
T Consensus         3 I~~EG~DGsGKsTq~~~L~~~L~~~g~~v~~tre   36 (197)
T 3hjn_A            3 ITFEGIDGSGKSTQIQLLAQYLEKRGKKVILKRE   36 (197)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEES
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEC
Confidence            5788999999999999998865   666665543

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=92.80  E-value=0.07  Score=45.10  Aligned_cols=23  Identities=30%  Similarity=0.543  Sum_probs=20.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      ...|++.|++|+|||+|+.++..
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~   30 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVK   30 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHHc
Confidence            35699999999999999999987

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=92.79  E-value=0.042  Score=45.83  Aligned_cols=23  Identities=26%  Similarity=0.442  Sum_probs=20.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      ...|++.|++|+|||+++.++..
T Consensus        18 ~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           18 ELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCC
T ss_pred             ccEEEEECCCCCCHHHHHHHHhc
Confidence            46799999999999999999864

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=92.77  E-value=0.059  Score=45.90  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=20.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+|+.++...
T Consensus         9 ~ki~v~G~~~~GKSsli~~l~~~   31 (203)
T 1zbd_A            9 FKILIIGNSSVGKTSFLFRYADD   31 (203)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46899999999999999999763

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=92.74  E-value=0.058  Score=46.47  Aligned_cols=23  Identities=30%  Similarity=0.449  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|++|+|||+|++++...
T Consensus        29 ~ki~vvG~~~vGKSsLi~~l~~~   51 (205)
T 1gwn_A           29 CKIVVVGDSQCGKTALLHVFAKD   51 (205)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhcC
Confidence            46999999999999999999874

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.74  E-value=0.014  Score=55.95  Aligned_cols=30  Identities=17%  Similarity=0.097  Sum_probs=24.8

Q ss_pred             hccCCCCCccccCCCccHhHHHHHHHHHHHHH
Q 016044          350 TLNSQSSGWSRNNESNDYQVQAAISELSRLVV  381 (396)
Q Consensus       350 ~~~~~~~~w~di~~~~~~~~~~~L~ei~~~~~  381 (396)
                      ....|+++|+||||++  +++++|.|++.+|+
T Consensus       139 ~~~~p~v~~~dIgGl~--~~k~~l~e~v~~Pl  168 (405)
T 4b4t_J          139 VEKVPDSTYDMVGGLT--KQIKEIKEVIELPV  168 (405)
T ss_dssp             EECSCSCCGGGSCSCH--HHHHHHHHHTHHHH
T ss_pred             ccCCCCCCHHHhCCHH--HHHHHHHHHHHHHH
Confidence            4458999999999999  99999999855444

>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=92.72  E-value=0.94  Score=44.78  Aligned_cols=22  Identities=36%  Similarity=0.690  Sum_probs=18.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      +.+++.+|+|+|||..+-..+.
T Consensus        23 ~~~l~~~~tGsGKT~~~~~~~~   44 (556)
T 4a2p_A           23 KNALICAPTGSGKTFVSILICE   44 (556)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEcCCCChHHHHHHHHHH
Confidence            5699999999999988765544

---

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	396
d1lv7a_	256	c.37.1.20 (A:) AAA domain of cell division protein	4e-78
d1ixza_	247	c.37.1.20 (A:) AAA domain of cell division protein	5e-76
d1r7ra3	265	c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p	8e-58
d1e32a2	258	c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p	9e-53
d1w44a_	321	c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [Ta	6e-35
d1svma_	362	c.37.1.20 (A:) Papillomavirus large T antigen heli	1e-27
d1d2na_	246	c.37.1.20 (A:) Hexamerization domain of N-ethylmal	1e-25
d1ofha_	309	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	2e-20
d1gvnb_	273	c.37.1.21 (B:) Plasmid maintenance system epsilon/	3e-20
d1ixsb2	239	c.37.1.20 (B:4-242) Holliday junction helicase Ruv	4e-16
d1fnna2	276	c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrob	3e-15
d1in4a2	238	c.37.1.20 (A:17-254) Holliday junction helicase Ru	4e-12
d1sxja2	253	c.37.1.20 (A:295-547) Replication factor C1 {Baker	6e-09
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	8e-09
d1g8pa_	333	c.37.1.20 (A:) ATPase subunit of magnesium chelata	4e-06
d1g41a_	443	c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId	6e-06
d1ny5a2	247	c.37.1.20 (A:138-384) Transcriptional activator si	7e-06
d1um8a_	364	c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 2	2e-05
d1lw7a2	192	c.37.1.1 (A:220-411) Transcriptional regulator Nad	1e-04
d1qhxa_	178	c.37.1.3 (A:) Chloramphenicol phosphotransferase {	2e-04
d2fnaa2	283	c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfo	2e-04
d1zp6a1	176	c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {	2e-04
d1yj5a2	172	c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' p	3e-04
d2gnoa2	198	c.37.1.20 (A:11-208) gamma subunit of DNA polymera	5e-04
d1a5ta2	207	c.37.1.20 (A:1-207) delta prime subunit of DNA pol	5e-04
d1r6bx2	268	c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, A	7e-04
d1rkba_	173	c.37.1.1 (A:) Adenylate kinase {Human (Homo sapien	8e-04
d2ak3a1	189	c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow	0.001
d1viaa_	161	c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobact	0.001
d1ly1a_	152	c.37.1.1 (A:) Polynucleotide kinase, kinase domain	0.001
d1akya1	180	c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Bak	0.001
d1ukza_	196	c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Sac	0.001
d1qf9a_	194	c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoi	0.001
d1sxje2	252	c.37.1.20 (E:4-255) Replication factor C5 {Baker's	0.001
d1kaga_	169	c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia	0.001
d1zaka1	189	c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Mai	0.001
d1ak2a1	190	c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Co	0.001
d1knqa_	171	c.37.1.17 (A:) Gluconate kinase {Escherichia coli	0.002
d2i3ba1	189	c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57	0.002
d1e4va1	179	c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Esc	0.002
d2cdna1	181	c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium	0.002
d1zina1	182	c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bac	0.002
d1lvga_	190	c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculu	0.002
d1qvra2	387	c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus	0.002
d1m8pa3	183	c.37.1.15 (A:391-573) ATP sulfurylase C-terminal d	0.003
d3adka_	194	c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [	0.004

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]} Length = 256

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

 Score =  239 bits (612), Expect = 4e-78
 Identities = 88/239 (36%), Positives = 126/239 (52%), Gaps = 9/239 (3%)

Query: 77  VINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGK 136
           ++  D I   F  + G +  K+ + ELV   LR P  F       P KGVL+ GPPGTGK
Sbjct: 1   MLTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIP-KGVLMVGPPGTGK 58

Query: 137 TMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLG 196
           T+LAKAIA E+   F  +  S+ +  + G     V  +F  A K  P IIFIDE+D+   
Sbjct: 59  TLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGR 118

Query: 197 QR---RTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQA 251
           QR       H+       + +   DGF  + N  ++V+AATNRP  LD A+LR  R  + 
Sbjct: 119 QRGAGLGGGHDEREQTLNQMLVEMDGF--EGNEGIIVIAATNRPDVLDPALLRPGRFDRQ 176

Query: 252 FEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
             +G+PD + R QILKV ++   +  +ID   +A    GF+G+DL  +  +AA F+ R 
Sbjct: 177 VVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARG 235

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]} Length = 247

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

 Score =  233 bits (597), Expect = 5e-76
 Identities = 81/232 (34%), Positives = 121/232 (52%), Gaps = 9/232 (3%)

Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
            V F+ + G E  K+ L E+V   L+ P  F         KGVLL GPPG GKT LA+A+
Sbjct: 5   KVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGA-RIPKGVLLVGPPGVGKTHLARAV 62

Query: 144 AKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQR---RT 200
           A E+   FI    S+ +  + G     V  +F  A +  P I+FIDE+D+   +R     
Sbjct: 63  AGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVG 122

Query: 201 SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPD 258
             ++       + +   DGF  +++  ++V+AATNRP  LD A+LR  R  +   I  PD
Sbjct: 123 GGNDEREQTLNQLLVEMDGF--EKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPD 180

Query: 259 RKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
            K R QIL++  +G+ + E++D   LA    GF G+DL  +  +AA  + RE
Sbjct: 181 VKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAARE 232

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 265

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  187 bits (476), Expect = 8e-58
 Identities = 96/250 (38%), Positives = 143/250 (57%), Gaps = 8/250 (3%)

Query: 84  DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAI 143
            V +E IGGLE +K+ L ELV  P+  P+ F    +    KGVL YGPPG GKT+LAKAI
Sbjct: 3   QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPS-KGVLFYGPPGCGKTLLAKAI 61

Query: 144 AKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQR---RT 200
           A E  A FI+++   L++ WFG+++  V  +F  A +  P ++F DE+DS    R     
Sbjct: 62  ANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIG 121

Query: 201 SDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPD 258
               A   +  + +   DG +T +N  V ++ ATNRP  +D AILR  RL Q   I +PD
Sbjct: 122 DGGGAADRVINQILTEMDGMSTKKN--VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 179

Query: 259 RKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKG 318
            K R  ILK  L+   V +++D ++LA +  GF+G+DL E+C++A   +IRE ++ E + 
Sbjct: 180 EKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIESEIRR 239

Query: 319 KPAAAPRPLS 328
           +      P +
Sbjct: 240 ERERQTNPSA 249

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]} Length = 258

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  174 bits (441), Expect = 9e-53
 Identities = 89/260 (34%), Positives = 144/260 (55%), Gaps = 10/260 (3%)

Query: 85  VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIA 144
           V ++ +GG       + E+V LPLR P LF    +  P +G+LLYGPPGTGKT++A+A+A
Sbjct: 1   VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPP-RGILLYGPPGTGKTLIARAVA 59

Query: 145 KESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHE 204
            E+GA F  +    +MSK  G+++  +   F  A K  PAIIFIDE+D+   +R  +  E
Sbjct: 60  NETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGE 119

Query: 205 ALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR--RLPQAFEIGMPDRKER 262
               + ++ + L DG     +  V+V+AATNRP+ +D A+ R  R  +  +IG+PD   R
Sbjct: 120 VERRIVSQLLTLMDGLKQRAH--VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGR 177

Query: 263 AQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLD-----EERK 317
            +IL++  K  K+ +++D + +A    G  G+DL  +C +AA  +IR+ +D     +E  
Sbjct: 178 LEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETI 237

Query: 318 GKPAAAPRPLSRLDLEKVLT 337
                    ++  D    L+
Sbjct: 238 DAEVMNSLAVTMDDFRWALS 257

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]} Length = 321

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

 Score =  129 bits (324), Expect = 6e-35
 Identities = 42/237 (17%), Positives = 80/237 (33%), Gaps = 30/237 (12%)

Query: 83  IDVEFESIGGL-ETIKQALYELVI-LPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLA 140
           + V     G + +  +  L +L   L    P +   G        V++ G   +GKT L 
Sbjct: 81  VSVVQVENGFMKQGHRGWLVDLTGELVGCSPVVAEFGGHRYASGMVIVTGKGNSGKTPLV 140

Query: 141 KAIAKESGA--VFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQR 198
            A+ +  G    +  VR    +S +  D    V  +      LQ  +I ID + + +G  
Sbjct: 141 HALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAM--LQHRVIVIDSLKNVIGAA 198

Query: 199 RTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQA------F 252
             +      + +  F  L D      +   +V+A+ N P+  D+ I+  + +A       
Sbjct: 199 GGNTTSGGIS-RGAFDLLSDIGAMAASRGCVVIASLN-PTSNDDKIVELVKEASRSNSTS 256

Query: 253 EIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIR 309
            +   D     Q+L    +G +                     L     + +  +I 
Sbjct: 257 LVISTDVDGEWQVLTRTGEGLQR----------------LTHTLQTSYGEHSVLTIH 297

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]} Length = 362

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

 Score =  110 bits (275), Expect = 1e-27
 Identities = 42/285 (14%), Positives = 82/285 (28%), Gaps = 28/285 (9%)

Query: 42  REASKKALEHKKEISKRLGRPLIQTNPYEDVIACDVINPDHIDVEFES--IGGLETIKQA 99
           ++A    L  K+  S +L R  + TN + D++    I             + G+  +   
Sbjct: 73  QQAVDTVLAKKRVDSLQLTREQMLTNRFNDLLDRMDIMFGSTGSADIEEWMAGVAWLHCL 132

Query: 100 LYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL 159
           L ++  +     +   +      ++  L  GP  +GKT LA A+ +  G   +NV +   
Sbjct: 133 LPKMDSVVYDFLKCMVYNIP--KKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLD 190

Query: 160 MSK-WFGDAQKLVAAVFSLAYKL------QPAIIFIDEVDSFLGQRRTSDHEALTNMKTE 212
                 G A      VF             P+   I+ +D+       S    L      
Sbjct: 191 RLNFELGVAIDQFLVVFEDVKGTGGESRDLPSGQGINNLDNLRDYLDGSVKVNLEKKH-- 248

Query: 213 FMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGM---PDRKERAQILKVI 269
                             +   N   E       +     +I        K   +  + +
Sbjct: 249 -------LNKRTQIFPPGIVTMN---EYSVPKTLQARFVKQIDFRPKDYLKHCLERSEFL 298

Query: 270 LKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE 314
           L+   ++       L  L      ++  +  +         L  E
Sbjct: 299 LEKRIIQ--SGIALLLMLIWYRPVAEFAQSIQSRIVEWKERLDKE 341

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 246

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score =  101 bits (253), Expect = 1e-25
 Identities = 47/244 (19%), Positives = 94/244 (38%), Gaps = 24/244 (9%)

Query: 90  IGGLETIKQALYELVILP--LRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES 147
           I   + + + L +  +L    +  +         P   VLL GPP +GKT LA  IA+ES
Sbjct: 12  IKWGDPVTRVLDDGELLVQQTKNSDR-------TPLVSVLLEGPPHSGKTALAAKIAEES 64

Query: 148 GAVFINVRISNLMSKWFG-DAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEAL 206
              FI +   + M  +      + +  +F  AYK Q + + +D+++  L         + 
Sbjct: 65  NFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSN 124

Query: 207 TNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQIL 266
             ++   + L           +++   T+R   L E  +        I +P+     Q+L
Sbjct: 125 LVLQ-ALLVLLKKAPPQGRKLLII-GTTSRKDVLQEMEMLNAFST-TIHVPNIATGEQLL 181

Query: 267 KVILKGEKVEENIDFDYLAGLCEG---FTGSDLLEVCKQAAY-----FSIRELLD--EER 316
           +  L+     ++ +   +A   +G   + G   L +  + +      + +R+ L    E 
Sbjct: 182 E-ALELLGNFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVRKFLALLREE 240

Query: 317 KGKP 320
              P
Sbjct: 241 GASP 244

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 309

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

 Score = 89.1 bits (220), Expect = 2e-20
 Identities = 55/267 (20%), Positives = 101/267 (37%), Gaps = 29/267 (10%)

Query: 88  ESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES 147
           + I G    K+A+   +    RR +L    +     K +L+ GP G GKT +A+ +AK +
Sbjct: 14  QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA 73

Query: 148 GAVFINVRISNLMSKWFGDAQKLV-------AAVFSLAYKLQPAIIFIDEVDSFLGQRRT 200
            A FI V  +      +   +          +A  ++    Q  I+FIDE+D    +   
Sbjct: 74  NAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEY 133

Query: 201 SDHEALTN-MKTEFMALWDGFTTDQNA------RVMVLAA----TNRPSELDEAILRRLP 249
           S  +     ++ + + L +G T            ++ +A+      RPS+L   +  RLP
Sbjct: 134 SGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQGRLP 193

Query: 250 QAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIR 309
              E+      +  +IL             +        EG   +   +  K+ A  + R
Sbjct: 194 IRVELTALSAADFERILTEPHA-----SLTEQYKALMATEGVNIAFTTDAVKKIAEAAFR 248

Query: 310 ELLDEERKGKPAAAPRPLSRLDLEKVL 336
                E  G      R L  + +E+++
Sbjct: 249 VNEKTENIG-----ARRLHTV-MERLM 269

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]} Length = 273

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

 Score = 87.3 bits (215), Expect = 3e-20
 Identities = 28/241 (11%), Positives = 51/241 (21%), Gaps = 29/241 (12%)

Query: 85  VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIA 144
           V F        +   L EL+    +  E              LL G PG+GKT L  AI 
Sbjct: 4   VNFTDKQFENRLNDNLEELIQ-GKKAVE---------SPTAFLLGGQPGSGKTSLRSAIF 53

Query: 145 KESGAVFINVRISNLM---SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS 201
           +E+    I +           +    +     V          +           Q    
Sbjct: 54  EETQGNVIVIDNDTFKQQHPNFDELVKLYEKDVVKHVTPYSNRMTEAIISRL-SDQGYNL 112

Query: 202 DHEALTNMKTEFMALWDGFTT----------DQNARVMVLAATNRPSELDEAILR--RLP 249
             E         +                          L    R   +        R  
Sbjct: 113 VIEGTGRTTDVPIQTATMLQAKGYETKMYVMAVPKINSYLGTIERYETMYADDPMTARAT 172

Query: 250 QAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIR 309
                 +  +     +    L    +  +I   Y     + ++  +   +  +       
Sbjct: 173 PKQAHDIVVKNLPTNLET--LHKTGLFSDIRL-YNREGVKLYSSLETPSISPKETLEKEL 229

Query: 310 E 310
            
Sbjct: 230 N 230

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]} Length = 239

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

 Score = 75.0 bits (183), Expect = 4e-16
 Identities = 45/228 (19%), Positives = 74/228 (32%), Gaps = 21/228 (9%)

Query: 87  FESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKE 146
            +   G E +KQ L   +     R E   H         +LL+GPPG GKT LA  IA E
Sbjct: 8   LDEYIGQERLKQKLRVYLEAAKARKEPLEH---------LLLFGPPGLGKTTLAHVIAHE 58

Query: 147 SGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEAL 206
            G          +       A              +  I+FIDE+     Q     + A+
Sbjct: 59  LGVNLRVTSGPAIEKPGDLAA-------ILANSLEEGDILFIDEIHRLSRQAEEHLYPAM 111

Query: 207 TNMKTEFMALWDGFTTD---QNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERA 263
            +   + +            +  R  ++ AT RP  +   +L R      +     +E A
Sbjct: 112 EDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELA 171

Query: 264 QILKVILKGEKVEENIDF-DYLAGLCEGFTGSDLLEVCKQAAYFSIRE 310
           Q +    +   V    +    +     G T      + ++   F+   
Sbjct: 172 QGVMRDARLLGVRITEEAALEIGRRSRG-TMRVAKRLFRRVRDFAQVA 218

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]} Length = 276

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

 Score = 73.3 bits (178), Expect = 3e-15
 Identities = 35/261 (13%), Positives = 77/261 (29%), Gaps = 37/261 (14%)

Query: 76  DVINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTG 135
            V +P ++    + +   E   Q L  L+   LR P                L G PGTG
Sbjct: 7   SVFSPSYV---PKRLPHREQQLQQLDILLGNWLRNPG--------HHYPRATLLGRPGTG 55

Query: 136 KTMLAKAIAKE----SGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEV 191
           KT+  + + +     + A F+ +      +      +   +       +      F+  +
Sbjct: 56  KTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALL 115

Query: 192 DSFLGQRRTSD-------HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAI 244
              L +R                ++ + F+ L          R+ ++   +  + L+   
Sbjct: 116 VEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLD 175

Query: 245 ----LRRLPQAFEIGMPDRKERAQILKVILKGEKVEENID---FDYLAGLCEGFTGSDL- 296
                             + +   IL    K    E +        +A +    T  D  
Sbjct: 176 PSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTN 235

Query: 297 -------LEVCKQAAYFSIRE 310
                  +++  ++AY + + 
Sbjct: 236 RGDARLAIDILYRSAYAAQQN 256

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]} Length = 238

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

 Score = 63.1 bits (152), Expect = 4e-12
 Identities = 50/232 (21%), Positives = 77/232 (33%), Gaps = 22/232 (9%)

Query: 87  FESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKE 146
            +   G E +K+ L   +     R E+  H         VLL GPPG GKT LA  IA E
Sbjct: 8   LDEFIGQENVKKKLSLALEAAKMRGEVLDH---------VLLAGPPGLGKTTLAHIIASE 58

Query: 147 SGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEAL 206
                         S      Q  +AA+  L    +  ++FIDE+           + A+
Sbjct: 59  LQTNIHV------TSGPVLVKQGDMAAI--LTSLERGDVLFIDEIHRLNKAVEELLYSAI 110

Query: 207 TNMKTEFMALWDGFTTD---QNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERA 263
            + + + M                  ++ AT R   L   +  R     E+     KE  
Sbjct: 111 EDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELDFYTVKELK 170

Query: 264 QILKVILKGEKVEENID-FDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDE 314
           +I+K       VE      + +A    G T    + + K+          D 
Sbjct: 171 EIIKRAASLMDVEIEDAAAEMIAKRSRG-TPRIAIRLTKRVRDMLTVVKADR 221

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 253

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 54.0 bits (128), Expect = 6e-09
 Identities = 35/208 (16%), Positives = 59/208 (28%), Gaps = 6/208 (2%)

Query: 87  FESIGGLETIKQALYELVI-LPLRRPELFSHGKLLGPQK--GVLLYGPPGTGKTMLAKAI 143
            + + G +     L   +      +   F H    G       +LYGPPG GKT  A  +
Sbjct: 13  LQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLV 72

Query: 144 AKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDH 203
           A+E G   +    S++ SK   +A    A                  ++           
Sbjct: 73  AQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNG--KHFVIIMD 130

Query: 204 EALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERA 263
           E       +   +       +     ++   N  +        R+    +   PD     
Sbjct: 131 EVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIK 190

Query: 264 QILKVILKGEKVE-ENIDFDYLAGLCEG 290
             L  I   EK + +    D L     G
Sbjct: 191 SRLMTIAIREKFKLDPNVIDRLIQTTRG 218

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 287

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

 Score = 54.0 bits (128), Expect = 8e-09
 Identities = 29/267 (10%), Positives = 66/267 (24%), Gaps = 44/267 (16%)

Query: 82  HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAK 141
             +     +       +AL  + +  L      S              G  G GKT LAK
Sbjct: 10  DENYIPPELRVRRGEAEALARIYLNRLLSGAGLSD-----VNMIYGSIGRVGIGKTTLAK 64

Query: 142 AIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSL------------------------ 177
              K          ++   +         +  + SL                        
Sbjct: 65  FTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALV 124

Query: 178 ---AYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAAT 234
                +    ++ +DE    +        E L  +      +      ++   ++V +  
Sbjct: 125 DNLYVENHYLLVILDEFQ-SMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDV 183

Query: 235 NRPSELDEAILR---RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFD---YLAGLC 288
              S + E I +   ++     +     +E   IL+   +    +   +      ++ + 
Sbjct: 184 RALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVY 243

Query: 289 EGFTGS-----DLLEVCKQAAYFSIRE 310
               G        +   K A   +   
Sbjct: 244 GEDKGGDGSARRAIVALKMACEMAEAM 270

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]} Length = 333

class: Alpha and 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]

 Score = 46.1 bits (108), Expect = 4e-06
 Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 14/58 (24%)

Query: 87  FESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIA 144
           F +I G E +K AL    + P                 GVL++G  GTGK+   +A+A
Sbjct: 6   FSAIVGQEDMKLALLLTAVDPGIG--------------GVLVFGDRGTGKSTAVRALA 49

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]} Length = 443

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

 Score = 45.5 bits (107), Expect = 6e-06
 Identities = 15/37 (40%), Positives = 22/37 (59%)

Query: 124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM 160
           K +L+ GP G GKT +A+ +AK + A FI V  +   
Sbjct: 50  KNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFT 86

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]} Length = 247

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

 Score = 44.9 bits (106), Expect = 7e-06
 Identities = 40/159 (25%), Positives = 64/159 (40%), Gaps = 30/159 (18%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESG--------AVFINVRISNLMSKWFGDAQK-LVAAVFS 176
           VL+ G  G GK ++A+ I K S             ++      ++ FG  +     AV S
Sbjct: 26  VLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAELFGYEKGAFTGAVSS 85

Query: 177 LAYKLQPA---IIFIDEVD--SFLGQRRTSDHEALTNMKT-EFMALWDGFTTDQNARVMV 230
                + A    +F+DE+   S   Q +      L  +++ +F  L  G   +    V +
Sbjct: 86  KEGFFELADGGTLFLDEIGELSLEAQAK-----LLRVIESGKFYRL--GGRKEIEVNVRI 138

Query: 231 LAATNRPSE-------LDEAILRRLPQAFEIGMPDRKER 262
           LAATNR  +         E +  RL    EI +P  +ER
Sbjct: 139 LAATNRNIKELVKEGKFREDLYYRL-GVIEIEIPPLRER 176

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]} Length = 364

class: Alpha and 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]

 Score = 43.7 bits (102), Expect = 2e-05
 Identities = 25/121 (20%), Positives = 43/121 (35%), Gaps = 12/121 (9%)

Query: 121 GPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWF------GDAQKLVAAV 174
             +  +LL GP G+GKT++A+ +AK           ++L    +          +L+ A 
Sbjct: 66  LSKSNILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQAS 125

Query: 175 FSLAYKLQPAIIFIDEVD------SFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARV 228
                K Q  I+FIDE+D            R    E +     + +         +  R 
Sbjct: 126 DWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVNIPPKGGRK 185

Query: 229 M 229
            
Sbjct: 186 H 186

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]} Length = 192

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]

 Score = 40.4 bits (93), Expect = 1e-04
 Identities = 8/43 (18%), Positives = 15/43 (34%)

Query: 124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGD 166
           K V + G   +GK++L   +A               + +  G 
Sbjct: 8   KTVAILGGESSGKSVLVNKLAAVFNTTSAWEYGREFVFEKLGG 50

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]} Length = 178

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]

 Score = 40.0 bits (92), Expect = 2e-04
 Identities = 5/43 (11%), Positives = 17/43 (39%)

Query: 123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFG 165
            + ++L G    GK+ + + +       ++   + +L+     
Sbjct: 3   TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLIEAMPL 45

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]} Length = 283

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

 Score = 40.5 bits (93), Expect = 2e-04
 Identities = 15/119 (12%), Positives = 34/119 (28%), Gaps = 9/119 (7%)

Query: 109 RRPELFSHGKLL-----GPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKW 163
            R + F   K +           L+ G   TGK+ + K    E    +I + +     + 
Sbjct: 10  NRKDFFDREKEIEKLKGLRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERN 69

Query: 164 FGDAQKLVAAVFSLAYKL----QPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWD 218
           +   +  +  +     KL       +  +  +   +              +  F  L +
Sbjct: 70  YISYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLE 128

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]} Length = 176

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]

 Score = 39.2 bits (90), Expect = 2e-04
 Identities = 21/136 (15%), Positives = 42/136 (30%), Gaps = 10/136 (7%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL--------MSKWFGDAQKLVAAVFSL 177
           +LL G PG+GK+ +A+A+A   G   ++    +L        +  W   + +    +  +
Sbjct: 7   LLLSGHPGSGKSTIAEALANLPGVPKVHFHSDDLWGYIKHGRIDPWLPQSHQQNRMIMQI 66

Query: 178 AYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP 237
           A  +  A  +  E    +                     +    T     +         
Sbjct: 67  AADV--AGRYAKEGYFVILDGVVRPDWLPAFTALARPLHYIVLRTTAAEAIERCLDRGGD 124

Query: 238 SELDEAILRRLPQAFE 253
           S  D  ++  L   F 
Sbjct: 125 SLSDPLVVADLHSQFA 140

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 39.1 bits (90), Expect = 3e-04
 Identities = 13/69 (18%), Positives = 23/69 (33%), Gaps = 6/69 (8%)

Query: 105 ILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWF 164
            LP     L  + ++      V+  G PG GK+   +     +G V +N        +  
Sbjct: 2   YLPESSSLLSPNPEV------VVAVGFPGAGKSTFIQEHLVSAGYVHVNRDTLGSWQRCV 55

Query: 165 GDAQKLVAA 173
              Q  +  
Sbjct: 56  SSCQAALRQ 64

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]} Length = 198

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 38.9 bits (90), Expect = 5e-04
 Identities = 16/168 (9%), Positives = 47/168 (27%), Gaps = 24/168 (14%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVF---INVRISNLMSKWFG--DAQKLVAAVFSLAYK 180
           +L+ G   +    ++  + +          +V   +   +  G  D + +   +      
Sbjct: 18  ILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIRTIKDFLNYSPEL 77

Query: 181 LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSEL 240
                + + + +           +   N   + +        +     +++  T R   L
Sbjct: 78  YTRKYVIVHDCERM--------TQQAANAFLKAL-------EEPPEYAVIVLNTRRWHYL 122

Query: 241 DEAILRRLPQAFEIGMPDRKERAQILKVILKGEKV---EENIDFDYLA 285
              I  R+     + +P         K+    E++   E +      A
Sbjct: 123 LPTIKSRV-FRVVVNVPKEFRDLVKEKIGDLWEELPLLERDFKTALEA 169

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

 Score = 38.6 bits (88), Expect = 5e-04
 Identities = 19/173 (10%), Positives = 37/173 (21%), Gaps = 13/173 (7%)

Query: 127 LLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAII 186
           L+   PG G   L  A+++           S    +     Q      +      +    
Sbjct: 28  LIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNT 87

Query: 187 FIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNA---------RVMVLAATNRP 237
              +    + ++                          NA                  R 
Sbjct: 88  LGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATRE 147

Query: 238 SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEG 290
            E   A LR   +   +  P  +     L    +   + ++        L  G
Sbjct: 148 PERLLATLRSRCRLHYLAPPPEQYAVTWLS---REVTMSQD-ALLAALRLSAG 196

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]} Length = 268

class: Alpha and 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]

 Score = 38.8 bits (90), Expect = 7e-04
 Identities = 40/254 (15%), Positives = 89/254 (35%), Gaps = 56/254 (22%)

Query: 123 QKGVLLYGPPGTGKTMLAKAIAK------------ESGAVFINVRISNLMSKWFGDAQKL 170
           +   LL G  G GKT +A+ +A             +     +++      +K+ GD +K 
Sbjct: 39  KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKR 98

Query: 171 VAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMV 230
             A+     +   +I+FIDE+ + +G    S  +       +   L     +    RV+ 
Sbjct: 99  FKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQ------VDAANLIKPLLSSGKIRVI- 151

Query: 231 LAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEG 290
              +    E      +      +  +  R       K+ +    +EE +    + GL   
Sbjct: 152 --GSTTYQEFSNIFEK------DRALARR-----FQKIDITEPSIEETV--QIINGLKPK 196

Query: 291 FTGSDLL----EVCKQAAYFSIR------------ELLDE----ERKGKPAAAPRPLSRL 330
           +     +    +  + A   +++            +++DE     R    +   + ++  
Sbjct: 197 YEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAGARARLMPVSKRKKTVNVA 256

Query: 331 DLEKVLTTSRKTRV 344
           D+E V+  +R  R+
Sbjct: 257 DIESVV--ARIARI 268

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]} Length = 173

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]

 Score = 37.6 bits (86), Expect = 8e-04
 Identities = 16/30 (53%), Positives = 20/30 (66%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVR 155
           +LL G PG GKT L K +A +SG  +INV 
Sbjct: 7   ILLTGTPGVGKTTLGKELASKSGLKYINVG 36

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]} Length = 189

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]

 Score = 37.9 bits (87), Expect = 0.001
 Identities = 7/29 (24%), Positives = 13/29 (44%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINV 154
             + G PG+GK  ++  I K      ++ 
Sbjct: 9   AAIMGAPGSGKGTVSSRITKHFELKHLSS 37

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]} Length = 161

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]

 Score = 37.2 bits (85), Expect = 0.001
 Identities = 24/158 (15%), Positives = 54/158 (34%), Gaps = 5/158 (3%)

Query: 124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKL-Q 182
           K ++  G  G+GK+ LA+A+AK+   VF++             ++       +   +  Q
Sbjct: 1   KNIVFIGFMGSGKSTLARALAKDLDLVFLDSDFLIEQKFNQKVSEIFEQKRENFFREQEQ 60

Query: 183 PAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDE 242
               F    +                 K  F             R+     + RP   DE
Sbjct: 61  KMADFFSSCEKACIATGGGFVNVSNLEKAGFCIYLKADFEYLKKRLDKDEISKRPLFYDE 120

Query: 243 AILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENID 280
              ++L   +   +   +++A    + ++ + ++E + 
Sbjct: 121 IKAKKL---YNERLSKYEQKANF-ILNIENKNIDELLS 154

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]} Length = 152

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]

 Score = 37.0 bits (84), Expect = 0.001
 Identities = 20/160 (12%), Positives = 46/160 (28%), Gaps = 17/160 (10%)

Query: 123 QKGVLLYGPPGTGKTMLAKAIAKES-GAVFINVR--ISNLMSKWFGDAQKLVAAVFSLAY 179
           +K +L  G PG+GK+  A+    ++ G   IN      ++M+    D  K       +  
Sbjct: 2   KKIILTIGCPGSGKSTWAREFIAKNPGFYNINRDDYRQSIMAHEERDEYKYTKKKEGIVT 61

Query: 180 KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE 239
            +Q              +        L   +      +      +    +          
Sbjct: 62  GMQFDTAKSILYGGDSVKGVIISDTNLNPERRLAWETFAKEYGWKVEHKVFDVP------ 115

Query: 240 LDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENI 279
               +++R  +     +P    R+         + + E +
Sbjct: 116 -WTELVKRNSKRGTKAVPIDVLRSMY-------KSMREYL 147

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 180

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]

 Score = 37.2 bits (85), Expect = 0.001
 Identities = 9/29 (31%), Positives = 14/29 (48%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINV 154
           ++L GPPG GK   A  + +   A  +  
Sbjct: 5   MVLIGPPGAGKGTQAPNLQERFHAAHLAT 33

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 196

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]

 Score = 37.7 bits (86), Expect = 0.001
 Identities = 19/144 (13%), Positives = 43/144 (29%), Gaps = 6/144 (4%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVR--ISNLMSKWFGDAQKLVAAVFSLAYKLQP 183
           + + G PG GK    + + K+   V ++    +     +      +L+         +  
Sbjct: 11  IFVLGGPGAGKGTQCEKLVKDYSFVHLSAGDLLRAEQGRAGSQYGELIKNCIKEGQIVPQ 70

Query: 184 AIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEA 243
            I      ++     + + H+ L +     M     F  D      +          ++ 
Sbjct: 71  EITLALLRNAISDNVKANKHKFLIDGFPRKMDQAISFERDIVESKFI----LFFDCPEDI 126

Query: 244 ILRRLPQAFEIGMPDRKERAQILK 267
           +L RL +  +           I K
Sbjct: 127 MLERLLERGKTSGRSDDNIESIKK 150

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

 Score = 37.6 bits (86), Expect = 0.001
 Identities = 9/29 (31%), Positives = 15/29 (51%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINV 154
           V + G PG+GK      I ++ G V ++ 
Sbjct: 9   VFVLGGPGSGKGTQCANIVRDFGWVHLSA 37

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 252

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 37.8 bits (86), Expect = 0.001
 Identities = 26/134 (19%), Positives = 42/134 (31%), Gaps = 15/134 (11%)

Query: 87  FESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKE 146
             ++   E +   L  L      +P    H         +LLYGP GTGK     A+ + 
Sbjct: 10  LNALSHNEELTNFLKSLS----DQPRDLPH---------LLLYGPNGTGKKTRCMALLES 56

Query: 147 SGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEAL 206
                +     ++        +KL   V S  Y     I   D  ++     +    E  
Sbjct: 57  IFGPGVYRLKIDVRQFVTASNRKLELNVVSSPY--HLEITPSDMGNNDRIVIQELLKEVA 114

Query: 207 TNMKTEFMALWDGF 220
              + +F    DG 
Sbjct: 115 QMEQVDFQDSKDGL 128

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]} Length = 169

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]

 Score = 37.0 bits (84), Expect = 0.001
 Identities = 8/41 (19%), Positives = 17/41 (41%)

Query: 124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWF 164
           + + L GP G GK+ + + +A++    F +           
Sbjct: 3   RNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSDQEIEKRTGA 43

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]} Length = 189

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]

 Score = 37.2 bits (85), Expect = 0.001
 Identities = 17/161 (10%), Positives = 40/161 (24%), Gaps = 9/161 (5%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVR-ISNLMSKWFGDAQKLVAAVFSLAYKLQPA 184
           V++ G P +GK    + I  +     I+   +         +  K           +   
Sbjct: 6   VMISGAPASGKGTQCELIKTKYQLAHISAGDLLRAEIAAGSENGKRAKEFMEKGQLVPDE 65

Query: 185 IIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVL--------AATNR 236
           I+     +         +   L      +       T +      +L             
Sbjct: 66  IVVNMVKERLRQPDAQENGWLLDGYPRSYSQAMALETLEIRPDTFILLDVPDELLVERVV 125

Query: 237 PSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE 277
             + +E +  RL   ++           I+  +     V+ 
Sbjct: 126 FDDTEEKVKLRLETYYQNIESLLSTYENIIVKVQGDATVDA 166

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]} Length = 190

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]

 Score = 37.2 bits (85), Expect = 0.001
 Identities = 10/29 (34%), Positives = 13/29 (44%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINV 154
            +L GPPG GK   A  +AK      +  
Sbjct: 6   AVLLGPPGAGKGTQAPKLAKNFCVCHLAT 34

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]} Length = 171

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]

 Score = 36.5 bits (83), Expect = 0.002
 Identities = 9/31 (29%), Positives = 17/31 (54%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRI 156
            +L G  G+GK+ +A  +A +  A F++   
Sbjct: 9   YVLMGVSGSGKSAVASEVAHQLHAAFLDGDF 39

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]} Length = 189

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]

 Score = 36.9 bits (84), Expect = 0.002
 Identities = 11/33 (33%), Positives = 16/33 (48%)

Query: 124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI 156
           + V L GPPG GKT L    ++   +  + V  
Sbjct: 2   RHVFLTGPPGVGKTTLIHKASEVLKSSGVPVDG 34

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]} Length = 179

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]

 Score = 36.8 bits (84), Expect = 0.002
 Identities = 9/29 (31%), Positives = 15/29 (51%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINV 154
           ++L G P  GK   A+ I ++ G   I+ 
Sbjct: 3   IILLGAPVAGKGTQAQFIMEKYGIPQIST 31

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]} Length = 181

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]

 Score = 36.8 bits (84), Expect = 0.002
 Identities = 13/29 (44%), Positives = 17/29 (58%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINV 154
           VLL GPPG GK   A  +A++ G   I+ 
Sbjct: 3   VLLLGPPGAGKGTQAVKLAEKLGIPQIST 31

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]} Length = 182

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]

 Score = 36.4 bits (83), Expect = 0.002
 Identities = 10/29 (34%), Positives = 14/29 (48%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINV 154
           ++L G PG GK   A+ I    G   I+ 
Sbjct: 3   LVLMGLPGAGKGTQAEKIVAAYGIPHIST 31

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]} Length = 190

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]

 Score = 36.5 bits (83), Expect = 0.002
 Identities = 36/201 (17%), Positives = 61/201 (30%), Gaps = 26/201 (12%)

Query: 126 VLLYGPPGTGKTMLAKAIAKESGAVFINVR----ISNLMSKWFGDAQKLVAAVFSLAYKL 181
           V+L GP G GK+ L K + +E  ++F         +    +  G     V          
Sbjct: 3   VVLSGPSGAGKSTLLKKLFQEHSSIFGFSVSHTTRNPRPGEEDGKDYYFVTREMMQRDIA 62

Query: 182 QPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNAR-----VMVLAATNR 236
               I   E    L         A+  M    +   D        +     + +      
Sbjct: 63  AGDFIEHAEFSGNLYGTSKEAVRAVQAMNRICVLDVDLQGVRSIKKTDLCPIYIFVQPPS 122

Query: 237 PSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDL 296
              L++ +  R  +  E  +  R   A+        E  +E   FD +          DL
Sbjct: 123 LDVLEQRLRLRNTETEES-LAKRLAAART-----DMESSKEPGLFDLV------IINDDL 170

Query: 297 LEVCKQAAYFSIRELLDEERK 317
                  AY ++++ L EE K
Sbjct: 171 -----DKAYATLKQALSEEIK 186

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]} Length = 387

class: Alpha and 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]

 Score = 37.3 bits (86), Expect = 0.002
 Identities = 41/177 (23%), Positives = 70/177 (39%), Gaps = 27/177 (15%)

Query: 126 VLLYGPPGTGKTMLAKAIA-----KESGAVFINVRISNLM-------SKWFGDAQKLVAA 173
            +L G PG GKT + + +A      +        RI +L        +K+ G+ ++ + A
Sbjct: 46  PVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEERLKA 105

Query: 174 VFSLAYKLQPAII-FIDEVDSFLGQRRTSDHEALTNMKTEFMALWD----GFTTDQNARV 228
           V     + Q  +I FIDE+ + +G  +        NM    +A  +    G TT    R 
Sbjct: 106 VIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGELRLIGATTLDEYRE 165

Query: 229 MVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLA 285
           +         E D A+ RR  Q   +  P  +E   IL+ + +  +V   +     A
Sbjct: 166 I---------EKDPALERRF-QPVYVDEPTVEETISILRGLKEKYEVHHGVRISDSA 212

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]} Length = 183

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]

 Score = 35.8 bits (81), Expect = 0.003
 Identities = 7/34 (20%), Positives = 13/34 (38%), Gaps = 2/34 (5%)

Query: 122 PQKG--VLLYGPPGTGKTMLAKAIAKESGAVFIN 153
             +G  + L G   +GK  +A+A+          
Sbjct: 3   ATQGFTIFLTGYMNSGKDAIARALQVTLNQQGGR 36

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

 Score = 36.1 bits (82), Expect = 0.004
 Identities = 8/31 (25%), Positives = 16/31 (51%)

Query: 124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINV 154
           K + + G PG+GK    + I ++ G   ++ 
Sbjct: 9   KIIFVVGGPGSGKGTQCEKIVQKYGYTHLST 39

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	396
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	100.0
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	100.0
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	100.0
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	100.0
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	99.92
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	99.91
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	99.91
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	99.9
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	99.87
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.81
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.81
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.8
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	99.79
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.76
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.75
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	99.71
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.69
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.68
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	99.67
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.66
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	99.61
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	99.6
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	99.58
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.54
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	99.53
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	99.53
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.52
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	99.45
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	99.44
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	99.35
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	99.24
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	99.18
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.13
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.56
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	98.22
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	98.17
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	98.16
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	98.1
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	98.07
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	98.04
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	98.03
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.97
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.94
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.91
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.83
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.82
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.82
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.78
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.77
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.76
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.76
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.72
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.72
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.68
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.68
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.68
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.68
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.68
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.68
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.67
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.66
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.65
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.63
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	97.61
d1okkd2	207	GTPase domain of the signal recognition particle r	97.59
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.59
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	97.57
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.57
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.55
d1vmaa2	213	GTPase domain of the signal recognition particle r	97.51
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.5
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.48
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.37
d1tuea_	205	Replication protein E1 helicase domain {Human papi	97.36
d1j8yf2	211	GTPase domain of the signal sequence recognition p	97.35
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.34
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	97.32
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	97.26
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.15
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.12
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.08
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.08
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	97.07
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	97.05
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	97.02
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.0
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.0
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	96.99
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	96.97
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.8
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.76
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.73
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	96.69
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	96.65
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	96.61
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.57
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.56
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.5
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.47
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.41
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.36
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.21
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	96.19
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.18
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.18
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	96.17
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.14
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.1
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	96.08
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	96.08
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.0
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.82
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	95.79
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.78
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.78
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.76
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	95.76
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.66
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	95.66
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.57
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.55
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.52
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.5
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	95.49
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	95.46
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.37
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.28
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.28
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	95.28
d2fh5b1	207	Signal recognition particle receptor beta-subunit	95.19
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	95.13
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	95.09
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	95.07
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	95.06
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	95.04
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	95.02
d1g2912	240	Maltose transport protein MalK, N-terminal domain	95.01
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	94.93
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	94.93
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	94.89
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.87
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.85
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	94.83
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.8
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	94.78
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.75
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	94.74
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	94.74
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	94.71
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	94.63
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	94.6
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	94.58
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	94.56
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	94.51
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	94.5
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	94.48
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	94.47
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.45
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	94.44
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.42
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	94.39
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.38
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	94.37
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	94.35
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	94.35
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	94.31
d1nrjb_	209	Signal recognition particle receptor beta-subunit	94.29
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.25
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	94.23
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	94.22
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	94.18
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	94.17
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.17
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	94.14
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	94.1
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	94.05
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	94.04
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	94.02
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.02
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	93.94
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	93.9
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	93.77
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	93.77
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	93.77
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	93.76
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	93.72
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	93.72
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	93.72
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	93.69
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	93.68
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	93.64
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	93.63
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.61
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	93.56
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	93.39
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	93.33
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	93.32
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	93.31
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	93.29
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.28
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	93.21
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	93.11
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.06
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	93.02
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	93.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	92.95
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	92.94
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	92.77
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	92.7
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	92.69
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	92.61
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	92.61
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	92.6
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	92.46
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	92.37
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	92.12
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	91.91
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	91.85
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	91.8
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	91.75
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.6
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	91.47
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	91.46
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	91.42
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	91.27
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	91.23
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	91.15
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	91.06
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	90.4
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	90.35
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	90.18
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	89.95
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	89.93
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	89.78
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	89.72
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	89.33
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	89.03
d1xpua3	289	Transcription termination factor Rho, ATPase domai	88.78
d1t5la1	413	Nucleotide excision repair enzyme UvrB {Bacillus c	88.17
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	88.14
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	87.84
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	87.79
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	87.69
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	87.27
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	87.0
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	86.92
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	86.56
d1z63a1	230	Helicase of the SNF2/Rad54 hamily {Sulfolobus solf	86.01
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	85.96
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	85.71
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	85.69
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	85.57
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	84.77
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	84.16
d1xbta1	133	Thymidine kinase, TK1, N-terminal domain {Human (H	84.14
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	83.98
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	83.83
d1c4oa1	408	Nucleotide excision repair enzyme UvrB {Thermus th	83.66
d1f9va_	342	Kinesin motor Ncd (non-claret disjunctional) {Bake	83.57
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	83.55
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	83.48
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	83.36
d1bg2a_	323	Kinesin {Human (Homo sapiens) [TaxId: 9606]}	83.29
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	82.98
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	82.69
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	82.63
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	81.61
d1ry6a_	330	Kinesin {Malaria parasite (Plasmodium falciparum)	81.35
d1goja_	354	Kinesin {Neurospora crassa [TaxId: 5141]}	81.21
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	81.01
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	81.0
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	80.81
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	80.73

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1.4e-45  Score=336.07  Aligned_cols=246  Identities=37%  Similarity=0.569  Sum_probs=218.0

Q ss_pred             cCCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecc
Q 016044           78 INPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS  157 (396)
Q Consensus        78 ~~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~  157 (396)
                      +.++.+.++|+||+|++++|++|.+.+.+ +.+++.|...+ ..+++++|||||||||||++|+++|++++.+++.++++
T Consensus         2 ~~~~~~~~t~~Di~Gl~~~k~~l~e~v~~-~~~~~~~~~~g-~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~~~i~~~   79 (256)
T d1lv7a_           2 LTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLG-GKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGS   79 (256)
T ss_dssp             EEECSSCCCGGGSCSCHHHHHHTHHHHHH-HHCGGGC------CCCCEEEEECCTTSCHHHHHHHHHHHHTCCEEEECSC
T ss_pred             CCCCCCCCCHHHHhchHHHHHHHHHHHHH-HHCHHHHHHcC-CCCCCeEEeeCCCCCCccHHHHHHHHHcCCCEEEEEhH
Confidence            34577899999999999999999998765 88888888753 66789999999999999999999999999999999999


Q ss_pred             cccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCC---chHHHHhhHHHHHHHhhccCcCCCCcEEEEEec
Q 016044          158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS---DHEALTNMKTEFMALWDGFTTDQNARVMVLAAT  234 (396)
Q Consensus       158 ~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~at  234 (396)
                      ++.++|.|++++.++.+|..|+.+.||||||||+|.+++.+...   ......+++++|+..++++..  +.++++|+||
T Consensus        80 ~l~~~~~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~--~~~v~vIatT  157 (256)
T d1lv7a_          80 DFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG--NEGIIVIAAT  157 (256)
T ss_dssp             SSTTSCCCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCS--SSCEEEEEEE
T ss_pred             HhhhcchhHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCC--CCCEEEEEeC
Confidence            99999999999999999999999999999999999998776433   234556778899999998854  5679999999


Q ss_pred             CCCCCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHH
Q 016044          235 NRPSELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELL  312 (396)
Q Consensus       235 n~~~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~  312 (396)
                      |.|+.+|++++|  ||+..++|++|+.++|.+||+.++.+..+..++++..+++.|+||+++||.++|++|+..++++. 
T Consensus       158 n~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t~G~s~adi~~l~~~A~~~a~~~~-  236 (256)
T d1lv7a_         158 NRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGN-  236 (256)
T ss_dssp             SCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTT-
T ss_pred             CCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCcccCHHHHHHhCCCCCHHHHHHHHHHHHHHHHHcC-
Confidence            999999999998  99999999999999999999999999988889999999999999999999999999998887642 


Q ss_pred             HHHhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          313 DEERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       313 ~~~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                                 ...|+.+||++|++++
T Consensus       237 -----------~~~i~~~d~~~Al~rv  252 (256)
T d1lv7a_         237 -----------KRVVSMVEFEKAKDKI  252 (256)
T ss_dssp             -----------CSSBCHHHHHHHHHHH
T ss_pred             -----------CCccCHHHHHHHHHHH
Confidence                       2569999999999875

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=4.2e-45  Score=334.82  Aligned_cols=250  Identities=36%  Similarity=0.615  Sum_probs=223.2

Q ss_pred             cccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhh
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWF  164 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~  164 (396)
                      ++|+||+|++++|++|++.+..|+.+++.|...+ ..+++|+|||||||||||++++++|++++.+++.++++.+.+.+.
T Consensus         1 ~~~~dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g-~~~~~giLL~GppGtGKT~l~~ala~~~~~~~~~i~~~~l~~~~~   79 (258)
T d1e32a2           1 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIG-VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA   79 (258)
T ss_dssp             CCGGGCCSCSHHHHHHHHHHHHHHHCHHHHHHCC-CCCCCEEEEECCTTSSHHHHHHHHHHHTTCEEEEECHHHHTTSCT
T ss_pred             CChhhhccHHHHHHHHHHHHHHHhcCHHHHHhCC-CCCCceeEEecCCCCCchHHHHHHHHHhCCeEEEEEchhhccccc
Confidence            5899999999999999999999999999999865 678899999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHH
Q 016044          165 GDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAI  244 (396)
Q Consensus       165 g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l  244 (396)
                      |+.+..++.+|..|...+|+||||||+|.+++++.....+...++...++..+++...  +.+++||+|||.++.+|+++
T Consensus        80 g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~--~~~vlvi~tTn~~~~ld~al  157 (258)
T d1e32a2          80 GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQ--RAHVIVMAATNRPNSIDPAL  157 (258)
T ss_dssp             THHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCC--SSCEEEEEEESCGGGSCGGG
T ss_pred             ccHHHHHHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccc--cCCccEEEeCCCccccchhh
Confidence            9999999999999999999999999999999887665555566677788877776643  66799999999999999999


Q ss_pred             Hh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCC-
Q 016044          245 LR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGKPA-  321 (396)
Q Consensus       245 ~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~-  321 (396)
                      +|  ||+..+++++|+.++|..||+.++++.....++++..||+.|+|||++||.++|++|+..++++........... 
T Consensus       158 ~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~~~~~~la~~t~G~s~adl~~lv~~A~~~a~~~~~~~~~~~~~~~  237 (258)
T d1e32a2         158 RRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETI  237 (258)
T ss_dssp             TSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTTCCHHHHHHHCTTCCHHHHHHHHHHHHHHHHHHHHHHHCCCSSCC
T ss_pred             hhcccccceeECCCCCHHHHHHHhhhhccCcccccccchhhhhhcccCCCHHHHHHHHHHHHHHHHHhhccccchhhhhh
Confidence            99  999999999999999999999999998888889999999999999999999999999999998865443221111 


Q ss_pred             ----CCCCCCCHHHHHHHHH
Q 016044          322 ----AAPRPLSRLDLEKVLT  337 (396)
Q Consensus       322 ----~~~~~i~~~d~~~al~  337 (396)
                          ....+++++||+.||.
T Consensus       238 ~~~~~~~~~it~~Df~~AL~  257 (258)
T d1e32a2         238 DAEVMNSLAVTMDDFRWALS  257 (258)
T ss_dssp             BHHHHHHCCBCHHHHHHHHT
T ss_pred             hhhhhccCccCHHHHHHHhC
Confidence                1235699999999986

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=4.5e-45  Score=331.49  Aligned_cols=240  Identities=35%  Similarity=0.561  Sum_probs=213.2

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      +.|+++|+||+|++++|++|++.+. ++.+++.|...+ ..+++|+||+||||||||++|+++|++++.+++.++++++.
T Consensus         2 ~~p~~~~~di~G~~~~k~~l~~~i~-~l~~~~~~~~~g-~~~~~giLl~GppGtGKT~la~aia~~~~~~~~~i~~~~l~   79 (247)
T d1ixza_           2 EAPKVTFKDVAGAEEAKEELKEIVE-FLKNPSRFHEMG-ARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFV   79 (247)
T ss_dssp             CCCSCCGGGCCSCHHHHHHHHHHHH-HHHCHHHHHHTT-CCCCSEEEEECCTTSSHHHHHHHHHHHTTCCEEEEEHHHHH
T ss_pred             CCCCCcHHHHccHHHHHHHHHHHHH-HHHCHHHHHHcC-CCCCceEEEecCCCCChhHHHHHHHHHcCCCEEEEEhHHhh
Confidence            5678999999999999999988765 588999888765 66789999999999999999999999999999999999999


Q ss_pred             chhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCC---chHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          161 SKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTS---DHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       161 ~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~---~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      ++|+|++++.++.+|..|+..+|+||||||+|.+++++...   ......++++.|+..++++..  +.+++||+|||.+
T Consensus        80 ~~~~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~--~~~vivi~tTn~~  157 (247)
T d1ixza_          80 EMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEK--DTAIVVMAATNRP  157 (247)
T ss_dssp             HSCTTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCT--TCCEEEEEEESCG
T ss_pred             hccccHHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCC--CCCEEEEEeCCCc
Confidence            99999999999999999999999999999999998776433   234456688899999998754  5679999999999


Q ss_pred             CCCcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHH
Q 016044          238 SELDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEE  315 (396)
Q Consensus       238 ~~l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~  315 (396)
                      +.+|++++|  ||+..++|++|+.++|.+||+.++.......+.+++.+++.|+||+++||.++|++|+..++++.    
T Consensus       158 ~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~~~~~~la~~t~g~s~~di~~lv~~A~l~a~~~~----  233 (247)
T d1ixza_         158 DILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREG----  233 (247)
T ss_dssp             GGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTTCCHHHHHHTCTTCCHHHHHHHHHHHHHHHHHTT----
T ss_pred             cccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccccCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHcC----
Confidence            999999997  99999999999999999999999998888889999999999999999999999999998887652    


Q ss_pred             hcCCCCCCCCCCCHHHHHHHH
Q 016044          316 RKGKPAAAPRPLSRLDLEKVL  336 (396)
Q Consensus       316 ~~~~~~~~~~~i~~~d~~~al  336 (396)
                              ...|+++||++|+
T Consensus       234 --------~~~i~~~d~~~A~  246 (247)
T d1ixza_         234 --------RRKITMKDLEEAA  246 (247)
T ss_dssp             --------CSSBCHHHHHHHT
T ss_pred             --------CCCcCHHHHHHhh
Confidence                    2579999999985

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=4.5e-42  Score=315.55  Aligned_cols=228  Identities=41%  Similarity=0.730  Sum_probs=199.7

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK  162 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~  162 (396)
                      |.++|+||+|++++|++|.+.+.+|+.+++.|...+ ..+++|+|||||||||||++|+++|++++.+++.++++++.+.
T Consensus         2 p~~~f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g-~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~~~~~~~~l~~~   80 (265)
T d1r7ra3           2 PQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFG-MTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTM   80 (265)
T ss_dssp             CCCSCSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCC-CCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEEEEECHHHHHTS
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhCC-CCCCCeEEEECCCCCcchhHHHHHHHHhCCcEEEEEHHHhhhc
Confidence            578999999999999999999999999999998765 6778999999999999999999999999999999999999999


Q ss_pred             hhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCC---CCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCC
Q 016044          163 WFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRR---TSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSE  239 (396)
Q Consensus       163 ~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~---~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~  239 (396)
                      +.|+.+..++.+|..|+...||||||||+|.++..+.   ........++++.++..++++..  +.++++|+|||.++.
T Consensus        81 ~~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~--~~~v~vi~ttn~~~~  158 (265)
T d1r7ra3          81 WFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST--KKNVFIIGATNRPDI  158 (265)
T ss_dssp             CTTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC--------CCEEEECCBSCTT
T ss_pred             cccchHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCC--CCCEEEEEeCCCchh
Confidence            9999999999999999999999999999999987653   23334455677888888887754  456899999999999


Q ss_pred             CcHHHHh--ccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHH
Q 016044          240 LDEAILR--RLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLD  313 (396)
Q Consensus       240 l~~~l~~--R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~  313 (396)
                      +|++++|  ||+..+++++|+.++|.+||+.++++.....+++++.++..|+||+++||..+|++|...|+++...
T Consensus       159 ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~~~~l~~la~~t~g~s~~di~~lv~~A~~~A~~~~~~  234 (265)
T d1r7ra3         159 IDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIE  234 (265)
T ss_dssp             TSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC----CCCCHHHHHHHCSSCCHHHHHHHHHHHHHHHHHC--
T ss_pred             CCHHHhCCCCccEEEEecchHHHHHHHHHHHHhccCCchhhhhHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999998  9999999999999999999999999888888899999999999999999999999999999987543

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.92  E-value=7.9e-26  Score=204.16  Aligned_cols=168  Identities=23%  Similarity=0.321  Sum_probs=126.4

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchH-HHHHHHHHHHHHHhCCcEEEEccccccccCC
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDA-QKLVAAVFSLAYKLQPAIIFIDEVDSFLGQR  198 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~-~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~  198 (396)
                      ..|+++||||||||||||++|+++|++++.+|+.+++++....+.+.. .+.++.+|..|.+.+||||||||+|.+.+.+
T Consensus        37 ~~p~~~vLL~GppGtGKT~la~alA~~~~~~~~~i~~~~~~~g~~~~~~~~~i~~if~~A~~~~p~il~iDEid~l~~~~  116 (246)
T d1d2na_          37 RTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYV  116 (246)
T ss_dssp             SCSEEEEEEECSTTSSHHHHHHHHHHHHTCSEEEEECGGGCTTCCHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCB
T ss_pred             CCCCeEEEEECcCCCCHHHHHHHHhhcccccccccccccccccccccchhhhhhhhhhhhhhcccceeehhhhhhHhhhc
Confidence            346789999999999999999999999999999999988776666554 4678999999999999999999999997765


Q ss_pred             CCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHH-HHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCC
Q 016044          199 RTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEA-ILRRLPQAFEIGMPDRKERAQILKVILKGEKVEE  277 (396)
Q Consensus       199 ~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~-l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~  277 (396)
                      ..+.. ...+++..++..+++... ...+++||+|||+++.+++. +++||+..+++|  +..+|.++++.+...... .
T Consensus       117 ~~~~~-~~~~~~~~ll~~l~~~~~-~~~~v~vi~tTn~~~~ld~~~~~~rF~~~i~~P--~~~~r~~il~~l~~~~~~-~  191 (246)
T d1d2na_         117 PIGPR-FSNLVLQALLVLLKKAPP-QGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVP--NIATGEQLLEALELLGNF-K  191 (246)
T ss_dssp             TTTTB-CCHHHHHHHHHHTTCCCS-TTCEEEEEEEESCHHHHHHTTCTTTSSEEEECC--CEEEHHHHHHHHHHHTCS-C
T ss_pred             ccccc-hhHHHHHHHHHHhcCCCc-cccceeeeeccCChhhccchhhcCccceEEecC--CchhHHHHHHHHHhccCC-C
Confidence            43322 224566678888887754 35679999999999999875 566998888874  444444555443322122 3


Q ss_pred             CCCHHHHHHhCCCCc
Q 016044          278 NIDFDYLAGLCEGFT  292 (396)
Q Consensus       278 ~~~l~~la~~~~g~s  292 (396)
                      +.+...+++.+.|.+
T Consensus       192 ~~~~~~i~~~~~g~~  206 (246)
T d1d2na_         192 DKERTTIAQQVKGKK  206 (246)
T ss_dssp             HHHHHHHHHHHTTSE
T ss_pred             hHHHHHHHHHcCCCc
Confidence            345667777777754

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.91  E-value=8.9e-25  Score=204.07  Aligned_cols=180  Identities=25%  Similarity=0.330  Sum_probs=143.8

Q ss_pred             ccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc--chhhchH
Q 016044           90 IGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM--SKWFGDA  167 (396)
Q Consensus        90 i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~--~~~~g~~  167 (396)
                      |+|++++|+.+...+..++++..+........|++++||+||||||||++|+++|+.++.+++.++++++.  +.+.+.+
T Consensus        16 ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~~~~~~~~i~~s~~~~~~~~~~~~   95 (309)
T d1ofha_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEV   95 (309)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHHTCCEEEEEGGGGSSCCSGGGST
T ss_pred             ccChHHHHHHHHHHHHHHHHHhccCCCCccCCCCceEEEECCCCCCHHHHHHHHhhccccchhcccccccccceeEeeec
Confidence            79999999999988866555444333221123679999999999999999999999999999999999997  4578899


Q ss_pred             HHHHHHHHHHHHH-----hCCcEEEEccccccccCCCCCchHHHHh-hHHHHHHHhhccCcCC------CCcEEEEEe--
Q 016044          168 QKLVAAVFSLAYK-----LQPAIIFIDEVDSFLGQRRTSDHEALTN-MKTEFMALWDGFTTDQ------NARVMVLAA--  233 (396)
Q Consensus       168 ~~~~~~~f~~a~~-----~~p~vl~iDEid~l~~~~~~~~~~~~~~-~~~~ll~~l~~~~~~~------~~~v~vI~a--  233 (396)
                      +..++.+|..+..     .+||||||||+|.+++.+.....+...+ +.+.++..+++.....      ..++++|++  
T Consensus        96 ~~~~~~~f~~a~~~~~~~~~~~IIf~DEIdki~~~~~~~~~~~~~~gv~~~LL~~~dg~~~~~~~~~i~~s~ilfi~~ga  175 (309)
T d1ofha_          96 DSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGA  175 (309)
T ss_dssp             THHHHHHHHTTTTCHHHHHHHCEEEEECGGGGSCCSSCCSSHHHHHHHHHHHHHHHHCCEEEETTEEEECTTCEEEEEEC
T ss_pred             cccccccchhhhcccccccCCceEEehhhhhhhhhccCcccchhhhHHHHHhhHHhcCCEEecCCeEEEccceeEEeccc
Confidence            9999999988743     3579999999999998776665555543 6778999998753221      224556665  


Q ss_pred             --cCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHH
Q 016044          234 --TNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVI  269 (396)
Q Consensus       234 --tn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~  269 (396)
                        ++.+..++++++.||+..+.+++|+..++.+|++.+
T Consensus       176 ~~~~~~~~~~p~l~~R~~~~i~~~~~~~~~~~~Il~~~  213 (309)
T d1ofha_         176 FQVARPSDLIPELQGRLPIRVELTALSAADFERILTEP  213 (309)
T ss_dssp             CSSSCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHSS
T ss_pred             hhhcCcccchhhhhhhhheeeeccCCCHHHHHHHHHHH
Confidence              567889999999999999999999999999998654

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=99.91  E-value=1.5e-26  Score=214.13  Aligned_cols=161  Identities=17%  Similarity=0.219  Sum_probs=126.4

Q ss_pred             ccChhhhhcCCCCCCCceEE-EECCCCCcHHHHHHHHHHHcC--CcEEEEecccccchhhchHHHHHHHHHHHHHHhCCc
Q 016044          108 LRRPELFSHGKLLGPQKGVL-LYGPPGTGKTMLAKAIAKESG--AVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPA  184 (396)
Q Consensus       108 l~~~~~~~~~~~~~~~~~vL-L~GppGtGKT~la~ala~~~~--~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~  184 (396)
                      ...|..+...+ .+.++|++ |+||||||||++|+++|.+++  .+|+.++++++.++|.|++++.++.+|..++.  ||
T Consensus       108 ~~~~~~~~~~~-~~~~~g~~l~~G~pG~GKT~la~ala~~~~~~~~~~~~~~~~~~~~~~G~~e~~~~~~f~~a~~--~~  184 (321)
T d1w44a_         108 GCSPVVAEFGG-HRYASGMVIVTGKGNSGKTPLVHALGEALGGKDKYATVRFGEPLSGYNTDFNVFVDDIARAMLQ--HR  184 (321)
T ss_dssp             SBCCEEEEETT-EEEESEEEEEECSSSSCHHHHHHHHHHHHHTTSCCEEEEBSCSSTTCBCCHHHHHHHHHHHHHH--CS
T ss_pred             ccchHHHHHhh-cccCCceEEEECCCCccHHHHHHHHHHHhcCCCCeEEEEhhHhhhcccchHHHHHHHHHHHHhh--cc
Confidence            34566666543 34466655 589999999999999999986  78999999999999999999999999999975  79


Q ss_pred             EEEEccccccccCCCCCc-hHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCC----cHHHHh--ccCCceEeCCC
Q 016044          185 IIFIDEVDSFLGQRRTSD-HEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSEL----DEAILR--RLPQAFEIGMP  257 (396)
Q Consensus       185 vl~iDEid~l~~~~~~~~-~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l----~~~l~~--R~~~~i~~~~P  257 (396)
                      ||||||||.+.+++..+. .....+.+++++..+|++..  +.+|+||+|||+ +.+    ++++.|  ||+..+.++.|
T Consensus       185 ilf~DEid~~~~~r~~~~~~~~~~r~v~~lL~e~dg~~~--~~~v~viaatN~-~~~~~~i~~~~~r~~Rf~~~v~v~~p  261 (321)
T d1w44a_         185 VIVIDSLKNVIGAAGGNTTSGGISRGAFDLLSDIGAMAA--SRGCVVIASLNP-TSNDDKIVELVKEASRSNSTSLVIST  261 (321)
T ss_dssp             EEEEECCTTTC-----------CCHHHHHHHHHHHHHHH--HHTCEEEEECCC-CCCCHHHHHHHHHHHHHSCSEEEEEC
T ss_pred             EEEeehhhhhccccccCCCCCcchhhhhhhhhhcccccc--CCCeEEEEeCCC-cccccchhhhhhccCcccceeecCCC
Confidence            999999999998886443 33446889999999999875  457999999994 444    445556  99999999999


Q ss_pred             CHHHHHHHHHHHhcCCC
Q 016044          258 DRKERAQILKVILKGEK  274 (396)
Q Consensus       258 ~~~er~~il~~~l~~~~  274 (396)
                      +.++|.+|++.+..+..
T Consensus       262 d~~~r~~il~~~~~~~~  278 (321)
T d1w44a_         262 DVDGEWQVLTRTGEGLQ  278 (321)
T ss_dssp             SSTTEEEEEEECBTTCC
T ss_pred             ChHHHHHHHHHhccCcc
Confidence            99999999987766543

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=99.90  E-value=9.8e-24  Score=189.68  Aligned_cols=226  Identities=20%  Similarity=0.175  Sum_probs=153.0

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchh
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKW  163 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~  163 (396)
                      +.+|+|++|++++++.|..++..+..      ++   .+.+++|||||||||||++|+++|++++.++..++.+..... 
T Consensus         5 P~~~~divGqe~~~~~l~~~i~~~~~------~~---~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~~~~~~~~~~~~-   74 (238)
T d1in4a2           5 PKSLDEFIGQENVKKKLSLALEAAKM------RG---EVLDHVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVLVKQ-   74 (238)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHHHHH------HT---CCCCCEEEESSTTSSHHHHHHHHHHHHTCCEEEEETTTCCSH-
T ss_pred             CCcHHHcCChHHHHHHHHHHHHHHHh------cC---CCCCeEEEECCCCCcHHHHHHHHHhccCCCcccccCcccccH-
Confidence            35899999999999999998864321      11   234689999999999999999999999999999987776432 


Q ss_pred             hchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHH---hhccCcCCCCcEEEEEecCCCCCC
Q 016044          164 FGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMAL---WDGFTTDQNARVMVLAATNRPSEL  240 (396)
Q Consensus       164 ~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~---l~~~~~~~~~~v~vI~atn~~~~l  240 (396)
                           ..+...+..  ....+++|+||+|.+....+..............+..   ..........++++|++||.+..+
T Consensus        75 -----~~~~~~~~~--~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~~  147 (238)
T d1in4a2          75 -----GDMAAILTS--LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLL  147 (238)
T ss_dssp             -----HHHHHHHHH--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGS
T ss_pred             -----HHHHHHHHh--hccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCeEEEEecCCCccc
Confidence                 122222222  2345899999999984332111111110000000000   000000123478999999999999


Q ss_pred             cHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCC-CCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 016044          241 DEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEEN-IDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEERKGK  319 (396)
Q Consensus       241 ~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~-~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~~~~  319 (396)
                      ++++++||...+.++.|+.+++..+++..+.......+ ..+..++..+.| +.+.+.++++.+...+....        
T Consensus       148 ~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~l~~i~~~s~g-d~R~ai~~l~~~~~~~~~~~--------  218 (238)
T d1in4a2         148 SSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVEIEDAAAEMIAKRSRG-TPRIAIRLTKRVRDMLTVVK--------  218 (238)
T ss_dssp             CHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCCBCHHHHHHHHHTSTT-CHHHHHHHHHHHHHHHHHHT--------
T ss_pred             cccceeeeeEEEEecCCCHHHHHHHHHHhhhhccchhhHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHhc--------
Confidence            99999999889999999999999999999877665522 237788888876 66777777776654443321        


Q ss_pred             CCCCCCCCCHHHHHHHHHhc
Q 016044          320 PAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       320 ~~~~~~~i~~~d~~~al~~~  339 (396)
                          ...|+.+++.+++..+
T Consensus       219 ----~~~it~~~~~~al~~l  234 (238)
T d1in4a2         219 ----ADRINTDIVLKTMEVL  234 (238)
T ss_dssp             ----CSSBCHHHHHHHHHHH
T ss_pred             ----CCccCHHHHHHHHHhh
Confidence                1448999999988754

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=99.87  E-value=2.6e-22  Score=180.42  Aligned_cols=216  Identities=23%  Similarity=0.254  Sum_probs=148.0

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchh
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKW  163 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~  163 (396)
                      +.+|+|++|++++++.|+.++......         ..+++++|||||||||||++|+++|++++.++..++.+..... 
T Consensus         5 P~~~ddivGq~~~~~~L~~~i~~~~~~---------~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~~~~~~~~~~~~-   74 (239)
T d1ixsb2           5 PKTLDEYIGQERLKQKLRVYLEAAKAR---------KEPLEHLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAIEKP-   74 (239)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHHHTTS---------SSCCCCEEEECCTTSCHHHHHHHHHHHHTCCEEEEETTTCCSH-
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHhc---------CCCCCeEEEECCCCCCHHHHHHHHHHHhCCCeEeccCCccccc-
Confidence            568999999999999999888643211         2346789999999999999999999999999999998776432 


Q ss_pred             hchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc--------------CcCCCCcEE
Q 016044          164 FGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF--------------TTDQNARVM  229 (396)
Q Consensus       164 ~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~--------------~~~~~~~v~  229 (396)
                       +.....+..    . ....++++|||+|.+....+    +       .++..++..              ....+.+++
T Consensus        75 -~~~~~~~~~----~-~~~~~i~~iDe~~~~~~~~~----~-------~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~  137 (239)
T d1ixsb2          75 -GDLAAILAN----S-LEEGDILFIDEIHRLSRQAE----E-------HLYPAMEDFVMDIVIGQGPAARTIRLELPRFT  137 (239)
T ss_dssp             -HHHHHHHHT----T-CCTTCEEEEETGGGCCHHHH----H-------HHHHHHHHSEEEEECSCTTCCCEEEEECCCCE
T ss_pred             -hhhHHHHHh----h-ccCCCeeeeecccccchhHH----H-------hhhhhhhhhhhhhhhccchhhhhcccCCCCEE
Confidence             111111111    1 12347999999999843221    1       111111110              001245678


Q ss_pred             EEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCC-CCHHHHHHhCCCCcHHHHHHHHHHHHHHHH
Q 016044          230 VLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEEN-IDFDYLAGLCEGFTGSDLLEVCKQAAYFSI  308 (396)
Q Consensus       230 vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~-~~l~~la~~~~g~s~~di~~l~~~A~~~a~  308 (396)
                      +|++||++....++.++|+...+.+..|+.+++..+++..+.......+ -.+..++..+.| ..+...++++.+...+.
T Consensus       138 ~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~~~~~l~~ia~~s~g-d~R~a~~~l~~~~~~a~  216 (239)
T d1ixsb2         138 LIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRITEEAALEIGRRSRG-TMRVAKRLFRRVRDFAQ  216 (239)
T ss_dssp             EEEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCCCBCHHHHHHHHHHTTS-SHHHHHHHHHHHHHHHT
T ss_pred             EEeeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhCCccchHHHHHHHHHcCC-CHHHHHHHHHHHHHHHH
Confidence            8899998888777778877799999999999999999999887665422 246778888887 44444444444321110


Q ss_pred             HHHHHHHhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          309 RELLDEERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       309 ~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                                  ......||.+++.+++..+
T Consensus       217 ------------~~~~~~It~~~~~~~l~~l  235 (239)
T d1ixsb2         217 ------------VAGEEVITRERALEALAAL  235 (239)
T ss_dssp             ------------TSCCSCBCHHHHHHHHHHH
T ss_pred             ------------HhCCCCcCHHHHHHHHhhh
Confidence                        1123669999999998754

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.81  E-value=1.2e-19  Score=161.87  Aligned_cols=177  Identities=24%  Similarity=0.264  Sum_probs=126.7

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC-----CcEEEEec
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG-----AVFINVRI  156 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~-----~~~~~i~~  156 (396)
                      +.+.+|+||+|++++++.|..++..          +    ...++||+||||+|||++|+++|++++     ..++++++
T Consensus        18 y~P~~~~diig~~~~~~~l~~~i~~----------~----~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~   83 (231)
T d1iqpa2          18 YRPQRLDDIVGQEHIVKRLKHYVKT----------G----SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNA   83 (231)
T ss_dssp             TCCCSTTTCCSCHHHHHHHHHHHHH----------T----CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEET
T ss_pred             hCCCCHHHccCcHHHHHHHHHHHHc----------C----CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEec
Confidence            3466999999999999999988752          1    135699999999999999999999764     46788888


Q ss_pred             ccccchhhchHHHHHHHHHH--HHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEec
Q 016044          157 SNLMSKWFGDAQKLVAAVFS--LAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAAT  234 (396)
Q Consensus       157 ~~l~~~~~g~~~~~~~~~f~--~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~at  234 (396)
                      ++..+...  ..........  ......+.|+++||+|.+....           ...++..++.    ...++.+|+++
T Consensus        84 s~~~~~~~--~~~~~~~~~~~~~~~~~~~~iilide~d~~~~~~-----------~~~ll~~l~~----~~~~~~~i~~~  146 (231)
T d1iqpa2          84 SDERGINV--IREKVKEFARTKPIGGASFKIIFLDEADALTQDA-----------QQALRRTMEM----FSSNVRFILSC  146 (231)
T ss_dssp             TCHHHHHT--THHHHHHHHHSCCGGGCSCEEEEEETGGGSCHHH-----------HHHHHHHHHH----TTTTEEEEEEE
T ss_pred             CcccchhH--HHHHHHHHHhhhhccCCCceEEeehhhhhcchhH-----------HHHHhhhccc----CCcceEEEecc
Confidence            76433211  1111111111  0112245799999999874322           1133333332    24568899999


Q ss_pred             CCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCC
Q 016044          235 NRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEG  290 (396)
Q Consensus       235 n~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g  290 (396)
                      |.+..+++++++|| ..+.+++|+..+...+++..+....+. ++-.++.+++.+.|
T Consensus       147 n~~~~i~~~l~sR~-~~i~~~~~~~~~~~~~l~~~~~~e~i~i~~~~l~~I~~~~~g  202 (231)
T d1iqpa2         147 NYSSKIIEPIQSRC-AIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAILYIAEG  202 (231)
T ss_dssp             SCGGGSCHHHHHTE-EEEECCCCCHHHHHHHHHHHHHTTTCEECHHHHHHHHHHHTT
T ss_pred             CChhhchHhHhCcc-ccccccccchhhHHHHHHHHHHHhCCCCCHHHHHHHHHHcCC
Confidence            99999999999999 789999999999999999999877664 33346778887775

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.81  E-value=1.8e-19  Score=160.16  Aligned_cols=211  Identities=18%  Similarity=0.193  Sum_probs=137.1

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCC-----cEEEEecc
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA-----VFINVRIS  157 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~-----~~~~i~~~  157 (396)
                      .+.+|+|++|++++++.|+.++..          +    ...++||+||||+|||++|+++|++++.     .++..+++
T Consensus         9 rP~~~~divg~~~~~~~L~~~i~~----------~----~~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~   74 (227)
T d1sxjc2           9 RPETLDEVYGQNEVITTVRKFVDE----------G----KLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNAS   74 (227)
T ss_dssp             CCSSGGGCCSCHHHHHHHHHHHHT----------T----CCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTT
T ss_pred             CCCCHHHccCcHHHHHHHHHHHHc----------C----CCCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEeccc
Confidence            457999999999999999888742          1    1235999999999999999999998643     35666665


Q ss_pred             cccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCC
Q 016044          158 NLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRP  237 (396)
Q Consensus       158 ~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~  237 (396)
                      +..+.............+......+..+++|||+|.+...           ....++..++..    ...+.++.++|.+
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~kiiiiDe~d~~~~~-----------~~~~Ll~~le~~----~~~~~~~~~~~~~  139 (227)
T d1sxjc2          75 DDRGIDVVRNQIKDFASTRQIFSKGFKLIILDEADAMTNA-----------AQNALRRVIERY----TKNTRFCVLANYA  139 (227)
T ss_dssp             SCCSHHHHHTHHHHHHHBCCSSSCSCEEEEETTGGGSCHH-----------HHHHHHHHHHHT----TTTEEEEEEESCG
T ss_pred             ccCCeeeeecchhhccccccccCCCeEEEEEeccccchhh-----------HHHHHHHHhhhc----ccceeeccccCcH
Confidence            5443321111100000000001112359999999987322           122344444432    3467888899999


Q ss_pred             CCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHh
Q 016044          238 SELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELLDEER  316 (396)
Q Consensus       238 ~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~~~~~  316 (396)
                      ..+.+++++|| ..+.|++|+.++...++...+...... ++-.++.+++.+.|    |++.+++.     +    +...
T Consensus       140 ~~i~~~i~sr~-~~i~~~~~~~~~i~~~l~~I~~~e~i~i~~~~l~~i~~~s~G----d~R~ain~-----L----q~~~  205 (227)
T d1sxjc2         140 HKLTPALLSQC-TRFRFQPLPQEAIERRIANVLVHEKLKLSPNAEKALIELSNG----DMRRVLNV-----L----QSCK  205 (227)
T ss_dssp             GGSCHHHHTTS-EEEECCCCCHHHHHHHHHHHHHTTTCCBCHHHHHHHHHHHTT----CHHHHHHH-----T----TTTT
T ss_pred             HHhHHHHHHHH-hhhccccccccccccccccccccccccCCHHHHHHHHHHcCC----cHHHHHHH-----H----HHHH
Confidence            99999999999 889999999999999999999876654 22335667777765    44443321     0    1111


Q ss_pred             cCCCCCCCCCCCHHHHHHHH
Q 016044          317 KGKPAAAPRPLSRLDLEKVL  336 (396)
Q Consensus       317 ~~~~~~~~~~i~~~d~~~al  336 (396)
                      ..........|+.+++.+++
T Consensus       206 ~~~~~~~~~~It~~~v~e~~  225 (227)
T d1sxjc2         206 ATLDNPDEDEISDDVIYECC  225 (227)
T ss_dssp             TTTCSSSCCCBCHHHHHHHT
T ss_pred             HhcCCCCCCeeCHHHHHHHh
Confidence            11122234678999988775

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=99.80  E-value=2e-19  Score=161.35  Aligned_cols=202  Identities=23%  Similarity=0.265  Sum_probs=137.8

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCc------------
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAV------------  150 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~------------  150 (396)
                      .+.+|+|++|++++++.|..++..             -..++++||+||||+|||++|++++++++..            
T Consensus         7 rP~~~~dlig~~~~~~~L~~~i~~-------------~~~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~   73 (239)
T d1njfa_           7 RPQTFADVVGQEHVLTALANGLSL-------------GRIHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCD   73 (239)
T ss_dssp             CCSSGGGSCSCHHHHHHHHHHHHT-------------TCCCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSCSSCCSCSH
T ss_pred             CCCCHHHccChHHHHHHHHHHHHc-------------CCCCeeEEEECCCCCcHHHHHHHHHHHhcCccccccCccccch
Confidence            356999999999999999887752             1236789999999999999999999976432            


Q ss_pred             ------------EEEEecccccchhhchHHHHHHHHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHHHHH
Q 016044          151 ------------FINVRISNLMSKWFGDAQKLVAAVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFM  214 (396)
Q Consensus       151 ------------~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll  214 (396)
                                  ++.++.++...      -..++.+...+..    ....|++|||+|.+...           ..+.|+
T Consensus        74 ~~~~i~~~~~~~~~~~~~~~~~~------i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~-----------~q~~Ll  136 (239)
T d1njfa_          74 NCREIEQGRFVDLIEIDAASRTK------VEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRH-----------SFNALL  136 (239)
T ss_dssp             HHHHHHHTCCTTEEEEETTCSSS------HHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHH-----------HHHHHH
T ss_pred             HHHHHHcCCCCeEEEecchhcCC------HHHHHHHHHHHHhccccCCCEEEEEECcccCCHH-----------HHHHHH
Confidence                        34444332111      1223333333321    12359999999998321           123455


Q ss_pred             HHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcH
Q 016044          215 ALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTG  293 (396)
Q Consensus       215 ~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~  293 (396)
                      ..++.    .+.++.+|++||.++.+.+++++|| ..+.+++|+.++...++...+...... ++-.++.++..+.| +.
T Consensus       137 k~lE~----~~~~~~~il~tn~~~~i~~~i~SRc-~~i~~~~~~~~~i~~~l~~i~~~e~~~~~~~~l~~i~~~s~G-d~  210 (239)
T d1njfa_         137 KTLEE----PPEHVKFLLATTDPQKLPVTILSRC-LQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEG-SL  210 (239)
T ss_dssp             HHHHS----CCTTEEEEEEESCGGGSCHHHHTTS-EEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHTTT-CH
T ss_pred             HHHhc----CCCCeEEEEEcCCccccChhHhhhh-cccccccCcHHHhhhHHHHHHhhhccCCCHHHHHHHHHHcCC-CH
Confidence            55553    3567889999999999999999999 899999999999999999888654443 22346778887776 44


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHH
Q 016044          294 SDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVL  336 (396)
Q Consensus       294 ~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al  336 (396)
                      +..-++++.|.    ..       +     ...|+.+++.+++
T Consensus       211 R~ain~l~~~~----~~-------~-----~~~I~~~~v~~~l  237 (239)
T d1njfa_         211 RDALSLTDQAI----AS-------G-----DGQVSTQAVSAML  237 (239)
T ss_dssp             HHHHHHHHHHH----HH-------T-----TTSBCHHHHHHHH
T ss_pred             HHHHHHHHHHH----Hh-------C-----CCCcCHHHHHHHh
Confidence            44334443322    11       1     1458899988776

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.79  E-value=1.4e-19  Score=163.37  Aligned_cols=199  Identities=21%  Similarity=0.259  Sum_probs=128.9

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccC-hhhhhc--CCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRR-PELFSH--GKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~-~~~~~~--~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      -+.+|+|++|+++.+++|.+++...... +..+..  .......+++||+||||||||++|+++|++++.+++.+++++.
T Consensus         9 ~P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~~~~~~~~~~   88 (253)
T d1sxja2           9 APTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDV   88 (253)
T ss_dssp             CCSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCEEEEECTTSC
T ss_pred             CCCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhhhhccccccc
Confidence            3568999999999999999988643211 111111  1113345789999999999999999999999999999999877


Q ss_pred             cchhhchHHHHHHHHHH------------H--HHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCC
Q 016044          160 MSKWFGDAQKLVAAVFS------------L--AYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQN  225 (396)
Q Consensus       160 ~~~~~g~~~~~~~~~f~------------~--a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  225 (396)
                      .+.+....  .+.....            .  .....+.++++||+|.+....+...    .    .+......    ..
T Consensus        89 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~----~----~~~~~~~~----~~  154 (253)
T d1sxja2          89 RSKTLLNA--GVKNALDNMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGV----G----QLAQFCRK----TS  154 (253)
T ss_dssp             CCHHHHHH--TGGGGTTBCCSTTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHH----H----HHHHHHHH----CS
T ss_pred             hhhHHHHH--HHHHHhhcchhhhhhhhhhhcccccccceEEEeeeccccccchhhhh----H----HHhhhhcc----cc
Confidence            65432111  0000000            0  0112346999999999865443211    1    22222221    13


Q ss_pred             CcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHH
Q 016044          226 ARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCK  301 (396)
Q Consensus       226 ~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~  301 (396)
                      ..++++++++....++ .+++|+ ..+.|++|+.+++..+++.++....+. ++-.++.++..+.|    ||+.++.
T Consensus       155 ~~ii~i~~~~~~~~~~-~l~~~~-~~i~f~~~~~~~i~~~l~~i~~~e~i~i~~~~l~~i~~~s~G----DiR~ai~  225 (253)
T d1sxja2         155 TPLILICNERNLPKMR-PFDRVC-LDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRG----DIRQVIN  225 (253)
T ss_dssp             SCEEEEESCTTSSTTG-GGTTTS-EEEECCCCCHHHHHHHHHHHHHHHTCCCCTTHHHHHHHHTTT----CHHHHHH
T ss_pred             cccccccccccccccc-ccccee-eeeeccccchhHHHHHHHHHHHHhCCCCCHHHHHHHHHhCCC----cHHHHHH
Confidence            3466666555555555 455555 899999999999999999998644433 23347888888765    7766654

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.76  E-value=1e-17  Score=149.49  Aligned_cols=211  Identities=15%  Similarity=0.161  Sum_probs=136.5

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc------CCcEEEEe
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES------GAVFINVR  155 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~------~~~~~~i~  155 (396)
                      +.+.+|++++|++++++.|+.++..          .    ...+++|+||||||||++++++|+++      ......++
T Consensus         6 y~P~~~~diig~~~~~~~l~~~i~~----------~----~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~   71 (237)
T d1sxjd2           6 YRPKNLDEVTAQDHAVTVLKKTLKS----------A----NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELN   71 (237)
T ss_dssp             TCCSSTTTCCSCCTTHHHHHHHTTC----------T----TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEEC
T ss_pred             hCCCCHHHccCcHHHHHHHHHHHHc----------C----CCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhhee
Confidence            3467999999999999999876531          1    12459999999999999999999975      45666777


Q ss_pred             cccccchhhchHHHHHHHHH------------HHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcC
Q 016044          156 ISNLMSKWFGDAQKLVAAVF------------SLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD  223 (396)
Q Consensus       156 ~~~l~~~~~g~~~~~~~~~f------------~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  223 (396)
                      ++...+....  ...+....            .........+++|||+|.+....           .+.+...++.    
T Consensus        72 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDe~d~l~~~~-----------~~~l~~~~~~----  134 (237)
T d1sxjd2          72 ASDERGISIV--REKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTADA-----------QSALRRTMET----  134 (237)
T ss_dssp             SSSCCCHHHH--TTHHHHHHHSCCCCCCTTHHHHSCCCSCEEEEETTGGGSCHHH-----------HHHHHHHHHH----
T ss_pred             ccccccchHH--HHHHHHHhhhhhhhhhHHHHhhccccCceEEEEecccccCHHH-----------HHHHhhcccc----
Confidence            6554332111  11111110            00011122499999999984321           1123333332    


Q ss_pred             CCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHH
Q 016044          224 QNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQ  302 (396)
Q Consensus       224 ~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~  302 (396)
                      ......+|.+++....+.+++++|| ..+.|++|+.++...+++..+....+. ++-.++.+++.+.| ..+..-++++.
T Consensus       135 ~~~~~~~i~~~~~~~~~~~~l~sr~-~~i~f~~~~~~~~~~~L~~i~~~e~i~i~~~~l~~ia~~s~g-d~R~ai~~L~~  212 (237)
T d1sxjd2         135 YSGVTRFCLICNYVTRIIDPLASQC-SKFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAG-DLRRGITLLQS  212 (237)
T ss_dssp             TTTTEEEEEEESCGGGSCHHHHHHS-EEEECCCCCHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHTSS-CHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccchh-hhhccccccccccchhhhhhhhhhcCcCCHHHHHHHHHHcCC-CHHHHHHHHHH
Confidence            2345677888888899999999999 889999999999999999999876654 22336788888876 33332233333


Q ss_pred             HHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHH
Q 016044          303 AAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVL  336 (396)
Q Consensus       303 A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al  336 (396)
                      ++..+...           .....|+.+++++++
T Consensus       213 ~~~~~~~~-----------~~~~~It~~~i~e~~  235 (237)
T d1sxjd2         213 ASKGAQYL-----------GDGKNITSTQVEELA  235 (237)
T ss_dssp             THHHHHHH-----------CSCCCCCHHHHHHHH
T ss_pred             HHHhchhc-----------CCCCccCHHHHHHhh
Confidence            32222111           112568999988765

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.75  E-value=2.1e-18  Score=152.94  Aligned_cols=173  Identities=17%  Similarity=0.150  Sum_probs=122.9

Q ss_pred             CCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCC-----cEEEEec
Q 016044           82 HIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA-----VFINVRI  156 (396)
Q Consensus        82 ~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~-----~~~~i~~  156 (396)
                      +.+.+|+|++|++++++.|..++..          +    ...++||+||||||||++|+.+|++++.     .++.+++
T Consensus         9 yrP~~~~d~ig~~~~~~~L~~~~~~----------~----~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~   74 (224)
T d1sxjb2           9 YRPQVLSDIVGNKETIDRLQQIAKD----------G----NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNA   74 (224)
T ss_dssp             TCCSSGGGCCSCTHHHHHHHHHHHS----------C----CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECT
T ss_pred             hCCCCHHHhcCCHHHHHHHHHHHHc----------C----CCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccc
Confidence            4467999999999999999887742          1    1346999999999999999999998764     4777777


Q ss_pred             ccccchhhchHHHHHHHHHHHHHH-------hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEE
Q 016044          157 SNLMSKWFGDAQKLVAAVFSLAYK-------LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVM  229 (396)
Q Consensus       157 ~~l~~~~~g~~~~~~~~~f~~a~~-------~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~  229 (396)
                      ++..+..      .+...+.....       ....++++||+|.+....+.           .++..++.    ......
T Consensus        75 ~~~~~~~------~i~~~~~~~~~~~~~~~~~~~kviiiDe~d~~~~~~~~-----------~ll~~~e~----~~~~~~  133 (224)
T d1sxjb2          75 SDDRGID------VVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQ-----------ALRRTMEL----YSNSTR  133 (224)
T ss_dssp             TSCCSHH------HHHTHHHHHHHBCCCCCTTCCEEEEEESGGGSCHHHHH-----------TTHHHHHH----TTTTEE
T ss_pred             cccCCce------ehhhHHHHHHHhhccCCCcceEEEEEecccccchhHHH-----------HHhhhccc----ccccee
Confidence            7654321      11111111111       12459999999998443211           22222322    245678


Q ss_pred             EEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCC
Q 016044          230 VLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEG  290 (396)
Q Consensus       230 vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g  290 (396)
                      ++.+++....+.+++++|| ..+.|++|+.++...++...+..+... ++-.++.++..+.|
T Consensus       134 ~i~~~~~~~~i~~~l~sr~-~~i~~~~~~~~~i~~~l~~i~~~e~~~i~~~~l~~I~~~s~G  194 (224)
T d1sxjb2         134 FAFACNQSNKIIEPLQSQC-AILRYSKLSDEDVLKRLLQIIKLEDVKYTNDGLEAIIFTAEG  194 (224)
T ss_dssp             EEEEESCGGGSCHHHHTTS-EEEECCCCCHHHHHHHHHHHHHHHTCCBCHHHHHHHHHHHTT
T ss_pred             eeeccCchhhhhhHHHHHH-HHhhhcccchhhhHHHHHHHHHhcccCCCHHHHHHHHHHcCC
Confidence            8888999999999999999 789999999999999999998765554 22236677777775

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.71  E-value=9.2e-17  Score=144.49  Aligned_cols=183  Identities=15%  Similarity=0.185  Sum_probs=116.4

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCC---cEEE----
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA---VFIN----  153 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~---~~~~----  153 (396)
                      .+.+.+|++++|++++++.|..++..          .   ....++||+||||||||++|+++|+++..   ....    
T Consensus         4 ky~P~~~~diig~~~~~~~L~~~~~~----------~---~~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~   70 (252)
T d1sxje2           4 KYRPKSLNALSHNEELTNFLKSLSDQ----------P---RDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVR   70 (252)
T ss_dssp             TTCCCSGGGCCSCHHHHHHHHTTTTC----------T---TCCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------
T ss_pred             ccCCCCHHHccCcHHHHHHHHHHHHc----------C---CCCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccc
Confidence            34467899999999999999654421          1   12356999999999999999999997521   1111    


Q ss_pred             ----------------------EecccccchhhchHHHHHHHHHHHH--------------HHhCCcEEEEccccccccC
Q 016044          154 ----------------------VRISNLMSKWFGDAQKLVAAVFSLA--------------YKLQPAIIFIDEVDSFLGQ  197 (396)
Q Consensus       154 ----------------------i~~~~l~~~~~g~~~~~~~~~f~~a--------------~~~~p~vl~iDEid~l~~~  197 (396)
                                            +.+......    ............              ......+++|||+|.+...
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiiide~d~l~~~  146 (252)
T d1sxje2          71 QFVTASNRKLELNVVSSPYHLEITPSDMGNN----DRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKD  146 (252)
T ss_dssp             ------------CCEECSSEEEECCC----C----CHHHHHHHHHHHTTTTC------------CCEEEEEECTTSSCHH
T ss_pred             cccccccchhhhhhccCCccceeeecccccC----CcceeeehhhhhhhhhhhhhhhcccccCCCceEEEeccccccccc
Confidence                                  111111000    000111111100              0112359999999987322


Q ss_pred             CCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCC-
Q 016044          198 RRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVE-  276 (396)
Q Consensus       198 ~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~-  276 (396)
                      .           ...++..++.    .+.++.+|++||.++.+++++++|| ..++|++|+.++..++++..+...... 
T Consensus       147 ~-----------~~~l~~~~e~----~~~~~~~Il~tn~~~~i~~~l~sR~-~~i~~~~~~~~~~~~~l~~i~~~e~~~~  210 (252)
T d1sxje2         147 A-----------QAALRRTMEK----YSKNIRLIMVCDSMSPIIAPIKSQC-LLIRCPAPSDSEISTILSDVVTNERIQL  210 (252)
T ss_dssp             H-----------HHHHHHHHHH----STTTEEEEEEESCSCSSCHHHHTTS-EEEECCCCCHHHHHHHHHHHHHHHTCEE
T ss_pred             c-----------chhhhccccc----ccccccceeeeccccchhhhhhcch-heeeecccchhhHHHHHHHHHHHcCCCC
Confidence            1           1233343432    2456888999999999999999999 789999999999999999888754433 


Q ss_pred             -CCCCHHHHHHhCCCCcHHHHHHHH
Q 016044          277 -ENIDFDYLAGLCEGFTGSDLLEVC  300 (396)
Q Consensus       277 -~~~~l~~la~~~~g~s~~di~~l~  300 (396)
                       .+..++.++..+.|    |++.++
T Consensus       211 ~~~~~l~~i~~~s~G----d~R~ai  231 (252)
T d1sxje2         211 ETKDILKRIAQASNG----NLRVSL  231 (252)
T ss_dssp             CCSHHHHHHHHHHTT----CHHHHH
T ss_pred             CcHHHHHHHHHHcCC----cHHHHH
Confidence             23335678887776    555443

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=99.69  E-value=8.3e-16  Score=139.15  Aligned_cols=223  Identities=15%  Similarity=0.095  Sum_probs=141.4

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEecccccc
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVRISNLMS  161 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~~~l~~  161 (396)
                      ..+.++|.+..++.+.+++...+..+        -.++.+++|+||||||||++++++++.+    +..++.+++.....
T Consensus        14 ~p~~l~~Re~ei~~l~~~l~~~l~~~--------~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~   85 (276)
T d1fnna2          14 VPKRLPHREQQLQQLDILLGNWLRNP--------GHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRN   85 (276)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHHST--------TSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHhCC--------CCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchhhhh
Confidence            34568999999999988776433222        1346789999999999999999999986    45677777654322


Q ss_pred             hh----------------hc-hHHHHHHHHHHHHHH-hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcC
Q 016044          162 KW----------------FG-DAQKLVAAVFSLAYK-LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD  223 (396)
Q Consensus       162 ~~----------------~g-~~~~~~~~~f~~a~~-~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  223 (396)
                      ..                .+ ........+...... ....++++|++|.+....        ..   .+...+......
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~--------~~---~~~~~~~~~~~~  154 (276)
T d1fnna2          86 FTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDI--------LS---TFIRLGQEADKL  154 (276)
T ss_dssp             HHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHH--------HH---HHHHHTTCHHHH
T ss_pred             hhhhhhhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhh--------hh---hHHHHHhccccc
Confidence            11                11 122222333333332 345788899998873221        11   111112211112


Q ss_pred             CCCcEEEEEecCCC---CCCcHHHHhccC-CceEeCCCCHHHHHHHHHHHhcCCCCCCCCC---HHHHHHhCC-------
Q 016044          224 QNARVMVLAATNRP---SELDEAILRRLP-QAFEIGMPDRKERAQILKVILKGEKVEENID---FDYLAGLCE-------  289 (396)
Q Consensus       224 ~~~~v~vI~atn~~---~~l~~~l~~R~~-~~i~~~~P~~~er~~il~~~l~~~~~~~~~~---l~~la~~~~-------  289 (396)
                      ....+.+|++++..   +.+++.+.+|+. ..+.|++|+.+++.+|++..+........++   ++.++..+.       
T Consensus       155 ~~~~~~~i~~~~~~~~~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~~~~~~~~~~~~~~l~~ia~~~~~~~~~~~  234 (276)
T d1fnna2         155 GAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDT  234 (276)
T ss_dssp             SSCCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCT
T ss_pred             cccceEEeecCCchhhhhhcchhhhhhhcchhccccchhHHHHHHHHHHHHHHhcccccccHHHHHHHHHHhhhhhhhhh
Confidence            24567888888864   467888888764 4589999999999999998775322222222   455666542       


Q ss_pred             -CCcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          290 -GFTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       290 -g~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                       +-+++.+.++|+.|+..|..+.            ...|+.+|+++|++++
T Consensus       235 ~~G~~R~a~~ll~~a~~~A~~~~------------~~~I~~edv~~A~~~~  273 (276)
T d1fnna2         235 NRGDARLAIDILYRSAYAAQQNG------------RKHIAPEDVRKSSKEV  273 (276)
T ss_dssp             TSCCHHHHHHHHHHHHHHHHHTT------------CSSCCHHHHHHHHHHH
T ss_pred             cCCCHHHHHHHHHHHHHHHHHcC------------CCCcCHHHHHHHHHHH
Confidence             1245677788888877666541            2579999999999875

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.68  E-value=4.4e-15  Score=133.56  Aligned_cols=222  Identities=21%  Similarity=0.279  Sum_probs=148.1

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHH----------cCCcEEEEe
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKE----------SGAVFINVR  155 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~----------~~~~~~~i~  155 (396)
                      .++.++|.++-..++.+.+.              ....++++|.||||+|||++++.+|..          .+..++.++
T Consensus        16 ~ld~~igRd~Ei~~l~~iL~--------------r~~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~   81 (268)
T d1r6bx2          16 GIDPLIGREKELERAIQVLC--------------RRRKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLD   81 (268)
T ss_dssp             CSCCCCSCHHHHHHHHHHHT--------------SSSSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECC
T ss_pred             CCCcccChHHHHHHHHHHHh--------------cCccCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEee
Confidence            35568999988888876553              123578999999999999999999985          256799999


Q ss_pred             cccccc--hhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEe
Q 016044          156 ISNLMS--KWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAA  233 (396)
Q Consensus       156 ~~~l~~--~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~a  233 (396)
                      ++.+.+  ++.|+.+..+..++..+....+.|+||||++.+.+.........      .+...+.-+..  .+.+.+|++
T Consensus        82 ~~~liag~~~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~------d~a~~Lkp~L~--rg~i~vIga  153 (268)
T d1r6bx2          82 IGSLLAGTKYRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQV------DAANLIKPLLS--SGKIRVIGS  153 (268)
T ss_dssp             CC---CCCCCSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHH------HHHHHHSSCSS--SCCCEEEEE
T ss_pred             echHhccCccchhHHHHHHHHHHHhhccCCceEEecchHHHhcCCCCCCccc------cHHHHhhHHHh--CCCCeEEEe
Confidence            999875  67899999999999998887888999999999976644322111      22233333333  567899998


Q ss_pred             cCC-----CCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCC----CCC-CCCCHHHHHHhCC------CCcHHHHH
Q 016044          234 TNR-----PSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGE----KVE-ENIDFDYLAGLCE------GFTGSDLL  297 (396)
Q Consensus       234 tn~-----~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~----~~~-~~~~l~~la~~~~------g~s~~di~  297 (396)
                      |..     ...-|++|.||| ..+.+..|+.++-..|++.....+    .+. .+-.+..+...+.      .|....|.
T Consensus       154 tT~eey~~~~e~d~al~rrF-~~I~V~Eps~e~t~~IL~~~~~~~e~~h~v~~~~~al~~~v~ls~ryi~~~~~PdKAId  232 (268)
T d1r6bx2         154 TTYQEFSNIFEKDRALARRF-QKIDITEPSIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAID  232 (268)
T ss_dssp             ECHHHHHCCCCCTTSSGGGE-EEEECCCCCHHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHCTTSCTTHHHHH
T ss_pred             CCHHHHHHHHhhcHHHHhhh-cccccCCCCHHHHHHHHHHhhHHHhccCCEEeChHHHHHHHHHHHhhccCCCCCcHHHH
Confidence            874     235589999999 999999999999999998755321    121 1111222222222      34444444


Q ss_pred             HHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHhc
Q 016044          298 EVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTTS  339 (396)
Q Consensus       298 ~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~  339 (396)
                       ++++|+..+-..        ........++.+|+...+.++
T Consensus       233 -llDea~a~~~~~--------~~~~~~~~i~~~di~~~i~~~  265 (268)
T d1r6bx2         233 -VIDEAGARARLM--------PVSKRKKTVNVADIESVVARI  265 (268)
T ss_dssp             -HHHHHHHHHHHS--------SSCCCCCSCCHHHHHHHHHHH
T ss_pred             -HHHHHHHHHHhh--------ccccCcccCCHHHHHHHHHHH
Confidence             555554332111        111223568888888877664

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.67  E-value=9.2e-17  Score=137.08  Aligned_cols=157  Identities=22%  Similarity=0.361  Sum_probs=114.1

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEEEe
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFINVR  155 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~i~  155 (396)
                      .++-++|.++..+++.+.+.              .+...+++|.||||+|||++++.+|...          +.+++.++
T Consensus        20 ~ld~~igRd~Ei~~l~~iL~--------------r~~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld   85 (195)
T d1jbka_          20 KLDPVIGRDEEIRRTIQVLQ--------------RRTKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALD   85 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHT--------------SSSSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEEC
T ss_pred             CCCCCcCcHHHHHHHHHHHh--------------ccCCCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEee
Confidence            34568899988888876553              1224789999999999999999999843          57899999


Q ss_pred             cccccc--hhhchHHHHHHHHHHHHHHhC-CcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEE
Q 016044          156 ISNLMS--KWFGDAQKLVAAVFSLAYKLQ-PAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLA  232 (396)
Q Consensus       156 ~~~l~~--~~~g~~~~~~~~~f~~a~~~~-p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~  232 (396)
                      .+.+.+  ++.|+.+..+..++..+.... +.||||||++.+.+............++...   +.      .+.+.+|+
T Consensus        86 ~~~LiAg~~~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~---L~------rg~l~~Ig  156 (195)
T d1jbka_          86 MGALVAGAKYRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPA---LA------RGELHCVG  156 (195)
T ss_dssp             HHHHHTTTCSHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHH---HH------TTSCCEEE
T ss_pred             HHHHhccCCccHHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHH---Hh------CCCceEEe
Confidence            998874  567899999999998876554 5799999999997654322111122222232   22      45678888


Q ss_pred             ecCCCC-----CCcHHHHhccCCceEeCCCCHHHHHHHH
Q 016044          233 ATNRPS-----ELDEAILRRLPQAFEIGMPDRKERAQIL  266 (396)
Q Consensus       233 atn~~~-----~l~~~l~~R~~~~i~~~~P~~~er~~il  266 (396)
                      +|...+     .-|++|.+|| ..+.+..|+.++-..||
T Consensus       157 atT~eey~~~~e~d~aL~rrF-~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         157 ATTLDEYRQYIEKDAALERRF-QKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             EECHHHHHHHTTTCHHHHTTE-EEEECCCCCHHHHHTTC
T ss_pred             cCCHHHHHHHHHcCHHHHhcC-CEeecCCCCHHHHHHHh
Confidence            887422     4589999999 89999999999887765

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=99.66  E-value=2e-15  Score=137.43  Aligned_cols=232  Identities=15%  Similarity=0.062  Sum_probs=140.7

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC---------CcEEEEec
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG---------AVFINVRI  156 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~---------~~~~~i~~  156 (396)
                      ..+.|.|.+..++.|.+.+..++.+..     +.......++|+||||||||++++++++++.         ..+..+++
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~-----~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~   88 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGA-----GLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNA   88 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSS-----CBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEG
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHcCC-----CCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeecc
Confidence            346788988888888777654322211     1011122467789999999999999998752         34555665


Q ss_pred             ccccchh----------------hchH-HHHHHHHHHHHH-HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhh
Q 016044          157 SNLMSKW----------------FGDA-QKLVAAVFSLAY-KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWD  218 (396)
Q Consensus       157 ~~l~~~~----------------~g~~-~~~~~~~f~~a~-~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~  218 (396)
                      .......                .+.. ......+..... ...+.++++||+|.+........ +.. ..+..+...+.
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~-~~~-~~l~~l~~~l~  166 (287)
T d1w5sa2          89 FNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAA-EDL-YTLLRVHEEIP  166 (287)
T ss_dssp             GGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCH-HHH-HHHHTHHHHSC
T ss_pred             ccccchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccch-hHH-HHHHHHHHhcc
Confidence            5443221                1111 222233333332 23456888999999866554322 111 11112222222


Q ss_pred             ccCcCCCCcEEEEEecCCCCC------CcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCC---HHHHHHhCC
Q 016044          219 GFTTDQNARVMVLAATNRPSE------LDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENID---FDYLAGLCE  289 (396)
Q Consensus       219 ~~~~~~~~~v~vI~atn~~~~------l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~---l~~la~~~~  289 (396)
                      ...  ....+.+|+.+|.++.      ..+.+.+|+...+.|++|+.++..+|++..+........++   ++.+|+.+.
T Consensus       167 ~~~--~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~~~~  244 (287)
T d1w5sa2         167 SRD--GVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYG  244 (287)
T ss_dssp             CTT--SCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHC
T ss_pred             hhh--cccceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHHHHHHHh
Confidence            222  2345666776665542      34677889989999999999999999998875432222333   667777664


Q ss_pred             C-----CcHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHHHHHh
Q 016044          290 G-----FTGSDLLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEKVLTT  338 (396)
Q Consensus       290 g-----~s~~di~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~  338 (396)
                      +     -.++...++|+.|+..|..+.            ...|+.+|+++|+++
T Consensus       245 ~~~~~~gd~R~ai~~l~~a~~~A~~~~------------~~~It~~~V~~A~~e  286 (287)
T d1w5sa2         245 EDKGGDGSARRAIVALKMACEMAEAMG------------RDSLSEDLVRKAVSE  286 (287)
T ss_dssp             GGGTSCCCHHHHHHHHHHHHHHHHHTT------------CSSCCHHHHHHHHHH
T ss_pred             ccccCCCCHHHHHHHHHHHHHHHHHcC------------CCCCCHHHHHHHHhc
Confidence            2     245566778888876665441            257999999999874

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.61  E-value=4.6e-15  Score=129.91  Aligned_cols=192  Identities=22%  Similarity=0.317  Sum_probs=120.9

Q ss_pred             CCccccccc-C--hHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044           83 IDVEFESIG-G--LETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus        83 ~~~~~~~i~-G--~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      +..+|++++ |  ++.+.+.+++++..|         +   ...++++||||+|||||+|+++++++.   +..++++++
T Consensus         5 ~~~tFdnF~vg~~N~~a~~~~~~~~~~~---------~---~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~   72 (213)
T d1l8qa2           5 PKYTLENFIVGEGNRLAYEVVKEALENL---------G---SLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSA   72 (213)
T ss_dssp             TTCCSSSCCCCTTTHHHHHHHHHHHHTT---------T---TSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEH
T ss_pred             CCCChhhccCCCcHHHHHHHHHHHHhCc---------C---CCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEech
Confidence            356888864 5  666677776665432         0   112559999999999999999999876   567778887


Q ss_pred             ccccchhhchHHH-HHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecC
Q 016044          157 SNLMSKWFGDAQK-LVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATN  235 (396)
Q Consensus       157 ~~l~~~~~g~~~~-~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn  235 (396)
                      .++.......... .....+....  ...+|+|||+|.+.++..         ....+...++....  .+..+++++..
T Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~--~~dll~iDDi~~i~~~~~---------~~~~lf~lin~~~~--~~~~iiits~~  139 (213)
T d1l8qa2          73 DDFAQAMVEHLKKGTINEFRNMYK--SVDLLLLDDVQFLSGKER---------TQIEFFHIFNTLYL--LEKQIILASDR  139 (213)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHH--TCSEEEEECGGGGTTCHH---------HHHHHHHHHHHHHH--TTCEEEEEESS
T ss_pred             HHHHHHHHHHHHccchhhHHHHHh--hccchhhhhhhhhcCchH---------HHHHHHHHHHHHhh--ccceEEEecCC
Confidence            7665443322111 1112222222  448999999999865432         11133344443332  34456666666


Q ss_pred             CCCCC---cHHHHhccCC--ceEeCCCCHHHHHHHHHHHhcCCCCC-CCCCHHHHHHhCCCCcHHHHHHHHHH
Q 016044          236 RPSEL---DEAILRRLPQ--AFEIGMPDRKERAQILKVILKGEKVE-ENIDFDYLAGLCEGFTGSDLLEVCKQ  302 (396)
Q Consensus       236 ~~~~l---~~~l~~R~~~--~i~~~~P~~~er~~il~~~l~~~~~~-~~~~l~~la~~~~g~s~~di~~l~~~  302 (396)
                      .|..+   .+.+.+|+..  .+.++ |+.++|.++++..+...++. ++-.++.|++.+.  +.++|..+++.
T Consensus       140 ~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a~~rgl~l~~~v~~yl~~~~~--~~R~L~~~l~~  209 (213)
T d1l8qa2         140 HPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIKEKLKEFNLELRKEVIDYLLENTK--NVREIEGKIKL  209 (213)
T ss_dssp             CGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHCS--SHHHHHHHHHH
T ss_pred             cchhccccchHHHHHhhCceEEEEC-CCcHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcC--cHHHHHHHHHH
Confidence            66544   5889998754  44565 67789999999998765554 2233677887764  56777666554

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=99.60  E-value=4.4e-16  Score=146.87  Aligned_cols=177  Identities=16%  Similarity=0.132  Sum_probs=112.8

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCC
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRR  199 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~  199 (396)
                      .+.++++||+||||||||++|+++|+.++.+++++++++..+.+.            ......+.+.++|+++.....+.
T Consensus       151 ~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~~i~in~s~~rs~~~------------l~~~~~~~~~l~d~~~~~~~~~~  218 (362)
T d1svma_         151 IPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFE------------LGVAIDQFLVVFEDVKGTGGESR  218 (362)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHHHHCCEEECCSSCTTTHHHH------------HGGGTTCSCEEETTCCCSTTTTT
T ss_pred             CCCcCeEEEECCCCCCHHHHHHHHHHHcCCCEEEEECcchhhHHH------------HHhHHHHHHHHHHHHHHhhhhcc
Confidence            344679999999999999999999999999999999988755431            11122345566666665443322


Q ss_pred             CCchHHHHhhHHHHHHHhhccCc-----CCCCc-----EEEEEecCCCCCCcHHHHh-ccCCceEeCCCCHHHHH-HHHH
Q 016044          200 TSDHEALTNMKTEFMALWDGFTT-----DQNAR-----VMVLAATNRPSELDEAILR-RLPQAFEIGMPDRKERA-QILK  267 (396)
Q Consensus       200 ~~~~~~~~~~~~~ll~~l~~~~~-----~~~~~-----v~vI~atn~~~~l~~~l~~-R~~~~i~~~~P~~~er~-~il~  267 (396)
                      .......-.-+..+...++|...     .....     ..+|+|||...  .+.++. ||+..+.+.+|+...+. .++.
T Consensus       219 ~~~~~~~~DeiD~l~~~~dg~~~~~~~~~~~~~~~~~~~p~i~ttN~~~--~~~~r~~Rf~~~i~~~~~~~~~~~~~~l~  296 (362)
T d1svma_         219 DLPSGQGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGIVTMNEYS--VPKTLQARFVKQIDFRPKDYLKHCLERSE  296 (362)
T ss_dssp             TCCCCSHHHHHHTTHHHHHCSSCEEECCSSSCCEEECCCCEEEEECSCC--CCHHHHTTEEEEEECCCCHHHHHHHHTCT
T ss_pred             CCCCeEEEehHhhcccccCCcchhhhhhhhhchhhhccCCceeeccccc--ccccccccCceEEeecCCCcHHHHHHHHH
Confidence            11111111111122333343210     00000     13788999643  222332 99999999888876664 5666


Q ss_pred             HHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHH
Q 016044          268 VILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQAAYFSIRELL  312 (396)
Q Consensus       268 ~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A~~~a~~~~~  312 (396)
                      .++++..+.  .+.+.++..+.|++++|+.++++.+...+.+++.
T Consensus       297 ~i~~~~~l~--~~~~~L~~li~~~s~~D~~~~i~~~~~~~~~~l~  339 (362)
T d1svma_         297 FLLEKRIIQ--SGIALLLMLIWYRPVAEFAQSIQSRIVEWKERLD  339 (362)
T ss_dssp             HHHHTTCTT--CHHHHHHHHHHHSCGGGSCGGGHHHHHHHHHHHH
T ss_pred             HHhcccCCC--CCHHHHHHHccCCCHHHHHHHHHHHHHHHHHHHh
Confidence            677766654  5567788889999999999999998887776654

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=99.58  E-value=4.8e-15  Score=138.93  Aligned_cols=159  Identities=22%  Similarity=0.388  Sum_probs=96.5

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC---------------
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG---------------  148 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~---------------  148 (396)
                      ...|++|+|++.+|+.|.-.+..+         +     .+++||.||||||||++||+++.-+.               
T Consensus         3 ~~~f~~I~Gq~~~kral~laa~~~---------~-----~h~vLl~G~pG~GKT~lar~~~~iLp~~~~~~~~~~~~~~~   68 (333)
T d1g8pa_           3 VFPFSAIVGQEDMKLALLLTAVDP---------G-----IGGVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNV   68 (333)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHHCG---------G-----GCCEEEECCGGGCTTHHHHHHHHHSCCEEEETTCTTCCSSG
T ss_pred             CCChhhccCcHHHHHHHHHHHhcc---------C-----CCeEEEECCCCccHHHHHHHHHHhCCCchhhccCccccCcc
Confidence            357999999999999875433211         1     25799999999999999999998541               


Q ss_pred             ------------------CcEEEEecccccchhhch--HHHHHHH---H--HHHHHHhCCcEEEEccccccccCCCCCch
Q 016044          149 ------------------AVFINVRISNLMSKWFGD--AQKLVAA---V--FSLAYKLQPAIIFIDEVDSFLGQRRTSDH  203 (396)
Q Consensus       149 ------------------~~~~~i~~~~l~~~~~g~--~~~~~~~---~--f~~a~~~~p~vl~iDEid~l~~~~~~~~~  203 (396)
                                        .+++............|.  .......   .  .........+|+|+||++.+.+       
T Consensus        69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~d~~~~~~~g~~~~~~G~l~~A~~gvl~iDEi~~~~~-------  141 (333)
T d1g8pa_          69 EMIPDWATVLSTNVIRKPTPVVDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLED-------  141 (333)
T ss_dssp             GGSCTTCCCSCCCEEEECCCEEEECTTCCHHHHHCEECHHHHHHHCGGGEECCHHHHHTTEEEEETTGGGSCH-------
T ss_pred             ccccchhhccccCcccccCceeeccCCCCcccccCcchhhhccccCcceeeccccccccccEeecccHHHHHH-------
Confidence                              112222111111111111  0000000   0  0011122348999999998732       


Q ss_pred             HHHHhhHHHHHHHhh---------ccCcCCCCcEEEEEecCCC-CCCcHHHHhccCCceEeCCC-CHHHHHHHHH
Q 016044          204 EALTNMKTEFMALWD---------GFTTDQNARVMVLAATNRP-SELDEAILRRLPQAFEIGMP-DRKERAQILK  267 (396)
Q Consensus       204 ~~~~~~~~~ll~~l~---------~~~~~~~~~v~vI~atn~~-~~l~~~l~~R~~~~i~~~~P-~~~er~~il~  267 (396)
                          +..+.++..|+         |.....+.++++++|+|+. ..+++++++||+..+.++.| +...+.++..
T Consensus       142 ----~~~~aLl~~me~~~v~i~r~g~~~~~p~~f~liaa~Np~~~~l~~~llDRf~~~i~v~~~~~~~~~~~~~~  212 (333)
T d1g8pa_         142 ----HIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVEVIR  212 (333)
T ss_dssp             ----HHHHHHHHHHHHSEEEECCTTCCEEEECCEEEEEEECSCSCCCCHHHHTTCSEEEECCCCCSHHHHHHHHH
T ss_pred             ----HHHHHHhhhhcCCeEEecccCceecCCCCEEEEEecCccccccccchhhhhcceeeccCcchhhHHHHHHH
Confidence                23334555453         2222335678999999975 46899999999988888776 5566555543

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=99.54  E-value=1.7e-14  Score=136.72  Aligned_cols=162  Identities=23%  Similarity=0.409  Sum_probs=106.4

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----------CCcEEEEe
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----------GAVFINVR  155 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----------~~~~~~i~  155 (396)
                      .++-++|.+.-++++.+.+.              .+..++++|.||||+|||.++..+|...          +..++.++
T Consensus        20 ~ld~~~gr~~ei~~~~~~L~--------------r~~k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld   85 (387)
T d1qvra2          20 KLDPVIGRDEEIRRVIQILL--------------RRTKNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQ   85 (387)
T ss_dssp             CSCCCCSCHHHHHHHHHHHH--------------CSSCCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEEC
T ss_pred             CCCCCcCcHHHHHHHHHHHh--------------cCCCCCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEee
Confidence            35668999988888877654              1224678999999999999999988743          46799999


Q ss_pred             cccccc--hhhchHHHHHHHHHHHHHHhC-CcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEE
Q 016044          156 ISNLMS--KWFGDAQKLVAAVFSLAYKLQ-PAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLA  232 (396)
Q Consensus       156 ~~~l~~--~~~g~~~~~~~~~f~~a~~~~-p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~  232 (396)
                      ...+..  ++.|+.+..+..++..+.... +.||||||++.+.+............++...+.         .+.+.+|+
T Consensus        86 ~~~l~ag~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~---------rg~~~~I~  156 (387)
T d1qvra2          86 MGSLLAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA---------RGELRLIG  156 (387)
T ss_dssp             C-----------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHH---------TTCCCEEE
T ss_pred             HhhhhcccCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHh---------CCCcceee
Confidence            999875  567999999999988887764 578999999999765443222222333333332         45678888


Q ss_pred             ecCCCC----CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhc
Q 016044          233 ATNRPS----ELDEAILRRLPQAFEIGMPDRKERAQILKVILK  271 (396)
Q Consensus       233 atn~~~----~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~  271 (396)
                      +|...+    .-|++|.||| ..|.++.|+.++-..||+....
T Consensus       157 ~tT~~ey~~~e~d~al~rrF-~~v~v~ep~~~~~~~il~~~~~  198 (387)
T d1qvra2         157 ATTLDEYREIEKDPALERRF-QPVYVDEPTVEETISILRGLKE  198 (387)
T ss_dssp             EECHHHHHHHTTCTTTCSCC-CCEEECCCCHHHHHHHHHHHHH
T ss_pred             ecCHHHHHHhcccHHHHHhc-ccccCCCCcHHHHHHHHHHHHH
Confidence            887321    2378999999 9999999999999999987664

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=99.53  E-value=1.1e-13  Score=128.17  Aligned_cols=206  Identities=17%  Similarity=0.239  Sum_probs=130.2

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcC-CCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch--
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHG-KLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK--  162 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~-~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~--  162 (396)
                      .|+|++++++.+...+...      +... ....|...+||+||+|+|||.+|+.+|..+   +.+++.++++++...  
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~------~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~~   97 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRA------RAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHA   97 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHH------GGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGG
T ss_pred             eEeCHHHHHHHHHHHHHHH------hcCCCCCCCCceEEEEECCCcchHHHHHHHHHHHhcCCCcceEEEeccccccchh
Confidence            4789999999998776531      1111 112233357888999999999999999987   678999999877542  


Q ss_pred             ---hhchHHHHH-----HHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCc-------CCCCc
Q 016044          163 ---WFGDAQKLV-----AAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTT-------DQNAR  227 (396)
Q Consensus       163 ---~~g~~~~~~-----~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~-------~~~~~  227 (396)
                         ..|.....+     ..+....+.+..+|++|||||.+.+           .+.+.++..++....       -+-.+
T Consensus        98 ~~~L~g~~~gyvG~~~~~~l~~~~~~~p~~Vvl~DEieK~~~-----------~v~~~ll~~l~~g~~~~~~gr~v~~~~  166 (315)
T d1qvra3          98 VSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKAHP-----------DVFNILLQILDDGRLTDSHGRTVDFRN  166 (315)
T ss_dssp             GGGC--------------CHHHHHHHCSSEEEEESSGGGSCH-----------HHHHHHHHHHTTTEECCSSSCCEECTT
T ss_pred             hhhhcCCCCCCcCcccCChHHHHHHhCCCcEEEEehHhhcCH-----------HHHHHHHHHhccCceeCCCCcEecCcc
Confidence               222221111     1233334455569999999999732           233455555543211       12356


Q ss_pred             EEEEEecCC--------------------------CCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhc-------CCC
Q 016044          228 VMVLAATNR--------------------------PSELDEAILRRLPQAFEIGMPDRKERAQILKVILK-------GEK  274 (396)
Q Consensus       228 v~vI~atn~--------------------------~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~-------~~~  274 (396)
                      .++|+|||-                          ...+.+.++.|++.++.|.+.+.++..+|+...+.       ...
T Consensus       167 ~i~i~tsnlG~~~i~~~~~~~~~~~~~~~~~~~~l~~~f~pEflnRid~Ii~F~~L~~~~~~~I~~~~l~~l~~rl~~~~  246 (315)
T d1qvra3         167 TVIILTSNLGSPLILEGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEIVVFRPLTKEQIRQIVEIQLSYLRARLAEKR  246 (315)
T ss_dssp             EEEEEECCTTHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCHHHHHTCSBCCBCCCCCHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             eEEEEecccChHHHhhhcccccchhhhhHHHHHHHHhhcCHHHHhcCCeeeeccchhhhhhHHHHHHHHHHHHHHHHhcc
Confidence            889999994                          23578999999999999999999999998876553       222


Q ss_pred             CCCCC---CHHHHHHh--CCCCcHHHHHHHHHHHHHHHHHHH
Q 016044          275 VEENI---DFDYLAGL--CEGFTGSDLLEVCKQAAYFSIREL  311 (396)
Q Consensus       275 ~~~~~---~l~~la~~--~~g~s~~di~~l~~~A~~~a~~~~  311 (396)
                      ..-.+   ..+.|++.  ...+-++.|+..+++.....+.+.
T Consensus       247 i~l~i~~~~~~~L~~~~y~~~~GAR~L~r~Ie~~i~~~La~~  288 (315)
T d1qvra3         247 ISLELTEAAKDFLAERGYDPVFGARPLRRVIQRELETPLAQK  288 (315)
T ss_dssp             CEEEECHHHHHHHHHHHCBTTTBTSTHHHHHHHHTHHHHHHH
T ss_pred             ccccccHHHHHHHHHhCCCCCCCcchHHHHHHHHHHHHHHHH
Confidence            21111   24555554  334455677777766666555443

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=99.53  E-value=5.9e-14  Score=122.28  Aligned_cols=163  Identities=13%  Similarity=0.109  Sum_probs=106.7

Q ss_pred             ChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCC----------------------
Q 016044           92 GLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGA----------------------  149 (396)
Q Consensus        92 G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~----------------------  149 (396)
                      +++++.+.+...+.          .+   +.|+++||+||||+|||++|+.+|+.+.+                      
T Consensus         6 w~~~~~~~l~~~~~----------~~---~l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~   72 (207)
T d1a5ta2           6 WLRPDFEKLVASYQ----------AG---RGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGT   72 (207)
T ss_dssp             GGHHHHHHHHHHHH----------TT---CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTC
T ss_pred             ccHHHHHHHHHHHH----------cC---CcCeEEEEECCCCCcHHHHHHHHHHhcccccccccccccccchhhhhhhcc
Confidence            45666666655443          22   24678999999999999999999996521                      


Q ss_pred             --cEEEEecccccchhhchHHHHHHHHHHHHH----HhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcC
Q 016044          150 --VFINVRISNLMSKWFGDAQKLVAAVFSLAY----KLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTD  223 (396)
Q Consensus       150 --~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~----~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~  223 (396)
                        .++.+....-. ...  .-..++.+.....    ..+..|++|||+|.+...           ..+.++..++.    
T Consensus        73 ~~~~~~~~~~~~~-~~i--~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~-----------a~n~Llk~lEe----  134 (207)
T d1a5ta2          73 HPDYYTLAPEKGK-NTL--GVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDA-----------AANALLKTLEE----  134 (207)
T ss_dssp             CTTEEEECCCTTC-SSB--CHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHH-----------HHHHHHHHHTS----
T ss_pred             ccccchhhhhhcc-ccc--ccchhhHHhhhhhhccccCccceEEechhhhhhhh-----------hhHHHHHHHHh----
Confidence              12222211100 000  1122333333322    223469999999998322           23356666663    


Q ss_pred             CCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCCCHHHHHHhCCC
Q 016044          224 QNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENIDFDYLAGLCEG  290 (396)
Q Consensus       224 ~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~~l~~la~~~~g  290 (396)
                      ++.++.+|++||.++.+.+++++|| ..+.|++|+.++...+++....   . ++..+..+++.+.|
T Consensus       135 p~~~~~fIl~t~~~~~ll~tI~SRc-~~i~~~~~~~~~~~~~L~~~~~---~-~~~~~~~i~~~s~G  196 (207)
T d1a5ta2         135 PPAETWFFLATREPERLLATLRSRC-RLHYLAPPPEQYAVTWLSREVT---M-SQDALLAALRLSAG  196 (207)
T ss_dssp             CCTTEEEEEEESCGGGSCHHHHTTS-EEEECCCCCHHHHHHHHHHHCC---C-CHHHHHHHHHHTTT
T ss_pred             hcccceeeeeecChhhhhhhhccee-EEEecCCCCHHHHHHHHHHcCC---C-CHHHHHHHHHHcCC
Confidence            4678899999999999999999999 8999999999999888875432   1 22335666777765

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.52  E-value=1.6e-13  Score=127.10  Aligned_cols=165  Identities=19%  Similarity=0.262  Sum_probs=113.9

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch------
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK------  162 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~------  162 (396)
                      .|+|++++++.+...+.....  .+   ....+|...+||+||||||||.+|+++|..++.+|+.++++++...      
T Consensus        23 ~viGQ~~a~~~v~~~v~~~~~--~l---~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l~~~~i~~d~s~~~~~~~~~~l   97 (315)
T d1r6bx3          23 LVFGQDKAIEALTEAIKMARA--GL---GHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRL   97 (315)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHT--TC---SCTTSCSEEEEEECSTTSSHHHHHHHHHHHHTCEEEEEEGGGCSSSSCCSSS
T ss_pred             eecChHHHHHHHHHHHHHHHc--cC---CCCCCCceEEEEECCCcchhHHHHHHHHhhccCCeeEeccccccchhhhhhh
Confidence            479999999999887753110  01   1112233468999999999999999999999999999999887532      


Q ss_pred             ------hhchHHHHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccC-------cCCCCcEE
Q 016044          163 ------WFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFT-------TDQNARVM  229 (396)
Q Consensus       163 ------~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~-------~~~~~~v~  229 (396)
                            +.|..+.  ..+.........+|+++||+|...+           .+.+.+++.++...       ..+-.+.+
T Consensus        98 ~g~~~gy~g~~~~--~~l~~~~~~~~~~vvl~DeieKa~~-----------~V~~~lLqild~G~ltd~~Gr~vdf~n~i  164 (315)
T d1r6bx3          98 IGAPPGYVGFDQG--GLLTDAVIKHPHAVLLLDEIEKAHP-----------DVFNILLQVMDNGTLTDNNGRKADFRNVV  164 (315)
T ss_dssp             CCCCSCSHHHHHT--THHHHHHHHCSSEEEEEETGGGSCH-----------HHHHHHHHHHHHSEEEETTTEEEECTTEE
T ss_pred             cccCCCccccccC--ChhhHHHHhCccchhhhcccccccc-----------hHhhhhHHhhccceecCCCCCccCccceE
Confidence                  2222221  1123334455669999999998732           23446666664321       11235678


Q ss_pred             EEEecCCCC-------------------------CCcHHHHhccCCceEeCCCCHHHHHHHHHHHhc
Q 016044          230 VLAATNRPS-------------------------ELDEAILRRLPQAFEIGMPDRKERAQILKVILK  271 (396)
Q Consensus       230 vI~atn~~~-------------------------~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~  271 (396)
                      +|+|+|-..                         .+.|.++.|++.++.|.+.+.++...|+...+.
T Consensus       165 iI~Tsnig~~~i~~~~~~~~~~~~~~~~~~~l~~~f~pEflnRid~ii~f~~l~~~~~~~I~~~~l~  231 (315)
T d1r6bx3         165 LVMTTNAGVRETERKSIGLIHQDNSTDAMEEIKKIFTPEFRNRLDNIIWFDHLSTDVIHQVVDKFIV  231 (315)
T ss_dssp             EEEEECSSCC-----------------CHHHHHHHSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHH
T ss_pred             EEeccchhhHHHHhhhccchhhhhhHhHHHHHHHhcCHHHHhhhhhhhcccchhhhHHHHHHHHHHH
Confidence            899998321                         367888999999999999999999988876664

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=99.45  E-value=2.9e-13  Score=127.48  Aligned_cols=180  Identities=18%  Similarity=0.283  Sum_probs=109.0

Q ss_pred             cccChHHHHHHHHHHHHccccChh---hhhc-------------CCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEE
Q 016044           89 SIGGLETIKQALYELVILPLRRPE---LFSH-------------GKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFI  152 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~---~~~~-------------~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~  152 (396)
                      -|+|++++|+.+...+....++-.   ....             .....|+.++||.||+|||||.+||++|..++.+|+
T Consensus        18 ~ViGQd~Akkava~Avrn~~rR~~~~~~~r~~~~~~~~~~~~~~~~~~~p~~niLfiGPTGvGKTElAk~LA~~~~~~~i   97 (364)
T d1um8a_          18 YVIGQEQAKKVFSVAVYNHYKRLSFKEKLKKQDNQDSNVELEHLEEVELSKSNILLIGPTGSGKTLMAQTLAKHLDIPIA   97 (364)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSHHHHHHHHHHHHTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEE
T ss_pred             eecChHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccccccccCCCcceeeeCCCCccHHHHHHHHHhhccccee
Confidence            489999999998766632111100   0000             001346789999999999999999999999999999


Q ss_pred             EEecccccchh-hch-HHHHHHHHHHH----HHHhCCcEEEEccccccccCCCCCc---hHHHHhhHHHHHHHhhccCc-
Q 016044          153 NVRISNLMSKW-FGD-AQKLVAAVFSL----AYKLQPAIIFIDEVDSFLGQRRTSD---HEALTNMKTEFMALWDGFTT-  222 (396)
Q Consensus       153 ~i~~~~l~~~~-~g~-~~~~~~~~f~~----a~~~~p~vl~iDEid~l~~~~~~~~---~~~~~~~~~~ll~~l~~~~~-  222 (396)
                      .++++.+.... .|. .+..+..+...    ......+++++||+|...+......   ..+...+.+.+++.+++... 
T Consensus        98 r~D~s~~~e~gyvg~dv~~~i~~l~~~~~~~v~~~~~~iv~lDEieK~~~~s~~~~~~~d~a~~~V~~~lLqild~~~~~  177 (364)
T d1um8a_          98 ISDATSLTEAGYVGEDVENILTRLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEGSLVN  177 (364)
T ss_dssp             EEEGGGCC--------CTHHHHHHHHHTTTCHHHHTTSEEEEETGGGC--------------CHHHHHHHHHHHHCCEEC
T ss_pred             ehhhhhcccchhhHhhhccchhhhhhhchhHHHHhhcccchhhhhhhhccccccccccccccchHHHHhhhhhhcCceec
Confidence            99999887642 221 12233333332    3344568999999999765432111   11223456677777774211 


Q ss_pred             --------CCCCcEEEEEecCC-------------------------------------------------CCCCcHHHH
Q 016044          223 --------DQNARVMVLAATNR-------------------------------------------------PSELDEAIL  245 (396)
Q Consensus       223 --------~~~~~v~vI~atn~-------------------------------------------------~~~l~~~l~  245 (396)
                              ....+.+++.|+|-                                                 +..+.|.|.
T Consensus       178 ~~~~~gr~~~~~~~i~i~t~~i~~~~~ga~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~PEf~  257 (364)
T d1um8a_         178 IPPKGGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHLVQTHDLVTYGLIPELI  257 (364)
T ss_dssp             ---------------CEECTTCEEEEEECCTTHHHHTTTSCSSCCCSCCCSSCCTTTTTTSGGGCCHHHHHHTTCCHHHH
T ss_pred             cCCCCCCcCCcceeEEEeehhhhhhhcccchhhhhhhhhhcccccccccccccchhhhhhhhccccHHHHhhhhhHHHHH
Confidence                    01123344444442                                                 112568899


Q ss_pred             hccCCceEeCCCCHHHHHHHHHH
Q 016044          246 RRLPQAFEIGMPDRKERAQILKV  268 (396)
Q Consensus       246 ~R~~~~i~~~~P~~~er~~il~~  268 (396)
                      .|++.++.|.+.+.++..+|+..
T Consensus       258 gRi~~iv~f~~L~~~~l~~Il~~  280 (364)
T d1um8a_         258 GRLPVLSTLDSISLEAMVDILQK  280 (364)
T ss_dssp             TTCCEEEECCCCCHHHHHHHHHS
T ss_pred             HHhcchhhHhhhhHHHHHHHHHH
Confidence            99999999999999999999863

>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=99.44  E-value=1.4e-13  Score=122.98  Aligned_cols=212  Identities=23%  Similarity=0.281  Sum_probs=120.4

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccchhh-
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSKWF-  164 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~~~-  164 (396)
                      +++|.+..++.+.+.+.       .++     ....+|+|+|++|||||++|++++...   ..+++.++|..+..... 
T Consensus         1 ~~v~~S~~~~~~~~~~~-------~~a-----~~~~pvlI~Ge~GtGK~~~A~~ih~~s~~~~~~~~~~~~~~~~~~~~~   68 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIK-------KIS-----CAECPVLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFE   68 (247)
T ss_dssp             CCCCCSHHHHHHHHHHH-------HHT-----TCCSCEEEECSTTSSHHHHHHHHHHHSTTTTSCEEEEETTTSCHHHHH
T ss_pred             CeEecCHHHHHHHHHHH-------HHh-----CCCCCEEEECCCCcCHHHHHHHHHHhcCCcccccccchhhhhhhcccH
Confidence            36788888887766553       222     224679999999999999999998765   45789999977643321 


Q ss_pred             ----chHH-------HHHHHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhcc-------CcCCCC
Q 016044          165 ----GDAQ-------KLVAAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGF-------TTDQNA  226 (396)
Q Consensus       165 ----g~~~-------~~~~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~-------~~~~~~  226 (396)
                          |...       .....+|.   ..+.++|||||+|.+....    +       ..++..++.-       ......
T Consensus        69 ~~lfg~~~~~~~~~~~~~~g~l~---~a~gGtL~l~~i~~L~~~~----Q-------~~L~~~l~~~~~~~~~~~~~~~~  134 (247)
T d1ny5a2          69 AELFGYEKGAFTGAVSSKEGFFE---LADGGTLFLDEIGELSLEA----Q-------AKLLRVIESGKFYRLGGRKEIEV  134 (247)
T ss_dssp             HHHHCBCTTSSTTCCSCBCCHHH---HTTTSEEEEESGGGCCHHH----H-------HHHHHHHHHSEECCBTCCSBEEC
T ss_pred             HHhcCcccCCcCCcccccCCHHH---ccCCCEEEEeChHhCCHHH----H-------HHHHHHHHhCCEEECCCCCceec
Confidence                1000       00011222   2355899999999983221    1       1233333211       011123


Q ss_pred             cEEEEEecCCC-------CCCcHHHHhccCCceEeCCCCHHHHHHHH----HHHhcCCCCCCCCCHHHHHHhCCCCcHHH
Q 016044          227 RVMVLAATNRP-------SELDEAILRRLPQAFEIGMPDRKERAQIL----KVILKGEKVEENIDFDYLAGLCEGFTGSD  295 (396)
Q Consensus       227 ~v~vI~atn~~-------~~l~~~l~~R~~~~i~~~~P~~~er~~il----~~~l~~~~~~~~~~l~~la~~~~g~s~~d  295 (396)
                      ++.+|++|+.+       ..+++.|+.|+ ..+.+..|+..+|.+-+    ..++......       ......+++...
T Consensus       135 ~~RlI~~s~~~l~~l~~~~~f~~~L~~~l-~~~~i~lPpLreR~~Di~~l~~~~l~~~~~~-------~~~~~~~ls~~a  206 (247)
T d1ny5a2         135 NVRILAATNRNIKELVKEGKFREDLYYRL-GVIEIEIPPLRERKEDIIPLANHFLKKFSRK-------YAKEVEGFTKSA  206 (247)
T ss_dssp             CCEEEEEESSCHHHHHHTTSSCHHHHHHH-TTEEEECCCGGGCHHHHHHHHHHHHHHHHHH-------TTCCCCEECHHH
T ss_pred             CeEEEEecCCCHHHHHHcCCCcHHHHhhc-CeeeecCCChhhchhhHhhhhhhhhhhhhhh-------cCCCCCCCCHHH
Confidence            56788888753       24677888888 66778888887776533    4444321100       001122455555


Q ss_pred             HHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCHHHHHH
Q 016044          296 LLEVCKQAAYFSIRELLDEERKGKPAAAPRPLSRLDLEK  334 (396)
Q Consensus       296 i~~l~~~A~~~a~~~~~~~~~~~~~~~~~~~i~~~d~~~  334 (396)
                      +..|.++.|..+++++.+.............|+.+|+-.
T Consensus       207 l~~L~~~~WPGNl~EL~~~l~~a~~~~~~~~I~~~dl~~  245 (247)
T d1ny5a2         207 QELLLSYPWYGNVRELKNVIERAVLFSEGKFIDRGELSC  245 (247)
T ss_dssp             HHHHHHSCCTTHHHHHHHHHHHHHHHCCSSEECHHHHHH
T ss_pred             HHHHHhCCCCCHHHHHHHHHHHHHHhCCCCeECHHHccc
Confidence            666665555555555544333222223345678877643

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=99.35  E-value=7e-12  Score=120.74  Aligned_cols=73  Identities=30%  Similarity=0.352  Sum_probs=55.4

Q ss_pred             ccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch
Q 016044           90 IGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK  162 (396)
Q Consensus        90 i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~  162 (396)
                      |+|++++|+.|.-.+....++-..-...+..-.++||||.||+|||||.+|+.+|+.++.||+.++|+.+...
T Consensus        16 VvGQ~~AKk~lsvav~nhyrR~~~~~~~~~ei~ksNILliGPTGvGKTlLAr~LAk~l~VPFv~~daT~fTea   88 (443)
T d1g41a_          16 IIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEV   88 (443)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTCCEEEEEGGGGC--
T ss_pred             ccCcHHHHHHHHHHHHHHHHHhhcccccccccccccEEEECCCCCCHHHHHHHHHHHhCCCEEEeecceeeec
Confidence            8999999999988776433222211111222347899999999999999999999999999999999887553

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.24  E-value=1.2e-11  Score=106.49  Aligned_cols=116  Identities=9%  Similarity=0.143  Sum_probs=82.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC------CcEEEEecccccchhhchHHHHHHHHHHHHHH----hCCcEEEEcccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG------AVFINVRISNLMSKWFGDAQKLVAAVFSLAYK----LQPAIIFIDEVD  192 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~------~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~----~~p~vl~iDEid  192 (396)
                      +.++||+||||+|||++|+.+++...      ..++.+.+..   +..+  -..++.+...+..    .+..|++|||+|
T Consensus        15 ~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~---~~I~--Id~IR~i~~~~~~~~~~~~~KviIId~ad   89 (198)
T d2gnoa2          15 GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPEG---ENIG--IDDIRTIKDFLNYSPELYTRKYVIVHDCE   89 (198)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSS---SCBC--HHHHHHHHHHHTSCCSSSSSEEEEETTGG
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCCc---CCCC--HHHHHHHHHHHhhCcccCCCEEEEEeCcc
Confidence            57899999999999999999998653      2467776532   1111  1234444444432    233599999999


Q ss_pred             ccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCH
Q 016044          193 SFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDR  259 (396)
Q Consensus       193 ~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~  259 (396)
                      .|...           ..+.|+..++    +++.++++|.+|+.++.+.+++++|| ..+.++.|..
T Consensus        90 ~l~~~-----------aqNaLLK~LE----EPp~~t~fiLit~~~~~ll~TI~SRC-~~i~~~~p~~  140 (198)
T d2gnoa2          90 RMTQQ-----------AANAFLKALE----EPPEYAVIVLNTRRWHYLLPTIKSRV-FRVVVNVPKE  140 (198)
T ss_dssp             GBCHH-----------HHHHTHHHHH----SCCTTEEEEEEESCGGGSCHHHHTTS-EEEECCCCHH
T ss_pred             ccchh-----------hhhHHHHHHh----CCCCCceeeeccCChhhCHHHHhcce-EEEeCCCchH
Confidence            98322           2235556565    35678899999999999999999999 8888887753

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=99.18  E-value=1.5e-12  Score=117.53  Aligned_cols=68  Identities=28%  Similarity=0.346  Sum_probs=53.2

Q ss_pred             cccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK  162 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~  162 (396)
                      ++|++..+.+.+.+.++++..          .......|+++||+||||||||++|+++|.+++.+|+.++++++...
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~P~~ilL~GpPGtGKT~la~~la~~~~~~~~~i~~d~~~~~   71 (273)
T d1gvnb_           4 VNFTDKQFENRLNDNLEELIQ----------GKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTFKQQ   71 (273)
T ss_dssp             TCCCHHHHHHHHHHHHHHHHT----------TCCCCSSCEEEEEECCTTSCTHHHHHHHHHHTTTCCEEECTHHHHTT
T ss_pred             cccChHHHHHHHHHHHHHHHh----------cccCCCCCEEEEEECCCCCCHHHHHHHHHHHhhcceEEEecHHHHHH
Confidence            567777777777777765433          22234568999999999999999999999999999999998777543

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.13  E-value=2.8e-09  Score=95.36  Aligned_cols=189  Identities=14%  Similarity=0.118  Sum_probs=114.7

Q ss_pred             CCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccch
Q 016044           83 IDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSK  162 (396)
Q Consensus        83 ~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~  162 (396)
                      |..+-++++|.++..+.+.+.                  ..+.++|+||+|+|||++++.++.+.+..+..+++......
T Consensus         7 p~~~~~~f~GR~~el~~l~~~------------------~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~~~i~~~~~~~~   68 (283)
T d2fnaa2           7 PKDNRKDFFDREKEIEKLKGL------------------RAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEER   68 (283)
T ss_dssp             CCCSGGGSCCCHHHHHHHHHT------------------CSSEEEEEESTTSSHHHHHHHHHHHHTCCEEEEEGGGGTTC
T ss_pred             CCCChhhCCChHHHHHHHHhc------------------cCCEEEEEcCCCCcHHHHHHHHHHHCCCCeEEEEecccccc
Confidence            445668999999988877431                  13679999999999999999999999988888877444222


Q ss_pred             hhchHH----------------------------------------------HHHHHHHHHHH--HhCCcEEEEcccccc
Q 016044          163 WFGDAQ----------------------------------------------KLVAAVFSLAY--KLQPAIIFIDEVDSF  194 (396)
Q Consensus       163 ~~g~~~----------------------------------------------~~~~~~f~~a~--~~~p~vl~iDEid~l  194 (396)
                      ......                                              ..+..++....  ..++.++++||++.+
T Consensus        69 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~  148 (283)
T d2fnaa2          69 NYISYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQEL  148 (283)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGG
T ss_pred             ccccHHHHHHHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhh
Confidence            110000                                              00111222221  235678999999998


Q ss_pred             ccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCC---------CCcHHHHhccCCceEeCCCCHHHHHHH
Q 016044          195 LGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPS---------ELDEAILRRLPQAFEIGMPDRKERAQI  265 (396)
Q Consensus       195 ~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~---------~l~~~l~~R~~~~i~~~~P~~~er~~i  265 (396)
                      ..........       .+......     ..++..+.++....         .....+..|+...+.+++.+.++..++
T Consensus       149 ~~~~~~~~~~-------~l~~~~~~-----~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~  216 (283)
T d2fnaa2         149 VKLRGVNLLP-------ALAYAYDN-----LKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEF  216 (283)
T ss_dssp             GGCTTCCCHH-------HHHHHHHH-----CTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHH
T ss_pred             cccchHHHHH-------HHHHHHHh-----hhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHH
Confidence            6544332211       22222221     12334443332211         111222334446788999999999999


Q ss_pred             HHHHhcCCCCCCCCCHHHHHHhCCCCcHHHHHHHHHHH
Q 016044          266 LKVILKGEKVEENIDFDYLAGLCEGFTGSDLLEVCKQA  303 (396)
Q Consensus       266 l~~~l~~~~~~~~~~l~~la~~~~g~s~~di~~l~~~A  303 (396)
                      +...+....+..+ +.+.+.+.+.|. |..|..++..+
T Consensus       217 l~~~~~~~~~~~~-~~~~i~~~~~G~-P~~L~~~~~~~  252 (283)
T d2fnaa2         217 LRRGFQEADIDFK-DYEVVYEKIGGI-PGWLTYFGFIY  252 (283)
T ss_dssp             HHHHHHHHTCCCC-CHHHHHHHHCSC-HHHHHHHHHHH
T ss_pred             HHhhhhhcCCCHH-HHHHHHHHhCCC-HHHHHHHHHHH
Confidence            9888765544432 477888999985 56777766544

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.56  E-value=2.2e-07  Score=77.19  Aligned_cols=25  Identities=40%  Similarity=0.725  Sum_probs=22.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCC
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      .|+|.||||||||||++.++..++.
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCC
Confidence            3899999999999999999997654

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=98.22  E-value=3.8e-07  Score=74.18  Aligned_cols=32  Identities=25%  Similarity=0.604  Sum_probs=28.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      +.|+|.|||||||||+|+.+|..++.+|+..+
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L~~~~id~~   34 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD   34 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTTCEEEEHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhCCCeEeec
Confidence            57999999999999999999999999987533

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=98.17  E-value=3.1e-07  Score=76.44  Aligned_cols=36  Identities=19%  Similarity=0.160  Sum_probs=31.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN  158 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~  158 (396)
                      .+.|+|.|||||||||+|++||+.+|.+++......
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~~~~~i~~~~~~   42 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVFNTTSAWEYGRE   42 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCEEECCTTHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCCeEeeehHH
Confidence            478999999999999999999999999888665433

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=98.16  E-value=7.4e-06  Score=73.16  Aligned_cols=168  Identities=15%  Similarity=0.089  Sum_probs=88.1

Q ss_pred             cccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHc----CCcE---EEEecccccc
Q 016044           89 SIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKES----GAVF---INVRISNLMS  161 (396)
Q Consensus        89 ~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~----~~~~---~~i~~~~l~~  161 (396)
                      +++|.+..++.+.+.+..      .   .  -.....|.|+|..|+|||++|+.++++.    +..|   +.++.+....
T Consensus        21 ~~~gR~~~~~~i~~~L~~------~---~--~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~   89 (277)
T d2a5yb3          21 TCYIREYHVDRVIKKLDE------M---C--DLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAP   89 (277)
T ss_dssp             CSCCCHHHHHHHHHHHHH------H---T--TSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCST
T ss_pred             ceeCcHHHHHHHHHHHHh------c---c--CCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCC
Confidence            467899888888776642      0   0  1123567899999999999999998763    2221   2232221111


Q ss_pred             h--h----------------------hchHHHHH-HHHHHHHHHhCCcEEEEccccccccCCCCCchHHHHhhHHHHHHH
Q 016044          162 K--W----------------------FGDAQKLV-AAVFSLAYKLQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMAL  216 (396)
Q Consensus       162 ~--~----------------------~g~~~~~~-~~~f~~a~~~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~  216 (396)
                      .  .                      ........ ...........+++++||+++..                 ..+..
T Consensus        90 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~-----------------~~~~~  152 (277)
T d2a5yb3          90 KSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQE-----------------ETIRW  152 (277)
T ss_dssp             THHHHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCH-----------------HHHHH
T ss_pred             HHHHHHHHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHH-----------------hhhhh
Confidence            0  0                      00011111 11122222345689999999753                 11111


Q ss_pred             hhccCcCCCCcEEEEEecCCCCCCcHHHHhccCCceEeCCCCHHHHHHHHHHHhcCCCCCCCC-C-HHHHHHhCCCCc
Q 016044          217 WDGFTTDQNARVMVLAATNRPSELDEAILRRLPQAFEIGMPDRKERAQILKVILKGEKVEENI-D-FDYLAGLCEGFT  292 (396)
Q Consensus       217 l~~~~~~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~~~~P~~~er~~il~~~l~~~~~~~~~-~-l~~la~~~~g~s  292 (396)
                      +..      .+..+|.||....- -..+.... ..+.++..+.++-.+++..+.......... + ...+++.|.|..
T Consensus       153 ~~~------~~srilvTTR~~~v-~~~~~~~~-~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlP  222 (277)
T d2a5yb3         153 AQE------LRLRCLVTTRDVEI-SNAASQTC-EFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNP  222 (277)
T ss_dssp             HHH------TTCEEEEEESBGGG-GGGCCSCE-EEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCH
T ss_pred             hcc------cCceEEEEeehHHH-HHhcCCCC-ceEECCCCCHHHHHHHHHHHhCCccCchhhHHHHHHHHHHhCCCH
Confidence            111      12255666654321 11111122 457889999999999998765433222110 1 346677777753

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=98.10  E-value=6.7e-07  Score=73.50  Aligned_cols=31  Identities=52%  Similarity=0.838  Sum_probs=27.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      ..|+|.|||||||||+|+.||..+|.+++..
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l~~~~i~~   35 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKSGLKYINV   35 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHCCcEEec
Confidence            4588999999999999999999999988753

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=98.07  E-value=8.4e-07  Score=72.74  Aligned_cols=32  Identities=38%  Similarity=0.651  Sum_probs=28.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      ++|+|.|+||+||||+++.+|+.+|.+|+..+
T Consensus         1 k~I~liG~~GsGKsTi~k~La~~l~~~~~d~d   32 (161)
T d1viaa_           1 KNIVFIGFMGSGKSTLARALAKDLDLVFLDSD   32 (161)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHHTCEEEEHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHhCCCEEecC
Confidence            35899999999999999999999999998654

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=98.04  E-value=9.9e-07  Score=72.71  Aligned_cols=37  Identities=32%  Similarity=0.532  Sum_probs=32.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNL  159 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l  159 (396)
                      ++-|+|.|||||||||+|+++++++|.+++.++...+
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~lg~~~~~~~~d~~   40 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLPGVPKVHFHSDDL   40 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCSSSCEEEECTTHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCEEEecHHHH
Confidence            3568899999999999999999999999999876543

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=98.03  E-value=1.2e-06  Score=72.39  Aligned_cols=31  Identities=23%  Similarity=0.551  Sum_probs=28.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      ++|+|.|+|||||||+++.+|+.+|.+|+..
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~Lg~~~id~   33 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARALGYEFVDT   33 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHhCCCEEeh
Confidence            5688999999999999999999999998864

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.97  E-value=3.3e-06  Score=69.38  Aligned_cols=34  Identities=12%  Similarity=0.311  Sum_probs=30.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEec
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI  156 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~  156 (396)
                      .+-|+|+||||+||||+|++|++.++.+++.++.
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~~~~~~~~~   36 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGV   36 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSSSCEEEEEH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcCCCeEEeec
Confidence            3568999999999999999999999998888764

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.94  E-value=2e-06  Score=70.65  Aligned_cols=30  Identities=30%  Similarity=0.637  Sum_probs=27.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      |+|.|+|||||||+++.+|..+|.+|+..+
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~~fiD~D   33 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGVGLLDTD   33 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCCEEEHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCeEeec
Confidence            677799999999999999999999998644

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.91  E-value=3.3e-06  Score=69.22  Aligned_cols=33  Identities=27%  Similarity=0.458  Sum_probs=28.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEe
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVR  155 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~  155 (396)
                      ++-++|.|||||||||+|+.+++.++.+++..+
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~~l~~~~~~~d   38 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAHQLHAAFLDGD   38 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHTCEEEEGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhCCCeechh
Confidence            456788999999999999999999998776544

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.83  E-value=6.7e-06  Score=67.41  Aligned_cols=28  Identities=43%  Similarity=0.637  Sum_probs=24.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAV  150 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~  150 (396)
                      +..|+|.|||||||||+|+.|+..++..
T Consensus         5 ~~~I~i~G~~GsGKTT~~~~La~~l~~~   32 (174)
T d1y63a_           5 GINILITGTPGTGKTSMAEMIAAELDGF   32 (174)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHHSTTE
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHhCCC
Confidence            4559999999999999999999998753

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.82  E-value=5.8e-06  Score=67.53  Aligned_cols=29  Identities=28%  Similarity=0.406  Sum_probs=25.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFI  152 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~  152 (396)
                      +-|+|.|||||||||+|+.++..++..++
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~~~~~~   31 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQLDNSAY   31 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSSEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHcCCCEE
Confidence            45899999999999999999999887654

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.82  E-value=6.3e-06  Score=69.26  Aligned_cols=31  Identities=29%  Similarity=0.519  Sum_probs=27.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      |.-|+|.|||||||||+|+.||..+|..++.
T Consensus         6 p~iI~i~G~pGSGKsT~a~~La~~~g~~~i~   36 (194)
T d1qf9a_           6 PNVVFVLGGPGSGKGTQCANIVRDFGWVHLS   36 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHCCceEc
Confidence            5678999999999999999999999876654

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.78  E-value=5e-06  Score=69.66  Aligned_cols=31  Identities=23%  Similarity=0.355  Sum_probs=27.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      |..|+|.|||||||||+|+.|+..+|.+++.
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~~~~~is   33 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKYQLAHIS   33 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHHCCEECC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHCCcEEe
Confidence            5569999999999999999999999887654

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.77  E-value=1e-05  Score=67.76  Aligned_cols=31  Identities=32%  Similarity=0.507  Sum_probs=26.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      ..++|.|||||||||+|+.||..+|..++..
T Consensus         4 ~riil~G~pGSGKsT~a~~La~~~g~~~i~~   34 (190)
T d1ak2a1           4 VRAVLLGPPGAGKGTQAPKLAKNFCVCHLAT   34 (190)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHTCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEEeH
Confidence            3477889999999999999999998776553

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=97.76  E-value=7.9e-05  Score=64.39  Aligned_cols=79  Identities=19%  Similarity=0.173  Sum_probs=52.6

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch----------------------------hhchH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK----------------------------WFGDA  167 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~----------------------------~~g~~  167 (396)
                      ++.+..-++++||||+|||++|..+|...   +.....++...-...                            .....
T Consensus        22 Gi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (242)
T d1tf7a2          22 GFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAYEESRAQLLRNAYSWGMDFEEMERQNLLKIVCAYPESAGL  101 (242)
T ss_dssp             SEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESSSCHHHHHHHHHTTSCCHHHHHHTTSEEECCCCGGGSCH
T ss_pred             CCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceeeccCCHHHHHHHHHHcCCChHHHhhcCceEEEEeecchhhH
Confidence            36666779999999999999999998864   445555543211000                            01123


Q ss_pred             HHHHHHHHHHHHHhCCcEEEEccccccccC
Q 016044          168 QKLVAAVFSLAYKLQPAIIFIDEVDSFLGQ  197 (396)
Q Consensus       168 ~~~~~~~f~~a~~~~p~vl~iDEid~l~~~  197 (396)
                      ...+..+........+.++++|.++.+...
T Consensus       102 ~~~~~~i~~~i~~~~~~~vviDs~~~~~~~  131 (242)
T d1tf7a2         102 EDHLQIIKSEINDFKPARIAIDSLSALARG  131 (242)
T ss_dssp             HHHHHHHHHHHHTTCCSEEEEECHHHHTSS
T ss_pred             HHHHHHHHHHHHhcCCceeeeecchhhhcC
Confidence            344455555566778899999999988654

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.76  E-value=8.3e-06  Score=67.57  Aligned_cols=30  Identities=33%  Similarity=0.525  Sum_probs=26.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      .|+|.|||||||||+|+.||..+|..++..
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~~~~~i~~   31 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAYGIPHIST   31 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceech
Confidence            388999999999999999999999877654

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.72  E-value=7.4e-06  Score=67.52  Aligned_cols=24  Identities=42%  Similarity=0.692  Sum_probs=22.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ++|+|+||||||||+++++++..+
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHH
Confidence            679999999999999999999865

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.72  E-value=8e-06  Score=67.82  Aligned_cols=30  Identities=43%  Similarity=0.645  Sum_probs=26.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      .|+|.|||||||||+|+.|++.+|..++.+
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~g~~~i~~   31 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKLGIPQIST   31 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceEch
Confidence            478999999999999999999999876654

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=97.68  E-value=0.00043  Score=58.42  Aligned_cols=71  Identities=15%  Similarity=0.168  Sum_probs=44.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecccccch--------------------hhchHHHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLMSK--------------------WFGDAQKLVAAVFSLAY  179 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~~~--------------------~~g~~~~~~~~~f~~a~  179 (396)
                      |.-++|.||+|+||||.+-.+|..+   |..+.-+.+..+...                    ...+....+......++
T Consensus         9 p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~~~~a~   88 (211)
T d2qy9a2           9 PFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQAAK   88 (211)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccccchhhhhhhhhhcCCcccccccCCCHHHHHHHHHHHHH
Confidence            5668899999999999888888644   455555555333211                    11223344444555555


Q ss_pred             HhCCcEEEEccccc
Q 016044          180 KLQPAIIFIDEVDS  193 (396)
Q Consensus       180 ~~~p~vl~iDEid~  193 (396)
                      .....+++||=..+
T Consensus        89 ~~~~d~ilIDTaGr  102 (211)
T d2qy9a2          89 ARNIDVLIADTAGR  102 (211)
T ss_dssp             HTTCSEEEECCCCC
T ss_pred             HcCCCEEEeccCCC
Confidence            55667999987654

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.68  E-value=1.4e-05  Score=67.07  Aligned_cols=31  Identities=23%  Similarity=0.386  Sum_probs=26.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      ..|+|.|||||||||+|+.||..+|..++++
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~~g~~~is~   37 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKHFELKHLSS   37 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHBCCEEEEH
T ss_pred             eeEEEECCCCCCHHHHHHHHHHHHCCeEEcH
Confidence            4588899999999999999999999776543

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.68  E-value=1.3e-05  Score=66.57  Aligned_cols=30  Identities=33%  Similarity=0.576  Sum_probs=26.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      .|+|.|||||||||+|+.||..+|.+++..
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~g~~~is~   31 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKYGTPHIST   31 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCceeeH
Confidence            378999999999999999999999887654

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.68  E-value=1.6e-05  Score=66.89  Aligned_cols=31  Identities=23%  Similarity=0.468  Sum_probs=26.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      .-|+|.|||||||||+|+.||+.+|..++..
T Consensus         9 ~iI~i~GppGSGKsT~a~~La~~~g~~~is~   39 (196)
T d1ukza_           9 SVIFVLGGPGAGKGTQCEKLVKDYSFVHLSA   39 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHSSCEEEEH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhCCeEEeh
Confidence            4578899999999999999999998876553

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.68  E-value=1.5e-05  Score=66.89  Aligned_cols=31  Identities=26%  Similarity=0.431  Sum_probs=26.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      |.-|+|.||||+||||.|+.||+.+|..++.
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~g~~~i~   31 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKYGYTHLS   31 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHCCEEEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCceEc
Confidence            3458999999999999999999999876653

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.68  E-value=1.4e-05  Score=67.17  Aligned_cols=36  Identities=25%  Similarity=0.499  Sum_probs=29.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLM  160 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~  160 (396)
                      ++-|+|.|||||||||+|+.||..+|.+++  +..+++
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~~g~~~i--s~g~ll   43 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQKYGYTHL--STGDLL   43 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHTCCEEE--EHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeeE--eccHHH
Confidence            466899999999999999999999987665  444443

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.67  E-value=5.5e-06  Score=68.13  Aligned_cols=26  Identities=23%  Similarity=0.310  Sum_probs=23.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      ..|+|+|+|||||||+|++++..++.
T Consensus         7 ~~I~l~G~~GsGKTTia~~La~~L~~   32 (183)
T d1m8pa3           7 FTIFLTGYMNSGKDAIARALQVTLNQ   32 (183)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            45889999999999999999998753

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.66  E-value=2.3e-05  Score=64.62  Aligned_cols=32  Identities=28%  Similarity=0.433  Sum_probs=26.5

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      .|.-|+++|+|||||||+|+.++...+..+++
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~~~~~~~~i~   44 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVN   44 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHTGGGTCEEEE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhcCCEEEc
Confidence            45678999999999999999999887765443

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.65  E-value=1.5e-05  Score=66.10  Aligned_cols=30  Identities=30%  Similarity=0.530  Sum_probs=26.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      .|+|.|||||||||+|+.||..+|.+++..
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~g~~~i~~   33 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERFHAAHLAT   33 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHCCEEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceEec
Confidence            478889999999999999999998776554

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=97.63  E-value=0.00012  Score=64.29  Aligned_cols=78  Identities=19%  Similarity=0.225  Sum_probs=52.4

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEecccccch----------------hhchHHHHHHHHHHHHH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRISNLMSK----------------WFGDAQKLVAAVFSLAY  179 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~~~l~~~----------------~~g~~~~~~~~~f~~a~  179 (396)
                      .+...+-+.|+||||+|||++|-.++..   .|...++++...-...                .....+..+..+-...+
T Consensus        50 Gi~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~~~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~l~~  129 (263)
T d1u94a1          50 GLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYARKLGVDIDNLLCSQPDTGEQALEICDALAR  129 (263)
T ss_dssp             SEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CccCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccccCHHHHHHhCCCHHHEEEecCCCHHHHHHHHHHHHh
Confidence            3556677899999999999999888664   3666777776432221                11234444444444445


Q ss_pred             HhCCcEEEEcccccccc
Q 016044          180 KLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       180 ~~~p~vl~iDEid~l~~  196 (396)
                      ...++++++|-+..+.+
T Consensus       130 ~~~~~liViDSi~al~~  146 (263)
T d1u94a1         130 SGAVDVIVVDSVAALTP  146 (263)
T ss_dssp             HTCCSEEEEECGGGCCC
T ss_pred             cCCCCEEEEECcccccc
Confidence            56778999999988864

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=97.61  E-value=8.4e-05  Score=69.66  Aligned_cols=102  Identities=16%  Similarity=0.255  Sum_probs=66.9

Q ss_pred             ccCCCCCCcccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcC---CcEEE
Q 016044           77 VINPDHIDVEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESG---AVFIN  153 (396)
Q Consensus        77 ~~~~~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~---~~~~~  153 (396)
                      ++.+.....++++++-.+...+.+++++..               +..-+|+.||+|+||||+..++.++.+   .+++.
T Consensus       127 l~~~~~~~~~l~~LG~~~~~~~~l~~l~~~---------------~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~t  191 (401)
T d1p9ra_         127 LLDKNATRLDLHSLGMTAHNHDNFRRLIKR---------------PHGIILVTGPTGSGKSTTLYAGLQELNSSERNILT  191 (401)
T ss_dssp             CEETTTTCCCGGGSCCCHHHHHHHHHHHTS---------------SSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEE
T ss_pred             hhcccccchhhhhhcccHHHHHHHHHHHhh---------------hhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEE
Confidence            445555667899998888888888766532               234578899999999999999988763   34555


Q ss_pred             Eecc-cccch------hhchHHHHHHHHHHHHHHhCCcEEEEccccc
Q 016044          154 VRIS-NLMSK------WFGDAQKLVAAVFSLAYKLQPAIIFIDEVDS  193 (396)
Q Consensus       154 i~~~-~l~~~------~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~  193 (396)
                      +.-+ +..-.      ..+............+.+..|.||++.|+-.
T Consensus       192 iEdPiE~~~~~~~q~~v~~~~~~~~~~~l~~~lR~dPDvi~igEiRd  238 (401)
T d1p9ra_         192 VEDPIEFDIDGIGQTQVNPRVDMTFARGLRAILRQDPDVVMVGEIRD  238 (401)
T ss_dssp             EESSCCSCCSSSEEEECBGGGTBCHHHHHHHHGGGCCSEEEESCCCS
T ss_pred             eccCcccccCCCCeeeecCCcCCCHHHHHHHHHhhcCCEEEecCcCC
Confidence            4321 11100      0011112244455566788999999999964

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=97.59  E-value=0.0005  Score=57.90  Aligned_cols=34  Identities=24%  Similarity=0.258  Sum_probs=25.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      ++-++|.||+|+||||.+-.+|..+   |..+.-+.+
T Consensus         6 ~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~   42 (207)
T d1okkd2           6 GRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAG   42 (207)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEe
Confidence            5668999999999999888887754   444444444

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.59  E-value=1.9e-05  Score=65.30  Aligned_cols=30  Identities=30%  Similarity=0.433  Sum_probs=26.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      .|+|.|||||||||.|+.|++.+|..++..
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~~~~~i~~   31 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKYGIPQIST   31 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHCCCEEEH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCceech
Confidence            378999999999999999999999876653

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=97.57  E-value=2.2e-05  Score=66.99  Aligned_cols=29  Identities=31%  Similarity=0.494  Sum_probs=25.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      -|.+.|||||||+|+|+.||+.+|.++++
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~gl~~iS   33 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQWHLLD   33 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCcEEC
Confidence            56788999999999999999999987754

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.57  E-value=2e-05  Score=62.98  Aligned_cols=34  Identities=29%  Similarity=0.480  Sum_probs=25.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN  158 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~  158 (396)
                      +-|+|+||||+||||+|+.++.+.. .+..++..+
T Consensus         3 klIii~G~pGsGKTTla~~L~~~~~-~~~~~~~d~   36 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAKNP-GFYNINRDD   36 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHST-TEEEECHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhCC-CCEEechHH
Confidence            3478999999999999999977643 344555433

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.55  E-value=5.6e-06  Score=69.24  Aligned_cols=27  Identities=30%  Similarity=0.283  Sum_probs=23.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAV  150 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~  150 (396)
                      .-|+|+|+|||||||+|+.|+..++..
T Consensus        20 ~vI~L~G~pGSGKTTiAk~La~~l~~~   46 (195)
T d1x6va3          20 CTVWLTGLSGAGKTTVSMALEEYLVCH   46 (195)
T ss_dssp             EEEEEESSCHHHHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            457789999999999999999988543

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=97.51  E-value=0.0011  Score=56.06  Aligned_cols=35  Identities=29%  Similarity=0.351  Sum_probs=25.5

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      .|.-++|.||+|+||||.+-.+|..+   |..+.-+.+
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~   47 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAA   47 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEee
Confidence            46678999999999999888887644   444444443

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=97.50  E-value=3.2e-05  Score=66.13  Aligned_cols=28  Identities=36%  Similarity=0.708  Sum_probs=24.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      |.+.|||||||||+|+.||.++|.++++
T Consensus         6 IaIdGp~GsGKgT~ak~La~~lg~~~is   33 (223)
T d1q3ta_           6 IAIDGPASSGKSTVAKIIAKDFGFTYLD   33 (223)
T ss_dssp             EEEECSSCSSHHHHHHHHHHHHCCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCcEEC
Confidence            4567999999999999999999987654

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.48  E-value=0.00012  Score=61.49  Aligned_cols=35  Identities=17%  Similarity=0.319  Sum_probs=26.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC---CcEEEEecc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG---AVFINVRIS  157 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~---~~~~~i~~~  157 (396)
                      |--|+++|.||+||||+|++|++.++   .+...++..
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~~~~~~~~~~D   39 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVG   39 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhcCCCCeEEccc
Confidence            34588999999999999999998763   445455543

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=97.37  E-value=0.00046  Score=60.63  Aligned_cols=114  Identities=13%  Similarity=0.176  Sum_probs=65.7

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEecccccchh----------------hchHHHHHHHHHHHHH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRISNLMSKW----------------FGDAQKLVAAVFSLAY  179 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~~~l~~~~----------------~g~~~~~~~~~f~~a~  179 (396)
                      ++...+-..++||+|||||++|-.++..   .|..+++++...-+...                ....+..+..+-....
T Consensus        53 Gip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~~~~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~l~~  132 (268)
T d1xp8a1          53 GIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVYARALGVNTDELLVSQPDNGEQALEIMELLVR  132 (268)
T ss_dssp             SEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHHHHHTTCCGGGCEEECCSSHHHHHHHHHHHHT
T ss_pred             CccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccCCHHHHHHhCCCchhEEEEcCCCHHHHHHHHHHHHh
Confidence            3555667889999999999999888664   36777888765332221                1224444443333333


Q ss_pred             HhCCcEEEEccccccccCCC-CCc-----hHHHHhhHHHHHHHhhccCcCCCCcEEEEEec
Q 016044          180 KLQPAIIFIDEVDSFLGQRR-TSD-----HEALTNMKTEFMALWDGFTTDQNARVMVLAAT  234 (396)
Q Consensus       180 ~~~p~vl~iDEid~l~~~~~-~~~-----~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~at  234 (396)
                      ...+.++++|-+..+.++.. ...     .....+.+..++..+..+..  ..++.+|++.
T Consensus       133 ~~~~~liIiDSi~al~~r~e~~~~~~~~~~~~~a~~l~~~lr~l~~~~~--~~~~~vi~tN  191 (268)
T d1xp8a1         133 SGAIDVVVVDSVAALTPRAEIEGDMGDSLPGLQARLMSQALRKLTAILS--KTGTAAIFIN  191 (268)
T ss_dssp             TTCCSEEEEECTTTCCCSTTC--------CCHHHHHHHHHHHHHHHHHT--TTCCEEEEEE
T ss_pred             cCCCcEEEEecccccccHHHHcccccchhHHHHHHHHHHHHHHHHhhhh--hcCCeEEEEe
Confidence            44678999999999875332 111     11233444455554444433  2345555553

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=97.36  E-value=0.00011  Score=61.35  Aligned_cols=33  Identities=18%  Similarity=0.341  Sum_probs=27.4

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      +..+.++|+|||+||||++|.++++-++...+.
T Consensus        51 PKkn~i~~~GP~~TGKS~f~~sl~~~l~G~vis   83 (205)
T d1tuea_          51 PKKNCLVFCGPANTGKSYFGMSFIHFIQGAVIS   83 (205)
T ss_dssp             TTCSEEEEESCGGGCHHHHHHHHHHHHTCEECC
T ss_pred             CCceEEEEECCCCccHHHHHHHHHHHhCCEEEe
Confidence            445789999999999999999999988755443

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=97.35  E-value=0.0011  Score=55.87  Aligned_cols=35  Identities=29%  Similarity=0.171  Sum_probs=21.4

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      .|.-++|.||+|+||||.+-.+|..+   |..+.-+.+
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~   48 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGA   48 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEEC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEe
Confidence            35668899999999999888777644   444444444

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=97.34  E-value=0.0014  Score=55.12  Aligned_cols=35  Identities=29%  Similarity=0.244  Sum_probs=25.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      ++-++|.||+|+||||.+-.+|..+   |..+.-+.+.
T Consensus        10 ~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~D   47 (207)
T d1ls1a2          10 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAAD   47 (207)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecc
Confidence            4557889999999999988888754   5555555543

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=97.32  E-value=0.00077  Score=52.45  Aligned_cols=35  Identities=23%  Similarity=0.233  Sum_probs=27.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS  157 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~  157 (396)
                      .+..+|.+|+|+|||+++-.++.+.+...+.+-..
T Consensus         8 ~~~~ll~apTGsGKT~~~~~~~~~~~~~vli~~P~   42 (136)
T d1a1va1           8 FQVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLNPS   42 (136)
T ss_dssp             CEEEEEECCTTSCTTTHHHHHHHTTTCCEEEEESC
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHHcCCcEEEEcCh
Confidence            35679999999999998877777777666665553

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=97.26  E-value=0.0021  Score=54.38  Aligned_cols=78  Identities=23%  Similarity=0.182  Sum_probs=49.7

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHH----HcCCcEEEEecccccch---------------------------------
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAK----ESGAVFINVRISNLMSK---------------------------------  162 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~----~~~~~~~~i~~~~l~~~---------------------------------  162 (396)
                      +++..-++|+|+||+|||++|..++.    ..+..+..++...-...                                 
T Consensus        23 i~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  102 (242)
T d1tf7a1          23 LPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQ  102 (242)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHHHHGGGTCCHHHHHHTTSEEEEECCCCSSCC
T ss_pred             CcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCcccccccCCHHHHHHHHHHcCCChHHHHHhcchhhhhhccchhhh
Confidence            66677799999999999999977653    22445555543211000                                 


Q ss_pred             ---hhchHHHHHHHHHHHHHHhCCcEEEEccccccccC
Q 016044          163 ---WFGDAQKLVAAVFSLAYKLQPAIIFIDEVDSFLGQ  197 (396)
Q Consensus       163 ---~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~l~~~  197 (396)
                         ........+..+........+.++++|.++.+...
T Consensus       103 ~~~~~~~~~~l~~~l~~~i~~~~~~~viiD~~~~l~~~  140 (242)
T d1tf7a1         103 EVVGGFDLSALIERINYAIQKYRARRVSIDSVTSVFQQ  140 (242)
T ss_dssp             SCCSSHHHHHHHHHHHHHHHHHTCSEEEEECSTTTSTT
T ss_pred             hhhccccHHHHHHHHHHHHHhhccchhhhhHHHHHHHh
Confidence               00122334455555666778899999999988654

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.15  E-value=9.8e-05  Score=60.60  Aligned_cols=26  Identities=27%  Similarity=0.364  Sum_probs=22.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      +-|+|.|+|||||||+++.++..++.
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~   27 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRK   27 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            45889999999999999999997743

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.12  E-value=0.00091  Score=58.65  Aligned_cols=78  Identities=19%  Similarity=0.225  Sum_probs=51.4

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHH---HcCCcEEEEecccccch----------------hhchHHHHHHHHHHHHH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAK---ESGAVFINVRISNLMSK----------------WFGDAQKLVAAVFSLAY  179 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~---~~~~~~~~i~~~~l~~~----------------~~g~~~~~~~~~f~~a~  179 (396)
                      ++...+-..|+||+|||||++|-.++.   ..|...++++...-++.                .....+..+..+-....
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~~e~a~~~GvD~d~il~~~~~~~E~~~~~~~~l~~  135 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDYAKKLGVDTDSLLVSQPDTGEQALEIADMLIR  135 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCCHHHHHHHTCCGGGCEEECCSSHHHHHHHHHHHHH
T ss_pred             CcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCCHHHHHHhCCCHHHeEEecCCCHHHHHHHHHHHHh
Confidence            466667789999999999999977755   34777788876543221                11223444433333334


Q ss_pred             HhCCcEEEEcccccccc
Q 016044          180 KLQPAIIFIDEVDSFLG  196 (396)
Q Consensus       180 ~~~p~vl~iDEid~l~~  196 (396)
                      ...+++|++|-+..+.+
T Consensus       136 ~~~~~liIiDSi~al~~  152 (269)
T d1mo6a1         136 SGALDIVVIDSVAALVP  152 (269)
T ss_dssp             TTCEEEEEEECSTTCCC
T ss_pred             cCCCCEEEEeccccccc
Confidence            45678999999998875

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=97.08  E-value=0.00024  Score=64.30  Aligned_cols=70  Identities=21%  Similarity=0.345  Sum_probs=44.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC--CcEEEEe-cccccc-------hhhchHHHHHHHHHHHHHHhCCcEEEEcccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG--AVFINVR-ISNLMS-------KWFGDAQKLVAAVFSLAYKLQPAIIFIDEVD  192 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~--~~~~~i~-~~~l~~-------~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid  192 (396)
                      .+++++.||+|+||||++++++....  ..++.+. ..++.-       ...+..+-....++..+.+..|..+++.|+-
T Consensus       166 ~~nili~G~tgSGKTT~l~al~~~i~~~~rivtiEd~~El~l~~~~~~~~~~~~~~~~~~~ll~~~lR~~pd~iivgEiR  245 (323)
T d1g6oa_         166 GKNVIVCGGTGSGKTTYIKSIMEFIPKEERIISIEDTEEIVFKHHKNYTQLFFGGNITSADCLKSCLRMRPDRIILGELR  245 (323)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSCTTCCEEEEESSCCCCCSSCSSEEEEECBTTBCHHHHHHHHTTSCCSEEEESCCC
T ss_pred             CCCEEEEeeccccchHHHHHHhhhcccccceeeccchhhhhcccccccceeccccchhHHHHHHHHhccCCCcccCCccC
Confidence            46799999999999999999998653  2333332 112110       0011111123445666777899999999984

>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=97.08  E-value=0.00013  Score=58.91  Aligned_cols=31  Identities=26%  Similarity=0.173  Sum_probs=24.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc---CCcEEEEe
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKES---GAVFINVR  155 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~---~~~~~~i~  155 (396)
                      -+.|+|++|||||||++.+++++   |..+..+.
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~   37 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIK   37 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEec
Confidence            47899999999999999999864   55554444

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=97.07  E-value=0.0026  Score=55.65  Aligned_cols=37  Identities=14%  Similarity=0.150  Sum_probs=28.2

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHH----cCCcEEEEec
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKE----SGAVFINVRI  156 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~----~~~~~~~i~~  156 (396)
                      +.+..-++|.|+||+|||+++..++..    .|.++..+++
T Consensus        32 ~~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~   72 (277)
T d1cr2a_          32 ARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAML   72 (277)
T ss_dssp             BCTTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEES
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeee
Confidence            455567899999999999999888753    3667766654

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.05  E-value=0.001  Score=56.72  Aligned_cols=28  Identities=25%  Similarity=0.249  Sum_probs=23.7

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ++++..-++|+||||||||+++-.++..
T Consensus        30 Gi~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          30 GVETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             SEESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             CCcCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            3666778999999999999999988653

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.02  E-value=0.00022  Score=60.40  Aligned_cols=38  Identities=18%  Similarity=0.197  Sum_probs=30.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc----CCcEEEEeccccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES----GAVFINVRISNLM  160 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~----~~~~~~i~~~~l~  160 (396)
                      +.-|+|+|.||+||||+|++++..+    +.+++.++...+.
T Consensus        24 g~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ldgD~iR   65 (208)
T d1m7ga_          24 GLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLDGDNIR   65 (208)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEECHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCceEEEEcchHHH
Confidence            4568999999999999999998754    6778888876543

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.00  E-value=0.00023  Score=59.34  Aligned_cols=28  Identities=39%  Similarity=0.670  Sum_probs=24.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEE
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFI  152 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~  152 (396)
                      +|+|.||+|+|||++++.++...+..|.
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~~~~   29 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSSIFG   29 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTTTEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCCcee
Confidence            4899999999999999999998765543

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.00  E-value=0.00024  Score=58.95  Aligned_cols=28  Identities=36%  Similarity=0.629  Sum_probs=24.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcE
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVF  151 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~  151 (396)
                      +.|+|.||+|+|||++++.++++....|
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~~~   29 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCcce
Confidence            4599999999999999999999875444

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=96.99  E-value=0.00075  Score=61.90  Aligned_cols=21  Identities=33%  Similarity=0.523  Sum_probs=17.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIA  144 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala  144 (396)
                      +-.+|+||||||||+++..+.
T Consensus       164 ~~~vI~G~pGTGKTt~i~~~l  184 (359)
T d1w36d1         164 RISVISGGPGTGKTTTVAKLL  184 (359)
T ss_dssp             SEEEEECCTTSTHHHHHHHHH
T ss_pred             CeEEEEcCCCCCceehHHHHH
Confidence            457899999999998875543

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=96.97  E-value=0.00095  Score=58.54  Aligned_cols=59  Identities=29%  Similarity=0.455  Sum_probs=39.1

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecccccchhhchHHHHHHHHHHHHHHhCCcEEEEccccc
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISNLMSKWFGDAQKLVAAVFSLAYKLQPAIIFIDEVDS  193 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~l~~~~~g~~~~~~~~~f~~a~~~~p~vl~iDEid~  193 (396)
                      .+....++|+||+++|||+++.++++-+|. +..++-+.  +.            |..+......++++||...
T Consensus       101 ~~k~n~~~l~G~~~tGKS~f~~~i~~~lg~-~~~~~~~~--~~------------f~l~~l~~k~~~~~~e~~~  159 (267)
T d1u0ja_         101 FGKRNTIWLFGPATTGKTNIAEAIAHTVPF-YGCVNWTN--EN------------FPFNDCVDKMVIWWEEGKM  159 (267)
T ss_dssp             STTCCEEEEECSTTSSHHHHHHHHHHHSSC-EEECCTTC--SS------------CTTGGGSSCSEEEECSCCE
T ss_pred             CCccEEEEEEcCCCCCHHHHHHHHHHHhcc-hhhccccC--CC------------ccccccCCCEEEEEeCCCc
Confidence            344577899999999999999999998864 33322111  11            1222233447999999764

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.80  E-value=0.0048  Score=52.56  Aligned_cols=24  Identities=38%  Similarity=0.585  Sum_probs=21.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~  145 (396)
                      +..-+-|.||+||||||+.+.++.
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            345688999999999999999987

>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=96.76  E-value=0.00021  Score=58.84  Aligned_cols=25  Identities=20%  Similarity=0.302  Sum_probs=22.0

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCC
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      -++|.|+||+||||+++.++..++.
T Consensus         3 iivi~G~~GsGKTT~~~~La~~L~~   27 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3688999999999999999998743

>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=96.73  E-value=0.0044  Score=53.23  Aligned_cols=26  Identities=27%  Similarity=0.377  Sum_probs=22.4

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +...+.|.||+|+|||||++.++...
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            44668999999999999999998843

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=96.69  E-value=0.0018  Score=49.91  Aligned_cols=22  Identities=32%  Similarity=0.218  Sum_probs=17.5

Q ss_pred             CCCCceEEEECCCCCcHHHHHH
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAK  141 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~  141 (396)
                      ++....++|++|+|+|||..+-
T Consensus         4 l~~~~~~il~~~tGsGKT~~~~   25 (140)
T d1yksa1           4 LKKGMTTVLDFHPGAGKTRRFL   25 (140)
T ss_dssp             TSTTCEEEECCCTTSSTTTTHH
T ss_pred             HHcCCcEEEEcCCCCChhHHHH
Confidence            3445789999999999996653

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.65  E-value=0.0062  Score=52.01  Aligned_cols=23  Identities=22%  Similarity=0.394  Sum_probs=20.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      .+.++|+||..+|||++.|.++-
T Consensus        41 ~~~~iiTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          41 RRMLIITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEeccCchhhHHHHHHHHH
Confidence            36689999999999999999976

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=96.61  E-value=0.013  Score=50.71  Aligned_cols=25  Identities=36%  Similarity=0.458  Sum_probs=21.1

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      +..-.+|+|+||+|||+++-.+|..
T Consensus        28 pg~~~~i~G~~G~GKS~l~l~la~~   52 (274)
T d1nlfa_          28 AGTVGALVSPGGAGKSMLALQLAAQ   52 (274)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            3456789999999999999988764

>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=96.57  E-value=0.00041  Score=57.31  Aligned_cols=32  Identities=19%  Similarity=0.194  Sum_probs=24.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcC---CcEEEEec
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESG---AVFINVRI  156 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~---~~~~~i~~  156 (396)
                      -|-+.||+||||||+|+.++..++   .....++.
T Consensus        24 iIgI~G~~GSGKSTla~~L~~~l~~~~~~~~~~~~   58 (198)
T d1rz3a_          24 VLGIDGLSRSGKTTLANQLSQTLREQGISVCVFHM   58 (198)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhccccccceeccc
Confidence            356899999999999999998654   34444443

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.56  E-value=0.0016  Score=56.55  Aligned_cols=25  Identities=28%  Similarity=0.420  Sum_probs=21.9

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHH
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~  145 (396)
                      .+..-+.|.||+||||||+++.++.
T Consensus        42 ~~Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          42 EKGETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHHh
Confidence            3456789999999999999999986

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.50  E-value=0.00074  Score=56.40  Aligned_cols=29  Identities=21%  Similarity=0.237  Sum_probs=24.9

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ++.+..-++|+||||+|||++|..+|...
T Consensus        19 Gi~~G~v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          19 GIETGSITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             SEETTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcCCEEEEEEeCCCCCHHHHHHHHHHHH
Confidence            46667789999999999999999998754

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.47  E-value=0.00087  Score=55.02  Aligned_cols=25  Identities=24%  Similarity=0.507  Sum_probs=22.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +-++|.||+|+||||+++.+..+..
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHST
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            4588999999999999999998864

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.41  E-value=0.0013  Score=56.58  Aligned_cols=29  Identities=31%  Similarity=0.339  Sum_probs=24.5

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ++++..-++|+||||||||+++-.++...
T Consensus        32 Glp~G~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          32 GIETQAITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             SEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CccCCEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            46667779999999999999999888653

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.36  E-value=0.0012  Score=56.66  Aligned_cols=28  Identities=21%  Similarity=0.194  Sum_probs=24.5

Q ss_pred             CCCCCceEEEECCCCCcHHHHHHHHHHH
Q 016044          119 LLGPQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       119 ~~~~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ++++..-++|+||||||||++|..++..
T Consensus        33 Gip~G~~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          33 GIESMAITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHH
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4667778999999999999999999864

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.21  E-value=0.0015  Score=54.97  Aligned_cols=26  Identities=19%  Similarity=0.213  Sum_probs=22.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      --|-+.||+||||||+|+.++..++.
T Consensus         3 ~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           3 FLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHhch
Confidence            34668999999999999999998864

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=96.19  E-value=0.0019  Score=52.59  Aligned_cols=30  Identities=33%  Similarity=0.526  Sum_probs=25.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      .++|||.|++|+|||++|-.+... |..++.
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~-g~~lv~   43 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR-GHRLIA   43 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT-TCEEEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCeEEe
Confidence            489999999999999999988875 666554

>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=96.18  E-value=0.0026  Score=51.10  Aligned_cols=31  Identities=23%  Similarity=0.167  Sum_probs=24.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      +-+.|++|||||||+..++.++   |..+..+..
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik~   37 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVKH   37 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEC
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEEe
Confidence            5699999999999999998865   555555543

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.18  E-value=0.0019  Score=51.59  Aligned_cols=26  Identities=35%  Similarity=0.471  Sum_probs=23.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      --|+|.|+=|+|||+++|.+++.+|.
T Consensus        34 ~ii~L~G~LGaGKTtfvr~~~~~lg~   59 (158)
T d1htwa_          34 IMVYLNGDLGAGKTTLTRGMLQGIGH   59 (158)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             eEEEEecCCCccHHHHHHHHHhhccc
Confidence            44889999999999999999998875

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.17  E-value=0.023  Score=47.21  Aligned_cols=32  Identities=28%  Similarity=0.210  Sum_probs=25.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcCCcEEEEec
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESGAVFINVRI  156 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~~~~~~i~~  156 (396)
                      ..++.+|+|+|||.++-.++.+.+.+.+.+-+
T Consensus        87 ~~ll~~~tG~GKT~~a~~~~~~~~~~~Liv~p  118 (206)
T d2fz4a1          87 RGCIVLPTGSGKTHVAMAAINELSTPTLIVVP  118 (206)
T ss_dssp             EEEEEESSSTTHHHHHHHHHHHSCSCEEEEES
T ss_pred             CcEEEeCCCCCceehHHhHHHHhcCceeEEEc
Confidence            45688999999999999999888777666544

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.14  E-value=0.002  Score=52.76  Aligned_cols=25  Identities=20%  Similarity=0.470  Sum_probs=22.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +.++|.||+|+||+++++.+..+..
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~   28 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCC
Confidence            5699999999999999999998754

>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=96.10  E-value=0.015  Score=49.67  Aligned_cols=26  Identities=31%  Similarity=0.340  Sum_probs=21.6

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +..-+-|.||.|+|||||.++++...
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34557799999999999999998843

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=96.08  E-value=0.01  Score=50.27  Aligned_cols=22  Identities=32%  Similarity=0.443  Sum_probs=19.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      +.++|+||..+|||++.|.++-
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l   57 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTAL   57 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhHH
Confidence            3579999999999999999865

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=96.08  E-value=0.0097  Score=48.07  Aligned_cols=22  Identities=27%  Similarity=0.385  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~  146 (396)
                      .|.|.|.+|+|||+|++++...
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999999863

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.00  E-value=0.0028  Score=52.17  Aligned_cols=30  Identities=20%  Similarity=0.306  Sum_probs=24.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      |--|-++|++||||||+|+.+ .+.|.+++.
T Consensus         3 p~IIgitG~~gSGKstva~~l-~~~g~~~~~   32 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALL-RSWGYPVLD   32 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHH-HHTTCCEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHH-HHCCCeEEE
Confidence            334568999999999999998 567877654

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=95.82  E-value=0.0025  Score=51.87  Aligned_cols=30  Identities=33%  Similarity=0.547  Sum_probs=24.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      ..++||.||+|+|||++|-.+... |..++.
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~-G~~lva   44 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK-NHLFVG   44 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT-TCEEEE
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc-CCceec
Confidence            488999999999999999888754 666554

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=95.79  E-value=0.0064  Score=48.12  Aligned_cols=21  Identities=38%  Similarity=0.620  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      .|+|.|+||+|||+|..++..
T Consensus         3 kI~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            488999999999999999975

>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=95.78  E-value=0.0064  Score=54.06  Aligned_cols=40  Identities=10%  Similarity=0.077  Sum_probs=30.7

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHcC-----CcEEEEeccccc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKESG-----AVFINVRISNLM  160 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~~-----~~~~~i~~~~l~  160 (396)
                      ..|--|.+.|++|+||||+|+.+...+.     ..+..++..++.
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F~  122 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFL  122 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGB
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHHHHhhhcCCCceEEEeeeeeE
Confidence            3455677899999999999999998763     456666666664

>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=95.78  E-value=0.012  Score=51.54  Aligned_cols=38  Identities=18%  Similarity=0.286  Sum_probs=27.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc------CCcEEEEeccccc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES------GAVFINVRISNLM  160 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~------~~~~~~i~~~~l~  160 (396)
                      |--|-|.|++||||||++..+...+      +..+..++..++.
T Consensus        27 P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY   70 (286)
T d1odfa_          27 PLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFY   70 (286)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGB
T ss_pred             CEEEEeECCCCCCHHHHHHHHHHHHHHHhCCCcceEeeccCCCC
Confidence            3345578999999999999887654      3456666666664

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=95.76  E-value=0.0034  Score=50.71  Aligned_cols=29  Identities=34%  Similarity=0.544  Sum_probs=24.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFI  152 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~  152 (396)
                      ..||||.|++|+|||++|-.+... |..++
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~-g~~li   43 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKR-GHRLV   43 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT-TCEEE
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc-CCeEE
Confidence            479999999999999999888765 55444

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=95.76  E-value=0.0027  Score=50.09  Aligned_cols=21  Identities=24%  Similarity=0.379  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~  146 (396)
                      |+|.|+||||||+|+.++...
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999999864

>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=95.66  E-value=0.035  Score=49.64  Aligned_cols=34  Identities=26%  Similarity=0.365  Sum_probs=25.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc---C--CcEEEEec
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES---G--AVFINVRI  156 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~---~--~~~~~i~~  156 (396)
                      ..-|-+.||||+|||||..+++..+   |  .-++.+++
T Consensus        54 ~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDp   92 (327)
T d2p67a1          54 TLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDP   92 (327)
T ss_dssp             SEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECC
T ss_pred             ceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeecCCC
Confidence            4558899999999999999998743   2  33455554

>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=95.66  E-value=0.054  Score=46.72  Aligned_cols=34  Identities=29%  Similarity=0.280  Sum_probs=23.8

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH---HcCCcEEEEec
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK---ESGAVFINVRI  156 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~---~~~~~~~~i~~  156 (396)
                      +..-||+|..|||||.++-..+.   ..|.....+-+
T Consensus       104 ~m~rLL~GdvGSGKT~Va~~a~~~~~~~g~q~~~m~P  140 (264)
T d1gm5a3         104 PMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVP  140 (264)
T ss_dssp             CCCCEEECCSSSSHHHHHHHHHHHHHHHTSCEEEECS
T ss_pred             cceeeeeccccccccHHHHHHHHHHHhcccceeEEee
Confidence            56689999999999988866544   33544444444

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=95.57  E-value=0.003  Score=52.85  Aligned_cols=28  Identities=32%  Similarity=0.508  Sum_probs=23.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEE
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINV  154 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i  154 (396)
                      |-|+|++||||||+|+.+. +.|.+++..
T Consensus         5 IgITG~igSGKStv~~~l~-~~G~~vida   32 (205)
T d1jjva_           5 VGLTGGIGSGKTTIANLFT-DLGVPLVDA   32 (205)
T ss_dssp             EEEECSTTSCHHHHHHHHH-TTTCCEEEH
T ss_pred             EEEECCCCCCHHHHHHHHH-HCCCeEEEc
Confidence            5589999999999999886 678887653

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.55  E-value=0.0044  Score=51.84  Aligned_cols=25  Identities=28%  Similarity=0.445  Sum_probs=22.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      +-++|.||+|+|||++.+.+.....
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            4478999999999999999998764

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.52  E-value=0.0033  Score=53.47  Aligned_cols=28  Identities=25%  Similarity=0.226  Sum_probs=24.1

Q ss_pred             CCCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          120 LGPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       120 ~~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +.+..-++|.|+||+|||+++..+|...
T Consensus        31 l~~G~l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          31 LESQSVTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             EETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             ccCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            5566778999999999999999998754

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=95.50  E-value=0.0037  Score=52.38  Aligned_cols=27  Identities=41%  Similarity=0.578  Sum_probs=22.5

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEE
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFIN  153 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~  153 (396)
                      |-|+|++||||||+|+.+. +.|.+++.
T Consensus         6 IgitG~igSGKStv~~~l~-~~G~~vid   32 (208)
T d1vhta_           6 VALTGGIGSGKSTVANAFA-DLGINVID   32 (208)
T ss_dssp             EEEECCTTSCHHHHHHHHH-HTTCEEEE
T ss_pred             EEEECCCcCCHHHHHHHHH-HCCCcEEE
Confidence            5689999999999999885 67876654

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.49  E-value=0.0068  Score=48.44  Aligned_cols=20  Identities=25%  Similarity=0.544  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |++.|++|+|||+|+.++..
T Consensus         6 i~viG~~~vGKTsli~~l~~   25 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQ   25 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            89999999999999999987

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.46  E-value=0.021  Score=47.15  Aligned_cols=18  Identities=50%  Similarity=0.726  Sum_probs=15.7

Q ss_pred             ceEEEECCCCCcHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAK  141 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~  141 (396)
                      +.+++.+|+|+|||+.+-
T Consensus        41 ~~~il~apTGsGKT~~a~   58 (202)
T d2p6ra3          41 KNLLLAMPTAAGKTLLAE   58 (202)
T ss_dssp             SCEEEECSSHHHHHHHHH
T ss_pred             CCEEEEcCCCCchhHHHH
Confidence            568999999999998763

>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=95.37  E-value=0.061  Score=47.89  Aligned_cols=35  Identities=26%  Similarity=0.287  Sum_probs=26.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEecc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVRIS  157 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~~~  157 (396)
                      ..-|-+.||||+|||||..+++..+     ..-++.++++
T Consensus        51 ~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDps   90 (323)
T d2qm8a1          51 AIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPS   90 (323)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGG
T ss_pred             ceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeeecccc
Confidence            3457899999999999999998753     2345556653

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=95.28  E-value=0.0041  Score=51.24  Aligned_cols=30  Identities=27%  Similarity=0.350  Sum_probs=25.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFI  152 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~  152 (396)
                      |.-|.|.|+.|+||||+++.|++.++...+
T Consensus         9 p~~I~ieG~~GsGKTTl~~~L~~~l~~~~~   38 (197)
T d2vp4a1           9 PFTVLIEGNIGSGKTTYLNHFEKYKNDICL   38 (197)
T ss_dssp             CEEEEEECSTTSCHHHHHHTTGGGTTTEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhCCcEE
Confidence            445788999999999999999998875444

>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=95.28  E-value=0.0047  Score=52.47  Aligned_cols=22  Identities=32%  Similarity=0.543  Sum_probs=19.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~  147 (396)
                      +++.|++|+|||||.+++.+.+
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~   24 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYL   24 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Confidence            6899999999999999998754

>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=95.28  E-value=0.004  Score=52.99  Aligned_cols=25  Identities=28%  Similarity=0.432  Sum_probs=21.3

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ...-+-|.||+|||||||.+.++.-
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCcchhhHhccCC
Confidence            3456889999999999999999864

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.19  E-value=0.0054  Score=51.01  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=20.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      +.|+|.|+||+|||+|..++..
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~   22 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLT   22 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHc
Confidence            4699999999999999999987

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=95.13  E-value=0.0056  Score=48.51  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=20.3

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|+|.|.||||||+|.+++...
T Consensus         6 ~kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           6 MRILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHhCC
Confidence            34899999999999999999773

>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=95.09  E-value=0.004  Score=51.89  Aligned_cols=25  Identities=40%  Similarity=0.464  Sum_probs=21.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+.|.||.|+||||+.+.++...
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCChHHHHHHHHhccc
Confidence            4557899999999999999998754

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.07  E-value=0.006  Score=47.96  Aligned_cols=21  Identities=29%  Similarity=0.520  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~  146 (396)
                      ++|.|+||+|||+|+..+...
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            799999999999999999873

>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=95.06  E-value=0.02  Score=49.39  Aligned_cols=23  Identities=26%  Similarity=0.427  Sum_probs=20.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      +-.|+|.|.||+|||++..+|..
T Consensus        32 ~l~I~LvG~tg~GKSSliN~ilg   54 (257)
T d1h65a_          32 SLTILVMGKGGVGKSSTVNSIIG   54 (257)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCcHHHHHHHHhC
Confidence            46799999999999999999976

>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=95.04  E-value=0.0056  Score=52.31  Aligned_cols=22  Identities=36%  Similarity=0.646  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~  147 (396)
                      +.|.||+||||||+.+.++.-.
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            5588999999999999999854

>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=95.02  E-value=0.0065  Score=51.92  Aligned_cols=26  Identities=35%  Similarity=0.469  Sum_probs=22.0

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +..-+-|.||+||||||+.+.++.-.
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCC
Confidence            34568899999999999999998744

>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=95.01  E-value=0.0054  Score=52.50  Aligned_cols=24  Identities=38%  Similarity=0.526  Sum_probs=21.1

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..-+-|.||+||||||+++.++.-
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCChHHHHHHHHhcC
Confidence            456889999999999999999874

>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=94.93  E-value=0.0051  Score=52.63  Aligned_cols=25  Identities=20%  Similarity=0.286  Sum_probs=21.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+-|.||+||||||+++.++.-.
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCc
Confidence            4568899999999999999998744

>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=94.93  E-value=0.0053  Score=53.13  Aligned_cols=26  Identities=35%  Similarity=0.479  Sum_probs=22.3

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHH
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      .+...+.|.||+|||||||++.++.-
T Consensus        39 ~~Ge~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          39 PAGKTVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             CTTCEEEEEECTTSSHHHHHHHHTTT
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcc
Confidence            34567899999999999999999863

>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=94.89  E-value=0.0071  Score=48.74  Aligned_cols=21  Identities=24%  Similarity=0.487  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~  146 (396)
                      |++.|++|||||+|+.++...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            789999999999999998763

>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=94.87  E-value=0.014  Score=48.82  Aligned_cols=31  Identities=19%  Similarity=0.242  Sum_probs=24.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc---CCcEEEEe
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKES---GAVFINVR  155 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~---~~~~~~i~  155 (396)
                      -|.|.|+.|+||||+++.+++.+   |.+++.+.
T Consensus         5 lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~~   38 (209)
T d1nn5a_           5 LIVLEGVDRAGKSTQSRKLVEALCAAGHRAELLR   38 (209)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            35667999999999999998865   66666554

>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=94.85  E-value=0.019  Score=47.43  Aligned_cols=32  Identities=19%  Similarity=0.362  Sum_probs=25.8

Q ss_pred             EEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044          126 VLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      |.|.|+.||||||+++.+++.+   |.+++.+..+
T Consensus         3 I~ieG~dGsGKST~~~~L~~~l~~~g~~v~~~~~P   37 (208)
T d1gsia_           3 IAIEGVDGAGKRTLVEKLSGAFRAAGRSVATLAFP   37 (208)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEecC
Confidence            6788999999999999999865   6666666543

>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=94.83  E-value=0.0058  Score=51.86  Aligned_cols=25  Identities=32%  Similarity=0.527  Sum_probs=21.7

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+.|.||+||||||+.+.++.-.
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCc
Confidence            4558899999999999999999854

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.80  E-value=0.011  Score=50.22  Aligned_cols=30  Identities=17%  Similarity=0.258  Sum_probs=26.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcCCcEE
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESGAVFI  152 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~~~~~  152 (396)
                      |+-|.|.|+-||||||+++.++..++...+
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~l~~~~i   31 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKTYPEWHV   31 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCTTSEE
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHhhcCC
Confidence            677899999999999999999999865444

>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=94.78  E-value=0.0065  Score=52.15  Aligned_cols=25  Identities=24%  Similarity=0.538  Sum_probs=21.8

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHH
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~  145 (396)
                      .+..-+.|.||+|+||||+++.++.
T Consensus        26 ~~Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          26 QPNSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHH
Confidence            3456688999999999999999987

>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=94.75  E-value=0.0079  Score=52.89  Aligned_cols=17  Identities=29%  Similarity=0.432  Sum_probs=14.6

Q ss_pred             ceEEEECCCCCcHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLA  140 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la  140 (396)
                      .++++.|+||||||+++
T Consensus        15 ~~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             SEEEECCCTTSCHHHHH
T ss_pred             CCEEEEeeCCccHHHHH
Confidence            56899999999999764

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=94.74  E-value=0.0072  Score=48.12  Aligned_cols=21  Identities=29%  Similarity=0.444  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      .|++.|++|+|||+|.+.+..
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            489999999999999999976

>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=94.74  E-value=0.0068  Score=52.31  Aligned_cols=27  Identities=30%  Similarity=0.477  Sum_probs=22.7

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .+..-+.|.||+|||||||++.++...
T Consensus        38 ~~Ge~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          38 RPGEVTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             CTTCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhccc
Confidence            345678999999999999999998743

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.71  E-value=0.0084  Score=47.76  Aligned_cols=21  Identities=19%  Similarity=0.373  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      -|+|.|+||+|||+|+..+..
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            389999999999999999886

>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=94.63  E-value=0.0081  Score=52.75  Aligned_cols=27  Identities=30%  Similarity=0.326  Sum_probs=22.9

Q ss_pred             CCCceEEEECCCCCcHHHHHHHHHHHc
Q 016044          121 GPQKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      .+..-+.|.||+|+||||+++.++..+
T Consensus        60 ~~Ge~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          60 EKGEMLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTSS
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCC
Confidence            445668899999999999999998844

>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=94.60  E-value=0.0054  Score=52.48  Aligned_cols=25  Identities=32%  Similarity=0.481  Sum_probs=21.7

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ...-+.|.||+||||||+++.++.-
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcC
Confidence            3456889999999999999999873

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.58  E-value=0.0096  Score=47.52  Aligned_cols=22  Identities=27%  Similarity=0.480  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~  146 (396)
                      -|+|.|++|+|||+|+.++...
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3899999999999999999873

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=94.56  E-value=0.0087  Score=50.95  Aligned_cols=29  Identities=24%  Similarity=0.377  Sum_probs=24.0

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCCcEEEEec
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGAVFINVRI  156 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~~~~~i~~  156 (396)
                      |-|+|+.||||||+|+.++...|.  ..+++
T Consensus         4 IgiTG~igSGKsTva~~l~e~~g~--~~i~~   32 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMSNYSA--VKYQL   32 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSCE--EECCT
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCC--eEEcc
Confidence            679999999999999999998774  34443

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.51  E-value=0.0099  Score=47.61  Aligned_cols=21  Identities=29%  Similarity=0.452  Sum_probs=19.3

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~  146 (396)
                      |++.|++|+|||+|+..+...
T Consensus         8 i~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHcC
Confidence            899999999999999999863

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=94.50  E-value=0.0067  Score=48.86  Aligned_cols=23  Identities=22%  Similarity=0.368  Sum_probs=20.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..-|+|.|++|+|||+|..++..
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            35699999999999999999854

>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=94.48  E-value=0.01  Score=47.33  Aligned_cols=20  Identities=25%  Similarity=0.506  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |+|.|.+|+|||+|++++..
T Consensus         7 ivlvG~~~vGKTsli~~~~~   26 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTE   26 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999986

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.47  E-value=0.01  Score=47.43  Aligned_cols=22  Identities=23%  Similarity=0.508  Sum_probs=19.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~  146 (396)
                      -|++.|++|+|||+|++.+...
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3799999999999999999873

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=94.45  E-value=0.011  Score=47.14  Aligned_cols=21  Identities=33%  Similarity=0.404  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      .|+|.|++|+|||+|...+..
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~   24 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIAS   24 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHc
Confidence            478999999999999999976

>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=94.44  E-value=0.0089  Score=47.98  Aligned_cols=23  Identities=22%  Similarity=0.358  Sum_probs=20.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|++.|.||+|||+|+.++...
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            56999999999999999999763

>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=94.42  E-value=0.011  Score=49.18  Aligned_cols=24  Identities=25%  Similarity=0.393  Sum_probs=21.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +-|.|.|+.||||||+++.++..+
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            457888999999999999999865

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=94.39  E-value=0.011  Score=47.48  Aligned_cols=21  Identities=38%  Similarity=0.645  Sum_probs=19.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      .|.+.|+||+|||+|++++..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999974

>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=94.38  E-value=0.0095  Score=51.56  Aligned_cols=25  Identities=20%  Similarity=0.367  Sum_probs=21.4

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      +..-+-|.||+||||||++++++.-
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHcC
Confidence            3456889999999999999999863

>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=94.37  E-value=0.012  Score=51.79  Aligned_cols=18  Identities=28%  Similarity=0.394  Sum_probs=15.4

Q ss_pred             CCCceEEEECCCCCcHHH
Q 016044          121 GPQKGVLLYGPPGTGKTM  138 (396)
Q Consensus       121 ~~~~~vLL~GppGtGKT~  138 (396)
                      ...+.+++.+|+|+|||+
T Consensus         7 ~~~~~~lv~~~TGsGKT~   24 (305)
T d2bmfa2           7 RKKRLTIMDLHPGAGKTK   24 (305)
T ss_dssp             STTCEEEECCCTTSSTTT
T ss_pred             hcCCcEEEEECCCCCHHH
Confidence            345789999999999995

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.35  E-value=0.011  Score=48.15  Aligned_cols=20  Identities=30%  Similarity=0.463  Sum_probs=18.7

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |++.|++|+|||+|++.+.+
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            88999999999999999975

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.35  E-value=0.01  Score=47.60  Aligned_cols=20  Identities=35%  Similarity=0.692  Sum_probs=19.1

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      ++|.|++|+|||+|++.+..
T Consensus         8 i~lvG~~~vGKTsLi~~l~~   27 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQ   27 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999999987

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.31  E-value=0.012  Score=47.45  Aligned_cols=21  Identities=33%  Similarity=0.572  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      -+++.|++|+|||+|+..+..
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            389999999999999999876

>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=94.29  E-value=0.014  Score=48.03  Aligned_cols=23  Identities=26%  Similarity=0.595  Sum_probs=20.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..|+|.|+||+|||+|..++...
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999999874

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.25  E-value=0.011  Score=47.33  Aligned_cols=21  Identities=24%  Similarity=0.444  Sum_probs=19.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      -|+|.|.+|||||+|++.+..
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~   27 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQ   27 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            389999999999999999876

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.23  E-value=0.013  Score=46.79  Aligned_cols=20  Identities=35%  Similarity=0.418  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |+|.|.+|||||+|+..+..
T Consensus         6 ivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            79999999999999999886

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=94.22  E-value=0.029  Score=43.54  Aligned_cols=30  Identities=20%  Similarity=0.368  Sum_probs=21.9

Q ss_pred             EEECCCCCcHHH-HHHHHH--HHcCCcEEEEec
Q 016044          127 LLYGPPGTGKTM-LAKAIA--KESGAVFINVRI  156 (396)
Q Consensus       127 LL~GppGtGKT~-la~ala--~~~~~~~~~i~~  156 (396)
                      +++||-.+|||+ |.+.+.  ...|..++.+++
T Consensus         6 ~i~GpMfsGKTteLi~~~~~~~~~~~kv~~ikp   38 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRRLHRLEYADVKYLVFKP   38 (139)
T ss_dssp             EEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEE
T ss_pred             EEEccccCHHHHHHHHHHHHHHHCCCcEEEEEE
Confidence            789999999998 666653  345767666665

>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=94.18  E-value=0.025  Score=47.28  Aligned_cols=33  Identities=24%  Similarity=0.217  Sum_probs=27.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEec
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRI  156 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~  156 (396)
                      +-|.|.|+-||||||+++.++..+......+..
T Consensus         4 k~I~iEG~DGsGKST~~~~L~~~L~~~~~~~~~   36 (214)
T d1tmka_           4 KLILIEGLDRTGKTTQCNILYKKLQPNCKLLKF   36 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHTTTSEEEEES
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHhCCEEEEE
Confidence            457889999999999999999998766655543

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.17  E-value=0.013  Score=46.88  Aligned_cols=21  Identities=29%  Similarity=0.463  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      -|++.|.+|+|||+|+..+..
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~   28 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            379999999999999999986

>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=94.17  E-value=0.012  Score=51.68  Aligned_cols=36  Identities=11%  Similarity=0.229  Sum_probs=25.5

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc---CCcEEEEeccccc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKES---GAVFINVRISNLM  160 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~~l~  160 (396)
                      -|-+.|++|+||||+++++.+.+   +.....+...++.
T Consensus         6 IIgIaG~SGSGKTTva~~l~~i~~~~~v~~~iI~~Dsfy   44 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIEGDAFH   44 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHHHHTCCEEEEEGGGGB
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhhcCCCeEEEeCCCCC
Confidence            47799999999999999998755   5566667766654

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.14  E-value=0.014  Score=46.90  Aligned_cols=20  Identities=35%  Similarity=0.606  Sum_probs=18.7

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |++.|++|+|||+|+..+..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            78999999999999999876

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.10  E-value=0.014  Score=47.40  Aligned_cols=20  Identities=35%  Similarity=0.615  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |++.|.+|||||+|+..+.+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            79999999999999999987

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.05  E-value=0.014  Score=46.72  Aligned_cols=20  Identities=35%  Similarity=0.610  Sum_probs=18.6

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |++.|.+|+|||+|+..+..
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            78999999999999999876

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.04  E-value=0.015  Score=46.17  Aligned_cols=20  Identities=25%  Similarity=0.469  Sum_probs=19.0

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |++.|++|+|||+|+..+..
T Consensus         5 v~liG~~~vGKTsLl~~~~~   24 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCA   24 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999999986

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.02  E-value=0.013  Score=46.60  Aligned_cols=20  Identities=35%  Similarity=0.609  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |++.|++|+|||+|+++++.
T Consensus         5 i~vvG~~~vGKTSli~~l~~   24 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVE   24 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999987

>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=94.02  E-value=0.015  Score=51.56  Aligned_cols=22  Identities=32%  Similarity=0.433  Sum_probs=16.6

Q ss_pred             ceEEEECCCCCcHHHHH-HHHHH
Q 016044          124 KGVLLYGPPGTGKTMLA-KAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la-~ala~  145 (396)
                      .++++.|+||||||+++ ..++.
T Consensus        25 g~~lV~g~aGSGKTt~l~~ri~~   47 (318)
T d1pjra1          25 GPLLIMAGAGSGKTRVLTHRIAY   47 (318)
T ss_dssp             SCEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCEEEEecCCccHHHHHHHHHHH
Confidence            45899999999999655 44443

>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=93.94  E-value=0.014  Score=46.88  Aligned_cols=21  Identities=24%  Similarity=0.442  Sum_probs=19.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      -|++.|.+|+|||+|++.+..
T Consensus         8 Kv~lvG~~~vGKTsLi~r~~~   28 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALTIQFIQ   28 (173)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            489999999999999999886

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.90  E-value=0.014  Score=46.44  Aligned_cols=22  Identities=18%  Similarity=0.362  Sum_probs=19.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      .-|+|.|++|+|||+|+..+..
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            4589999999999999999876

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.77  E-value=0.016  Score=46.00  Aligned_cols=20  Identities=25%  Similarity=0.396  Sum_probs=18.8

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |++.|.+|+|||+|++++..
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999999986

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.77  E-value=0.018  Score=45.89  Aligned_cols=21  Identities=29%  Similarity=0.439  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      -|+|.|.+|+|||+|++.+..
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            388999999999999999986

>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=93.77  E-value=0.017  Score=46.10  Aligned_cols=20  Identities=40%  Similarity=0.584  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |++.|++|+|||++++.+..
T Consensus         9 i~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999999877

>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=93.76  E-value=0.014  Score=46.88  Aligned_cols=22  Identities=41%  Similarity=0.543  Sum_probs=19.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      --|++.|+||+|||+|+.++..
T Consensus        17 ~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          17 VRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4589999999999999999865

>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=93.72  E-value=0.016  Score=46.48  Aligned_cols=20  Identities=35%  Similarity=0.589  Sum_probs=18.8

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |++.|.+|+|||+++..+..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999999876

>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=93.72  E-value=0.018  Score=45.85  Aligned_cols=22  Identities=23%  Similarity=0.477  Sum_probs=19.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~  146 (396)
                      -|++.|.+|+|||+|++.+...
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3899999999999999999873

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=93.72  E-value=0.014  Score=47.13  Aligned_cols=21  Identities=19%  Similarity=0.392  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      .|+|.|+||+|||+|..++..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999975

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.69  E-value=0.018  Score=46.12  Aligned_cols=21  Identities=33%  Similarity=0.523  Sum_probs=19.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      -|++.|++|+|||+++..+..
T Consensus         8 KI~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHh
Confidence            389999999999999998876

>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=93.68  E-value=0.015  Score=46.39  Aligned_cols=20  Identities=50%  Similarity=0.863  Sum_probs=18.5

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |++.|++|+|||+|++.+..
T Consensus         4 i~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhC
Confidence            78999999999999999865

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.64  E-value=0.019  Score=46.28  Aligned_cols=21  Identities=29%  Similarity=0.529  Sum_probs=19.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      -|++.|.+|+|||+|++++..
T Consensus         9 Ki~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1           9 KILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            389999999999999999986

>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=93.63  E-value=0.019  Score=45.86  Aligned_cols=22  Identities=27%  Similarity=0.463  Sum_probs=19.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      .-|++.|.+|+|||+|++.+..
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            3589999999999999999876

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.61  E-value=0.017  Score=46.47  Aligned_cols=23  Identities=30%  Similarity=0.408  Sum_probs=20.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      .-|++.|++|+|||+|+..+...
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCcCHHHHHHHHHhC
Confidence            34889999999999999998873

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=93.56  E-value=0.032  Score=46.91  Aligned_cols=26  Identities=31%  Similarity=0.285  Sum_probs=21.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      +..+|.|++|+|||+|..++..+...
T Consensus        96 kt~~~~G~SGVGKSTLiN~L~~~~~~  121 (225)
T d1u0la2          96 KISTMAGLSGVGKSSLLNAINPGLKL  121 (225)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTCCC
T ss_pred             CeEEEECCCCCCHHHHHHhhcchhhh
Confidence            56789999999999999999765443

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.39  E-value=0.022  Score=45.42  Aligned_cols=21  Identities=19%  Similarity=0.393  Sum_probs=19.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      -|++.|.+|+|||+|+..+..
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~   25 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVS   25 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            378999999999999999876

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.33  E-value=0.022  Score=45.70  Aligned_cols=20  Identities=45%  Similarity=0.674  Sum_probs=18.6

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |+|.|.+|+|||+|+..+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            89999999999999999875

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.32  E-value=0.023  Score=45.35  Aligned_cols=21  Identities=24%  Similarity=0.433  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      -|++.|.+|||||+++..+..
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~   26 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQ   26 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999999987

>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=93.31  E-value=0.016  Score=49.47  Aligned_cols=26  Identities=38%  Similarity=0.345  Sum_probs=22.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      ..-+-|.||.|+||||+.++++....
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl~~   57 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGLVR   57 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCC
Confidence            45578999999999999999987553

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.29  E-value=0.023  Score=45.99  Aligned_cols=22  Identities=23%  Similarity=0.309  Sum_probs=19.7

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~  146 (396)
                      -|++.|.+|+|||+|++.+...
T Consensus         7 KivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4899999999999999998873

>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=93.28  E-value=0.014  Score=49.42  Aligned_cols=27  Identities=15%  Similarity=0.220  Sum_probs=23.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAV  150 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~  150 (396)
                      +-|.|.|+-||||||+++.|++.+...
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~~l~~~   29 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQLCEDW   29 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGGGCTTE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhcC
Confidence            458899999999999999999987543

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.21  E-value=0.021  Score=46.73  Aligned_cols=20  Identities=35%  Similarity=0.582  Sum_probs=18.8

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |++.|++|+|||+|+..+..
T Consensus         9 ivvvG~~~vGKTsli~~l~~   28 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSD   28 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHhh
Confidence            88999999999999999886

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.11  E-value=0.023  Score=45.92  Aligned_cols=21  Identities=33%  Similarity=0.493  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      -|+|.|.+|+|||+|++.+..
T Consensus         4 KivliG~~~vGKTsli~r~~~   24 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAK   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            379999999999999999987

>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=93.06  E-value=0.015  Score=46.72  Aligned_cols=22  Identities=23%  Similarity=0.354  Sum_probs=19.9

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      -.|++.|+||+|||++.+++..
T Consensus        13 ~kIvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          13 MRILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEEEETTSSHHHHHHHTTC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4599999999999999999975

>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=93.02  E-value=0.021  Score=46.71  Aligned_cols=21  Identities=19%  Similarity=0.401  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      .|.|.|+||+|||||.+++.+
T Consensus        25 ~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          25 EIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHhcC
Confidence            489999999999999999974

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=93.00  E-value=0.036  Score=51.26  Aligned_cols=34  Identities=29%  Similarity=0.504  Sum_probs=27.2

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEec
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRI  156 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~  156 (396)
                      .+++++.|++|+|||++++.+...   .|.+++.+|.
T Consensus        50 ~~H~~I~G~tGsGKT~~l~~li~~~~~~g~~~iiiD~   86 (433)
T d1e9ra_          50 PRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIVDP   86 (433)
T ss_dssp             GGCEEEEECTTSSHHHHHHHHHHHHHHTTCEEEEEEE
T ss_pred             cceEEEEeCCCCcHHHHHHHHHHHHHhCCCCEEEEeC
Confidence            478999999999999998876543   4677777775

>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=92.95  E-value=0.025  Score=45.87  Aligned_cols=20  Identities=30%  Similarity=0.396  Sum_probs=18.8

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |++.|.+|+|||+|+..+..
T Consensus        12 i~lvG~~~vGKTsLi~r~~~   31 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAN   31 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhh
Confidence            78999999999999999886

>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=92.94  E-value=0.016  Score=46.57  Aligned_cols=20  Identities=35%  Similarity=0.557  Sum_probs=8.6

Q ss_pred             EEEECCCCCcHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~  145 (396)
                      |++.|.+|||||+|+.++..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            88999999999999998875

>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=92.77  E-value=0.022  Score=49.12  Aligned_cols=25  Identities=32%  Similarity=0.481  Sum_probs=21.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-+-|.||.|+|||||++.++...
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCCC
Confidence            4557899999999999999998754

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.70  E-value=0.028  Score=45.80  Aligned_cols=22  Identities=23%  Similarity=0.309  Sum_probs=19.4

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~  146 (396)
                      -|++.|++|+|||+|+..+...
T Consensus         5 KvvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3789999999999999998763

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=92.69  E-value=0.026  Score=45.47  Aligned_cols=23  Identities=26%  Similarity=0.442  Sum_probs=20.0

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      .--|++.|++|+|||+|.+.+..
T Consensus        17 ~~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          17 ELRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCC
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc
Confidence            45699999999999999998854

>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=92.61  E-value=0.065  Score=46.45  Aligned_cols=36  Identities=25%  Similarity=0.253  Sum_probs=29.4

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      .|+-+++.|.=|+||||++-++|..+   |..+.-+++.
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD~D   45 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVSTD   45 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEeCC
Confidence            47788999999999999999888754   7777777764

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.60  E-value=0.015  Score=46.63  Aligned_cols=21  Identities=38%  Similarity=0.507  Sum_probs=18.1

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      -|++.|++|+|||+|+.++..
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~   25 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLT   25 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC-
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            388999999999999998865

>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=92.46  E-value=0.023  Score=48.17  Aligned_cols=23  Identities=35%  Similarity=0.512  Sum_probs=20.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..-+-|.||.|+||||+.+.++.
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCcHHHHHHHHhC
Confidence            45578999999999999999986

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=92.37  E-value=0.03  Score=44.77  Aligned_cols=21  Identities=24%  Similarity=0.422  Sum_probs=19.3

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      .|.|.|.||+|||+|..++.+
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            478999999999999999975

>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=92.12  E-value=0.082  Score=43.36  Aligned_cols=27  Identities=22%  Similarity=0.295  Sum_probs=19.8

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAV  150 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~  150 (396)
                      +++++.-|+|+|||..+..........
T Consensus        41 ~~vlv~apTGsGKT~~~~~~~~~~~~~   67 (206)
T d1oywa2          41 RDCLVVMPTGGGKSLCYQIPALLLNGL   67 (206)
T ss_dssp             CCEEEECSCHHHHHHHHHHHHHHSSSE
T ss_pred             CCEEEEcCCCCCCcchhhhhhhhccCc
Confidence            579999999999998875544443333

>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=91.91  E-value=0.031  Score=45.13  Aligned_cols=21  Identities=33%  Similarity=0.490  Sum_probs=18.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      .|-|.|+||+|||+|..++..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            378999999999999999854

>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=91.85  E-value=0.015  Score=45.84  Aligned_cols=21  Identities=29%  Similarity=0.616  Sum_probs=19.4

Q ss_pred             EEEECCCCCcHHHHHHHHHHH
Q 016044          126 VLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~  146 (396)
                      |.|.|.||+|||+|+.++..+
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999999864

>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=91.80  E-value=0.19  Score=41.86  Aligned_cols=23  Identities=43%  Similarity=0.498  Sum_probs=19.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~  147 (396)
                      -.++.|..|+||||+.+.+.+..
T Consensus         5 v~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEEeeCCCCCHHHHHHHHHhcC
Confidence            36889999999999999998753

>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=91.75  E-value=0.045  Score=44.06  Aligned_cols=23  Identities=35%  Similarity=0.505  Sum_probs=20.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|.|.|.+|+|||+|+.++...
T Consensus         9 ~kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           9 IKVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
Confidence            45899999999999999999763

>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=91.60  E-value=0.044  Score=44.54  Aligned_cols=20  Identities=30%  Similarity=0.541  Sum_probs=18.1

Q ss_pred             eEEEECCCCCcHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIA  144 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala  144 (396)
                      -|+|.|.+|+|||+++..+.
T Consensus         4 KivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            38999999999999999983

>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=91.47  E-value=0.025  Score=45.40  Aligned_cols=22  Identities=18%  Similarity=0.294  Sum_probs=19.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~  145 (396)
                      ..|.|.|.||+|||+|.+++..
T Consensus        17 ~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          17 IEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             EEEEEEECTTSSHHHHHTTTCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhC
Confidence            5599999999999999999854

>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=91.46  E-value=0.035  Score=44.62  Aligned_cols=21  Identities=38%  Similarity=0.550  Sum_probs=18.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      .|.|.|.||+|||+|..++..
T Consensus         3 ~VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            388999999999999999964

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.27  E-value=0.06  Score=43.21  Aligned_cols=23  Identities=17%  Similarity=0.219  Sum_probs=20.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      -.|++.|++|+|||+|+..+...
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            45899999999999999998773

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=91.23  E-value=0.091  Score=43.11  Aligned_cols=33  Identities=21%  Similarity=0.258  Sum_probs=26.4

Q ss_pred             ceEEEECC-CCCcHHHHHHHHHHHc---CCcEEEEec
Q 016044          124 KGVLLYGP-PGTGKTMLAKAIAKES---GAVFINVRI  156 (396)
Q Consensus       124 ~~vLL~Gp-pGtGKT~la~ala~~~---~~~~~~i~~  156 (396)
                      +.++++|- +|+|||+++-.+|..+   |..+..++.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id~   38 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYKP   38 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEECS
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEECc
Confidence            46889999 5999999999998754   777777664

>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=91.06  E-value=0.016  Score=47.17  Aligned_cols=23  Identities=26%  Similarity=0.254  Sum_probs=20.1

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcC
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~  148 (396)
                      .+|+||.|+|||++..||.--++
T Consensus        27 tvi~G~NGsGKStil~Ai~~~L~   49 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFVTALI   49 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            57899999999999999987653

>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=90.40  E-value=0.066  Score=44.70  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=20.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~  146 (396)
                      .-|+|.|+.|+|||++++.+...
T Consensus         7 ~KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            45899999999999999998653

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=90.35  E-value=0.056  Score=48.28  Aligned_cols=25  Identities=24%  Similarity=0.381  Sum_probs=22.1

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      .-|.|-|+-|+||||+++.+++.++
T Consensus         7 ~rI~iEG~iGsGKSTl~~~L~~~l~   31 (333)
T d1p6xa_           7 VRIYLDGVYGIGKSTTGRVMASAAS   31 (333)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHSGGG
T ss_pred             EEEEEECCccCCHHHHHHHHHHHhc
Confidence            3478899999999999999999874

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=90.18  E-value=0.17  Score=40.46  Aligned_cols=21  Identities=29%  Similarity=0.526  Sum_probs=19.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      +|-+.|.|++|||||..++..
T Consensus         7 nIaiiG~~naGKSTL~n~L~~   27 (179)
T d1wb1a4           7 NLGIFGHIDHGKTTLSKVLTE   27 (179)
T ss_dssp             EEEEEECTTSSHHHHHHHHHT
T ss_pred             EEEEEeCCCCcHHHHHHHHHH
Confidence            588999999999999999974

>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=89.95  E-value=0.036  Score=46.73  Aligned_cols=24  Identities=38%  Similarity=0.542  Sum_probs=19.4

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      +..+|.|++|+|||+|..++..+.
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             ceEEEECCCCccHHHHHHhhccHh
Confidence            556788999999999999997543

>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=89.93  E-value=0.31  Score=40.84  Aligned_cols=35  Identities=23%  Similarity=0.114  Sum_probs=25.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEecc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRIS  157 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~~  157 (396)
                      +...||+|.+|+|||.++-..+..   .|...+.+-+.
T Consensus        76 ~~~~LL~GdvGsGKT~V~~~a~~~~~~~g~qv~~l~Pt  113 (233)
T d2eyqa3          76 AMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPT  113 (233)
T ss_dssp             CCEEEEECCCCTTTHHHHHHHHHHHHTTTCEEEEECSS
T ss_pred             ccCeEEEcCCCCCcHHHHHHHHHHHHHcCCceEEEccH
Confidence            567899999999999888665543   35555555543

>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=89.78  E-value=0.083  Score=42.62  Aligned_cols=22  Identities=27%  Similarity=0.403  Sum_probs=19.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~  146 (396)
                      -|++.|..|+|||++++.+...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999999764

>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=89.72  E-value=0.081  Score=43.92  Aligned_cols=57  Identities=19%  Similarity=0.227  Sum_probs=35.5

Q ss_pred             CCCCcccccccChHHHHHHHHHHHHccccChhhhhcC--CCCCCCceEEEECCCCCcHHHHH
Q 016044           81 DHIDVEFESIGGLETIKQALYELVILPLRRPELFSHG--KLLGPQKGVLLYGPPGTGKTMLA  140 (396)
Q Consensus        81 ~~~~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~--~~~~~~~~vLL~GppGtGKT~la  140 (396)
                      +.+-.+|++++-.+++.+.|.+.-..   ++-..+..  ..+-..+.+++..|+|||||...
T Consensus         6 ~~~~~sF~~l~l~~~l~~~L~~~g~~---~pt~iQ~~aip~il~g~dvl~~a~TGsGKT~a~   64 (212)
T d1qdea_           6 DKVVYKFDDMELDENLLRGVFGYGFE---EPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTF   64 (212)
T ss_dssp             CCCCCCGGGGTCCHHHHHHHHHHTCC---SCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHH
T ss_pred             cccccChhhCCCCHHHHHHHHHCCCC---CCCHHHHHHHHHHHcCCCEEeecccccchhhhh
Confidence            34457899998888888888764321   11111110  00112467999999999999644

>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=89.33  E-value=0.075  Score=44.36  Aligned_cols=54  Identities=19%  Similarity=0.220  Sum_probs=34.2

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhcC--CCCCCCceEEEECCCCCcHHHHH
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSHG--KLLGPQKGVLLYGPPGTGKTMLA  140 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~--~~~~~~~~vLL~GppGtGKT~la  140 (396)
                      -.+|+++.-.+.+.+.|.+.-.   .+|-..+..  ...-..+.+++..|+|||||...
T Consensus        11 i~sF~~l~L~~~l~~~L~~~g~---~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTlay   66 (218)
T d2g9na1          11 VDSFDDMNLSESLLRGIYAYGF---EKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATF   66 (218)
T ss_dssp             CCCGGGSCCCHHHHHHHHHHTC---CSCCHHHHHHHHHHHHTCCEEEECCTTSSHHHHH
T ss_pred             cCCHHHCCCCHHHHHHHHHCCC---CCCCHHHHHHHHHHHcCCCEEEEcccchhhhhhh
Confidence            3589999888888888876421   122111110  00112367999999999999654

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=89.03  E-value=0.2  Score=40.42  Aligned_cols=33  Identities=30%  Similarity=0.451  Sum_probs=22.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHH----HcCCcEEEEec
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAK----ESGAVFINVRI  156 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~----~~~~~~~~i~~  156 (396)
                      +++++++|+|+|||.++-.++.    ..+...+.+-+
T Consensus        24 ~n~lv~~pTGsGKT~i~~~~~~~~~~~~~~~il~i~P   60 (200)
T d1wp9a1          24 TNCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAP   60 (200)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECS
T ss_pred             CCeEEEeCCCCcHHHHHHHHHHHHHHhcCCcEEEEcC
Confidence            4588999999999986655543    33444555443

>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=88.78  E-value=0.12  Score=44.83  Aligned_cols=25  Identities=40%  Similarity=0.587  Sum_probs=21.5

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ..-++|.|++|+|||+++..+++..
T Consensus        43 GQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          43 GQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             TCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CCeeeEeCCCCCCHHHHHHHHHHHH
Confidence            4569999999999999999998743

>d1t5la1 c.37.1.19 (A:2-414) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

Probab=88.17  E-value=2.3  Score=38.52  Aligned_cols=57  Identities=21%  Similarity=0.274  Sum_probs=42.7

Q ss_pred             cccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHHHcCCcEEEEeccc
Q 016044           87 FESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAKESGAVFINVRISN  158 (396)
Q Consensus        87 ~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~~  158 (396)
                      |.-=|-+..+++.|.+-+.          .+     .+..+|.|-+|+|||.++.++++..+.+.+.+..+.
T Consensus        10 ~~p~gDQP~aI~~l~~~l~----------~g-----~~~q~l~GltGS~ka~~iA~l~~~~~rp~LVVt~n~   66 (413)
T d1t5la1          10 YEPQGDQPQAIAKLVDGLR----------RG-----VKHQTLLGATGTGKTFTISNVIAQVNKPTLVIAHNK   66 (413)
T ss_dssp             SCCCTTHHHHHHHHHHHHH----------HT-----CSEEEEEECTTSCHHHHHHHHHHHHTCCEEEECSSH
T ss_pred             CCCCCCCHHHHHHHHHHHh----------cC-----CCcEEEeCCCCcHHHHHHHHHHHHhCCCEEEEeCCH
Confidence            4444566677777755442          11     366899999999999999999999999998887644

>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=88.14  E-value=0.28  Score=41.91  Aligned_cols=34  Identities=32%  Similarity=0.314  Sum_probs=26.6

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      +-+++.|.=|+||||++-.+|..+   |..++.+++.
T Consensus        21 ~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD~D   57 (279)
T d1ihua2          21 GLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTTSD   57 (279)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEeCC
Confidence            456778999999999987776643   7778877775

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=87.84  E-value=0.1  Score=46.54  Aligned_cols=24  Identities=29%  Similarity=0.361  Sum_probs=21.6

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCC
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      |.|-|+-|+||||+++.+++.++.
T Consensus         8 I~IEG~iGsGKSTl~~~L~~~l~~   31 (331)
T d1osna_           8 IYLDGAYGIGKTTAAEEFLHHFAI   31 (331)
T ss_dssp             EEEEESSSSCTTHHHHHHHHTTTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhh
Confidence            778899999999999999998753

>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=87.79  E-value=0.097  Score=45.63  Aligned_cols=24  Identities=33%  Similarity=0.482  Sum_probs=20.2

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHcC
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      --+|+||.|+|||++..|++--++
T Consensus        26 lnvlvG~NgsGKS~iL~Ai~~~lg   49 (308)
T d1e69a_          26 VTAIVGPNGSGKSNIIDAIKWVFG   49 (308)
T ss_dssp             EEEEECCTTTCSTHHHHHHHHTSC
T ss_pred             eEEEECCCCCcHHHHHHHHHHHhC
Confidence            358999999999999999976443

>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=87.69  E-value=0.14  Score=41.02  Aligned_cols=21  Identities=29%  Similarity=0.498  Sum_probs=18.9

Q ss_pred             eEEEECCCCCcHHHHHHHHHH
Q 016044          125 GVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~  145 (396)
                      -|+|.|..|+|||++++.+..
T Consensus         4 KivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhh
Confidence            389999999999999998865

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=87.27  E-value=0.18  Score=43.38  Aligned_cols=24  Identities=38%  Similarity=0.594  Sum_probs=21.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES  147 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~  147 (396)
                      ++|.+.|..|+|||||+.++....
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~   26 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKT   26 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHc
Confidence            689999999999999999996543

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.00  E-value=0.67  Score=34.31  Aligned_cols=34  Identities=12%  Similarity=0.099  Sum_probs=25.5

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEecc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVRIS  157 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~~~  157 (396)
                      -.|+|.|-+|+||+++|+++...+     +.++--++..
T Consensus         7 f~i~~tg~~~~gk~~ia~al~~~l~q~~G~R~vtll~~~   45 (122)
T d1g8fa3           7 FSIVLGNSLTVSREQLSIALLSTFLQFGGGRYYKIFEHN   45 (122)
T ss_dssp             EEEEECTTCCSCHHHHHHHHHHHHTTSCSCCCEEECCCT
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHHHHhcCCcceEEecCC
Confidence            458999999999999999997654     3444445544

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=86.92  E-value=0.1  Score=46.40  Aligned_cols=23  Identities=30%  Similarity=0.498  Sum_probs=18.9

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcC
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~  148 (396)
                      |.|-|+-|+||||+++.+++.++
T Consensus         7 I~IEG~iGsGKTTl~~~La~~l~   29 (329)
T d1e2ka_           7 VYIDGPHGMGKTTTTQLLVALGS   29 (329)
T ss_dssp             EEECSCTTSSHHHHHHHHTC---
T ss_pred             EEEECCcCCCHHHHHHHHHHHhC
Confidence            77889999999999999988764

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=86.56  E-value=0.2  Score=43.22  Aligned_cols=25  Identities=20%  Similarity=0.236  Sum_probs=22.0

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcC
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESG  148 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~  148 (396)
                      ++|-+.|..|+|||||+.++....|
T Consensus         7 Rni~i~gh~~~GKTtL~e~ll~~~g   31 (276)
T d2bv3a2           7 RNIGIAAHIDAGKTTTTERILYYTG   31 (276)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhcC
Confidence            7899999999999999999976443

>d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {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: Tandem AAA-ATPase domain
domain: Helicase of the SNF2/Rad54 hamily
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=86.01  E-value=0.36  Score=40.05  Aligned_cols=41  Identities=20%  Similarity=0.295  Sum_probs=27.4

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHHc-----CCcEEEEecccccchh
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKES-----GAVFINVRISNLMSKW  163 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~~-----~~~~~~i~~~~l~~~~  163 (396)
                      +.|.+|.=++|+|||..+-+++..+     ..+++.+....+...|
T Consensus        31 ~~g~iLaDe~GlGKT~~~i~~~~~~~~~~~~~~~LIv~p~~l~~~W   76 (230)
T d1z63a1          31 GFGICLADDMGLGKTLQTIAVFSDAKKENELTPSLVICPLSVLKNW   76 (230)
T ss_dssp             TCCEEECCCTTSCHHHHHHHHHHHHHHTTCCSSEEEEECSTTHHHH
T ss_pred             CCCEEEEeCCCCChHHHHHHhhhhhhhcccccccceecchhhhhHH
Confidence            3578888899999999887776643     1345555555554443

>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=85.96  E-value=0.27  Score=44.44  Aligned_cols=24  Identities=33%  Similarity=0.556  Sum_probs=20.7

Q ss_pred             EEEECCCCCcHHHHHHHHHHHcCC
Q 016044          126 VLLYGPPGTGKTMLAKAIAKESGA  149 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~~~~~  149 (396)
                      -+|+||.|+|||++..||+--+|.
T Consensus        28 ~~i~G~NGsGKS~ileAi~~~lg~   51 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAISFVLGV   51 (427)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            489999999999999999866654

>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=85.71  E-value=0.13  Score=42.30  Aligned_cols=59  Identities=15%  Similarity=0.128  Sum_probs=34.3

Q ss_pred             cccccccChHHHHHHHHHHHHc-cccC-hhhhhcCCCCCCCceEEEECCCCCcHHHHHHHHHH
Q 016044           85 VEFESIGGLETIKQALYELVIL-PLRR-PELFSHGKLLGPQKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~-~l~~-~~~~~~~~~~~~~~~vLL~GppGtGKT~la~ala~  145 (396)
                      .+|++++-.+++.+.|.+.-.. |..- ...+...  +.....+++..|+|+|||+..-....
T Consensus         4 msf~~l~l~~~l~~~l~~~g~~~pt~iQ~~~ip~~--l~g~~d~iv~a~TGsGKT~~~~l~~~   64 (208)
T d1hv8a1           4 MNFNELNLSDNILNAIRNKGFEKPTDIQMKVIPLF--LNDEYNIVAQARTGSGKTASFAIPLI   64 (208)
T ss_dssp             CCGGGSSCCHHHHHHHHHHTCCSCCHHHHHHHHHH--HHTCSEEEEECCSSSSHHHHHHHHHH
T ss_pred             cCHHHcCCCHHHHHHHHHCCCCCCCHHHHHHHHHH--HcCCCCeeeechhcccccceeecccc
Confidence            3788887777788877664211 1000 0111110  11135799999999999987755443

>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=85.69  E-value=0.36  Score=40.99  Aligned_cols=33  Identities=24%  Similarity=0.438  Sum_probs=26.8

Q ss_pred             eEEEECCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      -|-++|.=|+||||++-.+|..+   |..+.-+|+.
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D   38 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCD   38 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEEC
T ss_pred             EEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEEecC
Confidence            46678999999999999887754   7778888774

>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=85.57  E-value=0.15  Score=41.94  Aligned_cols=52  Identities=19%  Similarity=0.128  Sum_probs=30.9

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhc--CCCCCCCceEEEECCCCCcHHHHH
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSH--GKLLGPQKGVLLYGPPGTGKTMLA  140 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~--~~~~~~~~~vLL~GppGtGKT~la  140 (396)
                      +|+|++-.+++.+.|.+.-   ..+|-..+.  ...+-..+.+++..|+|||||+..
T Consensus         2 ~F~dl~L~~~l~~~l~~~g---~~~pt~iQ~~aip~il~g~dvl~~A~TGsGKTla~   55 (207)
T d1t6na_           2 GFRDFLLKPELLRAIVDCG---FEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVF   55 (207)
T ss_dssp             CSTTSCCCHHHHHHHHHTT---CCCCCHHHHHHHHHHHTTCCEEEECCTTSCHHHHH
T ss_pred             CccccCcCHHHHHHHHHCC---CCCCCHHHHHHHHHHHcCCCeEEEecccccccccc
Confidence            5788877777888776541   111111111  000112478999999999998543

>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=84.77  E-value=0.28  Score=40.97  Aligned_cols=34  Identities=21%  Similarity=0.226  Sum_probs=22.6

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH---cCCcEEEEec
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRI  156 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~  156 (396)
                      .+.+++.+|+|+|||+.+-..+-.   -|...+.+-+
T Consensus        58 g~~~~i~apTGsGKT~~~~~~~~~~~~~~~rvliv~P   94 (237)
T d1gkub1          58 KESFAATAPTGVGKTSFGLAMSLFLALKGKRCYVIFP   94 (237)
T ss_dssp             TCCEECCCCBTSCSHHHHHHHHHHHHTTSCCEEEEES
T ss_pred             CCCEEEEecCCChHHHHHHHHHHHHHHhcCeEEEEec
Confidence            367999999999999766544432   2444555444

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=84.16  E-value=0.17  Score=44.39  Aligned_cols=18  Identities=39%  Similarity=0.684  Sum_probs=15.1

Q ss_pred             ceEEEECCCCCcHHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLAK  141 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~  141 (396)
                      ...||+|.+|||||||..
T Consensus        15 ~valffGLSGTGKTTLs~   32 (318)
T d1j3ba1          15 DVAVFFGLSGTGKTTLST   32 (318)
T ss_dssp             CEEEEEECTTSCHHHHTC
T ss_pred             CEEEEEccCCCCcccccc
Confidence            346999999999999764

>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=84.14  E-value=1.4  Score=33.16  Aligned_cols=31  Identities=13%  Similarity=0.160  Sum_probs=21.0

Q ss_pred             EEEECCCCCcHHHHHHHHHH---HcCCcEEEEec
Q 016044          126 VLLYGPPGTGKTMLAKAIAK---ESGAVFINVRI  156 (396)
Q Consensus       126 vLL~GppGtGKT~la~ala~---~~~~~~~~i~~  156 (396)
                      -+++||-.+|||+-.-..++   ..|..++.+++
T Consensus         5 ~li~GpMfsGKTt~Li~~~~~~~~~g~~v~~ikp   38 (133)
T d1xbta1           5 QVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKY   38 (133)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTCCEEEEEE
T ss_pred             EEEEecccCHHHHHHHHHHHHHHHcCCcEEEEec
Confidence            37889999999976555443   23556666554

>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=83.98  E-value=0.15  Score=41.78  Aligned_cols=51  Identities=20%  Similarity=0.235  Sum_probs=30.4

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhc--CCCCCCCceEEEECCCCCcHHHH
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSH--GKLLGPQKGVLLYGPPGTGKTML  139 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~--~~~~~~~~~vLL~GppGtGKT~l  139 (396)
                      +|+++.-.+.+.+.|.+.-.   .+|-..+.  ...+-..+.+++.+|+|+|||+.
T Consensus         2 sF~~l~L~~~l~~~L~~~g~---~~pt~iQ~~aip~il~g~dvi~~a~tGsGKTla   54 (206)
T d1s2ma1           2 TFEDFYLKRELLMGIFEAGF---EKPSPIQEEAIPVAITGRDILARAKNGTGKTAA   54 (206)
T ss_dssp             CGGGGCCCHHHHHHHHHTTC---CSCCHHHHHHHHHHHHTCCEEEECCTTSCHHHH
T ss_pred             ChHHcCCCHHHHHHHHHCCC---CCCCHHHHHHHHHHHcCCCEEEecCCcchhhhh
Confidence            68888878888888876411   11111110  00011136799999999999944

>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=83.83  E-value=0.29  Score=40.73  Aligned_cols=53  Identities=23%  Similarity=0.369  Sum_probs=33.9

Q ss_pred             CcccccccChHHHHHHHHHHHHccccChhhhhc--CCCCCCCceEEEECCCCCcHHHH
Q 016044           84 DVEFESIGGLETIKQALYELVILPLRRPELFSH--GKLLGPQKGVLLYGPPGTGKTML  139 (396)
Q Consensus        84 ~~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~--~~~~~~~~~vLL~GppGtGKT~l  139 (396)
                      ..+|++++-.+.+.+.|.+.-.   ..|-..+.  ...+-..+.+++..|+|||||..
T Consensus        16 ~~sF~~l~L~~~l~~~L~~~g~---~~pt~IQ~~aIp~il~g~dvi~~a~TGSGKTla   70 (222)
T d2j0sa1          16 TPTFDTMGLREDLLRGIYAYGF---EKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTAT   70 (222)
T ss_dssp             CCSGGGGCCCHHHHHHHHHHTC---CSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHH
T ss_pred             CCCHHHCCCCHHHHHHHHHCCC---CCCCHHHHHHHHHHHCCCCeEEEcCcchhhhhh
Confidence            4589999888889998887521   11111111  00011247899999999999953

>d1c4oa1 c.37.1.19 (A:2-409) Nucleotide excision repair enzyme UvrB {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: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Thermus thermophilus [TaxId: 274]

Probab=83.66  E-value=8.8  Score=34.32  Aligned_cols=34  Identities=26%  Similarity=0.337  Sum_probs=30.2

Q ss_pred             ceEEEECCCCCcHHHHHHHHHHHcCCcEEEEecc
Q 016044          124 KGVLLYGPPGTGKTMLAKAIAKESGAVFINVRIS  157 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la~ala~~~~~~~~~i~~~  157 (396)
                      +.++|.|.+|+||+.++.+++...+.+++.+..+
T Consensus        29 ~~~~L~GlsgS~ka~~~A~l~~~~~rp~LvVt~~   62 (408)
T d1c4oa1          29 RFVTLLGATGTGKTVTMAKVIEALGRPALVLAPN   62 (408)
T ss_dssp             SEEEEEECTTSCHHHHHHHHHHHHTCCEEEEESS
T ss_pred             CcEEEecCCCCHHHHHHHHHHHHhCCCEEEEeCC
Confidence            5589999999999999999999999998887654

>d1f9va_ c.37.1.9 (A:) Kinesin motor Ncd (non-claret disjunctional) {Baker's yeast (Saccharomyces cerevisiae), Kar [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin motor Ncd (non-claret disjunctional)
species: Baker's yeast (Saccharomyces cerevisiae), Kar [TaxId: 4932]

Probab=83.57  E-value=0.58  Score=41.47  Aligned_cols=45  Identities=24%  Similarity=0.377  Sum_probs=28.7

Q ss_pred             cccccccC----hHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHH
Q 016044           85 VEFESIGG----LETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLA  140 (396)
Q Consensus        85 ~~~~~i~G----~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la  140 (396)
                      .+||.+.+    ++++-+.+...+.      ..+. |    ....++-||.+|+|||+..
T Consensus        52 f~FD~vf~~~~~q~~vy~~v~~~v~------~~l~-G----~n~~i~aYGqtgSGKT~T~  100 (342)
T d1f9va_          52 FKFDKIFDQQDTNVDVFKEVGQLVQ------SSLD-G----YNVCIFAYGQTGSGKTFTM  100 (342)
T ss_dssp             EEESEEECTTCCHHHHHHHHHHHHG------GGGG-T----CCEEEEEECCTTSSHHHHH
T ss_pred             eecCeEeCCCCCHHHHHHHhhhhhc------chhc-c----cccceeeeeccCCcccccc
Confidence            56777776    5555555543332      2332 2    2456888999999999776

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=83.55  E-value=0.28  Score=44.73  Aligned_cols=23  Identities=22%  Similarity=0.390  Sum_probs=20.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      +-.|.+.|.||+|||++..++..
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            56799999999999999999964

>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=83.48  E-value=6.2  Score=30.24  Aligned_cols=69  Identities=13%  Similarity=0.155  Sum_probs=38.5

Q ss_pred             HHHHHHHHHH----hCCcEEEEccccccccCCCCCchHHHHhhHHHHHHHhhccCcCCCCcEEEEEecCCCCCCcHHHHh
Q 016044          171 VAAVFSLAYK----LQPAIIFIDEVDSFLGQRRTSDHEALTNMKTEFMALWDGFTTDQNARVMVLAATNRPSELDEAILR  246 (396)
Q Consensus       171 ~~~~f~~a~~----~~p~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~  246 (396)
                      ....+..++.    ....+|++||+.....-.--..        .+++..++.    .+..+=+|.|...   .++.+..
T Consensus        79 a~~~~~~a~~~~~~~~~dllILDEi~~Ai~~gli~~--------~~v~~ll~~----rp~~~evVlTGr~---~p~~L~e  143 (157)
T d1g5ta_          79 CMAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPL--------EEVISALNA----RPGHQTVIITGRG---CHRDILD  143 (157)
T ss_dssp             HHHHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCH--------HHHHHHHHT----SCTTCEEEEECSS---CCHHHHH
T ss_pred             HHHHHHHHHHHhhcCccCEEeHHHHHHHHHcCCCCH--------HHHHHHHHh----CCCCCEEEEECCC---CCHHHHH
Confidence            3444554443    2468999999987643322111        144444443    2455677777663   4567777


Q ss_pred             ccCCceEe
Q 016044          247 RLPQAFEI  254 (396)
Q Consensus       247 R~~~~i~~  254 (396)
                      +.|.+-++
T Consensus       144 ~ADlVTEm  151 (157)
T d1g5ta_         144 LADTVSEL  151 (157)
T ss_dssp             HCSEEEEC
T ss_pred             hcceeeee
Confidence            76655544

>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=83.36  E-value=0.3  Score=41.98  Aligned_cols=24  Identities=29%  Similarity=0.499  Sum_probs=20.9

Q ss_pred             CceEEEECCCCCcHHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      ..-+++.|++|+|||+++..++..
T Consensus        68 GQr~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          68 GGKIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEeeCCCCCCHHHHHHHHHHH
Confidence            345999999999999999999865

>d1bg2a_ c.37.1.9 (A:) Kinesin {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: Motor proteins
domain: Kinesin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.29  E-value=0.19  Score=44.44  Aligned_cols=18  Identities=28%  Similarity=0.512  Sum_probs=15.7

Q ss_pred             CceEEEECCCCCcHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLA  140 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la  140 (396)
                      ...++-||++|+|||+..
T Consensus        76 n~~i~aYGqtgSGKTyT~   93 (323)
T d1bg2a_          76 NGTIFAYGQTSSGKTHTM   93 (323)
T ss_dssp             CEEEEEECSTTSSHHHHH
T ss_pred             CcceeeecccCCCCceec
Confidence            467889999999999875

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Probable DEAD box RNA helicase YqfR
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=82.98  E-value=0.11  Score=42.77  Aligned_cols=51  Identities=20%  Similarity=0.137  Sum_probs=29.2

Q ss_pred             ccccccChHHHHHHHHHHHHccccChhhhhcC--CCCCCCceEEEECCCCCcHHHH
Q 016044           86 EFESIGGLETIKQALYELVILPLRRPELFSHG--KLLGPQKGVLLYGPPGTGKTML  139 (396)
Q Consensus        86 ~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~--~~~~~~~~vLL~GppGtGKT~l  139 (396)
                      +|++++-.+.+.+.|.+.-   ..+|-..+..  ..+-..+.+++..|+|||||+.
T Consensus         2 ~F~~l~L~~~l~~~l~~~g---~~~pt~iQ~~aip~~l~G~dvii~a~TGSGKTla   54 (209)
T d1q0ua_           2 QFTRFPFQPFIIEAIKTLR---FYKPTEIQERIIPGALRGESMVGQSQTGTGKTHA   54 (209)
T ss_dssp             CGGGSCCCHHHHHHHHHTT---CCSCCHHHHHHHHHHHHTCCEEEECCSSHHHHHH
T ss_pred             ccccCCcCHHHHHHHHHCC---CCCCCHHHHHHHHHHHCCCCeEeeccccccccee
Confidence            5777777777777776532   1111111110  0001136799999999999974

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=82.69  E-value=0.25  Score=43.18  Aligned_cols=17  Identities=41%  Similarity=0.722  Sum_probs=14.7

Q ss_pred             ceEEEECCCCCcHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLA  140 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la  140 (396)
                      .--||+|.+|||||||.
T Consensus        15 ~~alfFGLSGTGKTTLs   31 (313)
T d2olra1          15 DVAVFFGLSGTGKTTLS   31 (313)
T ss_dssp             CEEEEECSTTSSHHHHH
T ss_pred             CEEEEEccCCCCcccce
Confidence            34689999999999976

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=82.63  E-value=0.32  Score=39.80  Aligned_cols=23  Identities=30%  Similarity=0.291  Sum_probs=20.3

Q ss_pred             CceEEEECCCCCcHHHHHHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLAKAIAK  145 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la~ala~  145 (396)
                      +-+|.+.|-+++|||||+.++..
T Consensus         3 ~ini~iiGhvd~GKSTL~~~Ll~   25 (204)
T d2c78a3           3 HVNVGTIGHVDHGKTTLTAALTY   25 (204)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEEeCCCCcHHHHHHHHHH
Confidence            45789999999999999999964

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=81.61  E-value=1.7  Score=36.91  Aligned_cols=25  Identities=32%  Similarity=0.503  Sum_probs=21.5

Q ss_pred             CCceEEEECCCCCcHHHHHHHHHHH
Q 016044          122 PQKGVLLYGPPGTGKTMLAKAIAKE  146 (396)
Q Consensus       122 ~~~~vLL~GppGtGKT~la~ala~~  146 (396)
                      .+-.+++.|-|.+|||+++.++...
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~  135 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKK  135 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CceEEEEEecCccchhhhhhhhhcc
Confidence            3455899999999999999999874

>d1ry6a_ c.37.1.9 (A:) Kinesin {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Malaria parasite (Plasmodium falciparum) [TaxId: 5833]

Probab=81.35  E-value=0.23  Score=44.05  Aligned_cols=52  Identities=25%  Similarity=0.337  Sum_probs=28.5

Q ss_pred             cccccccChHHHHHHHHHHHHccccChhhhhcCCCCCCCceEEEECCCCCcHHHHHH
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRPELFSHGKLLGPQKGVLLYGPPGTGKTMLAK  141 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~  141 (396)
                      .+||.+.+.+..-+++.+.+..|+-. +.+..|.    ...|+-||.+|+|||+...
T Consensus        52 F~fD~Vf~~~~~q~~vy~~~~~plv~-~~~~~G~----n~~i~aYGqTGSGKTyTm~  103 (330)
T d1ry6a_          52 FIVDKVFDDTVDNFTVYENTIKPLII-DLYENGC----VCSCFAYGQTGSGKTYTML  103 (330)
T ss_dssp             EECSEEECTTCCHHHHHHHHTHHHHH-HHHHHCC----EEEEEEECCTTSSHHHHHH
T ss_pred             EeCCeecCCCCCHHHHHHHHHHHHHH-HHHhcCC----CeEEEeeeccccccceeee
Confidence            45666665443333333332222211 3343332    3568889999999998753

>d1goja_ c.37.1.9 (A:) Kinesin {Neurospora crassa [TaxId: 5141]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Kinesin
species: Neurospora crassa [TaxId: 5141]

Probab=81.21  E-value=0.25  Score=44.30  Aligned_cols=18  Identities=33%  Similarity=0.617  Sum_probs=15.2

Q ss_pred             CceEEEECCCCCcHHHHH
Q 016044          123 QKGVLLYGPPGTGKTMLA  140 (396)
Q Consensus       123 ~~~vLL~GppGtGKT~la  140 (396)
                      ...++-||++|+|||...
T Consensus        80 n~ti~aYG~tgSGKT~Tm   97 (354)
T d1goja_          80 NGTVFAYGQTGAGKSYTM   97 (354)
T ss_dssp             CEEEEEECSTTSSHHHHH
T ss_pred             ceeEEecccCCCCcceee
Confidence            456889999999999764

>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=81.01  E-value=0.72  Score=39.51  Aligned_cols=33  Identities=21%  Similarity=0.377  Sum_probs=25.6

Q ss_pred             eEEEECCCCCcHHHHHHHHHHH---cCCcEEEEecc
Q 016044          125 GVLLYGPPGTGKTMLAKAIAKE---SGAVFINVRIS  157 (396)
Q Consensus       125 ~vLL~GppGtGKT~la~ala~~---~~~~~~~i~~~  157 (396)
                      -|.++|.=|+||||++-.+|..   .|..+.-+|+.
T Consensus         4 ~IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID~D   39 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVGCD   39 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEecC
Confidence            4567899999999988877663   47788888874

>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=81.00  E-value=0.82  Score=37.38  Aligned_cols=32  Identities=25%  Similarity=0.326  Sum_probs=24.5

Q ss_pred             EEEE-CCCCCcHHHHHHHHHHHc---CCcEEEEecc
Q 016044          126 VLLY-GPPGTGKTMLAKAIAKES---GAVFINVRIS  157 (396)
Q Consensus       126 vLL~-GppGtGKT~la~ala~~~---~~~~~~i~~~  157 (396)
                      |.++ |..|+||||++..+|..+   |..+..+++.
T Consensus         4 Iav~s~KGGvGKTtia~nlA~~la~~g~~VlliD~D   39 (232)
T d1hyqa_           4 ITVASGKGGTGKTTITANLGVALAQLGHDVTIVDAD   39 (232)
T ss_dssp             EEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             EEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEeCC
Confidence            4444 888999999999987744   6777777764

>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=80.81  E-value=0.18  Score=41.46  Aligned_cols=52  Identities=19%  Similarity=0.234  Sum_probs=31.1

Q ss_pred             cccccccChHHHHHHHHHHHHccccChhhhhc--CCCCCCCceEEEECCCCCcHHHH
Q 016044           85 VEFESIGGLETIKQALYELVILPLRRPELFSH--GKLLGPQKGVLLYGPPGTGKTML  139 (396)
Q Consensus        85 ~~~~~i~G~~~~k~~l~~~v~~~l~~~~~~~~--~~~~~~~~~vLL~GppGtGKT~l  139 (396)
                      .+|+++.-.+++.+.|.+.-.   ..|-..+.  ...+-..+.+++..|+|||||+.
T Consensus         3 ~~F~~l~L~~~l~~~l~~~g~---~~pt~iQ~~aip~il~g~dvl~~a~TGsGKTla   56 (206)
T d1veca_           3 NEFEDYCLKRELLMGIFEMGW---EKPSPIQEESIPIALSGRDILARAKNGTGKSGA   56 (206)
T ss_dssp             SSGGGSCCCHHHHHHHHTTTC---CSCCHHHHHHHHHHHTTCCEEEECCSSSTTHHH
T ss_pred             CChhccCcCHHHHHHHHHCCC---CCCCHHHHHHHHHHHcCCCEEeeccCccccccc
Confidence            468888777888887766421   11111111  00011237899999999999954

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=80.73  E-value=0.32  Score=42.58  Aligned_cols=17  Identities=41%  Similarity=0.720  Sum_probs=14.8

Q ss_pred             ceEEEECCCCCcHHHHH
Q 016044          124 KGVLLYGPPGTGKTMLA  140 (396)
Q Consensus       124 ~~vLL~GppGtGKT~la  140 (396)
                      ...||+|-+|||||||.
T Consensus        15 d~alfFGLSGTGKTTLs   31 (323)
T d1ii2a1          15 DVTVFFGLSGTGKTTLS   31 (323)
T ss_dssp             CEEEEECCTTSSHHHHH
T ss_pred             CEEEEEccCCCCcccce
Confidence            34689999999999997